Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008186.1 Hibiscus syriacus cultivar Beakdansim tig00110793_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: 806808
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 2 of 3
Found at i:424657 original size:110 final size:110
Alignment explanation
Indices: 424456--424861 Score: 521
Period size: 110 Copynumber: 3.7 Consensus size: 110
424446 AATTTCGAAT
* * * * * * * * * *
424456 AACGGGTCTGTTCCCTATACCTTCAGGGATTATA-AGACTCGAATAATATTCAGCAAACGAGTTT
1 AACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAACAAACGGGTTT
* * * **
424520 TCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATAA
65 GCTCTCTATTCCTTCAAAGAGTATAGAACTCGAACAATCTTCATAA
* * *
424566 AACGGGTCCACTCTCTATTCCTTCAGAGAGTTTAGAACTCGAACAATCTTCAACAAACGGGTCTG
1 AACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTTTG
* **
424631 CTCTCTATTCCTTCAAAGAGTATAGAACTCGAACAATCTTAAGCA
66 CTCTCTATTCCTTCAAAGAGTATAGAACTCGAACAATCTTCATAA
* * *
424676 AACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCATCAATAAACGGGTTCG
1 AACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTTTG
424741 CTCTCTATTCCTT-AAGAGAGTATAGAACTCGAACAATCTTCATAA
66 CTCTCTATTCCTTCAA-AGAGTATAGAACTCGAACAATCTTCATAA
*
424786 AACGGGTCCGCTCTCTATTTCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AAACGGGTTT
1 AACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCA-ACAAACGGGTTT
*
424850 GCTTCACTATTC
65 GC-TCTCTATTC
424862 TTCCGTGAAG
Statistics
Matches: 258, Mismatches: 34, Indels: 7
0.86 0.11 0.02
Matches are distributed among these distances:
109 2 0.01
110 246 0.95
111 10 0.04
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (110 bp):
AACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTTTG
CTCTCTATTCCTTCAAAGAGTATAGAACTCGAACAATCTTCATAA
Found at i:424864 original size:55 final size:55
Alignment explanation
Indices: 424525--424847 Score: 497
Period size: 55 Copynumber: 5.9 Consensus size: 55
424515 AGTTTTCTCC
* * *
424525 CTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCACTCT
1 CTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCT
* *
424580 CTATTCCTTCAGAGAGTTTAGAACTCGAACAATCTTCA-ACAAACGGGTCTGCTCT
1 CTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AAACGGGTCCGCTCT
* * **
424635 CTATTCCTTCAAAGAGTATAGAACTCGAACAATCTTAAGCAAACGGGTCCGCTCT
1 CTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCT
* *
424690 CTATTCCTTCAGAGAGTATAGAACTCGAACAATCATCA-ATAAACGGGTTCGCTCT
1 CTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AAACGGGTCCGCTCT
*
424745 CTATTCCTTAAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCT
1 CTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCT
*
424800 CTATTTCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGT
1 CTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGT
424848 TTGCTTCACT
Statistics
Matches: 244, Mismatches: 20, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
54 1 0.00
55 242 0.99
56 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (55 bp):
CTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCT
Found at i:424902 original size:37 final size:37
Alignment explanation
Indices: 424847--424928 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 37
424837 ATAAAACGGG
* *
424847 TTTGCTTCACTATTCTTCCGTGAAGGCTTATAGA-TGA
1 TTTGTTTCACTACTCTTCCGTGAAGGCTTA-AGATTGA
424884 TTTGTTTCACTACTCTTCCGTGAAGGCTTAAGATTGA
1 TTTGTTTCACTACTCTTCCGTGAAGGCTTAAGATTGA
*
424921 CTTGTTTC
1 TTTGTTTC
424929 GAAGGTCAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
36 3 0.07
37 38 0.93
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.43
Consensus pattern (37 bp):
TTTGTTTCACTACTCTTCCGTGAAGGCTTAAGATTGA
Found at i:425723 original size:23 final size:23
Alignment explanation
Indices: 425697--425741 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
425687 CACCACAGCT
*
425697 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
425720 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
425742 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:425886 original size:25 final size:25
Alignment explanation
Indices: 425858--425924 Score: 125
Period size: 25 Copynumber: 2.7 Consensus size: 25
425848 TATATATATA
425858 TCCCGAAGGACCGCGTAGAATATTG
1 TCCCGAAGGACCGCGTAGAATATTG
425883 TCCCGAAGGACCGCGTAGAATATTG
1 TCCCGAAGGACCGCGTAGAATATTG
*
425908 TCCCGAAGGACCTCGTA
1 TCCCGAAGGACCGCGTA
425925 AACCCTCTAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (25 bp):
TCCCGAAGGACCGCGTAGAATATTG
Found at i:428338 original size:29 final size:28
Alignment explanation
Indices: 428324--428461 Score: 140
Period size: 28 Copynumber: 4.7 Consensus size: 28
428314 TCTCTTTCTT
*
428324 TTTTTCATCTTTTTTCCTTTTTATTTTTA
1 TTTTTCAT-TTTTTTCATTTTTATTTTTA
428353 TTTTTCATTTTTTTCATTTTTCATTTTTCA
1 TTTTTCATTTTTTTCATTTTT-ATTTTT-A
428383 TTTTTCA--TTTTTCATTTTTCATTTTTCA
1 TTTTTCATTTTTTTCATTTTT-ATTTTT-A
428411 TTTTTCA--TTTTTCATTTTTCATTTTTCA
1 TTTTTCATTTTTTTCATTTTT-ATTTTT-A
428439 TTTTTTATTCATTTTTTTCATTT
1 ---TTT-TTCATTTTTTTCATTT
428462 CTTTTTCAGG
Statistics
Matches: 100, Mismatches: 1, Indels: 11
0.89 0.01 0.10
Matches are distributed among these distances:
28 61 0.61
29 14 0.14
30 8 0.08
31 3 0.03
32 4 0.04
34 10 0.10
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (28 bp):
TTTTTCATTTTTTTCATTTTTATTTTTA
Found at i:428351 original size:7 final size:7
Alignment explanation
Indices: 428334--428443 Score: 179
Period size: 7 Copynumber: 15.7 Consensus size: 7
428324 TTTTTCATCT
*
428334 TTTTTCC
1 TTTTTCA
428341 TTTTT-A
1 TTTTTCA
428347 TTTTT-A
1 TTTTTCA
428353 TTTTTCA
1 TTTTTCA
428360 TTTTTTTCA
1 --TTTTTCA
428369 TTTTTCA
1 TTTTTCA
428376 TTTTTCA
1 TTTTTCA
428383 TTTTTCA
1 TTTTTCA
428390 TTTTTCA
1 TTTTTCA
428397 TTTTTCA
1 TTTTTCA
428404 TTTTTCA
1 TTTTTCA
428411 TTTTTCA
1 TTTTTCA
428418 TTTTTCA
1 TTTTTCA
428425 TTTTTCA
1 TTTTTCA
428432 TTTTTCA
1 TTTTTCA
428439 TTTTT
1 TTTTT
428444 TATTCATTTT
Statistics
Matches: 99, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
6 11 0.11
7 81 0.82
9 7 0.07
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTCA
Found at i:428456 original size:21 final size:20
Alignment explanation
Indices: 428341--428461 Score: 126
Period size: 21 Copynumber: 6.1 Consensus size: 20
428331 TCTTTTTTCC
428341 TTTTTATTTTTATTTTTCA-
1 TTTTTATTTTTATTTTTCAT
*
428360 --TTT-TTTTCATTTTTCAT
1 TTTTTATTTTTATTTTTCAT
*
428377 TTTTCATTTTTCATTTTTCAT
1 TTTTTATTTTT-ATTTTTCAT
*
428398 TTTTCATTTTTCATTTTTCAT
1 TTTTTATTTTT-ATTTTTCAT
*
428419 TTTTCATTTTTCATTTTTCAT
1 TTTTTATTTTT-ATTTTTCAT
*
428440 TTTTTATTCATT-TTTTTCAT
1 TTTTTATT-TTTATTTTTCAT
428460 TT
1 TT
428462 CTTTTTCAGG
Statistics
Matches: 91, Mismatches: 5, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
16 12 0.13
17 3 0.03
19 2 0.02
20 14 0.15
21 58 0.64
22 2 0.02
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTATTTTTATTTTTCAT
Found at i:428467 original size:14 final size:13
Alignment explanation
Indices: 428322--428467 Score: 96
Period size: 14 Copynumber: 10.4 Consensus size: 13
428312 TTTCTCTTTC
428322 TTTTTTTCATCTTT
1 TTTTTTTCAT-TTT
*
428336 TTTCCTTTTTATTTT
1 TTT--TTTTCATTTT
*
428351 TATTTTTCATTTTT
1 TTTTTTTCA-TTTT
428365 TTCATTTTTCATTTT
1 TT--TTTTTCATTTT
*
428380 TCATTTTTCATTTT
1 T-TTTTTTCATTTT
*
428394 TCATTTTTCATTTT
1 T-TTTTTTCATTTT
*
428408 TCATTTTTCATTTT
1 T-TTTTTTCATTTT
*
428422 TCATTTTTCATTTT
1 T-TTTTTTCATTTT
**
428436 TCATTTTTT-ATTCA
1 T--TTTTTTCATTTT
*
428450 TTTTTTTCATTTC
1 TTTTTTTCATTTT
428463 TTTTT
1 TTTTT
428468 CAGGCGAAAT
Statistics
Matches: 113, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
12 6 0.05
13 13 0.12
14 66 0.58
15 15 0.13
16 13 0.12
ACGTcount: A:0.12, C:0.13, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTTTCATTTT
Found at i:438513 original size:21 final size:21
Alignment explanation
Indices: 438487--438529 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
438477 TTTCTGGGTT
* *
438487 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
438508 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
438529 A
1 A
438530 CAAATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:438645 original size:65 final size:66
Alignment explanation
Indices: 438509--438656 Score: 219
Period size: 65 Copynumber: 2.3 Consensus size: 66
438499 ACCCATTCAA
* *
438509 GGGGAACCGATACCCCTTCAACAAATATGAATTTCCAGTATACTAGAGGGAATCGATACCCCCAG
1 GGGGAACCGATACCCCCTCAACAAATATGAATTTCCAGAATACTAGAGGGAATCGATACCCCCAG
438574 G
66 G
* * *
438575 GGGGAACCGATACCCCCTCAACGAATATGAA-TTCCAGAATGCTAGTGGGAATCGATA-CCCCAG
1 GGGGAACCGATACCCCCTCAACAAATATGAATTTCCAGAATACTAGAGGGAATCGATACCCCCA-
438638 GG
65 GG
*
438640 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
438657 ATGAGAAAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
64 5 0.07
65 41 0.55
66 29 0.39
ACGTcount: A:0.30, C:0.28, G:0.24, T:0.18
Consensus pattern (66 bp):
GGGGAACCGATACCCCCTCAACAAATATGAATTTCCAGAATACTAGAGGGAATCGATACCCCCAG
G
