Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000521.1 Hibiscus syriacus cultivar Beakdansim tig00000999_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: 1347562
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 5
Found at i:676908 original size:13 final size:13
Alignment explanation
Indices: 676892--676916 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
676882 TTATAAAATA
676892 TTTTTTATTTTAT
1 TTTTTTATTTTAT
676905 TTTTTTATTTTA
1 TTTTTTATTTTA
676917 GAAGTACATG
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTATTTTAT
Found at i:680575 original size:19 final size:19
Alignment explanation
Indices: 680551--680617 Score: 125
Period size: 19 Copynumber: 3.5 Consensus size: 19
680541 TCTACAGTTG
680551 TCGTTGCGATTTTTCAAAT
1 TCGTTGCGATTTTTCAAAT
680570 TCGTTGCGATTTTTCAAAT
1 TCGTTGCGATTTTTCAAAT
*
680589 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTTCAAAT
680608 TCGTTGCGAT
1 TCGTTGCGAT
680618 AGTATACAGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 47 1.00
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGTTGCGATTTTTCAAAT
Found at i:680646 original size:41 final size:41
Alignment explanation
Indices: 680502--680661 Score: 177
Period size: 41 Copynumber: 4.0 Consensus size: 41
680492 TCGCGTTGCG
* *
680502 ACAGTTCG-CGTTGCGATTTTCC-AGTTCGCGTTGCGATAGTCT
1 ACAGTT-GTCGTTGCGATTTTCCAAATT--CGTTGCGATAGTAT
* *
680544 ACAGTTGTCGTTGCGATTTTTCAAATTCGTTGCGAT--TTT
1 ACAGTTGTCGTTGCGATTTTCCAAATTCGTTGCGATAGTAT
* **
680583 TCAAAT-TCGTTGCGATTTTCCAAATTCGTTGCGATAGTAT
1 ACAGTTGTCGTTGCGATTTTCCAAATTCGTTGCGATAGTAT
* *
680623 ACAGTTGTTGTTGCGATTTTCCAAATTCGTTGTGATAGT
1 ACAGTTGTCGTTGCGATTTTCCAAATTCGTTGCGATAGT
680662 TAAAAAAAAG
Statistics
Matches: 100, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
38 28 0.28
39 5 0.05
40 5 0.05
41 40 0.40
42 19 0.19
43 3 0.03
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.41
Consensus pattern (41 bp):
ACAGTTGTCGTTGCGATTTTCCAAATTCGTTGCGATAGTAT
Found at i:681230 original size:6 final size:6
Alignment explanation
Indices: 681221--681247 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
681211 CGCCGTCTCG
681221 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
681248 AATACGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:681383 original size:22 final size:22
Alignment explanation
Indices: 681358--681411 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
681348 AATTTGAAAA
681358 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
681380 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
681402 ATCGCAACGA
1 ATCGCAACGA
681412 ATTTGGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.37, C:0.28, G:0.19, T:0.17
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:681426 original size:19 final size:19
Alignment explanation
Indices: 681402--681448 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
681392 ACTGTAGACT
681402 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
681421 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
681440 ATCGCAACG
1 ATCGCAACG
681449 CGAATTTGCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (19 bp):
ATCGCAACGAATTTGGAAA
Found at i:701144 original size:25 final size:24
Alignment explanation
Indices: 701106--701153 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
701096 TGAAAATAAA
*
701106 ATAAAAATTGCATAACATACATAC
1 ATAAAAATTACATAACATACATAC
*
701130 ATAAAAATGTACATACCATACATA
1 ATAAAAAT-TACATAACATACATA
701154 AAATAGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.54, C:0.17, G:0.04, T:0.25
Consensus pattern (24 bp):
ATAAAAATTACATAACATACATAC
Found at i:704602 original size:2 final size:2
Alignment explanation
Indices: 704597--704622 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
704587 TATATACAAT
704597 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
704623 GCTTGATACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:710464 original size:3 final size:3
Alignment explanation
Indices: 710456--710497 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
710446 TGGTTCAGCA
* *
710456 AAT AAT AAT AAT AAT AAT CAT AAT AAT AAT ACT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
710498 CTCTTTACCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:715668 original size:24 final size:24
Alignment explanation
Indices: 715641--715695 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
715631 TCTCTTTGTA
715641 AATAATAATTTATGTGAT-AACTTT
1 AATAAT-ATTTATGTGATAAACTTT
*
715665 AATAAT-TTTATTTGATCAAACTTT
1 AATAATATTTATGTGAT-AAACTTT
*
715689 ATTAATA
1 AATAATA
715696 GAATAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 9 0.35
24 17 0.65
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (24 bp):
AATAATATTTATGTGATAAACTTT
Found at i:716421 original size:18 final size:18
Alignment explanation
Indices: 716398--716434 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
716388 TTTTAAAGAT
716398 AAAAATAAAT-TATCAATA
1 AAAAATAAATATAT-AATA
716416 AAAAATAAATATATAATA
1 AAAAATAAATATATAATA
716434 A
1 A
716435 TTTGAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAAATAAATATATAATA
Found at i:717247 original size:19 final size:20
Alignment explanation
Indices: 717212--717251 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
717202 ATTTAGTTGT
717212 AAAATTATAAATAAATTCAAA
1 AAAATTATAAATAAATT-AAA
717233 AAAATTA-AAAT-AATTAAA
1 AAAATTATAAATAAATTAAA
717251 A
1 A
717252 TTTTGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 4 0.21
20 4 0.21
21 7 0.37
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAATTATAAATAAATTAAA
Found at i:736518 original size:22 final size:22
Alignment explanation
Indices: 736493--736567 Score: 89
Period size: 22 Copynumber: 3.5 Consensus size: 22
736483 AATTTAGAAA
*
736493 ATCGCAACGACAACTATAGACT
1 ATCGCAACGACAACTGTAGACT
** *
736515 ATCGCAACGA-ATTTGTAAACT
1 ATCGCAACGACAACTGTAGACT
* *
736536 CTCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
736558 ATCGCAACGA
1 ATCGCAACGA
736568 ATTTGAAAAA
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 15 0.37
22 26 0.63
ACGTcount: A:0.39, C:0.27, G:0.15, T:0.20
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:736542 original size:21 final size:21
Alignment explanation
Indices: 736512--736586 Score: 73
Period size: 22 Copynumber: 3.6 Consensus size: 21
736502 ACAACTATAG
736512 ACTATCGCAACGAATTTGTAA
1 ACTATCGCAACGAATTTGTAA
* * ** *
736533 ACTCTCGCAACAACAACTGTAG
1 ACTATCGCAACGA-ATTTGTAA
736555 ACTATCGCAACGAATTTG-AA
1 ACTATCGCAACGAATTTGTAA
*
736575 A-AATCGCAACGA
1 ACTATCGCAACGA
736587 CAACTGTAGT
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
19 10 0.24
20 2 0.05
21 14 0.33
22 16 0.38
ACGTcount: A:0.40, C:0.24, G:0.15, T:0.21
Consensus pattern (21 bp):
ACTATCGCAACGAATTTGTAA
Found at i:736594 original size:41 final size:41
Alignment explanation
Indices: 736475--736595 Score: 163
Period size: 43 Copynumber: 2.9 Consensus size: 41
736465 CAACGAATTT
* *
736475 TCGCAATGAATTT-AGAAAATCGCAACGACAACTATAGACTA
1 TCGCAACGAATTTGA-AAAATCGCAACGACAACTGTAGACTA
** *
736516 TCGCAACGAATTTGTAAACTCTCGCAACAACAACTGTAGACTA
1 TCGCAACGAATTTG-AAA-AATCGCAACGACAACTGTAGACTA
736559 TCGCAACGAATTTGAAAAATCGCAACGACAACTGTAG
1 TCGCAACGAATTTGAAAAATCGCAACGACAACTGTAG
736596 TTGAAAATCG
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
41 29 0.42
42 5 0.07
43 35 0.51
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.21
Consensus pattern (41 bp):
TCGCAACGAATTTGAAAAATCGCAACGACAACTGTAGACTA
Found at i:736656 original size:41 final size:41
Alignment explanation
Indices: 736602--736699 Score: 142
Period size: 41 Copynumber: 2.4 Consensus size: 41
736592 GTAGTTGAAA
* ** *
736602 ATCGCAACACGAAATGGAAAATCGCAATGCGATTTTCAACT
1 ATCGCAACGCGAAATAAAAAATCGCAACGCGATTTTCAACT
* *
736643 ATCGCAACGCGAAATAAAAAATTGTAACGCGATTTTCAACT
1 ATCGCAACGCGAAATAAAAAATCGCAACGCGATTTTCAACT
736684 ATCGCAACGCGAAATA
1 ATCGCAACGCGAAATA
736700 CAACGCGAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGAAATAAAAAATCGCAACGCGATTTTCAACT
Found at i:736694 original size:21 final size:21
Alignment explanation
Indices: 736622--736695 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 21
736612 GAAATGGAAA
*
736622 ATCGCAATGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** * **
736643 ATCGCAACGCGA-AATAAAAA
1 ATCGCAACGCGATTTTCAACT
* *
736663 ATTGTAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
736684 ATCGCAACGCGA
1 ATCGCAACGCGA
736696 AATACAACGC
Statistics
Matches: 37, Mismatches: 15, Indels: 2
0.69 0.28 0.04
Matches are distributed among these distances:
20 13 0.35
21 24 0.65
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.24
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:736703 original size:21 final size:21
Alignment explanation
Indices: 736638--736703 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
736628 ATGCGATTTT
736638 CAACTATCGCAACGCGAAATA
1 CAACTATCGCAACGCGAAATA
** * * ** *
736659 -AAAAATTGTAACGCGATTTT
1 CAACTATCGCAACGCGAAATA
736679 CAACTATCGCAACGCGAAATA
1 CAACTATCGCAACGCGAAATA
736700 CAAC
1 CAAC
736704 GCGAATTTGC
Statistics
Matches: 30, Mismatches: 14, Indels: 2
0.65 0.30 0.04
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.42, C:0.24, G:0.14, T:0.20
Consensus pattern (21 bp):
CAACTATCGCAACGCGAAATA
Found at i:744992 original size:2 final size:2
Alignment explanation
Indices: 744985--745022 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
744975 AGACCAAAAG
744985 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
745023 GAATCGGAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:747415 original size:28 final size:27
