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 74 of 120
Found at i:21711253 original size:33 final size:35
Alignment explanation
Indices: 21711216--21711291 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 35
21711206 ATGATTTTAA
21711216 AATTATTATT-TT-TTAGAAACAA-CACAAATATTT
1 AATTATTATTATTATTAGAAACAATC-CAAATATTT
* *
21711249 AATTATTTTTAATTATTAGAAACAATCTAAATATTT
1 AATTATTATT-ATTATTAGAAACAATCCAAATATTT
21711285 AATTATT
1 AATTATT
21711292 TAATTATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
33 9 0.24
35 2 0.05
36 25 0.68
37 1 0.03
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.46
Consensus pattern (35 bp):
AATTATTATTATTATTAGAAACAATCCAAATATTT
Found at i:21711287 original size:26 final size:25
Alignment explanation
Indices: 21711256--21711347 Score: 87
Period size: 26 Copynumber: 3.4 Consensus size: 25
21711246 TTTAATTATT
21711256 TTTAATTATTAGAAACAATCTAAATA
1 TTTAATTATTA-AAACAATCTAAATA
*
21711282 TTTAATTATTTAATTATATTTAAT-TAAATA
1 TTTAATTA-TTAA--A-A--CAATCTAAATA
*
21711312 TTTAATTATTAAAAACAATCCAAATA
1 TTTAATTATT-AAAACAATCTAAATA
21711338 TTTAATTATT
1 TTTAATTATT
21711348 TAATTATTTA
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
25 3 0.05
26 24 0.44
27 4 0.07
28 2 0.04
29 3 0.05
30 16 0.29
31 3 0.05
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (25 bp):
TTTAATTATTAAAACAATCTAAATA
Found at i:21711292 original size:44 final size:45
Alignment explanation
Indices: 21711288--21711430 Score: 195
Period size: 42 Copynumber: 3.2 Consensus size: 45
21711278 AATATTTAAT
* *
21711288 TATTTAATTATATTTAATTAAATATTTAATTATTAAAAACAATCCAAA
1 TATTTAA-T-TATTTAATT-ATTATTTAATTATTAAAAACAACCCAAA
* *
21711336 TATTTAATTATTT-A--ATTATTTAATTATTAAAATCAACCTAAA
1 TATTTAATTATTTAATTATTATTTAATTATTAAAAACAACCCAAA
21711378 TATTTAATTATTTAATT-TTATTTAATTATTAAAAACAACCCAAA
1 TATTTAATTATTTAATTATTATTTAATTATTAAAAACAACCCAAA
21711422 TATTTAATT
1 TATTTAATT
21711431 CAAAATGAAT
Statistics
Matches: 86, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
42 37 0.43
43 1 0.01
44 34 0.40
45 1 0.01
46 5 0.06
47 1 0.01
48 7 0.08
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (45 bp):
TATTTAATTATTTAATTATTATTTAATTATTAAAAACAACCCAAA
Found at i:21711322 original size:56 final size:54
Alignment explanation
Indices: 21711243--21711361 Score: 179
Period size: 56 Copynumber: 2.2 Consensus size: 54
21711233 AACAACACAA
* * *
21711243 ATATTTAATT-ATTTTTAATTATTAGAAACAATCTAAATATTTAATTATTTAATT
1 ATATTTAATTAATATTTAATTATTAAAAACAATCCAAATATTTAATTATTTAA-T
21711297 ATATTTAATTAAATATTTAATTATTAAAAACAATCCAAATATTTAATTATTTAAT
1 ATATTTAATT-AATATTTAATTATTAAAAACAATCCAAATATTTAATTATTTAAT
21711352 -TATTTAATTA
1 ATATTTAATTA
21711362 TTAAAATCAA
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
53 1 0.02
54 19 0.32
55 1 0.02
56 39 0.65
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (54 bp):
ATATTTAATTAATATTTAATTATTAAAAACAATCCAAATATTTAATTATTTAAT
Found at i:21711349 original size:8 final size:8
Alignment explanation
Indices: 21711336--21711407 Score: 63
Period size: 8 Copynumber: 8.5 Consensus size: 8
21711326 ACAATCCAAA
21711336 TATTTAAT
1 TATTTAAT
21711344 TATTTAAT
1 TATTTAAT
21711352 TATTTAAT
1 TATTTAAT
*
21711360 TATTAAAAT
1 TATT-TAAT
* ** *
21711369 CAACCTAAA
1 -TATTTAAT
21711378 TATTTAAT
1 TATTTAAT
21711386 TATTTAATTT
1 TATTTAA--T
21711396 TATTTAAT
1 TATTTAAT
21711404 TATT
1 TATT
21711408 AAAAACAACC
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
8 36 0.72
9 5 0.10
10 9 0.18
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (8 bp):
TATTTAAT
Found at i:21711382 original size:34 final size:34
Alignment explanation
Indices: 21711241--21711394 Score: 124
Period size: 34 Copynumber: 4.6 Consensus size: 34
21711231 GAAACAACAC
21711241 AAATATTTAATTATTTTTAATTATTAGAAA-CAATCT
1 AAATATTTAATTA--TTTAATTATTA-AAATCAATCT
* *
21711277 AAATATTTAATTATTTAATTA-T--ATTTAAT-T
1 AAATATTTAATTATTTAATTATTAAAATCAATCT
* ** ** *
21711307 AAATATTTAATTATTAAAAACAATCCAAAT--ATTT
1 AAATATTTAATTATT--TAATTATTAAAATCAATCT
* *
21711341 AATTATTTAATTATTTAATTATTAAAATCAACCT
1 AAATATTTAATTATTTAATTATTAAAATCAATCT
21711375 AAATATTTAATTATTTAATT
1 AAATATTTAATTATTTAATT
21711395 TTATTTAATT
Statistics
Matches: 93, Mismatches: 16, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
30 17 0.18
31 3 0.03
32 11 0.12
33 3 0.03
34 44 0.47
35 2 0.02
36 13 0.14
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (34 bp):
AAATATTTAATTATTTAATTATTAAAATCAATCT
Found at i:21711611 original size:6 final size:6
Alignment explanation
Indices: 21711600--21711626 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
21711590 TAGGATGATA
21711600 AAATCT AAATCT AAATCT AAATCT AAA
1 AAATCT AAATCT AAATCT AAATCT AAA
21711627 CATATAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATCT
Found at i:21716500 original size:14 final size:15
Alignment explanation
Indices: 21716464--21716501 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
21716454 GAGAGACCAT
*
21716464 AAAAGTATTTTAAAG
1 AAAAATATTTTAAAG
21716479 AAAGAATATTTT-AAG
1 AAA-AATATTTTAAAG
21716494 AAAAATAT
1 AAAAATAT
21716502 AAGCCTCGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 5 0.24
15 9 0.43
16 7 0.33
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (15 bp):
AAAAATATTTTAAAG
Found at i:21717873 original size:42 final size:43
Alignment explanation
Indices: 21717759--21717888 Score: 199
Period size: 43 Copynumber: 3.0 Consensus size: 43
21717749 TTGTTAATGT
* *
21717759 TAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGAACATGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCTA
*
21717802 TAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCTA
* * *
21717845 TAG-GGCGTTTGTGAGAAAAGCGCAGCTAAAAACCATGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCTA
21717887 TA
1 TA
21717889 ATGGCCGCTA
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
42 37 0.46
43 43 0.54
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCTA
Found at i:21717905 original size:26 final size:26
Alignment explanation
Indices: 21717869--21717919 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
21717859 GAAAAGCGCA
21717869 GCTAAAAACCATGTTCTATAATGGCC
1 GCTAAAAACCATGTTCTATAATGGCC
* *
21717895 GCTAAAGACCATGTTCTATAGTGGC
1 GCTAAAAACCATGTTCTATAATGGC
21717920 GTTTGTGGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (26 bp):
GCTAAAAACCATGTTCTATAATGGCC
Found at i:21717943 original size:69 final size:68
Alignment explanation
Indices: 21717824--21717957 Score: 216
Period size: 69 Copynumber: 2.0 Consensus size: 68
21717814 TGGGAAAAGC
21717824 GCCGCTAAAGACCATGTTCTATAGGGCGTTTGTGAGAAAAGCGCAGCTAAAAACCATGTTCTATA
1 GCCGCTAAAGACCATGTTCTATAGGGCGTTTGTGAGAAAAGCGCAGCTAAAAACCATGTTCTATA
21717889 ATG
66 ATG
* * *
21717892 GCCGCTAAAGACCATGTTCTATAGTGGCGTTTGTGGGAAAAGCGCCA-CTAAAGATCATGTTCTA
1 GCCGCTAAAGACCATGTTCTATAG-GGCGTTTGTGAGAAAAGCG-CAGCTAAAAACCATGTTCTA
21717956 TA
64 TA
21717958 GCGGCATTTT
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
68 24 0.39
69 35 0.57
70 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (68 bp):
GCCGCTAAAGACCATGTTCTATAGGGCGTTTGTGAGAAAAGCGCAGCTAAAAACCATGTTCTATA
ATG
Found at i:21720370 original size:54 final size:54
Alignment explanation
Indices: 21720283--21720392 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
21720273 TCTAAGCACC
*
21720283 GTTAAAGGATGACGAATTCCATGTAGTTTGCAAAACTCATTGAAATCATTGGAA
1 GTTAAAGGATGACGAATTCCATGTAGTTAGCAAAACTCATTGAAATCATTGGAA
*
21720337 GTTAAAGGATGATGAATTCCATGTAGTTAGCAAAACTCATTGAAATCATTGGAA
1 GTTAAAGGATGACGAATTCCATGTAGTTAGCAAAACTCATTGAAATCATTGGAA
21720391 GT
1 GT
21720393 GAATTGGCCT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (54 bp):
GTTAAAGGATGACGAATTCCATGTAGTTAGCAAAACTCATTGAAATCATTGGAA
Found at i:21720641 original size:12 final size:12
Alignment explanation
Indices: 21720624--21720650 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
21720614 AAGAGGCTTG
21720624 GTTGCTCTTGAT
1 GTTGCTCTTGAT
21720636 GTTGCTCTTGAT
1 GTTGCTCTTGAT
21720648 GTT
1 GTT
21720651 ACTTCTTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.26, T:0.52
Consensus pattern (12 bp):
GTTGCTCTTGAT
Found at i:21722669 original size:43 final size:43
Alignment explanation
Indices: 21722605--21722818 Score: 225
Period size: 43 Copynumber: 5.0 Consensus size: 43
21722595 TCTTTATATA
** *
21722605 GTTTGTGGGAAAAGCGTCGCTAAAGACCATATTCTATAGCAGC
1 GTTTGTGGGAAAAGCACCGCTAAAGACCATATTCTATAGCGGC
* *
21722648 GTTTGTGGGAAAAGCACCGCTAAAGACAATGATT-TATAGTGGC
1 GTTTGTGGGAAAAGCACCGCTAAAGACCAT-ATTCTATAGCGGC
* ** ** * * *
21722691 GTTTGTGGGAAAAACGTCTTTAAAAACCATGTTCTTTAGCGGC
1 GTTTGTGGGAAAAGCACCGCTAAAGACCATATTCTATAGCGGC
* * * * *
21722734 GTTTGT-GGAAAAACACTGCTAAAGATCATGTTTTATAGCGGC
1 GTTTGTGGGAAAAGCACCGCTAAAGACCATATTCTATAGCGGC
* *
21722776 GTTTGTGGGAAAAGCACCGCTAAAGATCATATTTTATAGCGGC
1 GTTTGTGGGAAAAGCACCGCTAAAGACCATATTCTATAGCGGC
21722819 ATTTTTTCAC
Statistics
Matches: 141, Mismatches: 27, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
42 35 0.25
43 103 0.73
44 3 0.02
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (43 bp):
GTTTGTGGGAAAAGCACCGCTAAAGACCATATTCTATAGCGGC
Found at i:21722816 original size:85 final size:86
Alignment explanation
Indices: 21722605--21722818 Score: 263
Period size: 85 Copynumber: 2.5 Consensus size: 86
21722595 TCTTTATATA
* * *
21722605 GTTTGTGGGAAAAGCGTCGCTAAAGACCATATTCTATAGCAGCGTTTGTGGGAAAAGCACCGCTA
1 GTTTGTGGGAAAAGCGTCGCTAAAGACCATATTTTATAGCGGCGTTTGTGGGAAAAACACCGCTA
*
21722670 AAGACAATGATTTATAGTGGC
66 AAGACAATGATTTATAGCGGC
* ** * * *
21722691 GTTTGTGGGAAAAACGTCTTTAAAAACCATGTTCTT-TAGCGGCGTTTGT-GGAAAAACACTGCT
1 GTTTGTGGGAAAAGCGTCGCTAAAGACCATATT-TTATAGCGGCGTTTGTGGGAAAAACACCGCT
*
21722754 AAAGATC-ATGTTTTATAGCGGC
65 AAAGA-CAATGATTTATAGCGGC
** *
21722776 GTTTGTGGGAAAAGCACCGCTAAAGATCATATTTTATAGCGGC
1 GTTTGTGGGAAAAGCGTCGCTAAAGACCATATTTTATAGCGGC
21722819 ATTTTTTCAC
Statistics
Matches: 106, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
84 2 0.02
85 62 0.58
86 41 0.39
87 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (86 bp):
GTTTGTGGGAAAAGCGTCGCTAAAGACCATATTTTATAGCGGCGTTTGTGGGAAAAACACCGCTA
AAGACAATGATTTATAGCGGC
Found at i:21723268 original size:69 final size:68
Alignment explanation
Indices: 21723157--21723329 Score: 233
Period size: 69 Copynumber: 2.5 Consensus size: 68
21723147 AACAGTCAAT
21723157 TTCTTCACTATTTTTATTAAAAAGTTAATTTTAATCATACATTGACTAGAGAATAT-TCTCATAG
1 TTCTTCACTATTTTTATTAAAAA-TTAATTTTAATCATACATTGACTAGAGAAT-TCTCTCATAG
**
21723221 CTTGC
64 CTAAC
*
21723226 TTCTTCACTATTTTTATTACAAAATTAATTTTGATC-TCACATTGACTAGAGAATTCTCTCATAG
1 TTCTTCACTATTTTTATTA-AAAATTAATTTTAATCAT-ACATTGACTAGAGAATTCTCTCATAG
21723290 CTAAC
64 CTAAC
* * *
21723295 TTCGATCACCATTTTCATTAAAAATTAATTTTAAT
1 TTC-TTCACTATTTTTATTAAAAATTAATTTTAAT
21723330 TCCTTAAAAA
Statistics
