Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004309.1 Hibiscus syriacus cultivar Beakdansim tig00009447_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 426183
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:6605 original size:18 final size:18
Alignment explanation
Indices: 6582--6620 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
6572 TTTTAAGTAA
6582 AACATACATGCGTGAAAG
1 AACATACATGCGTGAAAG
*
6600 AACATACCTGCGTGAAAG
1 AACATACATGCGTGAAAG
6618 AAC
1 AAC
6621 TCATCCACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.21, G:0.21, T:0.15
Consensus pattern (18 bp):
AACATACATGCGTGAAAG
Found at i:6813 original size:16 final size:16
Alignment explanation
Indices: 6763--6804 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
6753 GTGTGTATGA
6763 AAATT-CCTTGCTGAC
1 AAATTCCCTTGCTGAC
6778 AAATTCCCTTGCTGAC
1 AAATTCCCTTGCTGAC
6794 AAATTCCCTTG
1 AAATTCCCTTG
6805 GTAACAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 5 0.19
16 21 0.81
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (16 bp):
AAATTCCCTTGCTGAC
Found at i:11523 original size:24 final size:24
Alignment explanation
Indices: 11496--11552 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
11486 CACCAAAGCT
*
11496 CATATAAATTGCACCGAAGTGCCA
1 CATATAAATTGCACCGAAATGCCA
* * *
11520 CATAGAATTTGCACCGAAATGCTA
1 CATATAAATTGCACCGAAATGCCA
*
11544 CGTATAAAT
1 CATATAAAT
11553 GTCCCAAAGG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.25
Consensus pattern (24 bp):
CATATAAATTGCACCGAAATGCCA
Found at i:11598 original size:23 final size:23
Alignment explanation
Indices: 11544--11619 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
11534 CGAAATGCTA
* * *
11544 CGTATAAATGTCCCAAAGGACCA
1 CGTAGAAATGTCCCAAAAGACCG
* **
11567 CATTTAAATGTCCCAAAAGACCG
1 CGTAGAAATGTCCCAAAAGACCG
* * *
11590 TGTAGAAATTTCCCAAAGGACCG
1 CGTAGAAATGTCCCAAAAGACCG
11613 CGTAGAA
1 CGTAGAA
11620 CCCTCGACTC
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGTCCCAAAAGACCG
Found at i:13388 original size:18 final size:18
Alignment explanation
Indices: 13361--13395 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13351 ATCGACGTCT
*
13361 GTCAATGGTCAATGGTCG
1 GTCAACGGTCAATGGTCG
13379 GTCAACGGTCAATGGTC
1 GTCAACGGTCAATGGTC
13396 AACAGTGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (18 bp):
GTCAACGGTCAATGGTCG
Found at i:17045 original size:14 final size:14
Alignment explanation
Indices: 17026--17074 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
17016 AATTAATGTC
17026 GGTCAACGGTCAAT
1 GGTCAACGGTCAAT
*
17040 GGTCAATGGTC---
1 GGTCAACGGTCAAT
*
17051 GGTCAACGATCAAT
1 GGTCAACGGTCAAT
*
17065 AGTCAACGGT
1 GGTCAACGGT
17075 GGACCGGTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
11 9 0.33
14 18 0.67
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (14 bp):
GGTCAACGGTCAAT
Found at i:17053 original size:25 final size:25
Alignment explanation
Indices: 17023--17070 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
17013 AAAAATTAAT
* *
17023 GTCGGTCAACGGTCAATGGTCAATG
1 GTCGGTCAACGATCAATAGTCAATG
17048 GTCGGTCAACGATCAATAGTCAA
1 GTCGGTCAACGATCAATAGTCAA
17071 CGGTGGACCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (25 bp):
GTCGGTCAACGATCAATAGTCAATG
Found at i:18354 original size:19 final size:18
Alignment explanation
Indices: 18318--18360 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
18308 TAACAAATAG
*
18318 AATAATTTAACAAAATTT
1 AATAATTGAACAAAATTT
* *
18336 CAATAATTGAATAATATTT
1 -AATAATTGAACAAAATTT
18355 AATAAT
1 AATAAT
18361 ATTTTAATAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (18 bp):
AATAATTGAACAAAATTT
Found at i:18932 original size:79 final size:78
Alignment explanation
Indices: 18817--19021 Score: 294
Period size: 79 Copynumber: 2.7 Consensus size: 78
18807 AAATAAATAA
*
18817 TATTTAAATAAAAA-ATACGATTTAAGT-AAA--AGTAAATAGAATTTAAATAAATACTAGTAAT
1 TATTTAAATAAAAAGATA-GATTAAAGTAAAAGTAGTAAATAGAATTTAAATAAATACTAGTAAT
18878 TTAAATCAAACTAT
65 TTAAATCAAACTAT
* * *
18892 TGA-TTAAATAAAAAGATGGGGTTAAAGTAAAAGTAGTAAATAGAATTTGAATAAATACTAGTAA
1 T-ATTTAAATAAAAAGAT-AGATTAAAGTAAAAGTAGTAAATAGAATTTAAATAAATACTAGTAA
18956 TTTAAATCAAACTAT
64 TTTAAATCAAACTAT
* *
18971 TATTTAAATAGAAAGATAGATTTAAGTAAAAGTAGTAAATAGAATTTAAAT
1 TATTTAAATAAAAAGATAGATTAAAGTAAAAGTAGTAAATAGAATTTAAAT
19022 CAAACAATGC
Statistics
Matches: 114, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
75 12 0.11
76 10 0.09
77 3 0.03
78 31 0.27
79 58 0.51
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.32
Consensus pattern (78 bp):
TATTTAAATAAAAAGATAGATTAAAGTAAAAGTAGTAAATAGAATTTAAATAAATACTAGTAATT
TAAATCAAACTAT
Found at i:22514 original size:31 final size:31
Alignment explanation
Indices: 22450--22519 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
22440 AAACTGCGCA
* **
22450 TTTAGTACCTAAGCTATCAGTTATGATTTGT
1 TTTAGTACCTAAACTATCAGTTATGATCCGT
* * *
22481 TTTAGTATCTAAACTATCAGTTTTGGTCCGT
1 TTTAGTACCTAAACTATCAGTTATGATCCGT
22512 TTTAGTAC
1 TTTAGTAC
22520 TTATTAATTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.46
Consensus pattern (31 bp):
TTTAGTACCTAAACTATCAGTTATGATCCGT
Found at i:23437 original size:13 final size:13
Alignment explanation
Indices: 23419--23464 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 13
23409 ATTATAAAAC
23419 ATATTTTAATTAT
1 ATATTTTAATTAT
23432 ATA-TTTAATTTAT
1 ATATTTTAA-TTAT
*
23445 AAATTTT-ATTAT
1 ATATTTTAATTAT
23457 A-ATTTTAA
1 ATATTTTAA
23465 GAGAAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
11 5 0.17
12 11 0.38
13 10 0.34
14 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATTTTAATTAT
Found at i:23699 original size:20 final size:20
Alignment explanation
Indices: 23670--23985 Score: 167
Period size: 20 Copynumber: 15.7 Consensus size: 20
23660 GATTTTCCAG
23670 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATATGAA
*
23690 AATCGTAACGCGAATATGAA
1 AATCGCAACGCGAATATGAA
*
23710 AATCGCAACGCGAACAT-ATA
1 AATCGCAACGCGAATATGA-A
* * *
23730 AATCGCAACGCGATTCTGAC
1 AATCGCAACGCGAATATGAA
* * * *
23750 TATCGCAACGAGTATCTGTAA
1 AATCGCAACGCGAATATG-AA
* *
23771 AATCGCAACGCGTAT-TCGTA
1 AATCGCAACGCGAATAT-GAA
*
23791 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATATG-AA
* * *
23812 AATCACAACGCGTAT-TCGTA
1 AATCGCAACGCGAATAT-GAA
* ** *
23832 AATCGCAACAG-GTATCCGTA
1 AATCGCAAC-GCGAATATGAA
* * *
23852 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATATGAA
* * *
23872 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATATGAA
* * *
23892 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATATGAA
* * *
23912 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATATGAA
* * ** *
23932 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATATGAA
*
23952 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATATG-AA
*
23973 TATCGCAACGCGA
1 AATCGCAACGCGA
23986 TTTTTAAAGC
Statistics
Matches: 243, Mismatches: 38, Indels: 29
0.78 0.12 0.09
Matches are distributed among these distances:
19 2 0.01
20 198 0.81
21 43 0.18
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAATATGAA
Found at i:23912 original size:60 final size:60
Alignment explanation
Indices: 23670--23985 Score: 275
Period size: 60 Copynumber: 5.2 Consensus size: 60
23660 GATTTTCCAG
* * * * * * * * **
23670 AATCGCAACGCGAATATGAAAATCGTAACGCGAATATGAAAATCGCAACGCGAACATATA
1 AATCGCAACGCGAATACGTAAATCGCAATGCGTATACGTAAATCGCAACGCGAATACGTA
* * * * * *
23730 AATCGCAACGCG-ATTC-TGACTATCGCAACGAGTAT-CTGTAAAATCGCAACGCGTATTCGTA
1 AATCGCAACGCGAATACGT-A-AATCGCAATGCGTATAC-GT-AAATCGCAACGCGAATACGTA
* * * * *
23791 AATCGCAACGAC-AATACGTAAAATCACAACGCGTATTCGTAAATCGCAACAG-GTATCCGTA
1 AATCGCAACG-CGAATACGT-AAATCGCAATGCGTATACGTAAATCGCAAC-GCGAATACGTA
* * *
23852 AATCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATACGTAAATCGCAATGCGTATACGTAAATCGCAACGCGAATACGTA
* *
23912 AATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTAAATCGCAACGAC-AATACGTA
1 AATCGCAACGCGAATACGTAAATCGCAATGCGTATACGTAAATCGCAACG-CGAATACGTA
23972 ATATCGCAACGCGA
1 A-ATCGCAACGCGA
23986 TTTTTAAAGC
Statistics
Matches: 209, Mismatches: 34, Indels: 25
0.78 0.13 0.09
Matches are distributed among these distances:
59 4 0.02
60 111 0.53
61 72 0.34
62 19 0.09
63 3 0.01
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.20
Consensus pattern (60 bp):
AATCGCAACGCGAATACGTAAATCGCAATGCGTATACGTAAATCGCAACGCGAATACGTA
Found at i:23940 original size:40 final size:40
Alignment explanation
Indices: 23670--23985 Score: 280
Period size: 40 Copynumber: 7.8 Consensus size: 40
23660 GATTTTCCAG
* * * * * *
23670 AATCGCAACGCGAATATGAAAATCGTAACGCGAATATGAA
1 AATCGCAACGAGAATACGTAAATCGCAACGCGAATACGTA
* * ** *
23710 AATCGCAACGCGAACATATAAATCGCAACGCG-ATTC-TGA
1 AATCGCAACGAGAATACGTAAATCGCAACGCGAATACGT-A
* * * *
23749 CTATCGCAACGAGTAT-CTGTAAAATCGCAACGCGTATTCGTA
1 -AATCGCAACGAGAATAC-GT-AAATCGCAACGCGAATACGTA
* * * *
23791 AATCGCAACGACAATACGTAAAATCACAACGCGTATTCGTA
1 AATCGCAACGAGAATACGT-AAATCGCAACGCGAATACGTA
* * *
23832 AATCGCAAC-AGGTATCCGTAAATCGCAATGCGAATACGTA
1 AATCGCAACGA-GAATACGTAAATCGCAACGCGAATACGTA
* * *
23872 AATCGCAATGCGAATACGTAAATCGCAATGCGAATACGTA
1 AATCGCAACGAGAATACGTAAATCGCAACGCGAATACGTA
* * *
23912 AATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGAGAATACGTAAATCGCAACGCGAATACGTA
*
23952 AATCGCAACGACAATACGTAATATCGCAACGCGA
1 AATCGCAACGAGAATACGTAA-ATCGCAACGCGA
23986 TTTTTAAAGC
Statistics
Matches: 231, Mismatches: 35, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
39 3 0.01
40 149 0.65
41 72 0.31
42 6 0.03
43 1 0.00
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.20
Consensus pattern (40 bp):
AATCGCAACGAGAATACGTAAATCGCAACGCGAATACGTA
Found at i:24321 original size:41 final size:41
Alignment explanation
Indices: 24272--24483 Score: 138
Period size: 40 Copynumber: 5.2 Consensus size: 41
24262 ATGAACATAT
* * *
24272 AAATCGCAACACG-ATTC-TGACTATCGCAACGAGTATCCGTA
1 AAATCGCAACACGTATTCGT-A-AATCGCAACGACTATACGTA
* *
24313 AAATCGCAACGCGTATTCGTAAATCGCAACGACTATATGTA
1 AAATCGCAACACGTATTCGTAAATCGCAACGACTATACGTA
* * *
24354 AAATCGCAACGCGTATCCGTAAATCGCAAC-ACATATCCGT-
1 AAATCGCAACACGTATTCGTAAATCGCAACGAC-TATACGTA
*** * *
24394 AAATCGCAATGTGAATACGTAAATCGCAATGCGA--ATACGT-
1 AAATCGCAACACGTATTCGTAAATCGCAA--CGACTATACGTA
* * * *
24434 AAATCGCAACGA-GAATACGTAAATCGCAATG-CGTATCCGT-
1 AAATCGCAAC-ACGTATTCGTAAATCGCAACGAC-TATACGTA
24474 AAATCGCAAC
1 AAATCGCAAC
24484 GACAATACGT
Statistics
Matches: 144, Mismatches: 17, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
38 1 0.01
40 73 0.51
41 62 0.43
42 6 0.04
43 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.21
Consensus pattern (41 bp):
AAATCGCAACACGTATTCGTAAATCGCAACGACTATACGTA
Found at i:24338 original size:20 final size:20
Alignment explanation
Indices: 24294--24484 Score: 195
Period size: 20 Copynumber: 9.4 Consensus size: 20