Alignment explanation
Indices: 747383--747435 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
747373 CAAACAGATA
747383 AATTTATATTTAAAATA-CATTTAAATTT
1 AATTTATA--TAAAATAGCATTTAAATTT
*
747411 AATTTATATAAAATAGTATTTAAAT
1 AATTTATATAAAATAGCATTTAAAT
747436 AAAAATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.30
27 8 0.35
28 8 0.35
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (27 bp):
AATTTATATAAAATAGCATTTAAATTT
Found at i:747808 original size:3 final size:3
Alignment explanation
Indices: 747795--747851 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
747785 TTCCCTTTTC
*
747795 TCT TAT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
747843 TCT TCT TCT
1 TCT TCT TCT
747852 CAGTTTTGTC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:749815 original size:219 final size:225
Alignment explanation
Indices: 749511--749965 Score: 649
Period size: 219 Copynumber: 2.0 Consensus size: 225
749501 AGTATAATAT
* * *
749511 TCGGGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACTCGACCCGACCCGAAAATATAT
1 TCGGGTCGGGTCGAGTTCGAGTTTAGGGTGAAAAAT---C-ACTCGACCCGACCCAAAAAAATAT
*
749576 ATAATTTTACCTTATATATTTATGAATAATTATAATAATAC-CCATCTATATAT-AATTTTTTTC
62 ATAATTTTACCTTATATATTTATGAATAATTACAATAATACTCC-TCTATATATAAATTTTTTT-
* *
749639 CAATTAAGTCATTGTTTTTATTGAATAAAAATA-TTTTTTTATTA-TTTCGG-A-TTGGATTTCT
125 CAATTAAGTCACTGTTTTTATTGAATAAAAATAGTTTTTTTATTATTTTCGGCAGTCGGATTTCT
749700 AATTCATATATTCGGGTCGGGTGAAACATTATTTTAG
190 AATTCATATATTCGGGTC-GGTGAAACATTATTTTAG
*
749737 TCGGGTCGGGTCGTGTTC-AGTTTAGGGTGAAAAAT-ACTCGACCCGA-CCAAAAAAATATATAA
1 TCGGGTCGGGTCGAGTTCGAGTTTAGGGTGAAAAATCACTCGACCCGACCCAAAAAAATATATAA
*
749799 TTTTACCTTTTATATTTATGAATAATTACAATAATACTCCTCTATATATAAATTTTTTTCAATTA
66 TTTTACCTTATATATTTATGAATAATTACAATAATACTCCTCTATATATAAATTTTTTTCAATTA
* *
749864 AGTCACTGTTTTTATTGAATAAAAATAGTTTTTTTATTATTTTGGGTCAGGTCGGGTTTCTAATT
131 AGTCACTGTTTTTATTGAATAAAAATAGTTTTTTTATTATTTTCGG-CA-GTCGGATTTCTAATT
* * *
749929 TATATATTCGGGTCGGTGAAACTTTATTTTGG
194 CATATATTCGGGTCGGTGAAACATTATTTTAG
749961 TCGGG
1 TCGGG
749966 CCAGGTCTCG
Statistics
Matches: 208, Mismatches: 13, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
219 90 0.43
220 33 0.16
221 5 0.02
223 1 0.00
224 21 0.10
225 41 0.20
226 17 0.08
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (225 bp):
TCGGGTCGGGTCGAGTTCGAGTTTAGGGTGAAAAATCACTCGACCCGACCCAAAAAAATATATAA
TTTTACCTTATATATTTATGAATAATTACAATAATACTCCTCTATATATAAATTTTTTTCAATTA
AGTCACTGTTTTTATTGAATAAAAATAGTTTTTTTATTATTTTCGGCAGTCGGATTTCTAATTCA
TATATTCGGGTCGGTGAAACATTATTTTAG
Found at i:753435 original size:16 final size:16
Alignment explanation
Indices: 753414--753446 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
753404 TAAAAAATAA
753414 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
753430 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
753446 A
1 A
753447 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:753527 original size:10 final size:10
Alignment explanation
Indices: 753512--753586 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
753502 CATTTAATAA
753512 ATAAACGAAC
1 ATAAACGAAC
753522 ATAAACGAAC
1 ATAAACGAAC
753532 ----ACGAAC
1 ATAAACGAAC
753538 ATAAACGAAC
1 ATAAACGAAC
** *
753548 ACGAAC-ATAA
1 ATAAACGA-AC
753558 ATGAACACGAAC
1 AT-AA-ACGAAC
753570 ATAAACGAAC
1 ATAAACGAAC
753580 ATAAACG
1 ATAAACG
753587 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:753537 original size:16 final size:16
Alignment explanation
Indices: 753516--753580 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
753506 TAATAAATAA
753516 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
753532 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
753548 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
753564 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
753580 A
1 A
753581 TAAACGTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:754347 original size:14 final size:14
Alignment explanation
Indices: 754330--754384 Score: 64
Period size: 14 Copynumber: 4.2 Consensus size: 14
754320 AATGAACATA
*
754330 AACGAACATAATCG
1 AACGAACATAACCG
754344 AACGAACAT-A---
1 AACGAACATAACCG
*
754354 AACGAACATAACCA
1 AACGAACATAACCG
754368 AACGAACATAACCG
1 AACGAACATAACCG
754382 AAC
1 AAC
754385 ATTCACGAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
10 9 0.25
11 1 0.03
13 1 0.03
14 25 0.69
ACGTcount: A:0.55, C:0.25, G:0.11, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:754350 original size:24 final size:24
Alignment explanation
Indices: 754310--754386 Score: 102
Period size: 24 Copynumber: 3.2 Consensus size: 24
754300 GATTGTGTTA
*
754310 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAACATAAACG
754334 AACATAATCGAACGAACATAAACG
1 AACATAATCGAACGAACATAAACG
* * *
754358 AACATAACCAAACGAACATAACCG
1 AACATAATCGAACGAACATAAACG
754382 AACAT
1 AACAT
754387 TCACGAACGT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
23 3 0.06
24 45 0.94
ACGTcount: A:0.56, C:0.21, G:0.10, T:0.13
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:755748 original size:7 final size:7
Alignment explanation
Indices: 755732--755812 Score: 128
Period size: 7 Copynumber: 11.7 Consensus size: 7
755722 GTTTGAGCTT
755732 CAAT-GG
1 CAATGGG
755738 CAATGGG
1 CAATGGG
755745 CAATGGG
1 CAATGGG
755752 CAATGGG
1 CAATGGG
755759 CAATGGG
1 CAATGGG
755766 CAATGGG
1 CAATGGG
*
755773 CAATGGC
1 CAATGGG
755780 CAATGGG
1 CAATGGG
*
755787 CAATGGC
1 CAATGGG
*
755794 CAATGGC
1 CAATGGG
755801 CAATGGG
1 CAATGGG
755808 CAATG
1 CAATG
755813 AGCCAACAAG
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
6 4 0.06
7 66 0.94
ACGTcount: A:0.30, C:0.19, G:0.37, T:0.15
Consensus pattern (7 bp):
CAATGGG
Found at i:759849 original size:16 final size:16
Alignment explanation
Indices: 759828--759860 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
759818 TAATAAATAG
759828 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
759844 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
759860 A
1 A
759861 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:759942 original size:10 final size:10
Alignment explanation
Indices: 759927--760001 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
759917 CATTTAATAA
759927 ATAAACGAAC
1 ATAAACGAAC
759937 ATAAACGAAC
1 ATAAACGAAC
759947 ----ACGAAC
1 ATAAACGAAC
759953 ATAAACGAAC
1 ATAAACGAAC
** *
759963 ACGAAC-ATAA
1 ATAAACGA-AC
759973 ATGAACACGAAC
1 AT-AA-ACGAAC
759985 ATAAACGAAC
1 ATAAACGAAC
759995 ATAAACG
1 ATAAACG
760002 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:759952 original size:16 final size:16
Alignment explanation
Indices: 759931--759995 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
759921 TAATAAATAA
759931 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
759947 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
759963 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
759979 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
759995 A
1 A
759996 TAAACGTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:760764 original size:14 final size:14
Alignment explanation
Indices: 760747--760802 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
760737 AATGAACATA
760747 AACGAACATAATCG
1 AACGAACATAATCG
760761 AACGAACAT-A---
1 AACGAACATAATCG
* *
760771 AACAAACATAACCG
1 AACGAACATAATCG
760785 AACGAACATAATCG
1 AACGAACATAATCG
760799 AACG
1 AACG
760803 TTCACGAACG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 8 0.23
11 1 0.03
13 1 0.03
14 25 0.71
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.11
Consensus pattern (14 bp):
AACGAACATAATCG
Found at i:760767 original size:24 final size:24
Alignment explanation
Indices: 760727--760801 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
760717 GATTGAGTTA
*
760727 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAACATAAACG
*
760751 AACATAATCGAACGAACATAAACA
1 AACATAATCGAACGAACATAAACG
* *
760775 AACATAACCGAACGAACATAATCG
1 AACATAATCGAACGAACATAAACG
760799 AAC
1 AAC
760802 GTTCACGAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
23 3 0.07
24 42 0.93
ACGTcount: A:0.56, C:0.20, G:0.11, T:0.13
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:764511 original size:21 final size:21
Alignment explanation
Indices: 764485--764537 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
764475 GTTTCCAGAT
764485 TCGCAACGCGAACATCGACTA
1 TCGCAACGCGAACATCGACTA
*
764506 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACATCGACTA
*
764527 TCGCAATGCGA
1 TCGCAACGCGA
764538 TTTTCCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.32, G:0.21, T:0.17
Consensus pattern (21 bp):
TCGCAACGCGAACATCGACTA
Found at i:764603 original size:44 final size:40
Alignment explanation
Indices: 764533--764612 Score: 115
Period size: 44 Copynumber: 1.9 Consensus size: 40
764523 ACTATCGCAA
764533 TGCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
1 TGCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
*
764573 TGCGATTTATTCCAAATTCGCGTTGCGATAGTTCAAGTTC
1 TGCGA-TT-TTCCAAATT--CGTTGCGATAGTCCAAGTTC
764613 ATTGCGATAG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
40 5 0.14
41 2 0.06
42 9 0.26
44 19 0.54
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (40 bp):
TGCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
Found at i:765134 original size:42 final size:42
Alignment explanation
Indices: 764589--765124 Score: 861
Period size: 42 Copynumber: 12.9 Consensus size: 42
764579 TTATTCCAAA
* *
