Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 79 of 120
Found at i:23189968 original size:19 final size:18
Alignment explanation
Indices: 23189936--23189975 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
23189926 ATACATAAAC
*
23189936 ATTAATATTCTCAACAACA
1 ATTAAAATTCTCAACAA-A
*
23189955 ATTAAAATTTTCAACAAA
1 ATTAAAATTCTCAACAAA
23189973 ATT
1 ATT
23189976 TCTTAGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (18 bp):
ATTAAAATTCTCAACAAA
Found at i:23191289 original size:23 final size:23
Alignment explanation
Indices: 23191256--23191336 Score: 94
Period size: 23 Copynumber: 3.5 Consensus size: 23
23191246 TAATGTTCAC
*
23191256 GAACATTTTCATTCAAC-TTAATT
1 GAACATGTTCA-TCAACATTAATT
*
23191279 GAACATGTTCA-CAAACATTAAAT
1 GAACATGTTCATC-AACATTAATT
*
23191302 GAACATGTTCATGAACATATAATT
1 GAACATGTTCATCAACAT-TAATT
23191326 GAACATGTTCA
1 GAACATGTTCA
23191337 CGAATAATGT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
21 1 0.02
22 3 0.06
23 31 0.62
24 15 0.30
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (23 bp):
GAACATGTTCATCAACATTAATT
Found at i:23204433 original size:20 final size:20
Alignment explanation
Indices: 23204405--23204444 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
23204395 TTCCTTTACC
23204405 AAAAAATAAAAATT-AAATT
1 AAAAAATAAAAATTGAAATT
*
23204424 AAAAATATAAACATTGAAATT
1 AAAAA-ATAAAAATTGAAATT
23204445 TTGGCAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 8 0.44
21 5 0.28
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (20 bp):
AAAAAATAAAAATTGAAATT
Found at i:23209552 original size:42 final size:42
Alignment explanation
Indices: 23209428--23209617 Score: 193
Period size: 42 Copynumber: 4.5 Consensus size: 42
23209418 TGATGTATAA
* * * * * *
23209428 AAAGAAAGACTCATGTCTTGGGTTGAGCATGAGAATTTG-TAT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATGAT-T
* * * * * * *
23209470 AAATGGAAGACTCGTGACTAGAAATAAGCATGAAAATATGATT
1 AAA-GGAAGACTCATGTCTCGAGATGAGAATGAGAATATGATT
*
23209513 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATGATT
* *
23209555 AAAGGAAGACTCGTGTCTCGGGATGAGAATGAGAATATGATT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATGATT
* *
23209597 AAAGGAAGACTTATGACTCGA
1 AAAGGAAGACTCATGTCTCGA
23209618 TAGAGTATAA
Statistics
Matches: 121, Mismatches: 25, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
42 90 0.74
43 30 0.25
44 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.26, T:0.25
Consensus pattern (42 bp):
AAAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATGATT
Found at i:23209594 original size:84 final size:85
Alignment explanation
Indices: 23209428--23209617 Score: 215
Period size: 84 Copynumber: 2.2 Consensus size: 85
23209418 TGATGTATAA
* * * * *
23209428 AAAGAAAGACTCATGTCTTGGGTTGAGCATGAGAATTTGTATAAATGGAAGACTCGTGACTAGAA
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGAATTTGTATAAATGGAAGACTCGTGACTAGAA
*
23209493 ATAAGCATGAAAATATGATT
66 ATAAGAATGAAAATATGATT
* *
23209513 AAAGGAAGACTCATGTCTCGAGATGAGAATGAG-ATTATG-ATTAAA-GGAAGACTCGTGTCTCG
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGAATT-TGTA-TAAATGGAAGACTCGTGACTAG
** * *
23209575 GGATGAGAATGAGAATATGATT
64 AAATAAGAATGAAAATATGATT
* *
23209597 AAAGGAAGACTTATGACTCGA
1 AAAGGAAGACTCATGTCTCGA
23209618 TAGAGTATAA
Statistics
Matches: 89, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
84 55 0.62
85 34 0.38
ACGTcount: A:0.39, C:0.10, G:0.26, T:0.25
Consensus pattern (85 bp):
AAAGGAAGACTCATGTCTCGAGATGAGAATGAGAATTTGTATAAATGGAAGACTCGTGACTAGAA
ATAAGAATGAAAATATGATT
Found at i:23216552 original size:42 final size:43
Alignment explanation
Indices: 23216503--23216616 Score: 169
Period size: 42 Copynumber: 2.7 Consensus size: 43
23216493 TGAGCATGAA
*
23216503 AATATGATAAAAGGAAGACTCATGTCTCGAG-ATGAGAATAAG
1 AATATGATTAAAGGAAGACTCATGTCTCGAGCATGAGAATAAG
* *
23216545 ATTATGATTAAAGGAAGACTCATGTCTCG-GCATGAGAATGAG
1 AATATGATTAAAGGAAGACTCATGTCTCGAGCATGAGAATAAG
* *
23216587 AATATGATTAAAGGAAGACTTATGACTCGA
1 AATATGATTAAAGGAAGACTCATGTCTCGA
23216617 TAGAGCGTAA
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.02
42 63 0.98
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.25
Consensus pattern (43 bp):
AATATGATTAAAGGAAGACTCATGTCTCGAGCATGAGAATAAG
Found at i:23218297 original size:78 final size:77
Alignment explanation
Indices: 23218209--23218620 Score: 528
Period size: 78 Copynumber: 5.3 Consensus size: 77
23218199 CGACAGGAAT
*
23218209 AAATCCTGAAACAAAATTATTTAATTAATTCTTGTTTGGAAACAAAAAATACAATAAATTCCATT
1 AAATCCTGAAACAAAATTATTTAATTAATTCTTGTTTGGAAACAAAAAATA-AATAAATTCTATT
*
23218274 GAATGGCAAGATC
65 GAACGGCAAGATC
* * * *
23218287 AAATCCTG-AA-AAAATTATTTAATTACTTATTGTGTGGAAACAAAAAAATAGAATAAATTCTTT
1 AAATCCTGAAACAAAATTATTTAATTAATTCTTGTTTGGAAAC-AAAAAATA-AATAAATTCTAT
*
23218350 TGAACGGCAGGATC
64 TGAACGGCAAGATC
* ** *
23218364 AAATCCCGAAACGGAATTATTTAATTAATTCTTGTTTGGAAACAGAAAATAGAATAAATTCTATT
1 AAATCCTGAAACAAAATTATTTAATTAATTCTTGTTTGGAAACAAAAAATA-AATAAATTCTATT
23218429 GAACGGCAAGATC
65 GAACGGCAAGATC
* * *
23218442 AAATCTTGAAACAAAATTATTTAATTAATTCTTGTTT-GAAA-AAAAAATAAATAAATTTTGTTG
1 AAATCCTGAAACAAAATTATTTAATTAATTCTTGTTTGGAAACAAAAAATAAATAAATTCTATTG
*
23218505 AACGGCAGGATC
66 AACGGCAAGATC
* * *
23218517 AAAT-CTCGAAACAAAATTATTTAATTAATTCTTGTTTAGAAACAAAATAATAAATAAATTATGT
1 AAATCCT-GAAACAAAATTATTTAATTAATTCTTGTTTGGAAACAAAA-AATAAATAAATTCTAT
*
23218581 TGAACGGTAAGATC
64 TGAACGGCAAGATC
* * * *
23218595 AAATTCTAAAACATAATTATTCAATT
1 AAATCCTGAAACAAAATTATTTAATT
23218621 TTAAAATCTA
Statistics
Matches: 294, Mismatches: 32, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
74 1 0.00
75 57 0.19
76 39 0.13
77 47 0.16
78 122 0.41
79 28 0.10
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (77 bp):
AAATCCTGAAACAAAATTATTTAATTAATTCTTGTTTGGAAACAAAAAATAAATAAATTCTATTG
AACGGCAAGATC
Found at i:23218573 original size:153 final size:155
Alignment explanation
Indices: 23218182--23218620 Score: 563
Period size: 153 Copynumber: 2.8 Consensus size: 155
23218172 AACAAAATCA
* * *
23218182 AAATCAATTTTGTTAAACGACAGGAAT-AAATCCTGAAACAAAATTATTTAATTAATTCTTGTTT
1 AAATAAATTTTGTTGAACGGCAGG-ATCAAATCC-GAAACAAAATTATTTAATTAATTCTTGTTT
* * *
23218246 GGAAACAAAAAATACAATAAATTCCATTGAATGGCAAGATCAAATCCTG-AA-AAAATTATTTAA
64 GGAAACAAAAAATACAATAAATTCTATTGAACGGCAAGATCAAATCTTGAAACAAAATTATTTAA
*
23218309 TTACTTATTGTGTGGAAACAAAAAAAT
129 TTAATTATTGTGTGGAAACAAAAAAAT
**
23218336 AGAATAAATTCTT-TTGAACGGCAGGATCAAATCCCGAAACGGAATTATTTAATTAATTCTTGTT
1 A-AATAAATT-TTGTTGAACGGCAGGATCAAAT-CCGAAACAAAATTATTTAATTAATTCTTGTT
* *
23218400 TGGAAACAGAAAATAGAATAAATTCTATTGAACGGCAAGATCAAATCTTGAAACAAAATTATTTA
63 TGGAAACAAAAAATACAATAAATTCTATTGAACGGCAAGATCAAATCTTGAAACAAAATTATTTA
* *
23218465 ATTAATTCTTGT-TTG-AA-AAAAAAAT
128 ATTAATTATTGTGTGGAAACAAAAAAAT
*
23218490 AAATAAATTTTGTTGAACGGCAGGATCAAATCTCGAAACAAAATTATTTAATTAATTCTTGTTTA
1 AAATAAATTTTGTTGAACGGCAGGATCAAATC-CGAAACAAAATTATTTAATTAATTCTTGTTTG
* * * * * *
23218555 GAAACAAAATAATA-AATAAATTATGTTGAACGGTAAGATCAAAT-TCTAAAACATAATTATTCA
65 GAAACAAAA-AATACAATAAATTCTATTGAACGGCAAGATCAAATCT-TGAAACAAAATTATTTA
23218618 ATT
128 ATT
23218621 TTAAAATCTA
Statistics
Matches: 252, Mismatches: 23, Indels: 21
0.85 0.08 0.07
Matches are distributed among these distances:
152 4 0.02
153 108 0.43
154 16 0.06
155 95 0.38
156 8 0.03
157 21 0.08
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (155 bp):
AAATAAATTTTGTTGAACGGCAGGATCAAATCCGAAACAAAATTATTTAATTAATTCTTGTTTGG
AAACAAAAAATACAATAAATTCTATTGAACGGCAAGATCAAATCTTGAAACAAAATTATTTAATT
AATTATTGTGTGGAAACAAAAAAAT
Found at i:23220587 original size:17 final size:17
Alignment explanation
Indices: 23220561--23220594 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23220551 GATTCTTATA
23220561 AAACACTTTAACATTTC
1 AAACACTTTAACATTTC
* *
23220578 AAACATTTTAGCATTTC
1 AAACACTTTAACATTTC
23220595 CTGGTAGGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (17 bp):
AAACACTTTAACATTTC
Found at i:23224771 original size:31 final size:31
Alignment explanation
Indices: 23224676--23224774 Score: 100
Period size: 31 Copynumber: 3.3 Consensus size: 31
23224666 TTAATATAAT
* *
23224676 ATTTGGTACCTGAACTTGATATTTTTTCTTA
1 ATTTGGTACCTGAACTTGATATTTATTCCTA
* * * *
23224707 CTTTGGTAACT-AAATT--TTTTTGA-TCC-A
1 ATTTGGTACCTGAACTTGATATTT-ATTCCTA
23224734 ATTTGGTACCTGAACTTGATATTTATTCCTA
1 ATTTGGTACCTGAACTTGATATTTATTCCTA
23224765 ATTTGGTACC
1 ATTTGGTACC
23224775 AAAATTTATT
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
27 10 0.19
28 10 0.19
29 1 0.02
30 11 0.21
31 20 0.38
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.47
Consensus pattern (31 bp):
ATTTGGTACCTGAACTTGATATTTATTCCTA
Found at i:23225988 original size:15 final size:15
Alignment explanation
Indices: 23225935--23225988 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
23225925 GTAATGCGAA
*
23225935 AATTTAAATTTTA-T
1 AATTTTAATTTTATT
**
23225949 AATTTTGAATACTATT
1 AATTTT-AATTTTATT
*
23225965 AAATTTAATTTTATT
1 AATTTTAATTTTATT
23225980 AATTTTAAT
1 AATTTTAAT
23225989 ATGTTTTTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
14 5 0.16
15 20 0.65
16 6 0.19
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (15 bp):
AATTTTAATTTTATT
Found at i:23230861 original size:48 final size:48
Alignment explanation
Indices: 23230809--23230922 Score: 133
Period size: 48 Copynumber: 2.4 Consensus size: 48
23230799 AGGAGAAGTG
* * * * *
23230809 TTGGATTTGGATATTG-TTACTAAGGTGACCG-GTTTTGATGGAGGTGTA
1 TTGGAGTTGGATACTGCTT-CTAAGGAGACCGAG-TTTAATGGAGGTATA
*
23230857 TTGGAGTTGGATACTGCTTCTAAGGAGACCGAGTTTAATGGAGGTATG
1 TTGGAGTTGGATACTGCTTCTAAGGAGACCGAGTTTAATGGAGGTATA
*
23230905 TTGGAGTTGGATAATGCT
1 TTGGAGTTGGATACTGCT
23230923 ATCGCATGTT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
48 54 0.95
49 3 0.05
ACGTcount: A:0.23, C:0.08, G:0.33, T:0.36
Consensus pattern (48 bp):
TTGGAGTTGGATACTGCTTCTAAGGAGACCGAGTTTAATGGAGGTATA
Found at i:23235896 original size:28 final size:28
Alignment explanation
Indices: 23235854--23235907 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
23235844 GGGTGTCTGG
* **
23235854 TCACTTTGGCTCTTATGTTTTTTTTGCC
1 TCACTTTGGCCCTTAACTTTTTTTTGCC
23235882 TCACTTTGGCCCTTAACTTTTTTTTG
1 TCACTTTGGCCCTTAACTTTTTTTTG
23235908 TCAAATTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.09, C:0.22, G:0.13, T:0.56
Consensus pattern (28 bp):
TCACTTTGGCCCTTAACTTTTTTTTGCC
Found at i:23236105 original size:12 final size:13
Alignment explanation
Indices: 23236088--23236121 Score: 54
Period size: 11 Copynumber: 2.8 Consensus size: 13
23236078 ATTTTTTTAA
23236088 ATATTTTAAAATT
1 ATATTTTAAAATT
23236101 A-A-TTTAAAATT
1 ATATTTTAAAATT
23236112 ATATTTTAAA
1 ATATTTTAAA
23236122 TATAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 10 0.53
12 2 0.11
13 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATTTTAAAATT
Found at i:23236203 original size:7 final size:6
Alignment explanation
Indices: 23236177--23236221 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
23236167 TTTGCTCTCT
* * *
23236177 TTCCCC TTCCCC TTCCCC TTCCCCC TTCCTC TTCTCC TTCTCC TT
1 TTCCCC TTCCCC TTCCCC TT-CCCC TTCCCC TTCCCC TTCCCC TT
23236222 TTCCATCCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (6 bp):
TTCCCC
Found at i:23236203 original size:13 final size:13
Alignment explanation
Indices: 23236177--23236210 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
23236167 TTTGCTCTCT
23236177 TTCCCCTT-CCCC
1 TTCCCCTTCCCCC
23236189 TTCCCCTTCCCCC
1 TTCCCCTTCCCCC
*
23236202 TTCCTCTTC
1 TTCCCCTTC
23236211 TCCTTCTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (13 bp):
TTCCCCTTCCCCC
Found at i:23236203 original size:19 final size:19
Alignment explanation
Indices: 23236179--23236216 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
23236169 TGCTCTCTTT
23236179 CCCCTTCCCCTTCCCCTTC
1 CCCCTTCCCCTTCCCCTTC
* *
23236198 CCCCTTCCTCTTCTCCTTC
1 CCCCTTCCCCTTCCCCTTC
23236217 TCCTTTTCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (19 bp):
CCCCTTCCCCTTCCCCTTC
Found at i:23236949 original size:15 final size:15
Alignment explanation
Indices: 23236922--23236960 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
23236912 AAATTTATCC
*
23236922 AGAA-AAGGCAAATA
1 AGAAGAAGGAAAATA
23236936 AGAAGAAGGAAAATA
1 AGAAGAAGGAAAATA
23236951 AGAAG-AGGAA
1 AGAAGAAGGAA
23236961 GGAGAATAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.64, C:0.03, G:0.28, T:0.05
Consensus pattern (15 bp):
AGAAGAAGGAAAATA
Found at i:23237856 original size:24 final size:24
Alignment explanation
Indices: 23237820--23237865 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
23237810 ATGGTTATGA
23237820 TAAAAAATCTTA-TATAATAAATCC
1 TAAAAAATCTTATTATAA-AAATCC
*
23237844 TAAAAAATTTTATTATAAAAAT
1 TAAAAAATCTTATTATAAAAAT
23237866 AAATTTGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (24 bp):
TAAAAAATCTTATTATAAAAATCC
Found at i:23243246 original size:15 final size:15
Alignment explanation
Indices: 23243222--23243251 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23243212 TAAATTATTA
23243222 GAAAAACCAAAATTC
1 GAAAAACCAAAATTC
*
23243237 GAAAATCCAAAATTC
1 GAAAAACCAAAATTC
23243252 CCATCCAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.20, G:0.07, T:0.17
Consensus pattern (15 bp):
GAAAAACCAAAATTC
Found at i:23248153 original size:29 final size:28