Matches: 93, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
68 2 0.02
69 74 0.80
70 17 0.18
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.43
Consensus pattern (68 bp):
TTCTTCACTATTTTTATTAAAAATTAATTTTAATCATACATTGACTAGAGAATTCTCTCATAGCT
AAC
Found at i:21724886 original size:194 final size:194
Alignment explanation
Indices: 21724558--21725002 Score: 501
Period size: 194 Copynumber: 2.3 Consensus size: 194
21724548 TACTAGTACC
* * *
21724558 CGATGCTGCTCACATGAGCTGTCGAGGACTCGCAACATATACGATACC-CAGCCATCGGCATGGT
1 CGATGCTGCTCACATGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGACATGGT
* * * * * *
21724622 GTTTTTCTGTAAACTGTCCCCTAACGATGTTGCTCACACGAGCTGTCGATAATATGCGTTCAAGC
66 ATTGTGCTATAAACTGTCCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCGTTCAAGC
* * * *
21724687 ATAAATCCCAACCATCGTAGGGCCTATAATCCATT-TTGGATATC-ATATCTC-TTTTTTGACTC
131 ATAAATACCAACCATCGTAAGGCCTATAATCCATTCTTGGA-ATCTATA-CTCATTTCTCGACTC
21724749 A
194 A
* * *
21724750 CGATGCTGATCACATGAGCTAG-CTAGGACTCGCAACATATGCGGTACCTCAGCCATCGATATGG
1 CGATGCTGCTCACATGAGCT-GTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGACATGG
* * * *
21724814 TATCTGTGC-ATATAATTGTTCTCTAACGATGCTGCTCACATGAGCTGTCGAGAATATGTAC-TT
65 TAT-TGTGCTATA-AACTGTCCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATG--CGTT
* * * * *
21724877 -ATGCATAAATATCAGCCATCGTAAGGCCTATAATCCATTCTTGGACTCTTTACTCATTTCTCGA
126 CAAGCATAAATACCAACCATCGTAAGGCCTATAATCCATTCTTGGAATCTATACTCATTTCTCGA
21724941 CTCA
191 CTCA
* * * **
21724945 CAATGCTGCTCATACGAGCTGTCGAGGACTCATAACATATGCGGTACCTCAGCCATCG
1 CGATGCTGCTCACATGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCG
21725003 CGTCGGTTTC
Statistics
Matches: 211, Mismatches: 32, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
192 42 0.20
193 18 0.09
194 82 0.39
195 68 0.32
196 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (194 bp):
CGATGCTGCTCACATGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGACATGGT
ATTGTGCTATAAACTGTCCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCGTTCAAGC
ATAAATACCAACCATCGTAAGGCCTATAATCCATTCTTGGAATCTATACTCATTTCTCGACTCA
Found at i:21728610 original size:21 final size:22
Alignment explanation
Indices: 21728576--21728618 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
21728566 ATTCAAGAAA
* *
21728576 TAGTGCAGACTTCTATCGATAC
1 TAGTGAAGACTTCTACCGATAC
21728598 TAGTGAAG-CTTCTACCGATAC
1 TAGTGAAGACTTCTACCGATAC
21728619 AAGTACATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (22 bp):
TAGTGAAGACTTCTACCGATAC
Found at i:21729580 original size:194 final size:193
Alignment explanation
Indices: 21729238--21729675 Score: 514
Period size: 194 Copynumber: 2.3 Consensus size: 193
21729228 ACCTGATACC
* * * ** *
21729238 GCTCACATGAGCTATTGAGGACTCGCAACATATACGGTACC-CAGCCATCGGAACGGTGTTTGTC
1 GCTCACATGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATC-GAACGGCATCTGTC
* * *
21729302 TATAAACTGTACCCTAACGATATTGCTCACACGAGCTGTCGAGAATATGCGTTCAAGCATAAATC
65 TATAAACTGTACCCTAACGATACTGCTCACACGAGCTGTCGAGAATATGCCTTCAAGCATAAATA
* * *
21729367 CCAACCATCGTAGGGCCTATAATCCATT-TTGGA-T-TTCATATCTCATTT-TTAACTCACGATG
130 CCAACCATCATAAGGCCTATAATCCATTCTTGGACTCTT--TA-CTCATTTCTCAACTCACGATG
21729428 CTA
192 -TA
*
21729431 -CTCACATGAGCTGTCGAGGACTCGTAACATATGCGGTACCTCAGCCATCGATACGGCATCTGTG
1 GCTCACATGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGA-ACGGCATCTGT-
* * * * *
21729495 C-ATATAATTGTTCCCTAACGATGCTGCTCACACGAGTTGTCGAGAATATGCACTT-ATGCATAA
64 CTATA-AACTGTACCCTAACGATACTGCTCACACGAGCTGTCGAGAATATGC-CTTCAAGCATAA
* * *
21729558 ATATCAGCCATCATAAGGCCTATAATCCATTCTTGGACTCTTTACTCATTTCTCGACTCACGATG
127 ATACCAACCATCATAAGGCCTATAATCCATTCTTGGACTCTTTACTCATTTCTCAACTCACGATG
21729623 TA
192 TA
* * * *
21729625 GCTCACACGAGCTGTCGAGGACTCACAAAATATGCGGTACCTCAACCATCG
1 GCTCACATGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCG
21729676 CATTGGTTTC
Statistics
Matches: 209, Mismatches: 26, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
192 38 0.18
193 19 0.09
194 84 0.40
195 65 0.31
196 1 0.00
197 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (193 bp):
GCTCACATGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGAACGGCATCTGTCT
ATAAACTGTACCCTAACGATACTGCTCACACGAGCTGTCGAGAATATGCCTTCAAGCATAAATAC
CAACCATCATAAGGCCTATAATCCATTCTTGGACTCTTTACTCATTTCTCAACTCACGATGTA
Found at i:21732036 original size:2 final size:2
Alignment explanation
Indices: 21732031--21732056 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21732021 AGATATATTT
21732031 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
21732057 AATTATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21734328 original size:194 final size:195
Alignment explanation
Indices: 21733979--21734416 Score: 514
Period size: 194 Copynumber: 2.3 Consensus size: 195
21733969 TACCAGTATC
** * * **
21733979 CGATGCTGCTCACATGAGCTGTCGAGGACTCAC-ACTATATACGGTACC-CAGCCATCGGCACGG
1 CGATGCTGCTCACACAAGCTGTCGAGGACTCACAAC-ATATGCGGTACCTCAGTCATCGATACGG
** * ** * * *
21734042 TGTTTGT-C-TGTAAACTATCCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCATTTA
65 CATCTGTGCACAT-AACTGTTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCACTTA
* * * *
21734105 AGCATAAATCCCAACCAACATAGGGCCTATAATCCATT-TTGGA-T-TTCATATCTC-TTTTTTA
129 AGCATAAATACCAACCAACATAAGGCCTATAATCCATTCTTGGACTCTT--TA-CTCATTTCTCA
21734166 ACTCA
191 ACTCA
* *
21734171 CGATGCTGCTTACACAAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGTCATCGATACGGC
1 CGATGCTGCTCACACAAGCTGTCGAGGACTCACAACATATGCGGTACCTCAGTCATCGATACGGC
* *
21734236 ATCTGTGCACATAACTGTTCCCTAACGATGTTGCTCACACGAGCTGTCGAGAATATGCACTTATG
66 ATCTGTGCACATAACTGTTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCACTTAAG
* * * * *
21734301 CATACATATCAGCCATCATAAGGCCTATAATCCATTCTTGGACTCTTTACTCATTTCTCGACTCA
131 CATAAATACCAACCAACATAAGGCCTATAATCCATTCTTGGACTCTTTACTCATTTCTCAACTCA
* *
21734366 CGATGCTGCTCACACGAGCTGTCGAGGACTCACAACATATGTGGTACCTCA
1 CGATGCTGCTCACACAAGCTGTCGAGGACTCACAACATATGCGGTACCTCA
21734417 ACCATCGCAT
Statistics
Matches: 207, Mismatches: 31, Indels: 13
0.82 0.12 0.05
Matches are distributed among these distances:
192 40 0.19
193 18 0.09
194 82 0.40
195 64 0.31
196 1 0.00
197 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.28
Consensus pattern (195 bp):
CGATGCTGCTCACACAAGCTGTCGAGGACTCACAACATATGCGGTACCTCAGTCATCGATACGGC
ATCTGTGCACATAACTGTTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCACTTAAG
CATAAATACCAACCAACATAAGGCCTATAATCCATTCTTGGACTCTTTACTCATTTCTCAACTCA
Found at i:21736784 original size:2 final size:2
Alignment explanation
Indices: 21736779--21736812 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
21736769 AGATATATTT
21736779 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21736813 AATTATTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21739084 original size:194 final size:195
Alignment explanation
Indices: 21738817--21739172 Score: 513
Period size: 194 Copynumber: 1.8 Consensus size: 195
21738807 GTAAACTATC
* *
21738817 CCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCATTTAAGCATAAATCCCAACCAACAT
1 CCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCACTTAAGCATAAATACCAACCAACAT
* * * *
21738882 AGGGCCTATAATCCATT-TTGGA-T-TTCATATCTC-TTTTTTAACTCACGATGCTGCTTACACA
66 AAGGCCTATAATCCATTCTTGGACTCTT--TA-CTCATTTCTCAACTCACGATGCTGCTCACACA
*
21738943 AGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGTCATCGATACGGCATCTGTGCACATAACT
128 AGCTGTCGAGGACTCACAACATATGCGGTACCTCAGTCATCGATACGGCATCTGTGCACATAACT
21739008 GTT
193 GTT
* * * * * *
21739011 CCCTAACGATGTTGCTCACACGAGCTGTCGAGAATATGCACTTATGCATACATATCAGCCATCAT
1 CCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCACTTAAGCATAAATACCAACCAACAT
* *
21739076 AAGGCCTATAATCCATTCTTGGACTCTTTACTCATTTCTCGACTCACGATGCTGCTCACACGAGC
66 AAGGCCTATAATCCATTCTTGGACTCTTTACTCATTTCTCAACTCACGATGCTGCTCACACAAGC
*
21739141 TGTCGAGGACTCACAACATATGTGGTACCTCA
131 TGTCGAGGACTCACAACATATGCGGTACCTCA
21739173 ACCATCGCAT
Statistics
Matches: 142, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
194 76 0.54
195 63 0.44
196 1 0.01
197 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.28
Consensus pattern (195 bp):
CCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCACTTAAGCATAAATACCAACCAACAT
AAGGCCTATAATCCATTCTTGGACTCTTTACTCATTTCTCAACTCACGATGCTGCTCACACAAGC
TGTCGAGGACTCACAACATATGCGGTACCTCAGTCATCGATACGGCATCTGTGCACATAACTGTT
Found at i:21741257 original size:68 final size:71
Alignment explanation
Indices: 21741149--21741321 Score: 192
Period size: 72 Copynumber: 2.5 Consensus size: 71
21741139 GATAATTTCT
* * * * *
21741149 TTCACTATTTTCATTAAAATTTTAATTTTAAT-TCCTCATTGACCATAGAATACTC-T-CATAAT
1 TTCACTATTTTCATT-AAATATTAATTTTAATCTCCACATTGACCAGAGAAAACTCATGCATAAC
21741211 TCACTTC
65 TCACTTC
* * * *
21741218 TTCATTATTTTCATTAAATATTAATTTTAATCT-CACATTGACTAGAGAAAACTCGAATGTATAG
1 TTCACTATTTTCATTAAATATTAATTTTAATCTCCACATTGACCAGAGAAAACTC--ATGCATAA
21741282 CTCACTTC
64 CTCACTTC
* *
21741290 TTCACTATTTTCATTAAAAAATAATTTTAATC
1 TTCACTATTTTCATTAAATATTAATTTTAATC
21741322 CCTTAAAAAG
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
68 32 0.37
69 15 0.17
71 1 0.01
72 39 0.45
ACGTcount: A:0.35, C:0.17, G:0.05, T:0.43
Consensus pattern (71 bp):
TTCACTATTTTCATTAAATATTAATTTTAATCTCCACATTGACCAGAGAAAACTCATGCATAACT
CACTTC
Found at i:21741329 original size:21 final size:22
Alignment explanation
Indices: 21741303--21741343 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
21741293 ACTATTTTCA
21741303 TTAAAAA-ATAATTTTAATCCC
1 TTAAAAAGATAATTTTAATCCC
21741324 TTAAAAAGATAATTTTAATC
1 TTAAAAAGATAATTTTAATC
21741344 TTAAATTGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.39
Consensus pattern (22 bp):
TTAAAAAGATAATTTTAATCCC
Found at i:21741346 original size:20 final size:20
Alignment explanation
Indices: 21741303--21741348 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
21741293 ACTATTTTCA
21741303 TTAAAAAATAATTTTAATCCC
1 TTAAAAAATAATTTTAAT-CC
21741324 TTAAAAAGATAATTTTAAT-C
1 TTAAAAA-ATAATTTTAATCC
21741344 TTAAA
1 TTAAA
21741349 TTGGCTACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 6 0.25
21 7 0.29
22 11 0.46
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (20 bp):
TTAAAAAATAATTTTAATCC
Found at i:21747378 original size:21 final size:21
Alignment explanation
Indices: 21747352--21747403 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
21747342 TGAGACAATA
21747352 CTACCGATACAAGT-ATGACTT
1 CTACCGATACAAGTCATG-CTT
* *
21747373 CTACCGAAACATGTCATGCTT
1 CTACCGATACAAGTCATGCTT
*
21747394 CAACCGATAC
1 CTACCGATAC
21747404 TAAAAACTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (21 bp):
CTACCGATACAAGTCATGCTT
Found at i:21752624 original size:21 final size:21
Alignment explanation
Indices: 21752598--21752649 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
21752588 TGAGATAATA
21752598 CTACCGATACAAGT-ATGACTT