764589 TTCGCGTTGCGA--TAGTT-CAAGTTCATTGCGATAGCCGAAG
1 TTCGCGTTGCGATTTA-TTCCAAGTTCGTTGCGATAGTCGAAG
764629 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCG--A--CGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
764667 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
* * *
764709 TTCGCGTTGCGATTTATTCTAAATTCGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
* *
764751 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
*
764793 TTCGCGTTGCGATTTATTCTAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
*
764835 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATATTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
764877 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
764919 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
*
764961 TTCGCGTTGTGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
* *
765003 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
* *
765045 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGGTAGTCAAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
* * *
765087 TTCGCATTGCGATTTATTCCAAATTCGTTACGATAGTC
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTC
765125 TAAAATCGCA
Statistics
Matches: 467, Mismatches: 22, Indels: 12
0.93 0.04 0.02
Matches are distributed among these distances:
38 37 0.08
40 14 0.03
41 2 0.00
42 414 0.89
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.36
Consensus pattern (42 bp):
TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
Found at i:766637 original size:16 final size:18
Alignment explanation
Indices: 766616--766651 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
766606 TTGTAATTTA
766616 ATAATT-AATAA-TTCAT
1 ATAATTGAATAAGTTCAT
766632 ATAATTGAATAAGTTCAT
1 ATAATTGAATAAGTTCAT
766650 AT
1 AT
766652 TCTGAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (18 bp):
ATAATTGAATAAGTTCAT
Found at i:768118 original size:72 final size:70
Alignment explanation
Indices: 768029--768164 Score: 157
Period size: 72 Copynumber: 1.9 Consensus size: 70
768019 CAAAATAAAC
* **
768029 AGGTCTTAACAAATAATTAAACCATAAAAATTAAGAGATTAAAGATTTAATTTTATTAATTTTAA
1 AGGTCTTAACAAATAATTAAACCATAAAAATT-AGAGATTAAA-ACTTAATTCCATTAATTTTAA
768094 AATTTAA
64 AATTTAA
* * * * * *
768101 AGGTCTTAA-AATGTAATTAAAGCGTATATATTTGAGATTAAAACTTAATTCCATTAATTTTAAA
1 AGGTCTTAACAA-ATAATTAAACCATAAAAATTAGAGATTAAAACTTAATTCCATTAATTTTAAA
768165 TATGTATCTT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
70 19 0.35
71 11 0.20
72 24 0.44
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (70 bp):
AGGTCTTAACAAATAATTAAACCATAAAAATTAGAGATTAAAACTTAATTCCATTAATTTTAAAA
TTTAA
Found at i:768984 original size:17 final size:18
Alignment explanation
Indices: 768951--768984 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
768941 CCGCTACTAG
768951 TGAACCGGTTAGAACCGC
1 TGAACCGGTTAGAACCGC
*
768969 TGAACC-GTTCGAACCG
1 TGAACCGGTTAGAACCG
768985 GACTGGCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.18
Consensus pattern (18 bp):
TGAACCGGTTAGAACCGC
Found at i:769697 original size:22 final size:21
Alignment explanation
Indices: 769672--769712 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
769662 TATAAAAAAT
769672 TATTTTTATTAAATATTTTTGG
1 TATTTTTATTAAAT-TTTTTGG
*
769694 TATTTTTATTTAATTTTTT
1 TATTTTTATTAAATTTTTT
769713 AAATAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (21 bp):
TATTTTTATTAAATTTTTTGG
Found at i:772491 original size:18 final size:19
Alignment explanation
Indices: 772468--772512 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
772458 CTCAGTAATC
772468 TTATTCC-CTGATAATCTT
1 TTATTCCACTGATAATCTT
772486 TTATTCTCACTGATAATCTT
1 TTATTC-CACTGATAATCTT
*
772506 ATATTCC
1 TTATTCC
772513 GTGAACCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 6 0.25
19 2 0.08
20 16 0.67
ACGTcount: A:0.24, C:0.22, G:0.04, T:0.49
Consensus pattern (19 bp):
TTATTCCACTGATAATCTT
Found at i:774997 original size:50 final size:50
Alignment explanation
Indices: 774916--775013 Score: 133
Period size: 50 Copynumber: 2.0 Consensus size: 50
774906 ATGTTGTTTT
* ** * *
774916 TTTCCAGAGATCCTAGGTTCGAGTAGTTACATCTGCAAGATATGTGTGCA
1 TTTCCAAAGATCCTAGGTTCGAACAGCTACATCTACAAGATATGTGTGCA
* *
774966 TTTCCAAAGGTCCTAGGTTCGAACAGCTACATCTACAATATATGTGTG
1 TTTCCAAAGATCCTAGGTTCGAACAGCTACATCTACAAGATATGTGTG
775014 AATTCATTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (50 bp):
TTTCCAAAGATCCTAGGTTCGAACAGCTACATCTACAAGATATGTGTGCA
Found at i:781567 original size:25 final size:25
Alignment explanation
Indices: 781533--781589 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
781523 TATATGATAC
781533 ATATAAATTTATAAAAGTTTA-AAA
1 ATATAAATTTATAAAAGTTTAGAAA
* *
781557 GATATAAATTTATAGAATTTTAGAAA
1 -ATATAAATTTATAAAAGTTTAGAAA
781583 ATATAAA
1 ATATAAA
781590 CAAAGTATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 26 0.90
26 3 0.10
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (25 bp):
ATATAAATTTATAAAAGTTTAGAAA
Found at i:781628 original size:23 final size:24
Alignment explanation
Indices: 781582--781629 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
781572 AATTTTAGAA
*
781582 AATATAAACAAAGTATCAATATAT
1 AATATAAACAAAGTATCAAAATAT
* *
781606 AATATAAA-AAAGTCTTAAAATAT
1 AATATAAACAAAGTATCAAAATAT
781629 A
1 A
781630 TGATTATTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.29
Consensus pattern (24 bp):
AATATAAACAAAGTATCAAAATAT
Found at i:790099 original size:24 final size:25
Alignment explanation
Indices: 790067--790122 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
790057 TCATGTCGTT
790067 CAACTTAGGAA-AAACAGTACAAAC
1 CAACTTAGGAAGAAACAGTACAAAC
*
790091 CAACTTAGGAAGAAATAGTACAAAC
1 CAACTTAGGAAGAAACAGTACAAAC
790116 CAACTTA
1 CAACTTA
790123 TCTCAGTGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 11 0.37
25 19 0.63
ACGTcount: A:0.52, C:0.20, G:0.12, T:0.16
Consensus pattern (25 bp):
CAACTTAGGAAGAAACAGTACAAAC
Found at i:796454 original size:18 final size:18
Alignment explanation
Indices: 796423--796457 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
796413 TCAATGAGTT
796423 CTTTGCTTTGGGTTTAAA
1 CTTTGCTTTGGGTTTAAA
796441 CTTTG-TTTGTGGTTTAA
1 CTTTGCTTTG-GGTTTAA
796458 TCTTCACCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.14, C:0.09, G:0.23, T:0.54
Consensus pattern (18 bp):
CTTTGCTTTGGGTTTAAA
Found at i:802295 original size:19 final size:19
Alignment explanation
Indices: 802271--802307 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
802261 ATGACCAACA
*
802271 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
802290 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
802308 CAGTATCGCA
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:802437 original size:20 final size:20
Alignment explanation
Indices: 802414--802484 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
802404 GAATATGTAA
*
802414 ATCGCAACGCGATTTTGACT
1 ATCGCAACGCGATTATGACT
*
802434 ATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATTATGAC-T
*
802454 AATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTATGACT
*
802475 GTCGCAACGC
1 ATCGCAACGC
802485 TGAATTTCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 2 0.05
20 24 0.56
21 15 0.35
22 2 0.05
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATTATGACT
Found at i:803377 original size:12 final size:12
Alignment explanation
Indices: 803362--803391 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
803352 AAGAAAAAGA
*
803362 CAATCAAAATCG
1 CAATCAAAATCC
803374 CAATCAAAATCC
1 CAATCAAAATCC
803386 CAATCA
1 CAATCA
803392 CAACCGACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.50, C:0.30, G:0.03, T:0.17
Consensus pattern (12 bp):
CAATCAAAATCC
Found at i:803702 original size:140 final size:140
Alignment explanation
Indices: 803449--803731 Score: 521
Period size: 140 Copynumber: 2.0 Consensus size: 140
803439 GCAAACGTTG
* * *
803449 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTATATGTGTAAACTTTTAACATTTTCAGTTAGACATATATTAGTAACTTGAGT
803514 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTAAATATCGCAACG
66 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTAAATATCGCAACG
803579 CGAATTTGAC
131 CGAATTTGAC
803589 TATTATGTGTATTATATGTGTAAACTTTTAACATTTTCAGTTAGACATATATTAGTAACTTGAGT
1 TATTATGTGTATTATATGTGTAAACTTTTAACATTTTCAGTTAGACATATATTAGTAACTTGAGT
* *
803654 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACATATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTAAATATCGCAACG
803719 CGAATTTGAC
131 CGAATTTGAC
803729 TAT
1 TAT
803732 CGCAACTCAA
Statistics
Matches: 138, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 138 1.00
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.43
Consensus pattern (140 bp):
TATTATGTGTATTATATGTGTAAACTTTTAACATTTTCAGTTAGACATATATTAGTAACTTGAGT
TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTAAATATCGCAACG
CGAATTTGAC
Found at i:803727 original size:20 final size:20
Alignment explanation
Indices: 803702--803790 Score: 84
Period size: 20 Copynumber: 4.8 Consensus size: 20
803692 TTACATATTC
803702 ATTTGAATATCGCAACGCGA
1 ATTTGAATATCGCAACGCGA
* *
803722 ATTTGACTATCGCAACTC-A
1 ATTTGAATATCGCAACGCGA
803741 A----AA-ATCGCAACGCGA
1 ATTTGAATATCGCAACGCGA
*
803756 ATTTGATTATCGCAACAG-GA
1 ATTTGAATATCGCAAC-GCGA
*
803776 ATTTGACTATCGCAA
1 ATTTGAATATCGCAA
803791 TGAGAAAATC
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
14 9 0.16
15 3 0.05
19 3 0.05
20 40 0.71
21 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (20 bp):
ATTTGAATATCGCAACGCGA
Found at i:803799 original size:54 final size:54
Alignment explanation