24284 GATTCTGACT
*
24294 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGCGTATCCGT-AA
*
24315 ATCGCAACGCGTATTCGTAA
1 ATCGCAACGCGTATCCGTAA
**
24335 ATCGCAACGAC-TATATGTAAA
1 ATCGCAACG-CGTATCCGT-AA
24356 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* *
24376 ATCGCAACACATATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * * *
24396 ATCGCAATGTGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
24416 ATCGCAATGCGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
24436 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
*
24456 ATCGCAATGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
24476 ATCGCAACG
1 ATCGCAACG
24485 ACAATACGTA
Statistics
Matches: 145, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
20 112 0.77
21 33 0.23
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:25090 original size:20 final size:20
Alignment explanation
Indices: 25065--25142 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
25055 TTCTAAACTT
*
25065 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
25085 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * *
25105 ACTACCACAACGA-GAGAAATG
1 AAAATCGCAAC-ACGA-AAATG
25126 AAAATCGCAACACGAAA
1 AAAATCGCAACACGAAA
25143 CCAAAATCGC
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
20 31 0.67
21 15 0.33
ACGTcount: A:0.54, C:0.21, G:0.15, T:0.10
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:25171 original size:19 final size:19
Alignment explanation
Indices: 25149--25285 Score: 175
Period size: 19 Copynumber: 7.1 Consensus size: 19
25139 GAAACCAAAA
*
25149 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
25168 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
*
25187 CCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
25206 CCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
25225 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
**
25244 TCCGCGTTGCGATAGTCATT
1 T-CGCGTTGCGATTTTCATT
*
25264 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
25284 TC
1 TC
25286 AACCAAAAGA
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
19 72 0.68
20 33 0.31
21 1 0.01
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:27143 original size:94 final size:95
Alignment explanation
Indices: 26982--27361 Score: 608
Period size: 94 Copynumber: 4.1 Consensus size: 95
26972 TAGATTGCTT
*
26982 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
27047 ATTTGTCTTTTTTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTTGTTTTGTCTTTTGGTTGAA
* *
27076 AGTAAATTTATTCGGTTGCTGCCAATTCGGCTAAACTGTGTATTCTTTAACATTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
27141 ATTTGTC-TTTGTTTTTTCTTTTGGTTGAA
66 ATTTGTCTTTTGTTTTGTCTTTTGGTTGAA
* * * *
27170 AGTAAATTTGTTCGATTGCTGCCAATTCTGCTAAATTGTGTATTCTTTAACATTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
27235 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTTGTTTTGTCTTTTGGTTGAA
* * *
27264 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
27329 ATTTGT-ATTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTTGTTTTGTCTTTTGGTTGAA
27357 AGTAA
1 AGTAA
27362 TGCAATCCAT
Statistics
Matches: 269, Mismatches: 15, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
93 24 0.09
94 245 0.91
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (95 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTTGTTTTGTCTTTTGGTTGAA
Found at i:27507 original size:33 final size:33
Alignment explanation
Indices: 27449--27573 Score: 164
Period size: 33 Copynumber: 3.8 Consensus size: 33
27439 AAAAATGACT
*
27449 ATCGCAACGCGAAAT--AAATCACAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
27480 ATCACAACGCGAAATGAAAATCTCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* * *
27513 ATCGCAACGCGAAAAGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
**
27546 ATCGCAACGCGAAACCAAAATCGCAACG
1 ATCGCAACGCGAAATGAAAATCGCAACG
27574 CGAAACTATA
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
31 14 0.17
33 69 0.83
ACGTcount: A:0.48, C:0.25, G:0.18, T:0.09
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:27588 original size:19 final size:19
Alignment explanation
Indices: 27512--27579 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
27502 TCAACGAGAG
**
27512 AATCGCAACGCGAAAAGAA
1 AATCGCAACGCGAAACCAA
27531 AATCGCAA--CG--A-CAA
1 AATCGCAACGCGAAACCAA
27545 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
27564 AATCGCAACGCGAAAC
1 AATCGCAACGCGAAAC
27580 TATAATCGCG
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
14 10 0.23
15 1 0.02
16 2 0.05
17 2 0.05
18 1 0.02
19 27 0.63
ACGTcount: A:0.49, C:0.28, G:0.18, T:0.06
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:27607 original size:19 final size:19
Alignment explanation
Indices: 27585--27667 Score: 77
Period size: 19 Copynumber: 4.6 Consensus size: 19
27575 GAAACTATAA
* *
27585 TCGCGTTGCTATTTTCATT
1 TCGCATTGCGATTTTCATT
27604 TCGCATTGCGA--TTC---
1 TCGCATTGCGATTTTCATT
* *
27618 TCTCATTGCGATTTTCTTT
1 TCGCATTGCGATTTTCATT
*
27637 TCGCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
27656 TCGCCTTGCGAT
1 TCGCATTGCGAT
27668 AGTCATTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
14 10 0.19
16 3 0.06
17 3 0.06
19 36 0.69
ACGTcount: A:0.11, C:0.24, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:27673 original size:19 final size:19
Alignment explanation
Indices: 27635--27675 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
27625 GCGATTTTCT
* **
27635 TTTCGCGTTGCGATTTTCA
1 TTTCGCCTTGCGATAGTCA
27654 TTTCGCCTTGCGATAGTCA
1 TTTCGCCTTGCGATAGTCA
27673 TTT
1 TTT
27676 TTCACGTTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (19 bp):
TTTCGCCTTGCGATAGTCA
Found at i:28165 original size:21 final size:21
Alignment explanation
Indices: 28141--28210 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
28131 CTATCATTCC
28141 TCAAGAGTCCCCTCCCACCGT
1 TCAAGAGTCCCCTCCCACCGT
* * ** *
28162 TCAAGAGGCCACTGTCATCGT
1 TCAAGAGTCCCCTCCCACCGT
* *
28183 TGAAGAGGT-CCCTCCCACCAT
1 TCAAGA-GTCCCCTCCCACCGT
28204 TCAAGAG
1 TCAAGAG
28211 CCCGATTCAC
Statistics
Matches: 35, Mismatches: 13, Indels: 3
0.69 0.25 0.06
Matches are distributed among these distances:
20 1 0.03
21 33 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.20, T:0.20
Consensus pattern (21 bp):
TCAAGAGTCCCCTCCCACCGT
Found at i:28168 original size:42 final size:42
Alignment explanation
Indices: 28092--28210 Score: 116
Period size: 42 Copynumber: 2.8 Consensus size: 42
28082 GACTCGCCTG
* * * * * *
28092 TCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTA
1 TCATTCCTCAAGAGTCCCCTCCCACCATTCAAGAGGCCACTA
* *
28134 TCATTCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCAAGAGTCCCCTCCCACCATTCAAGAGGCCACTA
* *
28176 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTC-CTCAAGA-GTCCCCTCCCACCATTCAAGAG
28211 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 2 0.03
42 60 0.94
43 2 0.03
ACGTcount: A:0.24, C:0.36, G:0.17, T:0.23
Consensus pattern (42 bp):
TCATTCCTCAAGAGTCCCCTCCCACCATTCAAGAGGCCACTA
Found at i:29576 original size:14 final size:14
Alignment explanation
Indices: 29557--29592 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
29547 ATTGTTTAAT
29557 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
29571 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
29585 TGATTTGT
1 TGATTTGT
29593 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:29721 original size:19 final size:19
Alignment explanation
Indices: 29699--29783 Score: 65
Period size: 19 Copynumber: 4.7 Consensus size: 19
29689 AAAAATGACT
*
29699 ATCGCAATGTGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
29718 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
29732 ATCGCAATACGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
29751 ATCGCAACGTGAAACT-AAA
1 ATCGCAATGCGAAA-TGAAA
*
29770 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
29784 CTAAATTTGC
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 1 0.02
18 1 0.02
19 37 0.70
20 1 0.02
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:29784 original size:19 final size:19
Alignment explanation
Indices: 29748--29788 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
29738 ATACGAAATG
*
29748 AAAATCGCAACGTGAAACT
1 AAAATCGCAACGCGAAACT
29767 AAAATCGCAACGCGAAACT
1 AAAATCGCAACGCGAAACT
29786 AAA
1 AAA
29789 TTTGCGTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.51, C:0.22, G:0.15, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACT
Found at i:29841 original size:33 final size:33
Alignment explanation
Indices: 29793--29959 Score: 163
Period size: 33 Copynumber: 4.8 Consensus size: 33
29783 ACTAAATTTG
*
29793 CGTTGCGATTTTCATTTCGCTTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
* *
29826 CATTGTGATTTTCATTTCGCATTGCGATAGTCATTTCT
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC---TCT
* * * * *
29864 GCGTTGCGATATTCATATTCGCGTTGCAATTTTCA
1 -CGTTGCGATTTTCAT-TTCGCATTGCGATTCTCT
* *
29899 CGCTGCGATTTTCATTTCGCATTGCAATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
* *
29932 CGTTGTGATTTTTATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
29960 AGACATTAAG
Statistics
Matches: 108, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
33 64 0.59
34 13 0.12
35 4 0.04
38 4 0.04
39 12 0.11
40 11 0.10
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:29898 original size:20 final size:19
Alignment explanation
Indices: 29836--29890 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
29826 CATTGTGATT
*
29836 TTCATTTCGCATTGCGATA
1 TTCATTTCGCGTTGCGATA
*
29855 GTCATTTCTGCGTTGCGATA
1 TTCATTTC-GCGTTGCGATA
29875 TTCATATTCGCGTTGC
1 TTCAT-TTCGCGTTGC
29891 AATTTTCACG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.23
20 21 0.68
21 3 0.10
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (19 bp):
TTCATTTCGCGTTGCGATA
Found at i:32545 original size:24 final size:24
Alignment explanation
Indices: 32494--32545 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
32484 ATCCAAGTAT
** *
32494 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
32518 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
32542 TGAC
1 TGAC
32546 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:33429 original size:19 final size:20
Alignment explanation
Indices: 33407--33450 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
33397 ATTTACTAAA
33407 TCGCAACACGA-TTACGTAT
1 TCGCAACACGATTTACGTAT
***
33426 TCGCATTGCGATTTACGTAT
1 TCGCAACACGATTTACGTAT
33446 TCGCA
1 TCGCA
33451 TTGCGATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (20 bp):
TCGCAACACGATTTACGTAT
Found at i:33443 original size:20 final size:20
Alignment explanation
Indices: 33418--33507 Score: 108
Period size: 20 Copynumber: 4.5 Consensus size: 20
33408 CGCAACACGA