1 CTACCGATACAAGTCATG-CTT
* *
21752619 CTACCGAAACATGTCATGCTT
1 CTACCGATACAAGTCATGCTT
21752640 CTACCGATAC
1 CTACCGATAC
21752650 TAAAAACTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (21 bp):
CTACCGATACAAGTCATGCTT
Found at i:21753836 original size:201 final size:194
Alignment explanation
Indices: 21753391--21753843 Score: 475
Period size: 201 Copynumber: 2.3 Consensus size: 194
21753381 ACCGGTACTT
* * * * * *
21753391 GATGCTGCTCACATGAGCTGTCGAGGACTCACAACGTATGCAATACCCCAGCCATCGGTACGGTG
1 GATGCTGCTCACACGAGCTGTCAAGGACTCGCAACGTATGCGATACCTCAGCCATCGATACGGTG
* * * * * * *
21753456 CTTGTCTGTACTATAAACTGTTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAGTGTGCAATA
66 CTTG-CTGCACTATAAACTATTCCCTAACAACGCTACTCACACGAGCTGTCGAGAATATGCAATA
* *
21753521 AGCATAGTCCCAACCATCGTAAGGCTTGTAATCCATTTAGGATCCATATCTCTTTCCCGAGTCAC
130 AGCATAATCCCAACCATCGTAAGGCCTGTAATCCATTTAGGATCCATATCTCTTTCCCGAGTCAC
* * * * *
21753586 CATGCTGCTCACACAAGCTGTCAAGGACTCGCAACATATACGGTACCTCAGCCATCGATACGGT-
1 GATGCTGCTCACACGAGCTGTCAAGGACTCGCAACGTATGCGATACCTCAGCCATCGATACGGTG
* * *
21753650 ATCTG-TGCA-TAT-AATTATTCCCTAACAACGCTACTCACACGAGCTGTCGAGAATATGCACTT
66 CT-TGCTGCACTATAAACTATTCCCTAACAACGCTACTCACACGAGCTGTCGAGAATATGCA-AT
* * *
21753712 ATGCATAAATCTCAACCATCGTAGGGCCTGTAATCCATTTAGGATCCATATTTCTTTTCTCATTT
129 AAGCAT-AATCCCAACCATCGTAAGGCCTGTAATCCATTTAGGATCCATA-------TCTC-TTT
*
21753777 CTCG-GCTCAC
185 CCCGAG-TCAC
** * *
21753787 GATGCTGCTCGTACGAGCTGTCAAGGACTCGCAATGTATGCGATACCTCAGCTATCG
1 GATGCTGCTCACACGAGCTGTCAAGGACTCGCAACGTATGCGATACCTCAGCCATCG
21753844 CGTCGGTTTC
Statistics
Matches: 210, Mismatches: 36, Indels: 18
0.80 0.14 0.07
Matches are distributed among these distances:
191 40 0.19
192 9 0.04
193 42 0.20
194 1 0.00
195 55 0.26
200 5 0.02
201 58 0.28
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (194 bp):
GATGCTGCTCACACGAGCTGTCAAGGACTCGCAACGTATGCGATACCTCAGCCATCGATACGGTG
CTTGCTGCACTATAAACTATTCCCTAACAACGCTACTCACACGAGCTGTCGAGAATATGCAATAA
GCATAATCCCAACCATCGTAAGGCCTGTAATCCATTTAGGATCCATATCTCTTTCCCGAGTCAC
Found at i:21758155 original size:30 final size:30
Alignment explanation
Indices: 21758115--21758375 Score: 228
Period size: 30 Copynumber: 8.7 Consensus size: 30
21758105 ACCGGGTCAG
* * *
21758115 ATTTGAATTTTTGGAAACTTTAAGGATTAA
1 ATTTGAATTTTTAGAAAATTTAAGGGTTAA
* *
21758145 ATTGGAATTTTT-GAAAAAATTAAGGGTTAA
1 ATTTGAATTTTTAG-AAAATTTAAGGGTTAA
*** * *
21758175 ATCAAAATTTTTAGAAAGTTCAAGGGTTAA
1 ATTTGAATTTTTAGAAAATTTAAGGGTTAA
* * *
21758205 ATTTGAATTTTTAAAAAATTTAGGGGTCAA
1 ATTTGAATTTTTAGAAAATTTAAGGGTTAA
** *
21758235 ATTCAAATTTTTAGAAAGTTTAAGGGTTAA
1 ATTTGAATTTTTAGAAAATTTAAGGGTTAA
*
21758265 ATTTGAATTTTTAGAAAATTTGA-GGTTAA
1 ATTTGAATTTTTAGAAAATTTAAGGGTTAA
* *
21758294 ATTTGAATTTTT-GAAAAGTTTAGGGGTCAA
1 ATTTGAATTTTTAGAAAA-TTTAAGGGTTAA
* * *
21758324 ATTCT-AGTTTTT-GAAAATTTTAGGGGTCAA
1 ATT-TGAATTTTTAGAAAA-TTTAAGGGTTAA
*
21758354 ATTCT-AATTTTTGGAAAATTTA
1 ATT-TGAATTTTTAGAAAATTTA
21758376 GGGCTTCACA
Statistics
Matches: 191, Mismatches: 34, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
28 5 0.03
29 22 0.12
30 157 0.82
31 7 0.04
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (30 bp):
ATTTGAATTTTTAGAAAATTTAAGGGTTAA
Found at i:21758327 original size:89 final size:89
Alignment explanation
Indices: 21758115--21758375 Score: 274
Period size: 89 Copynumber: 2.9 Consensus size: 89
21758105 ACCGGGTCAG
* * * * * ** * **
21758115 ATTTGAATTTTTGGAAACTTTAAGGATTAAATTGGAATTTTTGAAAAAATTAAGGGTTAAATCAA
1 ATTTGAATTTTTGAAAAATTTAGGGGTCAAATTCAAATTTTTGAAAAATTTAAGGGTTAAAT-TT
* *
21758180 AATTTTTAGAAAGTTCAAGGGTTAA
65 AATTTTTAGAAAATTTAAGGGTTAA
* *
21758205 ATTTGAATTTTTAAAAAATTTAGGGGTCAAATTCAAATTTTT-AGAAAGTTTAAGGGTTAAATTT
1 ATTTGAATTTTTGAAAAATTTAGGGGTCAAATTCAAATTTTTGA-AAAATTTAAGGGTTAAATTT
*
21758269 GAATTTTTAGAAAATTTGA-GGTTAA
65 -AATTTTTAGAAAATTTAAGGGTTAA
* * * * * *
21758294 ATTTGAATTTTTGAAAAGTTTAGGGGTCAAATTCTAGTTTTTGAAAATTTTAGGGGTCAAATTCT
1 ATTTGAATTTTTGAAAAATTTAGGGGTCAAATTCAAATTTTTGAAAAATTTAAGGGTTAAATT-T
*
21758359 AATTTTTGGAAAATTTA
65 AATTTTTAGAAAATTTA
21758376 GGGCTTCACA
Statistics
Matches: 143, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
89 76 0.53
90 67 0.47
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (89 bp):
ATTTGAATTTTTGAAAAATTTAGGGGTCAAATTCAAATTTTTGAAAAATTTAAGGGTTAAATTTA
ATTTTTAGAAAATTTAAGGGTTAA
Found at i:21761110 original size:26 final size:25
Alignment explanation
Indices: 21761010--21761110 Score: 73
Period size: 26 Copynumber: 4.0 Consensus size: 25
21761000 TAGTTAAATT
*
21761010 AAATAT-TTTTAAATTCTAAATTA-A
1 AAATATATTTTGAATT-TAAATTAGA
* *
21761034 AAATATATATATTGAATTTAAAATAAA
1 AAATATAT-T-TTGAATTTAAATTAGA
* ** *
21761061 AAATTATCTTTTTTATTT-ATTTAGA
1 AAA-TATATTTTGAATTTAAATTAGA
21761086 AAATATATTTTGAATTTAAAATTAG
1 AAATATATTTTGAATTT-AAATTAG
21761111 GACAATATTT
Statistics
Matches: 58, Mismatches: 12, Indels: 12
0.71 0.15 0.15
Matches are distributed among these distances:
24 17 0.29
25 8 0.14
26 18 0.31
27 11 0.19
28 4 0.07
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.47
Consensus pattern (25 bp):
AAATATATTTTGAATTTAAATTAGA
Found at i:21763158 original size:19 final size:18
Alignment explanation
Indices: 21763136--21763186 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
21763126 TTTTGAATGA
**
21763136 TTTTATATTTTTTCTAATT
1 TTTTATATTTTTAAT-ATT
*
21763155 TTTTATATATTTAATATT
1 TTTTATATTTTTAATATT
21763173 TTTTATAATTTTTA
1 TTTTAT-ATTTTTA
21763187 TTAAAATCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 9 0.33
19 18 0.67
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTATATTTTTAATATT
Found at i:21763171 original size:28 final size:28
Alignment explanation
Indices: 21763094--21763185 Score: 87
Period size: 28 Copynumber: 3.1 Consensus size: 28
21763084 TTTTATAAAA
*
21763094 TTTTATATTTTATAATATATTTTTCTATAATCT
1 TTTTATATATT-TAATAT-TTTTTC--TAAT-T
* *
21763127 TTTGA-ATGATTTTATATTTTTTCTAATT
1 TTTTATAT-ATTTAATATTTTTTCTAATT
*
21763155 TTTTATATATTTAATATTTTTTATAATT
1 TTTTATATATTTAATATTTTTTCTAATT
21763183 TTT
1 TTT
21763186 ATTAAAATCT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
28 26 0.51
29 6 0.12
31 6 0.12
32 7 0.14
33 6 0.12
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.66
Consensus pattern (28 bp):
TTTTATATATTTAATATTTTTTCTAATT
Found at i:21765082 original size:73 final size:74
Alignment explanation
Indices: 21764984--21765176 Score: 203
Period size: 80 Copynumber: 2.6 Consensus size: 74
21764974 TATTTCGTGA
* * * *
21764984 TTTATTCTTGTCATTCAACAAAATTTATTCGAATTTTTGTT-AGAAATTAAATTAAACAATTATG
1 TTTATTCTTGTCGTTCAATAGAATTTATTCGAATTTCTGTTAAGAAATTAAATTAAACAATTATG
*
21765048 TTTTAGGAT
66 TTTCAGGAT
* * *
21765057 TTTATTCTTGTCGTTCAATAGAATTTATTAGAGTTTCTGTTTCCAAACAGAAATTAAATTAAATA
1 TTTATTCTTGTCGTTCAATAGAATTTATTCGAATTTCTG-TT----A-AGAAATTAAATTAAACA
*
21765122 ATTCTGTTTCAGGAT
60 ATTATGTTTCAGGAT
**
21765137 TTTATT-TCTACCGTTCAATAGAATTTATTCG-ATTTCTGTT
1 TTTATTCT-TGTCGTTCAATAGAATTTATTCGAATTTCTGTT
21765177 GTTAACAGTA
Statistics
Matches: 99, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
73 33 0.33
74 2 0.02
78 2 0.02
79 7 0.07
80 55 0.56
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (74 bp):
TTTATTCTTGTCGTTCAATAGAATTTATTCGAATTTCTGTTAAGAAATTAAATTAAACAATTATG
TTTCAGGAT
Found at i:21765117 original size:80 final size:79
Alignment explanation
Indices: 21765025--21765176 Score: 225
Period size: 80 Copynumber: 1.9 Consensus size: 79
21765015 AATTTTTGTT
* **
21765025 AGAAATTAAATTAAACAATTATGTTTTAGGATTTTA-TTCTTGTCGTTCAATAGAATTTATTAGA
1 AGAAATTAAATTAAACAATTATGTTTCAGGATTTTATTTC-TACCGTTCAATAGAATTTATTAGA
21765089 GTTTCTGTTTCCAAAC
65 -TTTCTGTTTCCAAAC
* * *
21765105 AGAAATTAAATTAAATAATTCTGTTTCAGGATTTTATTTCTACCGTTCAATAGAATTTATTCGAT
1 AGAAATTAAATTAAACAATTATGTTTCAGGATTTTATTTCTACCGTTCAATAGAATTTATTAGAT
21765170 TTCTGTT
66 TTCTGTT
21765177 GTTAACAGTA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
79 8 0.12
80 54 0.83
81 3 0.05
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.45
Consensus pattern (79 bp):
AGAAATTAAATTAAACAATTATGTTTCAGGATTTTATTTCTACCGTTCAATAGAATTTATTAGAT
TTCTGTTTCCAAAC
Found at i:21774030 original size:12 final size:11
Alignment explanation
Indices: 21773999--21774047 Score: 55
Period size: 12 Copynumber: 4.3 Consensus size: 11
21773989 ATAGTAATAA
21773999 TTTTTTTCTTCT
1 TTTTTTTC-TCT
21774011 TTTCTTTTCTCT
1 TTT-TTTTCTCT
*
21774023 TTCTTTTTCTCA
1 TT-TTTTTCTCT
21774035 TTTTTTTCT-T
1 TTTTTTTCTCT
21774045 TTT
1 TTT
21774048 CAAGTGCCTG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 3 0.09
11 7 0.21
12 17 0.52
13 6 0.18
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTTTCTCT
Found at i:21774042 original size:17 final size:17
Alignment explanation
Indices: 21773998--21774048 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
21773988 TATAGTAATA
21773998 ATTTTTTTCTTCTTT-TC
1 ATTTTTTTCTT-TTTCTC
*
21774015 TTTTCTCTTTCTTTTTCTC
1 ATTT-T-TTTCTTTTTCTC
21774034 ATTTTTTTCTTTTTC
1 ATTTTTTTCTTTTTC
21774049 AAGTGCCTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 13 0.45
18 5 0.17
19 11 0.38
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTTTTTCTTTTTCTC
Found at i:21777593 original size:27 final size:27
Alignment explanation
Indices: 21777551--21777613 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
21777541 CATTAACAAT
*
21777551 TTGTGGCAGCAATGGAGGAACTCCATC
1 TTGTGGCAGCAATGGACGAACTCCATC
* *
21777578 TTGTGGTAGCACTGGACGAACTCCATC
1 TTGTGGCAGCAATGGACGAACTCCATC
*
21777605 TTGTAGCAG
1 TTGTGGCAG
21777614 TACTAGTGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (27 bp):
TTGTGGCAGCAATGGACGAACTCCATC
Found at i:21778745 original size:8 final size:8
Alignment explanation
Indices: 21778732--21778756 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
21778722 TTAGAAGAGG
21778732 TTGCTCCA
1 TTGCTCCA
21778740 TTGCTCCA
1 TTGCTCCA
21778748 TTGCTCCA
1 TTGCTCCA
21778756 T
1 T
21778757 CAACTTACCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.36, G:0.12, T:0.40
Consensus pattern (8 bp):
TTGCTCCA
Found at i:21783819 original size:22 final size:19
Alignment explanation
Indices: 21783778--21783814 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
21783768 CATTTGTTCC
21783778 TGAGTAGTAACGATGGGCA
1 TGAGTAGTAACGATGGGCA
21783797 TGAGTAGTAACGATGGGC
1 TGAGTAGTAACGATGGGC
21783815 TGCATCAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.11, G:0.38, T:0.22
Consensus pattern (19 bp):
TGAGTAGTAACGATGGGCA
Found at i:21784358 original size:18 final size:18
Alignment explanation
Indices: 21784329--21784372 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
21784319 AAATGTACTA
21784329 ACAAAT-AAAATGCAATG
1 ACAAATAAAAATGCAATG
21784346 ACAAATAAAAATGCAATG
1 ACAAATAAAAATGCAATG
*
21784364 ACAACTAAA
1 ACAAATAAA
21784373 TGCTATGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.61, C:0.14, G:0.09, T:0.16