Indices: 803702--803832 Score: 149
Period size: 54 Copynumber: 2.4 Consensus size: 54
803692 TTACATATTC
* *
803702 ATTTGAATATCGCAAC-GCGAATTTGACTATCGCAACTCAAAAATCGCAACGCGA
1 ATTTGAATATCGCAACAG-GAATTTGACTATCGCAACTCAAAAATCACAAAGCGA
* * *
803756 ATTTGATTATCGCAACAGGAATTTGACTATCGCAA-TGAGAAAATCACAAAGCGT
1 ATTTGAATATCGCAACAGGAATTTGACTATCGCAACTCA-AAAATCACAAAGCGA
* * * *
803810 ATTAGACTATTGCAACACGAATT
1 ATTTGAATATCGCAACAGGAATT
803833 AACTTTCGCG
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
53 2 0.03
54 63 0.95
55 1 0.02
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (54 bp):
ATTTGAATATCGCAACAGGAATTTGACTATCGCAACTCAAAAATCACAAAGCGA
Found at i:803866 original size:20 final size:20
Alignment explanation
Indices: 803843--803894 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
803833 AACTTTCGCG
* *
803843 TTGCGCTTTTGGCTTTCACA
1 TTGCGATTTTGACTTTCACA
*
803863 TTGCGATTTTGACTTTCGCA
1 TTGCGATTTTGACTTTCACA
*
803883 TTGTGATTTTGA
1 TTGCGATTTTGA
803895 GTTTAGCGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.13, C:0.17, G:0.21, T:0.48
Consensus pattern (20 bp):
TTGCGATTTTGACTTTCACA
Found at i:804044 original size:27 final size:27
Alignment explanation
Indices: 804012--804121 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
804002 ATAAGAATTA
*
804012 TTTACACATCAATTAAACAAATCAACT
1 TTTACAAATCAATTAAACAAATCAACT
* *
804039 TTTACAAATCAATTAAACAAGCACAAATAAGAAT
1 TTTACAAATCAATT----AA--ACAAATCA-ACT
*
804073 TATGTACACATCAATTAAACAAATCAACT
1 T-T-TACAAATCAATTAAACAAATCAACT
804102 TTTACAAATCAATTAAACAA
1 TTTACAAATCAATTAAACAA
804122 GCAAAAAATG
Statistics
Matches: 67, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
27 30 0.45
28 1 0.01
29 3 0.04
30 7 0.10
31 2 0.03
32 2 0.03
33 7 0.10
34 3 0.04
35 1 0.01
36 11 0.16
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.27
Consensus pattern (27 bp):
TTTACAAATCAATTAAACAAATCAACT
Found at i:804071 original size:63 final size:64
Alignment explanation
Indices: 803960--804193 Score: 267
Period size: 63 Copynumber: 3.5 Consensus size: 64
803950 GATTGAAATC
* *
803960 AACAAATCAACTTTTACATTTCAATCAATTAAATAAACACAAATAAGAATTATTTACACATCAAT
1 AACAAATCAACTTTTACA--T-AATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAAT
804025 TA
63 TA
*
804027 AACAAATCAACTTTTACA-AATCAATTAAACAAGCACAAATAAGAATTATGTACACATCAATTA
1 AACAAATCAACTTTTACATAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTA
* * * *
804090 AACAAATCAACTTTTACA-AATCAATTAAACAAGCAAAAAATGCTAATAATTCTTATTTTCCTCA
1 AACAAATCAACTTTTACATAATCAATTAAACAAGC-ACAAA---TAAGAA---TTA-TTTACACA
804154 TCAATTA
58 TCAATTA
*
804161 AACAAATCAGACTTTTA-AGAATCAATTAAACAA
1 AACAAATCA-ACTTTTACATAATCAATTAAACAA
804194 TCAAAAAAAG
Statistics
Matches: 149, Mismatches: 8, Indels: 15
0.87 0.05 0.09
Matches are distributed among these distances:
63 76 0.51
64 4 0.03
67 23 0.15
70 3 0.02
71 22 0.15
72 21 0.14
ACGTcount: A:0.50, C:0.17, G:0.03, T:0.29
Consensus pattern (64 bp):
AACAAATCAACTTTTACATAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTA
Found at i:804092 original size:36 final size:34
Alignment explanation
Indices: 803983--804094 Score: 103
Period size: 36 Copynumber: 3.4 Consensus size: 34
803973 TTACATTTCA
*
803983 ATCAATTAAATAAACACAAATAAGAATTATTTACAC
1 ATCAATTAAA-CAACACAAATAAGAATTA-TTACAC
* * *
804019 ATCAATT----AA-ACAAATCA-ACTT-TTACAA
1 ATCAATTAAACAACACAAATAAGAATTATTACAC
804046 ATCAATTAAACAAGCACAAATAAGAATTATGTACAC
1 ATCAATTAAACAA-CACAAATAAGAATTAT-TACAC
804082 ATCAATTAAACAA
1 ATCAATTAAACAA
804095 ATCAACTTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
27 12 0.20
29 3 0.05
30 7 0.11
31 4 0.07
33 7 0.11
34 3 0.05
35 1 0.02
36 24 0.39
ACGTcount: A:0.54, C:0.16, G:0.04, T:0.26
Consensus pattern (34 bp):
ATCAATTAAACAACACAAATAAGAATTATTACAC
Found at i:805045 original size:10 final size:9
Alignment explanation
Indices: 805028--805052 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
805018 GTATATCCCG
805028 TATTTTTTT
1 TATTTTTTT
805037 TATTTTTTT
1 TATTTTTTT
805046 TATTTTT
1 TATTTTT
805053 CTTACTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TATTTTTTT
Found at i:806632 original size:13 final size:14
Alignment explanation
Indices: 806610--806646 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
806600 GTCAAAGAAA
806610 GTCAACGGTCAACG
1 GTCAACGGTCAACG
806624 GTC-ACGGTCAACG
1 GTCAACGGTCAACG
806637 GTCAACGGTC
1 GTCAACGGTC
806647 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (14 bp):
GTCAACGGTCAACG
Found at i:806658 original size:17 final size:17
Alignment explanation
Indices: 806636--806693 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
806626 CACGGTCAAC
806636 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
806653 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
*
806670 GGTCAACAGTCGGGTCG
1 GGTCAACGGTCGGGTCG
806687 GGTCAAC
1 GGTCAAC
806694 CCGGTTCAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.16, C:0.24, G:0.43, T:0.17
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:806663 original size:7 final size:7
Alignment explanation
Indices: 806610--806646 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
806600 GTCAAAGAAA
806610 GTCAACG
1 GTCAACG
806617 GTCAACG
1 GTCAACG
806624 GTC-ACG
1 GTCAACG
806630 GTCAACG
1 GTCAACG
806637 GTCAACG
1 GTCAACG
806644 GTC
1 GTC
806647 GGGTCGGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:806711 original size:19 final size:19
Alignment explanation
Indices: 806687--806776 Score: 128
Period size: 19 Copynumber: 4.7 Consensus size: 19
806677 AGTCGGGTCG
*
806687 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
806706 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
806725 GGTCAAACCGGTTC-GAACC
1 GGTCAAACCGGTTCAG-ACC
* *
806744 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTC-AGACC
806764 GGTCAAACCGGTT
1 GGTCAAACCGGTT
806777 TTCCAGCAGC
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
18 1 0.02
19 49 0.75
20 15 0.23
ACGTcount: A:0.27, C:0.30, G:0.26, T:0.18
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:806759 original size:10 final size:10
Alignment explanation
Indices: 806689--806776 Score: 94
Period size: 9 Copynumber: 9.1 Consensus size: 10
806679 TCGGGTCGGG
*
806689 TCAACCCGGT
1 TCAAACCGGT
*
806699 TCAGACCGG-
1 TCAAACCGGT
806708 TCAAACCGGT
1 TCAAACCGGT
*
806718 TCAGACCGG-
1 TCAAACCGGT
806727 TCAAACCGGT
1 TCAAACCGGT
*
806737 TCGAACCGG-
1 TCAAACCGGT
806746 TCAAACCGGT
1 TCAAACCGGT
*
806756 TCAAAACTGG-
1 TC-AAACCGGT
806766 TCAAACCGGT
1 TCAAACCGGT
806776 T
1 T
806777 TTCCAGCAGC
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
9 30 0.47
10 28 0.44
11 6 0.09
ACGTcount: A:0.27, C:0.31, G:0.24, T:0.18
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:813882 original size:13 final size:14
Alignment explanation
Indices: 813860--813896 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
813850 GTCAAAGAAA
813860 GTCAACGGTCAACG
1 GTCAACGGTCAACG
813874 GTC-ACGGTCAACG
1 GTCAACGGTCAACG
813887 GTCAACGGTC
1 GTCAACGGTC
813897 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (14 bp):
GTCAACGGTCAACG
Found at i:813908 original size:17 final size:17
Alignment explanation
Indices: 813886--813943 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
813876 CACGGTCAAC
813886 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
813903 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
*
813920 GGTCAACAGTCGGGTCG
1 GGTCAACGGTCGGGTCG
813937 GGTCAAC
1 GGTCAAC
813944 CCGGTTCAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.16, C:0.24, G:0.43, T:0.17
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:813913 original size:7 final size:7
Alignment explanation
Indices: 813860--813896 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
813850 GTCAAAGAAA
813860 GTCAACG
1 GTCAACG
813867 GTCAACG
1 GTCAACG
813874 GTC-ACG
1 GTCAACG
813880 GTCAACG
1 GTCAACG
813887 GTCAACG
1 GTCAACG
813894 GTC
1 GTC
813897 GGGTCGGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:813961 original size:19 final size:19
Alignment explanation
Indices: 813937--814006 Score: 106
Period size: 19 Copynumber: 3.7 Consensus size: 19
813927 AGTCGGGTCG
*
813937 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
813956 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
*
813975 GGTCAAACCGGTTC-GAACT
1 GGTCAAACCGGTTCAG-ACC
813994 GGTCAAACCGGTT
1 GGTCAAACCGGTT
814007 TTCCAGCATC
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
18 1 0.02
19 47 0.98
ACGTcount: A:0.24, C:0.30, G:0.27, T:0.19
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:813975 original size:10 final size:10
Alignment explanation
Indices: 813939--814006 Score: 70
Period size: 9 Copynumber: 7.1 Consensus size: 10
813929 TCGGGTCGGG
*
813939 TCAACCCGGT
1 TCAAACCGGT
*
813949 TCAGACCGG-
1 TCAAACCGGT
813958 TCAAACCGGT
1 TCAAACCGGT
*
813968 TCAGACCGG-
1 TCAAACCGGT
813977 TCAAACCGGT
1 TCAAACCGGT
* *
813987 TCGAACTGG-
1 TCAAACCGGT
813996 TCAAACCGGT
1 TCAAACCGGT
814006 T
1 T
814007 TTCCAGCATC
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
9 23 0.50
10 23 0.50
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.19
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:815191 original size:21 final size:21
Alignment explanation
Indices: 815167--815258 Score: 60
Period size: 21 Copynumber: 4.4 Consensus size: 21
815157 GGACCTCTTC
* *
815167 AACGATGACAGGGGCCTATTG
1 AACGATGAGAGAGGCCTATTG
* * * *
815188 AACGGTGGGAGAGGACTCTTG
1 AACGATGAGAGAGGCCTATTG
** * *
815209 AGGGATGATAGGGGCCTATTG
1 AACGATGAGAGAGGCCTATTG
* *
815230 AATGAT-AGGAGAGGCCTCTTG