Alignment explanation
Indices: 23248121--23248464 Score: 145
Period size: 29 Copynumber: 11.7 Consensus size: 28
23248111 TCGGGCATTT
23248121 AGGGGCAAAATGGTAA-TTTTGAAAGTGTC
1 AGGGGCAAAATGG-AATTTTTGAAAGT-TC
* *
23248150 AGGGTCAAAAATGGAATTTTTGGAAGTTC
1 AGGGGC-AAAATGGAATTTTTGAAAGTTC
* ** *
23248179 AAGGGCAAAAATGTG-ATTTTTGGGAGTTT
1 AGGGGC-AAAATG-GAATTTTTGAAAGTTC
* * ** *
23248208 TGAGGTCAAAAATGGAATTTTTGGGAGTTT
1 AG-GGGC-AAAATGGAATTTTTGAAAGTTC
*
23248238 AGGGTCAAAAATGGAATTTTT-AGAAGTTC
1 AGGGGC-AAAATGGAATTTTTGA-AAGTTC
** * *
23248267 GAGGGTAAAAATGTAATTTTTGAAAGTTT
1 -AGGGGCAAAATGGAATTTTTGAAAGTTC
* ** *
23248296 TGGGGTCAAAAATGGAATTTTTGGGAGTTT
1 AGGGG-C-AAAATGGAATTTTTGAAAGTTC
* * *
23248326 AGGGTCAAAAATGGAATTTTTGGAAGTTTT
1 AGGGGC-AAAATGGAATTTTTGAAAG-TTC
* * * *
23248356 AGGGTCATAAATGTACTTTTTGGAAGTTC
1 AGGGGCA-AAATGGAATTTTTGAAAGTTC
** * * *
23248385 AAGGGAAAAAATGTAATTTTTGGAAGTTT
1 -AGGGGCAAAATGGAATTTTTGAAAGTTC
* * * *
23248414 TGGGGTTAAAATGTAATTTTAGAGAAGTTC
1 AGGGG-CAAAATGGAATTTTTGA-AAGTTC
* **
23248444 GAGGGTCAAAATATAATTTTT
1 -AGGGGCAAAATGGAATTTTT
23248465 AGACAGTTTA
Statistics
Matches: 256, Mismatches: 43, Indels: 31
0.78 0.13 0.09
Matches are distributed among these distances:
28 6 0.02
29 130 0.51
30 117 0.46
31 3 0.01
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.35
Consensus pattern (28 bp):
AGGGGCAAAATGGAATTTTTGAAAGTTC
Found at i:23248227 original size:88 final size:88
Alignment explanation
Indices: 23248150--23248473 Score: 357
Period size: 88 Copynumber: 3.7 Consensus size: 88
23248140 TGAAAGTGTC
* **
23248150 AGGGTCAAAAATGGAATTTTTGGAAGTTCAAGGGCAAAAATGTGATTTTTGGGAGTTTTGAGGTC
1 AGGGTCAAAAATGGAATTTTTGGAAGTTCAAGGGCAAAAATGTAATTTTTGAAAGTTTTGAGGTC
23248215 AAAAATGGAATTTTTGGGAGTTT
66 AAAAATGGAATTTTTGGGAGTTT
* * * *
23248238 AGGGTCAAAAATGGAATTTTTAGAAGTTCGAGGGTAAAAATGTAATTTTTGAAAGTTTTGGGGTC
1 AGGGTCAAAAATGGAATTTTTGGAAGTTCAAGGGCAAAAATGTAATTTTTGAAAGTTTTGAGGTC
23248303 AAAAATGGAATTTTTGGGAGTTT
66 AAAAATGGAATTTTTGGGAGTTT
** * * * ** *
23248326 AGGGTCAAAAATGGAATTTTTGGAAGTTTTAGGGTCATAAATGTACTTTTTGGAAG-TTCAAGGG
1 AGGGTCAAAAATGGAATTTTTGGAAGTTCAAGGG-CAAAAATGTAATTTTTGAAAGTTTTGAGGT
* * *
23248390 AAAAAATGTAATTTTTGGAAGTTTT
65 CAAAAATGGAATTTTTGGGAG-TTT
* * * * * * *
23248415 GGGGT-TAAAATGTAATTTTAGAGAAGTTCGAGGGTC-AAAATATAATTTTTAGACAGTTT
1 AGGGTCAAAAATGGAATTTTTG-GAAGTTCAAGGG-CAAAAATGTAATTTTT-GAAAGTTT
23248474 AAGGACCTCC
Statistics
Matches: 199, Mismatches: 32, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
88 158 0.79
89 39 0.20
90 2 0.01
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.35
Consensus pattern (88 bp):
AGGGTCAAAAATGGAATTTTTGGAAGTTCAAGGGCAAAAATGTAATTTTTGAAAGTTTTGAGGTC
AAAAATGGAATTTTTGGGAGTTT
Found at i:23248455 original size:59 final size:59
Alignment explanation
Indices: 23248118--23248454 Score: 328
Period size: 59 Copynumber: 5.7 Consensus size: 59
23248108 TTTTCGGGCA
** *
23248118 TTTAGGGGCAAAATGGTAA-TTTTGAAAGTGTC-AGGGTCAAAAATGGAATTTTTGGAAGT
1 TTTAGGGTAAAAAT-GTAATTTTTGGAAGT-TCGAGGGTCAAAAATGGAATTTTTGGAAGT
** * * * * *
23248177 TCAAGGGCAAAAATGTGATTTTTGGGAGTTTTGA-GGTCAAAAATGGAATTTTTGGGAG-
1 TTTAGGGTAAAAATGTAATTTTTGGAAG-TTCGAGGGTCAAAAATGGAATTTTTGGAAGT
* * * *
23248235 TTTAGGGTCAAAAATGGAATTTTTAGAAGTTCGAGGGT-AAAAATGTAATTTTTGAAAGT
1 TTTAGGGT-AAAAATGTAATTTTTGGAAGTTCGAGGGTCAAAAATGGAATTTTTGGAAGT
* * * *
23248294 TTTGGGGTCAAAAATGGAATTTTTGGGAGTT-TAGGGTCAAAAATGGAATTTTTGGAAGT
1 TTTAGGGT-AAAAATGTAATTTTTGGAAGTTCGAGGGTCAAAAATGGAATTTTTGGAAGT
* * * * *
23248353 TTTAGGGTCATAAATGTACTTTTTGGAAGTTCAAGGG-AAAAAATGTAATTTTTGGAAGT
1 TTTAGGGT-AAAAATGTAATTTTTGGAAGTTCGAGGGTCAAAAATGGAATTTTTGGAAGT
* * *
23248412 TTTGGGGTTAAAATGTAATTTTAGAGAAGTTCGAGGGTCAAAA
1 TTTAGGGTAAAAATGTAATTTTTG-GAAGTTCGAGGGTCAAAA
23248455 TATAATTTTT
Statistics
Matches: 227, Mismatches: 41, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
58 46 0.20
59 171 0.75
60 10 0.04
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (59 bp):
TTTAGGGTAAAAATGTAATTTTTGGAAGTTCGAGGGTCAAAAATGGAATTTTTGGAAGT
Found at i:23248782 original size:33 final size:32
Alignment explanation
Indices: 23248742--23248810 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 32
23248732 TTACAGGGCC
* *
23248742 AAATTGAAATTAATT-AAAAGTATCAAAAGGACT
1 AAATTGAAA-CAATTAAAAAATA-CAAAAGGACT
*
23248775 AAATTGAAACAATTAAAAAATACGAAAGGACT
1 AAATTGAAACAATTAAAAAATACAAAAGGACT
23248807 AAAT
1 AAAT
23248811 GCATAAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.58, C:0.07, G:0.12, T:0.23
Consensus pattern (32 bp):
AAATTGAAACAATTAAAAAATACAAAAGGACT
Found at i:23248906 original size:38 final size:38
Alignment explanation
Indices: 23248859--23248936 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
23248849 GAGTGGGTTG
*
23248859 GGTCGGAGCGGGTCAGGTCATGGGTACTATGGCAAAAC
1 GGTCAGAGCGGGTCAGGTCATGGGTACTATGGCAAAAC
*
23248897 GGTCAGAGCGGGTCAGGTCATGGGTACTATGGTAAAAC
1 GGTCAGAGCGGGTCAGGTCATGGGTACTATGGCAAAAC
23248935 GG
1 GG
23248937 CGCCGTTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.17, G:0.40, T:0.19
Consensus pattern (38 bp):
GGTCAGAGCGGGTCAGGTCATGGGTACTATGGCAAAAC
Found at i:23254089 original size:29 final size:29
Alignment explanation
Indices: 23254059--23254315 Score: 236
Period size: 29 Copynumber: 8.8 Consensus size: 29
23254049 AAAATAGTAA
*
23254059 TTTTGAAAGTATCGGGGTCAAAAATGGAAT
1 TTTTGGAAGT-TCGGGGTCAAAAATGGAAT
* *
23254089 TTTTGGAAATTCGGGGGCAAAAATGTG-AT
1 TTTTGGAAGTTCGGGGTCAAAAATG-GAAT
* * *
23254118 TTTTGGGAGTTTTGAGGTCAAAAATGGAAT
1 TTTTGGAAG-TTCGGGGTCAAAAATGGAAT
* * * *
23254148 TTTTGGGAGTTCGAGGTTAAAAATAGAAT
1 TTTTGGAAGTTCGGGGTCAAAAATGGAAT
* **
23254177 TTTTGGAAGTTTGAGGG-CAAAAATATAA-
1 TTTTGGAAGTTCG-GGGTCAAAAATGGAAT
* *
23254205 TTTTGAAAGTTTGGGGT-AAAAATGGAAT
1 TTTTGGAAGTTCGGGGTCAAAAATGGAAT
*
23254233 TTTTGGAAGTTTTGGGGTCAAAAATGGAAT
1 TTTTGGAAG-TTCGGGGTCAAAAATGGAAT
* *
23254263 TTTTGGAAGTTTCAGGG-CAAAAATGTAAT
1 TTTTGGAAG-TTCGGGGTCAAAAATGGAAT
*
23254292 TTTAGAGAAGTTCGAGGGTCAAAA
1 TTTTG-GAAGTTCG-GGGTCAAAA
23254316 TATAATTTTT
Statistics
Matches: 191, Mismatches: 25, Indels: 21
0.81 0.11 0.09
Matches are distributed among these distances:
27 11 0.06
28 20 0.10
29 87 0.46
30 68 0.36
31 5 0.03
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.33
Consensus pattern (29 bp):
TTTTGGAAGTTCGGGGTCAAAAATGGAAT
Found at i:23254120 original size:58 final size:58
Alignment explanation
Indices: 23254012--23254315 Score: 201
Period size: 59 Copynumber: 5.2 Consensus size: 58
23254002 TACGAAAGAA
* * * * * * *
23254012 TCGGGATCAAAAATGCAATTTTCGGATATTCAGAGG-TAAAATAGTAA-TTTTGAAAGT
1 TCGGGGTCAAAAATGGAATTTTTGGAAATTCGGGGGCAAAAAT-GTAATTTTTGAAAGT
* **
23254069 ATCGGGGTCAAAAATGGAATTTTTGGAAATTCGGGGGCAAAAATGTGATTTTTGGGAGTT
1 -TCGGGGTCAAAAATGGAATTTTTGGAAATTCGGGGGCAAAAATGTAATTTTTGAAAG-T
* * * * * ** *
23254129 TTGAGGTCAAAAATGGAATTTTTGGGAGTTCGAGGTTAAAAATAG-AATTTTTGGAAGT
1 TCGGGGTCAAAAATGGAATTTTTGGAAATTCGGGGGCAAAAAT-GTAATTTTTGAAAGT
* ** * * * *
23254187 TTGAGGG-CAAAAATATAA-TTTT-GAAAGTT-TGGGGTAAAAATGGAATTTTTGGAAGTT
1 TCG-GGGTCAAAAATGGAATTTTTGGAAA-TTCGGGGGCAAAAATGTAATTTTTGAAAG-T
* * * *
23254244 TTGGGGTCAAAAATGGAATTTTTGGAAGTTTC-AGGGCAAAAATGTAATTTTAGAGAAGT
1 TCGGGGTCAAAAATGGAATTTTTGGAA-ATTCGGGGGCAAAAATGTAATTTTTGA-AAGT
23254303 TCGAGGGTCAAAA
1 TCG-GGGTCAAAA
23254316 TATAATTTTT
Statistics
Matches: 195, Mismatches: 36, Indels: 28
0.75 0.14 0.11
Matches are distributed among these distances:
55 1 0.01
56 26 0.13
57 19 0.10
58 50 0.26
59 85 0.44
60 14 0.07
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (58 bp):
TCGGGGTCAAAAATGGAATTTTTGGAAATTCGGGGGCAAAAATGTAATTTTTGAAAGT
Found at i:23254260 original size:115 final size:116
Alignment explanation
Indices: 23254102--23254324 Score: 303
Period size: 115 Copynumber: 1.9 Consensus size: 116
23254092 TGGAAATTCG
* * **
23254102 GGGGCAAAAATGTGATTTTTGGGAGTTTTGAGGTCAAAAATGGAATTTTTGGGAG-TTCGAGGTT
1 GGGGCAAAAATGTGATTTTTGGAAGTTTTGAGGTCAAAAATGGAATTTTTGGAAGTTTC-AGGGC
* *
23254166 AAAAATAG-AATTTTTG-GAAGTTTGAGGG-CAAAAATATAATTTTGAAAGTTT
65 AAAAAT-GTAATTTTAGAGAAGTTCGAGGGTC-AAAATATAATTTTGAAAGTTT
* *
23254217 GGGGTAAAAATG-GAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTGGAAGTTTCAGGGC
1 GGGGCAAAAATGTG-ATTTTTGGAAGTTTTGAGGTCAAAAATGGAATTTTTGGAAGTTTCAGGGC
23254281 AAAAATGTAATTTTAGAGAAGTTCGAGGGTCAAAATATAATTTT
65 AAAAATGTAATTTTAGAGAAGTTCGAGGGTCAAAATATAATTTT
23254325 TGAACAATTT
Statistics
Matches: 95, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
114 2 0.02
115 65 0.68
116 27 0.28
117 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (116 bp):
GGGGCAAAAATGTGATTTTTGGAAGTTTTGAGGTCAAAAATGGAATTTTTGGAAGTTTCAGGGCA
AAAATGTAATTTTAGAGAAGTTCGAGGGTCAAAATATAATTTTGAAAGTTT
Found at i:23254316 original size:59 final size:60
Alignment explanation
Indices: 23254073--23254315 Score: 254
Period size: 59 Copynumber: 4.2 Consensus size: 60
23254063 GAAAGTATCG
* * * *
23254073 GGGTCAAAAATGGAATTTTTGGAA-ATTCGGGGGCAAAAATGTGATTTTTGGGAGTTTTGA
1 GGGTCAAAAATGGAATTTTTGGAAGTTTCGAGGGCAAAAATGTAATTTTTGGAAG-TTTGA
* **
23254133 -GGTCAAAAATGGAATTTTTGGGAG-TTCGAGGTTAAAAATAG-AATTTTTGGAAGTTTGA
1 GGGTCAAAAATGGAATTTTTGGAAGTTTCGAGGGCAAAAAT-GTAATTTTTGGAAGTTTGA
** * * *
23254191 GGG-CAAAAATATAA-TTTTGAAAGTTT-G-GGGTAAAAATGGAATTTTTGGAAGTTTTG-
1 GGGTCAAAAATGGAATTTTTGGAAGTTTCGAGGGCAAAAATGTAATTTTTGGAAG-TTTGA
* *
23254247 GGGTCAAAAATGGAATTTTTGGAAGTTTC-AGGGCAAAAATGTAATTTTAGAGAAGTTCGA
1 GGGTCAAAAATGGAATTTTTGGAAGTTTCGAGGGCAAAAATGTAATTTTTG-GAAGTTTGA
23254307 GGGTCAAAA
1 GGGTCAAAA
23254316 TATAATTTTT
Statistics
Matches: 153, Mismatches: 18, Indels: 24
0.78 0.09 0.12
Matches are distributed among these distances:
55 1 0.01
56 24 0.16
57 21 0.14
58 27 0.18
59 66 0.43
60 14 0.09
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.33
Consensus pattern (60 bp):
GGGTCAAAAATGGAATTTTTGGAAGTTTCGAGGGCAAAAATGTAATTTTTGGAAGTTTGA
Found at i:23256176 original size:6 final size:6
Alignment explanation
Indices: 23256167--23256282 Score: 91
Period size: 6 Copynumber: 20.0 Consensus size: 6
23256157 TTATAATAAC
* * * *
23256167 TTTAAA TTTAAA -ATAAA TTTAGA CTTAAA -TTAAA TTCAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * *
23256213 GTTTAAT TTTAAA TTTAAA TTTAAA -ATAAA TCTAAA TTTAAA -TCAAA
1 -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
23256260 TTT-AA TCTTAAA -ATAAA TTTAAA
1 TTTAAA T-TTAAA TTTAAA TTTAAA
23256283 GGGGCTCGGT
Statistics
Matches: 86, Mismatches: 16, Indels: 16
0.73 0.14 0.14
Matches are distributed among these distances:
5 24 0.28
6 55 0.64
7 7 0.08
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:23256176 original size:17 final size:17
Alignment explanation
Indices: 23256149--23256282 Score: 92
Period size: 17 Copynumber: 7.4 Consensus size: 17
23256139 TTCTTTGGGT
* *
23256149 ATTTTAATTTATAATAA
1 ATTTAAATTTAAAATAA
*
23256166 CTTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
* *
23256183 ATTTAGACTTAAATTAAATTCAA
1 ATTT--A---AATTTAAAAT-AA
**
23256206 ATTTAAAGTTTAATTTTAA
1 ATTTAAA-TTTAA-AATAA
23256225 ATTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
*
23256242 ATCTAAATTT-AAATCAA
1 ATTTAAATTTAAAAT-AA
23256259 ATTT-AATCTTAAAATAA
1 ATTTAAAT-TTAAAATAA
23256276 ATTTAAA
1 ATTTAAA
23256283 GGGGCTCGGT
Statistics
Matches: 93, Mismatches: 12, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
16 7 0.08
17 42 0.45
18 13 0.14
19 14 0.15
20 2 0.02
21 1 0.01
22 8 0.09
23 6 0.06
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:23256225 original size:13 final size:12
Alignment explanation
Indices: 23256167--23256282 Score: 91
Period size: 11 Copynumber: 10.0 Consensus size: 12
23256157 TTATAATAAC
23256167 TTTAAATTTAAA
1 TTTAAATTTAAA
* *
23256179 -ATAAATTTAGA
1 TTTAAATTTAAA
*
23256190 CTTAAA-TTAAA
1 TTTAAATTTAAA
*
23256201 TTCAAATTTAAA
1 TTTAAATTTAAA
*
23256213 GTTTAATTTTAAA
1 -TTTAAATTTAAA
23256226 TTTAAATTTAAA
1 TTTAAATTTAAA
* *
23256238 -ATAAATCTAAA
1 TTTAAATTTAAA
*
23256249 TTTAAA-TCAAA
1 TTTAAATTTAAA
23256260 TTT-AATCTTAAA
1 TTTAAAT-TTAAA
*
23256272 -ATAAATTTAAA
1 TTTAAATTTAAA
23256283 GGGGCTCGGT
Statistics
Matches: 81, Mismatches: 16, Indels: 15
0.72 0.14 0.13
Matches are distributed among these distances:
10 2 0.02
11 38 0.47
12 31 0.38
13 10 0.12
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:23259790 original size:14 final size:14
Alignment explanation
Indices: 23259771--23259797 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23259761 ACTTAAACGA
23259771 AAAAGGGAAGGAAG
1 AAAAGGGAAGGAAG
23259785 AAAAGGGAAGGAA
1 AAAAGGGAAGGAA
23259798 AAAGAAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (14 bp):
AAAAGGGAAGGAAG
Found at i:23260203 original size:17 final size:18
Alignment explanation
Indices: 23260181--23260216 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
23260171 TAAATGAGTT
23260181 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
23260198 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
23260216 A
1 A
23260217 TAGAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:23260536 original size:18 final size:18
Alignment explanation
Indices: 23260513--23260549 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
23260503 TTTGTTATCA
23260513 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
* *
23260531 AAATTGGAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