Consensus pattern (18 bp):
ACAAATAAAAATGCAATG
Found at i:21784799 original size:24 final size:24
Alignment explanation
Indices: 21784772--21784821 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
21784762 TTTCGGGGCA
21784772 TCTTCTT-TCTCTTCATCCTTCTCT
1 TCTTCTTCT-TCTTCATCCTTCTCT
* *
21784796 TCTTCTTCTTTTTCTTCCTTCTCT
1 TCTTCTTCTTCTTCATCCTTCTCT
21784820 TC
1 TC
21784822 CTCATTTTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (24 bp):
TCTTCTTCTTCTTCATCCTTCTCT
Found at i:21786457 original size:21 final size:22
Alignment explanation
Indices: 21786433--21786475 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
21786423 AGAAACAGTT
*
21786433 AAAGGAACAAAAATAAA-GTAA
1 AAAGAAACAAAAATAAATGTAA
* *
21786454 AAAGAAATAAACATAAATGTAA
1 AAAGAAACAAAAATAAATGTAA
21786476 GAATGCAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.70, C:0.05, G:0.12, T:0.14
Consensus pattern (22 bp):
AAAGAAACAAAAATAAATGTAA
Found at i:21791295 original size:15 final size:14
Alignment explanation
Indices: 21791275--21791304 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
21791265 ATTATTGTTG
21791275 TAACTCTCTTGTCTA
1 TAACTCTCTTG-CTA
21791290 TAACTCTCTTGCTA
1 TAACTCTCTTGCTA
21791304 T
1 T
21791305 GAGGAATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.20, C:0.27, G:0.07, T:0.47
Consensus pattern (14 bp):
TAACTCTCTTGCTA
Found at i:21796937 original size:23 final size:23
Alignment explanation
Indices: 21796892--21796943 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
21796882 GGCCTGGTTT
21796892 GATCAAAGTCAACGATCCAATTC
1 GATCAAAGTCAACGATCCAATTC
* *
21796915 GGTCAAAGTCAAC-AGTCCGATTC
1 GATCAAAGTCAACGA-TCCAATTC
21796938 GATCAA
1 GATCAA
21796944 TGGGTTCGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (23 bp):
GATCAAAGTCAACGATCCAATTC
Found at i:21806769 original size:12 final size:12
Alignment explanation
Indices: 21806752--21806776 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21806742 GTTTTTGAAG
21806752 AAGAAGAAGAAA
1 AAGAAGAAGAAA
21806764 AAGAAGAAGAAA
1 AAGAAGAAGAAA
21806776 A
1 A
21806777 GAATAATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAGAAGAAGAAA
Found at i:21807005 original size:6 final size:6
Alignment explanation
Indices: 21806996--21807024 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
21806986 TTGGGCATGA
21806996 GAGTGG GAGTGG GAGTGG GAGTGG GAGTG
1 GAGTGG GAGTGG GAGTGG GAGTGG GAGTG
21807025 AGAAATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.66, T:0.17
Consensus pattern (6 bp):
GAGTGG
Found at i:21807545 original size:25 final size:26
Alignment explanation
Indices: 21807501--21807556 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
21807491 AAAACCCTTT
21807501 TTTTAATTTTTTAAAGAAAAACAT-A
1 TTTTAATTTTTTAAAGAAAAACATGA
* *
21807526 TTTTAATTTTATTATA-AAAAACTTGA
1 TTTTAATTTT-TTAAAGAAAAACATGA
21807552 TTTTA
1 TTTTA
21807557 TCATTATCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 17 0.63
26 10 0.37
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (26 bp):
TTTTAATTTTTTAAAGAAAAACATGA
Found at i:21808845 original size:21 final size:21
Alignment explanation
Indices: 21808821--21808865 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
21808811 TGATATGATG
*
21808821 AAATAAA-AATTTATTTATTTA
1 AAATAAATAATAT-TTTATTTA
21808842 AAATAAATAATATTTTATTTA
1 AAATAAATAATATTTTATTTA
21808863 AAA
1 AAA
21808866 ACAAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATAAATAATATTTTATTTA
Found at i:21808874 original size:21 final size:22
Alignment explanation
Indices: 21808821--21808875 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
21808811 TGATATGATG
*
21808821 AAAT-AAAAATTTATTTATTTA
1 AAATAAAAAATATATTTATTTA
*
21808842 AAATAAATAATAT-TTTATTTA
1 AAATAAAAAATATATTTATTTA
21808863 AAA-ACAAAAATAT
1 AAATA-AAAAATAT
21808876 CTCATATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 1 0.03
21 22 0.76
22 6 0.21
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATAAAAAATATATTTATTTA
Found at i:21815543 original size:30 final size:29
Alignment explanation
Indices: 21815509--21815581 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
21815499 TAAATTTAGA
21815509 AAAATTATTAAAA-TTTGTAAAAACGTATTT
1 AAAATTATTAAAAGTTT-TAAAAA-GTATTT
*
21815539 AAAATTATTAAAAGGTTTTAAAAATTATTT
1 AAAATTATTAAAA-GTTTTAAAAAGTATTT
* *
21815569 AATATTATAAAAA
1 AAAATTATTAAAA
21815582 AGTTGAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 29 0.76
31 6 0.16
32 3 0.08
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.40
Consensus pattern (29 bp):
AAAATTATTAAAAGTTTTAAAAAGTATTT
Found at i:21815551 original size:20 final size:20
Alignment explanation
Indices: 21815528--21815567 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
21815518 AAAATTTGTA
21815528 AAAACGTATTT-AAAATTATT
1 AAAACGT-TTTAAAAATTATT
*
21815548 AAAAGGTTTTAAAAATTATT
1 AAAACGTTTTAAAAATTATT
21815568 TAATATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (20 bp):
AAAACGTTTTAAAAATTATT
Found at i:21819568 original size:36 final size:37
Alignment explanation
Indices: 21819493--21819569 Score: 86
Period size: 36 Copynumber: 2.1 Consensus size: 37
21819483 CTTATGAAAT
* *
21819493 TAATAAACTTTAAAAATAAAATCATACTTATATCAAA
1 TAATAAACTTTAAAAATAAAATCATAATAATATCAAA
** *
21819530 TAATAAA-TTTATTAATAAAATGATAATAATAT-ATAA
1 TAATAAACTTTAAAAATAAAATCATAATAATATCA-AA
21819566 TAAT
1 TAAT
21819570 GTTGTTGTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
35 1 0.03
36 26 0.76
37 7 0.21
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.36
Consensus pattern (37 bp):
TAATAAACTTTAAAAATAAAATCATAATAATATCAAA
Found at i:21820319 original size:19 final size:19
Alignment explanation
Indices: 21820295--21820333 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
21820285 ACCACTGTAA
21820295 TCCACCATAATCAAAATTG
1 TCCACCATAATCAAAATTG
*
21820314 TCCACCATAATCAAATTTG
1 TCCACCATAATCAAAATTG
21820333 T
1 T
21820334 TATTAACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (19 bp):
TCCACCATAATCAAAATTG
Found at i:21820976 original size:18 final size:18
Alignment explanation
Indices: 21820955--21820989 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21820945 TAGTTTAATC
*
21820955 TTCGATTTATTCAAATTA
1 TTCGAGTTATTCAAATTA
*
21820973 TTCGAGTTATTCGAATT
1 TTCGAGTTATTCAAATT
21820990 TGAAACTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (18 bp):
TTCGAGTTATTCAAATTA
Found at i:21823093 original size:16 final size:16
Alignment explanation
Indices: 21823068--21823101 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
21823058 TTTTTTTTAG
*
21823068 TATGTCCTTAAATAAT
1 TATGTACTTAAATAAT
21823084 TATGTACTTAAATAAT
1 TATGTACTTAAATAAT
21823100 TA
1 TA
21823102 CATACTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (16 bp):
TATGTACTTAAATAAT
Found at i:21823107 original size:16 final size:16
Alignment explanation
Indices: 21823074--21823118 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
21823064 TTAGTATGTC
**
21823074 CTTAAATAATTATGTA
1 CTTAAATAATTACATA
21823090 CTTAAATAATTACATA
1 CTTAAATAATTACATA
*
21823106 CTAAAACTAATTA
1 CTTAAA-TAATTA
21823119 AAATTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 19 0.76
17 6 0.24
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (16 bp):
CTTAAATAATTACATA
Found at i:21831570 original size:15 final size:16
Alignment explanation
Indices: 21831549--21831601 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 16
21831539 TATACTACAG
21831549 AATATTTATTATTAAT
1 AATATTTATTATTAAT
*
21831565 -ATATTTATAATTATAAT
1 AATATTTATTA-T-TAAT
21831582 AAATATTTATTATTAA-
1 -AATATTTATTATTAAT
21831598 AATA
1 AATA
21831602 AAATTACCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
15 13 0.42
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AATATTTATTATTAAT
Found at i:21831589 original size:19 final size:19
Alignment explanation
Indices: 21831565--21831603 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
21831555 TATTATTAAT
*
21831565 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
21831584 ATATTTATTATTAAAATAA
1 ATATTTATAATTAAAATAA
21831603 A
1 A
21831604 ATTACCTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:21832667 original size:3 final size:3
Alignment explanation
Indices: 21832659--21832686 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
21832649 ATTCAATCAA
21832659 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
21832687 TAAAGAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:21834686 original size:3 final size:3
Alignment explanation
Indices: 21834678--21834703 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
21834668 AGCTCATATG
21834678 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
21834704 GTTTCAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:21838326 original size:5 final size:5
Alignment explanation
Indices: 21838316--21838341 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
21838306 AGCTGTAAAC
21838316 ATGAG ATGAG ATGAG ATGAG ATGAG A
1 ATGAG ATGAG ATGAG ATGAG ATGAG A
21838342 ATATTTTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.19
Consensus pattern (5 bp):
ATGAG
Found at i:21841023 original size:24 final size:24
Alignment explanation
Indices: 21840996--21841058 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
21840986 AGAAATAATC
21840996 TTTCAGTTAAACTCTGTTTAATTG
1 TTTCAGTTAAACTCTGTTTAATTG
* * *
21841020 TTTCAATTAAACTATGTTTATTTG
1 TTTCAGTTAAACTCTGTTTAATTG
* *
21841044 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
21841059 TATTAGTCTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.49
Consensus pattern (24 bp):
TTTCAGTTAAACTCTGTTTAATTG
Found at i:21843002 original size:24 final size:24
Alignment explanation
Indices: 21842969--21843019 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
21842959 AGAAATAATC
* *
21842969 TTTCAGTTAAACTTTGTTTATTTG
1 TTTCAATTAAACTATGTTTATTTG
21842993 TTTCAATTAAACTATGTTTATTTG
1 TTTCAATTAAACTATGTTTATTTG
21843017 TTT
1 TTT
21843020 GAGTCAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.10, T:0.59
Consensus pattern (24 bp):
TTTCAATTAAACTATGTTTATTTG
Found at i:21843028 original size:24 final size:24
Alignment explanation
Indices: 21842977--21843029 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
21842967 TCTTTCAGTT
* *
21842977 AAACTTTGTTTATTTGTTTCAATT
1 AAACTATGTTTATTTGTTTCAATC
* *
21843001 AAACTATGTTTATTTGTTTGAGTC
1 AAACTATGTTTATTTGTTTCAATC
21843025 AAACT
1 AAACT
21843030 CTTATTAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.09, G:0.11, T:0.51
Consensus pattern (24 bp):
AAACTATGTTTATTTGTTTCAATC
Found at i:21843156 original size:35 final size:35
Alignment explanation
Indices: 21843117--21843186 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
21843107 ATATACTTAT
21843117 GAGATATACCCATTAGAGTTTAGAACTT-CTAACAC
1 GAGATATACCCATTAGAGTTTAGAA-TTCCTAACAC