1 AACGATGA-GAGAGGCCTATTG
815251 AACGATGA
1 AACGATGA
815259 TAGGTGAGTC
Statistics
Matches: 49, Mismatches: 20, Indels: 3
0.68 0.28 0.04
Matches are distributed among these distances:
20 1 0.02
21 47 0.96
22 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.37, T:0.21
Consensus pattern (21 bp):
AACGATGAGAGAGGCCTATTG
Found at i:815259 original size:42 final size:42
Alignment explanation
Indices: 815143--815262 Score: 152
Period size: 42 Copynumber: 2.9 Consensus size: 42
815133 AATCGGGCTC
* *
815143 TTGAATGGTGGGAG-GGACCTCTTCAACGATGACAGGGGCCTA
1 TTGAATGGTGGGAGAGG-CCTCTTGAACGATGATAGGGGCCTA
* * **
815185 TTGAACGGTGGGAGAGGACTCTTGAGGGATGATAGGGGCCTA
1 TTGAATGGTGGGAGAGGCCTCTTGAACGATGATAGGGGCCTA
* *
815227 TTGAATGATAGGAGAGGCCTCTTGAACGATGATAGG
1 TTGAATGGTGGGAGAGGCCTCTTGAACGATGATAGG
815263 TGAGTCGGGC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 63 0.97
43 2 0.03
ACGTcount: A:0.26, C:0.14, G:0.38, T:0.23
Consensus pattern (42 bp):
TTGAATGGTGGGAGAGGCCTCTTGAACGATGATAGGGGCCTA
Found at i:815663 original size:19 final size:20
Alignment explanation
Indices: 815622--815664 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
815612 AATAGTTTCT
*
815622 GAAACTTAAAATCGCAATAC
1 GAAACTTAAAATCGCAACAC
*
815642 GAAACTT-AAATCGCAACGC
1 GAAACTTAAAATCGCAACAC
815661 GAAA
1 GAAA
815665 ATGACTATCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.49, C:0.21, G:0.14, T:0.16
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:815676 original size:20 final size:20
Alignment explanation
Indices: 815651--815706 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
815641 CGAAACTTAA
815651 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
815671 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
*
815691 ATCGCAACGGGAAAAT
1 ATCGCAACGCGAAAAT
815707 CACAATGTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:815767 original size:20 final size:20
Alignment explanation
Indices: 815742--815786 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
815732 GTGATTATGC
815742 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
815762 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
815782 CGTTG
1 CGTTG
815787 TGATTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:817741 original size:20 final size:20
Alignment explanation
Indices: 817718--817791 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
817708 AATTGAAACA
817718 CGAAAATGACTATCGCAACG
1 CGAAAATGACTATCGCAACG
** * *
817738 CG-AAATGAAAATAGCAACA
1 CGAAAATGACTATCGCAACG
817757 CGAAAATGACTATCGCAACG
1 CGAAAATGACTATCGCAACG
**
817777 CGAATTTGACTATCG
1 CGAAAATGACTATCG
817792 TTGCAATATT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
19 15 0.35
20 28 0.65
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.18
Consensus pattern (20 bp):
CGAAAATGACTATCGCAACG
Found at i:817749 original size:39 final size:39
Alignment explanation
Indices: 817706--817780 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
817696 TTTGAAACTT
*
817706 AAAATTGAAACACGAAAATGACTATCGCAACGCGAAATG
1 AAAATAGAAACACGAAAATGACTATCGCAACGCGAAATG
*
817745 AAAATAGCAACACGAAAATGACTATCGCAACGCGAA
1 AAAATAGAAACACGAAAATGACTATCGCAACGCGAA
817781 TTTGACTATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.49, C:0.20, G:0.17, T:0.13
Consensus pattern (39 bp):
AAAATAGAAACACGAAAATGACTATCGCAACGCGAAATG
Found at i:818469 original size:20 final size:19
Alignment explanation
Indices: 818446--818491 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
818436 AGAAACTGAT
*
818446 TTGCGATACTAGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
818466 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
818485 TTGCGAT
1 TTGCGAT
818492 TTTGTTGGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:818479 original size:19 final size:19
Alignment explanation
Indices: 818455--818493 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
818445 TTTGCGATAC
*
818455 TAGAGATCGCGTTGCGATT
1 TAGAGATCGCATTGCGATT
818474 TAGAGATCGCATTGCGATT
1 TAGAGATCGCATTGCGATT
818493 T
1 T
818494 TGTTGGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (19 bp):
TAGAGATCGCATTGCGATT
Found at i:819182 original size:2 final size:2
Alignment explanation
Indices: 819175--819217 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
819165 TATAATTTTA
819175 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
819217 A
1 A
819218 CACACACACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:819518 original size:12 final size:12
Alignment explanation
Indices: 819501--819525 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
819491 TAAGATCATA
819501 AAAAAATAAATT
1 AAAAAATAAATT
819513 AAAAAATAAATT
1 AAAAAATAAATT
819525 A
1 A
819526 TTACTCAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAAATAAATT
Found at i:835866 original size:13 final size:13
Alignment explanation
Indices: 835848--835886 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
835838 TGATTTTTGT
835848 TTTCAAAATTCGC
1 TTTCAAAATTCGC
835861 TTTCAAAATTCGC
1 TTTCAAAATTCGC
835874 TTTCAAAATTCGC
1 TTTCAAAATTCGC
835887 GACCGACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
TTTCAAAATTCGC
Found at i:838335 original size:2 final size:2
Alignment explanation
Indices: 838328--838357 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
838318 GCAGGTAGTG
838328 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
838358 CATTCCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:842265 original size:2 final size:2
Alignment explanation
Indices: 842258--842282 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
842248 TTTATTTTAT
842258 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
842283 TCTTTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:845781 original size:23 final size:22
Alignment explanation
Indices: 845755--845823 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
845745 CACCACAGCT
845755 CATATAATTGCACTGAAGTGCCA
1 CATATAATTGCAC-GAAGTGCCA
* * *
845778 CATATAATTGTACCAGAGTGCCG
1 CATATAATTGCACGA-AGTGCCA
* *
845801 CATAGAATTGCACCGTAGTGCCA
1 CATATAATTGCA-CGAAGTGCCA
845824 TATAATACTG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
22 1 0.03
23 34 0.94
24 1 0.03
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (22 bp):
CATATAATTGCACGAAGTGCCA
Found at i:846028 original size:103 final size:103
Alignment explanation
Indices: 845839--846056 Score: 339
Period size: 103 Copynumber: 2.1 Consensus size: 103
845829 TACTGTCCAT
** *
845839 AAGGACCACATATCATTCCTTAAGAATCATATACATATATTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
845904 GACTTCACACATTTCCAAAAGAATACATATATGTCTCG
66 GACTTCACACATTTCCAAAAGAATACATATATGTCCCG
* *
845942 AAGGACCACATATCATTCCTTAAGAATTATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* *
846007 GACTTCACATATGTTCC-AAAGAATATATATATGTCCCG
66 GACTTCACACAT-TTCCAAAAGAATACATATATGTCCCG
*
846045 AAGGATCACATA
1 AAGGACCACATA
846057 CACCCTCGAC
Statistics
Matches: 105, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
103 101 0.96
104 4 0.04
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.28
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATTTCCAAAAGAATACATATATGTCCCG
Found at i:851072 original size:101 final size:99
Alignment explanation
Indices: 850904--851107 Score: 320
Period size: 101 Copynumber: 2.0 Consensus size: 99
850894 CCATAAGGAC
* *
850904 CATATCATTCCTTAAGAATCATTAATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACAC
1 CATATCATTCCTTAAGAATCATTAATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCACAC
850969 ATGTTCCAAAGAATACAAATATGTCCGAAGGACCA
66 ATGTTCCAAAGAATACAAATATGTCCGAA-GACCA
* * *
851004 CATATCATTCCTTAAGAATTATATACATATGCCAAGGATCAAGTATTTGT-TCACCAGACTTCAC
1 CATATCATTCCTTAAGAATCAT-TA-ATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCAC
*
851068 ACATGTTCCAAAGAATACATATATGTCCGAAGACCA
64 ACATGTTCCAAAGAATACAAATATGTCCGAAGACCA
851104 CATA
1 CATA
851108 GACCCTCGAC
Statistics
Matches: 96, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
100 30 0.31
101 46 0.48
102 20 0.21
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (99 bp):
CATATCATTCCTTAAGAATCATTAATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCACAC
ATGTTCCAAAGAATACAAATATGTCCGAAGACCA
Found at i:854687 original size:36 final size:35
Alignment explanation
Indices: 854647--854971 Score: 169
Period size: 36 Copynumber: 9.1 Consensus size: 35
854637 ATTTGTCTCA
854647 CTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCC
1 CTTGAGACTGTTTTACTT-AAAGAAGATTTATTTCC
* ** * * * *
854683 CTTGAGATTGACATT-CTTAAA-ACAGACATTGTCTCA
1 CTTGAGACTG-TTTTACTTAAAGA-AGA-TTTATTTCC
*
854719 CTTGAGACTGTTTTACTTAAAAGAGGATTTATTTCC
1 CTTGAGACTGTTTTACTT-AAAGAAGATTTATTTCC
** * * * * *
854755 CTCAAGATTGTTTTTCTTAAA-ACAGACTTTGTCTCA
1 CTTGAGACTGTTTTACTTAAAGA-AGA-TTTATTTCC
854791 CTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCC
1 CTTGAGACTGTTTTACTT-AAAGAAGATTTATTTCC
** * * * * * *
854827 CTCAAGATTGTCATT-CTTAAA-ACAGACCTTGTCTCA
1 CTTGAGACTGT-TTTACTTAAAGA-AGA-TTTATTTCC
*
854863 CTTGAGACTGTTTTACTTGAAAGAATATTTATTTCC
1 CTTGAGACTGTTTTACTT-AAAGAAGATTTATTTCC
** * * * * * *
854899 CTCAAGATTATTTTTCTTAAA-ACA-ACTTTGTCTCA
1 CTTGAGACTGTTTTACTTAAAGA-AGA-TTTATTTCC
*
854934 CTTGAGACTGTTTTACTCAAAAGAAGATTTATTTCC
1 CTTGAGACTGTTTTACT-TAAAGAAGATTTATTTCC
854970 CT
1 CT
854972 CAAGATTTTT
Statistics
Matches: 204, Mismatches: 64, Indels: 42
0.66 0.21 0.14
Matches are distributed among these distances:
34 5 0.02
35 43 0.21
36 131 0.64
37 22 0.11
38 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (35 bp):
CTTGAGACTGTTTTACTTAAAGAAGATTTATTTCC