33418 TTACGTATTCGCATTGCGAT
1 TTACGTATTCGCATTGCGAT
33438 TTACGTATTCGCATTGCGAT
1 TTACGTATTCGCATTGCGAT
* * *
33458 TTACGGATACGCGTTGCGAT
1 TTACGTATTCGCATTGCGAT
* * * *
33478 TTACGGATACGCGTTTCGATT
1 TTACGTATTCGCATTGCGA-T
33499 TTACGTATT
1 TTACGTATT
33508 GTCGTTGCAA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
20 55 0.87
21 8 0.13
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (20 bp):
TTACGTATTCGCATTGCGAT
Found at i:33450 original size:39 final size:41
Alignment explanation
Indices: 33392--33482 Score: 98
Period size: 40 Copynumber: 2.3 Consensus size: 41
33382 CAGAATCTCG
* *
33392 TTGCGATTTAC-TAAATCGCAACACGA-TTACGTATTCGCA
1 TTGCGATTTACGTAAATCGCAACACGATTTACGGATACGCA
* *** *
33431 TTGCGATTTACGT-ATTCGCATTGCGATTTACGGATACGCG
1 TTGCGATTTACGTAAATCGCAACACGATTTACGGATACGCA
33471 TTGCGATTTACG
1 TTGCGATTTACG
33483 GATACGCGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
39 20 0.47
40 23 0.53
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (41 bp):
TTGCGATTTACGTAAATCGCAACACGATTTACGGATACGCA
Found at i:33503 original size:21 final size:20
Alignment explanation
Indices: 33431--33559 Score: 125
Period size: 20 Copynumber: 6.3 Consensus size: 20
33421 CGTATTCGCA
* * *
33431 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGGATACGCG
33451 TTGCGATTTACGGATACGCG
1 TTGCGATTTACGGATACGCG
33471 TTGCGATTTACGGATACGCG
1 TTGCGATTTACGGATACGCG
* * *
33491 TTTCGATTTTACGTAT-TGTCG
1 TTGCGA-TTTACGGATACG-CG
* * *
33512 TTGCAATTTACGAATACACG
1 TTGCGATTTACGGATACGCG
* *
33532 TTGCGATTTTACGAATACTCG
1 TTGCGA-TTTACGGATACGCG
33553 TTGCGAT
1 TTGCGAT
33560 AGTCAGAATC
Statistics
Matches: 92, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
20 59 0.64
21 33 0.36
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (20 bp):
TTGCGATTTACGGATACGCG
Found at i:33514 original size:41 final size:40
Alignment explanation
Indices: 33418--33600 Score: 133
Period size: 41 Copynumber: 4.5 Consensus size: 40
33408 CGCAACACGA
* * * *
33418 TTACGTATTCGCATTGCGATTTACGTATTCGCATTGCGA-T
1 TTACGTATT-GCGTTGCGATTTACGAATACGCGTTGCGATT
* * * *
33458 TTACGGATACGCGTTGCGATTTACGGATACGCGTTTCGATT
1 TTACGTAT-TGCGTTGCGATTTACGAATACGCGTTGCGATT
* *
33499 TTACGTATTGTCGTTGCAATTTACGAATACACGTTGCGATT
1 TTACGTATTG-CGTTGCGATTTACGAATACGCGTTGCGATT
* *
33540 TTACGAATACT-CGTTGCGATAGT-CAGAAT-CGCGTTGCGATT
1 TTACG--TATTGCGTTGCGAT-TTAC-GAATACGCGTTGCGATT
* *
33581 TATATGT-TCGCGTTGCGATT
1 T-TACGTATTGCGTTGCGATT
33601 CTGGAAAATC
Statistics
Matches: 113, Mismatches: 21, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
40 42 0.37
41 60 0.53
42 8 0.07
43 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (40 bp):
TTACGTATTGCGTTGCGATTTACGAATACGCGTTGCGATT
Found at i:33521 original size:61 final size:62
Alignment explanation
Indices: 33431--33559 Score: 165
Period size: 61 Copynumber: 2.1 Consensus size: 62
33421 CGTATTCGCA
* * * *
33431 TTGCGA-TTTACGTATTCGCATTGCGATTTACGGATACGCGTTGCGA-TTTACGGATACGCG
1 TTGCGATTTTACGTATTCGCATTGCAATTTACGAATACACGTTGCGATTTTACGAATACGCG
* * *
33491 TTTCGATTTTACGTATT-GTCGTTGCAATTTACGAATACACGTTGCGATTTTACGAATACTCG
1 TTGCGATTTTACGTATTCG-CATTGCAATTTACGAATACACGTTGCGATTTTACGAATACGCG
33553 TTGCGAT
1 TTGCGAT
33560 AGTCAGAATC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
60 6 0.10
61 34 0.59
62 18 0.31
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (62 bp):
TTGCGATTTTACGTATTCGCATTGCAATTTACGAATACACGTTGCGATTTTACGAATACGCG
Found at i:33699 original size:20 final size:19
Alignment explanation
Indices: 33650--33703 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
33640 ATTCTTCATA
33650 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
33669 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
33690 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
33704 TTTATTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:34430 original size:17 final size:18
Alignment explanation
Indices: 34388--34434 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
34378 TTGATTGAAG
34388 AATTTTTAAATTAATTTA
1 AATTTTTAAATTAATTTA
* *
34406 AATATTTAATTTAA-TTA
1 AATTTTTAAATTAATTTA
*
34423 ATTTTTTAAATT
1 AATTTTTAAATT
34435 GATAAAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTTTTAAATTAATTTA
Found at i:34434 original size:18 final size:19
Alignment explanation
Indices: 34388--34434 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
34378 TTGATTGAAG
34388 AATTTTTAAA-TTAATTTA
1 AATTTTTAAATTTAATTTA
*
34406 AATATTT-AATTTAA-TTA
1 AATTTTTAAATTTAATTTA
*
34423 ATTTTTTAAATT
1 AATTTTTAAATT
34435 GATAAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
AATTTTTAAATTTAATTTA
Found at i:34562 original size:2 final size:2
Alignment explanation
Indices: 34555--34610 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
34545 AACAAATTTA
34555 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34597 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
34611 TAAACTTTAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:40758 original size:18 final size:18
Alignment explanation
Indices: 40735--40775 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
40725 TTTTAAGTAA
40735 AACATACATGCGTGAAAG
1 AACATACATGCGTGAAAG
40753 AACATACATGCGTGAAAG
1 AACATACATGCGTGAAAG
40771 AACAT
1 AACAT
40776 CATCTACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (18 bp):
AACATACATGCGTGAAAG
Found at i:40951 original size:16 final size:16
Alignment explanation
Indices: 40918--40953 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
40908 TGTGAATGAA
*
40918 AAATTCCCTTGCTGAC
1 AAATTCCCTTGCTAAC
*
40934 AAATTCCCTTGGTAAC
1 AAATTCCCTTGCTAAC
40950 AAAT
1 AAAT
40954 AGTGTTGCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (16 bp):
AAATTCCCTTGCTAAC
Found at i:45718 original size:24 final size:24
Alignment explanation
Indices: 45691--45747 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
45681 CACCAAAGCT
*
45691 CATATAAATTGCACCGAAGTGCCA
1 CATATAAATTGCAACGAAGTGCCA
* * * *
45715 CATAGAATTTGCAATGAAGTGCTA
1 CATATAAATTGCAACGAAGTGCCA
*
45739 CGTATAAAT
1 CATATAAAT
45748 GTCCCAAAGG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.26
Consensus pattern (24 bp):
CATATAAATTGCAACGAAGTGCCA
Found at i:45793 original size:23 final size:23
Alignment explanation
Indices: 45739--45814 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
45729 TGAAGTGCTA
* * *
45739 CGTATAAATGTCCCAAAGGACCA
1 CGTAGAAATGTCCCAAAAGACCG
* **
45762 CATTTAAATGTCCCAAAAGACCG
1 CGTAGAAATGTCCCAAAAGACCG
* * *
45785 TGTAGAAATTTCCCAAAGGACCG
1 CGTAGAAATGTCCCAAAAGACCG
45808 CGTAGAA
1 CGTAGAA
45815 CCCTCGACTC
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGTCCCAAAAGACCG
Found at i:45950 original size:16 final size:17
Alignment explanation
Indices: 45904--45952 Score: 75
Period size: 16 Copynumber: 3.0 Consensus size: 17
45894 CCTAGCTTAT
*
45904 ATCACATAGA-CATATA
1 ATCACATAGATCATGTA
45920 ATCACATAGATCATGTA
1 ATCACATAGATCATGTA
45937 A-CACATAGATCATGTA
1 ATCACATAGATCATGTA
45953 GAATAGTGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 25 0.81
17 6 0.19
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.27
Consensus pattern (17 bp):
ATCACATAGATCATGTA
Found at i:50114 original size:2 final size:2
Alignment explanation
Indices: 50107--50156 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
50097 TTACGTAAAC
50107 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50149 AT AT AT AT
1 AT AT AT AT
50157 CATAAAACCG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52162 original size:43 final size:41
Alignment explanation
Indices: 52095--52189 Score: 120
Period size: 43 Copynumber: 2.3 Consensus size: 41
52085 ATTTATTCTA
* *
52095 TAAATAAA-AATATAATTAATTGAAATAATGAGTAGAACCT
1 TAAATAAATAATATAATTAATTGAAATAATGAATAGAACAT
* *
52135 TAAATAAATAATAATAATTTAATTGAAATAGTGAATATAACAT
1 TAAATAAATAAT-ATAA-TTAATTGAAATAATGAATAGAACAT
*
52178 TAAATAAGTAAT
1 TAAATAAATAAT
52190 GAGTTTAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
40 8 0.17
41 3 0.06
42 4 0.09
43 32 0.68
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (41 bp):
TAAATAAATAATATAATTAATTGAAATAATGAATAGAACAT
Found at i:52844 original size:19 final size:18
Alignment explanation
Indices: 52808--52850 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
52798 TAACAAATAG
*
52808 AATAATTTAACAAAATTT
1 AATAATTGAACAAAATTT
* *
52826 CAATAATTGAATAATATTT
1 -AATAATTGAACAAAATTT
52845 AATAAT
1 AATAAT
52851 ATTTTAATAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (18 bp):
AATAATTGAACAAAATTT
Found at i:53428 original size:79 final size:78
Alignment explanation
Indices: 53309--53516 Score: 321
Period size: 79 Copynumber: 2.7 Consensus size: 78
53299 AAATAAATAA
*
53309 TATTTAAATAAAAA-ATACGATTTAAGTAAAAGTAGTAAATAGAATTTAAATAAATACTAGTAAT
1 TATTTAAATAAAAAGATA-GATTAAAGTAAAAGTAGTAAATAGAATTTAAATAAATACTAGTAAT
53373 TTAAATCAAACTAT
65 TTAAATCAAACTAT
* * *
53387 TGA-TTAAATAAAAAGATGGGGTTAAAGTAAAAGTAGTAAATAGAATTTGAATAAATACTAGTAA
1 T-ATTTAAATAAAAAGAT-AGATTAAAGTAAAAGTAGTAAATAGAATTTAAATAAATACTAGTAA
53451 TTTAAATCAAACTAT
64 TTTAAATCAAACTAT
* *
53466 TATTTAAATAGAAAGATAGATTTAAGTAAAAGTAGTAAATAGAATTTAAAT
1 TATTTAAATAAAAAGATAGATTAAAGTAAAAGTAGTAAATAGAATTTAAAT
53517 CAAACAATGC
Statistics
Matches: 117, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
78 43 0.37
79 74 0.63
ACGTcount: A:0.52, C:0.03, G:0.12, T:0.32
Consensus pattern (78 bp):
TATTTAAATAAAAAGATAGATTAAAGTAAAAGTAGTAAATAGAATTTAAATAAATACTAGTAATT
TAAATCAAACTAT
Found at i:59594 original size:12 final size:13
Alignment explanation
Indices: 59572--59600 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
59562 GTTGTTGTGC
59572 TTTCAACTTTTCT
1 TTTCAACTTTTCT
59585 TTTCAA-TTTTCT
1 TTTCAACTTTTCT
59597 TTTC
1 TTTC
59601 TTTTTTCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTCAACTTTTCT
Found at i:62282 original size:18 final size:18
Alignment explanation
Indices: 62259--62293 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
62249 TATTATAGAA
62259 GGTACCTTTTTATGATCT
1 GGTACCTTTTTATGATCT
62277 GGTACCTTTTTATGATC
1 GGTACCTTTTTATGATC
62294 GAATTTATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (18 bp):
GGTACCTTTTTATGATCT
Found at i:69605 original size:20 final size:19
Alignment explanation
Indices: 69580--69626 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
69570 AATATATCTG
69580 GTCAACGGTCCAGGGCAACT
1 GTCAACGGT-CAGGGCAACT
*
69600 GTCAACGGGTTAGGGCAACT
1 GTCAAC-GGTCAGGGCAACT
69620 GTCAACG
1 GTCAACG
69627 AGTTAACTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.26, C:0.26, G:0.32, T:0.17
Consensus pattern (19 bp):
GTCAACGGTCAGGGCAACT
Found at i:69631 original size:20 final size:20
Alignment explanation
Indices: 69591--69631 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
69581 TCAACGGTCC
*
69591 AGGGCAACTGTCAACGGGTT