21843152 GAGATATACCCATTAGAGTTTAGAATTCCTAACAC
1 GAGATATACCCATTAGAGTTTAGAATTCCTAACAC
21843187 TTTTGAAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 2 0.06
35 32 0.94
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (35 bp):
GAGATATACCCATTAGAGTTTAGAATTCCTAACAC
Found at i:21847242 original size:18 final size:18
Alignment explanation
Indices: 21847219--21847254 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
21847209 TTGTATTTGT
21847219 TGATCAAAGAGAAATTAA
1 TGATCAAAGAGAAATTAA
21847237 TGATCAAAGAGAAATTAA
1 TGATCAAAGAGAAATTAA
21847255 CTTTTTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.06, G:0.17, T:0.22
Consensus pattern (18 bp):
TGATCAAAGAGAAATTAA
Found at i:21848304 original size:66 final size:67
Alignment explanation
Indices: 21848224--21848349 Score: 236
Period size: 66 Copynumber: 1.9 Consensus size: 67
21848214 CATATAAACA
*
21848224 CTGAGCTCTGATTTGGTGTTTGAACTGAGTCTCGTTCACTCTTTTAGCTAGTATGTTAGGCTGGT
1 CTGAGCTCTGATTTGGTGTTTGAACTGAGTCTCGTTCACTCTTTTAGATAGTATGTTAGGCTGGT
21848289 TG
66 TG
21848291 CTGAGCT-TGATTTGGTGTTTGAACTGAGTCTCGTTCACTCTTTTAGATAGTATGTTAGG
1 CTGAGCTCTGATTTGGTGTTTGAACTGAGTCTCGTTCACTCTTTTAGATAGTATGTTAGG
21848350 TTGATTGCAC
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
66 51 0.88
67 7 0.12
ACGTcount: A:0.17, C:0.15, G:0.26, T:0.42
Consensus pattern (67 bp):
CTGAGCTCTGATTTGGTGTTTGAACTGAGTCTCGTTCACTCTTTTAGATAGTATGTTAGGCTGGT
TG
Found at i:21849544 original size:19 final size:20
Alignment explanation
Indices: 21849520--21849565 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
21849510 CATTCAAACA
21849520 CCAGAAAA-T-ATTAACTTTT
1 CCAGAAAAGTAATTAA-TTTT
*
21849539 CCAGAAAAGTAATTCATTTT
1 CCAGAAAAGTAATTAATTTT
21849559 CCAGAAA
1 CCAGAAA
21849566 TCATTTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 8 0.33
20 12 0.50
21 4 0.17
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.30
Consensus pattern (20 bp):
CCAGAAAAGTAATTAATTTT
Found at i:21857903 original size:26 final size:27
Alignment explanation
Indices: 21857844--21857905 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
21857834 TTTAGATGTG
* *
21857844 AAACTATAAAGTGTGAAAATTATAGAA
1 AAACTATAGAGTGTGAAAACTATAGAA
* *
21857871 GAA-TATAGATTGTGAAAACTATA-AA
1 AAACTATAGAGTGTGAAAACTATAGAA
21857896 AAACTATAGA
1 AAACTATAGA
21857906 CTGAGTAGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 4 0.14
26 23 0.79
27 2 0.07
ACGTcount: A:0.55, C:0.05, G:0.15, T:0.26
Consensus pattern (27 bp):
AAACTATAGAGTGTGAAAACTATAGAA
Found at i:21873605 original size:6 final size:6
Alignment explanation
Indices: 21873596--21873648 Score: 88
Period size: 6 Copynumber: 8.8 Consensus size: 6
21873586 TGAGAATGCA
*
21873596 GAGGGG GAGGGG GAGGGG GAGGGG GAGGGG GAGGGG GAGGGG AAGGGG
1 GAGGGG GAGGGG GAGGGG GAGGGG GAGGGG GAGGGG GAGGGG GAGGGG
*
21873644 AAGGG
1 GAGGG
21873649 TGTAACTGAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.21, C:0.00, G:0.79, T:0.00
Consensus pattern (6 bp):
GAGGGG
Found at i:21877856 original size:2 final size:2
Alignment explanation
Indices: 21877849--21877878 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21877839 GTTAATAATT
21877849 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21877879 ATCAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21879106 original size:21 final size:20
Alignment explanation
Indices: 21879068--21879108 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
21879058 TATATGTATT
*
21879068 TTTATTTTTATTAGTTTTAA
1 TTTATTTATATTAGTTTTAA
*
21879088 TTTATTATATATTATTTTTAA
1 TTTATT-TATATTAGTTTTAA
21879109 ACATATTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTATTTATATTAGTTTTAA
Found at i:21882721 original size:18 final size:18
Alignment explanation
Indices: 21882698--21882741 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
21882688 TTTGACCCTT
*
21882698 ATATTTGTATAGTTTTA-A
1 ATATTT-TATAATTTTATA
21882716 ATA-TTTATAATTTTATA
1 ATATTTTATAATTTTATA
21882733 ATATTTTAT
1 ATATTTTAT
21882742 TAAGTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 9 0.39
17 6 0.26
18 8 0.35
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
ATATTTTATAATTTTATA
Found at i:21884667 original size:30 final size:29
Alignment explanation
Indices: 21884633--21884765 Score: 117
Period size: 30 Copynumber: 4.5 Consensus size: 29
21884623 TAAAAATTAT
*
21884633 ATTTTGACCCTTAAACTTTTCCAAAATCAC
1 ATTTTGACCCTCAAAC-TTTCCAAAATCAC
* *
21884663 ATTTTGACCCTCGAACTCTCCTAAAATCAC
1 ATTTTGACCCTCAAACTTTCC-AAAATCAC
* *
21884693 ATTTTGACCCT-AAACTTTCTAAAAATTAC
1 ATTTTGACCCTCAAACTTTC-CAAAATCAC
* ** * * *
21884722 ATTTTAACCCTCGAATTTTTCTAAAATAAT
1 ATTTTGACCCTC-AAACTTTCCAAAATCAC
21884752 ATTTTGACCC-CAAA
1 ATTTTGACCCTCAAA
21884766 TTCTCTGAAA
Statistics
Matches: 84, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
28 2 0.02
29 28 0.33
30 48 0.57
31 6 0.07
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.36
Consensus pattern (29 bp):
ATTTTGACCCTCAAACTTTCCAAAATCAC
Found at i:21884724 original size:59 final size:60
Alignment explanation
Indices: 21884633--21884761 Score: 163
Period size: 59 Copynumber: 2.2 Consensus size: 60
21884623 TAAAAATTAT
* * *
21884633 ATTTTGACCCTTAAACTTTTCCAAAATCACATTTTGACCCTCGAACTCTCCTAAAATCAC
1 ATTTTGACCCTTAAACTTTTCAAAAATCACATTTTAACCCTCGAACTCTCCTAAAATAAC
* * * * *
21884693 ATTTTGACCC-TAAAC-TTTCTAAAAATTACATTTTAACCCTCGAATTTTTCTAAAATAAT
1 ATTTTGACCCTTAAACTTTTC-AAAAATCACATTTTAACCCTCGAACTCTCCTAAAATAAC
21884752 ATTTTGACCC
1 ATTTTGACCC
21884762 CAAATTCTCT
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
58 4 0.07
59 46 0.77
60 10 0.17
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (60 bp):
ATTTTGACCCTTAAACTTTTCAAAAATCACATTTTAACCCTCGAACTCTCCTAAAATAAC
Found at i:21891663 original size:21 final size:21
Alignment explanation
Indices: 21891639--21891695 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
21891629 CGATCTGAGG
21891639 AAAAATAAAAGAAACAGAATT
1 AAAAATAAAAGAAACAGAATT
*
21891660 AAAAATAAAAGAAAATAGAATT
1 AAAAATAAAAG-AAACAGAATT
21891682 AAAAA-AAATAGAAA
1 AAAAATAAA-AGAAA
21891696 ATAGGGAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 17 0.52
22 16 0.48
ACGTcount: A:0.75, C:0.02, G:0.09, T:0.14
Consensus pattern (21 bp):
AAAAATAAAAGAAACAGAATT
Found at i:21891679 original size:22 final size:22
Alignment explanation
Indices: 21891639--21891699 Score: 90
Period size: 22 Copynumber: 2.8 Consensus size: 22
21891629 CGATCTGAGG
*
21891639 AAAAATAAAAG-AAACAGAATT
1 AAAAATAAAAGAAAATAGAATT
21891660 AAAAATAAAAGAAAATAGAATT
1 AAAAATAAAAGAAAATAGAATT
21891682 AAAAA-AAATAGAAAATAG
1 AAAAATAAA-AGAAAATAG
21891700 GGAAGTCGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
21 14 0.38
22 23 0.62
ACGTcount: A:0.74, C:0.02, G:0.10, T:0.15
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAATT
Found at i:21891689 original size:15 final size:16
Alignment explanation
Indices: 21891665--21891694 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21891655 GAATTAAAAA
21891665 TAAAAGAAAATAGAAT
1 TAAAAGAAAATAGAAT
21891681 TAAAA-AAAATAGAA
1 TAAAAGAAAATAGAA
21891695 AATAGGGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (16 bp):
TAAAAGAAAATAGAAT
Found at i:21895124 original size:37 final size:37
Alignment explanation
Indices: 21895074--21895144 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
21895064 AAGCGACCAT
21895074 CTTCTTGATGAGATACAGAAAAGTGAATCAAATCCGC
1 CTTCTTGATGAGATACAGAAAAGTGAATCAAATCCGC
* *
21895111 CTTCTTGATGAGATACAGAGAAGTGAATTAAATC
1 CTTCTTGATGAGATACAGAAAAGTGAATCAAATC
21895145 AATGAAGTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (37 bp):
CTTCTTGATGAGATACAGAAAAGTGAATCAAATCCGC
Found at i:21895174 original size:85 final size:85
Alignment explanation
Indices: 21895026--21895182 Score: 217
Period size: 85 Copynumber: 1.8 Consensus size: 85
21895016 CAAACCCTAT
*
21895026 CTTCCTGATGAGATACAGAGAAGTGAGTCAATGCAATAAAGCGACCATCTTCTTGATGAGATACA
1 CTTCCTGATGAGATACAGAGAAGTGAGTAAATGCAATAAAGCGACCATCTTCTTGATGAGATACA
21895091 GAAAAGTGAATCAAATCCGC
66 GAAAAGTGAATCAAATCCGC
* * * * ** *
21895111 CTTCTTGATGAGATACAGAGAAGTGAATTAAAT-CAATGAAGTGGTCATCTTCTTGGTGAGATAC
1 CTTCCTGATGAGATACAGAGAAGTG-AGTAAATGCAATAAAGCGACCATCTTCTTGATGAGATAC
*
21895175 AGAGAAGT
65 AGAAAAGT
21895183 AGACAAATCA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
85 57 0.92
86 5 0.08
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.25
Consensus pattern (85 bp):
CTTCCTGATGAGATACAGAGAAGTGAGTAAATGCAATAAAGCGACCATCTTCTTGATGAGATACA
GAAAAGTGAATCAAATCCGC
Found at i:21895374 original size:84 final size:84
Alignment explanation
Indices: 21895233--21895397 Score: 240
Period size: 84 Copynumber: 2.0 Consensus size: 84
21895223 CAAACCTCAT
* * *
21895233 CTTCCTGATGAGATATAAAGAAGTGGGTCAAAGCAATAGAGTAGTCATCTTCCTAATGAGATACA
1 CTTCCTGATGAGATATAAAGAAGTGGATCAAAGCAATAAAGCAGTCATCTTCCTAATGAGATACA
21895298 GAGAAATGGACCAAATTCG
66 GAGAAATGGACCAAATTCG
* * * * *
21895317 CTTCCTGATGAGATATAGAGAAGTGGATTAAATCAATAAAGCGGTCATCTTCCTAATGAGATATA
1 CTTCCTGATGAGATATAAAGAAGTGGATCAAAGCAATAAAGCAGTCATCTTCCTAATGAGATACA
* *
21895382 GAGAAGTTGACCAAAT
66 GAGAAATGGACCAAAT
21895398 CAATGAAACA
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 71 1.00
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (84 bp):
CTTCCTGATGAGATATAAAGAAGTGGATCAAAGCAATAAAGCAGTCATCTTCCTAATGAGATACA
GAGAAATGGACCAAATTCG
Found at i:21895655 original size:208 final size:208
Alignment explanation
Indices: 21894938--21896344 Score: 1758
Period size: 208 Copynumber: 6.8 Consensus size: 208
21894928 CGTCAAAATG
* * * * *
21894938 ATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGCAGACCAAATCGATGAAGCAAAGCTCAAT
1 ATGAAGCGGTCATCTTCTTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAAGCTCAAT
** * * * * * *
21895003 GTGAGTGAAACTTCAAACCCTATCTTCCTGATGAGATACAGAGAAGTGAGTCAATGCAATAAAGC
66 ACGAATGAGACTTCAAACCCCATCTTCCTGATGAGATACAGAAAAGTGGGTCAAAGCAATAAAGC
** * * * * *
21895068 GACCATCTTCTTGATGAGATACAGAAAAGTGAATCAAATCCGCCTTCTTGATGAGATACAGAGAA
131 GGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAGAGAA
*
21895133 GTGAATTAAATCA
196 GTGGATTAAATCA
* * * * * * *
21895146 ATGAAGTGGTCATCTTCTTGGTGAGATACAGAGAAGTAGA-CAAATCAATGAAACAAAGTTTAAT
1 ATGAAGCGGTCATCTTCTTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAAGCTCAAT
* * *
21895210 ACGAATGAGACTTCAAACCTCATCTTCCTGATGAGATATA-AAGAAGTGGGTCAAAGCAATAGAG
66 ACGAATGAGACTTCAAACCCCATCTTCCTGATGAGATACAGAA-AAGTGGGTCAAAGCAATAAAG
** * * * *
21895274 TAGTCATCTTCCTAATGAGATACAGAGAAATGGACCAAATTCG-CTTCCTGATGAGATATAGAGA
130 CGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAGAGA
21895338 AGTGGATTAAATCA
195 AGTGGATTAAATCA
* * * * * * * *
21895352 ATAAAGCGGTCATCTTCCTAATGAGATATAGAGAAGTTGACCAAATCAATGAAACAAAGCTCAAT
1 ATGAAGCGGTCATCTTCTTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAAGCTCAAT
* * *