Found at i:854728 original size:72 final size:72
Alignment explanation
Indices: 854638--854978 Score: 524
Period size: 72 Copynumber: 4.8 Consensus size: 72
854628 ATACAGATGA
**
854638 TTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTTGAGATTGACATTCTTAA
1 TTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGACATTCTTAA
854703 AACAGAC
66 AACAGAC
* * * ***
854710 ATTGTCTCACTTGAGACTGTTTTACTTAAAAGAGGATTTATTTCCCTCAAGATTGTTTTTCTTAA
1 TTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGACATTCTTAA
854775 AACAGAC
66 AACAGAC
*
854782 TTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGTCATTCTTAA
1 TTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGACATTCTTAA
854847 AACAGAC
66 AACAGAC
* * **
854854 CTTGTCTCACTTGAGACTGTTTTACTTGAAAGAATATTTATTTCCCTCAAGATT-ATTTTTCTTA
1 TTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGA-CATTCTTA
854918 AAACA-AC
65 AAACAGAC
**
854925 TTTGTCTCACTTGAGACTGTTTTACTCAAAAGAAGATTTATTTCCCTCAAGATT
1 TTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATT
854979 TTTTTCTTAA
Statistics
Matches: 246, Mismatches: 22, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
71 52 0.21
72 194 0.79
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (72 bp):
TTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGACATTCTTAA
AACAGAC
Found at i:854898 original size:144 final size:143
Alignment explanation
Indices: 854638--854992 Score: 586
Period size: 144 Copynumber: 2.5 Consensus size: 143
854628 ATACAGATGA
** *
854638 TTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTTGAGATTGACATTCTTAA
1 TTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGTCATTCTTAA
* *
854703 AACAGACATTGTCTCACTTGAGACTGTTTTACTTAAAAGAGGATTTATTTCCCTCAAGATTGTTT
66 AACAGACATTGTCTCACTTGAGACTGTTTTACTTAAAAGAAGATTTATTTCCCTCAAGATTATTT
854768 TTCTTAAAACAGAC
131 TTCTTAAAACA-AC
854782 TTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGTCATTCTTAA
1 TTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGTCATTCTTAA
* * *
854847 AACAGACCTTGTCTCACTTGAGACTGTTTTACTTGAAAGAATATTTATTTCCCTCAAGATTATTT
66 AACAGACATTGTCTCACTTGAGACTGTTTTACTTAAAAGAAGATTTATTTCCCTCAAGATTATTT
854912 TTCTTAAAACAAC
131 TTCTTAAAACAAC
** **
854925 TTTGTCTCACTTGAGACTGTTTTACTCAAAAGAAGATTTATTTCCCTCAAGATT-TTTTTCTTAA
1 TTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGTCATTCTTAA
854989 AACA
66 AACA
854993 AGATTTTATC
Statistics
Matches: 199, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
142 12 0.06
143 54 0.27
144 133 0.67
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (143 bp):
TTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGTCATTCTTAA
AACAGACATTGTCTCACTTGAGACTGTTTTACTTAAAAGAAGATTTATTTCCCTCAAGATTATTT
TTCTTAAAACAAC
Found at i:855058 original size:143 final size:144
Alignment explanation
Indices: 854638--855032 Score: 474
Period size: 144 Copynumber: 2.7 Consensus size: 144
854628 ATACAGATGA
** ** *
854638 TTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTTGAGATTGACATTCTTAA
1 TTTGTCTCACTTGAGACTGTTTTACTCAAAAGAAGATTTATTTCCCTCAAGATTGTCATTCTTAA
* * * * ** ** *
854703 AACAGACATTGTCTCACTTGAGACTGTTTTACT-TAAAAGAGGATTTATTTCCCTCAAGATTGTT
66 AACAGACCTTATCTCACTTGAGACTGTTTCACTCGAAAA-AATATTTATTTCCCTCAAGATCATG
854767 TTTCTTAAAACAGAC
130 TTTCTTAAAACAGAC
**
854782 TTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGATTGTCATTCTTAA
1 TTTGTCTCACTTGAGACTGTTTTACTCAAAAGAAGATTTATTTCCCTCAAGATTGTCATTCTTAA
* * * * * *
854847 AACAGACCTTGTCTCACTTGAGACTGTTTTACTTGAAAGAATATTTATTTCCCTCAAGATTATTT
66 AACAGACCTTATCTCACTTGAGACTGTTTCACTCGAAAAAATATTTATTTCCCTCAAGATCATGT
854912 TTCTTAAAACA-AC
131 TTCTTAAAACAGAC
**
854925 TTTGTCTCACTTGAGACTGTTTTACTCAAAAGAAGATTTATTTCCCTCAAGATT-TTTTTCTTAA
1 TTTGTCTCACTTGAGACTGTTTTACTCAAAAGAAGATTTATTTCCCTCAAGATTGTCATTCTTAA
** * *
854989 AACAAGATTTTATCTCGCTTGAGA-TAGTTTCCCTCGAAACAAAT
66 AAC-AGACCTTATCTCACTTGAGACT-GTTTCACTCGAAA-AAAT
855033 TTTTTGTCTC
Statistics
Matches: 226, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
142 12 0.05
143 80 0.35
144 131 0.58
145 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (144 bp):
TTTGTCTCACTTGAGACTGTTTTACTCAAAAGAAGATTTATTTCCCTCAAGATTGTCATTCTTAA
AACAGACCTTATCTCACTTGAGACTGTTTCACTCGAAAAAATATTTATTTCCCTCAAGATCATGT
TTCTTAAAACAGAC
Found at i:855150 original size:37 final size:37
Alignment explanation
Indices: 855083--855169 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
855073 ATTGAAAACA
** * *
855083 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
855119 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
*
855156 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
855170 TAAACATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 12 0.27
37 33 0.73
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:855172 original size:102 final size:102
Alignment explanation
Indices: 854995--855298 Score: 511
Period size: 102 Copynumber: 3.0 Consensus size: 102
854985 TTAAAACAAG
* * * *
854995 ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAAATTTTTTGTCTCCCTTGAGACAGTTTCTC
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAA-ATTTTGTCTCCCTTGAGACAGTTTCTC
*
855060 TTTAAACATAAACATTGAAAACATTTCCCTTGAAATGA
65 TTGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
855098 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
855163 TGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
* *
855200 ATTTTGTCTCTCTTGAGATAATTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGATAGTTTCTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
*
855264 TGAAACATAAACTTTGAAAACAGTTTCCCTTGAAA
66 TGAAACATAAACATTGAAAACA-TTTCCCTTGAAA
855299 CAAAACCTTT
Statistics
Matches: 192, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
101 50 0.26
102 108 0.56
103 34 0.18
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (102 bp):
ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
TGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
Found at i:855231 original size:36 final size:36
Alignment explanation
Indices: 855184--855270 Score: 129
Period size: 36 Copynumber: 2.4 Consensus size: 36
855174 CATTGAAAAC
** *
855184 ATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATA
1 ATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATA
855220 ATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATA
1 ATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATA
* *
855256 GTTTCTCTTGAAACA
1 ATTTCCCTTGAAACA
855271 TAAACTTTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (36 bp):
ATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATA
Found at i:855289 original size:30 final size:29
Alignment explanation
Indices: 855255--855331 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 29
855245 CCCTTGAGAT
855255 AGTTTCTCTTGAAACATAAA-CTTTGAAAA
1 AGTTTCTCTTGAAACA-AAACCTTTGAAAA
* *
855284 CAGTTTCCCTTGAAACAAAACCTTTGAATA
1 -AGTTTCTCTTGAAACAAAACCTTTGAAAA
*
855314 TGTTTCTCTTGAAACAAA
1 AGTTTCTCTTGAAACAAA
855332 GTTTTGCCTC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 19 0.45
30 23 0.55
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (29 bp):
AGTTTCTCTTGAAACAAAACCTTTGAAAA
Found at i:855319 original size:29 final size:27
Alignment explanation
Indices: 855248--855331 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 27
855238 TTTGTCTCCC
855248 TTGAGATAGTTTCTCTTGAAACATAAACT
1 TTGA-ATAGTTTCTCTTGAAACA-AAACT
* *
855277 TTGAAAACAGTTTCCCTTGAAACAAAACCT
1 TTG--AATAGTTTCTCTTGAAACAAAA-CT
855307 TTGAATATGTTTCTCTTGAAACAAA
1 TTGAATA-GTTTCTCTTGAAACAAA
855332 GTTTTGCCTC
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
28 3 0.06
29 22 0.47
30 21 0.45
31 1 0.02
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.35
Consensus pattern (27 bp):
TTGAATAGTTTCTCTTGAAACAAAACT
Found at i:855398 original size:96 final size:96
Alignment explanation
Indices: 855015--855427 Score: 320
Period size: 102 Copynumber: 4.2 Consensus size: 96
855005 GCTTGAGATA
* * * * *
855015 GTTTCCCTCGAAACAAATTTTTTGTCTCCCTTGAGACAGTTTCTCTTTAAACATAAACATTGAAA
1 GTTTCTCTTGAAACAAA--TTTTGCCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAA
* *** * *
855080 ACA-TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATA
64 ACAGTTTCCCTTGAAA-CAA---AAAC-CT-TTGAAATC
* * *
855118 GTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAA
1 GTTTCTCTTGAAAC-AAATTTTGCCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAA
* *** * *
855183 CA-TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATA
65 CAGTTTCCCTTGAAA-CAA---AAAC-CT-TTGAAATC
* * * *
855220 ATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACATAAACTTTGAAAAC
1 GTTTCTCTTGAAACAAATTTTGCCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAAC
855285 AGTTTCCCTTGAAAC-AAAACCTTTGAATAT-
66 AGTTTCCCTTGAAACAAAAACCTTTGAA-ATC
*
855315 GTTTCTCTTGAAACAAAGTTTTGCCT-CCTTGGAGACAGTTTCTCTTGAAA-A-AACCTTTGAAA
1 GTTTCTCTTGAAACAAA-TTTTGCCTCCCTT-GAGACAGTTTCTCTTGAAACATAAACTTTGAAA
* *
855377 TC-GTTTTCTCTTGAAACACAAAAAACCTTTGAAATC
64 ACAG-TTTCCCTTG-AA-AC-AAAAACCTTTGAAATC
*
855413 GTTTCTCTTGGAACA
1 GTTTCTCTTGAAACA
855428 CAAAAAGAAA
Statistics
Matches: 281, Mismatches: 18, Indels: 27
0.86 0.06 0.08
Matches are distributed among these distances:
93 1 0.00
94 19 0.07
95 26 0.09
96 31 0.11
97 3 0.01
98 26 0.09
100 1 0.00
101 50 0.18
102 108 0.38
103 13 0.05
104 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (96 bp):
GTTTCTCTTGAAACAAATTTTGCCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAAC
AGTTTCCCTTGAAACAAAAACCTTTGAAATC
Found at i:855418 original size:33 final size:33
Alignment explanation
Indices: 855362--855464 Score: 136