1 AGGGCAACTGTCAACGAGTT
69611 AGGGCAACTGTCAACGAGTT
1 AGGGCAACTGTCAACGAGTT
69631 A
1 A
69632 ACTCGATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.20, G:0.32, T:0.20
Consensus pattern (20 bp):
AGGGCAACTGTCAACGAGTT
Found at i:75239 original size:20 final size:20
Alignment explanation
Indices: 75216--75256 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
75206 TCAATGGTCC
*
75216 AGGGCAACTGTCAACGGGTT
1 AGGGCAACTGTCAACGAGTT
75236 AGGGCAACTGTCAACGAGTT
1 AGGGCAACTGTCAACGAGTT
75256 A
1 A
75257 ACTCGATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.20, G:0.32, T:0.20
Consensus pattern (20 bp):
AGGGCAACTGTCAACGAGTT
Found at i:80852 original size:20 final size:19
Alignment explanation
Indices: 80827--80873 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
80817 AATATATCTG
*
80827 GTCAACGGTCCAGGGCAACT
1 GTCAACGGT-CAGGACAACT
*
80847 GTCAACGGGTTAGGACAACT
1 GTCAAC-GGTCAGGACAACT
80867 GTCAACG
1 GTCAACG
80874 AGTTAACTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 20 0.83
21 3 0.12
ACGTcount: A:0.28, C:0.26, G:0.30, T:0.17
Consensus pattern (19 bp):
GTCAACGGTCAGGACAACT
Found at i:85213 original size:13 final size:14
Alignment explanation
Indices: 85175--85216 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
85165 AACGGGTTAA
85175 AGTCAAAGTCAACG
1 AGTCAAAGTCAACG
85189 AGTCAAAGTCAACG
1 AGTCAAAGTCAACG
* *
85203 GGTC-TAGTCAACG
1 AGTCAAAGTCAACG
85216 A
1 A
85217 TACAGGTCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 8 0.32
14 17 0.68
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (14 bp):
AGTCAAAGTCAACG
Found at i:85279 original size:14 final size:14
Alignment explanation
Indices: 85260--85294 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
85250 TTCGATCAGG
85260 GTTGACTTGGTCGA
1 GTTGACTTGGTCGA
85274 GTTGACTTGGTCGA
1 GTTGACTTGGTCGA
85288 GTTGACT
1 GTTGACT
85295 ATCAAGTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.34, T:0.37
Consensus pattern (14 bp):
GTTGACTTGGTCGA
Found at i:86552 original size:81 final size:81
Alignment explanation
Indices: 86417--86579 Score: 326
Period size: 81 Copynumber: 2.0 Consensus size: 81
86407 TCAGTCAGAC
86417 AAGAAGGAGTGGACATGAAACCTTATTGGATGAGCTGGTTGATGGATTATTGTGACCTCCTGAAG
1 AAGAAGGAGTGGACATGAAACCTTATTGGATGAGCTGGTTGATGGATTATTGTGACCTCCTGAAG
86482 AAAATTATGGTTGAAA
66 AAAATTATGGTTGAAA
86498 AAGAAGGAGTGGACATGAAACCTTATTGGATGAGCTGGTTGATGGATTATTGTGACCTCCTGAAG
1 AAGAAGGAGTGGACATGAAACCTTATTGGATGAGCTGGTTGATGGATTATTGTGACCTCCTGAAG
86563 AAAATTATGGTTGAAA
66 AAAATTATGGTTGAAA
86579 A
1 A
86580 GAAACATCTA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (81 bp):
AAGAAGGAGTGGACATGAAACCTTATTGGATGAGCTGGTTGATGGATTATTGTGACCTCCTGAAG
AAAATTATGGTTGAAA
Found at i:89198 original size:20 final size:21
Alignment explanation
Indices: 89173--89220 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
89163 CCCACAAGCG
89173 ATACCCC-TTACTCTATCAGC
1 ATACCCCTTTACTCTATCAGC
*
89193 ATACCCCTTTTCTCTATCAGC
1 ATACCCCTTTACTCTATCAGC
89214 ATACCCC
1 ATACCCC
89221 AAGAATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.23, C:0.42, G:0.04, T:0.31
Consensus pattern (21 bp):
ATACCCCTTTACTCTATCAGC
Found at i:93102 original size:18 final size:19
Alignment explanation
Indices: 93079--93117 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
93069 TTTAAGTAGT
*
93079 AATAAAAACGATTAAA-TA
1 AATAAAAACAATTAAAGTA
*
93097 AATAAAAGCAATTAAAGTA
1 AATAAAAACAATTAAAGTA
93116 AA
1 AA
93118 AATATAAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.67, C:0.05, G:0.08, T:0.21
Consensus pattern (19 bp):
AATAAAAACAATTAAAGTA
Found at i:108563 original size:69 final size:71
Alignment explanation
Indices: 108484--108620 Score: 224
Period size: 71 Copynumber: 2.0 Consensus size: 71
108474 ATATATTGAC
* * *
108484 TAAATTACAA-TTTT-AAAATTATGTGGTTAAAGTAGAAAGTTAACTTCAATTTGGTTCGTCTTT
1 TAAATTACAATTTTTGAAAATTATGTGGTTAAAGTAGAAAATCAACTTCAATTTGGTTCATCTTT
108547 GACGAA
66 GACGAA
*
108553 TAAATTACAATTTTTGAAAATTGTGTGGTTAAAGTAGAAAATCAACTTCAATTTGGTTCATCTTT
1 TAAATTACAATTTTTGAAAATTATGTGGTTAAAGTAGAAAATCAACTTCAATTTGGTTCATCTTT
108618 GAC
66 GAC
108621 TATGGGATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
69 10 0.16
70 4 0.06
71 48 0.77
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.39
Consensus pattern (71 bp):
TAAATTACAATTTTTGAAAATTATGTGGTTAAAGTAGAAAATCAACTTCAATTTGGTTCATCTTT
GACGAA
Found at i:124704 original size:47 final size:47
Alignment explanation
Indices: 124611--125081 Score: 514
Period size: 47 Copynumber: 9.7 Consensus size: 47
124601 TTTTCACATA
* * * *
124611 TTAATACATCCATTT-ATGCATTTTAATATATATGACATCATTTCATGCC
1 TTAATGCATCC-TTTCATGCATTTTCA-AT-TATGGCATCCTTTCATGCC
* * * *
124660 TTAATTCATCCTTTCATGCGTTTTCAATTATGGAATCATTTCATGCC
1 TTAATGCATCCTTTCATGCATTTTCAATTATGGCATCCTTTCATGCC
* * * * * *
124707 TTAATGCGTCCTTTTAGGCATTTTCCATTGTGGCATCATTTCATGCC
1 TTAATGCATCCTTTCATGCATTTTCAATTATGGCATCCTTTCATGCC
* * *
124754 TTAATGCATCATTTCATGCATTTTAAATTATGGCATCCTTTCATGCATT
1 TTAATGCATCCTTTCATGCATTTTCAATTATGGCATCCTTTCATGC--C
*
124803 TTCAATTATGGCATCCTTTCATGCATTTTCAATTATGGCATCCTTTCATGCATT
1 TT--A--AT-GCATCCTTTCATGCATTTTCAATTATGGCATCCTTTCATGC--C
124857 TTCAATTATGGCATCCTTTCATGCATTTTCAATTATGGCATCCTTTCATGCC
1 TT--A--AT-GCATCCTTTCATGCATTTTCAATTATGGCATCCTTTCATGCC
** * *
124909 TTAATGCATGATTTCATGCATTTTCCATTGTGGCATCCTTTCATGCC
1 TTAATGCATCCTTTCATGCATTTTCAATTATGGCATCCTTTCATGCC
* *
124956 TTAATGCATCATTTCATGCATTTTGC-ATTGTGGCATCCTTTCATGCC
1 TTAATGCATCCTTTCATGCATTTT-CAATTATGGCATCCTTTCATGCC
* * *
125003 TTAATGCATCATTTCATGCATTTTTAATTATGGCATCCTTTCATCCC
1 TTAATGCATCCTTTCATGCATTTTCAATTATGGCATCCTTTCATGCC
*
125050 TTAATGCATCCTTTCATGCATTTTCCATTATG
1 TTAATGCATCCTTTCATGCATTTTCAATTATG
125082 AATTTGATTT
Statistics
Matches: 376, Mismatches: 36, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
47 248 0.66
48 8 0.02
49 21 0.06
50 1 0.00
51 1 0.00
52 2 0.01
53 2 0.01
54 93 0.25
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.44
Consensus pattern (47 bp):
TTAATGCATCCTTTCATGCATTTTCAATTATGGCATCCTTTCATGCC
Found at i:124790 original size:27 final size:27
Alignment explanation
Indices: 124759--125046 Score: 296
Period size: 27 Copynumber: 11.4 Consensus size: 27
124749 ATGCCTTAAT
* *
124759 GCATCATTTCATGCATTTTAAATTATG
1 GCATCCTTTCATGCATTTTCAATTATG
124786 GCATCCTTTCATGCATTTTCAATTATG
1 GCATCCTTTCATGCATTTTCAATTATG
124813 GCATCCTTTCATGCATTTTCAATTATG
1 GCATCCTTTCATGCATTTTCAATTATG
124840 GCATCCTTTCATGCATTTTCAATTATG
1 GCATCCTTTCATGCATTTTCAATTATG
124867 GCATCCTTTCATGCATTTTCAATTATG
1 GCATCCTTTCATGCATTTTCAATTATG
*
124894 GCATCCTTTCATGC--CTT--A--AT-
1 GCATCCTTTCATGCATTTTCAATTATG
** * *
124914 GCATGATTTCATGCATTTTCCATTGTG
1 GCATCCTTTCATGCATTTTCAATTATG
*
124941 GCATCCTTTCATGC--CTT--A--AT-
1 GCATCCTTTCATGCATTTTCAATTATG
* *
124961 GCATCATTTCATGCATTTTGC-ATTGTG
1 GCATCCTTTCATGCATTTT-CAATTATG
*
124988 GCATCCTTTCATGC--CTT--A--AT-
1 GCATCCTTTCATGCATTTTCAATTATG
* *
125008 GCATCATTTCATGCATTTTTAATTATG
1 GCATCCTTTCATGCATTTTCAATTATG
125035 GCATCCTTTCAT
1 GCATCCTTTCAT
125047 CCCTTAATGC
Statistics
Matches: 220, Mismatches: 20, Indels: 42
0.78 0.07 0.15
Matches are distributed among these distances:
20 38 0.17
21 4 0.02
22 6 0.03
23 3 0.01
24 3 0.01
25 6 0.03
26 4 0.02
27 156 0.71
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (27 bp):
GCATCCTTTCATGCATTTTCAATTATG
Found at i:124970 original size:20 final size:20
Alignment explanation
Indices: 124941--125021 Score: 63
Period size: 20 Copynumber: 3.7 Consensus size: 20
124931 TTCCATTGTG
*
124941 GCATCCTTTCATGCCTTAAT
1 GCATCATTTCATGCCTTAAT
* *
124961 GCATCATTTCATGCATTTTGCATTGT
1 GCATCATTTCATGC--CTT--A--AT
*
124987 GGCATCCTTTCATGCCTTAAT
1 -GCATCATTTCATGCCTTAAT
125008 GCATCATTTCATGC
1 GCATCATTTCATGC
125022 ATTTTTAATT
Statistics
Matches: 47, Mismatches: 7, Indels: 14
0.69 0.10 0.21
Matches are distributed among these distances:
20 26 0.55
21 1 0.02
22 2 0.04
23 1 0.02
24 1 0.02
25 2 0.04
26 1 0.02
27 13 0.28
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.41
Consensus pattern (20 bp):
GCATCATTTCATGCCTTAAT
Found at i:124998 original size:74 final size:72
Alignment explanation
Indices: 124813--125001 Score: 177
Period size: 74 Copynumber: 2.6 Consensus size: 72
124803 TTCAATTATG
*
124813 GCATCCTTTCATGCATTTT-CAATTATGGCATCCTTTCATGCATTTTCAATTATGGCATCCTTTC
1 GCATCATTTCATGCATTTTGC-ATTATGGCATCCTTTCATGCATTTTCAATTATGGCATCCTTTC
124877 ATGCATTT
65 ATGCATTT
* * ** * * ** * *
124885 TCAATTATGGCAT-CCTTTCATGCCTTAAT-GCATGATTTCATGCATTTTCCATTGTGGCATCCT
1 GC-ATCATTTCATGCATTT--TGCATT-ATGGCATCCTTTCATGCATTTTCAATTATGGCATCCT
*
124948 TTCATGCCTTAAT
62 TTCATGCATT--T
*
124961 GCATCATTTCATGCATTTTGCATTGTGGCATCCTTTCATGC
1 GCATCATTTCATGCATTTTGCATTATGGCATCCTTTCATGC
125002 CTTAATGCAT
Statistics
Matches: 87, Mismatches: 21, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
72 5 0.06
73 7 0.08
74 59 0.68
75 10 0.11
76 6 0.07
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (72 bp):
GCATCATTTCATGCATTTTGCATTATGGCATCCTTTCATGCATTTTCAATTATGGCATCCTTTCA
TGCATTT
Found at i:125633 original size:95 final size:96
Alignment explanation
Indices: 125496--125685 Score: 249
Period size: 95 Copynumber: 2.0 Consensus size: 96
125486 CCTAGTACCA
* * * ** * * *
125496 ATACTTCTATACTATTGTACCGATGCCCCCTTCCGGTGTCGATACCGAAATTAGCTTCGATATTT
1 ATACTACTATACTATGGTACCGATACCCCCTTAAGGTATCGATACCAAAATTAGATTCGATATTT
*
125561 -CTTGGTATCGATACCCTTATCA-TGGTATCC
66 GCATGGTATCGATACCCTTA-CAGTGGTATCC
* * *
125591 ATACTACTATACTATGGTACTGATACCCCCTTAAGGTATCGATACCAAAATTAGATTTGATGTTT
1 ATACTACTATACTATGGTACCGATACCCCCTTAAGGTATCGATACCAAAATTAGATTCGATATTT
125656 GCATGGTATCGATACCCTTACAGTGGTATC
66 GCATGGTATCGATACCCTTACAGTGGTATC
125686 GTTATTGCCT
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
95 56 0.69
96 25 0.31
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (96 bp):
ATACTACTATACTATGGTACCGATACCCCCTTAAGGTATCGATACCAAAATTAGATTCGATATTT
GCATGGTATCGATACCCTTACAGTGGTATCC
Found at i:129501 original size:91 final size:91
Alignment explanation
Indices: 129341--129513 Score: 242
Period size: 91 Copynumber: 1.9 Consensus size: 91
129331 CAAGAAACTC
* * *
129341 ATGTAACATTCTCGGTTGTAACCGAAATTATTACCAATTATGGAACTTTTTAGAGTATACATGGT
1 ATGTAACATTATCCGTTGTAACCGAAATTATTACCAATTATGGAACTTTTTAGAGTAAACATGGT
*
129406 AACATTTTAGGTTAAAACCGGCCGCA
66 AACATTTTAGGATAAAACCGGCCGCA
* ** *
129432 ATGTAACATTATCCGTTGTAACC-AAGATTATTACCAATTGTTTAACTTTTTAGAGTAAACA-GT
1 ATGTAACATTATCCGTTGTAACCGAA-ATTATTACCAATTATGGAACTTTTTAGAGTAAACATGG
129495 TAAACATTTTAGGATAAAA
65 T-AACATTTTAGGATAAAA
129514 TCCAATGCAA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
90 4 0.06
91 68 0.94
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (91 bp):
ATGTAACATTATCCGTTGTAACCGAAATTATTACCAATTATGGAACTTTTTAGAGTAAACATGGT
AACATTTTAGGATAAAACCGGCCGCA