Found at i:439315 original size:23 final size:23
Alignment explanation
Indices: 439271--439315 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
439261 ATCATTATAT
*
439271 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
439294 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
439316 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:445548 original size:66 final size:67
Alignment explanation
Indices: 445413--445561 Score: 214
Period size: 66 Copynumber: 2.2 Consensus size: 67
445403 ACCCATTCAA
*
445413 GGGGAACCGATACCCCTTCAACAAATATGAATTTCCAGTATACTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCTTCAACAAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
445478 GG
66 GG
* * *
445480 GGGGAACCGATAACCCC-TCAACGAATATGAA-TTCCAGAATGCTAGTGGGGAATCGATA-CCCC
1 GGGGAACCGAT-ACCCCTTCAACAAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCC
445542 AGGG
65 A-GG
*
445546 GGGGAACCGATTCCCC
1 GGGGAACCGATACCCC
445562 CATGAGAAAA
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
65 9 0.12
66 37 0.49
67 24 0.32
68 5 0.07
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.17
Consensus pattern (67 bp):
GGGGAACCGATACCCCTTCAACAAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
GG
Found at i:446222 original size:23 final size:23
Alignment explanation
Indices: 446178--446222 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
446168 ATCATTATAT
*
446178 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
446201 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
446223 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:459187 original size:19 final size:19
Alignment explanation
Indices: 459163--459203 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
459153 TTCATAGGTG
459163 GCTGATAATTTGAATAATT
1 GCTGATAATTTGAATAATT
459182 GCTGATAATTTGAATAATT
1 GCTGATAATTTGAATAATT
459201 GCT
1 GCT
459204 ACCGCCAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.41
Consensus pattern (19 bp):
GCTGATAATTTGAATAATT
Found at i:471200 original size:14 final size:14
Alignment explanation
Indices: 471181--471211 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
471171 TTCGATTATA
471181 CGTTCGTCTATGTT
1 CGTTCGTCTATGTT
*
471195 CGTTCGTTTATGTT
1 CGTTCGTCTATGTT
471209 CGT
1 CGT
471212 CCATTTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.06, C:0.19, G:0.23, T:0.52
Consensus pattern (14 bp):
CGTTCGTCTATGTT
Found at i:471218 original size:14 final size:14
Alignment explanation
Indices: 471189--471238 Score: 73
Period size: 14 Copynumber: 3.6 Consensus size: 14
471179 TACGTTCGTC
*
471189 TATGTTCGTTCGTT
1 TATGTTCGTTCATT
*
471203 TATGTTCGTCCATT
1 TATGTTCGTTCATT
*
471217 TATGTTCATTCATT
1 TATGTTCGTTCATT
471231 TATGTTCG
1 TATGTTCG
471239 AACAGAGGGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.14, C:0.16, G:0.16, T:0.54
Consensus pattern (14 bp):
TATGTTCGTTCATT
Found at i:472651 original size:20 final size:20
Alignment explanation
Indices: 472627--472713 Score: 138
Period size: 20 Copynumber: 4.3 Consensus size: 20
472617 GAATATGTAA
472627 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
472647 GTCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
472667 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
472687 GTCGCAACGCGATGCTGACT
1 ATCGCAACGCGATTCTGACT
472707 ATCGCAA
1 ATCGCAA
472714 TGCAATTTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:472671 original size:40 final size:40
Alignment explanation
Indices: 472627--472713 Score: 156
Period size: 40 Copynumber: 2.2 Consensus size: 40
472617 GAATATGTAA
*
472627 ATCGCAACGCGATTCTGACTGTCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACTGTCGCAACGAGATGCTGACT
*
472667 ATCGCAACGCGATTCTGACTGTCGCAACGCGATGCTGACT
1 ATCGCAACGCGATTCTGACTGTCGCAACGAGATGCTGACT
472707 ATCGCAA
1 ATCGCAA
472714 TGCAATTTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
ATCGCAACGCGATTCTGACTGTCGCAACGAGATGCTGACT
Found at i:473430 original size:20 final size:20
Alignment explanation
Indices: 473334--473427 Score: 134
Period size: 20 Copynumber: 4.7 Consensus size: 20
473324 GCGATTTTAG
* *
473334 TTTCGCGTTGCGATAGTCAA
1 TTTCGTGTTGCGATAGTCAT
* *
473354 ATTCGCGTTGCGATAGTCAT
1 TTTCGTGTTGCGATAGTCAT
473374 TTTCGTGTTGCGATAGTCAT
1 TTTCGTGTTGCGATAGTCAT
**
473394 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATAGTCAT
473414 TTTCGTGTTGCGAT
1 TTTCGTGTTGCGAT
473428 TTTAAGTTCA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.15, C:0.17, G:0.24, T:0.44
Consensus pattern (20 bp):
TTTCGTGTTGCGATAGTCAT
Found at i:475366 original size:20 final size:20
Alignment explanation
Indices: 475341--475408 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
475331 TAGTTTACTT
475341 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
475361 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
* ** *
475381 TCGCAACGAGAATTTGACAA
1 TCGCAACGCGAAAATGACTA
475401 TCGCAACG
1 TCGCAACG
475409 AAAGAATCGC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:475493 original size:18 final size:19
Alignment explanation
Indices: 475451--475497 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 19
475441 GCGATTCTCT
475451 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
475471 CGTTGCGATAGTCA-TTCG
1 CGTTGCGATAGTCATTTCG
*
475489 TGTTGCGAT
1 CGTTGCGAT
475498 TTTAAGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 12 0.46
20 14 0.54
ACGTcount: A:0.15, C:0.19, G:0.28, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:476028 original size:18 final size:20
Alignment explanation
Indices: 475988--476029 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
475978 TTCATCTGTC
475988 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-CTCCCCT
476009 ATCGTTCAAGAGG-T-CCCT
1 ATCGTTCAAGAGGCTCCCCT
476027 ATC
1 ATC
476030 TAGGGATGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.33
19 1 0.05
21 13 0.62
ACGTcount: A:0.21, C:0.33, G:0.19, T:0.26
Consensus pattern (20 bp):
ATCGTTCAAGAGGCTCCCCT
Found at i:476261 original size:19 final size:20
Alignment explanation
Indices: 476234--476271 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
476224 AATATTAAAA
* *
476234 ATAATTATTTATATATTTAT
1 ATAATTATTAATAAATTTAT
476254 ATAA-TATTAATAAATTTA
1 ATAATTATTAATAAATTTA
476272 ATTTAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATAATTATTAATAAATTTAT
Found at i:476276 original size:32 final size:32
Alignment explanation
Indices: 476224--476320 Score: 92
Period size: 32 Copynumber: 3.0 Consensus size: 32
476214 CGACCCGATA
* *
476224 AATATTAA-AAATAATT-ATTTATATATTTATAT
1 AATATTAATAAAT--TTAATTTAAATATATATAT
* *
476256 AATATTAATAAATTTAATTTAAATA-AAAAAT
1 AATATTAATAAATTTAATTTAAATATATATAT
* *
476287 ATATATTTATATATTTAATTTAAATATATATAT
1 A-ATATTAATAAATTTAATTTAAATATATATAT
476320 A
1 A
476321 TATACCCGGC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
31 6 0.11
32 38 0.72
33 9 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (32 bp):
AATATTAATAAATTTAATTTAAATATATATAT
Found at i:476357 original size:12 final size:12
Alignment explanation
Indices: 476342--476376 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
476332 CGATTCTCGG
476342 CCCAATACCCGA
1 CCCAATACCCGA
*
476354 CCCAATACCCGG
1 CCCAATACCCGA
*
476366 CCTAATACCCG
1 CCCAATACCCG
476377 TTTAAATAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.29, C:0.49, G:0.11, T:0.11
Consensus pattern (12 bp):
CCCAATACCCGA
Found at i:478242 original size:20 final size:20
Alignment explanation
Indices: 478189--478242 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
478179 AGGTACACTT
* **
478189 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCGAAAGACAAAA
*
478209 TCGCAATGCGAAAGACAAAA
1 TCGCAACGCGAAAGACAAAA
478229 TCGCAACGCGAAAG
1 TCGCAACGCGAAAG
478243 TCAATTCGCG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.44, C:0.26, G:0.19, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAAGACAAAA
Found at i:478310 original size:20 final size:20
Alignment explanation
Indices: 478285--478543 Score: 178
Period size: 20 Copynumber: 13.8 Consensus size: 20
478275 GCGATTTTCT
* * *
478285 CGTTGCGATAGTCAGATACC
1 CGTTGCGATAGTCAAATTCG
*
478305 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
478325 CGTTGCGATACTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
478345 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
** * *
478365 TATTGC-A-A-T---TTTCT
1 CGTTGCGATAGTCAAATTCG
* *
478379 CGTTGCGATAATCAAA-TAG
1 CGTTGCGATAGTCAAATTCG
478398 CCGTTGCGATAGTCAAATTCG
1 -CGTTGCGATAGTCAAATTCG
* *
478419 CGTTGCGATAGACAAATTTG
1 CGTTGCGATAGTCAAATTCG
* **
478439 AGTTGCGAT--T----TTTA
1 CGTTGCGATAGTCAAATTCG
*
478453 CGTTGCAATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
478473 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
* *
478487 AGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
478507 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
478527 CGTTGTGATATTCAAAT
1 CGTTGCGATAGTCAAAT
478544 GAATGTGTAA
Statistics