Period size: 34 Copynumber: 3.0 Consensus size: 33
855352 GTTTCTCTTG
855362 AAAAAACCTTTGAAATCGTTTTCTCTTGAAACAC
1 AAAAAACCTTTGAAATCG-TTTCTCTTGAAACAC
*
855396 AAAAAACCTTTGAAATCGTTTCTCTTGGAACACAAA
1 AAAAAACCTTTGAAATCGTTTCTCTT-GAA-AC-AC
*
855432 AAGAAAACCTTTGACAT-GTTTCTCTTGAAACAC
1 AA-AAAACCTTTGAAATCGTTTCTCTTGAAACAC
855465 CAAAGCTTTG
Statistics
Matches: 62, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
33 9 0.15
34 23 0.37
35 5 0.08
36 12 0.19
37 13 0.21
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (33 bp):
AAAAAACCTTTGAAATCGTTTCTCTTGAAACAC
Found at i:881594 original size:64 final size:64
Alignment explanation
Indices: 881515--881641 Score: 166
Period size: 64 Copynumber: 2.0 Consensus size: 64
881505 CGGATCTTGG
* * *
881515 CAGGTCGGGTAAAATCGGATACAAGTTA-ATTCAGGTTGATTTGATACCAGATCCAGATCGGGTT
1 CAGGTCAGGTAAAATCAG-TACAAGTTATATTCAGGTTGATTTGACACCAGATCCAGATCGGGTT
* * ** *
881579 CAGGTCAGGTCAAATCAGTTCGGGTTATTTTCAGGTTGATTTGACACCAGATCCAGATCGGGT
1 CAGGTCAGGTAAAATCAGTACAAGTTATATTCAGGTTGATTTGACACCAGATCCAGATCGGGT
881642 CATTTCCAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
63 6 0.11
64 48 0.89
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (64 bp):
CAGGTCAGGTAAAATCAGTACAAGTTATATTCAGGTTGATTTGACACCAGATCCAGATCGGGTT
Found at i:882473 original size:21 final size:21
Alignment explanation
Indices: 882449--882511 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
882439 TTATTAATGC
882449 ATGCATGTATGTATAATATGT
1 ATGCATGTATGTATAATATGT
*
882470 ATGCATATATGTATAAT-T-T
1 ATGCATGTATGTATAATATGT
** * *
882489 ATTAATGCATGTATGATATGT
1 ATGCATGTATGTATAATATGT
882510 AT
1 AT
882512 ATTAATGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 13 0.38
20 2 0.06
21 19 0.56
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (21 bp):
ATGCATGTATGTATAATATGT
Found at i:882514 original size:23 final size:23
Alignment explanation
Indices: 882440--882518 Score: 65
Period size: 23 Copynumber: 3.3 Consensus size: 23
882430 ATATATAATT
*
882440 TATTAATGCATGCATG-TATGTA
1 TATTAATGCATGTATGATATGTA
* *
882462 TAATATGTATGCATATATGTATAAT-T-
1 T-AT-T-AATGCATGTATG-AT-ATGTA
882488 TATTAATGCATGTATGATATGTA
1 TATTAATGCATGTATGATATGTA
882511 TATTAATG
1 TATTAATG
882519 TAATATGCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 15
0.69 0.08 0.23
Matches are distributed among these distances:
21 2 0.05
22 4 0.09
23 20 0.45
24 2 0.05
25 11 0.25
26 1 0.02
27 2 0.05
28 2 0.05
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.44
Consensus pattern (23 bp):
TATTAATGCATGTATGATATGTA
Found at i:882743 original size:34 final size:34
Alignment explanation
Indices: 882671--882747 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
882661 TAGAAACCTT
* * * *
882671 AAACTCTAAACCATACACTCTAACTTTAAATCAT
1 AAACACTAAACCATAAACTCTAACTATAAATCAC
*
882705 AAACACTAAACCATAAACTCTAA-TATAAATGGAC
1 AAACACTAAACCATAAACTCTAACTATAAAT-CAC
882739 AAACACTAA
1 AAACACTAA
882748 TATGACATGT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 6 0.16
34 31 0.84
ACGTcount: A:0.51, C:0.23, G:0.03, T:0.23
Consensus pattern (34 bp):
AAACACTAAACCATAAACTCTAACTATAAATCAC
Found at i:882978 original size:21 final size:22
Alignment explanation
Indices: 882945--883004 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 22
882935 TATAAAAATC
* * *
882945 CTAAAACATAAACCA-TAAACT
1 CTAAATCACAAACCACTAAACA
*
882966 TTAAATCACAAA-CACTAAACA
1 CTAAATCACAAACCACTAAACA
*
882987 CTAAATCATAAACC-CTAA
1 CTAAATCACAAACCACTAA
883005 TATAAATAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
20 2 0.06
21 28 0.90
22 1 0.03
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.20
Consensus pattern (22 bp):
CTAAATCACAAACCACTAAACA
Found at i:883383 original size:18 final size:17
Alignment explanation
Indices: 883360--883398 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
883350 AATATGTATG
*
883360 TATAAACCATGTATAGTA
1 TATAAACCATATATA-TA
*
883378 TATAAACTATATATATA
1 TATAAACCATATATATA
883395 TATA
1 TATA
883399 TATATACTAT
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:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (17 bp):
TATAAACCATATATATA
Found at i:883390 original size:11 final size:11
Alignment explanation
Indices: 883376--883455 Score: 51
Period size: 11 Copynumber: 7.4 Consensus size: 11
883366 CCATGTATAG
883376 TATATAAACTA
1 TATATAAACTA
*
883387 TATATATA-TA
1 TATATAAACTA
*
883397 TATATATACTA
1 TATATAAACTA
883408 TATA-AATTACT-
1 TATATAA--ACTA
***
883419 TATATAGTTTA
1 TATATAAACTA
883430 TATA-AACACTA
1 TATATAA-ACTA
*
883441 TACATAAACTA
1 TATATAAACTA
883452 TATA
1 TATA
883456 AAGTAGTAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 14
0.68 0.13 0.18
Matches are distributed among these distances:
10 13 0.25
11 33 0.63
12 6 0.12
ACGTcount: A:0.49, C:0.09, G:0.01, T:0.41
Consensus pattern (11 bp):
TATATAAACTA
Found at i:883402 original size:21 final size:22
Alignment explanation
Indices: 883371--883411 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
883361 ATAAACCATG
883371 TATAGTATATAAACTATATATA
1 TATAGTATATAAACTATATATA
*
883393 TATA-TATATATACTATATA
1 TATAGTATATAAACTATATA
883412 AATTACTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (22 bp):
TATAGTATATAAACTATATATA
Found at i:883538 original size:14 final size:14
Alignment explanation
Indices: 883521--883551 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
883511 TTCTAAACTT
883521 TAAACCATAAACAC
1 TAAACCATAAACAC
*
883535 TAAACCATAAACCC
1 TAAACCATAAACAC
883549 TAA
1 TAA
883552 TTTAAATAGA
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:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (14 bp):
TAAACCATAAACAC
Found at i:883861 original size:15 final size:14
Alignment explanation
Indices: 883843--883885 Score: 61
Period size: 13 Copynumber: 3.1 Consensus size: 14
883833 TTAATCATGT
*
883843 TTTATATAATTTTCA
1 TTTAAATAATTTT-A
883858 TTTAAATAATTTTA
1 TTTAAATAATTTTA
883872 -TTAAATAATTTTA
1 TTTAAATAATTTTA
883885 T
1 T
883886 ATAATATGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 13 0.50
14 1 0.04
15 12 0.46
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTAAATAATTTTA
Found at i:883934 original size:15 final size:15
Alignment explanation
Indices: 883909--883945 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
883899 ATAAACCATG
883909 TATAGTATATATAAAC
1 TATA-TATATATAAAC
883925 TATATATATATAAAC
1 TATATATATATAAAC
883940 TATATA
1 TATATA
883946 AAGCAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:884048 original size:14 final size:14
Alignment explanation
Indices: 884020--884090 Score: 63
Period size: 14 Copynumber: 5.1 Consensus size: 14
884010 TAGTTTATAG
* *
884020 AAACCTTAAATCCT
1 AAACCATAAACCCT
*
884034 AAATCATAAACCCT
1 AAACCATAAACCCT
** **
884048 AATTC-TAAACTTT
1 AAACCATAAACCCT
*
884061 AAACCATAAACACT
1 AAACCATAAACCCT
884075 AAACCATAAACCCT
1 AAACCATAAACCCT
884089 AA
1 AA
884091 TTTAAATGGA
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
13 9 0.20
14 36 0.80
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:884185 original size:539 final size:536
Alignment explanation
Indices: 882903--884564 Score: 2574
Period size: 539 Copynumber: 3.1 Consensus size: 536
882893 ATATATATAT
* * * * **
882903 ATAAACTATATAAAGTAATAAAATATATAGTTTATAAAAATCC-TAAAACATAAACCATAAACTT
1 ATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAA-CCTTAAATCCTAAATCATAAACCC
* * * *
882967 TAAATC---AC---AAA-CACTAAACACTAAATCATAAACCCTAATATAAATAGACTATCACTAA
65 TAATTCTAAACTTTAAACCA-TAAACACTAAACCATAAACCCTAATTTAAATAGACTAGCACTAA
* * *
883025 TGCATATATATTTGTAATAAAAGAGTGGGCTTGCATTGAGCCTATCTAAATTAATGTTAATGGAC
129 TGCATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGTAAACTAATGTTAATGGAC
* *
883090 TAGCACTATTACAAATTGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAA
194 TAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAA
* * * * * *
883155 TGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAAATGAAATTAGTA
259 TGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAATTAATA
883220 TGACATGTACTACTATTTATGAACCATATAATATAG-AATGTGACATACTAATTATTTAACACCT
324 TGACATGTACTACTATTTATGAACCATATAATAT-GCAATGTGACATACTAATTATTTAACACCT
883284 AATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAAATAATTTTATA
388 AATTAATCATGTTTTATATAATTT-CA-TT---TAA----A-TAATTTTATTAAATAATTTTATA
*
883349 TAATATGTATGTATAAACCATGTATAGTATATAAACTATATATATATATATA-TATACTATA-TA
443 TAATATGTATGTATAAACCATGTATAGTATATAAACTATATATATATA-A-ACTATA-TAAAGTA
* *
883412 AATTACTTATATAGTTTATATAAACACTATAC
505 AATTACTTATATAGTTTATAGAAACACTATGC
* *
883444 ATAAACTATATAAAGTAGTAAAATATATAGTTTATAGAAACCTTAAATCCTTAATCATAAACCCT
1 ATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCTTAAATCCTAAATCATAAACCCT
883509 AATTCTAAACTTTAAACCATAAACACTAAACCATAAACCCTAATTTAAATAGACTAGCACTAATG
66 AATTCTAAACTTTAAACCATAAACACTAAACCATAAACCCTAATTTAAATAGACTAGCACTAATG
883574 CATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGTAAACTAATGTTAATGGACTA
131 CATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGTAAACTAATGTTAATGGACTA
* *
883639 TCACTATTGCAAATGGATTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAATG
196 GCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAATG
883704 AGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAATTAATATG
261 AGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAATTAATATG
883769 ACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAAT
326 ACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAAT
883834 TAATCATGTTTTATATAATTTTCATTTAAATAATTTTATTAAATAATTTTATATAATATGTATGT