23260549 A
1 A
23260550 TATGAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:23261331 original size:2 final size:2
Alignment explanation
Indices: 23261324--23261362 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
23261314 TGGTTGTAAA
23261324 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
23261363 TTTGATATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23269135 original size:58 final size:59
Alignment explanation
Indices: 23268999--23269352 Score: 393
Period size: 59 Copynumber: 6.0 Consensus size: 59
23268989 CACGTTTTGA
* *
23268999 CCCTCAAACTTTCCAAAAATCACATTTTTACCCTCGAACTTCTCTAAAATTATATTTTTAC
1 CCCT-AAAC-TTCCAAAAATCACATTTTTACCCTCAAACTTCTCTAAAATTACATTTTTAC
** * *
23269060 ATCGAAACTTCTAAAAATCACATTTTTACCC-CTAAACTT-T-TAAAAATTACATTTTTAC
1 CCCTAAACTTCCAAAAATCACATTTTTACCCTC-AAACTTCTCT-AAAATTACATTTTTAC
*** * * *
23269118 CCTCT-AACTTTTTAAAATTACATTTTTACCC-CTAAACTTATCTAAAATTACATTTTCAC
1 CC-CTAAACTTCCAAAAATCACATTTTTACCCTC-AAACTTCTCTAAAATTACATTTTTAC
*
23269177 CCCTAAACTTTCAAAAATCACATTTTTACCCTCAAACTTCTCTAAAATTACATTTTTAC
1 CCCTAAACTTCCAAAAATCACATTTTTACCCTCAAACTTCTCTAAAATTACATTTTTAC
* * * *
23269236 CCCTAAACTTCCAAAAATTATA-TTTTACCCTTAAACTTC-CAAAAATTACATTTTTAC
1 CCCTAAACTTCCAAAAATCACATTTTTACCCTCAAACTTCTCTAAAATTACATTTTTAC
* * * *
23269293 CCCTGAACTTCCAAAAATCACA-ATTTACTCTCAAACTT-TCCAAAAATTACATTTTTAC
1 CCCTAAACTTCCAAAAATCACATTTTTACCCTCAAACTTCT-CTAAAATTACATTTTTAC
23269351 CC
1 CC
23269353 TCGAACATCC
Statistics
Matches: 255, Mismatches: 29, Indels: 21
0.84 0.10 0.07
Matches are distributed among these distances:
57 50 0.20
58 86 0.34
59 112 0.44
60 6 0.02
61 1 0.00
ACGTcount: A:0.36, C:0.26, G:0.01, T:0.37
Consensus pattern (59 bp):
CCCTAAACTTCCAAAAATCACATTTTTACCCTCAAACTTCTCTAAAATTACATTTTTAC
Found at i:23269363 original size:29 final size:29
Alignment explanation
Indices: 23268970--23269422 Score: 370
Period size: 29 Copynumber: 15.5 Consensus size: 29
23268960 CCCAAAATGT
* * * *
23268970 CCTCGAACTTTCCAAAAATCACGTTTTGAC
1 CCTCAAAC-TTCCAAAAATTACATTTTTAC
*
23269000 CCTCAAACTTTCCAAAAATCACATTTTTAC
1 CCTCAAAC-TTCCAAAAATTACATTTTTAC
* * *
23269030 CCTCGAACTTCTCTAAAATTATATTTTTA-
1 CCTCAAACTTC-CAAAAATTACATTTTTAC
* * *
23269059 CATCGAAACTTCTAAAAATCACATTTTTAC
1 CCTC-AAACTTCCAAAAATTACATTTTTAC
**
23269089 CC-CTAAACTTTTAAAAATTACATTTTTAC
1 CCTC-AAACTTCCAAAAATTACATTTTTAC
* ***
23269118 CCTCTAACTTTTTAAAATTACATTTTTAC
1 CCTCAAACTTCCAAAAATTACATTTTTAC
* * *
23269147 CC-CTAAACTTATCTAAAATTACATTTTCAC
1 CCTC-AAACTT-CCAAAAATTACATTTTTAC
* *
23269177 CC-CTAAACTTTCAAAAATCACATTTTTAC
1 CCTC-AAACTTCCAAAAATTACATTTTTAC
*
23269206 CCTCAAACTTCTCTAAAATTACATTTTTAC
1 CCTCAAACTTC-CAAAAATTACATTTTTAC
*
23269236 CC-CTAAACTTCCAAAAATTATA-TTTTAC
1 CCTC-AAACTTCCAAAAATTACATTTTTAC
*
23269264 CCTTAAACTTCCAAAAATTACATTTTTAC
1 CCTCAAACTTCCAAAAATTACATTTTTAC
* * *
23269293 CC-CTGAACTTCCAAAAATCACA-ATTTAC
1 CCTC-AAACTTCCAAAAATTACATTTTTAC
*
23269321 TCTCAAACTTTCCAAAAATTACATTTTTAC
1 CCTCAAAC-TTCCAAAAATTACATTTTTAC
* * *
23269351 CCTCGAACATCCAAAATTTAC-TATTTTAC
1 CCTCAAACTTCCAAAAATTACAT-TTTTAC
* * *
23269380 CC-CAAACAT-AAAAAATTACCATTTTTGC
1 CCTCAAACTTCCAAAAATTA-CATTTTTAC
* *
23269408 CCTTAAATTTCCAAA
1 CCTCAAACTTCCAAA
23269423 TATCACATCT
Statistics
Matches: 351, Mismatches: 52, Indels: 40
0.79 0.12 0.09
Matches are distributed among these distances:
27 7 0.02
28 50 0.14
29 171 0.49
30 123 0.35
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.36
Consensus pattern (29 bp):
CCTCAAACTTCCAAAAATTACATTTTTAC
Found at i:23269386 original size:58 final size:57
Alignment explanation
Indices: 23268975--23269422 Score: 340
Period size: 59 Copynumber: 7.7 Consensus size: 57
23268965 AATGTCCTCG
* * * * *
23268975 AACTTTCCAAAAATCACGTTTTGA-CCCTCAAACTTTCCAAAAATCACATTTTTACCCTCG
1 AACTTTCCAAAAATTACATTTTTACCCCT-AAAC-TTCCAAAAATTACA-TTTTACCC-CA
* * ** * * *
23269035 AAC-TTCTCTAAAATTATATTTTTACATCGAAACTTCTAAAAATCACATTTTTACCCCTA
1 AACTTTC-CAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACA-TTTTACCCC-A
* ***
23269094 AACTTT-TAAAAATTACATTTTTACCCTCT-AACTTTTTAAAATTACATTTTTACCCCTA
1 AACTTTCCAAAAATTACATTTTTACCC-CTAAACTTCCAAAAATTACA-TTTTACCCC-A
* * * *
23269152 AACTTAT-CTAAAATTACATTTTCACCCCTAAACTTTCAAAAATCACATTTTTACCCTCA
1 AACTT-TCCAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACA-TTTTACCC-CA
* * *
23269211 AAC-TTCTCTAAAATTACATTTTTACCCCTAAACTTCCAAAAATTATATTTTACCCTTA
1 AACTTTC-CAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACATTTTACCC-CA
* * * *
23269269 AAC-TTCCAAAAATTACATTTTTACCCCTGAACTTCCAAAAATCACAATTTACTCTCA
1 AACTTTCCAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACATTTTAC-CCCA
* * *
23269326 AACTTTCCAAAAATTACATTTTTA-CCCTCGAACATCCAAAATTTACTATTTTACCCCA
1 AACTTTCCAAAAATTACATTTTTACCCCT-AAACTTCCAAAAATTAC-ATTTTACCCCA
* * * * *
23269384 AAC-AT-AAAAAATTACCATTTTTGCCCTTAAATTTCCAAA
1 AACTTTCCAAAAATTA-CATTTTTACCCCTAAACTTCCAAA
23269423 TATCACATCT
Statistics
Matches: 323, Mismatches: 49, Indels: 35
0.79 0.12 0.09
Matches are distributed among these distances:
56 8 0.02
57 66 0.20
58 110 0.34
59 116 0.36
60 22 0.07
61 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.36
Consensus pattern (57 bp):
AACTTTCCAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACATTTTACCCCA
Found at i:23281436 original size:29 final size:29
Alignment explanation
Indices: 23281394--23281789 Score: 306
Period size: 29 Copynumber: 13.6 Consensus size: 29
23281384 CCTAAAAGGT
* *
23281394 CCCT-AAACTTTCCAAAAATCACGTTTTAA
1 CCCTCAAAC-TTCCAAAAATCACATTTTTA
23281423 CCCTCAAACTTCCAAAAATCACATTTTTA
1 CCCTCAAACTTCCAAAAATCACATTTTTA
** *
23281452 CCCTCAAACTTCTGTAAAATTACATTTTT-
1 CCCTCAAACTTC-CAAAAATCACATTTTTA
*
23281481 GCCTCAAACTTCCAAAAATCACATTTTTA
1 CCCTCAAACTTCCAAAAATCACATTTTTA
*
23281510 CCCTCGAACTTCCAAAAATCACATTTTTA
1 CCCTCAAACTTCCAAAAATCACATTTTTA
* * *
23281539 CCCCCAAACTTTTCC-AAAATTACATTCTTA
1 CCCTCAAAC--TTCCAAAAATCACATTTTTA
*
23281569 CCC-CTAAACTTCAAAAAATCACATTTTTA
1 CCCTC-AAACTTCCAAAAATCACATTTTTA
* *
23281598 CCC-CTAAACTTCTAAAAATCACA-ATTTA
1 CCCTC-AAACTTCCAAAAATCACATTTTTA
* * * *
23281626 CCCTCAAACTTTTCAAAAATTATATTTTTG
1 CCCTCAAAC-TTCCAAAAATCACATTTTTA
* * *
23281656 CCC-CTGAACTTCCAAAAATCACACTTTTG
1 CCCTC-AAACTTCCAAAAATCACATTTTTA
* * * * **
23281685 CCCTCGAACATCCAAAATTTACTATTTTGC
1 CCCTCAAACTTCCAAAAATCAC-ATTTTTA
* ** *
23281715 CCCT-AAA-TATCCAAAAATTACCCTTTTG
1 CCCTCAAACT-TCCAAAAATCACATTTTTA
* * * *
23281743 CCTTCAAATTTCCAAAAATCATATTTTCA
1 CCCTCAAACTTCCAAAAATCACATTTTTA
* *
23281772 ACCTCAAATTTTCCAAAA
1 CCCTCAAA-CTTCCAAAA
23281790 GTTTAATTTT
Statistics
Matches: 297, Mismatches: 53, Indels: 33
0.78 0.14 0.09
Matches are distributed among these distances:
28 33 0.11
29 195 0.66
30 65 0.22
31 4 0.01
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.33
Consensus pattern (29 bp):
CCCTCAAACTTCCAAAAATCACATTTTTA
Found at i:23281501 original size:87 final size:88
Alignment explanation
Indices: 23281394--23281789 Score: 399
Period size: 87 Copynumber: 4.5 Consensus size: 88
23281384 CCTAAAAGGT
* *
23281394 CCCTAAACTTTCCAAAAATCACGTTTTAACCCTCAAACTTCCAAAAATCACATTTTTACCCTCAA
1 CCCTAAAC-TTCCAAAAATCACATTTTTACCCTCAAACTTCCAAAAATCACATTTTTACCCTCAA
* **
23281459 ACTTCTGTAAAATTACATTTTTGC
65 ACTTTTCAAAAATTACATTTTTGC
* * *
23281483 CTC-AAACTTCCAAAAATCACATTTTTACCCTCGAACTTCCAAAAATCACATTTTTACCCCCAAA
1 CCCTAAACTTCCAAAAATCACATTTTTACCCTCAAACTTCCAAAAATCACATTTTTACCCTCAAA
* * *
23281547 CTTTTCCAAAATTACATTCTTAC
66 CTTTTCAAAAATTACATTTTTGC
* * *
23281570 CCCTAAACTTCAAAAAATCACATTTTTACCC-CTAAACTTCTAAAAATCACA-ATTTACCCTCAA
1 CCCTAAACTTCCAAAAATCACATTTTTACCCTC-AAACTTCCAAAAATCACATTTTTACCCTCAA
*
23281633 ACTTTTCAAAAATTATATTTTTGC
65 ACTTTTCAAAAATTACATTTTTGC
* * * * * * * **
23281657 CCCTGAACTTCCAAAAATCACACTTTTGCCCTCGAACATCCAAAATTTACTATTTTGCCCCT-AA
1 CCCTAAACTTCCAAAAATCACATTTTTACCCTCAAACTTCCAAAAATCAC-ATTTTTACCCTCAA
* * **
23281721 A-TATCCAAAAATTACCCTTTTG-
65 ACTTTTCAAAAATTACATTTTTGC
* * * * * *
23281743 CCTTCAAATTTCCAAAAATCATATTTTCAACCTCAAATTTTCCAAAA
1 CCCT-AAACTTCCAAAAATCACATTTTTACCCTCAAA-CTTCCAAAA
23281790 GTTTAATTTT
Statistics
Matches: 252, Mismatches: 48, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
86 3 0.01
87 183 0.73
88 58 0.23
89 8 0.03
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.33
Consensus pattern (88 bp):
CCCTAAACTTCCAAAAATCACATTTTTACCCTCAAACTTCCAAAAATCACATTTTTACCCTCAAA
CTTTTCAAAAATTACATTTTTGC
Found at i:23281787 original size:30 final size:30
Alignment explanation
Indices: 23281746--23281841 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
23281736 CCTTTTGCCT
23281746 TCAAA-TTTCCAAAAATCAT-ATTTTCAA-CC
1 TCAAATTTTCCAAAAAT-ATAATTTT-AATCC
* *
23281775 TCAAATTTTCCAAAAGTTTAATTTTAATCC
1 TCAAATTTTCCAAAAATATAATTTTAATCC
* *
23281805 -CAAATTTTCCAAAAATTTTAATTTTGATCC
1 TCAAATTTTCCAAAAA-TATAATTTTAATCC
*
23281835 CCAAATT
1 TCAAATT
23281842 CCTCGAGAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
29 22 0.38
30 30 0.52
31 6 0.10
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.40
Consensus pattern (30 bp):
TCAAATTTTCCAAAAATATAATTTTAATCC
Found at i:23281808 original size:29 final size:31
Alignment explanation
Indices: 23281776--23281841 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 31
23281766 TTTTCAACCT
23281776 CAAATTTTCC-AAAAGTTTAATTTTAAT-CC
1 CAAATTTTCCAAAAAGTTTAATTTTAATCCC
* *
23281805 CAAATTTTCCAAAAATTTTAATTTTGATCCC
1 CAAATTTTCCAAAAAGTTTAATTTTAATCCC
23281836 CAAATT
1 CAAATT
23281842 CCTCGAGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 10 0.30
30 15 0.45
31 8 0.24
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (31 bp):
CAAATTTTCCAAAAAGTTTAATTTTAATCCC
Found at i:23285633 original size:34 final size:34
Alignment explanation
Indices: 23285590--23285658 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
23285580 TTCAATAAGG
23285590 AAACAATATATACAAATCCCATAAATTACTCCTA
1 AAACAATATATACAAATCCCATAAATTACTCCTA
23285624 AAACAATATATACAAATCCCATAAATTACTCCTA
1 AAACAATATATACAAATCCCATAAATTACTCCTA
23285658 A
1 A
23285659 CATAACTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (34 bp):
AAACAATATATACAAATCCCATAAATTACTCCTA
Found at i:23286676 original size:5 final size:5
Alignment explanation
Indices: 23286666--23286694 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
23286656 TTCAATGACT
23286666 TTTAA TTTAA TTTAA TTT-A TTTAA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
23286695 CATAATGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTAA
Found at i:23287130 original size:16 final size:16
Alignment explanation
Indices: 23287099--23287152 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
23287089 AGAATTGTTT
23287099 TAATATTATATATTAAA
1 TAATATTAT-TATTAAA
* *
23287116 TATTTTTATTATTAAA
1 TAATATTATTATTAAA
*
23287132 TAATATTATTAGTAAA
1 TAATATTATTATTAAA
23287148 -AATAT
1 TAATAT
23287153 ATTTAATAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
15 5 0.16
16 20 0.62
17 7 0.22
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
TAATATTATTATTAAA
Found at i:23287919 original size:23 final size:23
Alignment explanation
Indices: 23287876--23287927 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
23287866 TCACTTAAAC
*
23287876 TAAATT-AATAATTAAAAATGAT
1 TAAATTAAAGAATTAAAAATGAT
**
23287898 TAAATTAAAGAATTAATTATGAT
1 TAAATTAAAGAATTAAAAATGAT
23287921 T-AATTAA
1 TAAATTAA
23287928 GGTTAATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (23 bp):
TAAATTAAAGAATTAAAAATGAT
Found at i:23296425 original size:21 final size:23
Alignment explanation
Indices: 23296381--23296425 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
23296371 TCACCTTAAA
*
23296381 TTTTTATATACAGTTCTTGTTTT
1 TTTTTATATACAGTTCTTGGTTT
*
23296404 TTTTTATATATA-TT-TTGGTTT
1 TTTTTATATACAGTTCTTGGTTT
23296425 T
1 T
23296426 CTTCTAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 2 0.10
23 11 0.55
ACGTcount: A:0.18, C:0.04, G:0.09, T:0.69
Consensus pattern (23 bp):
TTTTTATATACAGTTCTTGGTTT
Found at i:23297018 original size:26 final size:24
Alignment explanation
Indices: 23296970--23297019 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
23296960 TTACATTTAT
* *
23296970 TTAAATTTTTTATTAATACTAAAA
1 TTAAATTTTTTATTAACAATAAAA
23296994 TTAAATTTATTTATTTAACAATAAAA
1 TTAAATTT-TTTA-TTAACAATAAAA
23297020 AGATTACTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
25 4 0.18
26 10 0.45
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTAAATTTTTTATTAACAATAAAA
Found at i:23297358 original size:24 final size:25
Alignment explanation
Indices: 23297312--23297367 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 25
23297302 GATACAGATA
*
23297312 ATTTTAAATTTTATAAATTATAAAT-
1 ATTTT-AATTTTATAAATAATAAATC
*
23297337 ATTTTAATTTTA-AATATAATAATTC
1 ATTTTAATTTTATAA-ATAATAAATC
23297362 ATTTTA
1 ATTTTA
23297368 CTCTTATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.07
24 14 0.52
25 11 0.41
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (25 bp):
ATTTTAATTTTATAAATAATAAATC
Found at i:23297359 original size:15 final size:15
Alignment explanation
Indices: 23297309--23297360 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
23297299 ATGGATACAG
*
23297309 ATAATTTTAAATTTT
1 ATAATTTTAAATATT
*
23297324 ATAAATTATAAATATT
1 AT-AATTTTAAATATT
* *
23297340 TTAATTTTAAATATA
1 ATAATTTTAAATATT
23297355 ATAATT
1 ATAATT