Matches: 185, Mismatches: 34, Indels: 40
0.71 0.13 0.15
Matches are distributed among these distances:
14 28 0.15
15 1 0.01
16 3 0.02
17 2 0.01
18 2 0.01
19 2 0.01
20 145 0.78
21 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:478383 original size:74 final size:74
Alignment explanation
Indices: 478305--478481 Score: 243
Period size: 74 Copynumber: 2.4 Consensus size: 74
478295 GTCAGATACC
*
478305 CGTTGCGATAATCAAATTCGCGTTGCGATACTCAAATTCGCGTTGCGATAGTCAAATTCGTA-TT
1 CGTTGCGATAATCAAATTCGCGTTGCGATACTCAAATTCGCGTTGCGATAGACAAATTCG-AGTT
478369 GCAATTTTCT-
65 GCAATTTT-TA
* * *
478379 CGTTGCGATAATCAAA-TAGCCGTTGCGATAGTCAAATTCGCGTTGCGATAGACAAATTTGAGTT
1 CGTTGCGATAATCAAATTCG-CGTTGCGATACTCAAATTCGCGTTGCGATAGACAAATTCGAGTT
*
478443 GCGATTTTTA
65 GCAATTTTTA
* *
478453 CGTTGCAATAGTCAAATTCGCGTTGCGAT
1 CGTTGCGATAATCAAATTCGCGTTGCGAT
478482 TTTTGAGTTG
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
73 4 0.04
74 85 0.93
75 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (74 bp):
CGTTGCGATAATCAAATTCGCGTTGCGATACTCAAATTCGCGTTGCGATAGACAAATTCGAGTTG
CAATTTTTA
Found at i:478406 original size:94 final size:94
Alignment explanation
Indices: 478245--478447 Score: 291
Period size: 94 Copynumber: 2.2 Consensus size: 94
478235 CGCGAAAGTC
* * * *
478245 AATTCGCGTTGCGATAGTCTAATACGCTTTGCGATTTTCTCGTTGCGATAGTCAGATACCCGTTG
1 AATTCGCGTTGCGATAGTCAAATACGCTTTGCAATTTTCTCGTTGCGATAATCAAATACCCGTTG
*
478310 CGATAATCAAATTCGCGTTGCGATACTCA
66 CGATAATCAAATTCGCGTTGCGATACACA
* *
478339 AATTCGCGTTGCGATAGTCAAATTCG-TATTGCAATTTTCTCGTTGCGATAATCAAATAGCCGTT
1 AATTCGCGTTGCGATAGTCAAATACGCT-TTGCAATTTTCTCGTTGCGATAATCAAATACCCGTT
* *
478403 GCGATAGTCAAATTCGCGTTGCGATAGACA
65 GCGATAATCAAATTCGCGTTGCGATACACA
* *
478433 AATTTGAGTTGCGAT
1 AATTCGCGTTGCGAT
478448 TTTTACGTTG
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
93 1 0.01
94 96 0.99
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (94 bp):
AATTCGCGTTGCGATAGTCAAATACGCTTTGCAATTTTCTCGTTGCGATAATCAAATACCCGTTG
CGATAATCAAATTCGCGTTGCGATACACA
Found at i:478469 original size:34 final size:35
Alignment explanation
Indices: 478419--478515 Score: 135
Period size: 34 Copynumber: 2.8 Consensus size: 35
478409 GTCAAATTCG
* * *
478419 CGTTGCGATAGACAAATTTGAGTTGCGATTTTT-A
1 CGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGA
*
478453 CGTTGCAATAGTCAAATTCGCGTTGCGATTTTTGA
1 CGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGA
*
478488 -GTTGCGATAATCAAATTCGCGTTGCGAT
1 CGTTGCGATAGTCAAATTCGCGTTGCGAT
478516 AGTCAAATTC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
34 55 0.98
35 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (35 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGA
Found at i:478511 original size:54 final size:54
Alignment explanation
Indices: 478326--478531 Score: 194
Period size: 54 Copynumber: 3.8 Consensus size: 54
478316 TCAAATTCGC
* ** * *
478326 GTTGCGATACTCAAATTCGCGTTGCGATAGTCAAATTCGTATTGCAATTTTCT-C
1 GTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTT-TGA
* *
478380 GTTGCGATAATCAAA-TAGCCGTTGCGATAGTCAAATTCGCGTTGCGATAGACAAATTTGA
1 GTTGCGATAATCAAATTCG-CGTTGCGATAGTCAAATTCGCGTTGCGAT------TTTTGA
** *
478440 GTTGCGAT--T----TTTACGTTGCAATAGTCAAATTCGCGTTGCGATTTTTGA
1 GTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGA
478488 GTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTG
1 GTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTG
478532 TGATATTCAA
Statistics
Matches: 123, Mismatches: 14, Indels: 30
0.74 0.08 0.18
Matches are distributed among these distances:
48 13 0.11
50 1 0.01
53 2 0.02
54 94 0.76
55 1 0.01
58 1 0.01
59 1 0.01
60 10 0.08
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.34
Consensus pattern (54 bp):
GTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGA
Found at i:478766 original size:140 final size:140
Alignment explanation
Indices: 478514--478783 Score: 522
Period size: 140 Copynumber: 1.9 Consensus size: 140
478504 TCGCGTTGCG
* *
478514 ATAGTCAAATTCGCGTTGTGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
478579 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
478644 AATACACATA
131 AATACACATA
478654 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
478719 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
478784 TACAACGTTT
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 128 1.00
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:478866 original size:18 final size:18
Alignment explanation
Indices: 478843--478877 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
478833 AAACCGGTTG
*
478843 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
478861 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
478878 GCCTTTTTCT
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:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:481165 original size:24 final size:24
Alignment explanation
Indices: 481131--481184 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
481121 CTGAAACATC
* *
481131 ATCAAAATCCGAGTATTGACTAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
481155 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
481179 ATCAAA
1 ATCAAA
481185 TTTTGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:482067 original size:22 final size:20
Alignment explanation
Indices: 482006--482067 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
481996 AAATTCAGTG
* **
482006 TTGCGACAGTCAAAATCGTG
1 TTGCGATAGTCAAAATCGCA
*
482026 TTGCGATAGTCATAATCGCA
1 TTGCGATAGTCAAAATCGCA
482046 TTGCGATAGTCGAAAAATCGCA
1 TTGCGATAGTC--AAAATCGCA
482068 ACGCGAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 27 0.77
22 8 0.23
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (20 bp):
TTGCGATAGTCAAAATCGCA
Found at i:483446 original size:40 final size:40
Alignment explanation
Indices: 483391--483473 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
483381 CAGTAACATA
483391 ATTCATGGATTTGTAGATGTAAACATTGTACATATGACCT
1 ATTCATGGATTTGTAGATGTAAACATTGTACATATGACCT
483431 ATTCATGGATTTGTAGATGTAAACATTGTACATATGACCT
1 ATTCATGGATTTGTAGATGTAAACATTGTACATATGACCT
483471 ATT
1 ATT
483474 AACAAATTAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.39
Consensus pattern (40 bp):
ATTCATGGATTTGTAGATGTAAACATTGTACATATGACCT
Found at i:485809 original size:42 final size:42
Alignment explanation
Indices: 485750--485869 Score: 222
Period size: 42 Copynumber: 2.9 Consensus size: 42
485740 TTTCCCCGAA
485750 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTT
485792 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTT
* *
485834 TTCCCGTGTTTGTTTCTCGTAATTGGTTTTCCGGAA
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
485870 TGTAATTCAT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.15, C:0.19, G:0.20, T:0.46
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTT
Found at i:486090 original size:22 final size:23
Alignment explanation
Indices: 486060--486272 Score: 65
Period size: 23 Copynumber: 9.1 Consensus size: 23
486050 TTTATTTATT
486060 TATTAATATTTATAATAATATAA
1 TATTAATATTTATAATAATATAA
*
486083 TATT-ATATTTTTAATATTATATAA
1 TATTAATATTTATAATA--ATATAA
* *
486107 -AATAATCAATTAT-ATAATAATAA
1 TATTAAT-ATTTATAATAAT-ATAA
* *
486130 TA-TAAGATATTAT-AT-AT-TTA
1 TATTAATAT-TTATAATAATATAA
*
486150 TTTTAATATTATATAATAA-A-AA
1 TATTAATATT-TATAATAATATAA
* *
486172 TCTTTATATATTTAATAATGAATAATAT
1 T-ATTA-ATATTT-ATAAT-AAT-ATAA
**
486200 TATTTATATATTTA-AATAATATTT
1 TA-TTA-ATATTTATAATAATATAA
* * *
486224 TAATAAAGATATT-TAA-AATATAC
1 T-ATTAATAT-TTATAATAATATAA
*
486247 TAATTAATATTTTTAA-AATATAA
1 T-ATTAATATTTATAATAATATAA
486270 TAT
1 TAT
486273 AACACTATTA
Statistics
Matches: 146, Mismatches: 20, Indels: 49
0.68 0.09 0.23
Matches are distributed among these distances:
20 4 0.03
21 8 0.05
22 24 0.16
23 51 0.35
24 32 0.22
25 10 0.07
26 3 0.02
27 2 0.01
28 12 0.08
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (23 bp):
TATTAATATTTATAATAATATAA
Found at i:486097 original size:31 final size:31
Alignment explanation
Indices: 486052--486165 Score: 91
Period size: 31 Copynumber: 3.8 Consensus size: 31
486042 AAATATTATT
486052 TATTTATTTATTAATATT-TATAATAATATAA
1 TATTTATTTATTAATATTATATAA-AATATAA
486083 TATTATATTT-TTAATATTATAT-AAA-ATAA
1 TATT-TATTTATTAATATTATATAAAATATAA
* * * *
486112 TCAATTATATAATAATA--ATATAAGATATTATA
1 T-ATTTATTTATTAATATTATATAAAATA-TA-A
486144 TATTTA-TT-TTAATATTATATAA
1 TATTTATTTATTAATATTATATAA
486166 TAAAAATCTT
Statistics
Matches: 66, Mismatches: 7, Indels: 20
0.71 0.08 0.22
Matches are distributed among these distances:
28 4 0.06
29 16 0.24
30 11 0.17
31 25 0.38
32 10 0.15
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (31 bp):
TATTTATTTATTAATATTATATAAAATATAA
Found at i:486179 original size:59 final size:64
Alignment explanation
Indices: 486082--486213 Score: 159
Period size: 59 Copynumber: 2.1 Consensus size: 64
486072 TAATAATATA
*
486082 ATATTATATTTTTAATATTATATAAAATAATCAATTATATA-ATAATAAT-ATAAGA-TA-TTAT