Found at i:133327 original size:85 final size:85
Alignment explanation
Indices: 133171--133331 Score: 232
Period size: 85 Copynumber: 1.9 Consensus size: 85
133161 TGTAAGTCAT
* * * *
133171 ACAAATGTGTGTTATCTTCATTTATGACGGGGGCTTCAATGACACACAATGTAAGTCATACATGT
1 ACAAATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACACAATGCAAGTCATAAATGC
**
133236 GTGTCATAAATTTATGACAC
66 ACGTCATAAATTTATGACAC
* * **
133256 ACAAATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACGCTCAATGCGTGTCATAAATGC
1 ACAAATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACACAATGCAAGTCATAAATGC
133321 ACGTCATAAAT
66 ACGTCATAAAT
133332 ATGAGTCATA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
85 66 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (85 bp):
ACAAATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACACAATGCAAGTCATAAATGC
ACGTCATAAATTTATGACAC
Found at i:137684 original size:47 final size:47
Alignment explanation
Indices: 137594--137942 Score: 506
Period size: 47 Copynumber: 7.4 Consensus size: 47
137584 AATACATCTA
* *
137594 TTCATGCATTTTAATATATATGACATCATTTCATGCCTTAATGCATCCT
1 TTCATGCATTTTCA-AT-TATGGCATCATTTCATGCCTTAATGCATCCT
*
137643 TTCATGCATTTTCAATTATGGCATCCTTTCATGCCTTAATGCATCCT
1 TTCATGCATTTTCAATTATGGCATCATTTCATGCCTTAATGCATCCT
* * * * *
137690 TCCAAGCATTTTCCATTGTGGCATCCTTTCATGCCTTAATGCATCC-
1 TTCATGCATTTTCAATTATGGCATCATTTCATGCCTTAATGCATCCT
*
137736 TTCATGCATTTTCAATAAT-GCATCATTTCATGCCTTAATGCATCCT
1 TTCATGCATTTTCAATTATGGCATCATTTCATGCCTTAATGCATCCT
*
137782 TTCATGC-TTTATCCATTATGGCATCATTTCATGCCTTAATGCATCCT
1 TTCATGCATTT-TCAATTATGGCATCATTTCATGCCTTAATGCATCCT
* * *
137829 TTAATGCATTTTCAATTATGGCATCCTTTCATGCATTAATGCATCCT
1 TTCATGCATTTTCAATTATGGCATCATTTCATGCCTTAATGCATCCT
*
137876 TTCATGCATTTTCAATTATGGCATCATTTCATGCCTTAATGCGTCCT
1 TTCATGCATTTTCAATTATGGCATCATTTCATGCCTTAATGCATCCT
* *
137923 TTCATGCTTTTTCATTTATG
1 TTCATGCATTTTCAATTATG
137943 ATTTTGATTT
Statistics
Matches: 271, Mismatches: 25, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
45 28 0.10
46 27 0.10
47 198 0.73
48 5 0.02
49 13 0.05
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.43
Consensus pattern (47 bp):
TTCATGCATTTTCAATTATGGCATCATTTCATGCCTTAATGCATCCT
Found at i:137868 original size:139 final size:139
Alignment explanation
Indices: 137581--137942 Score: 523
Period size: 139 Copynumber: 2.6 Consensus size: 139
137571 ATTTTCACAT
* *
137581 ATTAATACAT-CTATTCATGCATTTTAATATATATGACATCATTTCATGCCTTAATGCATCCTTT
1 ATTAATGCATCCT-TTCATGCATTTTCA-ATA-ATG-CATCATTTCATGCCTTAATGCATCCTTT
* * *
137645 CATGCATTTTCAATTATGGCATCCTTTCATGCCTTAATGCATCCTTCCAAGCATTTTCCATTGTG
62 CATGC-TTTTCAATTATGGCATCATTTCATGCCTTAATGCATCCTTCCAAGCATTTTCAATTATG
137710 GCATCCTTTCATGC
126 GCATCCTTTCATGC
*
137724 CTTAATGCATCC-TTCATGCATTTTCAATAATGCATCATTTCATGCCTTAATGCATCCTTTCATG
1 ATTAATGCATCCTTTCATGCATTTTCAATAATGCATCATTTCATGCCTTAATGCATCCTTTCATG
* *
137788 CTTTATCCATTATGGCATCATTTCATGCCTTAATGCATCCTT-TAATGCATTTTCAATTATGGCA
66 CTTT-TCAATTATGGCATCATTTCATGCCTTAATGCATCCTTCCAA-GCATTTTCAATTATGGCA
137852 TCCTTTCATGC
129 TCCTTTCATGC
* *
137863 ATTAATGCATCCTTTCATGCATTTTCAATTATGGCATCATTTCATGCCTTAATGCGTCCTTTCAT
1 ATTAATGCATCCTTTCATGCATTTTCAATAAT-GCATCATTTCATGCCTTAATGCATCCTTTCAT
*
137928 GCTTTTTCATTTATG
65 GC-TTTTCAATTATG
137943 ATTTTGATTT
Statistics
Matches: 200, Mismatches: 13, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
138 5 0.03
139 106 0.53
140 21 0.10
141 43 0.22
142 16 0.08
143 8 0.04
144 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.43
Consensus pattern (139 bp):
ATTAATGCATCCTTTCATGCATTTTCAATAATGCATCATTTCATGCCTTAATGCATCCTTTCATG
CTTTTCAATTATGGCATCATTTCATGCCTTAATGCATCCTTCCAAGCATTTTCAATTATGGCATC
CTTTCATGC
Found at i:155266 original size:56 final size:57
Alignment explanation
Indices: 155174--155282 Score: 184
Period size: 56 Copynumber: 1.9 Consensus size: 57
155164 TAACAACTCC
*
155174 TCCTTGTACTTACCAATGGATAATAGTACTAGTACTTGCCTTGTCACGTTTAATTCG
1 TCCTTGTACTTACCAATGGATAATAGTACTAGTACTTGCCTTGTCACATTTAATTCG
* *
155231 TCCTTGTACTTACCAAT-GATAATAGTATTAGTACTTGTCTTGTCACATTTAA
1 TCCTTGTACTTACCAATGGATAATAGTACTAGTACTTGCCTTGTCACATTTAA
155283 CTTGCATTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
56 32 0.65
57 17 0.35
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (57 bp):
TCCTTGTACTTACCAATGGATAATAGTACTAGTACTTGCCTTGTCACATTTAATTCG
Found at i:159587 original size:3 final size:3
Alignment explanation
Indices: 159579--159625 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
159569 GAATGTTTTA
* * *
159579 AAT AAT AAT AAT AAT AAT AAT AAC AAT AAC AAT AAT AA- ACT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
159626 GATAGTAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
2 1 0.03
3 36 0.97
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:166784 original size:23 final size:24
Alignment explanation
Indices: 166747--166796 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
166737 ATTGTGATTA
166747 TATAGGGATCAGTTATAACAT-AT
1 TATAGGGATCAGTTATAACATCAT
* *
166770 TATAGGGGTCGGTTATAACATCAT
1 TATAGGGATCAGTTATAACATCAT
166794 TAT
1 TAT
166797 CATCATCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (24 bp):
TATAGGGATCAGTTATAACATCAT
Found at i:184346 original size:20 final size:20
Alignment explanation
Indices: 184321--184385 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
184311 TGATTCGTAG
184321 GTGTAACTAGTCTCGAAAAA
1 GTGTAACTAGTCTCGAAAAA
* * ** *
184341 GTGTAAATAGTACACCCCAAAG
1 GTGTAACTAGT-C-TCGAAAAA
184363 GTGTAACTAGTCTCGAAAAA
1 GTGTAACTAGTCTCGAAAAA
184383 GTG
1 GTG
184386 AGTGTTTATC
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
20 17 0.52
21 2 0.06
22 14 0.42
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (20 bp):
GTGTAACTAGTCTCGAAAAA
Found at i:184683 original size:10 final size:10
Alignment explanation
Indices: 184670--184707 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
184660 TTAATTTAGA
184670 AATAATAAAT
1 AATAATAAAT
184680 AATAATAAAAT
1 AATAAT-AAAT
184691 AAT-ATAAAT
1 AATAATAAAT
*
184700 ATTAATAA
1 AATAATAA
184708 TCCTATTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 6 0.24
10 12 0.48
11 7 0.28
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AATAATAAAT
Found at i:186379 original size:36 final size:36
Alignment explanation
Indices: 186337--186436 Score: 164
Period size: 36 Copynumber: 2.8 Consensus size: 36
186327 TTTATTTTTG
**
186337 CTTCACTACTCTTTTGTGAAGGCTTGATTTGCACTA
1 CTTCACTACTCTTTTGTGAAGGCTTGACATGCACTA
* *
186373 CTTCACTACTCTTTTGTGAAGGCTGGACATGCACTG
1 CTTCACTACTCTTTTGTGAAGGCTTGACATGCACTA
186409 CTTCACTACTCTTTTGTGAAGGCTTGAC
1 CTTCACTACTCTTTTGTGAAGGCTTGAC
186437 TCAAATGACT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 59 1.00
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (36 bp):
CTTCACTACTCTTTTGTGAAGGCTTGACATGCACTA
Found at i:199068 original size:26 final size:27
Alignment explanation
Indices: 199039--199104 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 27
199029 ATTTTGGGCC
*
199039 TATAAAATTATAATTAT-TAATAATAA
1 TATAAAATTATAATAATGTAATAATAA
* * *
199065 TATAACA-TAAAATAATGTAATTATAA
1 TATAAAATTATAATAATGTAATAATAA
199091 TATAATATATTATA
1 TATAA-A-ATTATA
199105 TTGGAACCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
25 7 0.23
26 19 0.63
28 1 0.03
29 3 0.10
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (27 bp):
TATAAAATTATAATAATGTAATAATAA
Found at i:201587 original size:30 final size:31
Alignment explanation
Indices: 201549--201621 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 31
201539 AATGGATATA
* *
201549 TTTA-GTGACCAAATTATAAAATTGGTAAAG
1 TTTAGGTGACCAAAGTATAAAATTGGAAAAG
* *
201579 TTT-GGTGACCAAAGTATAAACTTTGAAAAG
1 TTTAGGTGACCAAAGTATAAAATTGGAAAAG
201609 TTTAGG-GACCAAA
1 TTTAGGTGACCAAA
201622 ATGTAATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 35 0.95
31 2 0.05
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (31 bp):
TTTAGGTGACCAAAGTATAAAATTGGAAAAG
Found at i:209056 original size:30 final size:30
Alignment explanation
Indices: 209015--209088 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
209005 TATTTAGTAA
*
209015 CAAAATTATAAATTTGGTAAAGTTT-GGTGAC
1 CAAAA-TATAAATTTGGAAAAGTTTAGG-GAC
*
209046 CAAAATATAAACTTGGAAAAGTTTAGGGAC
1 CAAAATATAAATTTGGAAAAGTTTAGGGAC
*
209076 CAAAA-AGAAATTT
1 CAAAATATAAATTT
209089 TCAAAAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 6 0.16
30 25 0.66
31 7 0.18
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.28
Consensus pattern (30 bp):
CAAAATATAAATTTGGAAAAGTTTAGGGAC
Found at i:216684 original size:12 final size:12
Alignment explanation
Indices: 216667--216691 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
216657 AAATAATAAA
216667 GAATGAAAGAAT
1 GAATGAAAGAAT
216679 GAATGAAAGAAT
1 GAATGAAAGAAT
216691 G
1 G
216692 TTTGCCAAAT
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:0.56, C:0.00, G:0.28, T:0.16
Consensus pattern (12 bp):
GAATGAAAGAAT
Found at i:218769 original size:17 final size:18
Alignment explanation
Indices: 218731--218769 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
218721 AATGTTATTG
*
218731 TTATTAGAATTTTGGTTA
1 TTATTAGAAGTTTGGTTA
*
218749 TTATTATAAGTTTGG-TA
1 TTATTAGAAGTTTGGTTA
218766 TTAT
1 TTAT
218770 GTAGTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.56
Consensus pattern (18 bp):
TTATTAGAAGTTTGGTTA
Found at i:222084 original size:16 final size:16
Alignment explanation
Indices: 222058--222095 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
222048 CCTACTAAAG
222058 CATGATTGGGTACATAC
1 CATG-TTGGGTACATAC
*
222075 CATGTTGGGTAGATAC
1 CATGTTGGGTACATAC
222091 CATGT
1 CATGT
222096 GAATAAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (16 bp):
CATGTTGGGTACATAC
Found at i:232059 original size:6 final size:7
Alignment explanation
Indices: 232045--232075 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
232035 AAATCAAAAG
232045 AATGAAA
1 AATGAAA
232052 AATGAAA
1 AATGAAA
232059 AATGAAAA
1 AATG-AAA
232067 AATGAAA
1 AATGAAA
232074 AA
1 AA
232076 AAGAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (7 bp):
AATGAAA
Found at i:232059 original size:22 final size:22
Alignment explanation
Indices: 232020--232075 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 22
232010 TGAAGATGAA
*
232020 AAAAAATGAGAAA--AAAAATC
1 AAAAAATGAAAAATGAAAAATC
*
232040 AAAAGAATGAAAAATGAAAAATG
1 AAAA-AATGAAAAATGAAAAATC
232063 AAAAAATGAAAAA
1 AAAAAATGAAAAA
232076 AAGAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 4 0.13
21 8 0.26
22 9 0.29
23 10 0.32
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.11
Consensus pattern (22 bp):
AAAAAATGAAAAATGAAAAATC
Found at i:232084 original size:17 final size:16
Alignment explanation
Indices: 232049--232095 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