23297361 CATTTTACTC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
15 18 0.60
16 12 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATAATTTTAAATATT
Found at i:23299860 original size:30 final size:30
Alignment explanation
Indices: 23299766--23299926 Score: 184
Period size: 30 Copynumber: 5.4 Consensus size: 30
23299756 CTTGGGGATA
* *
23299766 AAAATGTAATTTT-GGAAAGTTTTAGGGTC
1 AAAATATAATTTTAGAAAAGTTTTAGGGTC
* * *
23299795 AAAATGTAA-TTTACAAAAATTTTAGGGTC
1 AAAATATAATTTTAGAAAAGTTTTAGGGTC
* *
23299824 AAAATATAATTTTAGAAAAGTTTTTGGGTT
1 AAAATATAATTTTAGAAAAGTTTTAGGGTC
** *
23299854 AAAATATAATTTTAGAAAAGTTTGGGGGTT
1 AAAATATAATTTTAGAAAAGTTTTAGGGTC
* *
23299884 TAAATATAATTTTGGAAAAG-TTTAGGGGTC
1 AAAATATAATTTTAGAAAAGTTTTA-GGGTC
23299914 AAAATATAATTTT
1 AAAATATAATTTT
23299927 TGGATAGTTT
Statistics
Matches: 113, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
28 3 0.03
29 32 0.28
30 78 0.69
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.39
Consensus pattern (30 bp):
AAAATATAATTTTAGAAAAGTTTTAGGGTC
Found at i:23301102 original size:21 final size:21
Alignment explanation
Indices: 23301055--23301104 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
23301045 TTGATGCTTT
23301055 TATTT-AAAATTAATTAATAC
1 TATTTAAAAATTAATTAATAC
23301075 TATTTAAAACATTAATTAATAC
1 TATTTAAAA-ATTAATTAATAC
23301097 -ATTTAAAA
1 TATTTAAAA
23301105 TATTCAATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.18
21 11 0.39
22 12 0.43
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (21 bp):
TATTTAAAAATTAATTAATAC
Found at i:23301810 original size:17 final size:16
Alignment explanation
Indices: 23301771--23301846 Score: 66
Period size: 18 Copynumber: 4.6 Consensus size: 16
23301761 GACACTCTAT
* *
23301771 TAAATTTATAATAATTT
1 TAAATTTA-ATTAATTC
23301788 TAAAATTTACATTAATTC
1 T-AAATTTA-ATTAATTC
23301806 TAAATTTAAATTAAATT-
1 TAAATTT-AATT-AATTC
*
23301823 TAAATTTAA-TAAATC
1 TAAATTTAATTAATTC
23301838 TAAATTTAA
1 TAAATTTAA
23301847 AATAAATTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
14 3 0.06
15 10 0.20
16 2 0.04
17 17 0.33
18 19 0.37
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAATTTAATTAATTC
Found at i:23301817 original size:6 final size:6
Alignment explanation
Indices: 23301801--23301881 Score: 59
Period size: 6 Copynumber: 14.3 Consensus size: 6
23301791 AATTTACATT
*
23301801 AATTCTA AATTTA AA-TTA AATTTA AATTT- AA--TA AATCTA AATTTA
1 AATT-TA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* * *
23301846 AA-ATA AATTTA ACTTTA ACA--TA AATTTA ATTTTA AA
1 AATTTA AATTTA AATTTA A-ATTTA AATTTA AATTTA AA
23301882 ATGATTTGGC
Statistics
Matches: 59, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
3 1 0.02
4 3 0.05
5 14 0.24
6 37 0.63
7 4 0.07
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (6 bp):
AATTTA
Found at i:23301822 original size:11 final size:11
Alignment explanation
Indices: 23301806--23301857 Score: 63
Period size: 11 Copynumber: 4.8 Consensus size: 11
23301796 ACATTAATTC
23301806 TAAATTTAAAT
1 TAAATTTAAAT
23301817 TAAATTTAAAT
1 TAAATTTAAAT
*
23301828 TTAA--TAAAT
1 TAAATTTAAAT
*
23301837 CTAAATTTAAAA
1 -TAAATTTAAAT
23301849 TAAATTTAA
1 TAAATTTAA
23301858 CTTTAACATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
9 5 0.14
10 3 0.09
11 23 0.66
12 4 0.11
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (11 bp):
TAAATTTAAAT
Found at i:23301850 original size:17 final size:17
Alignment explanation
Indices: 23301770--23301883 Score: 108
Period size: 17 Copynumber: 6.8 Consensus size: 17
23301760 GGACACTCTA
* *
23301770 TTAAATTTATAATAATT
1 TTAAATTTAAAATAAAT
* *
23301787 TTAAAATTT-ACATTAAT
1 TT-AAATTTAAAATAAAT
*
23301804 TCTAAATTTAAATTAAAT
1 T-TAAATTTAAAATAAAT
23301822 TTAAATTT--AATAAAT
1 TTAAATTTAAAATAAAT
*
23301837 CTAAATTTAAAATAAAT
1 TTAAATTTAAAATAAAT
* *
23301854 TTAACTTTAACATAAAT
1 TTAAATTTAAAATAAAT
*
23301871 TTAATTTTAAAAT
1 TTAAATTTAAAAT
23301884 GATTTGGCTG
Statistics
Matches: 78, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
15 13 0.17
17 52 0.67
18 13 0.17
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:23302305 original size:92 final size:92
Alignment explanation
Indices: 23302144--23303585 Score: 2677
Period size: 92 Copynumber: 15.7 Consensus size: 92
23302134 GAGGTTTTAT
* *
23302144 CTTCAGAGAGATAAAGGTTCATTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
* *
23302209 TGAAAATTCATCTTGTTCTTATTATAA
66 TGAAAATTCATCTTGCTCTTACTATAA
* * * *
23302236 CTTTAGAGAGATAAAGATTCGTTATCCAACTTTACAATAATTTCAAGAGGATAAGAATTGGCATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
23302301 TGAAAATTCATCTTGCTCTTACTATAA
66 TGAAAATTCATCTTGCTCTTACTATAA
*
23302328 CTTCAGAGCGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
23302393 TGAAAATTCATCTTGCTCTTACTATAA
66 TGAAAATTCATCTTGCTCTTACTATAA
23302420 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
*
23302485 TGAATATTCATCTTGCTCTTACTATAA
66 TGAAAATTCATCTTGCTCTTACTATAA
*
23302512 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAACTGACATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
23302577 TGAAAATTCATCTTGCTCTTACTATAA
66 TGAAAATTCATCTTGCTCTTACTATAA
* *
23302604 CTTTAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAACTGACATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
23302669 TGAAAATTCATCTTGCTCTTACTATAA
66 TGAAAATTCATCTTGCTCTTACTATAA
*
23302696 ATTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
23302761 TGAAAATTCATCTTGCTCTTACTATAA
66 TGAAAATTCATCTTGCTCTTACTATAA
* * *
23302788 CTTCAGAGCGATAAAGATTCGTTATCCAACTTTACTATAATTTCAAGAGGATAAGAATTGGCATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
23302853 TGAAAATTCATCTTGCTCTTACTATAA
66 TGAAAATTCATCTTGCTCTTACTATAA
*
23302880 CTTCAGAGCGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
23302945 TGAAAATTCATCTTGCTCTTACTATAA
66 TGAAAATTCATCTTGCTCTTACTATAA
23302972 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
23303037 TGAAAATTCATCTTGCTCTTACTATAA
66 TGAAAATTCATCTTGCTCTTACTATAA
*
23303064 CTTCATAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
23303129 TGAAAATTCATCTTGCTCTTACTATAA
66 TGAAAATTCATCTTGCTCTTACTATAA
*
23303156 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAACTGACATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
*
23303221 TGAAAAATCATCTTGCTCTTACTATAA
66 TGAAAATTCATCTTGCTCTTACTATAA
*
23303248 ATTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
23303313 TGAAAATTCATCTTGCTCTTACTATAA
66 TGAAAATTCATCTTGCTCTTACTATAA
*
23303340 CTTCAGAGAGATAAAGATTCGTTATCCAACCTTACTATAACTTCAAGAGGATAAGAATTGACATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
23303405 TGAAAATTCATCTTGCTCTTACTATAA
66 TGAAAATTCATCTTGCTCTTACTATAA
23303432 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
23303497 TGAAAATTCATCTTGCTCTTACTATAA
66 TGAAAATTCATCTTGCTCTTACTATAA
23303524 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGAC
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGAC
23303586 TTCGTTATCC
Statistics
Matches: 1312, Mismatches: 38, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 1312 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (92 bp):
CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
TGAAAATTCATCTTGCTCTTACTATAA
Found at i:23303605 original size:45 final size:45
Alignment explanation
Indices: 23303515--23303722 Score: 206
Period size: 45 Copynumber: 4.7 Consensus size: 45
23303505 CATCTTGCTC
23303515 TTACTATAACTTC-AGAGAGAT-A-AA--GA-TTCGTTATCCAACT
1 TTACTATAACTTCAAGAG-GATAAGAATTGACTTCGTTATCCAACT
23303555 TTACTATAACTTCAAGAGGATAAGAATTGACTTCGTTATCCAACT
1 TTACTATAACTTCAAGAGGATAAGAATTGACTTCGTTATCCAACT
* ***
23303600 TTACTATAACTTCAAGAGGATAAGAATTGACATTTGAAAATTCATCTTGCT
1 TTACTATAACTTCAAGAGGATAAGAATTGAC-TTCG----TT-ATCCAACT
*
23303651 CTTTCTATAACTTC-AGAGAGAT-A-AA-T-A-TTCGTTATCCAACT
1 -TTACTATAACTTCAAGAG-GATAAGAATTGACTTCGTTATCCAACT
23303692 TTACTATAACTTCAAGAGGATAAGAATTGAC
1 TTACTATAACTTCAAGAGGATAAGAATTGAC
23303723 ATTTGAAAAT
Statistics
Matches: 138, Mismatches: 10, Indels: 35
0.75 0.05 0.19
Matches are distributed among these distances:
40 31 0.22
41 15 0.11
42 6 0.04
43 1 0.01
44 3 0.02
45 45 0.33
46 6 0.04
48 1 0.01
49 1 0.01
50 4 0.03
51 10 0.07
52 15 0.11
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (45 bp):
TTACTATAACTTCAAGAGGATAAGAATTGACTTCGTTATCCAACT
Found at i:23303665 original size:52 final size:52
Alignment explanation
Indices: 23303600--23303766 Score: 173
Period size: 52 Copynumber: 3.4 Consensus size: 52
23303590 TTATCCAACT
23303600 TTACTATAACTTCA-AGAGGATAAGAATTGACATTTGAAAATTCATCTTGCTC
1 TTACTATAACTTCAGAGA-GATAAGAATTGACATTTGAAAATTCATCTTGCTC
* * ***
23303652 TTTCTATAACTTCAGAGAGAT-A-AA-T---ATTCG----TT-ATCCAACT-
1 TTACTATAACTTCAGAGAGATAAGAATTGACATTTGAAAATTCATCTTGCTC
23303692 TTACTATAACTTCAAGAG-GATAAGAATTGACATTTGAAAATTCATCTTGCTC
1 TTACTATAACTTC-AGAGAGATAAGAATTGACATTTGAAAATTCATCTTGCTC
23303744 TTACTATAACTTCAGAGAGATAA
1 TTACTATAACTTCAGAGAGATAA
23303767 ATATTCGTCG
Statistics
Matches: 90, Mismatches: 10, Indels: 30
0.69 0.08 0.23
Matches are distributed among these distances:
40 15 0.17
41 10 0.11
42 4 0.04
43 1 0.01
46 8 0.09
49 1 0.01
50 4 0.04
51 10 0.11
52 34 0.38
53 3 0.03
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (52 bp):
TTACTATAACTTCAGAGAGATAAGAATTGACATTTGAAAATTCATCTTGCTC
Found at i:23303720 original size:92 final size:92
Alignment explanation
Indices: 23303555--23303774 Score: 370
Period size: 92 Copynumber: 2.3 Consensus size: 92
23303545 TTATCCAACT
23303555 TTACTATAACTTCA-AGAGGATAAGAATTGACTTCGTTATCCAACTTTACTATAACTTCAAGAGG
1 TTACTATAACTTCAGAGA-GAT-A-AA-T-A-TTCGTTATCCAACTTTACTATAACTTCAAGAGG
23303619 ATAAGAATTGACATTTGAAAATTCATCTTGCTC
60 ATAAGAATTGACATTTGAAAATTCATCTTGCTC
*
23303652 TTTCTATAACTTCAGAGAGATAAATATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGA
1 TTACTATAACTTCAGAGAGATAAATATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGA
23303717 ATTGACATTTGAAAATTCATCTTGCTC
66 ATTGACATTTGAAAATTCATCTTGCTC
23303744 TTACTATAACTTCAGAGAGATAAATATTCGT
1 TTACTATAACTTCAGAGAGATAAATATTCGT
23303775 CGTCATGGAT
Statistics
Matches: 120, Mismatches: 2, Indels: 7
0.93 0.02 0.05
Matches are distributed among these distances:
92 96 0.80
93 1 0.01
94 1 0.01
95 2 0.02
96 1 0.01
97 16 0.13
98 3 0.03
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (92 bp):
TTACTATAACTTCAGAGAGATAAATATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGA
ATTGACATTTGAAAATTCATCTTGCTC
Found at i:23315625 original size:59 final size:58
Alignment explanation
Indices: 23315556--23315714 Score: 185
Period size: 59 Copynumber: 2.7 Consensus size: 58
23315546 CTTGTGGATA
* *
23315556 AAAATGTAATTTTAGAAAGTTTTAGGGTCAAAATGTAATTTACAAAAAGTTTTAAGGTT
1 AAAATATAATTTTAGAAAGTTTTAGGGTCAAAATATAATTTACAAAAAG-TTTAAGGTT
* * *** *
23315615 AAAATATAATTTTAAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTAGGGTT
1 AAAATATAATTTTAGAAAGTTTTAGGGTCAAAATATAATTTACAAAAAGTTTAAGGTT
* * *
23315673 TAAATATAATTTTGGAAAAG-TTTAGGAGTTAAAATATAATTT
1 AAAATATAATTTTAG-AAAGTTTTAGG-GTCAAAATATAATTT
23315715 TTGGATAGTT
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
58 25 0.29
59 60 0.71
ACGTcount: A:0.43, C:0.02, G:0.17, T:0.38
Consensus pattern (58 bp):
AAAATATAATTTTAGAAAGTTTTAGGGTCAAAATATAATTTACAAAAAGTTTAAGGTT
Found at i:23315715 original size:59 final size:57
Alignment explanation
Indices: 23315534--23315729 Score: 173
Period size: 59 Copynumber: 3.4 Consensus size: 57
23315524 GCAAAAATGG
* * * * *
23315534 AATTTTGGAAAACTTGT-GGATAAAAATGTAATTTT-AGAAAGTTTTAGGGTCAAAATGT
1 AATTTTGGAAAAGTT-TAGGGTTAAAATATAATTTTGA-AAAG-TTTAGGGTCAAAATAT
*** * * *
23315592 AATTTACAAAAAGTTTTAAGGTTAAAATATAATTTTAAAAAGTTTTGGGGTCAAAATAT
1 AATTTTGGAAAAG-TTTAGGGTTAAAATATAATTTTGAAAAG-TTTAGGGTCAAAATAT
* *
23315651 AATTTTGGAAAAGTTTAGGGTTTAAATATAATTTTGGAAAAGTTTAGGAGTTAAAATAT
1 AATTTTGGAAAAGTTTAGGGTTAAAATATAATTTT-GAAAAGTTTAGG-GTCAAAATAT
*
23315710 AATTTTTGG-ATAGTTTAGGG
1 AA-TTTTGGAAAAGTTTAGGG
23315730 ACCACTAGGG
Statistics
Matches: 113, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
58 35 0.31
59 71 0.63
60 7 0.06
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.38
Consensus pattern (57 bp):
AATTTTGGAAAAGTTTAGGGTTAAAATATAATTTTGAAAAGTTTAGGGTCAAAATAT
Found at i:23315725 original size:30 final size:29
Alignment explanation
Indices: 23315534--23315729 Score: 166
Period size: 29 Copynumber: 6.7 Consensus size: 29
23315524 GCAAAAATGG
* * * *
23315534 AATTTTGGAAAACTTGT-GGATAAAAATGT
1 AATTTTGGAAAAGTT-TAGGGTTAAAATAT
* * *
23315563 AATTTTAG-AAAGTTTTAGGGTCAAAATGT
1 AATTTTGGAAAAG-TTTAGGGTTAAAATAT
*** *
23315592 AATTTACAAAAAGTTTTAAGGTTAAAATAT
1 AATTTTGGAAAAG-TTTAGGGTTAAAATAT
* * *
23315622 AATTTT-AAAAAGTTTTGGGGTCAAAATAT
1 AATTTTGGAAAAG-TTTAGGGTTAAAATAT
*
23315651 AATTTTGGAAAAGTTTAGGGTTTAAATAT
1 AATTTTGGAAAAGTTTAGGGTTAAAATAT
23315680 AATTTTGGAAAAGTTTAGGAGTTAAAATAT
1 AATTTTGGAAAAGTTTAGG-GTTAAAATAT
*
23315710 AATTTTTGG-ATAGTTTAGGG
1 AA-TTTTGGAAAAGTTTAGGG
23315730 ACCACTAGGG
Statistics
Matches: 141, Mismatches: 20, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
28 4 0.03
29 83 0.59
30 48 0.34
31 6 0.04
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.38
Consensus pattern (29 bp):
AATTTTGGAAAAGTTTAGGGTTAAAATAT
Found at i:23316896 original size:21 final size:21
Alignment explanation