21895417 ACGAATGAGACTTCAGACCTCATTTTCCTGATGAGATACAGAAAAGTGGGTCAAAGCAATAAAGC
66 ACGAATGAGACTTCAAACCCCATCTTCCTGATGAGATACAGAAAAGTGGGTCAAAGCAATAAAGC
** * * * *
21895482 GACCATCTTTCTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCTTGATGAGATACAAAGAG
131 GGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAGAGAA
*
21895547 GTGGATTAAATTA
196 GTGGATTAAATCA
* * *
21895560 ATGAAGCGGTCATCTTCTTGATTAGATATAAAGAAGTAGGCCAAATCAATGAAGCGAAGCTCAAT
1 ATGAAGCGGTCATCTTCTTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAAGCTCAAT
* * * *
21895625 ACAAATGAGACTTTAAACCCCATCTTCCTGATGAGATACAAAAAAGTGGG-CTAAAGTAATAAAG
66 ACGAATGAGACTTCAAACCCCATCTTCCTGATGAGATACAGAAAAGTGGGTC-AAAGCAATAAAG
* * * *
21895689 TGGTCATCTTCCTAATGAGATACAAAGAAGTGGACCAAATCCGCCTTCCTAATGAGATACAGAGA
130 CGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAGAGA
*
21895754 AGTGAATTAAATCA
195 AGTGGATTAAATCA
* * * * * *
21895768 ATGAAACGATTATCTTTTTGATGATATATAAAGAAGTAGACCAAATCAATGAAGCGAAGCTCAAT
1 ATGAAGCGGTCATCTTCTTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAAGCTCAAT
* * *
21895833 ACGAATGAGACTTCAAACCTCATCTTCTTGATGAGATACA-AAGAAGTGGGTAAAAGCAATAAAG
66 ACGAATGAGACTTCAAACCCCATCTTCCTGATGAGATACAGAA-AAGTGGGTCAAAGCAATAAAG
* *
21895897 TGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATAAGATACAGAGA
130 CGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAGAGA
*
21895962 AGTGGATTGAATCA
195 AGTGGATTAAATCA
* * *
21895976 ATTAAGTGGTCATCTTCCTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAAGCTCAAT
1 ATGAAGCGGTCATCTTCTTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAAGCTCAAT
* * * * *
21896041 ACAAATGAGACTTCAAACCCCAACTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGA
66 ACGAATGAGACTTCAAACCCCATCTTCCTGATGAGATACAGAAAAGTGGGTCAAAGCAATAAAGC
* * *
21896106 GGTCATCTTCCTGATGAGATACAAAGAAGTGGACCAAATCC-ACTTCTTGATGAGATACAGAGAA
131 GGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAGAGAA
*
21896170 ATGGATTAAATCA
196 GTGGATTAAATCA
* * *
21896183 ATGAAGCAGTCATCTTCTTGATGAGATACAAAGAAGTAAACCAAATCAATGAAGCGAAGTTCAAT
1 ATGAAGCGGTCATCTTCTTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAAGCTCAAT
* * * * * * * * *
21896248 GCG-A-GTGA----AAACCTCTATTTTCCTGATGAGATACAGAGAAGCGGGTCGAAGTAATAAGG
66 ACGAATGAGACTTCAAACC-CCATCTTCCTGATGAGATACAGAAAAGTGGGTCAAAGCAATAAAG
*
21896307 CGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAA
130 CGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAA
21896345 GAAATGAAGC
Statistics
Matches: 1041, Mismatches: 149, Indels: 24
0.86 0.12 0.02
Matches are distributed among these distances:
201 5 0.00
202 72 0.07
205 3 0.00
206 67 0.06
207 311 0.30
208 582 0.56
209 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (208 bp):
ATGAAGCGGTCATCTTCTTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGCGAAGCTCAAT
ACGAATGAGACTTCAAACCCCATCTTCCTGATGAGATACAGAAAAGTGGGTCAAAGCAATAAAGC
GGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGCCTTCCTGATGAGATACAGAGAA
GTGGATTAAATCA
Found at i:21896011 original size:85 final size:85
Alignment explanation
Indices: 21895856--21896022 Score: 244
Period size: 85 Copynumber: 2.0 Consensus size: 85
21895846 CAAACCTCAT
* * *
21895856 CTTCTTGATGAGATACAAAGAAGTGGGTAAAAGCAATAAAGTGGTCATCTTCCTGATGAGATACA
1 CTTCCTGATAAGATACAAAGAAGTGGATAAAAGCAATAAAGTGGTCATCTTCCTGATGAGATACA
* *
21895921 GAGAAGTGGACCAAATCCGC
66 AAGAAGTAGACCAAATCCGC
* ** * *
21895941 CTTCCTGATAAGATACAGAGAAGTGGATTGAATCAATTAAGTGGTCATCTTCCTGATGAGATACA
1 CTTCCTGATAAGATACAAAGAAGTGGATAAAAGCAATAAAGTGGTCATCTTCCTGATGAGATACA
21896006 AAGAAGTAGACCAAATC
66 AAGAAGTAGACCAAATC
21896023 AATGAAGCGA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 72 1.00
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (85 bp):
CTTCCTGATAAGATACAAAGAAGTGGATAAAAGCAATAAAGTGGTCATCTTCCTGATGAGATACA
AAGAAGTAGACCAAATCCGC
Found at i:21896205 original size:84 final size:84
Alignment explanation
Indices: 21896063--21896229 Score: 228
Period size: 84 Copynumber: 2.0 Consensus size: 84
21896053 TCAAACCCCA
* * *
21896063 ACTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGAGGTCATCTTCCTGATGAGATAC
1 ACTTCCTGATGAGATACAGAGAAATGGATCAAAGCAATAAAGAGGTCATCTTCCTGATGAGATAC
**
21896128 AAAGAAGTGGACCAAATCC
66 AAAGAAGTAAACCAAATCC
* * * * *
21896147 ACTTCTTGATGAGATACAGAGAAATGGATTAAATCAATGAAGCA-GTCATCTTCTTGATGAGATA
1 ACTTCCTGATGAGATACAGAGAAATGGATCAAAGCAATAAAG-AGGTCATCTTCCTGATGAGATA
21896211 CAAAGAAGTAAACCAAATC
65 CAAAGAAGTAAACCAAATC
21896230 AATGAAGCGA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
84 71 0.99
85 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (84 bp):
ACTTCCTGATGAGATACAGAGAAATGGATCAAAGCAATAAAGAGGTCATCTTCCTGATGAGATAC
AAAGAAGTAAACCAAATCC
Found at i:21898410 original size:59 final size:61
Alignment explanation
Indices: 21898276--21898430 Score: 156
Period size: 59 Copynumber: 2.6 Consensus size: 61
21898266 CTATTTTATT
** * * *
21898276 TAAAAATTACATTTTGACCCTTAAACTTTCCCAAAATAATATGTTGACCCCTAAACTTTTC
1 TAAAAATTACATTTTGACCCCAAAACTTTCCTAAAATAACATGTTAACCCCTAAACTTTTC
* * * * * *
21898337 T-AAAATCACA-TTTGACCCCCAAACTTTCCTAAAATCACATTTTAACCTC-ACAC-TTTC
1 TAAAAATTACATTTTGACCCCAAAACTTTCCTAAAATAACATGTTAACCCCTAAACTTTTC
* * *
21898394 TAAAAATTACATTTTGACTCCAAAATTTTTCTAAAAT
1 TAAAAATTACATTTTGACCCCAAAACTTTCCTAAAAT
21898431 TATATTTTGA
Statistics
Matches: 77, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
57 5 0.06
58 11 0.14
59 52 0.68
60 8 0.10
61 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.35
Consensus pattern (61 bp):
TAAAAATTACATTTTGACCCCAAAACTTTCCTAAAATAACATGTTAACCCCTAAACTTTTC
Found at i:21898447 original size:30 final size:29
Alignment explanation
Indices: 21898278--21898447 Score: 146
Period size: 30 Copynumber: 5.8 Consensus size: 29
21898268 ATTTTATTTA
* * *
21898278 AAAATTACATTTTGACCCTTAAACTTTCCC
1 AAAATTACATTTTGACCC-CAAACTTTTCT
* * *
21898308 AAAATAATATGTTGACCCCTAAACTTTTCT
1 AAAATTACATTTTGACCCC-AAACTTTTCT
* *
21898338 AAAATCACA-TTTGACCCCCAAACTTTCCT
1 AAAATTACATTTTGA-CCCCAAACTTTTCT
* * * *
21898367 AAAATCACATTTTAACCTCACAC-TTTCT
1 AAAATTACATTTTGACCCCAAACTTTTCT
* *
21898395 AAAAATTACATTTTGACTCCAAAATTTTTCT
1 -AAAATTACATTTTGAC-CCCAAACTTTTCT
*
21898426 AAAATTATATTTTGACCCCAAA
1 AAAATTACATTTTGACCCCAAA
21898448 TTCTTCGAAA
Statistics
Matches: 112, Mismatches: 22, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
28 4 0.04
29 47 0.42
30 56 0.50
31 5 0.04
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAATTACATTTTGACCCCAAACTTTTCT
Found at i:21899491 original size:11 final size:11
Alignment explanation
Indices: 21899475--21899515 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
21899465 ATATTTTTTT
21899475 ATTTTTAAATA
1 ATTTTTAAATA
*
21899486 ATTTTTGAAT-
1 ATTTTTAAATA
*
21899496 TTTTTTAAA-A
1 ATTTTTAAATA
21899506 ATTTTTAAAT
1 ATTTTTAAAT
21899516 TTTAAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (11 bp):
ATTTTTAAATA
Found at i:21899499 original size:20 final size:20
Alignment explanation
Indices: 21899476--21899518 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
21899466 TATTTTTTTA
*
21899476 TTTTTAAATAATTTTTGAATT
1 TTTTTAAA-AATTTTTAAATT
21899497 TTTTTAAAAATTTTTAAATT
1 TTTTTAAAAATTTTTAAATT
21899517 TT
1 TT
21899519 AAAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTTAAAAATTTTTAAATT
Found at i:21899534 original size:18 final size:18
Alignment explanation
Indices: 21899477--21899532 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
21899467 ATTTTTTTAT
* *
21899477 TTTTAAATAATTTTTGAATT
1 TTTTAAAAAATTTTT-AA-A
*
21899497 TTTTTAAAAATTTTTAAA
1 TTTTAAAAAATTTTTAAA
21899515 TTTTAAAAAATTATTTAA
1 TTTTAAAAAATT-TTTAA
21899533 TTCCTAACGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 11 0.35
19 7 0.23
20 13 0.42
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
TTTTAAAAAATTTTTAAA
Found at i:21902523 original size:13 final size:13
Alignment explanation
Indices: 21902499--21902535 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
21902489 TGTTAGGCTA
21902499 GGTGTAATTGGGTT
1 GGTGT-ATTGGGTT
21902513 GGTGTATTGGGTT
1 GGTGTATTGGGTT
*
21902526 GGTATATTGG
1 GGTGTATTGG
21902536 ACTTGGATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (13 bp):
GGTGTATTGGGTT
Found at i:21906504 original size:31 final size:31
Alignment explanation
Indices: 21906469--21906534 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
21906459 AAGGACATTT
*
21906469 AAATCAATTTGATTAGAATCAAATCAAATCG
1 AAATCAATTTGATTAGAATAAAATCAAATCG
* * *
21906500 AAATCAATTTGATTGGAATAAAATCAGATTG
1 AAATCAATTTGATTAGAATAAAATCAAATCG
21906531 AAAT
1 AAAT
21906535 ATTTTGTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.30
Consensus pattern (31 bp):
AAATCAATTTGATTAGAATAAAATCAAATCG
Found at i:21907351 original size:15 final size:15
Alignment explanation
Indices: 21907333--21907362 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
21907323 TCTATCTCTC
21907333 ATCTATCTATTTTTT
1 ATCTATCTATTTTTT
21907348 ATCTATCTATTTTTT
1 ATCTATCTATTTTTT
21907363 CTTTAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (15 bp):
ATCTATCTATTTTTT
Found at i:21908045 original size:22 final size:22
Alignment explanation
Indices: 21908017--21908058 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
21908007 AAATGAATTT
21908017 AATAGAAATTAAATAG-AATAAA
1 AATAG-AATTAAATAGTAATAAA
*
21908039 AATAGAATTTAATAGTAATA
1 AATAGAATTAAATAGTAATA
21908059 GAATTTTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (22 bp):
AATAGAATTAAATAGTAATAAA
Found at i:21908914 original size:24 final size:26
Alignment explanation
Indices: 21908887--21908949 Score: 69
Period size: 30 Copynumber: 2.4 Consensus size: 26
21908877 ATTTATGTAC
21908887 ATAATAAAAAA-A-TAAATTATTTTT
1 ATAATAAAAAATATTAAATTATTTTT
21908911 ATAATTAATAAAAATATTTAAATTATTTTT
1 ATAA-T-A-AAAAATA-TTAAATTATTTTT
21908941 ATAA-AAAAA
1 ATAATAAAAA
21908950 TCCAAAATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
24 4 0.12
25 1 0.03
26 5 0.15
27 6 0.18
28 1 0.03
30 16 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
ATAATAAAAAATATTAAATTATTTTT
Found at i:21909138 original size:14 final size:15
Alignment explanation
Indices: 21909113--21909150 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
21909103 GAAAAAAATA
21909113 TATAATAATTATATT
1 TATAATAATTATATT
*
21909128 TATAA-AATTATATA
1 TATAATAATTATATT
*
21909142 AATAATAAT
1 TATAATAAT
21909151 AAAAATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATAATAATTATATT
Found at i:21918827 original size:9 final size:9
Alignment explanation
Indices: 21918813--21918990 Score: 89
Period size: 9 Copynumber: 19.3 Consensus size: 9
21918803 TTATATAAAA
21918813 TTTAATATT
1 TTTAATATT
21918822 TTTAATATAT
1 TTTAATAT-T
*
21918832 TTTATATTTT
1 TTTA-ATATT
21918842 TTTACAT-TT
1 TTTA-ATATT
*
21918851 TTTATTATT
1 TTTAATATT
* *
21918860 TTTAAGAAT
1 TTTAATATT
*
21918869 TCTAATACTT
1 TTTAATA-TT