1 ATATT-TATTTTTAATATTATATAAAAAAATCAATTATATATATAATAATAATAAGATTATTTAT
* * *
486143 ATATTTA-TTTTAATATTATATAATAAAAATC-TTTATATATTTAATAATGAATAATATTATTTA
1 ATATTTATTTTTAATATTATATAA-AAAAATCAATTATATATATAATAAT-AATAAGATTATTTA
486206 T
64 T
486207 ATATTTA
1 ATATTTA
486214 AATAATATTT
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
59 23 0.38
60 15 0.25
61 5 0.08
62 5 0.08
63 2 0.03
64 11 0.18
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (64 bp):
ATATTTATTTTTAATATTATATAAAAAAATCAATTATATATATAATAATAATAAGATTATTTAT
Found at i:486195 original size:28 final size:29
Alignment explanation
Indices: 486164--486219 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
486154 AATATTATAT
*
486164 AATAAAAATCTTTATATATTT-AATAATG
1 AATAAAAATATTTATATATTTAAATAATG
* *
486192 AATAATATTATTTATATATTTAAATAAT
1 AATAAAAATATTTATATATTTAAATAAT
486220 ATTTTAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (29 bp):
AATAAAAATATTTATATATTTAAATAATG
Found at i:486199 original size:19 final size:19
Alignment explanation
Indices: 486177--486229 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
486167 AAAAATCTTT
*
486177 ATATATTTAATAATGAATA
1 ATATATTTAATAATAAATA
*
486196 ATATTATTTATATATTTAAATA
1 ATA-TATTTA-ATA-ATAAATA
486218 ATAT-TTTAATAA
1 ATATATTTAATAA
486230 AGATATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 6 0.21
20 10 0.36
21 4 0.14
22 8 0.29
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
ATATATTTAATAATAAATA
Found at i:486201 original size:60 final size:57
Alignment explanation
Indices: 486070--486217 Score: 145
Period size: 60 Copynumber: 2.5 Consensus size: 57
486060 TATTAATATT
* *
486070 TATAATAATATAATATTATATTTTTAATATTATATAAAATAATCAATTATATAATAATAA
1 TATAATATTAT-ATATT-TA-TTTTAATATTATATAAAAAAATCAATTATATAATAATAA
* *
486130 TATAAGATATTATATATTTATTTTAATATTATATAATAAAAATC-TTTATATATTTAATAA
1 TAT-A-ATATTATATATTTATTTTAATATTATATAA-AAAAATCAATTATATA-ATAATAA
* * *
486190 TGAATAATATTATTTATATATTTAAATA
1 T--ATAATATTATATATTTATTTTAATA
486218 ATATTTTAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
59 23 0.31
60 37 0.49
61 7 0.09
62 8 0.11
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (57 bp):
TATAATATTATATATTTATTTTAATATTATATAAAAAAATCAATTATATAATAATAA
Found at i:486632 original size:14 final size:14
Alignment explanation
Indices: 486613--486655 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
486603 CCAGAAATGT
486613 AATTCATTTTCCAG
1 AATTCATTTTCCAG
** *
486627 AATTCAAATTCCAAT
1 AATTCATTTTCC-AG
486642 AATTCATTTTCCAG
1 AATTCATTTTCCAG
486656 TTCCAGTAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.40
Consensus pattern (14 bp):
AATTCATTTTCCAG
Found at i:486636 original size:20 final size:20
Alignment explanation
Indices: 486599--486637 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
486589 CCGGAAAACG
**
486599 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATCAAATTCA
*
486619 TTTTCCAGAATTCAAATTC
1 TTTTCCAGAAATCAAATTC
486638 CAATAATTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (20 bp):
TTTTCCAGAAATCAAATTCA
Found at i:486653 original size:15 final size:15
Alignment explanation
Indices: 486612--486654 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
486602 TCCAGAAATG
486612 TAATTCATTTTCC-A
1 TAATTCATTTTCCAA
* **
486626 GAATTCAAATTCCAA
1 TAATTCATTTTCCAA
486641 TAATTCATTTTCCA
1 TAATTCATTTTCCA
486655 GTTCCAGTAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.35, C:0.21, G:0.02, T:0.42
Consensus pattern (15 bp):
TAATTCATTTTCCAA
Found at i:489664 original size:18 final size:18
Alignment explanation
Indices: 489603--489678 Score: 59
Period size: 18 Copynumber: 4.3 Consensus size: 18
489593 CTTAAATATA
* *
489603 TAATTTAATATTCAAATTT
1 TAATTAAATATT-TAATTT
*
489622 GAATTTAAATATTT--TTT
1 TAA-TTAAATATTTAATTT
* * *
489639 T-ATGAAATTTTTTATTT
1 TAATTAAATATTTAATTT
489656 TAATTAAATATTTAATTT
1 TAATTAAATATTTAATTT
489674 TAATT
1 TAATT
489679 TTTTAATCAA
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
15 8 0.18
16 1 0.02
17 7 0.16
18 18 0.41
19 2 0.05
20 8 0.18
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (18 bp):
TAATTAAATATTTAATTT
Found at i:491879 original size:3 final size:3
Alignment explanation
Indices: 491873--491910 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
491863 TTAAAACAAC
491873 AAT AAT ACAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
491911 GTGTCAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:493304 original size:15 final size:15
Alignment explanation
Indices: 493247--493305 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
493237 AAATGAGGGA
493247 AAGATGAAACAAGA-
1 AAGATGAAACAAGAG
*
493261 AA-ATGAGATCAAG-G
1 AAGATGA-AACAAGAG
493275 AAGATGAAA-AGAGAG
1 AAGATGAAACA-AGAG
493290 AAGATGAAACAAGAG
1 AAGATGAAACAAGAG
493305 A
1 A
493306 TACCTGAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
13 5 0.14
14 12 0.32
15 19 0.51
16 1 0.03
ACGTcount: A:0.59, C:0.05, G:0.27, T:0.08
Consensus pattern (15 bp):
AAGATGAAACAAGAG
Found at i:493613 original size:42 final size:40
Alignment explanation
Indices: 493520--493627 Score: 146
Period size: 42 Copynumber: 2.7 Consensus size: 40
493510 CCTGAAATTT
* * *
493520 CGTGTTTGTTTCATGTAATTC-ATTTTGGAAAATATTTTC
1 CGTGTTTGTTTCACGTAATTCGTTTTTGAAAAATATTTTC
* *
493559 CGTGTTTATTTCACGTAATTCGTTTTCTGAAAAATGTTTTCC
1 CGTGTTTGTTTCACGTAATTCGTTTT-TGAAAAATATTTT-C
493601 CGTGTTTGTTTCACGTAATTCGTTTTT
1 CGTGTTTGTTTCACGTAATTCGTTTTT
493628 CGGAACGTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
39 19 0.32
40 3 0.05
41 12 0.20
42 26 0.43
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.51
Consensus pattern (40 bp):
CGTGTTTGTTTCACGTAATTCGTTTTTGAAAAATATTTTC
Found at i:493796 original size:24 final size:23
Alignment explanation
Indices: 493766--493857 Score: 66
Period size: 24 Copynumber: 3.9 Consensus size: 23
493756 TTATTTTATG
493766 AATATAATATTAATAAAATATTTT
1 AATATAATATT-ATAAAATATTTT
*
493790 AATATAATTTTCATCAAAATATTAATT
1 AATATAATATT-AT-AAAATATT--TT
* *
493817 ATTAAAATATT-TAAAATA-TTT
1 AATATAATATTATAAAATATTTT
493838 -AT-TAATATTTATAATAATAT
1 AATATAATA-TTATAA-AATAT
493858 AAATATTATA
Statistics
Matches: 54, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
19 4 0.07
20 3 0.06
21 5 0.09
22 4 0.07
23 1 0.02
24 18 0.33
25 9 0.17
27 10 0.19
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
AATATAATATTATAAAATATTTT
Found at i:493861 original size:28 final size:27
Alignment explanation
Indices: 493830--493986 Score: 98
Period size: 28 Copynumber: 5.7 Consensus size: 27
493820 AAAATATTTA
493830 AAATATTTATTAATATTTATAATAATAT
1 AAATATTTATT-ATATTTATAATAATAT
* *
493858 AAATATTATATTTTTAGTT-TAATAATAT
1 AAATATT-TA-TTATATTTATAATAATAT
493886 -AATCA---ATTATA-TTATAATAATAT
1 AAAT-ATTTATTATATTTATAATAATAT
*
493909 AAGATATTATATTTTATTT-TAATAATAT
1 AA-ATATT-TATTATATTTATAATAATAT
*
493937 ATAATAATTTTTTATATATT-TAATAATGAAT
1 A-AAT-ATTTATTATAT-TTATAATAAT--AT
493968 AATATTATTTA-TATATTTA
1 AA-A-TATTTATTATATTTA
493987 AAACATATAC
Statistics
Matches: 103, Mismatches: 7, Indels: 36
0.71 0.05 0.25
Matches are distributed among these distances:
22 2 0.02
23 13 0.13
24 3 0.03
25 2 0.02
27 3 0.03
28 40 0.39
29 23 0.22
30 8 0.08
31 8 0.08
32 1 0.01
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.52
Consensus pattern (27 bp):
AAATATTTATTATATTTATAATAATAT
Found at i:493869 original size:23 final size:23
Alignment explanation
Indices: 493837--493922 Score: 77
Period size: 23 Copynumber: 3.4 Consensus size: 23
493827 TTAAAATATT
493837 TATTAATATTTATAATAATATAAA
1 TATT-ATATTTATAATAATATAAA
493861 TATTATATTTTTAGTTTAATAATAT-AA
1 TATTATA--TTTA---TAATAATATAAA
493888 TCAATTATA-TTATAATAATATAAGA
1 T--ATTATATTTATAATAATATAA-A
493913 TATTATATTT
1 TATTATATTT
493923 TATTTTAATA
Statistics
Matches: 52, Mismatches: 0, Indels: 20
0.72 0.00 0.28
Matches are distributed among these distances:
23 18 0.35
24 7 0.13
25 6 0.12
26 3 0.06
27 3 0.06
28 9 0.17
29 6 0.12
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (23 bp):
TATTATATTTATAATAATATAAA
Found at i:493987 original size:28 final size:28
Alignment explanation
Indices: 493893--493995 Score: 106
Period size: 28 Copynumber: 3.6 Consensus size: 28
493883 TATAATCAAT
*
493893 TATATTATAATAATATA-AGATATTATATTT
1 TATATT-TAATAATATATA-ATATTAT-TTA
*
493923 TAT-TTTAATAATATATAATAATTTTTTA
1 TATATTTAATAATATATAAT-ATTATTTA
493951 TATATTTAATAATGA-ATAATATTATTTA
1 TATATTTAATAAT-ATATAATATTATTTA
*
493979 TATATTTAA-AACATATA
1 TATATTTAATAATATATA
493996 CTAGTAAAGA
Statistics
Matches: 64, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
26 1 0.02
27 5 0.08
28 33 0.52
29 21 0.33
30 4 0.06
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (28 bp):
TATATTTAATAATATATAATATTATTTA
Found at i:494021 original size:23 final size:23
Alignment explanation
Indices: 493980--494041 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
493970 TATTATTTAT
*
493980 ATATTTAAAACATATACTAGTAAAG