Indices: 23316849--23316898 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
23316839 TTGATGCTTT
23316849 TATTT-AAAATTAATTAATAC
1 TATTTAAAAATTAATTAATAC
23316869 TATTTAAAACATTAATTAATAC
1 TATTTAAAA-ATTAATTAATAC
23316891 -ATTTAAAA
1 TATTTAAAA
23316899 TATTCAATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.18
21 11 0.39
22 12 0.43
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (21 bp):
TATTTAAAAATTAATTAATAC
Found at i:23317605 original size:17 final size:16
Alignment explanation
Indices: 23317566--23317641 Score: 66
Period size: 18 Copynumber: 4.6 Consensus size: 16
23317556 GACACTCTAT
* *
23317566 TAAATTTATAATAATTT
1 TAAATTTA-ATTAATTC
23317583 TAAAATTTACATTAATTC
1 T-AAATTTA-ATTAATTC
23317601 TAAATTTAAATTAAATT-
1 TAAATTT-AATT-AATTC
*
23317618 TAAATTTAA-TAAATC
1 TAAATTTAATTAATTC
23317633 TAAATTTAA
1 TAAATTTAA
23317642 AATAAATTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
14 3 0.06
15 10 0.20
16 2 0.04
17 17 0.33
18 19 0.37
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAATTTAATTAATTC
Found at i:23317612 original size:6 final size:6
Alignment explanation
Indices: 23317596--23317676 Score: 59
Period size: 6 Copynumber: 14.3 Consensus size: 6
23317586 AATTTACATT
*
23317596 AATTCTA AATTTA AA-TTA AATTTA AATTT- AA--TA AATCTA AATTTA
1 AATT-TA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* * *
23317641 AA-ATA AATTTA ACTTTA ACA--TA AATTTA ATTTTA AA
1 AATTTA AATTTA AATTTA A-ATTTA AATTTA AATTTA AA
23317677 ATGAATTTCA
Statistics
Matches: 59, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
3 1 0.02
4 3 0.05
5 14 0.24
6 37 0.63
7 4 0.07
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (6 bp):
AATTTA
Found at i:23317617 original size:11 final size:11
Alignment explanation
Indices: 23317601--23317652 Score: 63
Period size: 11 Copynumber: 4.8 Consensus size: 11
23317591 ACATTAATTC
23317601 TAAATTTAAAT
1 TAAATTTAAAT
23317612 TAAATTTAAAT
1 TAAATTTAAAT
*
23317623 TTAA--TAAAT
1 TAAATTTAAAT
*
23317632 CTAAATTTAAAA
1 -TAAATTTAAAT
23317644 TAAATTTAA
1 TAAATTTAA
23317653 CTTTAACATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
9 5 0.14
10 3 0.09
11 23 0.66
12 4 0.11
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (11 bp):
TAAATTTAAAT
Found at i:23317645 original size:17 final size:17
Alignment explanation
Indices: 23317565--23317684 Score: 111
Period size: 17 Copynumber: 7.1 Consensus size: 17
23317555 GGACACTCTA
* *
23317565 TTAAATTTATAATAATT
1 TTAAATTTAAAATAAAT
* *
23317582 TTAAAATTT-ACATTAAT
1 TT-AAATTTAAAATAAAT
*
23317599 TCTAAATTTAAATTAAAT
1 T-TAAATTTAAAATAAAT
23317617 TTAAATTT--AATAAAT
1 TTAAATTTAAAATAAAT
*
23317632 CTAAATTTAAAATAAAT
1 TTAAATTTAAAATAAAT
* *
23317649 TTAACTTTAACATAAAT
1 TTAAATTTAAAATAAAT
* *
23317666 TTAATTTTAAAATGAAT
1 TTAAATTTAAAATAAAT
23317683 TT
1 TT
23317685 CAAAATGATT
Statistics
Matches: 83, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
15 13 0.16
17 57 0.69
18 13 0.16
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:23318108 original size:92 final size:92
Alignment explanation
Indices: 23317951--23318901 Score: 1697
Period size: 92 Copynumber: 10.2 Consensus size: 92
23317941 GAGGTTTTAT
* *
23317951 CTTCAGAGAGATAAAGGTTCAG-TATCCAACTTTACTATAACTTCAAAAGGATAAGAATTGACAT
1 CTTCAGAGAGATAAAGATTC-GTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACAT
23318015 TTGAAAATTCATCTTGCTCTTACTATAA
65 TTGAAAATTCATCTTGCTCTTACTATAA
*
23318043 CTTCAAAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
23318108 TGAAAATTCATCTTGCTCTTACTATAACTTCAATAA
66 TGAAAATTCATCTTG--C-T-CT-T-AC-T--ATAA
23318144 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
*
23318209 TGAAAATTCATCTTGCTCATACTATAA
66 TGAAAATTCATCTTGCTCTTACTATAA
23318236 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
*
23318301 TGAAAATTCATCCTGCTCTTACTATAA
66 TGAAAATTCATCTTGCTCTTACTATAA
* *
23318328 CTTCAGAGAGATAAAGATTTGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAACTGACATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
23318393 TGAAAATTCATCTTGCTCTTACTATAA
66 TGAAAATTCATCTTGCTCTTACTATAA
23318420 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
*
23318485 TGAAAGTTCATCTTGCTCTTACTATAA
66 TGAAAATTCATCTTGCTCTTACTATAA
23318512 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
*
23318577 TGAAAGTTCATCTTGCTCTTACTATAA
66 TGAAAATTCATCTTGCTCTTACTATAA
23318604 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
23318669 TGAAAATTCATCTTGCTCTTACTATAA
66 TGAAAATTCATCTTGCTCTTACTATAA
*
23318696 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTATTATAACTTCAAGAGGATAAGAATTGACATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
*
23318761 TGAAAATTCATCTTGCGCTTACTATAA
66 TGAAAATTCATCTTGCTCTTACTATAA
*
23318788 CTTCAGAGAGATAAAGATTTGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
1 CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
23318853 TGAAAATTCATCTTGCTCTTACTATAA
66 TGAAAATTCATCTTGCTCTTACTATAA
23318880 CTTCAGAGAGATAAAGATTCGT
1 CTTCAGAGAGATAAAGATTCGT
23318902 CGTCGTGGAT
Statistics
Matches: 829, Mismatches: 20, Indels: 20
0.95 0.02 0.02
Matches are distributed among these distances:
91 1 0.00
92 730 0.88
94 2 0.00
95 3 0.00
96 3 0.00
97 2 0.00
98 3 0.00
99 2 0.00
101 83 0.10
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.33
Consensus pattern (92 bp):
CTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACATT
TGAAAATTCATCTTGCTCTTACTATAA
Found at i:23327030 original size:30 final size:30
Alignment explanation
Indices: 23326979--23327138 Score: 220
Period size: 29 Copynumber: 5.4 Consensus size: 30
23326969 CTTGGGGATA
*
23326979 AAAATGTAATTTTGG-AAAGTTTTAGGGTC
1 AAAATATAATTTTGGAAAAGTTTTAGGGTC
* ***
23327008 AAAATGTAATTTACAAAAAGTTTTAGGGTC
1 AAAATATAATTTTGGAAAAGTTTTAGGGTC
*
23327038 AAAATATAATTTT-GAAAAGTTTTGGGGTC
1 AAAATATAATTTTGGAAAAGTTTTAGGGTC
23327067 AAAATATAATTTTGGAAAAG-TTTAGGGTC
1 AAAATATAATTTTGGAAAAGTTTTAGGGTC
*
23327096 TAAATATAATTTTGGAAAAG-TTTAGGTGTC
1 AAAATATAATTTTGGAAAAGTTTTAGG-GTC
23327126 AAAATATAATTTT
1 AAAATATAATTTT
23327139 TGGATAGTTT
Statistics
Matches: 118, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
29 72 0.61
30 46 0.39
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (30 bp):
AAAATATAATTTTGGAAAAGTTTTAGGGTC
Found at i:23327048 original size:59 final size:58
Alignment explanation
Indices: 23326979--23327137 Score: 212
Period size: 59 Copynumber: 2.7 Consensus size: 58
23326969 CTTGGGGATA
* *
23326979 AAAATGTAATTTTGGAAAGTTTTAGGGTCAAAATGTAATTTACAAAAAGTTTTAGGGTC
1 AAAATATAATTTTGGAAAGTTTTAGGGTCAAAATATAATTTACAAAAAG-TTTAGGGTC
* * ***
23327038 AAAATATAATTTTGAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTAGGGTC
1 AAAATATAATTTTGGAAAGTTTTAGGGTCAAAATATAATTTACAAAAAGTTTAGGGTC
*
23327096 TAAATATAATTTTGGAAAAG-TTTAGGTGTCAAAATATAATTT
1 AAAATATAATTTTGG-AAAGTTTTAGG-GTCAAAATATAATTT
23327138 TTGGATAGTT
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
58 27 0.31
59 61 0.69
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.37
Consensus pattern (58 bp):
AAAATATAATTTTGGAAAGTTTTAGGGTCAAAATATAATTTACAAAAAGTTTAGGGTC
Found at i:23327138 original size:59 final size:58
Alignment explanation
Indices: 23326957--23327152 Score: 211
Period size: 59 Copynumber: 3.3 Consensus size: 58
23326947 GCAAAAATGG
* * * * *
23326957 AATTTTGGAAAA-CTTGGGGATAAAAATGTAATTTTGG-AAAGTTTTAGGGTCAAAATGT
1 AATTTTGGAAAAGTTTAGGG-TCAAAATATAATTTTGGAAAAG-TTTAGGGTCAAAATAT
*** *
23327015 AATTTACAAAAAGTTTTAGGGTCAAAATATAATTTT-GAAAAGTTTTGGGGTCAAAATAT
1 AATTTTGGAAAAG-TTTAGGGTCAAAATATAATTTTGGAAAAG-TTTAGGGTCAAAATAT
*
23327074 AATTTTGGAAAAGTTTAGGGTCTAAATATAATTTTGGAAAAGTTTAGGTGTCAAAATAT
1 AATTTTGGAAAAGTTTAGGGTCAAAATATAATTTTGGAAAAGTTTAGG-GTCAAAATAT
*
23327133 AATTTTTGG-ATAGTTTAGGG
1 AA-TTTTGGAAAAGTTTAGGG
23327153 ACCTTTAGGG
Statistics
Matches: 117, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
58 36 0.31
59 70 0.60
60 11 0.09
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.37
Consensus pattern (58 bp):
AATTTTGGAAAAGTTTAGGGTCAAAATATAATTTTGGAAAAGTTTAGGGTCAAAATAT
Found at i:23327148 original size:30 final size:29
Alignment explanation
Indices: 23326957--23327152 Score: 211
Period size: 29 Copynumber: 6.7 Consensus size: 29
23326947 GCAAAAATGG
* * * *
23326957 AATTTTGGAAAA-CTTGGGGATAAAAATGT
1 AATTTTGGAAAAGTTTAGGG-TCAAAATAT
*
23326986 AATTTTGG-AAAGTTTTAGGGTCAAAATGT
1 AATTTTGGAAAAG-TTTAGGGTCAAAATAT
***
23327015 AATTTACAAAAAGTTTTAGGGTCAAAATAT
1 AATTTTGGAAAAG-TTTAGGGTCAAAATAT
*
23327045 AATTTT-GAAAAGTTTTGGGGTCAAAATAT
1 AATTTTGGAAAAG-TTTAGGGTCAAAATAT
*
23327074 AATTTTGGAAAAGTTTAGGGTCTAAATAT
1 AATTTTGGAAAAGTTTAGGGTCAAAATAT
23327103 AATTTTGGAAAAGTTTAGGTGTCAAAATAT
1 AATTTTGGAAAAGTTTAGG-GTCAAAATAT
*
23327133 AATTTTTGG-ATAGTTTAGGG
1 AA-TTTTGGAAAAGTTTAGGG
23327153 ACCTTTAGGG
Statistics
Matches: 147, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
28 3 0.02
29 82 0.56
30 56 0.38
31 6 0.04
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.37
Consensus pattern (29 bp):
AATTTTGGAAAAGTTTAGGGTCAAAATAT
Found at i:23327883 original size:2 final size:2
Alignment explanation
Indices: 23327876--23327914 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
23327866 TATTATTTAT
23327876 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23327915 TTTAAAACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23328347 original size:21 final size:21
Alignment explanation
Indices: 23328300--23328349 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
23328290 TTGATGCTTT
23328300 TATTT-AAAATTAATTAATAC
1 TATTTAAAAATTAATTAATAC
23328320 TATTTAAAACATTAATTAATAC
1 TATTTAAAA-ATTAATTAATAC
23328342 -ATTTAAAA
1 TATTTAAAA
23328350 TATTCAATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.18
21 11 0.39
22 12 0.43
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (21 bp):
TATTTAAAAATTAATTAATAC
Found at i:23329049 original size:18 final size:17
Alignment explanation
Indices: 23329016--23329139 Score: 76
Period size: 17 Copynumber: 7.3 Consensus size: 17
23329006 GGACACTATA
23329016 TTAAATTTATAA-TAATT
1 TTAAATTTA-AATTAATT
*
23329033 TTAAAATTTACATTAATT
1 TT-AAATTTAAATTAATT
* * *
23329051 CTAAACTTAAATTAAAT
1 TTAAATTTAAATTAATT
*
23329068 TTAAATTT-AA-TAAAT
1 TTAAATTTAAATTAATT
* * *
23329083 CTAAATTTAAAATAAAT
1 TTAAATTTAAATTAATT
* *
23329100 TTAACTTTAACA-TAAAT
1 TTAAATTTAA-ATTAATT
* *
23329117 TTAATTTTAAAATAAATT
1 TTAAATTT-AAATTAATT
23329135 TTAAA
1 TTAAA
23329140 ATGATTTGGC
Statistics
Matches: 86, Mismatches: 14, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
15 12 0.14
16 4 0.05
17 47 0.55
18 23 0.27
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAATTTAAATTAATT
Found at i:23329071 original size:6 final size:6
Alignment explanation
Indices: 23329047--23329127 Score: 50
Period size: 6 Copynumber: 14.3 Consensus size: 6
23329037 AATTTACATT
* *
23329047 AATTCTA AACTTA AA-TTA AATTTA AATTT- AA--TA AATCTA AATTTA
1 AATT-TA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* * *
23329092 AA-ATA AATTTA ACTTTA ACA--TA AATTTA ATTTTA AA
1 AATTTA AATTTA AATTTA A-ATTTA AATTTA AATTTA AA
23329128 ATAAATTTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
3 1 0.02
4 3 0.05
5 14 0.24
6 37 0.64
7 3 0.05
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (6 bp):
AATTTA
Found at i:23329071 original size:11 final size:11
Alignment explanation
Indices: 23329052--23329135 Score: 55
Period size: 11 Copynumber: 7.6 Consensus size: 11
23329042 ACATTAATTC
*
23329052 TAAACTTAAAT
1 TAAATTTAAAT
23329063 TAAATTTAAAT
1 TAAATTTAAAT
*
23329074 TTAA--TAAAT
1 TAAATTTAAAT
*
23329083 CTAAATTTAAAA
1 -TAAATTTAAAT
*
23329095 TAAATTTAACT
1 TAAATTTAAAT
* **
23329106 TTAACATAAATT
1 TAAATTTAAA-T
* *
23329118 TAATTTTAAAA
1 TAAATTTAAAT
23329129 TAAATTT
1 TAAATTT
23329136 TAAAATGATT
Statistics
Matches: 53, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
9 5 0.09
10 3 0.06
11 34 0.64
12 11 0.21
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (11 bp):
TAAATTTAAAT
Found at i:23329087 original size:15 final size:15
Alignment explanation
Indices: 23329063--23329092 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23329053 AAACTTAAAT
*
23329063 TAAATTTAAATTTAA
1 TAAATCTAAATTTAA
23329078 TAAATCTAAATTTAA
1 TAAATCTAAATTTAA
23329093 AATAAATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
TAAATCTAAATTTAA
Found at i:23330335 original size:18 final size:19
Alignment explanation
Indices: 23330300--23330335 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
23330290 TTCATAATAT
23330300 ATATAAATCTAGAAAAAAC
1 ATATAAATCTAGAAAAAAC
*
23330319 ATATAAAT-TATAAAAAA
1 ATATAAATCTAGAAAAAA
23330336 TTATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.25
Consensus pattern (19 bp):
ATATAAATCTAGAAAAAAC
Found at i:23330340 original size:17 final size:17
Alignment explanation
Indices: 23330282--23330342 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
23330272 AATAAAATAT
* *
23330282 ATTATAAATTCATAATAT
1 ATTATAAATT-ATAAAAA
*
23330300 A-TATAAATCTAGAAAAA
1 ATTATAAAT-TATAAAAA
*
23330317 ACATATAAATTATAAAAA
1 A-TTATAAATTATAAAAA
23330335 ATTATAAA
1 ATTATAAA
23330343 AATAAAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
17 18 0.51
18 10 0.29
19 7 0.20
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.33
Consensus pattern (17 bp):
ATTATAAATTATAAAAA