232039 CAAAAGAATG
*
232049 AAAAATG-AAAAATGA
1 AAAAATGAAAAAAAGA
232064 AAAAATGAAAAAAAGAA
1 AAAAATGAAAAAAAG-A
*
232081 AAAAATGAATAAAAG
1 AAAAATGAAAAAAAG
232096 GGAGGTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 7 0.25
16 6 0.21
17 15 0.54
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.11
Consensus pattern (16 bp):
AAAAATGAAAAAAAGA
Found at i:233463 original size:54 final size:54
Alignment explanation
Indices: 233381--234322 Score: 1469
Period size: 54 Copynumber: 17.4 Consensus size: 54
233371 ATTATTTGAA
*
233381 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGCTCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* * * *
233435 TTCTATACTCCCAGAAGAAAGAGGGAGCGAACTCGTTTAAAGAAGATGTCCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
*
233489 TTCTATACTCCCTGAAGAAAGAGGGAGTGAACCCGTTTGAAGAAGATGTTCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* *
233543 TTCTATACTCTCTGAAGAAAGAGGGAGCAAACCCGTTTGAAGAAGATGTTCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* *
233597 TTCTATACTCCCTGAAGAAAGAGGGAACGAACCCGTTTGAAGAAGATGTTTGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* * **
233651 TTCTATACTCTCTGAAGAAAGAGGGAGTGAACATGTTTGAAGAAGAT-TTCCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTT-CGAG
* *
233705 TTCTATACTCTCTGAAGAAAGAGGGAGCAAACCCGTTTGAAGAAGATGTTCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* *
233759 TTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCATTTGAAGAAGATGTTCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* * *
233813 TTCTATTA-TCCCTGAAGAAAAAGGGAGCGAACCTGTTTGAAGAAGATGTTCAAG
1 TTCTA-TACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* * *
233867 TTCTATTCTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAATAAGATGTCCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* *
233921 TTCTATACTCCTTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* * *
233975 TTCTATACTCCTTGAAGAAAGAGGGAGTGAACCCATTTGAAGAAGATGTTCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* * *
234029 TTCTATACTCTCTGAAGAAAGAGAGAGCGAACCCATTTGAAGAAGATGTTCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
*
234083 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTTGAAGAAGATGTTCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* * *
234137 TTCTATACTCTCTGAAGAAAGAGGGAGCGAATCCGTTTGAAGAAGATG-TCTGAA
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC-GAG
234191 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
* *
234245 TTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGCTT-AAG
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATG-TTCGAG
*
234299 TTATATACTCCCTGAAGAAAGAGG
1 TTCTATACTCCCTGAAGAAAGAGG
234323 AGTTCTATAC
Statistics
Matches: 814, Mismatches: 67, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.01
54 801 0.98
55 8 0.01
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (54 bp):
TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAG
Found at i:233559 original size:29 final size:29
Alignment explanation
Indices: 233526--233615 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
233516 TGAACCCGTT
233526 TGAAGAAGATGTTCGAGTTCTATACTCTC
1 TGAAGAAGATGTTCGAGTTCTATACTCTC
* * * *
233555 TGAAGAAAGA-G--GGAG--C-AAACCCGTT
1 TGAAG-AAGATGTTCGAGTTCTATACTC-TC
*
233580 TGAAGAAGATGTTCGAGTTCTATACTCCC
1 TGAAGAAGATGTTCGAGTTCTATACTCTC
233609 TGAAGAA
1 TGAAGAA
233616 AGAGGGAACG
Statistics
Matches: 44, Mismatches: 9, Indels: 16
0.64 0.13 0.23
Matches are distributed among these distances:
24 8 0.18
25 8 0.18
27 6 0.14
29 14 0.32
30 8 0.18
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (29 bp):
TGAAGAAGATGTTCGAGTTCTATACTCTC
Found at i:233990 original size:29 final size:29
Alignment explanation
Indices: 233903--233993 Score: 79
Period size: 29 Copynumber: 3.3 Consensus size: 29
233893 GCGAACCCGT
*
233903 TTGAATAAGATGTCCGAGTTCTATACTCC
1 TTGAAGAAGATGTCCGAGTTCTATACTCC
* *
233932 TTGAAGAAAGA-G--GGAG--CGA-AC-CC
1 TTGAAG-AAGATGTCCGAGTTCTATACTCC
233955 GTTTGAAGAAGATGTCCGAGTTCTATACTCC
1 --TTGAAGAAGATGTCCGAGTTCTATACTCC
233986 TTGAAGAA
1 TTGAAGAA
233994 AGAGGGAGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 20
0.65 0.07 0.28
Matches are distributed among these distances:
23 2 0.04
24 6 0.13
25 9 0.19
27 6 0.13
29 16 0.34
30 6 0.13
31 2 0.04
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (29 bp):
TTGAAGAAGATGTCCGAGTTCTATACTCC
Found at i:234045 original size:29 final size:29
Alignment explanation
Indices: 234012--234155 Score: 87
Period size: 29 Copynumber: 5.2 Consensus size: 29
234002 TGAACCCATT
234012 TGAAGAAGATGTTCGAGTTCTATACTCTC
1 TGAAGAAGATGTTCGAGTTCTATACTCTC
* * * *
234041 TGAAGAAAGA-G--AGAG--CGA-ACCCATT
1 TGAAG-AAGATGTTCGAGTTCTATACTC-TC
*
234066 TGAAGAAGATGTTCGAGTTCTATACTCCC
1 TGAAGAAGATGTTCGAGTTCTATACTCTC
* * * *
234095 TGAAGAAAGA-G--GGAG--CGA-ACCTGTT
1 TGAAG-AAGATGTTCGAGTTCTATA-CTCTC
234120 TGAAGAAGATGTTCGAGTTCTATACTCTC
1 TGAAGAAGATGTTCGAGTTCTATACTCTC
234149 TGAAGAA
1 TGAAGAA
234156 AGAGGGAGCG
Statistics
Matches: 81, Mismatches: 18, Indels: 32
0.62 0.14 0.24
Matches are distributed among these distances:
24 12 0.15
25 19 0.23
27 12 0.15
29 26 0.32
30 12 0.15
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (29 bp):
TGAAGAAGATGTTCGAGTTCTATACTCTC
Found at i:234326 original size:26 final size:26
Alignment explanation
Indices: 234297--234348 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
234287 AAGATGCTTA
234297 AGTTATATACTCCCTGAAGAAAGAGG
1 AGTTATATACTCCCTGAAGAAAGAGG
*
234323 AGTTCTATACTCCCTGAAGAAAGAGG
1 AGTTATATACTCCCTGAAGAAAGAGG
234349 GAGCGAACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (26 bp):
AGTTATATACTCCCTGAAGAAAGAGG
Found at i:234328 original size:80 final size:80
Alignment explanation
Indices: 234242--234402 Score: 288
Period size: 80 Copynumber: 2.0 Consensus size: 80
234232 GAAGATGTTC
234242 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGCTT-AAGTTATATA
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATG-TTCAAGTTATATA
234306 CTCCCTGAAGAAAGAG
65 CTCCCTGAAGAAAGAG
* *
234322 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATAC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCAAGTTATATAC
234387 TCCCTGAAGAAAGAG
66 TCCCTGAAGAAAGAG
234402 G
1 G
234403 GAGCGAACCC
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
79 2 0.03
80 76 0.97
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (80 bp):
GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCAAGTTATATAC
TCCCTGAAGAAAGAG
Found at i:234333 original size:134 final size:134
Alignment explanation
Indices: 234191--234456 Score: 480
Period size: 134 Copynumber: 2.0 Consensus size: 134
234181 GATGTCTGAA
*
234191 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCC
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCC
234256 CTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGCTT-AAGTTATATACTCCCTGAAGAAAG
66 CTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATG-TTCAAGTTATATACTCCCTGAAGAAAG
234320 AGGAG
130 AGGAG
234325 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCC
1 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCC
* * *
234390 CTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATGTACTCCCTGAAGAAAGA
66 CTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCAAGTTATATACTCCCTGAAGAAAGA
234455 GG
131 GG
234457 GAGCGAACCC
Statistics
Matches: 127, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
133 2 0.02
134 125 0.98
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (134 bp):
TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCC
CTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCAAGTTATATACTCCCTGAAGAAAGA
GGAG
Found at i:234344 original size:188 final size:188
Alignment explanation
Indices: 234134--234510 Score: 632
Period size: 188 Copynumber: 2.0 Consensus size: 188
234124 GAAGATGTTC
* * *
234134 GAGTTCTATACTCTCTGAAGAAAGAGGGAGCGAATCCGTTTGAAGAAGATG-TCTGAATTCTATA
1 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC-GAATTATATA
*
234198 CTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTAAAGA
65 CTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTAAAGA
234263 AAGAGGGAGCGAACCCGTTTGAAGAAGATGCTT-AAGTTATATACTCCCTGAAGAAAGAG
130 AAGAGGGAGCGAACCCGTTTGAAGAAGATG-TTCAAGTTATATACTCCCTGAAGAAAGAG
*
234322 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATAC
1 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAATTATATAC
* *
234387 TCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATGTACTCCCTGAAGAA
66 TCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTAAAGAA
* * *
234452 AGAGGGAGCGAACCCTTTTGAAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAG
131 AGAGGGAGCGAACCCGTTTGAAGAAGATGTTCAAGTTATATACTCCCTGAAGAAAGAG
234510 G
1 G
234511 GAGCGAATCC
Statistics
Matches: 177, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
187 2 0.01
188 173 0.98
189 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (188 bp):
GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAATTATATAC
TCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTAAAGAA
AGAGGGAGCGAACCCGTTTGAAGAAGATGTTCAAGTTATATACTCCCTGAAGAAAGAG
Found at i:234351 original size:242 final size:242
Alignment explanation
Indices: 234080--234560 Score: 822
Period size: 242 Copynumber: 2.0 Consensus size: 242
234070 GAAGATGTTC
* *
234080 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTTGAAGAAGATGTTCGAGTTCTATAC
1 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATAC
* * *
234145 TCTCTGAAGAAAGAGGGAGCGAATCCGTTTGAAGAAGATG-TCTGAATTCTATACTCCCTGAAGA
66 TCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC-GAATTATATACTCCCTGAAGA
234209 AAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCG
130 AAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCG
*
234274 AACCCGTTTGAAGAAGATGCTT-AAGTTATATACTCCCTGAAGAAAGAG
195 AACCCATTTGAAGAAGATG-TTCAAGTTATATACTCCCTGAAGAAAGAG
234322 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATAC
1 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATAC
* *
234387 TCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATGTACTCCCTGAAGAA
66 TCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAATTATATACTCCCTGAAGAA
* *
234452 AGAGGGAGCGAACCCTTTTGAAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGA
131 AGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGA
* *
234517 ATCCATTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAA
196 ACCCATTTGAAGAAGATGTTCAAGTTATATACTCCCTGAAGAAA
234561 AAGGGAGCGA
Statistics
Matches: 225, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
241 2 0.01
242 221 0.98
243 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (242 bp):
GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATAC
TCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAATTATATACTCCCTGAAGAA
AGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGA
ACCCATTTGAAGAAGATGTTCAAGTTATATACTCCCTGAAGAAAGAG
Found at i:234366 original size:296 final size:296
Alignment explanation
Indices: 234026--234618 Score: 983
Period size: 296 Copynumber: 2.0 Consensus size: 296
234016 GAAGATGTTC
* *
234026 GAGTTCTATACTCTCTGAAGAAAGAGAGAGCGAACCCATTTGAAGAAGATGTTCGAGTTCTATAC
1 GAGTTCTATACTCCCTGAAGAAAGAGAGAGCGAACCCATTTGAAGAAGATGTTCGAGTTATATAC
* * *
234091 TCCCTGAAGAAAGAGGGAGCGAACCTGTTTGAAGAAGATGTTCGAGTTCTATACTCTCTGAAGAA
66 TCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAA
*
234156 AGAGGGAGCGAATCCGTTTGAAGAAGATG-TCTGAATTCTATACTCCCTGAAGAAAGAGGGAGCG
131 AGAGGGAGCGAACCCGTTTGAAGAAGATGTTC-GAATTCTATACTCCCTGAAGAAAGAGGGAGCG
* * *
234220 AACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGA
195 AACCCATTTGAAGAAGATGTTCGAGTTATATACTCCCTAAAGAAAAAGGGAGCGAACCCGTTTGA
*
234285 AGAAGATGCTT-AAGTTATATACTCCCTGAAGAAAGAG
260 AGAAGATG-TTCAAGTTATATACTCCCTAAAGAAAGAG
* *
234322 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATAC
1 GAGTTCTATACTCCCTGAAGAAAGAGAGAGCGAACCCATTTGAAGAAGATGTTCGAGTTATATAC
*
234387 TCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATGTACTCCCTGAAGAA
66 TCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAA
* *
234452 AGAGGGAGCGAACCCTTTTGAAGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGA
131 AGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAATTCTATACTCCCTGAAGAAAGAGGGAGCGA
* *
234517 ATCCATTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAAAAAGGGAGCGAACCCGTTTGAA
196 ACCCATTTGAAGAAGATGTTCGAGTTATATACTCCCTAAAGAAAAAGGGAGCGAACCCGTTTGAA
* *
234582 GAAGATGTTCGAGTTCTATACTCCCTAAAGAAAGAG
261 GAAGATGTTCAAGTTATATACTCCCTAAAGAAAGAG
234618 G
1 G
234619 GAGTGAACCC
Statistics
Matches: 276, Mismatches: 19, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
295 2 0.01
296 272 0.99
297 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (296 bp):
GAGTTCTATACTCCCTGAAGAAAGAGAGAGCGAACCCATTTGAAGAAGATGTTCGAGTTATATAC
TCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTATATACTCCCTGAAGAA
AGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAATTCTATACTCCCTGAAGAAAGAGGGAGCGA
ACCCATTTGAAGAAGATGTTCGAGTTATATACTCCCTAAAGAAAAAGGGAGCGAACCCGTTTGAA
GAAGATGTTCAAGTTATATACTCCCTAAAGAAAGAG
Found at i:234370 original size:54 final size:54
Alignment explanation
Indices: 234322--234784 Score: 712
Period size: 54 Copynumber: 8.6 Consensus size: 54
234312 GAAGAAAGAG
234322 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
1 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
*
234376 GAGTTATATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
1 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * *
234430 GAGTTATGTACTCCCTGAAGAAAGAGGGAGCGAACCCTTTTGAAGAAGATGTTC
1 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* *
234484 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAATCCATTTGAAGAAGATGTTC
1 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* *
234538 GAGTTATATACTCCCTGAAGAAAAAGGGAGCGAACCCGTTTGAAGAAGATGTTC
1 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * *
234592 GAGTTCTATACTCCCTAAAGAAAGAGGGAGTGAACCCGTTTGAAGAAGATATTC
1 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * *
234646 GAGTTCTATACTCCCTGAAGAAAGAGGGAACGAACTCGTTTGAAGAATATGTTC
1 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * ** *
234700 GAGTTCTATACTCCCTGAAGAAAGAGAGAGTGAACCCGTAAGAAGAAGGTTGTTC
1 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAA-GATGTTC
* *
234755 GAG-TCTCATACTCTCTGAAGAAATAGGGAG
1 GAGTTCT-ATACTCCCTGAAGAAAGAGGGAG
234785 TAGACACGAT
Statistics
Matches: 374, Mismatches: 33, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
54 346 0.93
55 28 0.07
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (54 bp):
GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
Found at i:234808 original size:55 final size:55
Alignment explanation
Indices: 234744--234917 Score: 258
Period size: 55 Copynumber: 3.2 Consensus size: 55
234734 CCCGTAAGAA
* * *
234744 GAAGGTTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGTAGACACGATGGTT
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
* * * *
234799 GAAGATTGTTCGAGTCTCATACTCTTTGAAGGAATAGGGAGCAGACATGATTATT
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
* * *
234854 GAAGATTGTTCGAGTCTTATACTCTCTGAACAAATAGGGAGCAGACACGATTGTC
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
234909 GAAGATTGT
1 GAAGATTGT
234918 CTTCAAAAAC
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 105 1.00
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (55 bp):
GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTT
Found at i:237561 original size:20 final size:20
Alignment explanation
Indices: 237538--237643 Score: 62
Period size: 20 Copynumber: 5.2 Consensus size: 20
237528 AGTTTATATT
237538 TATATACTATATATATGAAC
1 TATATACTATATATATGAAC
*
237558 TATAGT--T-TACATATGAAC
1 TATA-TACTATATATATGAAC
237576 TATATA-TATAGTTTATTAGTGAAC
1 TATATACTATA---TA-TA-TGAAC
* *
237600 TATATAC-ACTATTTAT-ATAG
1 TATATACTA-TATATATGA-AC
*
237620 TATATACTATATATATAAAC
1 TATATACTATATATATGAAC
237640 TATA
1 TATA
237644 GTTTATATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 26
0.68 0.06 0.26
Matches are distributed among these distances:
17 1 0.01
18 15 0.22
19 4 0.06
20 24 0.36
21 5 0.07
22 2 0.03
23 2 0.03
24 12 0.18
25 2 0.03
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (20 bp):
TATATACTATATATATGAAC
Found at i:237571 original size:18 final size:18
Alignment explanation
Indices: 237516--237579 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 18
237506 CTCCTCGAAC
237516 CATATGAACTATAGTTT-
1 CATATGAACTATAGTTTA
** * *
237533 -ATATTTA-TATACTATA
1 CATATGAACTATAGTTTA
*
237549 TATATGAACTATAGTTTA
1 CATATGAACTATAGTTTA
237567 CATATGAACTATA
1 CATATGAACTATA
237580 TATATAGTTT
Statistics
Matches: 35, Mismatches: 9, Indels: 5
0.71 0.18 0.10
Matches are distributed among these distances:
15 6 0.17
16 5 0.14
17 5 0.14
18 19 0.54
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (18 bp):
CATATGAACTATAGTTTA
Found at i:237581 original size:31 final size:32
Alignment explanation
Indices: 237517--237584 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 32
237507 TCCTCGAACC
*
237517 ATATGAACTATAGTTTATATTTATATACTATAT
1 ATATGAACTATAGTTTACA-TTATATACTATAT
237550 ATATGAACTATAGTTTACA-TATGA-ACTATAT
1 ATATGAACTATAGTTTACATTAT-ATACTATAT
237581 ATAT
1 ATAT
237585 AGTTTATTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
31 14 0.42
32 1 0.03
33 18 0.55
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (32 bp):
ATATGAACTATAGTTTACATTATATACTATAT
Found at i:237590 original size:24 final size:24
Alignment explanation
Indices: 237558--237636 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
237548 ATATATGAAC
237558 TATAGTTTACATA-TGAACTATATA
1 TATAGTTTA-ATAGTGAACTATATA
*
237582 TATAGTTTATTAGTGAACTATATA
1 TATAGTTTAATAGTGAACTATATA
* *
237606 CACTA-TTTATATAGTATATACTATATA
1 TA-TAGTTTA-ATAGT-GA-ACTATATA
237633 TATA
1 TATA
237637 AACTATAGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
23 2 0.04
24 25 0.56
25 6 0.13
26 3 0.07
27 9 0.20
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.44
Consensus pattern (24 bp):
TATAGTTTAATAGTGAACTATATA
Found at i:237625 original size:7 final size:6
Alignment explanation
Indices: 237613--237726 Score: 59
Period size: 7 Copynumber: 17.3 Consensus size: 6
237603 ATACACTATT
* * * *
237613 TATATA GTATATA CTATATA TATAAA CTATAGTT TATATT TATATA CTACATA
1 TATATA -TATATA -TATATA TATATA -TATA-TA TATATA TATATA -TATATA
* * *
237666 CTATAGTT TATATT TATATA CTATATA T-TATA TATATA AACTATA TATACTA
1 -TATA-TA TATATA TATATA -TATATA TATATA TATATA TA-TATA TATA-TA
237718 TATAGTA TA
1 TATA-TA TA
237727 ATTTACATAT
Statistics
Matches: 87, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
5 5 0.06
6 27 0.31
7 54 0.62
8 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (6 bp):
TATATA
Found at i:237625 original size:9 final size:8
Alignment explanation
Indices: 237613--237726 Score: 59
Period size: 9 Copynumber: 13.0 Consensus size: 8
237603 ATACACTATT
237613 TATATAGTA
1 TATATA-TA
237622 TATACTATA
1 TATA-TATA
*
237631 TATATAAA
1 TATATATA
*
237639 CTATAGTTTA
1 -TATA-TATA
*
237649 TATTTATA
1 TATATATA
*
237657 TACTACATA
1 TA-TATATA
*
237666 CTATAGTTTA
1 -TATA-TATA
*
237676 TATTTATA
1 TATATATA
237684 TACTATATA
1 TA-TATATA
237693 T-TATATA
1 TATATATA
*
237700 TATAAACTA
1 TATATA-TA
237709 TATATACTA
1 TATATA-TA
237718 TATAGTATA
1 TATA-TATA
237727 ATTTACATAT
Statistics
Matches: 81, Mismatches: 14, Indels: 20
0.70 0.12 0.17
Matches are distributed among these distances:
7 7 0.09
8 16 0.20
9 48 0.59
10 10 0.12
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (8 bp):
TATATATA
Found at i:237628 original size:18 final size:18
Alignment explanation
Indices: 237602--237636 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
237592 TAGTGAACTA
*
237602 TATACACTATTTATATAG
1 TATACACTATATATATAG
*
237620 TATATACTATATATATA
1 TATACACTATATATATA
237637 AACTATAGTT
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:0.43, C:0.09, G:0.03, T:0.46
Consensus pattern (18 bp):
TATACACTATATATATAG
Found at i:237679 original size:27 final size:27
Alignment explanation
Indices: 237638--237697 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
237628 ATATATATAA
237638 ACTATAGTTTATATTTATATACTACAT
1 ACTATAGTTTATATTTATATACTACAT
*
237665 ACTATAGTTTATATTTATATACTATAT
1 ACTATAGTTTATATTTATATACTACAT
*
237692 ATTATA
1 ACTATA
237698 TATATAAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.50
Consensus pattern (27 bp):
ACTATAGTTTATATTTATATACTACAT
Found at i:237711 original size:20 final size:20
Alignment explanation
Indices: 237620--237727 Score: 74
Period size: 20 Copynumber: 4.9 Consensus size: 20
237610 ATTTATATAG
*
237620 TATATACTATATATATAAAC
1 TATATATTATATATATAAAC
*
237640 TATAGT-TTATATTTATATACTAC
1 TATA-TATTATA--TATATA-AAC
* *
237663 ATACTATAGTTTATATTTATATAC
1 -TA-TATA--TTATATATATAAAC
237687 TATATATTATATATATAAAC
1 TATATATTATATATATAAAC
237707 TATATATACTATATAGTATAA
1 TATATAT--TATATA-TATAA
237728 TTTACATATG
Statistics
Matches: 71, Mismatches: 5, Indels: 21
0.73 0.05 0.22
Matches are distributed among these distances:
20 27 0.38
21 1 0.01
22 16 0.23
23 9 0.13
24 6 0.08
25 7 0.10
27 5 0.07
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (20 bp):
TATATATTATATATATAAAC
Found at i:237743 original size:34 final size:36
Alignment explanation
Indices: 237680--237748 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 36
237670 AGTTTATATT
*
237680 TATATACTATATATTATATATATAAACTATATATAC
1 TATATACTATATATTATACATATAAACTATATATAC
* *
237716 TATATAGTATA-ATT-TACATATGAACTATATATA
1 TATATACTATATATTATACATATAAACTATATATA