1 ATATTT-AAA-ATATACTAATAAAG
* *
494005 ATATTTAAAATATACTAATTAAT
1 ATATTTAAAATATACTAATAAAG
*
494028 ATTTTTAAAATATA
1 ATATTTAAAATATA
494042 ATATAACACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 24 0.73
24 3 0.09
25 6 0.18
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (23 bp):
ATATTTAAAATATACTAATAAAG
Found at i:494348 original size:20 final size:20
Alignment explanation
Indices: 494320--494367 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
494310 TTTCCAGATG
494320 TTTTCCAGAAATGTAATTAA
1 TTTTCCAGAAATGTAATTAA
* *
494340 TTTTTCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTAA
494360 TTTTCCAG
1 TTTTCCAG
494368 TAATTCAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.44
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTAA
Found at i:494372 original size:15 final size:15
Alignment explanation
Indices: 494352--494411 Score: 50
Period size: 15 Copynumber: 4.0 Consensus size: 15
494342 TTTCAGAAAT
*
494352 GTAATTCATTTTCCA
1 GTAATTCAATTTCCA
494367 GTAATTCAAATTT-CA
1 GTAATTC-AATTTCCA
* * *
494382 ATAATTCAAATTCTA
1 GTAATTCAATTTCCA
* *
494397 TTAATTCATTTTCCA
1 GTAATTCAATTTCCA
494412 AAAAACTAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
14 4 0.11
15 27 0.77
16 4 0.11
ACGTcount: A:0.35, C:0.17, G:0.03, T:0.45
Consensus pattern (15 bp):
GTAATTCAATTTCCA
Found at i:498707 original size:18 final size:18
Alignment explanation
Indices: 498669--498706 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
498659 GACAATCACC
*
498669 TTTAGTTTCTGCCTCTCT
1 TTTAGTTCCTGCCTCTCT
*
498687 TTTAGTTCCTTCCTCT-T
1 TTTAGTTCCTGCCTCTCT
498704 TTT
1 TTT
498707 TGCATACAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.05, C:0.26, G:0.08, T:0.61
Consensus pattern (18 bp):
TTTAGTTCCTGCCTCTCT
Found at i:505056 original size:17 final size:18
Alignment explanation
Indices: 505036--505078 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
505026 ACAAAATACA
*
505036 ACATTCTCA-GTAATCTT
1 ACATTCCCACGTAATCTT
505053 ACATTCCCACTGGTAATCTT
1 ACATTCCCAC--GTAATCTT
505073 ACATTC
1 ACATTC
505079 AGTGAACCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 8 0.36
20 14 0.64
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.37
Consensus pattern (18 bp):
ACATTCCCACGTAATCTT
Found at i:507186 original size:23 final size:23
Alignment explanation
Indices: 507156--507214 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
507146 CATATAAATA
*
507156 CACCGAAGTGCCACGTAGAATTG
1 CACCGAAGTGCCACATAGAATTG
* *
507179 CACCGAAGTGCCGCATAGAATTT
1 CACCGAAGTGCCACATAGAATTG
507202 CACCGAAGTGCCA
1 CACCGAAGTGCCA
507215 TATAAAATGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.17
Consensus pattern (23 bp):
CACCGAAGTGCCACATAGAATTG
Found at i:513893 original size:34 final size:34
Alignment explanation
Indices: 513850--513917 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
513840 TATAAACTAT
*
513850 TGGCTACCATTAACGAACAAGCGAGTCAACTCAC
1 TGGCTACCATTAACGAACAAACGAGTCAACTCAC
513884 TGGCTACCATTAACGAACAAACGAGTCAACTCAC
1 TGGCTACCATTAACGAACAAACGAGTCAACTCAC
513918 ATGCTTTGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.37, C:0.29, G:0.16, T:0.18
Consensus pattern (34 bp):
TGGCTACCATTAACGAACAAACGAGTCAACTCAC
Found at i:518356 original size:2 final size:2
Alignment explanation
Indices: 518349--518376 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
518339 TGAGTAAAAT
518349 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
518377 CAAACATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:520310 original size:28 final size:29
Alignment explanation
Indices: 520256--520311 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
520246 TTTGAAAATG
* * *
520256 GGTGTTACTTTAGAAAATATTGGAAAAAC
1 GGTGTTACATCAGAAAATATTAGAAAAAC
520285 GGTGTTACATCAG-AAATATTAGAAAAA
1 GGTGTTACATCAGAAAATATTAGAAAAA
520312 GAGGGTGATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.29
Consensus pattern (29 bp):
GGTGTTACATCAGAAAATATTAGAAAAAC
Found at i:542668 original size:21 final size:21
Alignment explanation
Indices: 542643--542683 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
542633 AAATGTTAAA
*
542643 AAATATTAATATTTTAGGTAT
1 AAATAATAATATTTTAGGTAT
*
542664 AAATAATAATGTTTTAGGTA
1 AAATAATAATATTTTAGGTA
542684 ATTTTTTACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (21 bp):
AAATAATAATATTTTAGGTAT
Found at i:542830 original size:15 final size:17
Alignment explanation
Indices: 542810--542842 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
542800 ACTTTAGGTT
542810 TTCTA-TTT-ATTTTTA
1 TTCTATTTTAATTTTTA
542825 TTCTATTTTAATTTTTA
1 TTCTATTTTAATTTTTA
542842 T
1 T
542843 CTGTTGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 3 0.19
17 8 0.50
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TTCTATTTTAATTTTTA
Found at i:543307 original size:186 final size:185
Alignment explanation
Indices: 543085--543462 Score: 623
Period size: 186 Copynumber: 2.0 Consensus size: 185
543075 ATAAAAAATA
* *
543085 AATATTTTATAATTCAAAAAAACAGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAA
1 AATATTTTATAATTCAAAAAAACAATTTACAATTAATTTAAATAATATATAATTATAAAATAAAA
* * *
543150 ATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAATTATTGGATCTTAAATT
66 AATTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAATTATTAGATCTTAAATT
* *
543215 ATTAATTTGGTTTTAAATGGTTTAAG-TTGAGCTCATATGTTATATATAATATATTT
131 ATTAA-TTGGTTTTAAATAGTTTAAGCTT-AGCCCATATGTTATATATAATATATTT
* * *
543271 AATATTTTTTAATTCAGAAAAATAATTTACAATTAATTTAAATAATATATAATTATAAAATAAAA
1 AATATTTTATAATTCAAAAAAACAATTTACAATTAATTTAAATAATATATAATTATAAAATAAAA
543336 AATTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAATTATTAGATCTTAAATT
66 AATTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAATTATTAGATCTTAAATT
**
543401 ATTAATTGGTTTTAAATAGTTTGGGCTTAGCCCATATGTTATATATAATATATTT
131 ATTAATTGGTTTTAAATAGTTTAAGCTTAGCCCATATGTTATATATAATATATTT
543456 AATATTT
1 AATATTT
543463 AAAATTTTAT
Statistics
Matches: 179, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
185 50 0.28
186 129 0.72
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.46
Consensus pattern (185 bp):
AATATTTTATAATTCAAAAAAACAATTTACAATTAATTTAAATAATATATAATTATAAAATAAAA
AATTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAATTATTAGATCTTAAATT
ATTAATTGGTTTTAAATAGTTTAAGCTTAGCCCATATGTTATATATAATATATTT
Found at i:544915 original size:22 final size:23
Alignment explanation
Indices: 544856--544914 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
544846 ATTAAACAAG
*
544856 TATTAATATATTTTAAAAAATAA
1 TATTAAAATATTTTAAAAAATAA
*
544879 TATTAAAATATTTTAAAAATTAGA
1 TATTAAAATATTTTAAAAAATA-A
*
544903 T-TTATAATATTT
1 TATTAAAATATTT
544915 ATTTATAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 30 0.94
24 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TATTAAAATATTTTAAAAAATAA
Found at i:549287 original size:37 final size:38
Alignment explanation
Indices: 549224--549295 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
549214 TATATTATAT
549224 TTAAACATGTTATCAATCAGAGTTGAAATTTTAAAATC
1 TTAAACATGTTATCAATCAGAGTTGAAATTTTAAAATC
* *
549262 TTAAA-ATGTTATCGAGT-AGATTTGAAATTTTAAA
1 TTAAACATGTTATC-AATCAGAGTTGAAATTTTAAA
549296 TTAAATAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
37 24 0.77
38 7 0.23
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (38 bp):
TTAAACATGTTATCAATCAGAGTTGAAATTTTAAAATC
Found at i:550652 original size:7 final size:6
Alignment explanation
Indices: 550632--550661 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
550622 ATGTGATTAA
550632 TTTATT TTTATT TTTATTT TTTATT TTTAT
1 TTTATT TTTATT TTTA-TT TTTATT TTTAT
550662 ACTTTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:550652 original size:13 final size:13
Alignment explanation
Indices: 550632--550661 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
550622 ATGTGATTAA
550632 TTTA-TTTTTATT
1 TTTATTTTTTATT
550644 TTTATTTTTTATT
1 TTTATTTTTTATT
550657 TTTAT
1 TTTAT
550662 ACTTTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:555799 original size:15 final size:15
Alignment explanation
Indices: 555779--555812 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
555769 CTGGTAATGG
* *
555779 ATCTTCTTGTCAATT
1 ATCTTCTTCTCAACT
555794 ATCTTCTTCTCAACT
1 ATCTTCTTCTCAACT
555809 ATCT
1 ATCT
555813 ACTCCATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.26, G:0.03, T:0.50
Consensus pattern (15 bp):
ATCTTCTTCTCAACT
Found at i:559236 original size:42 final size:42
Alignment explanation
Indices: 559177--559296 Score: 204
Period size: 42 Copynumber: 2.9 Consensus size: 42
559167 TTTCCCCGAA
* * *
559177 TTCCCGTGTTTGTTTCACGTAATTCATTTTCTGGAAAATATT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACATT
*
559219 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACATT
559261 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
559297 TGTAATTCAT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.45