Found at i:23330464 original size:8 final size:8
Alignment explanation
Indices: 23330448--23330486 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
23330438 CAAATATTTT
23330448 TTATAAAA
1 TTATAAAA
*
23330456 TTCTAAAA
1 TTATAAAA
*
23330464 -TATATAA
1 TTATAAAA
23330471 TTATAAAA
1 TTATAAAA
23330479 TTATAAAA
1 TTATAAAA
23330487 CGTAATTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
7 5 0.19
8 21 0.81
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (8 bp):
TTATAAAA
Found at i:23337491 original size:69 final size:67
Alignment explanation
Indices: 23337374--23337505 Score: 192
Period size: 69 Copynumber: 1.9 Consensus size: 67
23337364 ATAAACAATA
* ** * *
23337374 TAATGGTTTTGCCTTTTAACTTAATGAGTAAACATTTATTAAAACGACGTAGTTTTTCCTTTTAA
1 TAATGGTTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACGACGTAGTTTTACCTTTTAA
23337439 CT
66 CT
*
23337441 TAATGGTTTTGACTTTTAACTTTAGAAAAGTAAATATTTATCAAAACGACGTAGTTTTACCTTTT
1 TAATGGTTTTGACTTTTAAC-TTA-AAAAGTAAACATTTATCAAAACGACGTAGTTTTACCTTTT
23337506 TTTATTTGGA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
67 19 0.33
68 3 0.05
69 35 0.61
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (67 bp):
TAATGGTTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACGACGTAGTTTTACCTTTTAA
CT
Found at i:23337757 original size:27 final size:26
Alignment explanation
Indices: 23337680--23337759 Score: 70
Period size: 27 Copynumber: 3.0 Consensus size: 26
23337670 AACCTCAAGG
* * *
23337680 TTCAAGGTTTGGGGTTGAGATTTAAGA
1 TTCAAGGTTT-AGGTTTAGATTTGAGA
* * * *
23337707 TTTAAGGTTTTGATTTTGAGTTTGAGA
1 TTCAAGGTTTAGGTTTAGA-TTTGAGA
23337734 TTCAAGGTTTAGGTTTAAGATTTGAG
1 TTCAAGGTTTAGGTTT-AGATTTGAG
23337760 TTTAACGTTT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
26 5 0.12
27 34 0.83
28 2 0.05
ACGTcount: A:0.25, C:0.03, G:0.29, T:0.44
Consensus pattern (26 bp):
TTCAAGGTTTAGGTTTAGATTTGAGA
Found at i:23338396 original size:41 final size:41
Alignment explanation
Indices: 23338315--23338540 Score: 287
Period size: 41 Copynumber: 5.6 Consensus size: 41
23338305 TTTCCATAAA
* * * *
23338315 CGCCGCAAAAGGT-AAAGCAATAGC-G-GCTTATGGGAAAG
1 CGCCGCTAAAGGTCAGAGCATTAGCGGCGCTTATGAGAAAG
* *
23338353 CGCCGCTAAAGGTCAGAGCATTAGCGGCGCTCATGGGAAAG
1 CGCCGCTAAAGGTCAGAGCATTAGCGGCGCTTATGAGAAAG
* * * *
23338394 CGCTGCTAAAGATCAGAGCATTAGCAGCGCTTATGTGAAAG
1 CGCCGCTAAAGGTCAGAGCATTAGCGGCGCTTATGAGAAAG
* *
23338435 CGCCGTTAAAGGTCAGAGCATTAACGGCGCTTATGAGAAAG
1 CGCCGCTAAAGGTCAGAGCATTAGCGGCGCTTATGAGAAAG
* *
23338476 CGCCGCTAAAGGTCAGAGTATTAGCGGAGCTTATGAGAAAG
1 CGCCGCTAAAGGTCAGAGCATTAGCGGCGCTTATGAGAAAG
* *
23338517 TGCCGCTAAAGGTCAAAGCATTAG
1 CGCCGCTAAAGGTCAGAGCATTAG
23338541 TGACACTTTC
Statistics
Matches: 163, Mismatches: 22, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
38 12 0.07
39 9 0.06
40 1 0.01
41 141 0.87
ACGTcount: A:0.32, C:0.20, G:0.30, T:0.18
Consensus pattern (41 bp):
CGCCGCTAAAGGTCAGAGCATTAGCGGCGCTTATGAGAAAG
Found at i:23338559 original size:82 final size:80
Alignment explanation
Indices: 23338272--23338570 Score: 225
Period size: 82 Copynumber: 3.7 Consensus size: 80
23338262 TTTGGACAGA
* * * * * * *
23338272 AAAG-GCCGCAAAAGGT-AAAGCAATAGTGACG-TTTTTCCATAAACGCCGCAAAAGGT-AAAGC
1 AAAGCGCCGCTAAAGGTCAAAGCATTAGCGACGCTTTAT-CATAAGCGCCGCTAAAGGTCAGAGC
* *
23338333 AATAGCGGCTTATGGG
65 ATTAGCGGCTTATGAG
* * * * * *
23338349 AAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCGC-TCATGGGA-AAGCGCTGCTAAAGATCAGAG
1 AAAGCGCCGCTAAAGGTCAAAGCATTAGCGACGCTTTAT--CATAAGCGCCGCTAAAGGTCAGAG
*
23338412 CATTAGCAGCGCTTATGTG
64 CATTAGC-G-GCTTATGAG
* * * * * * *
23338431 AAAGCGCCGTTAAAGGTCAGAGCATTAACGGCGC-TTATGAGAAAGCGCCGCTAAAGGTCAGAGT
1 AAAGCGCCGCTAAAGGTCAAAGCATTAGCGACGCTTTATCA-TAAGCGCCGCTAAAGGTCAGAGC
23338495 ATTAGCGGAGCTTATGAG
65 ATTAGC-G-GCTTATGAG
* * * * *
23338513 AAAGTGCCGCTAAAGGTCAAAGCATTAGTGACACTTTCTCATAAGCGCCGTTAAAGGT
1 AAAGCGCCGCTAAAGGTCAAAGCATTAGCGACGCTTTATCATAAGCGCCGCTAAAGGT
23338571 TAAGCAATAG
Statistics
Matches: 176, Mismatches: 36, Indels: 15
0.78 0.16 0.07
Matches are distributed among these distances:
77 4 0.02
78 11 0.06
79 25 0.14
80 12 0.07
81 1 0.01
82 119 0.68
83 4 0.02
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (80 bp):
AAAGCGCCGCTAAAGGTCAAAGCATTAGCGACGCTTTATCATAAGCGCCGCTAAAGGTCAGAGCA
TTAGCGGCTTATGAG
Found at i:23338559 original size:123 final size:123
Alignment explanation
Indices: 23338340--23338570 Score: 313
Period size: 123 Copynumber: 1.9 Consensus size: 123
23338330 AGCAATAGCG
* * * *
23338340 GCTTATGGGAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCGCTCATGGGAAAGCGCTGCTAAAG
1 GCTTATGAGAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGAGCTCATGAGAAAGCGCCGCTAAAG
* * * *
23338405 ATCAGAGCATTAGCAGCGCTTATGTGAAAGCGCCGTTAAAGGTCAGAGCATTAACGGC
66 ATCAAAGCATTAGCAGCACTTATCTCAAAGCGCCGTTAAAGGTCAGAGCATTAACGGC
* * *
23338463 GCTTATGAGAAAGCGCCGCTAAAGGTCAGAGTATTAGCGGAGCTTATGAGAAAGTGCCGCTAAAG
1 GCTTATGAGAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGAGCTCATGAGAAAGCGCCGCTAAAG
* *
23338528 GTCAAAGCATTAG-TGACACTT-TCTCATAAGCGCCGTTAAAGGT
66 ATCAAAGCATTAGCAG-CACTTATCTCA-AAGCGCCGTTAAAGGT
23338571 TAAGCAATAG
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
122 4 0.04
123 89 0.96
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (123 bp):
GCTTATGAGAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGAGCTCATGAGAAAGCGCCGCTAAAG
ATCAAAGCATTAGCAGCACTTATCTCAAAGCGCCGTTAAAGGTCAGAGCATTAACGGC
Found at i:23338696 original size:26 final size:26
Alignment explanation
Indices: 23338660--23338712 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
23338650 ATTAACAATT
*
23338660 ATTTTAAAACTTATATAAACTTAAAA
1 ATTTTAAAACTTATATAAACTAAAAA
23338686 ATTTTAAAACTTATATAAACTAAAAA
1 ATTTTAAAACTTATATAAACTAAAAA
23338712 A
1 A
23338713 AATTAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.36
Consensus pattern (26 bp):
ATTTTAAAACTTATATAAACTAAAAA
Found at i:23338718 original size:26 final size:26
Alignment explanation
Indices: 23338663--23338719 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
23338653 AACAATTATT
* **
23338663 TTAAAACTTATATAAACTTAAAAATT
1 TTAAAACTTATATAAACTAAAAAAAA
23338689 TTAAAACTTATATAAACTAAAAAAAA
1 TTAAAACTTATATAAACTAAAAAAAA
23338715 TTAAA
1 TTAAA
23338720 TTATTTTGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (26 bp):
TTAAAACTTATATAAACTAAAAAAAA
Found at i:23341958 original size:43 final size:43
Alignment explanation
Indices: 23341910--23342147 Score: 226
Period size: 43 Copynumber: 5.5 Consensus size: 43
23341900 AAAACATCGT
* * * *
23341910 TAAAGAACATGTTCTATAACGGCGTTTTTGGGAAAAGCACCGC
1 TAAAGAACATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * *
23341953 TAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAGAAGCGTCGC
1 TAAAGAACATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * * ** **
23341996 TAAAGATCAAGGTATTTAGCGGCGTTTGTGGGTGAAGCGTTGC
1 TAAAGAACATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* *
23342039 TAAAGAACATGGTT-TTTAGCGGTGTTTGTGGGAAAAGCACCGC
1 TAAAGAACAT-GTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * ** *
23342082 TAAAAAATATGATCTTTAATGGCGTTTGTGAGAAAAGCGCCGC
1 TAAAGAACATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* *
23342125 TAAAGACCATGTTCTATAGCGGC
1 TAAAGAACATGTTCTTTAGCGGC
23342148 ATTTTTCCAT
Statistics
Matches: 157, Mismatches: 36, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
42 2 0.01
43 153 0.97
44 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.28
Consensus pattern (43 bp):
TAAAGAACATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:23342145 original size:129 final size:129
Alignment explanation
Indices: 23341910--23342147 Score: 300
Period size: 129 Copynumber: 1.8 Consensus size: 129
23341900 AAAACATCGT
* * * *
23341910 TAAAGAACATGTTCTATAACGGCGTTTTTGGGAAAAGCACCGCTAAAGATCATGGTCTTTAGCGG
1 TAAAGAACATGTTCTATAACGGCGTTTGTGGGAAAAGCACCGCTAAAAATCATGATCTTTAACGG
* * * * *
23341975 CGTTTGTGGGAGAAGCGTCGCTAAAGATCAAGGTATTTAGCGGCGTTTGTGGGTGAAGCGTTGC
66 CGTTTGTGAGAAAAGCGCCGCTAAAGACCAAGGTATATAGCGGCGTTTGTGGGTGAAGCGTTGC
* * * *
23342039 TAAAGAACATGGTT-TTTAGCGGTGTTTGTGGGAAAAGCACCGCTAAAAAAT-ATGATCTTTAAT
1 TAAAGAACAT-GTTCTATAACGGCGTTTGTGGGAAAAGCACCGCT-AAAAATCATGATCTTTAAC
* * *
23342102 GGCGTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTCTATAGCGGC
64 GGCGTTTGTGAGAAAAGCGCCGCTAAAGACCAAGGTATATAGCGGC
23342148 ATTTTTCCAT
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
129 83 0.91
130 8 0.09
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.28
Consensus pattern (129 bp):
TAAAGAACATGTTCTATAACGGCGTTTGTGGGAAAAGCACCGCTAAAAATCATGATCTTTAACGG
CGTTTGTGAGAAAAGCGCCGCTAAAGACCAAGGTATATAGCGGCGTTTGTGGGTGAAGCGTTGC
Found at i:23347933 original size:16 final size:16
Alignment explanation
Indices: 23347912--23347953 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
23347902 GGTTTATATA
23347912 TATATTGGATTGAGTT
1 TATATTGGATTGAGTT
23347928 TATATTGGATTGAGTT
1 TATATTGGATTGAGTT
23347944 TATATTGGAT
1 TATATTGGAT
23347954 AGGAGCTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (16 bp):
TATATTGGATTGAGTT
Found at i:23348619 original size:15 final size:15
Alignment explanation
Indices: 23348599--23348633 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
23348589 TAACATGGTC
23348599 GATCATCTTTTCAGG
1 GATCATCTTTTCAGG
23348614 GATCATCTTTTCAGG
1 GATCATCTTTTCAGG
23348629 G-TCAT
1 GATCAT
23348634 GAAGTGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (15 bp):
GATCATCTTTTCAGG
Found at i:23348868 original size:44 final size:43
Alignment explanation
Indices: 23348818--23348948 Score: 131
Period size: 43 Copynumber: 3.0 Consensus size: 43
23348808 CCGCAAAAAA
*
23348818 TAGCGGCG-TTTATGCGAAAAAGTGCCGCGAAAGGCCATGTTCTT
1 TAGCGGCGCTTT-TGC-AAAAAGCGCCGCGAAAGGCCATGTTCTT
* * * *
23348862 TAGCGGCGCTTTTTCCACAAGCGCCGCTAAAGGCCATGTTCTT
1 TAGCGGCGCTTTTGCAAAAAGCGCCGCGAAAGGCCATGTTCTT
* * * * *
23348905 TAGCGGCGCTTTCT-CCACAAGCACCGCTAAAGACCATGTTCTT
1 TAGCGGCGCTTT-TGCAAAAAGCGCCGCGAAAGGCCATGTTCTT
23348948 T
1 T
23348949 TGAAAAAGCA
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
43 64 0.82
44 11 0.14
45 3 0.04
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (43 bp):
TAGCGGCGCTTTTGCAAAAAGCGCCGCGAAAGGCCATGTTCTT
Found at i:23348894 original size:43 final size:43
Alignment explanation
Indices: 23348841--23348948 Score: 180
Period size: 43 Copynumber: 2.5 Consensus size: 43
23348831 GCGAAAAAGT
* *
23348841 GCCGCGAAAGGCCATGTTCTTTAGCGGCGCTTTTTCCACAAGC
1 GCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTCTCCACAAGC
23348884 GCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTCTCCACAAGC
1 GCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTCTCCACAAGC
* *
23348927 ACCGCTAAAGACCATGTTCTTT
1 GCCGCTAAAGGCCATGTTCTTT
23348949 TGAAAAAGCA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.27
Consensus pattern (43 bp):
GCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTCTCCACAAGC
Found at i:23349393 original size:65 final size:65
Alignment explanation
Indices: 23349284--23349435 Score: 223
Period size: 65 Copynumber: 2.3 Consensus size: 65
23349274 ACTTGCCTCG
* * * * *
23349284 CTGCTGCCTCCACTTTAAGTTGTAGGTGGAGTTCTTCATATTTTTTTGAGACTCTGCTTCTTTCA
1 CTGCAGCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTGAGACTCTGCTTCTCTCA
* * * *
23349349 CTGCAGCCTCCTCTTTAAGTTTTAGATGGAGTTCATCATATTTTTTTGAGCCTCTTCTTCTCTCG
1 CTGCAGCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTGAGACTCTGCTTCTCTCA
23349414 CTGCAGCCTCCTCTTTAAGTTG
1 CTGCAGCCTCCTCTTTAAGTTG
23349436 AGCAATTTGC
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 77 1.00
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.43
Consensus pattern (65 bp):
CTGCAGCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTGAGACTCTGCTTCTCTCA
Found at i:23354916 original size:33 final size:31
Alignment explanation
Indices: 23354869--23354942 Score: 94
Period size: 33 Copynumber: 2.3 Consensus size: 31
23354859 TGATTTAAAT
* *
23354869 TTAAAAATATATATTGGTGACAACATTATAC
1 TTAAATATTTATATTGGTGACAACATTATAC
* *
23354900 TTTAAATCATTTATATTTGTGACAACATTTTAC
1 -TTAAAT-ATTTATATTGGTGACAACATTATAC
23354933 TTAAATATTT
1 TTAAATATTT
23354943 GGGCTGTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 4 0.11
32 11 0.30
33 22 0.59
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (31 bp):
TTAAATATTTATATTGGTGACAACATTATAC
Found at i:23354969 original size:8 final size:8
Alignment explanation
Indices: 23354956--23355049 Score: 65
Period size: 8 Copynumber: 11.8 Consensus size: 8
23354946 CTGTTTTTAT
23354956 TAATTAAA
1 TAATTAAA
23354964 TAATTAAA
1 TAATTAAA
*
23354972 T-ATTTAA
1 TAATTAAA
23354979 T--TTAATA
1 TAATTAA-A
23354986 TAATTAAA
1 TAATTAAA
23354994 TAATTAAA
1 TAATTAAA
* *
23355002 T-CTT--T
1 TAATTAAA
23355007 TCAATTAAA
1 T-AATTAAA
23355016 TAATTAAA
1 TAATTAAA
23355024 TAAGCTTAAA
1 TAA--TTAAA
23355034 TAATTATATA
1 TAATTA-A-A
23355044 TAATTA
1 TAATTA
23355050 TTTACGACCA
Statistics
Matches: 69, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
5 1 0.01
6 3 0.04
7 12 0.17
8 32 0.46
9 6 0.09
10 15 0.22
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (8 bp):
TAATTAAA
Found at i:23354990 original size:30 final size:29
Alignment explanation
Indices: 23354956--23355035 Score: 99
Period size: 30 Copynumber: 2.6 Consensus size: 29