21918879 TTTAA-ATT
1 TTTAATATT
*
21918887 TTAAATATT
1 TTTAATATT
*
21918896 TTAAATAATT
1 TTTAAT-ATT
*
21918906 TTTATTAATT
1 TTTAAT-ATT
21918916 TATT-ATATT
1 T-TTAATATT
*
21918925 TATT-ATA-A
1 T-TTAATATT
**
21918933 TTTAATAAG
1 TTTAATATT
*
21918942 TTTATATCAAT
1 TTTA-AT-ATT
*
21918953 TTTAATTTT
1 TTTAATATT
*
21918962 TTTAA-GTT
1 TTTAATATT
21918970 TTTAATATT
1 TTTAATATT
*
21918979 TCTAATATT
1 TTTAATATT
21918988 TTT
1 TTT
21918991 TTTCAGATTT
Statistics
Matches: 134, Mismatches: 23, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
7 2 0.01
8 18 0.13
9 69 0.51
10 34 0.25
11 11 0.08
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTAATATT
Found at i:21918850 original size:17 final size:18
Alignment explanation
Indices: 21918830--21918863 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21918820 TTTTTAATAT
21918830 ATTTTATATT-TTTTTAC
1 ATTTTATATTATTTTTAC
*
21918847 ATTTTTTATTATTTTTA
1 ATTTTATATTATTTTTA
21918864 AGAATTCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (18 bp):
ATTTTATATTATTTTTAC
Found at i:21920076 original size:22 final size:21
Alignment explanation
Indices: 21920042--21920102 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
21920032 TAATAAATAA
* *
21920042 TTAAAAATAAAAATATAATTT
1 TTAAAATTAAAAATATAATCT
* *
21920063 TTAAAATTATAAAAAAAAATCT
1 TTAAAATTA-AAAATATAATCT
*
21920085 TCAAAATTAAAAAT-TAAT
1 TTAAAATTAAAAATATAAT
21920103 GGTAGGTTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 3 0.09
21 12 0.38
22 17 0.53
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (21 bp):
TTAAAATTAAAAATATAATCT
Found at i:21923832 original size:39 final size:39
Alignment explanation
Indices: 21923789--21924359 Score: 219
Period size: 39 Copynumber: 14.7 Consensus size: 39
21923779 GATGGTTGCA
* ** * *
21923789 ATCTGCCCCAGGCTCTAGGTAAGAGATTGGCTAACAGTG
1 ATCTGCCTCAGGCTCGGGGTAAGAGATTGGCTGATAGTG
* * * *
21923828 ATCTGCC-CTAAGCTCGAGGTAAAAGATTGGCTGATGGTG
1 ATCTGCCTC-AGGCTCGGGGTAAGAGATTGGCTGATAGTG
* *
21923867 ATCTACCTCAGGCGCGGGGTAAGAGATTGGCTGATAGTG
1 ATCTGCCTCAGGCTCGGGGTAAGAGATTGGCTGATAGTG
* *
21923906 ATCTACCTCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCTCAGGCTCGGGGTAAGAGATTGGCTGATAGTG
* * ** *
21923945 ATTTGCCTCAAGCTCGGGGTAAGAGATTGAATGATTA-TA
1 ATCTGCCTCAGGCTCGGGGTAAGAGATTGGCTGA-TAGTG
* * * *
21923984 ATCTGCCCCTA-GCTCGAGGTAAGGGA-T--CGGATAGCTG
1 ATCTGCCTC-AGGCTCGGGGTAAGAGATTGGCTGATAG-TG
* *
21924021 CAATCTGCC-CTAGGCTTGGGGTAAGATCGGA-TGGCTG-CA---
1 --ATCTGCCTC-AGGCTCGGGGTAAGA---GATTGGCTGATAGTG
* * *
21924060 ATCTACC-CTAGGCTCGGGGTAAGAGATTAGCTGATGGTG
1 ATCTGCCTC-AGGCTCGGGGTAAGAGATTGGCTGATAGTG
* * * ** * * * * **
21924099 ATCTACCCCAAGCTCTTGATAAGAGATCGGACAGCTA-CA
1 ATCTGCCTCAGGCTCGGGGTAAGAGATTGG-CTGATAGTG
* * * * *
21924138 ATTTGCC-CTAGGCTCGGGATAAGAGATTGGATAGCT-GTA
1 ATCTGCCTC-AGGCTCGGGGTAAGAGATTGGCT-GATAGTG
** * * * * **
21924177 ATCTGCCTTTGGCTCAGGGTAAGAGATCGGATGGCT-GCA
1 ATCTGCCTCAGGCTCGGGGTAAGAGATTGGCT-GATAGTG
* * * *
21924216 ATCTGCCTCAAGCTTGAGGTAAGAGATTGGCTGATAGTA
1 ATCTGCCTCAGGCTCGGGGTAAGAGATTGGCTGATAGTG
* * * * * * * **
21924255 ATTTACCCCAAGCTCAGGGTAAAAGATTGGATGACT-GCA
1 ATCTGCCTCAGGCTCGGGGTAAGAGATTGGCTGA-TAGTG
* * *
21924294 ATCTACC-CTAGGCTCGGGGTAAGAGATTAGCTGATGGTG
1 ATCTGCCTC-AGGCTCGGGGTAAGAGATTGGCTGATAGTG
* *
21924333 ATTTGCC-CTAGGCTCGGGGTAAAAGAT
1 ATCTGCCTC-AGGCTCGGGGTAAGAGAT
21924360 CGAATCTTCA
Statistics
Matches: 407, Mismatches: 96, Indels: 58
0.73 0.17 0.10
Matches are distributed among these distances:
34 2 0.00
35 7 0.02
36 2 0.00
37 23 0.06
38 10 0.02
39 349 0.86
40 8 0.02
42 3 0.01
43 1 0.00
44 2 0.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (39 bp):
ATCTGCCTCAGGCTCGGGGTAAGAGATTGGCTGATAGTG
Found at i:21924058 original size:37 final size:37
Alignment explanation
Indices: 21923990--21924083 Score: 127
Period size: 37 Copynumber: 2.5 Consensus size: 37
21923980 TATAATCTGC
* *
21923990 CCCTA-GCTCGAGGTAAGGGATCGGATAGCTGCAATCTG
1 CCCTAGGCTCGGGGTAA--GATCGGATAGCTGCAATCTA
* *
21924028 CCCTAGGCTTGGGGTAAGATCGGATGGCTGCAATCTA
1 CCCTAGGCTCGGGGTAAGATCGGATAGCTGCAATCTA
21924065 CCCTAGGCTCGGGGTAAGA
1 CCCTAGGCTCGGGGTAAGA
21924084 GATTAGCTGA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.72
38 5 0.10
39 9 0.18
ACGTcount: A:0.22, C:0.23, G:0.33, T:0.21
Consensus pattern (37 bp):
CCCTAGGCTCGGGGTAAGATCGGATAGCTGCAATCTA
Found at i:21924111 original size:154 final size:156
Alignment explanation
Indices: 21923906--21924320 Score: 466
Period size: 154 Copynumber: 2.7 Consensus size: 156
21923896 GCTGATAGTG
* * *
21923906 ATCTACCTCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATTTGCCTCAAGCTCGGGGTAAGAGA
1 ATCTACCTCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATTTACCCCAAGCTCAGGGTAAGAGA
* * *
21923971 TTGAATGATTATAATCTGCCCCTA-GCTCGAGG-TAAGGGATCGGATAGCTGCAATCTGCCCTAG
66 TTGAATGACTACAATCTG-CCCTAGGCTCG-GGATAAGAGATCGGATAGCTGCAATCTGCCCTAG
**
21924034 GCTTGGGGT-A-AGATCGGATGGCTGCA
129 GCTCAGGGTAAGAGATCGGATGGCTGCA
* * ** *
21924060 ATCTACC-CTAGGCTCGGGGTAAGAGATTAGCTGATGGTGATCTACCCCAAGCTCTTGATAAGAG
1 ATCTACCTC-AGGCTCGGGGTAAGAGATTGGCTGATGGTGATTTACCCCAAGCTCAGGGTAAGAG
* * * * * *
21924124 ATCGGACA-G-CTACAATTTGCCCTAGGCTCGGGATAAGAGATTGGATAGCTGTAATCTGCCTTT
65 AT-TGA-ATGACTACAATCTGCCCTAGGCTCGGGATAAGAGATCGGATAGCTGCAATCTGCCCTA
21924187 GGCTCAGGGTAAGAGATCGGATGGCTGCA
128 GGCTCAGGGTAAGAGATCGGATGGCTGCA
* * * * * * *
21924216 ATCTGCCTCAAGCTTGAGGTAAGAGATTGGCTGATAGTAATTTACCCCAAGCTCAGGGTAAAAGA
1 ATCTACCTCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATTTACCCCAAGCTCAGGGTAAGAGA
* * * *
21924281 TTGGATGACTGCAATCTACCCTAGGCTCGGGGTAAGAGAT
66 TTGAATGACTACAATCTGCCCTAGGCTCGGGATAAGAGAT
21924321 TAGCTGATGG
Statistics
Matches: 215, Mismatches: 36, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
153 8 0.04
154 103 0.48
155 6 0.03
156 97 0.45
157 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (156 bp):
ATCTACCTCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATTTACCCCAAGCTCAGGGTAAGAGA
TTGAATGACTACAATCTGCCCTAGGCTCGGGATAAGAGATCGGATAGCTGCAATCTGCCCTAGGC
TCAGGGTAAGAGATCGGATGGCTGCA
Found at i:21924353 original size:78 final size:78
Alignment explanation
Indices: 21923828--21924361 Score: 354
Period size: 78 Copynumber: 6.9 Consensus size: 78
21923818 GCTAACAGTG
* * * * * *
21923828 ATCTGCCCTAAGCTCGAGGTAAAAGATTGGCTGATGGTGATCT-ACCTCAGGCGCGGGGTAAGAG
1 ATCTACCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCT-AGGCTCGGGGTAAGAG
* * **
21923892 ATTGGCTGA-TAGTG
65 ATCGGATGACT-GCA
* *
21923906 ATCTA-CCTCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATTTG-CCTCAAGCTCGGGGTAAGA
1 ATCTACCCT-AGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCT-AGGCTCGGGGTAAGA
* * * **
21923969 GATTGAATGATTATA
64 GATCGGATGACTGCA
* * * * * * *
21923984 ATCTGCCCCTA-GCTCGAGGTAAGGGATCGGAT-A-GCTGCAATCTGCCCTAGGCTTGGGGT-A-
1 ATCT-ACCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTG--ATCTGCCCTAGGCTCGGGGTAAG
*
21924044 AGATCGGATGGCTGCA
63 AGATCGGATGACTGCA
* * * * ** *
21924060 ATCTACCCTAGGCTCGGGGTAAGAGATTAGCTGATGGTGATCTACCCCAAGCTCTTGATAAGAGA
1 ATCTACCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGGGGTAAGAGA
* *
21924125 TCGGA-CAGCTACA
66 TCGGATGA-CTGCA
* * * * * * * * *
21924138 ATTTGCCCTAGGCTCGGGATAAGAGATTGGATAGCT-GTAATCTGCCTTTGGCTCAGGGTAAGAG
1 ATCTACCCTAGGCTCGGGGTAAGAGATTGGCT-GATGGTGATCTGCCCTAGGCTCGGGGTAAGAG
*
21924202 ATCGGATGGCTGCA
65 ATCGGATGACTGCA
* * * * * * * * * * * *
21924216 ATCT-GCCTCAAGCTTGAGGTAAGAGATTGGCTGATAGTAATTTACCCCAAGCTCAGGGTAAAAG
1 ATCTACCCT-AGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGGGGTAAGAG
*
21924280 ATTGGATGACTGCA
65 ATCGGATGACTGCA
* * *
21924294 ATCTACCCTAGGCTCGGGGTAAGAGATTAGCTGATGGTGATTTGCCCTAGGCTCGGGGTAAAAGA
1 ATCTACCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGGGGTAAGAGA
21924359 TCG
66 TCG
21924362 AATCTTCAAC
Statistics
Matches: 347, Mismatches: 90, Indels: 38
0.73 0.19 0.08
Matches are distributed among these distances:
75 5 0.01
76 46 0.13
77 12 0.03
78 271 0.78
79 10 0.03
80 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (78 bp):
ATCTACCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGCTCGGGGTAAGAGA
TCGGATGACTGCA
Found at i:21924354 original size:117 final size:117
Alignment explanation
Indices: 21923956--21924361 Score: 294
Period size: 117 Copynumber: 3.5 Consensus size: 117
21923946 TTTGCCTCAA
* ** * * * *
21923956 GCTCGGGGTAAGAGATT-GAATGATTATAATCTGCCCCT-AGCTCGAGGTAAGGGATCGGATAGC
1 GCTCGGGGTAAGAGATTAG-CTGATGGTGATCTG-CCCTAAGCTCGAGGTAAGAGATCGGACAGA
* * * * * * * * *
21924019 TGCAATCTGCCCTAGGCTTGGGGT--AAGATCGGATGGCTGCAATCTACCCTAG
64 TACAATTTACCCCAAGCTCGGGATAAAAGATTGGATGACTGCAATCTACCCTAG
* * ** * *
21924071 GCTCGGGGTAAGAGATTAGCTGATGGTGATCTACCCCAAGCTCTTGATAAGAGATCGGACAGCTA
1 GCTCGGGGTAAGAGATTAGCTGATGGTGATCTGCCCTAAGCTCGAGGTAAGAGATCGGACAGATA
* * * * * * * *
21924136 CAATTTGCCCTAGGCTCGGGATAAGAGATTGGAT-AGCTGTAATCTGCCTTTG
66 CAATTTACCCCAAGCTCGGGATAAAAGATTGGATGA-CTGCAATCTACCCTAG
* * * * *
21924188 GCTCAGGGTAAGAGA-T--CGGATGGCTGCAATCTG-CCTCAAGCTTGAGGTAAGAGATTGG-CT
1 GCTCGGGGTAAGAGATTAGCTGATGG-TG--ATCTGCCCT-AAGCTCGAGGTAAGAGATCGGACA
*
21924248 GATAGTAATTTACCCCAAGCTCAGGG-TAAAAGATTGGATGACTGCAATCTACCCTAG
62 GATA-CAATTTACCCCAAGCTC-GGGATAAAAGATTGGATGACTGCAATCTACCCTAG
* * * *
21924305 GCTCGGGGTAAGAGATTAGCTGATGGTGATTTGCCCTAGGCTCGGGGTAAAAGATCG
1 GCTCGGGGTAAGAGATTAGCTGATGGTGATCTGCCCTAAGCTCGAGGTAAGAGATCG
21924362 AATCTTCAAC
Statistics
Matches: 225, Mismatches: 50, Indels: 30
0.74 0.16 0.10
Matches are distributed among these distances:
114 9 0.04
115 68 0.30
116 8 0.04
117 124 0.55
118 8 0.04
119 2 0.01
120 6 0.03
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (117 bp):
GCTCGGGGTAAGAGATTAGCTGATGGTGATCTGCCCTAAGCTCGAGGTAAGAGATCGGACAGATA
CAATTTACCCCAAGCTCGGGATAAAAGATTGGATGACTGCAATCTACCCTAG
Found at i:21929327 original size:52 final size:52
Alignment explanation
Indices: 21929134--21929326 Score: 287
Period size: 52 Copynumber: 3.7 Consensus size: 52
21929124 ATTTCATTTC
* * * *
21929134 ATTCATATACTCACGATGACACATAGCCATCGAATCTCAAAATCCGTAAATG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
*
21929186 ATTCATATACTCACGATGACACATAGCCATAGGACCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
* * * *
21929238 ATTTATATATTCACGATAACACATAGCCATCGGACCTTATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
* *
21929290 ATTCATATACTCATGATGACACATAGTCATCGGACCT
1 ATTCATATACTCACGATGACACATAGCCATCGGACCT
21929327 TTTTTTATTT
Statistics
Matches: 126, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 126 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.26
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
Found at i:21940063 original size:30 final size:30
Alignment explanation
Indices: 21940030--21940138 Score: 134
Period size: 30 Copynumber: 3.7 Consensus size: 30
21940020 ATCCGGGGGT
21940030 AAAATGGTAATTTTTAGAAGTTTCGGGGTTA