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACATT
Found at i:559532 original size:22 final size:23
Alignment explanation
Indices: 559485--559545 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 23
559475 TAATTATTAA
* *
559485 AATATTTAAAAT-ATAT-TTATT
1 AATATTTATAATAATATAATATT
559506 AATATTTATAATAATATAATATT
1 AATATTTATAATAATATAATATT
* *
559529 -ATATTTTTAATATTATA
1 AATATTTATAATAATATA
559546 TAAAATAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 11 0.32
22 19 0.56
23 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATATTTATAATAATATAATATT
Found at i:559608 original size:54 final size:52
Alignment explanation
Indices: 559511--559613 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 52
559501 TTATTAATAT
*
559511 TTATAATAATATAATATTATATTTTTAATATTATATAAAATAATCAATTATA
1 TTATAATAATATAATATTATATTTTTAATATTATATAAAATAATAAATTATA
*
559563 TTATAATAATATAAGATATTATATTTTT-ATTTTA-ATAATATATAATAAATT
1 TTATAATAATAT-A-ATATTATATTTTTAATATTATATAA-A-ATAATAAATT
559614 TTTTTTATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
52 16 0.36
53 7 0.16
54 22 0.49
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (52 bp):
TTATAATAATATAATATTATATTTTTAATATTATATAAAATAATAAATTATA
Found at i:559629 original size:30 final size:28
Alignment explanation
Indices: 559558--559662 Score: 99
Period size: 30 Copynumber: 3.6 Consensus size: 28
559548 AAATAATCAA
559558 TTATATTATAATAATATA-AGATATTATATT
1 TTATATT-TAATAATATATA-ATATTAT-TT
*
559588 TT-TATTTTAATAATATATAATAAATTTTTT
1 TTATA-TTTAATAATATATAAT--ATTATTT
559618 TTATATTTAATAATGA-ATAATATTATTT
1 TTATATTTAATAAT-ATATAATATTATTT
*
559646 ATATATTTCAATAATAT
1 TTATATTT-AATAATAT
559663 TTTAGTAAAG
Statistics
Matches: 64, Mismatches: 3, Indels: 17
0.76 0.04 0.20
Matches are distributed among these distances:
28 14 0.22
29 20 0.31
30 23 0.36
31 7 0.11
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (28 bp):
TTATATTTAATAATATATAATATTATTT
Found at i:559926 original size:20 final size:20
Alignment explanation
Indices: 559828--559917 Score: 162
Period size: 20 Copynumber: 4.5 Consensus size: 20
559818 TTTCCAGATG
559828 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
559848 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
559868 TTTTACAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
559888 TTTTACAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
559908 TTTTCCAGAA
1 TTTTCCAGAA
559918 TTTAAATTCC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:559933 original size:29 final size:30
Alignment explanation
Indices: 559900--559970 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
559890 TTACAGAAAT
*
559900 GTAATTCATTTTCCAG-AATTTAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
559929 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
559959 GTAATTCATTTT
1 GTAATTCATTTT
559971 TTGGAAAACC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 16 0.40
30 24 0.60
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.44
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:559942 original size:15 final size:15
Alignment explanation
Indices: 559900--559970 Score: 90
Period size: 15 Copynumber: 4.8 Consensus size: 15
559890 TTACAGAAAT
559900 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
* **
559915 G-AATTTAAATTCCA
1 GTAATTCATTTTCCA
559929 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
**
559944 GTAATTCAAATTCCA
1 GTAATTCATTTTCCA
559959 GTAATTCATTTT
1 GTAATTCATTTT
559971 TTGGAAAACC
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
14 11 0.24
15 34 0.76
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.44
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:565945 original size:19 final size:19
Alignment explanation
Indices: 565921--565958 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
565911 TGCTGAAGGC
565921 GAAAGCAAATAATCCTTCA
1 GAAAGCAAATAATCCTTCA
565940 GAAAGCAAATAATCCTTCA
1 GAAAGCAAATAATCCTTCA
565959 TTTCAACATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.21, G:0.11, T:0.21
Consensus pattern (19 bp):
GAAAGCAAATAATCCTTCA
Found at i:570018 original size:13 final size:13
Alignment explanation
Indices: 570000--570024 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
569990 AGAATTACGA
570000 TTTAGAGTTTAAG
1 TTTAGAGTTTAAG
570013 TTTAGAGTTTAA
1 TTTAGAGTTTAA
570025 CAAATATGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TTTAGAGTTTAAG
Found at i:590075 original size:99 final size:99
Alignment explanation
Indices: 589969--590169 Score: 393
Period size: 99 Copynumber: 2.0 Consensus size: 99
589959 CTAATGATCC
589969 AGGAAATATAGAATTTCATATAATAGAGATTTTTTGCTGTCATTGAGTGAACTTGATGTTTGCAA
1 AGGAAATATAGAATTTCATATAATAGAGATTTTTTGCTGTCATTGAGTGAACTTGATGTTTGCAA
590034 AAAGTTACCCCCGGGAATTGATAAATCAATTTTG
66 AAAGTTACCCCCGGGAATTGATAAATCAATTTTG
*
590068 AGGAAATATAGAATTTCATATAGTAGAGATTTTTTGCTGTCATTGAGTGAACTTGATGTTTGCAA
1 AGGAAATATAGAATTTCATATAATAGAGATTTTTTGCTGTCATTGAGTGAACTTGATGTTTGCAA
590133 AAAGTTACCCCCGGGAATTGATAAATCAATTTTG
66 AAAGTTACCCCCGGGAATTGATAAATCAATTTTG
590167 AGG
1 AGG
590170 TGAGATTCTT
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 101 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (99 bp):
AGGAAATATAGAATTTCATATAATAGAGATTTTTTGCTGTCATTGAGTGAACTTGATGTTTGCAA
AAAGTTACCCCCGGGAATTGATAAATCAATTTTG
Found at i:593074 original size:18 final size:18
Alignment explanation
Indices: 593048--593082 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
593038 ACACCAAATT
593048 TCAAGAATACTTTTAATC
1 TCAAGAATACTTTTAATC
*
593066 TCAATAATACTTTTAAT
1 TCAAGAATACTTTTAAT
593083 AGACAATACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.14, G:0.03, T:0.43
Consensus pattern (18 bp):
TCAAGAATACTTTTAATC
Found at i:599309 original size:17 final size:18
Alignment explanation
Indices: 599263--599309 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
599253 TGTTTTTGAG
*
599263 GGAATTCGAATCTGTGAA
1 GGAATTAGAATCTGTGAA
* *
599281 GGAATTATAATCTGT-CA
1 GGAATTAGAATCTGTGAA
*
599298 GGAATTGGAATC
1 GGAATTAGAATC
599310 CAATTTCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.30
Consensus pattern (18 bp):
GGAATTAGAATCTGTGAA
Found at i:600068 original size:226 final size:222
Alignment explanation
Indices: 599667--600190 Score: 718
Period size: 226 Copynumber: 2.3 Consensus size: 222
599657 TTTCACCTGA
* *
599667 CCGACCAGAATATATAAATTAGAAA-CTCGACCCGACCCGAAATAATAAAAAAATATTTTTATTC
1 CCGACCCGAATATATGAATTAGAAATC-CGACCCGACCCGAAATAATAAAAAAATATTTTTATTC
* *
599731 AATAAAAACATTGACTTAATTGGAAAAAAATTATATACAGAGGGGTATTATTGTAATTATTCCTA
65 AATAAAAACAATGACTTAATTGGAAAAAAATTATATACAGAGGGGTATTATTATAATTATTCCTA
*
599796 AATATATAAGGTAAAATTATATATTTTATGGGTCGGGTCGGGTATTTTTCACCCTAAACCCGAAC
130 AATATATAAGGTAAAATTATATATTTTACGGGTCGGGTCGGGTATTTTTCACCCTAAACCCGAAC
* *
599861 CCAACCCGAATATCGCACTTAAAA-AAACCGATT
195 CCAACCCG-A-ACCG-AC-CAAAATAAA--GATT
*
599894 -CGACCCGAATATATGAATTAGAAATCCGACCTGACCCGAAATAATAAAAAAATTATTTTTATTC
1 CCGACCCGAATATATGAATTAGAAATCCGACCCGACCCGAAATAATAAAAAAA-TATTTTTATTC
*
599958 AATAAAAACAATGACTTAATT-GAAAAAAATTATATATAGAGGGGTATTATTATAATTATTCCTA
65 AATAAAAACAATGACTTAATTGGAAAAAAATTATATACAGAGGGGTATTATTATAATTATTCCTA
600022 AATATATAAGGTAAAATTATATATATATT-CGGGTCGGGTC-GGTATTTTTCACCCTAAACCCGA
130 AATATATAAGGTAAAATTATATAT-T-TTACGGGTCGGGTCGGGTATTTTTCACCCTAAACCCGA
* * * * *
600085 ACTCGACTCGACCCGACCAAAATAAAGTTT
193 ACCCAACCCGAACCGACCAAAATAAAGATT
600115 CACCGACCCGAATATATGAATTAGAAATCCGACCCGACCCAACCCGAAATAATAAAAAAAATATT
1 --CCGACCCGAATATATGAATTAGAAATCCGACCCG-----ACCCGAAATAAT-AAAAAAATATT
600180 TTTATTCAATA
58 TTTATTCAATA
600191 TATGAATAAG
Statistics
Matches: 268, Mismatches: 15, Indels: 26
0.87 0.05 0.08
Matches are distributed among these distances:
221 3 0.01
222 4 0.01
223 5 0.02
224 34 0.13
225 1 0.00
226 142 0.53
227 43 0.16
228 2 0.01
229 27 0.10
230 7 0.03
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (222 bp):
CCGACCCGAATATATGAATTAGAAATCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTCA
ATAAAAACAATGACTTAATTGGAAAAAAATTATATACAGAGGGGTATTATTATAATTATTCCTAA
ATATATAAGGTAAAATTATATATTTTACGGGTCGGGTCGGGTATTTTTCACCCTAAACCCGAACC
CAACCCGAACCGACCAAAATAAAGATT
Found at i:601473 original size:12 final size:12
Alignment explanation
Indices: 601456--601486 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
601446 TAATGTTATA
601456 ATAATATAAATT
1 ATAATATAAATT
601468 ATAATATAAATT
1 ATAATATAAATT
601480 A-AATATA
1 ATAATATA
601487 GTTTACTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATAATATAAATT
Found at i:602140 original size:4 final size:4
Alignment explanation
Indices: 602131--602157 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
602121 AAGCAAAACA
602131 AGAT AGAT AGAT AGAT AGAT AGAT AGA
1 AGAT AGAT AGAT AGAT AGAT AGAT AGA
602158 AAGCGGGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.26, T:0.22
Consensus pattern (4 bp):
AGAT
Found at i:615098 original size:21 final size:21
Alignment explanation
Indices: 615074--615117 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