23354946 CTGTTTTTAT
23354956 TAATTAAATAATTAAATATTT-AATTTAATA
1 TAATTAAATAATTAAATATTTCAA-TTAA-A
*
23354986 TAATTAAATAATTAAATCTTTTCAATTAAA
1 TAATTAAATAATTAAAT-ATTTCAATTAAA
23355016 TAATTAAATAAGCTTAAATA
1 TAATTAAATAA--TTAAATA
23355036 ATTATATATA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
30 29 0.66
31 7 0.16
32 8 0.18
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (29 bp):
TAATTAAATAATTAAATATTTCAATTAAA
Found at i:23354991 original size:22 final size:20
Alignment explanation
Indices: 23354954--23355000 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
23354944 GGCTGTTTTT
23354954 ATTAATTAAATAATTAAATA
1 ATTAATTAAATAATTAAATA
*
23354974 TTTAATTTAATATAATTAAATA
1 ATTAA-TTAA-ATAATTAAATA
23354996 ATTAA
1 ATTAA
23355001 ATCTTTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 4 0.17
22 15 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTAATTAAATAATTAAATA
Found at i:23355105 original size:18 final size:18
Alignment explanation
Indices: 23355078--23355717 Score: 163
Period size: 18 Copynumber: 36.3 Consensus size: 18
23355068 GTTAAATAGT
*
23355078 TAATTAAATATAATTAAA
1 TAATTTAATATAATTAAA
* **
23355096 AAATTTAATATAATTATT
1 TAATTTAATATAATTAAA
*
23355114 TACTTTAATATAATTAAA
1 TAATTTAATATAATTAAA
* *
23355132 TAA-TTAA-AT-CTT--T
1 TAATTTAATATAATTAAA
* **
23355145 TAACTTAATATAATTATT
1 TAATTTAATATAATTAAA
*
23355163 TACTTTAATATAATTAAA
1 TAATTTAATATAATTAAA
* *
23355181 TAATTAAATCTTTTAACTTAAA
1 TAATTTAA---TATAA-TTAAA
**
23355203 T-ATTTAAT-TAA-TCGA
1 TAATTTAATATAATTAAA
*
23355218 TAGTGTT--TATAATTAAA
1 TAAT-TTAATATAATTAAA
* *
23355235 TACATAATTAAACATGATTAAA
1 TA-AT--TT-AATATAATTAAA
**
23355257 TAATTTAATATAATTATT
1 TAATTTAATATAATTAAA
*
23355275 TAGTTTAATATAATTAAA
1 TAATTTAATATAATTAAA
* *
23355293 TAA-TT-ATAT-CTT--T
1 TAATTTAATATAATTAAA
* **
23355306 TAAATTAATATAATTATT
1 TAATTTAATATAATTAAA
*
23355324 TACTTTAATATAATTAAA
1 TAATTTAATATAATTAAA
* *
23355342 TAA-TTAA-AT-CTT--T
1 TAATTTAATATAATTAAA
* **
23355355 TAACTTAATATAATTATT
1 TAATTTAATATAATTAAA
*
23355373 TACTTTAATATAATTAAA
1 TAATTTAATATAATTAAA
* *
23355391 TAATTAAATCTTTTAACTTAAA
1 TAATTTAA---TATAA-TTAAA
**
23355413 T-ATTTAAT-TAA-TCGA
1 TAATTTAATATAATTAAA
*
23355428 TAGTGTT--TATAATTAAA
1 TAAT-TTAATATAATTAAA
* *
23355445 TACATAATTAAACATGATTAAA
1 TA-AT--TT-AATATAATTAAA
**
23355467 TAATTTAATATAATTATT
1 TAATTTAATATAATTAAA
*
23355485 TAGTTTAATATAATTAAA
1 TAATTTAATATAATTAAA
* *
23355503 TAA-TT-ATAT-CTT--T
1 TAATTTAATATAATTAAA
* **
23355516 TAAATTAATATAATTATT
1 TAATTTAATATAATTAAA
*
23355534 TACTTTAATATAATTAAA
1 TAATTTAATATAATTAAA
* *
23355552 TAA-TTAA-AT-CTT--T
1 TAATTTAATATAATTAAA
* **
23355565 TAACTTAATATAATTATT
1 TAATTTAATATAATTAAA
*
23355583 TACTTTAATATAATTAAA
1 TAATTTAATATAATTAAA
* *
23355601 TAATTAAATCTTTTAACTTAAA
1 TAATTTAA---TATAA-TTAAA
**
23355623 T-ATTTAAT-TAA-TCGA
1 TAATTTAATATAATTAAA
*
23355638 TAGTGTT--TATAATTAAA
1 TAAT-TTAATATAATTAAA
* *
23355655 TACATAATTAAACATGATTAAA
1 TA-AT--TT-AATATAATTAAA
* **
23355677 TAATTTAATGTAATTATT
1 TAATTTAATATAATTAAA
*
23355695 TACTTTAATATAATTAAA
1 TAATTTAATATAATTAAA
23355713 TAATT
1 TAATT
23355718 AAATCTTTTA
Statistics
Matches: 447, Mismatches: 111, Indels: 128
0.65 0.16 0.19
Matches are distributed among these distances:
13 15 0.03
14 16 0.04
15 36 0.08
16 36 0.08
17 43 0.10
18 208 0.47
19 12 0.03
21 33 0.07
22 48 0.11
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (18 bp):
TAATTTAATATAATTAAA
Found at i:23355162 original size:49 final size:49
Alignment explanation
Indices: 23355100--23355845 Score: 643
Period size: 49 Copynumber: 14.1 Consensus size: 49
23355090 ATTAAAAAAT
23355100 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
23355149 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
* * * * * *
23355198 TTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA-CATGATTAAATAAT
1 TT-AATA--TAATT-AT--TTACT-TTAAT-A-TAATTAAATAATTAAATC-T--TT---TAAC
* * *
23355261 TTAATATAATTATTTAGTTTAATATAATTAAATAATTATATCTTTTAAA
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
23355310 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
23355359 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
* * * * * *
23355408 TTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA-CATGATTAAATAAT
1 TT-AATA--TAATT-AT--TTACT-TTAAT-A-TAATTAAATAATTAAATC-T--TT---TAAC
* * *
23355471 TTAATATAATTATTTAGTTTAATATAATTAAATAATTATATCTTTTAAA
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
23355520 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
23355569 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
* * * * * *
23355618 TTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA-CATGATTAAATAAT
1 TT-AATA--TAATT-AT--TTACT-TTAAT-A-TAATTAAATAATTAAATC-T--TT---TAAC
*
23355681 TTAATGTAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
* * * * * * *
23355730 TTAAGTATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATCATTAAATAAT
1 TTAA-TA--TAATT-AT--TTACT-TTAAT-A-TAATTAAATAATT-AA-ATC-TT--TTAAC
*
23355793 TTAATGTAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
23355842 TTAA
1 TTAA
23355846 ATATTTAATT
Statistics
Matches: 576, Mismatches: 59, Indels: 124
0.76 0.08 0.16
Matches are distributed among these distances:
49 265 0.46
50 13 0.02
51 2 0.00
52 29 0.05
53 10 0.02
54 54 0.09
55 19 0.03
56 32 0.06
57 21 0.04
58 56 0.10
59 10 0.02
60 29 0.05
61 2 0.00
62 12 0.02
63 22 0.04
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (49 bp):
TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
Found at i:23355245 original size:161 final size:157
Alignment explanation
Indices: 23355069--23355888 Score: 560
Period size: 161 Copynumber: 5.1 Consensus size: 157
23355059 ACATTTTAAG
**
23355069 TTAAATAGTTAATTAAATATAATTAAAAAATTTAATATAATTATTTACTTTAATATAATTAAATA
1 TTAAATAAATAATTAAATATAATT-AAAAATTTAATATAATTATTTACTTTAATATAATTAAATA
23355134 ATTAAATCTTTTAACTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACT
65 ATTAAATCTTTTAACTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACT
*
23355199 TAAATATTTAATTAATCGATAGTGTTTATAA
130 TAAATATTTAATTAAT--ATACT-TTTATAA
* * * *
23355230 TTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATA
1 TTAAATAAATAATTAAATATAATTAAA-AATTTAATATAATTATTTACTTTAATATAATTAAATA
* *
23355295 ATTATATCTTTTAAATTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACT
65 ATTAAATCTTTTAACTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACT
* *
23355360 T-AATA--TAATT-ATTTACTTTAAT-A
130 TAAATATTTAATTAATATACTTTTATAA
* * * * * ** *
23355383 -TAATTAAATAATTAAATCTTTTAACTTAAATATTTAAT-TAATCGATAGTGTTTATAAT-TAAA
1 TTAAATAAATAATTAAA---TATAA-TTAAAAATTTAATATAAT-TAT-TTACTT-TAATATAAT
* * *
23355445 TACATAATTAAA-CATGATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTA
59 TAAATAATTAAATC-T--TT---TAACTTAATATAATTATTTACTTTAATATAATTAAATAATTA
* * * *
23355509 TATCTTTTAAATT-AATA--TAATT-ATTTACTTTAAT-A
118 AATCTTTTAACTTAAATATTTAATTAATATACTTTTATAA
* * * *
23355544 -TAATTAAATAATTAAATCT--TT--TAACTTAATATAATTATTTACTTTAATATAATTAAATAA
1 TTAAATAAATAATTAAATATAATTAAAAATTTAATATAATTATTTACTTTAATATAATTAAATAA
* * * * *
23355604 TTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA-C
66 TTAAATCTTTTAACTT-AATA--TAATT-AT--TTACT-TTAAT-A-TAATTAAATAATTAAATC
* * *
23355668 --ATGA-TTAAATAATTTAATGTAAT-TA-TTTACTTTAA
122 TTTTAACTTAAAT-ATTTAAT-TAATATACTTT--TATAA
* * ** * * **
23355703 TATAATTAAATAATTAAATCTTTTAACTTAAGTATTTAAT-TAATCGATAGTGTTTATAAT-TAA
1 T-TAAATAAATAATTAAA---TATAA-TTAAAAATTTAATATAAT-TAT-TTACTT-TAATATAA
* * * * *
23355766 ATACATAATTAAACATCATTAAATAATTTAATGTAATTATTTACTTTAATATAATTAAATAATTA
58 TTAAATAATT-AA-ATC-TT--TTAACTTAATATAATTATTTACTTTAATATAATTAAATAATTA
23355831 AATCTTTTAACTTAAATATTTAATTAATCGATACTGTTTATAA
118 AATCTTTTAACTTAAATATTTAATTAAT--ATACT-TTTATAA
*
23355874 TTAAATACATAATTA
1 TTAAATAAATAATTA
23355889 TTTAATTATT
Statistics
Matches: 527, Mismatches: 70, Indels: 115
0.74 0.10 0.16
Matches are distributed among these distances:
147 5 0.01
148 4 0.01
150 7 0.01
151 6 0.01
152 34 0.06
153 19 0.04
154 17 0.03
155 19 0.04
156 42 0.08
157 9 0.02
158 12 0.02
159 1 0.00
160 7 0.01
161 225 0.43
164 2 0.00
166 14 0.03
167 4 0.01
168 12 0.02
169 20 0.04
170 32 0.06
171 15 0.03
172 9 0.02
173 4 0.01
174 3 0.01
175 5 0.01
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (157 bp):
TTAAATAAATAATTAAATATAATTAAAAATTTAATATAATTATTTACTTTAATATAATTAAATAA
TTAAATCTTTTAACTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTT
AAATATTTAATTAATATACTTTTATAA
Found at i:23355334 original size:210 final size:210
Alignment explanation
Indices: 23355100--23355888 Score: 1335
Period size: 210 Copynumber: 3.7 Consensus size: 210
23355090 ATTAAAAAAT
23355100 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTATTTA
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTATTTA
23355165 CTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAA
66 CTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAA
23355230 TTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATA
131 TTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATA
23355295 ATTATATCTTTTAAA
196 ATTATATCTTTTAAA
23355310 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTATTTA
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTATTTA
23355375 CTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAA
66 CTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAA
23355440 TTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATA
131 TTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATA
23355505 ATTATATCTTTTAAA
196 ATTATATCTTTTAAA
23355520 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTATTTA
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTATTTA
23355585 CTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAA
66 CTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAA
* *
23355650 TTAAATACATAATTAAACATGATTAAATAATTTAATGTAATTATTTACTTTAATATAATTAAATA
131 TTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATA
* *
23355715 ATTAAATCTTTTAAC
196 ATTATATCTTTTAAA
* * * * * * *
23355730 TTAAGTATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATCATTAAATAATTT
1 TTAA-TA--TAATT-AT--TTACT-TTAAT-A-TAATTAAATAATT-AA-ATC-TT--TTAACTT
*
23355795 AATGTAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATC
52 AATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATC
*
23355860 GATACTGTTTATAATTAAATACATAATTA
117 GATAGTGTTTATAATTAAATACATAATTA
23355889 TTTAATTATT
Statistics
Matches: 552, Mismatches: 13, Indels: 14
0.95 0.02 0.02
Matches are distributed among these distances:
210 420 0.76
211 2 0.00
213 5 0.01
214 2 0.00
216 3 0.01
217 4 0.01
218 1 0.00
219 11 0.02
220 2 0.00
221 3 0.01
222 2 0.00
224 97 0.18
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (210 bp):
TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTATTTA
CTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAA
TTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATA
ATTATATCTTTTAAA
Found at i:23355633 original size:26 final size:24
Alignment explanation
Indices: 23355551--23355625 Score: 66
Period size: 26 Copynumber: 3.1 Consensus size: 24
23355541 ATATAATTAA
23355551 ATAATTAAATCTTTTAACTT-AAT
1 ATAATTAAATCTTTTAACTTAAAT
** *
23355574 ATAATTATTTAC-TTTAA-TATAATTAA
1 ATAATTAAAT-CTTTTAACT-TAA--AT
23355600 ATAATTAAATCTTTTAACTTAAAT
1 ATAATTAAATCTTTTAACTTAAAT
23355624 AT
1 AT
23355626 TTAATTAATC
Statistics
Matches: 39, Mismatches: 6, Indels: 13
0.67 0.10 0.22
Matches are distributed among these distances:
22 1 0.03
23 14 0.36
24 5 0.13
25 1 0.03
26 17 0.44
27 1 0.03
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (24 bp):
ATAATTAAATCTTTTAACTTAAAT
Found at i:23355694 original size:112 final size:112
Alignment explanation
Indices: 23355569--23355888 Score: 604
Period size: 112 Copynumber: 2.9 Consensus size: 112
23355559 ATCTTTTAAC
*
23355569 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAA
1 TTAATGTAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAA
*
23355634 TCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAAT
66 TCGATAGTGTTTATAATTAAATACATAATTAAACATCATTAAATAAT
*
23355681 TTAATGTAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAGTATTTAATTAA
1 TTAATGTAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAA
23355746 TCGATAGTGTTTATAATTAAATACATAATTAAACATCATTAAATAAT
66 TCGATAGTGTTTATAATTAAATACATAATTAAACATCATTAAATAAT
23355793 TTAATGTAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAA
1 TTAATGTAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAA
*
23355858 TCGATACTGTTTATAATTAAATACATAATTA
66 TCGATAGTGTTTATAATTAAATACATAATTA
23355889 TTTAATTATT
Statistics
Matches: 203, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 203 1.00
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (112 bp):
TTAATGTAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAA
TCGATAGTGTTTATAATTAAATACATAATTAAACATCATTAAATAAT
Found at i:23355804 original size:18 final size:18
Alignment explanation
Indices: 23355783--23355829 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
23355773 ATTAAACATC
*
23355783 ATTAAATAATTTAATGTA
1 ATTAAATAATTTAATATA
** *
23355801 ATTATTTACTTTAATATA
1 ATTAAATAATTTAATATA
23355819 ATTAAATAATT
1 ATTAAATAATT
23355830 AAATCTTTTA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