237749 AAAATACTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 17 0.57
35 3 0.10
36 10 0.33
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.43
Consensus pattern (36 bp):
TATATACTATATATTATACATATAAACTATATATAC
Found at i:237809 original size:33 final size:33
Alignment explanation
Indices: 237770--238015 Score: 256
Period size: 33 Copynumber: 7.5 Consensus size: 33
237760 CCATAAACCC
*
237770 TAAACTATACATTATATAGTTTATTAGTATATA
1 TAAACTATATATTATATAGTTTATTAGTATATA
** *
237803 TAAACTATATGATATATATAGACTATATGGTATATA
1 TAAACTATAT-AT-TATATAGTTTAT-TAGTATATA
* * *
237839 TAAACTATACATTATATATAGTTCATTAATATATA
1 TAAACTATATA-T-TATATAGTTTATTAGTATATA
* * *
237874 TAAACTATATACTATATAGTTCATTAGTATGTA
1 TAAACTATATATTATATAGTTTATTAGTATATA
*
237907 TAAACTATATATTATATAGTTCATTAGTATATA
1 TAAACTATATATTATATAGTTTATTAGTATATA
* *
237940 TAACCTATATAGTATAT-G-------GTATATA
1 TAAACTATATATTATATAGTTTATTAGTATATA
*
237965 CAAACTATATATTATATAGTTTATTAGTATATA
1 TAAACTATATATTATATAGTTTATTAGTATATA
*
237998 TAAACTATATAGTATATA
1 TAAACTATATATTATATA
238016 TAAACTATAT
Statistics
Matches: 178, Mismatches: 23, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
25 21 0.12
26 1 0.01
32 1 0.01
33 97 0.54
34 2 0.01
35 28 0.16
36 28 0.16
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (33 bp):
TAAACTATATATTATATAGTTTATTAGTATATA
Found at i:237891 original size:18 final size:18
Alignment explanation
Indices: 237794--238026 Score: 128
Period size: 18 Copynumber: 13.1 Consensus size: 18
237784 TATAGTTTAT
237794 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
*
237812 T-GATATATATAGACTATA
1 TAG-TATATATAAACTATA
*
237830 TGGTATATATAAACTATA
1 TAGTATATATAAACTATA
* * **
237848 CATTATATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
*
237865 TAATATATATAAACTATA
1 TAGTATATATAAACTATA
* *
237883 TACTATATAGT--TC-AT-
1 TAGTATATA-TAAACTATA
*
237898 TAGTATGTATAAACTATA
1 TAGTATATATAAACTATA
* ** *
237916 TATTATATAGTTCATTAGTA
1 TAGTATATA-TAAACTA-TA
* *
237936 TA-TATAACCTATATAGTATA
1 TAGTAT-A--TATAAACTATA
* *
237956 TGGTATATACAAACTATA
1 TAGTATATATAAACTATA
***
237974 TA-T-TATATAGTTTAT-
1 TAGTATATATAAACTATA
237989 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
238007 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
238025 TA
1 TA
238027 TTAATTTATT
Statistics
Matches: 160, Mismatches: 36, Indels: 38
0.68 0.15 0.16
Matches are distributed among these distances:
14 1 0.01
15 9 0.06
16 12 0.08
17 26 0.16
18 85 0.53
19 9 0.06
20 9 0.06
21 7 0.04
22 2 0.01
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (18 bp):
TAGTATATATAAACTATA
Found at i:237972 original size:25 final size:25
Alignment explanation
Indices: 237933--237981 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
237923 TAGTTCATTA
* *
237933 GTATATATAACCTATATAGTATATG
1 GTATATACAAACTATATAGTATATG
*
237958 GTATATACAAACTATATATTATAT
1 GTATATACAAACTATATAGTATAT
237982 AGTTTATTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (25 bp):
GTATATACAAACTATATAGTATATG
Found at i:238050 original size:51 final size:51
Alignment explanation
Indices: 237952--238050 Score: 112
Period size: 51 Copynumber: 1.9 Consensus size: 51
237942 ACCTATATAG
* * * *
237952 TATATGGTATATACAAACTATATATTATATAGTTTATTAGTATATATAAAC
1 TATATAGTATATACAAACTATATATTATATAGTTAATTAGAACATATAAAC
* *
238003 TATATAGTATATATAAACTATATATTAATTTA-TTAATATA-AACATATA
1 TATATAGTATATACAAACTATATATT-ATATAGTTAAT-TAGAACATATA
238051 TATTAACTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
51 34 0.85
52 6 0.15
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (51 bp):
TATATAGTATATACAAACTATATATTATATAGTTAATTAGAACATATAAAC
Found at i:238149 original size:24 final size:24
Alignment explanation
Indices: 238112--238163 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
238102 AAATATGAAC
*
238112 TATATATAACCTATAGTATATG-TA
1 TATATACAACCTAT-GTATATGCTA
* *
238136 TATATACAATCTATTTATATGCTA
1 TATATACAACCTATGTATATGCTA
238160 TATA
1 TATA
238164 AACTATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (24 bp):
TATATACAACCTATGTATATGCTA
Found at i:238268 original size:21 final size:21
Alignment explanation
Indices: 238216--238268 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
238206 TAGTGTACTA
* *
238216 TATAGTTTATACTTTATAACC
1 TATAGTTTATAATTTATAAAC
* *
238237 TATAATATATAATTTATAAAC
1 TATAGTTTATAATTTATAAAC
238258 TATAGTTTATA
1 TATAGTTTATA
238269 TTAATGTACT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.47
Consensus pattern (21 bp):
TATAGTTTATAATTTATAAAC
Found at i:238305 original size:22 final size:22
Alignment explanation
Indices: 238258--238306 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 22
238248 ATTTATAAAC
*
238258 TATAGTTTATATTAATGTACTA
1 TATAGTTTATATTAATGTAATA
238280 TATAGTTTATATTAATGTTAATTA
1 TATAGTTTATATTAATG-TAA-TA
238304 TAT
1 TAT
238307 TAACTATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 17 0.71
23 2 0.08
24 5 0.21
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (22 bp):
TATAGTTTATATTAATGTAATA
Found at i:238321 original size:31 final size:31
Alignment explanation
Indices: 238280--238560 Score: 165
Period size: 31 Copynumber: 8.8 Consensus size: 31
238270 TAATGTACTA
* *
238280 TATAGTTTATATTAATGTTAATTATATTAAC
1 TATAATTTATATTAATATTAATTATATTAAC
238311 TATAATTTATATTAATATAGTATATTAT-TTATA-
1 TATAATTTATATTAATAT--TA-ATTATATTA-AC
* * *
238344 AATTATACTATATTAATATTAATTATATTAAC
1 TATAAT-TTATATTAATATTAATTATATTAAC
* *
238376 TATAGTTTATAAACTATACTATATAATT-TA-TAAC
1 TATAATTTAT--A-T-TAATAT-TAATTATATTAAC
* * *
238410 ATATAGTTTATATTAATATT-ATCTTTATAAAC
1 -TATAATTTATATTAATATTAAT-TATATTAAC
* *
238442 TATATTTTATATTAATATTAATTACAAATTATAAAC
1 TATAATTTATATTAATATTAATT----A-TATTAAC
238478 TAT-A-TTATATTAATA-TAAGTTAATATTAA-
1 TATAATTTATATTAATATTAA-TT-ATATTAAC
*
238507 TATTAA-TTATATTAATATTAATTATAAT-A-
1 TA-TAATTTATATTAATATTAATTATATTAAC
*
238536 TATAA-TTATTTTAATATTAATTATA
1 TATAATTTATATTAATATTAATTATA
238561 AATAATTTAT
Statistics
Matches: 206, Mismatches: 18, Indels: 55
0.74 0.06 0.20
Matches are distributed among these distances:
28 22 0.11
29 7 0.03
30 12 0.06
31 67 0.33
32 17 0.08
33 14 0.07
34 35 0.17
35 17 0.08
36 15 0.07
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (31 bp):
TATAATTTATATTAATATTAATTATATTAAC
Found at i:238366 original size:65 final size:64
Alignment explanation
Indices: 238286--238560 Score: 243
Period size: 65 Copynumber: 4.3 Consensus size: 64
238276 ACTATATAGT
* * *
238286 TTATATTAATGTTAATTATATTAACTATAATTTATATTAATATAGTATATTATTTATAAATTATA
1 TTATATTAATATTAATTATATTAACTATAATTTATATTAATATAATATATAATTTATAAA-TATA
* * *
238351 CTATATTAATATTAATTATATTAACTATAGTTTATA--AACTATACTATATAATTTATAACATAT
1 TTATATTAATATTAATTATATTAACTATAATTTATATTAA-TATAATATATAATTTATAA-ATAT
238414 A
64 A
* * * * *
238415 GTTTATATTAATATT-ATCTTTATAAACTATATTTTATATTAATATTAAT-TACAAATTATAAAC
1 --TTATATTAATATTAAT-TATATTAACTATAATTTATATTAATA-TAATATATAATTTATAAA-
238478 TATA
61 TATA
238482 TTATATTAATA-TAAGTTAATATTAA-TATTAA-TTATATTAATATTAAT-TATAA--TAT--AT
1 TTATATTAATATTAA-TT-ATATTAACTA-TAATTTATATTAATA-TAATATATAATTTATAAAT
238539 A-A
62 ATA
*
238541 TTATTTTAATATTAATTATA
1 TTATATTAATATTAATTATA
238561 AATAATTTAT
Statistics
Matches: 179, Mismatches: 17, Indels: 35
0.77 0.07 0.15
Matches are distributed among these distances:
58 3 0.02
59 13 0.07
60 5 0.03
61 1 0.01
63 5 0.03
64 22 0.12
65 71 0.40
66 38 0.21
67 16 0.09
68 5 0.03
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.50
Consensus pattern (64 bp):
TTATATTAATATTAATTATATTAACTATAATTTATATTAATATAATATATAATTTATAAATATA
Found at i:238461 original size:153 final size:146
Alignment explanation
Indices: 238223--238521 Score: 322
Period size: 153 Copynumber: 2.0 Consensus size: 146
238213 CTATATAGTT
* *
238223 TATACTTTATAACCTATAATATATAATTTATAAACTATAGTTTATATTAATGTACTATATAGTTT
1 TATACTTTATAAACTATAATATATAATTTATAAACTATAGTTTATATTAA-GTACTATATACTTT
* * * * *
238288 ATATTAATGTTAATTATATTAACTATAATTTATATTAA-TATAGTATATTATTTATAAATTATAC
65 ATACTAATGTTAATTATATTAACTACAAATTATA--AACTATAGTATATTA-ATAT-AAGT-TA-
238352 TATATTAATATTAATTATATTAAC
124 -ATATTAATATTAATTATATTAAC
* *
238376 TATAGTTTATAAACTATACTATATAATTTAT-AACATATAGTTTATATTAA-TA-T-TAT-CTTT
1 TATACTTTATAAACTATAATATATAATTTATAAAC-TATAGTTTATATTAAGTACTATATACTTT
* * *
238436 ATAAACTATATTTTATATTAATATTAATTACAAATTATAAACTATATTATATTAATATAAGTTAA
65 AT--ACTA-ATGTTA-ATT-ATATTAACTACAAATTATAAACTATAGTATATTAATATAAGTTAA
238501 TATTAATATTAATTATATTAA
125 TATTAATATTAATTATATTAA
238522 TATTAATTAT
Statistics
Matches: 127, Mismatches: 12, Indels: 20
0.80 0.08 0.13
Matches are distributed among these distances:
147 22 0.17
148 5 0.04
149 5 0.04
150 7 0.06
151 12 0.09
152 17 0.13
153 59 0.46
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (146 bp):
TATACTTTATAAACTATAATATATAATTTATAAACTATAGTTTATATTAAGTACTATATACTTTA
TACTAATGTTAATTATATTAACTACAAATTATAAACTATAGTATATTAATATAAGTTAATATTAA
TATTAATTATATTAAC
Found at i:238474 original size:131 final size:133
Alignment explanation
Indices: 238244--238514 Score: 313
Period size: 131 Copynumber: 2.1 Consensus size: 133
238234 ACCTATAATA
* * * * *
238244 TATAATTTATAAACTATAGTTTATATTAATGTACTATATAGTTTATATTAATGTTAATTATATTA
1 TATAATTTATAAACTATACTATATATTAATGAACTATATAGTTTATATTAATATTAATTATATAA
* ** * *
238309 ACTATAATTTATATTAATATAGTATATTATTTATAAATTATACTATATTAATATTAA-TT-ATAT
66 ACTATAATTTATATTAATATAATATACAAATTATAAACTATACTATATTAATA-TAAGTTAATAT
238372 TAAC
130 TAAC
* * *
238376 TATAGTTTATAAACTATACTATATAATTTAT-AAC-ATATAGTTTATATTAATATT-ATCTTTAT
1 TATAATTTATAAACTATACTATAT-ATTAATGAACTATATAGTTTATATTAATATTAAT-TATAT
* *
238438 AAACTATATTTTATATTAATATTAAT-TACAAATTATAAACTATATTATATTAATATAAGTTAAT
64 AAACTATAATTTATATTAATA-TAATATACAAATTATAAACTATACTATATTAATATAAGTTAAT
238502 ATTAA-
128 ATTAAC
238507 TATTAATT
1 TA-TAATT
238515 ATATTAATAT
Statistics
Matches: 117, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
130 5 0.04
131 70 0.60
132 37 0.32
133 5 0.04
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (133 bp):
TATAATTTATAAACTATACTATATATTAATGAACTATATAGTTTATATTAATATTAATTATATAA
ACTATAATTTATATTAATATAATATACAAATTATAAACTATACTATATTAATATAAGTTAATATT
AAC
Found at i:238506 original size:6 final size:6
Alignment explanation
Indices: 238479--238556 Score: 53
Period size: 6 Copynumber: 13.3 Consensus size: 6
238469 ATTATAAACT
*
238479 ATATT- ATATTA ATA-TA A-GTTA ATATTA ATATT- A-ATT- ATATTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA
238521 ATATTA AT-TATA ATATATA ATTATTTTA ATATTA AT
1 ATATTA ATAT-TA ATAT-TA A-TA--TTA ATATTA AT
238557 TATAAATAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 19
0.74 0.02 0.23
Matches are distributed among these distances:
4 4 0.07
5 16 0.26
6 28 0.46
7 5 0.08
8 4 0.07
9 3 0.05
10 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (6 bp):
ATATTA
Done.