615064 ATTTTTTTAA
* *
615074 TAAAACTGACAATTTTTATTT
1 TAAAAATGACAATTTATATTT
*
615095 TAAAAATGATAATTTATATTT
1 TAAAAATGACAATTTATATTT
615116 TA
1 TA
615118 CTTTAGTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (21 bp):
TAAAAATGACAATTTATATTT
Found at i:616671 original size:64 final size:64
Alignment explanation
Indices: 616591--616811 Score: 239
Period size: 64 Copynumber: 3.5 Consensus size: 64
616581 TTGAAGGTGT
** **
616591 ATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCAATTCATG
1 ATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCAATTCATG
616654 C
64 C
* * **
616655 ATCGATGCATAAGTAGTGCATCAATGCATCCCATTAATAATGAAACATCGAATGCAATTGGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCATGC
* ** * * ** *
616719 ATCGATGCATAAGGAGTGCATCGATGCATCCCAGCAATAATAATACATCGAATACCTTTTATGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCATGC
* * *
616783 ACCTATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
616812 ACCTTCATTA
Statistics
Matches: 132, Mismatches: 23, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
64 128 0.97
65 4 0.03
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCATGC
Found at i:617132 original size:12 final size:12
Alignment explanation
Indices: 617114--617149 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
617104 CATATATGTT
617114 CATGTGATATGA
1 CATGTGATATGA
*
617126 TATGTGATATGA
1 CATGTGATATGA
617138 CATGTGATATGA
1 CATGTGATATGA
617150 GAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:617171 original size:23 final size:26
Alignment explanation
Indices: 617114--617182 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
617104 CATATATGTT
**
617114 CATGTGATAT--GATATGTGATATGA
1 CATGTGATATGAGATACATGATATGA
617138 CATGTGATATGAGA-ACATGATATGA
1 CATGTGATATGAGATACATGATATGA
617163 -A-GTGATATGAGATACATGAT
1 CATGTGATATGAGATACATGAT
617183 CACAAGAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 18 0.45
25 9 0.22
26 2 0.05
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.32
Consensus pattern (26 bp):
CATGTGATATGAGATACATGATATGA
Found at i:617317 original size:15 final size:15
Alignment explanation
Indices: 617297--617326 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
617287 GGTATAATAA
617297 TCCTTCGGGATGTAG
1 TCCTTCGGGATGTAG
617312 TCCTTCGGGATGTAG
1 TCCTTCGGGATGTAG
617327 GGGTCCTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.20, G:0.33, T:0.33
Consensus pattern (15 bp):
TCCTTCGGGATGTAG
Found at i:623607 original size:64 final size:64
Alignment explanation
Indices: 623535--623743 Score: 242
Period size: 64 Copynumber: 3.3 Consensus size: 64
623525 CAATGCATTG
** *
623535 GTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCAATTCATGCATCGATGCATA
1 GTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATACAATTCATGCATCGATGCATA
623598 A
64 A
* * **
623599 GTAGTGCATCAATGCATCCCATTAATAATGAAACATCGAATACAATTGGTGCATCGATGCATAA
1 GTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATACAATTCATGCATCGATGCATAA
* ** * ** * * *
623663 GGAGTGCATCGATGCATCCCAGCAATAATAATACATCGAATACCTTTTATGCACCGATGCATCA
1 GTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATACAATTCATGCATCGATGCATAA
623727 GTAGTGCATCGATGCAT
1 GTAGTGCATCGATGCAT
623744 ACCTTCATTA
Statistics
Matches: 123, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
64 119 0.97
65 4 0.03
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (64 bp):
GTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATACAATTCATGCATCGATGCATAA
Found at i:624069 original size:12 final size:12
Alignment explanation
Indices: 624051--624086 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
624041 TATATATGTT
624051 CATGTGATATGA
1 CATGTGATATGA
*
624063 TATGTGATATGA
1 CATGTGATATGA
624075 CATGTGATATGA
1 CATGTGATATGA
624087 GAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:624108 original size:23 final size:26
Alignment explanation
Indices: 624051--624119 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
624041 TATATATGTT
**
624051 CATGTGATAT--GATATGTGATATGA
1 CATGTGATATGAGATACATGATATGA
624075 CATGTGATATGAGA-ACATGATATGA
1 CATGTGATATGAGATACATGATATGA
624100 -A-GTGATATGAGATACATGAT
1 CATGTGATATGAGATACATGAT
624120 CACAAGAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 18 0.45
25 9 0.22
26 2 0.05
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.32
Consensus pattern (26 bp):
CATGTGATATGAGATACATGATATGA
Found at i:624249 original size:15 final size:15
Alignment explanation
Indices: 624231--624263 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
624221 GAGGGTATAA
624231 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
624246 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
624261 TAG
1 TAG
624264 GGGTCCTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.18, G:0.33, T:0.33
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:627572 original size:20 final size:19
Alignment explanation
Indices: 627534--627572 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
627524 TCTGTAAAAT
*
627534 AAAATTATATAAATTTTAA
1 AAAATTATATAAATATTAA
*
627553 AAAATATATATATATATTAA
1 AAAAT-TATATAAATATTAA
627573 GCATAGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATTATATAAATATTAA
Found at i:627757 original size:18 final size:18
Alignment explanation
Indices: 627734--627778 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
627724 CAATATTCCA
*
627734 GTAATCTTATTTCCGCCG
1 GTAATCTTATTCCCGCCG
627752 GTAATCTTATTCCCGCCG
1 GTAATCTTATTCCCGCCG
*
627770 ATAATCTTA
1 GTAATCTTA
627779 CATTCTGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (18 bp):
GTAATCTTATTCCCGCCG
Found at i:628311 original size:24 final size:24
Alignment explanation
Indices: 628250--628329 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 24
628240 TGAACGACCA
* *
628250 GTTTTTTTACCGGATTAAAAACCG
1 GTTTTTTAACCGGATAAAAAACCG
628274 GTTTTTTTCAAACCGGATAAAAAACCG
1 G-TTTTTT--AACCGGATAAAAAACCG
*
628301 GTTTTTTAACC-GA-AAAAATCCG
1 GTTTTTTAACCGGATAAAAAACCG
628323 GTTTTTT
1 GTTTTTT
628330 TTTAAAAACC
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
22 15 0.30
23 2 0.04
24 5 0.10
25 6 0.12
26 6 0.12
27 16 0.32
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (24 bp):
GTTTTTTAACCGGATAAAAAACCG
Found at i:628613 original size:6 final size:6
Alignment explanation
Indices: 628597--628625 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
628587 ATTGAATGGA
628597 CTCGA- CTCGAG CTCGAG CTCGAG CTCGAG
1 CTCGAG CTCGAG CTCGAG CTCGAG CTCGAG
628626 TTCTTAACGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.17, C:0.34, G:0.31, T:0.17
Consensus pattern (6 bp):
CTCGAG
Found at i:629979 original size:17 final size:17
Alignment explanation
Indices: 629941--629979 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
629931 TTCTTTAAAA
*
629941 AAAAATCAAATTTATCT
1 AAAAATCAAATTTAACT
* *
629958 GAAAATTAAATTTAACT
1 AAAAATCAAATTTAACT
629975 AAAAA
1 AAAAA
629980 AACAGTTTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.31
Consensus pattern (17 bp):
AAAAATCAAATTTAACT
Found at i:630217 original size:2 final size:2
Alignment explanation
Indices: 630210--630238 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
630200 ATAGTTTTAG
630210 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
630239 CCCCAACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:643688 original size:36 final size:36
Alignment explanation
Indices: 643637--643706 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
643627 TGAGGGTTAT
643637 AATGATTCTCCTAAATAATATTAAAGGCTAAATTAG
1 AATGATTCTCCTAAATAATATTAAAGGCTAAATTAG
* * * *
643673 AATGATTTTCTTAAATAATTTTAAAGGTTAAATT
1 AATGATTCTCCTAAATAATATTAAAGGCTAAATT
643707 GATGTAAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (36 bp):
AATGATTCTCCTAAATAATATTAAAGGCTAAATTAG
Found at i:656047 original size:13 final size:13
Alignment explanation
Indices: 656029--656062 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
656019 CTTACGAGAG
*
656029 AAAACTAGAAAAT
1 AAAACTAAAAAAT
656042 AAAACTAAAAAAT
1 AAAACTAAAAAAT
*
656055 AAATCTAA
1 AAAACTAA
656063 GAGAATGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.71, C:0.09, G:0.03, T:0.18
Consensus pattern (13 bp):
AAAACTAAAAAAT
Found at i:664476 original size:12 final size:13
Alignment explanation
Indices: 664461--664491 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
664451 TTTAATCTGA
664461 TAATTAAATTA-T
1 TAATTAAATTATT
664473 TAATTAAATTATT
1 TAATTAAATTATT
664486 TAATTA
1 TAATTA
664492 TTTGAATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAATTAAATTATT
Found at i:664542 original size:25 final size:29
Alignment explanation
Indices: 664503--664559 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 29
664493 TTGAATGATA
*
664503 TTAATTAAAATATTAAT-T-ATTA-ACAT
1 TTAATTAAAAAATTAATATAATTATACAT
664529 TTAA-TAAAAAATTAATATAATTATACAT
1 TTAATTAAAAAATTAATATAATTATACAT
664557 TTA
1 TTA