1 AAAAT-GTAATTTTTAGAAGTTTCGGGGTTA
* * *
21940061 AAAATAG-AATTTTTGGAAGTTTAGGGG--G
1 AAAAT-GTAATTTTTAGAAGTTTCGGGGTTA
21940089 AAAATGTAATTTTTAGAAGTTTCGGGGTTA
1 AAAATGTAATTTTTAGAAGTTTCGGGGTTA
* *
21940119 AAAATGAAATTTTTGGAAGT
1 AAAATGTAATTTTTAGAAGT
21940139 CCGAGGTCAA
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
27 1 0.02
28 23 0.35
30 36 0.55
31 6 0.09
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.37
Consensus pattern (30 bp):
AAAATGTAATTTTTAGAAGTTTCGGGGTTA
Found at i:21940112 original size:58 final size:60
Alignment explanation
Indices: 21940024--21940138 Score: 200
Period size: 58 Copynumber: 1.9 Consensus size: 60
21940014 TCGGACATCC
21940024 GGGGGTAAAATGGTAATTTTTAGAAGTTTCGGGGTTAAAAAT-AGAATTTTTGGAAGTTTA
1 GGGGGTAAAATGGTAATTTTTAGAAGTTTCGGGGTTAAAAATGA-AATTTTTGGAAGTTTA
21940084 GGGGG-AAAAT-GTAATTTTTAGAAGTTTCGGGGTTAAAAATGAAATTTTTGGAAGT
1 GGGGGTAAAATGGTAATTTTTAGAAGTTTCGGGGTTAAAAATGAAATTTTTGGAAGT
21940139 CCGAGGTCAA
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
58 43 0.80
59 6 0.11
60 5 0.09
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.36
Consensus pattern (60 bp):
GGGGGTAAAATGGTAATTTTTAGAAGTTTCGGGGTTAAAAATGAAATTTTTGGAAGTTTA
Found at i:21940151 original size:58 final size:58
Alignment explanation
Indices: 21940025--21940169 Score: 177
Period size: 58 Copynumber: 2.5 Consensus size: 58
21940015 CGGACATCCG
* **
21940025 GGGGTAAAATGGTAATTTTTAGAAGTTTCGGGGTTAAAAATAGAATTTTTGGAAGTTTA
1 GGGGCAAAAT-GTAATTTTTAGAAGTTTCGGGGTTAAAAATAGAATTTTTGGAAGTCGA
*
21940084 GGGGGAAAATGTAATTTTTAGAAGTTTCGGGGTTAAAAAT-GAAATTTTTGGAAGTCCGA
1 GGGGCAAAATGTAATTTTTAGAAGTTTCGGGGTTAAAAATAG-AATTTTTGGAAGT-CGA
* * *
21940143 -GGTCAAAATATAATTTTTGGATAGTTT
1 GGGGCAAAATGTAATTTTTAGA-AGTTT
21940170 AAGGACCTCC
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
57 1 0.01
58 60 0.79
59 15 0.20
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (58 bp):
GGGGCAAAATGTAATTTTTAGAAGTTTCGGGGTTAAAAATAGAATTTTTGGAAGTCGA
Found at i:21942007 original size:13 final size:14
Alignment explanation
Indices: 21941973--21942007 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
21941963 GGCCTTTCTA
21941973 ATTTGGACATTTGT
1 ATTTGGACATTTGT
*
21941987 AATTGGACATTT-T
1 ATTTGGACATTTGT
21942000 ATTTGGAC
1 ATTTGGAC
21942008 CTTTAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.46
Consensus pattern (14 bp):
ATTTGGACATTTGT
Found at i:21942036 original size:17 final size:17
Alignment explanation
Indices: 21942014--21942103 Score: 126
Period size: 17 Copynumber: 5.3 Consensus size: 17
21942004 GGACCTTTAA
* *
21942014 TTAAATTTATAATAATT
1 TTAAATTTAAAATAAAT
21942031 TTAAATTTAAAATAAAT
1 TTAAATTTAAAATAAAT
* * *
21942048 TCAAACTTAAATTAAAT
1 TTAAATTTAAAATAAAT
21942065 TTAAATTTAAAATAAAT
1 TTAAATTTAAAATAAAT
*
21942082 TTAATTTTAAAATAAAT
1 TTAAATTTAAAATAAAT
21942099 TTAAA
1 TTAAA
21942104 ATGGTTTGGT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 63 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:21942046 original size:11 final size:11
Alignment explanation
Indices: 21942032--21942105 Score: 61
Period size: 11 Copynumber: 7.1 Consensus size: 11
21942022 ATAATAATTT
21942032 TAAATTTAAAA
1 TAAATTTAAAA
* *
21942043 TAAATTCAAACT
1 TAAATTTAAA-A
*
21942055 TAAA-TTAAATT
1 TAAATTTAAA-A
21942066 TAAATTTAAAA
1 TAAATTTAAAA
21942077 TAAATTT--AA
1 TAAATTTAAAA
21942086 T---TTTAAAA
1 TAAATTTAAAA
21942094 TAAATTTAAAA
1 TAAATTTAAAA
21942105 T
1 T
21942106 GGTTTGGTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
6 3 0.06
8 3 0.06
9 3 0.06
11 33 0.65
12 9 0.18
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:21946926 original size:28 final size:28
Alignment explanation
Indices: 21946895--21946953 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
21946885 AAAATAAGAT
21946895 TTTTTGGA-TACCGGGGGCAAAATGGTAA
1 TTTTTGGACT-CCGGGGGCAAAATGGTAA
**
21946923 -TTTTGGACTCTTGGGGCAAAATGGTAA
1 TTTTTGGACTCCGGGGGCAAAATGGTAA
21946950 TTTT
1 TTTT
21946954 AGAAAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.25, C:0.10, G:0.29, T:0.36
Consensus pattern (28 bp):
TTTTTGGACTCCGGGGGCAAAATGGTAA
Found at i:21947012 original size:29 final size:28
Alignment explanation
Indices: 21946980--21947311 Score: 198
Period size: 28 Copynumber: 11.5 Consensus size: 28
21946970 AAAAATAACA
21946980 TTTTAGACA-TTTAGGGGTAAAATGGTAAT
1 TTTTAGA-AGTTTAGGGGTAAAAT-GTAAT
** * *
21947009 TTTTAGAAAAATTA-GGATCAAAAATGGAA-
1 TTTTAG-AAGTTTAGGGGT--AAAATGTAAT
* *
21947038 TTTTCGAA-TATTCAAGGGTAAAATGGTAAT
1 TTTTAGAAGT-TT-AGGGGTAAAAT-GTAAT
* ** *
21947068 TTTTGGAAGTTTCA-TTGTCAAAAATGAAAT
1 TTTTAGAAGTTT-AGGGGT--AAAATGTAAT
* *
21947098 TTTTGGAAG-TTCGAGGGTAAAAATGTAAT
1 TTTTAGAAGTTTAG-GGGT-AAAATGTAAT
* ** *
21947127 TTTTTGAAGTTTTGAGGTCTAAAATGGAAT
1 TTTTAGAAG-TTT-AGGGGTAAAATGTAAT
21947157 TTTTAGAAGTTTAAGGGG-AAAATGTAAT
1 TTTTAGAAGTTT-AGGGGTAAAATGTAAT
* *
21947185 TTTT-GAAAGTTT-GGGGTCAAAATGGAGT
1 TTTTAG-AAGTTTAGGGGT-AAAATGTAAT
*
21947213 TTTTGGAAGTTTAGGGGTAAAATGTAAT
1 TTTTAGAAGTTTAGGGGTAAAATGTAAT
*
21947241 TTTTAGAAGTTTTAGGGTTAAAATG-AAT
1 TTTTAGAAG-TTTAGGGGTAAAATGTAAT
* *
21947269 TTTTAGAAGTTTAAGGGTCAAAATATAAT
1 TTTTAGAAGTTTAGGGGT-AAAATGTAAT
*
21947298 TTTTGGATAGTTTA
1 TTTTAGA-AGTTTA
21947312 AGGACCTCCT
Statistics
Matches: 242, Mismatches: 35, Indels: 51
0.74 0.11 0.16
Matches are distributed among these distances:
26 4 0.02
27 8 0.03
28 79 0.33
29 76 0.31
30 59 0.24
31 15 0.06
32 1 0.00
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (28 bp):
TTTTAGAAGTTTAGGGGTAAAATGTAAT
Found at i:21947032 original size:58 final size:60
Alignment explanation
Indices: 21946935--21947071 Score: 158
Period size: 58 Copynumber: 2.3 Consensus size: 60
21946925 TTGGACTCTT
* * * *
21946935 GGGGCAAAATGGTAA-TTTTAGAAAAATTTGGGGTTAAAAAT-AACATTTTAGACAT-TT-A
1 GGGGTAAAATGGTAATTTTTAGAAAAATTTAGGATCAAAAATGAA-ATTTTAGA-ATATTCA
* *
21946993 GGGGTAAAATGGTAATTTTTAGAAAAA-TTAGGATCAAAAATGGAATTTTCGAATATTCA
1 GGGGTAAAATGGTAATTTTTAGAAAAATTTAGGATCAAAAATGAAATTTTAGAATATTCA
*
21947052 AGGGTAAAATGGTAATTTTT
1 GGGGTAAAATGGTAATTTTT
21947072 GGAAGTTTCA
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
57 2 0.03
58 34 0.50
59 32 0.47
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.34
Consensus pattern (60 bp):
GGGGTAAAATGGTAATTTTTAGAAAAATTTAGGATCAAAAATGAAATTTTAGAATATTCA
Found at i:21947224 original size:56 final size:58
Alignment explanation
Indices: 21946980--21947302 Score: 249
Period size: 59 Copynumber: 5.6 Consensus size: 58
21946970 AAAAATAACA
** *
21946980 TTTTAGACA-TTT-AGGGGTAAAATGGTAATTTTTAGAAA-AATTAGGATCAAAAATGGAA-
1 TTTTAGA-AGTTTAAGGGG-AAAAT-GTAATTTTT-GAAAGTTTTAGGGTCAAAAATGGAAT
* * * * ** *
21947038 TTTTCGAA-TATTCAAGGGTAAAATGGTAATTTTTGGAAGTTTCATTGTCAAAAATGAAAT
1 TTTTAGAAGT-TT-AAGGGGAAAAT-GTAATTTTTGAAAGTTTTAGGGTCAAAAATGGAAT
* ** * *
21947098 TTTTGGAAGTTCGAGGGTAAAAATGTAATTTTTTG-AAGTTTT-GAGGTCTAAAATGGAAT
1 TTTTAGAAGTTTAAGGG-GAAAATGTAA-TTTTTGAAAGTTTTAG-GGTCAAAAATGGAAT
* *
21947157 TTTTAGAAGTTTAAGGGGAAAATGTAATTTTTGAAAG-TTTGGGGTC-AAAATGGAGT
1 TTTTAGAAGTTTAAGGGGAAAATGTAATTTTTGAAAGTTTTAGGGTCAAAAATGGAAT
* *
21947213 TTTTGGAAGTTT-AGGGGTAAAATGTAATTTTT-AGAAGTTTTAGGGT-TAAAAT-GAAT
1 TTTTAGAAGTTTAAGGGG-AAAATGTAATTTTTGA-AAGTTTTAGGGTCAAAAATGGAAT
* *
21947269 TTTTAGAAGTTTAAGGGTCAAAATATAATTTTTG
1 TTTTAGAAGTTTAAGGG-GAAAATGTAATTTTTG
21947303 GATAGTTTAA
Statistics
Matches: 217, Mismatches: 30, Indels: 36
0.77 0.11 0.13
Matches are distributed among these distances:
55 6 0.03
56 51 0.24
57 44 0.20
58 24 0.11
59 68 0.31
60 23 0.11
61 1 0.00
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (58 bp):
TTTTAGAAGTTTAAGGGGAAAATGTAATTTTTGAAAGTTTTAGGGTCAAAAATGGAAT
Found at i:21947312 original size:30 final size:29
Alignment explanation
Indices: 21947051--21947314 Score: 243
Period size: 28 Copynumber: 9.1 Consensus size: 29
21947041 TCGAATATTC
21947051 AAGGGT-AAAATGGTAATTTTTGGAAGTTT
1 AAGGGTCAAAAT-GTAATTTTTGGAAGTTT
* ** * *
21947080 CATTGTCAAAAATGAAATTTTTGGAAGTTC
1 AAGGGTC-AAAATGTAATTTTTGGAAGTTT
* * *
21947110 GAGGGTAAAAATGTAATTTTTTGAAGTTT
1 AAGGGTCAAAATGTAATTTTTGGAAGTTT
* * *
21947139 -TGAGGTCTAAAATGGAATTTTTAGAAGTTT
1 AAG-GGTC-AAAATGTAATTTTTGGAAGTTT
* *
21947169 AAGGG-GAAAATGTAATTTTTGAAAGTTT
1 AAGGGTCAAAATGTAATTTTTGGAAGTTT
* * *
21947197 -GGGGTCAAAATGGAGTTTTTGGAAGTTT
1 AAGGGTCAAAATGTAATTTTTGGAAGTTT
* *
21947225 AGGGGT-AAAATGTAATTTTTAGAAGTTT
1 AAGGGTCAAAATGTAATTTTTGGAAGTTT
* * *
21947253 TAGGGTTAAAATG-AATTTTTAGAAGTTT
1 AAGGGTCAAAATGTAATTTTTGGAAGTTT
*
21947281 AAGGGTCAAAATATAATTTTTGGATAGTTT
1 AAGGGTCAAAATGTAATTTTTGGA-AGTTT
21947311 AAGG
1 AAGG
21947315 ACCTCCTTGG
Statistics
Matches: 190, Mismatches: 35, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.02
28 87 0.46
29 45 0.24
30 49 0.26
31 6 0.03
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.38
Consensus pattern (29 bp):
AAGGGTCAAAATGTAATTTTTGGAAGTTT
Found at i:21947671 original size:15 final size:15
Alignment explanation
Indices: 21947653--21947693 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
21947643 CAATTGGGCT
21947653 TTTGTAATTTGGACA
1 TTTGTAATTTGGACA
21947668 TTTGTAA-TTGGACA
1 TTTGTAATTTGGACA
21947682 TTT-T-ATTTGGAC
1 TTTGTAATTTGGAC
21947694 CTTTAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.04
13 7 0.28
14 10 0.40
15 7 0.28
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (15 bp):
TTTGTAATTTGGACA
Found at i:21947722 original size:17 final size:17
Alignment explanation
Indices: 21947700--21947755 Score: 76
Period size: 17 Copynumber: 3.3 Consensus size: 17
21947690 GGACCTTTAA
* *
21947700 TTAAATTTATAATAATT
1 TTAAATTTAAAATAAAT
21947717 TTAAATTTAAAATAAAT
1 TTAAATTTAAAATAAAT
* *
21947734 TCAAAATTAAAATAAAT
1 TTAAATTTAAAATAAAT
21947751 TTAAA
1 TTAAA
21947756 ATGGTTTGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:21948369 original size:29 final size:28
Alignment explanation
Indices: 21948329--21948521 Score: 90
Period size: 29 Copynumber: 6.7 Consensus size: 28
21948319 TTTGAGGTTG
*
21948329 AAAATGTGATTTTTGGAAATTTAGGGAC
1 AAAATGTAATTTTTGGAAATTTAGGGAC
* *
21948357 AAAATAGTAATTTTT-G-AATGTTTGGGGC
1 AAAAT-GTAATTTTTGGAAAT-TTAGGGAC
* *
21948385 AAAATGGTAAATTTTGAAGAATTTTAGGGTA-
1 AAAAT-GTAATTTTTG--GAAATTTAGGG-AC
* **
21948416 AAAATGTAA-TTTTGGAAAAGTTTTGGGTG
1 AAAATGTAATTTTTGG-AAA-TTTAGGGAC
* ** * *
21948445 AAAATGTGATTTCAGAAAATTTTAGGGAT
1 AAAATGTAATTTTTGGAAA-TTTAGGGAC
* * * **
21948474 GAAATGTAATTTTTGTGAAGTATAAGGGTT
1 AAAATGTAATTTTTG-GAAAT-TTAGGGAC
21948504 AAAATGTAA-TTTTGGAAA
1 AAAATGTAATTTTTGGAAA
21948522 GTTCGGGAGT
Statistics
Matches: 123, Mismatches: 29, Indels: 26
0.69 0.16 0.15
Matches are distributed among these distances:
27 4 0.03
28 30 0.24
29 53 0.43
30 23 0.19
31 11 0.09
32 2 0.02
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.37
Consensus pattern (28 bp):
AAAATGTAATTTTTGGAAATTTAGGGAC
Done.