391 TAATCATGTTTTATATAA-TTTCATTTAAATAATTTTATTAAATAATTTTATATAATATGTATGT
*
883899 ATAAACCATGTATAGTATATATAAACTATATATATATAAACTATATAAAGCAAATTACTTATATA
455 ATAAACCATGTATAG--TATATAAACTATATATATATAAACTATATAAAGTAAATTACTTATATA
883964 GTTTATAGAAACACTATGC
518 GTTTATAGAAACACTATGC
883983 ATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCTTAAATCCTAAATCATAAACCCT
1 ATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCTTAAATCCTAAATCATAAACCCT
*
884048 AATTCTAAACTTTAAACCATAAACACTAAACCATAAACCCTAATTTAAATGGACTAGCACTAATG
66 AATTCTAAACTTTAAACCATAAACACTAAACCATAAACCCTAATTTAAATAGACTAGCACTAATG
884113 CATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGTAAACTAATGTTAATGGACTA
131 CATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGTAAACTAATGTTAATGGACTA
*
884178 GCACTATTGCAAATGGACTTGTTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAATG
196 GCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAATG
884243 AGCCATTAATGTGAATTAACCTAACAT--AACTAAAATACAAATTATGCAATTTAAATTAATATG
261 AGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAATTAATATG
884306 ACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAAT
326 ACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAAT
*
884371 TAATCATGTTTTATAT-A----ATTT--A-CA---T-TTAAATAATTTTATATAATATGTATGTA
391 TAATCATGTTTTATATAATTTCATTTAAATAATTTTATTAAATAATTTTATATAATATGTATGTA
884424 TAAACCATGTATAG-------------TATATATAAACTATATAAAGTAAATTACTTATATAGTT
456 TAAACCATGTATAGTATATAAACTATATATATATAAACTATATAAAGTAAATTACTTATATAGTT
884476 TATAGAAACACTATGC
521 TATAGAAACACTATGC
* *
884492 ATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCCTAAACCCTAAATCATAAACCCT
1 ATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCTTAAATCCTAAATCATAAACCCT
884557 AATT-TAAA
66 AATTCTAAA
884565 TGGACTAGCA
Statistics
Matches: 1068, Mismatches: 39, Indels: 61
0.91 0.03 0.05
Matches are distributed among these distances:
508 4 0.00
509 120 0.11
524 42 0.04
525 1 0.00
528 1 0.00
529 1 0.00
531 4 0.00
536 1 0.00
537 117 0.11
538 54 0.05
539 318 0.30
540 23 0.02
541 58 0.05
543 3 0.00
544 2 0.00
546 3 0.00
547 311 0.29
548 5 0.00
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.36
Consensus pattern (536 bp):
ATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCTTAAATCCTAAATCATAAACCCT
AATTCTAAACTTTAAACCATAAACACTAAACCATAAACCCTAATTTAAATAGACTAGCACTAATG
CATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGTAAACTAATGTTAATGGACTA
GCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAATG
AGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAATTAATATG
ACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAAT
TAATCATGTTTTATATAATTTCATTTAAATAATTTTATTAAATAATTTTATATAATATGTATGTA
TAAACCATGTATAGTATATAAACTATATATATATAAACTATATAAAGTAAATTACTTATATAGTT
TATAGAAACACTATGC
Found at i:884459 original size:20 final size:20
Alignment explanation
Indices: 884407--884459 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
884397 TAAATAATTT
*
884407 TATATAATATGTATGTATAAAC
1 TATATAA-A-GTATATATAAAC
* * *
884429 CATGTATAGTATATATAAAC
1 TATATAAAGTATATATAAAC
884449 TATATAAAGTA
1 TATATAAAGTA
884460 AATTACTTAT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
20 19 0.79
21 1 0.04
22 4 0.17
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (20 bp):
TATATAAAGTATATATAAAC
Found at i:884950 original size:15 final size:15
Alignment explanation
Indices: 884925--884961 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
884915 ATAAACCATG
884925 TATAGTATATATAAAC
1 TATA-TATATATAAAC
884941 TATATATATATAAAC
1 TATATATATATAAAC
884956 TATATA
1 TATATA
884962 AAGTAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:885061 original size:14 final size:14
Alignment explanation
Indices: 885036--885106 Score: 63
Period size: 14 Copynumber: 5.1 Consensus size: 14
885026 TAATTTATAG
*
885036 AAACCCTAAACCCT
1 AAACCATAAACCCT
*
885050 AAATCATAAACCCT
1 AAACCATAAACCCT
** **
885064 AATTC-TAAACTTT
1 AAACCATAAACCCT
**
885077 AAACCATAAATACT
1 AAACCATAAACCCT
885091 AAACCATAAACCCT
1 AAACCATAAACCCT
885105 AA
1 AA
885107 TTTAAATGGA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
13 9 0.20
14 35 0.80
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:885081 original size:41 final size:40
Alignment explanation
Indices: 885036--885112 Score: 109
Period size: 41 Copynumber: 1.9 Consensus size: 40
885026 TAATTTATAG
* * *
885036 AAACCCTAAACCCTAAATCATAAACCCTAATTCTAAACTTT
1 AAACCATAAACACTAAACCATAAACCCTAATT-TAAACTTT
*
885077 AAACCATAAATACTAAACCATAAACCCTAATTTAAA
1 AAACCATAAACACTAAACCATAAACCCTAATTTAAA
885113 TGGACTAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 4 0.12
41 28 0.88
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (40 bp):
AAACCATAAACACTAAACCATAAACCCTAATTTAAACTTT
Found at i:885100 original size:21 final size:20
Alignment explanation
Indices: 885048--885107 Score: 57
Period size: 21 Copynumber: 3.0 Consensus size: 20
885038 ACCCTAAACC
* * *
885048 CTAAATCATAAACCCTAATT
1 CTAAACCATAAACCATAATA
**
885068 CTAAACTTTAAACCATAAATA
1 CTAAACCATAAACCAT-AATA
*
885089 CTAAACCATAAACCCTAAT
1 CTAAACCATAAACCATAAT
885108 TTAAATGGAC
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (20 bp):
CTAAACCATAAACCATAATA
Found at i:885290 original size:14 final size:14
Alignment explanation
Indices: 885271--885317 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
885261 ATTTTGTATT
885271 TATATAAATTAAAC
1 TATATAAATTAAAC
885285 TATAT-AATT----
1 TATATAAATTAAAC
885294 TATATAAATTAAAC
1 TATATAAATTAAAC
*
885308 TATATTAATT
1 TATATAAATT
885318 TTCCTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:885295 original size:23 final size:24
Alignment explanation
Indices: 885268--885318 Score: 95
Period size: 23 Copynumber: 2.2 Consensus size: 24
885258 ATTATTTTGT
885268 ATTTATATAAATTAAACTATA-TA
1 ATTTATATAAATTAAACTATATTA
885291 ATTTATATAAATTAAACTATATTA
1 ATTTATATAAATTAAACTATATTA
885315 ATTT
1 ATTT
885319 TCCTTTGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
ATTTATATAAATTAAACTATATTA
Found at i:885612 original size:15 final size:16
Alignment explanation
Indices: 885565--885650 Score: 111
Period size: 16 Copynumber: 5.4 Consensus size: 16
885555 TGGATCATTT
*
885565 ACAGGCCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
*
885581 ACAAGTCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
885597 ACAGGTCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
* * *
885613 ACAAGTCAAGTTGAAA
1 ACAGGTCAGGTTAAAA
*
885629 ACA-GTCAGGTTGAAA
1 ACAGGTCAGGTTAAAA
885644 ACAGGTC
1 ACAGGTC
885651 GGGTAATACC
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
15 14 0.23
16 48 0.77
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.17
Consensus pattern (16 bp):
ACAGGTCAGGTTAAAA
Found at i:888132 original size:33 final size:33
Alignment explanation
Indices: 888052--888133 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 33
888042 CGAAGATTCT
*
888052 TCACCCAAGGTTGTGGGACTGGTTGGAGTTTCA
1 TCACCCAAGATTGTGGGACTGGTTGGAGTTTCA
* * * * *
888085 TCATCCAAGGTTGTGGGATTTGTTGGAGTTTCC
1 TCACCCAAGATTGTGGGACTGGTTGGAGTTTCA
* *
888118 TCGCCCAATATTGTGG
1 TCACCCAAGATTGTGG
888134 TAGTTGGACT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.17, C:0.18, G:0.30, T:0.34
Consensus pattern (33 bp):
TCACCCAAGATTGTGGGACTGGTTGGAGTTTCA
Found at i:888508 original size:59 final size:58
Alignment explanation
Indices: 888441--888641 Score: 195
Period size: 59 Copynumber: 3.4 Consensus size: 58
888431 TTCTTCACTC
* ** * * *
888441 CTGGGAATACTAGGGGTTGTTCTTTCAGGATAATGGCCGGTGTTTCTTCATCCAAGGTT
1 CTGGGAATACTAGGGGTTCTTCGGTCAGGA-AATAGCAGGAGTTTCTTCATCCAAGGTT
* * * ** * *
888500 CTGGGAATACTAGAGGTTTTTCGGCCAGGCAAATAGTTGGCGTTTCTTCGTCCAAGGTT
1 CTGGGAATACTAGGGGTTCTTCGGTCAGG-AAATAGCAGGAGTTTCTTCATCCAAGGTT
* * *
888559 CTGGGAATACTGGGGGTTTCTTCGGTCAAGGGAATAGCAGGAGTTTCTTCAACCAAGGTT
1 CTGGGAATACTAGGGG-TTCTTCGGTC-AGGAAATAGCAGGAGTTTCTTCATCCAAGGTT
* *
888619 GTGGGAATACTAAGGGTTTCTTC
1 CTGGGAATACT-AGGGGTTCTTC
888642 TTCCACAGAA
Statistics
Matches: 115, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
59 61 0.53
60 48 0.42
61 6 0.05
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (58 bp):
CTGGGAATACTAGGGGTTCTTCGGTCAGGAAATAGCAGGAGTTTCTTCATCCAAGGTT
Found at i:888615 original size:60 final size:60
Alignment explanation
Indices: 888482--888641 Score: 198
Period size: 60 Copynumber: 2.7 Consensus size: 60
888472 AATGGCCGGT
* * ** *
888482 GTTTCTTCATCCAAGGTTCTGGGAATACTAGAGGTTT-TTCGGCCAGGCAAATAGTTGGC
1 GTTTCTTCATCCAAGGTTCTGGGAATACTAGGGGTTTCTTCGGCAAGGCAAATAGCAGGA
* * *
888541 GTTTCTTCGTCCAAGGTTCTGGGAATACTGGGGGTTTCTTCGGTCAAGG-GAATAGCAGGA
1 GTTTCTTCATCCAAGGTTCTGGGAATACTAGGGGTTTCTTCGG-CAAGGCAAATAGCAGGA
* * *
888601 GTTTCTTCAACCAAGGTTGTGGGAATACTAAGGGTTTCTTC
1 GTTTCTTCATCCAAGGTTCTGGGAATACTAGGGGTTTCTTC
888642 TTCCACAGAA
Statistics
Matches: 86, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
59 34 0.40
60 48 0.56
61 4 0.05
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (60 bp):
GTTTCTTCATCCAAGGTTCTGGGAATACTAGGGGTTTCTTCGGCAAGGCAAATAGCAGGA
Found at i:889130 original size:33 final size:33
Alignment explanation
Indices: 889083--889174 Score: 157
Period size: 33 Copynumber: 2.8 Consensus size: 33
889073 CAACATCCAT
*
889083 TGTTCCCTCATACATGCTTGTGGCAATGGGCAA
1 TGTTTCCTCATACATGCTTGTGGCAATGGGCAA
*
889116 TGTTTCCTCATACATGCTTGCGGCAATGGGCAA
1 TGTTTCCTCATACATGCTTGTGGCAATGGGCAA
*
889149 TGTGTCCTCATACATGCTTGTGGCAA
1 TGTTTCCTCATACATGCTTGTGGCAA
889175 CGCCTGAAGT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.32
Consensus pattern (33 bp):
TGTTTCCTCATACATGCTTGTGGCAATGGGCAA
Done.