664560 TTTTAGAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 11 0.41
26 5 0.19
27 4 0.15
28 7 0.26
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (29 bp):
TTAATTAAAAAATTAATATAATTATACAT
Found at i:667096 original size:4 final size:4
Alignment explanation
Indices: 667087--667114 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
667077 TTCAACTATG
667087 TATT TATT TATT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT
667115 CATGCACGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:668488 original size:28 final size:28
Alignment explanation
Indices: 668456--668551 Score: 77
Period size: 28 Copynumber: 3.4 Consensus size: 28
668446 CCTCCACCCG
*
668456 AAATTTTTGAAGATGTTCATGTTCGTTT
1 AAATTTTTAAAGATGTTCATGTTCGTTT
* ** *
668484 AAATTTTTAATATAATGTTTGTGTTCATTT
1 AAATTTTTAA-A-GATGTTCATGTTCGTTT
** * *
668514 -GTTTATTTTAAGATGTTCATGTTTGTTT
1 AAATT-TTTAAAGATGTTCATGTTCGTTT
668542 AAATTTTTAA
1 AAATTTTTAA
668552 TATTGTGTTC
Statistics
Matches: 48, Mismatches: 16, Indels: 8
0.67 0.22 0.11
Matches are distributed among these distances:
28 25 0.52
29 6 0.12
30 17 0.35
ACGTcount: A:0.27, C:0.04, G:0.14, T:0.55
Consensus pattern (28 bp):
AAATTTTTAAAGATGTTCATGTTCGTTT
Found at i:669075 original size:19 final size:19
Alignment explanation
Indices: 669051--669087 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
669041 ATGACCAACA
*
669051 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
669070 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
669088 CAGTATTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:669203 original size:20 final size:20
Alignment explanation
Indices: 669113--669204 Score: 87
Period size: 20 Copynumber: 4.6 Consensus size: 20
669103 GTTTCCAGAT
* * *
669113 TCGCAAAGCGATTTTGACTA
1 TCGCAACGCGATTCTGAATA
* * *
669133 TCGCAATGCGAATATGTAA-A
1 TCGCAACGCGATTCTG-AATA
*
669153 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGAATA
*
669173 TCGCAATGCGATTCTGAATA
1 TCGCAACGCGATTCTGAATA
*
669193 TCGTAACGCGAT
1 TCGCAACGCGAT
669205 AATACAAAAT
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
19 1 0.02
20 56 0.97
21 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (20 bp):
TCGCAACGCGATTCTGAATA
Found at i:669395 original size:22 final size:22
Alignment explanation
Indices: 669370--669427 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
669360 TTATGGCGAC
669370 ATCCGTCCCTATCTCCGACGAA
1 ATCCGTCCCTATCTCCGACGAA
* *
669392 ATCCGTCTCC-ATCTACGGCGAA
1 ATCCGTC-CCTATCTCCGACGAA
669414 ATCCGT--CTATCTCC
1 ATCCGTCCCTATCTCC
669428 ATCTCTCAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 1 0.03
20 5 0.16
22 23 0.74
23 2 0.06
ACGTcount: A:0.21, C:0.40, G:0.14, T:0.26
Consensus pattern (22 bp):
ATCCGTCCCTATCTCCGACGAA
Found at i:669823 original size:20 final size:20
Alignment explanation
Indices: 669795--669882 Score: 88
Period size: 20 Copynumber: 4.5 Consensus size: 20
669785 AAAATCGCAA
*
669795 CGATTGTCAAATTCACGTTG
1 CGATAGTCAAATTCACGTTG
** **
669815 CGATAGTCATTTTCGTGTTG
1 CGATAGTCAAATTCACGTTG
** * *
669835 CGATTTTC-ATTTCGCGTTG
1 CGATAGTCAAATTCACGTTG
669854 CGATAGTCAAATTCACGTTG
1 CGATAGTCAAATTCACGTTG
669874 CGATAGTCA
1 CGATAGTCA
669883 TTTTCGTATT
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
19 15 0.28
20 39 0.72
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (20 bp):
CGATAGTCAAATTCACGTTG
Found at i:669884 original size:39 final size:39
Alignment explanation
Indices: 669810--669885 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
669800 GTCAAATTCA
** ** **
669810 CGTTGCGATAGTCATTTTCGTGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCAAATTCACGTTGCGATAGTCATTTCG
669849 CGTTGCGATAGTCAAATTCACGTTGCGATAGTCATTT
1 CGTTGCGATAGTCAAATTCACGTTGCGATAGTCATTT
669886 TCGTATTGCA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.41
Consensus pattern (39 bp):
CGTTGCGATAGTCAAATTCACGTTGCGATAGTCATTTCG
Found at i:669894 original size:20 final size:20
Alignment explanation
Indices: 669810--669888 Score: 97
Period size: 20 Copynumber: 4.0 Consensus size: 20
669800 GTCAAATTCA
669810 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
669830 TGTTGCGATTTTCA-TTTCG
1 CGTTGCGATAGTCATTTTCG
** *
669849 CGTTGCGATAGTCAAATTCA
1 CGTTGCGATAGTCATTTTCG
669869 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
669889 TATTGCAATT
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
19 16 0.34
20 31 0.66
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.41
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:671374 original size:21 final size:21
Alignment explanation
Indices: 671305--671380 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
671295 CATCAGTCAT
* * *
671305 CGTTCAAGAGGCCTCTCCTAT
1 CGTTCAAGAGGCCCCTCCCAC
**
671326 CGTTCAAGAGGCCCCTATCATC
1 CGTTCAAGAGGCCCCTCCCA-C
* *
671348 C-CTCAAGAGTCCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
671368 CGTTCAAGAGGCC
1 CGTTCAAGAGGCC
671381 ATTGTCATCG
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
20 2 0.05
21 39 0.93
22 1 0.02
ACGTcount: A:0.21, C:0.39, G:0.18, T:0.21
Consensus pattern (21 bp):
CGTTCAAGAGGCCCCTCCCAC
Found at i:672826 original size:14 final size:14
Alignment explanation
Indices: 672807--672868 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
672797 TTGCTTGTTT
672807 AATTGATTTGTAAA
1 AATTGATTTGTAAA
672821 AATTGATTTGTAAA
1 AATTGATTTGTAAA
* * *
672835 AGTTGTTTTGTTTAA
1 AATTGATTTG-TAAA
* *
672850 TATTGATGTGTAAA
1 AATTGATTTGTAAA
672864 TAATT
1 -AATT
672869 CTTATTTGTG
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
14 25 0.68
15 12 0.32
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.48
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:673007 original size:20 final size:20
Alignment explanation
Indices: 672967--673020 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
672957 ATGTACACTT
*
672967 TCGCAACGCTAAA-CTCAAAA
1 TCGCAACGCGAAAGC-CAAAA
* *
672987 TCGTAATGCGAAAGCCAAAA
1 TCGCAACGCGAAAGCCAAAA
673007 TCGCAACGCGAAAG
1 TCGCAACGCGAAAG
673021 TCAATTCGCG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.43, C:0.26, G:0.19, T:0.13
Consensus pattern (20 bp):
TCGCAACGCGAAAGCCAAAA
Found at i:673149 original size:94 final size:93
Alignment explanation
Indices: 673014--673193 Score: 236
Period size: 94 Copynumber: 1.9 Consensus size: 93
673004 AAATCGCAAC
* ** * *
673014 GCGAAAGTCAATTCGCGTTGCGATAGTCTAATACATTTTGCAATTTTCT-CGTTGCGATAGTCAA
1 GCGAAAGTCAATTCGCGTTGCGATAGTCAAATACACGTTGCAATTTT-TGAGTTGCGATAATCAA
673078 ATACCCGTTGCGATAATCAAATTCACGTT
65 ATACCCGTTGCGATAATCAAATTCACGTT
* * *
673107 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCAATTTTTGAGTTGCGATAATCAA
1 GCGAAAGTC-AATTCGCGTTGCGATAGTCAAATACACGTTGCAATTTTTGAGTTGCGATAATCAA
* * *
673172 ATTCGCGTTGCGATATTCAAAT
65 ATACCCGTTGCGATAATCAAAT
673194 GAATGTGTAA
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
93 9 0.12
94 65 0.88
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (93 bp):
GCGAAAGTCAATTCGCGTTGCGATAGTCAAATACACGTTGCAATTTTTGAGTTGCGATAATCAAA
TACCCGTTGCGATAATCAAATTCACGTT
Found at i:673183 original size:20 final size:20
Alignment explanation
Indices: 673063--673193 Score: 130
Period size: 20 Copynumber: 6.8 Consensus size: 20
673053 GCAATTTTCT
* * *
673063 CGTTGCGATAGTCAAATACC
1 CGTTGCGATAATCAAATTCG
*
673083 CGTTGCGATAATCAAATTCA
1 CGTTGCGATAATCAAATTCG
*
673103 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAATCAAATTCG
*
673123 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAATCAAATTCG
* *
673143 CGTTGC---AAT---TTTTG
1 CGTTGCGATAATCAAATTCG
*
673157 AGTTGCGATAATCAAATTCG
1 CGTTGCGATAATCAAATTCG
*
673177 CGTTGCGATATTCAAAT
1 CGTTGCGATAATCAAAT
673194 GAATGTGTAA
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
14 8 0.09
17 5 0.05
20 79 0.86
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (20 bp):
CGTTGCGATAATCAAATTCG
Found at i:673420 original size:140 final size:140
Alignment explanation
Indices: 673168--673446 Score: 513
Period size: 140 Copynumber: 2.0 Consensus size: 140
673158 GTTGCGATAA
* *
673168 TCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAATAACTGAACAGATCATAAC
1 TCAAATTCGCGTTGCGATATTCAAATAAATGTGTAATAAGTGATAACAACTGAACAGATCATAAC
*
673233 AATGTTCAAACTCAAGTTACTAATACATGTCTAACTGAAAATGTTAAAAGTTTACACATAAAATA
66 AATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATA
*
673298 CATATAATAG
131 CACATAATAG
673308 TCAAATTCGCGTTGCGATATTCAAATAAATGTGTAATAAGTGATAACAACTGAACAGATCATAAC
1 TCAAATTCGCGTTGCGATATTCAAATAAATGTGTAATAAGTGATAACAACTGAACAGATCATAAC
*
673373 AATGTTCAAACTCATGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATA
66 AATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATA
673438 CACATAATA
131 CACATAATA
673447 CAACGTTTGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 134 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (140 bp):
TCAAATTCGCGTTGCGATATTCAAATAAATGTGTAATAAGTGATAACAACTGAACAGATCATAAC
AATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATA
CACATAATAG
Done.