ATTAAATAATTTAATATA
Found at i:23357757 original size:292 final size:292
Alignment explanation
Indices: 23357393--23357977 Score: 1116
Period size: 292 Copynumber: 2.0 Consensus size: 292
23357383 GATCGATCAA
*
23357393 TTAATAGTTTTCAAGTAGCCTCTCGAGCAACTTAAAGACTGAGTATAAATACTTAAGTAAGACCT
1 TTAATAGTTTTCAAGTAGCCTCTCGAGCAACTTAAAGACCGAGTATAAATACTTAAGTAAGACCT
23357458 CCTTTCTCTTTCTCTCTACACTCTCAATTTTGTTACTAGCCTATATTGTATGGCTTCCTTACTTC
66 CCTTTCTCTTTCTCTCTACACTCTCAATTTTGTTACTAGCCTATATTGTATGGCTTCCTTACTTC
*
23357523 GGGTAGGGAAAACAGATTGATCACTTGACAAACCAACATACTAAGATGGCTAGAGGACCGATCAA
131 GGGTAGGGAAAACAGACTGATCACTTGACAAACCAACATACTAAGATGGCTAGAGGACCGATCAA
23357588 GTTGCAATCTTTAGGTAGCCCCTTGAGCAACTTAAAAGATCAATACAAATACCCAAATATGACCT
196 GTTGCAATCTTTAGGTAGCCCCTTGAGCAACTTAAAAGATCAATACAAATACCCAAATATGACCT
23357653 CCTTTCTTTACCGTAAATATCATGTAAAACAG
261 CCTTTCTTTACCGTAAATATCATGTAAAACAG
23357685 TTAATAGTTTTCAAGTAGCCTCTCGAGCAACTTAAAGACCGAGTATAAATACTTAAGTAAGACCT
1 TTAATAGTTTTCAAGTAGCCTCTCGAGCAACTTAAAGACCGAGTATAAATACTTAAGTAAGACCT
*
23357750 CCTTTCTCTTTCTCTCTACACTCTCAGTTTTGTTACTAGCCTATATTGTATGGCTTCCTTACTTC
66 CCTTTCTCTTTCTCTCTACACTCTCAATTTTGTTACTAGCCTATATTGTATGGCTTCCTTACTTC
*
23357815 GGGTAGGGAAAACAGACTGATCACTTGACAAACCAACATACTAAGATGGCTAGAGGATCGATCAA
131 GGGTAGGGAAAACAGACTGATCACTTGACAAACCAACATACTAAGATGGCTAGAGGACCGATCAA
*
23357880 GTTGCAATCTTTAGGTAGCCCTTTGAGCAACTTAAAAGATCAATACAAATACCCAAATATGACCT
196 GTTGCAATCTTTAGGTAGCCCCTTGAGCAACTTAAAAGATCAATACAAATACCCAAATATGACCT
*
23357945 CCTTTCTTTGCCGTAAATATCATGTAAAACAG
261 CCTTTCTTTACCGTAAATATCATGTAAAACAG
23357977 T
1 T
23357978 ATGATTACAG
Statistics
Matches: 287, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
292 287 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (292 bp):
TTAATAGTTTTCAAGTAGCCTCTCGAGCAACTTAAAGACCGAGTATAAATACTTAAGTAAGACCT
CCTTTCTCTTTCTCTCTACACTCTCAATTTTGTTACTAGCCTATATTGTATGGCTTCCTTACTTC
GGGTAGGGAAAACAGACTGATCACTTGACAAACCAACATACTAAGATGGCTAGAGGACCGATCAA
GTTGCAATCTTTAGGTAGCCCCTTGAGCAACTTAAAAGATCAATACAAATACCCAAATATGACCT
CCTTTCTTTACCGTAAATATCATGTAAAACAG
Found at i:23358232 original size:41 final size:41
Alignment explanation
Indices: 23358178--23358520 Score: 363
Period size: 41 Copynumber: 8.4 Consensus size: 41
23358168 GCTTTCTATA
** *
23358178 TAAGCGCCGCTAATGACATGACCTTTAGCGGCGTTTGTGGG
1 TAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTGTGGG
* *
23358219 TAAGCGCCGCTAATGACTCC-ACTTTTAGCGGCGCTTG-CGG
1 TAAGCGCCGCTAATGAC-CCGACCTTTAGCGGCGCTTGTGGG
* * * *
23358259 TGAAGCGCCGCTAATGACCCAACCATTAGCGGCCCTTGTGGC
1 T-AAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTGTGGG
* * **
23358301 TAAGCGCCGCTAATGACCCGACTTTTAGTGGCGCTTGTGTC
1 TAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTGTGGG
* * * *
23358342 TAAGCGCCGCTAATAACCCGACTTTTAGTGGCGCTT-T-TG
1 TAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTGTGGG
* * **
23358381 TAAAGCGCCGCTAATGACCCGACTTTTAGTGGCGCTTGTGTC
1 T-AAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTGTGGG
*** **
23358423 TAAGCGCCGCTAATGAGTTGACCTTTAATGGCGCTTGTGGG
1 TAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTGTGGG
* *
23358464 TAAAGCGCCGCTAAAGACCCGACCTTTAGCGGCGCTT-TGTG
1 T-AAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTGTGGG
23358505 TAAGCGCCGCTAATGA
1 TAAGCGCCGCTAATGA
23358521 TTTACCTTTT
Statistics
Matches: 259, Mismatches: 35, Indels: 17
0.83 0.11 0.05
Matches are distributed among these distances:
39 2 0.01
40 54 0.21
41 170 0.66
42 33 0.13
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.26
Consensus pattern (41 bp):
TAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTGTGGG
Found at i:23358511 original size:163 final size:163
Alignment explanation
Indices: 23358220--23358518 Score: 406
Period size: 163 Copynumber: 1.8 Consensus size: 163
23358210 GTTTGTGGGT
23358220 AAGCGCCGCTAATGACTCCACTTTTAGCGGCGCTTGCGGTGAAGCGCCGCTAATGACCCAACCAT
1 AAGCGCCGCTAATGACTCCACTTTTAGCGGCGCTTGCGGTGAAGCGCCGCTAATGACCCAACCAT
* * * *
23358285 TAGCGGCCCTTGTGGCTAAGCGCCGCTAATGACCCGACTTTTAGTGGCGCTTGTGTCTAAGCGCC
66 TAACGGCCCTTGTGGCTAAGCGCCGCTAAAGACCCGACCTTTAGCGGCGCTTGTGTCTAAGCGCC
23358350 GCTAATAACCCGACTTTTAGTGGCGCTTTTGTA
131 GCTAATAACCCGACTTTTAGTGGCGCTTTTGTA
* * * ****
23358383 AAGCGCCGCTAATGAC-CCGACTTTTAGTGGCGCTTG-TGTCTAAGCGCCGCTAATGAGTTGACC
1 AAGCGCCGCTAATGACTCC-ACTTTTAGCGGCGCTTGCGGT-GAAGCGCCGCTAATGACCCAACC
* * * * *
23358446 TTTAATGGCGCTTGTGGGTAAAGCGCCGCTAAAGACCCGACCTTTAGCGGCGCTT-TGTGTAAGC
64 ATTAACGGCCCTTGTGGCT-AAGCGCCGCTAAAGACCCGACCTTTAGCGGCGCTTGTGTCTAAGC
23358510 GCCGCTAAT
128 GCCGCTAAT
23358519 GATTTACCTT
Statistics
Matches: 117, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
162 4 0.03
163 81 0.69
164 32 0.27
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.26
Consensus pattern (163 bp):
AAGCGCCGCTAATGACTCCACTTTTAGCGGCGCTTGCGGTGAAGCGCCGCTAATGACCCAACCAT
TAACGGCCCTTGTGGCTAAGCGCCGCTAAAGACCCGACCTTTAGCGGCGCTTGTGTCTAAGCGCC
GCTAATAACCCGACTTTTAGTGGCGCTTTTGTA
Found at i:23358530 original size:123 final size:124
Alignment explanation
Indices: 23358178--23358520 Score: 421
Period size: 123 Copynumber: 2.8 Consensus size: 124
23358168 GCTTTCTATA
* * *
23358178 TAAGCGCCGCTAATGACATGACCTTTAGCGGCGTTTGTGGGTAAGCGCCGCTAATGACTCC-ACT
1 TAAGCGCCGCTAATGACATGACCTTTAGTGGCGCTTGTGGGTAAGCGCCGCTAAAGAC-CCGACT
* * *
23358242 TTTAGCGGCGC-TTGCGGTGAAGCGCCGCTAATGACCCAACC-ATTAGCGGCCCTTGTGGC
65 TTTAGCGGCGCTTTG-TGTAAAGCGCCGCTAATGACCCAACCTTTTAGCGGCCCTTGTGGC
** * **
23358301 TAAGCGCCGCTAATGACCCGACTTTTAGTGGCGCTTGTGTCTAAGCGCCGCTAATA-ACCCGACT
1 TAAGCGCCGCTAATGACATGACCTTTAGTGGCGCTTGTGGGTAAGCGCCGCTAA-AGACCCGACT
* * * * *
23358365 TTTAGTGGCGCTTT-TGTAAAGCGCCGCTAATGACCCGA-CTTTTAGTGGCGCTTGTGTC
65 TTTAGCGGCGCTTTGTGTAAAGCGCCGCTAATGACCCAACCTTTTAGCGGCCCTTGTGGC
** * *
23358423 TAAGCGCCGCTAATGAGTTGACCTTTAATGGCGCTTGTGGGTAAAGCGCCGCTAAAGACCCGACC
1 TAAGCGCCGCTAATGACATGACCTTTAGTGGCGCTTGTGGGT-AAGCGCCGCTAAAGACCCGACT
23358488 TTTAGCGGCGCTTTGTGT-AAGCGCCGCTAATGA
65 TTTAGCGGCGCTTTGTGTAAAGCGCCGCTAATGA
23358521 TTTACCTTTT
Statistics
Matches: 188, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
121 1 0.01
122 73 0.39
123 109 0.58
124 5 0.03
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.26
Consensus pattern (124 bp):
TAAGCGCCGCTAATGACATGACCTTTAGTGGCGCTTGTGGGTAAGCGCCGCTAAAGACCCGACTT
TTAGCGGCGCTTTGTGTAAAGCGCCGCTAATGACCCAACCTTTTAGCGGCCCTTGTGGC
Found at i:23358551 original size:163 final size:163
Alignment explanation
Indices: 23358220--23358579 Score: 374
Period size: 163 Copynumber: 2.2 Consensus size: 163
23358210 GTTTGTGGGT
23358220 AAGCGCCGCTAATGACTCCACTTTTAGCGGCGCTTGCGGTGAAGCGCCGCTAATGACCCAACCAT
1 AAGCGCCGCTAATGACTCCACTTTTAGCGGCGCTTGCGGTGAAGCGCCGCTAATGACCCAACCAT
* * * *
23358285 TAGCGGCCCTTGTGGCTAAGCGCCGCTAATGACCCGACTTTTAGTGGCGCTTGTGTCTAAGCGCC
66 TAACGGCCCTTGTGGCTAAGCGCCGCTAAAGACCCGACCTTTAGCGGCGCTTGTGTCTAAGCGCC
* * ** *
23358350 GCTAATAACCCGACTTTTAGTGGCGCTTTTGTA
131 GCTAATAACCCGACTTTTAGCGGCACTTAGGAA
* * * ****
23358383 AAGCGCCGCTAATGAC-CCGACTTTTAGTGGCGCTTG-TGTCTAAGCGCCGCTAATGAGTTGACC
1 AAGCGCCGCTAATGACTCC-ACTTTTAGCGGCGCTTGCGGT-GAAGCGCCGCTAATGACCCAACC
* * * * *
23358446 TTTAATGGCGCTTGTGGGTAAAGCGCCGCTAAAGACCCGACCTTTAGCGGCGCTT-TGTGTAAGC
64 ATTAACGGCCCTTGTGGCT-AAGCGCCGCTAAAGACCCGACCTTTAGCGGCGCTTGTGTCTAAGC
* ***
23358510 GCCGCTAATGA-TTTACCTTTT-GCGGCACATTAGGAA
128 GCCGCTAATAACCCGA-CTTTTAGCGGCAC-TTAGGAA
* *
23358546 AAGCGCTGCTAATG-CTTCACCTTTT-GCGGCGCTT
1 AAGCGCCGCTAATGACTCCA-CTTTTAGCGGCGCTT
23358580 TGTGTCCAAA
Statistics
Matches: 162, Mismatches: 28, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
162 20 0.12
163 110 0.68
164 32 0.20
ACGTcount: A:0.20, C:0.27, G:0.26, T:0.27
Consensus pattern (163 bp):
AAGCGCCGCTAATGACTCCACTTTTAGCGGCGCTTGCGGTGAAGCGCCGCTAATGACCCAACCAT
TAACGGCCCTTGTGGCTAAGCGCCGCTAAAGACCCGACCTTTAGCGGCGCTTGTGTCTAAGCGCC
GCTAATAACCCGACTTTTAGCGGCACTTAGGAA
Found at i:23362763 original size:12 final size:12
Alignment explanation
Indices: 23362742--23362774 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
23362732 AGAAATAGGA
*
23362742 AGAAGAAGAAGC
1 AGAAGCAGAAGC
23362754 AGAAGCAGAAGC
1 AGAAGCAGAAGC
23362766 AGAAGCAGA
1 AGAAGCAGA
23362775 TGAGGAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.55, C:0.12, G:0.33, T:0.00
Consensus pattern (12 bp):
AGAAGCAGAAGC
Found at i:23367428 original size:59 final size:59
Alignment explanation
Indices: 23367360--23367790 Score: 479
Period size: 59 Copynumber: 7.4 Consensus size: 59
23367350 TGGATACCCG
* * * *
23367360 GGGGCAAAATGGTAATTTTTGGTGAAATCGGGGTTGAAAATGGAATTTTAGAAAATTTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTA
* * *
23367419 GGGGTAAAATGGTAA-TTTTGGTGAAATCGAGGTT-AAAATGGAATCTTGGAAAG-TTC
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTA
* * **
23367475 GAGGGTAAAATGGTAA-TTTTGGTGAAATCGGGATTAAAAATGGAATTTTGGAGAGTTCG
1 G-GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTA
* * *
23367534 GGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTT-AAAATGGAATTTTAGAAAGTTCA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTA
* * * *
23367592 AGGGTAAAATGGTAATTTTT-G-GAAGTTTTGGGGTCAAAAATGGAATTTTGGAAAGTTTA
1 GGGGTAAAATGGTAATTTTTGGTGAA--ATCGGGGTTAAAAATGGAATTTTGGAAAGTTTA
* * *
23367651 GGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATAGAATTTTGGAAAGTTTG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTA
* ** * * *
23367710 GGGGTAAAATGGTAATTTTT-G-GAAGTTTTAGGGTCAAAAATGGAATTTTCTGAAA-TTTT
1 GGGGTAAAATGGTAATTTTTGGTGAA--ATCGGGGTTAAAAATGGAATTTT-GGAAAGTTTA
23367769 GGGGTTAAAAT-GTAATTTTTGG
1 GGGG-TAAAATGGTAATTTTTGG
23367791 ACTATTTGGG
Statistics
Matches: 325, Mismatches: 33, Indels: 27
0.84 0.09 0.07
Matches are distributed among these distances:
56 6 0.02
57 51 0.16
58 96 0.30
59 157 0.48
60 12 0.04
61 3 0.01
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTA
Found at i:23367596 original size:29 final size:29
Alignment explanation
Indices: 23367365--23367789 Score: 183
Period size: 29 Copynumber: 14.6 Consensus size: 29
23367355 ACCCGGGGGC
*
23367365 AAAATGGTAATTTTTGGTGAAA--TCGGGGTT
1 AAAATGGTAA-TTTT--TGAAAGTTCAGGGTT
* * * *
23367395 GAAAATGG-AATTTTAGAAAATTTAGGGGT
1 -AAAATGGTAATTTTTGAAAGTTCAGGGTT
23367424 AAAATGGTAATTTTGGTGAAA--TC-GAGGTT
1 AAAATGGTAATTTT--TGAAAGTTCAG-GGTT
* *
23367453 AAAATGG-AATCTTGGAAAGTTCGAGGG-T
1 AAAATGGTAATTTTTGAAAGTTC-AGGGTT
23367481 AAAATGGTAATTTTGGTGAAA--TC-GGGATT
1 AAAATGGTAATTTT--TGAAAGTTCAGGG-TT
* * * *
23367510 AAAAATGG-AATTTTGGAGAGTTCGGGGGT
1 -AAAATGGTAATTTTTGAAAGTTCAGGGTT
*
23367539 AAAATGGTAATTTTTGGTGAAA-TT-GGGGTT
1 AAAATGGTAA-TTTT--TGAAAGTTCAGGGTT
*
23367569 AAAATGG-AATTTTAGAAAGTTCAAGGG-T
1 AAAATGGTAATTTTTGAAAGTTC-AGGGTT
* ** *
23367597 AAAATGGTAATTTTTGGAAGTTTTGGGGTCA
1 AAAATGGTAATTTTTGAAAG-TTCAGGGT-T
* * *
23367628 AAAATGG-AATTTTGGAAAGTTTAGGGGT
1 AAAATGGTAATTTTTGAAAGTTCAGGGTT
*
23367656 AAAATGGTAATTTTTGGTGAAA-TT-GGGGTT
1 AAAATGGTAA-TTTT--TGAAAGTTCAGGGTT
* * ** *
23367686 AAAAATAG-AATTTTGGAAAGTTTGGGGGT
1 -AAAATGGTAATTTTTGAAAGTTCAGGGTT
* * *
23367715 AAAATGGTAATTTTTGGAAGTTTTAGGGTCA
1 AAAATGGTAATTTTTGAAAG-TTCAGGGT-T
* **
23367746 AAAATGG-AATTTTCTGAAATTTTGGGGTT
1 AAAATGGTAATTTT-TGAAAGTTCAGGGTT
23367775 AAAAT-GTAATTTTTG
1 AAAATGGTAATTTTTG
23367790 GACTATTTGG
Statistics
Matches: 307, Mismatches: 45, Indels: 87
0.70 0.10 0.20
Matches are distributed among these distances:
26 8 0.03
27 16 0.05
28 60 0.20
29 103 0.34
30 70 0.23
31 43 0.14
32 7 0.02
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.35
Consensus pattern (29 bp):
AAAATGGTAATTTTTGAAAGTTCAGGGTT
Found at i:23369273 original size:28 final size:28
Alignment explanation
Indices: 23369219--23369274 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
23369209 GAAAAAAGGG
* *
23369219 TTTGTATATTGATTTTAAGAACGGGGTT
1 TTTGTATATCGATTTTAAGAACAGGGTT
* *
23369247 TTTGTATATCGATTTTGAGAATAGGGTT
1 TTTGTATATCGATTTTAAGAACAGGGTT
23369275 CGTAACCCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.25, C:0.04, G:0.25, T:0.46
Consensus pattern (28 bp):
TTTGTATATCGATTTTAAGAACAGGGTT
Found at i:23370228 original size:7 final size:7
Alignment explanation
Indices: 23370218--23370251 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
23370208 AAAAGAAAAA
23370218 AAGAAGG
1 AAGAAGG
23370225 AAGAAGG
1 AAGAAGG
23370232 AAGAAGG
1 AAGAAGG
*
23370239 AAGGA-G
1 AAGAAGG
23370245 AAGAAGG
1 AAGAAGG
23370252 GAAAGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (7 bp):
AAGAAGG
Found at i:23370237 original size:14 final size:13
Alignment explanation
Indices: 23370218--23370261 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 13
23370208 AAAAGAAAAA
23370218 AAGAAGGAAGAAGG
1 AAGAAGGAAGAA-G
*
23370232 AAGAAGGAAGGAG
1 AAGAAGGAAGAAG
*
23370245 AAGAAGGGA-AAG
1 AAGAAGGAAGAAG
23370257 AAGAA
1 AAGAA
23370262 AAATGTAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 7 0.26
13 9 0.33
14 11 0.41
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (13 bp):
AAGAAGGAAGAAG
Found at i:23370436 original size:12 final size:12
Alignment explanation
Indices: 23370421--23370451 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
23370411 TTAATTAATT
*
23370421 TTTTAAGTTTAA
1 TTTTAAATTTAA
23370433 TTTTAAATTTAA
1 TTTTAAATTTAA
23370445 TTTTAAA
1 TTTTAAA
23370452 ATATTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (12 bp):
TTTTAAATTTAA
Done.