Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005407.1 Hibiscus syriacus cultivar Beakdansim tig00012399_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: 53587
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:128 original size:68 final size:71
Alignment explanation
Indices: 6--210 Score: 278
Period size: 68 Copynumber: 2.9 Consensus size: 71
1 TGTTT
*
6 TTCTTAAAACAGACCTTGTCTCACTTGAGACTG-TTTACTTGAAAGAGGATTTATTTCCCTTAAG
1 TTCTTAAAACAGACC-TGTCTCACTTGAGACTGTTTTACTTGAAAGAGGATTTATTTCCCTCAAG
70 ATTGTCA
65 ATTGTCA
* *
77 TTCTTAAAACA-ACCT-TCTCACTTGAGACTGTTTTACTTGGAATAGGA-TTATTTCCCTCAAGA
1 TTCTTAAAACAGACCTGTCTCACTTGAGACTGTTTTACTTGAAAGAGGATTTATTTCCCTCAAGA
**
139 TTGTTT
66 TTGTCA
* * *
145 TTCTTAAAACAGACTTTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGATTTATTT-CCTC-AG
1 TTCTTAAAACAGAC-CTGTCTCACTTGAGACTGTTTTACTTGAAAGAGGATTTATTTCCCTCAAG
208 ATT
65 ATT
211 TTCTTAAATT
Statistics
Matches: 119, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
68 44 0.37
69 17 0.14
70 9 0.08
71 43 0.36
72 6 0.05
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.40
Consensus pattern (71 bp):
TTCTTAAAACAGACCTGTCTCACTTGAGACTGTTTTACTTGAAAGAGGATTTATTTCCCTCAAGA
TTGTCA
Found at i:206 original size:71 final size:71
Alignment explanation
Indices: 1--210 Score: 288
Period size: 71 Copynumber: 3.0 Consensus size: 71
1 TGTTTTTCTTAAAACAGACCTTGTCTCACTTGAGACTG-TTTACTTGAAAGAGGATTTATTTCCC
1 TGTTTTTCTTAAAACAGA-CTTGTCTCACTTGAGACTGTTTTACTTGAAAGAGGATTTATTTCCC
*
65 TTAAGAT
65 TCAAGAT
** * * *
72 TGTCATTCTTAAAACA-ACCT-TCTCACTTGAGACTGTTTTACTTGGAATAGGA-TTATTTCCCT
1 TGTTTTTCTTAAAACAGACTTGTCTCACTTGAGACTGTTTTACTTGAAAGAGGATTTATTTCCCT
134 CAAGAT
66 CAAGAT
* *
140 TGTTTTTCTTAAAACAGACTTTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGATTTATTT-CC
1 TGTTTTTCTTAAAACAGAC-TTGTCTCACTTGAGACTGTTTTACTTGAAAGAGGATTTATTTCCC
204 TC-AGAT
65 TCAAGAT
210 T
1 T
211 TTCTTAAATT
Statistics
Matches: 121, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
68 44 0.36
69 18 0.15
70 7 0.06
71 46 0.38
72 6 0.05
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.40
Consensus pattern (71 bp):
TGTTTTTCTTAAAACAGACTTGTCTCACTTGAGACTGTTTTACTTGAAAGAGGATTTATTTCCCT
CAAGAT
Found at i:350 original size:35 final size:37
Alignment explanation
Indices: 304--389 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
294 ATTGAAAACA
** * *
304 TTTCCCTTGAAA-TGAATTTTGTCTCTCTT-AGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
339 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
*
376 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
390 TAAACATTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
35 12 0.27
36 14 0.32
37 18 0.41
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.41
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:480 original size:37 final size:37
Alignment explanation
Indices: 420--491 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
410 CTTGAAATGG
* * *
420 ATTTTGTCTCTCTTGAGATAGTTTCCCCTGAAACAAA
1 ATTTTGTCTCCCTCGAGACAGTTTCCCCTGAAACAAA
* *
457 ATTTTGTCTCCCTCGAGACAGTTTCTCTTGAAACA
1 ATTTTGTCTCCCTCGAGACAGTTTCCCCTGAAACA
492 TAAACATTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.38
Consensus pattern (37 bp):
ATTTTGTCTCCCTCGAGACAGTTTCCCCTGAAACAAA
Found at i:495 original size:102 final size:102
Alignment explanation
Indices: 223--619 Score: 690
Period size: 101 Copynumber: 3.9 Consensus size: 102
213 CTTAAATTTA
* * *
223 TCTCGCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCGCTTGAGATAGTTTCTCTTGAAAC
1 TCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
288 ATAAACATTGAAAACATTTCCCTTGAAATGAATTTTG
66 ATAAACATTGAAAACATTTCCCTTGAAATGAATTTTG
325 TCTCTCTT-AGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
1 TCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
*
389 ATAAACATTGAAAACATTTCCCTTGAAATGGATTTTG
66 ATAAACATTGAAAACATTTCCCTTGAAATGAATTTTG
* *
426 TCTCTCTTGAGATAGTTTCCCCTGAAACAAAATTTTGTCTCCCTCGAGACAGTTTCTCTTGAAAC
1 TCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
* *
491 ATAAACATTGAAAACATTTCTCTTGAAATAAATTTTG
66 ATAAACATTGAAAACATTTCCCTTGAAATGAATTTTG
528 TCTCTCTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
1 TCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
*
592 ATAAACTTTGAAAACAGTTTCCCTTGAA
66 ATAAACATTGAAAACA-TTTCCCTTGAA
620 CAAAATCTTT
Statistics
Matches: 280, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
101 148 0.53
102 132 0.47
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (102 bp):
TCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
ATAAACATTGAAAACATTTCCCTTGAAATGAATTTTG
Found at i:560 original size:36 final size:36
Alignment explanation
Indices: 507--592 Score: 136
Period size: 36 Copynumber: 2.4 Consensus size: 36
497 ATTGAAAACA
* * *
507 TTTCTCTTGAAATAAATTTTGTCTCTCTTGAGATAG
1 TTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAG
*
543 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAG
579 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
593 TAAACTTTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.42
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAG
Found at i:577 original size:203 final size:204
Alignment explanation
Indices: 223--619 Score: 699
Period size: 203 Copynumber: 2.0 Consensus size: 204
213 CTTAAATTTA
* * * *
223 TCTCGCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCGCTTGAGATAGTTTCTCTTGAAAC
1 TCTCGCTTGAGATAGTTTCCCCTGAAACAAAATTTTGTCTCCCTCGAGACAGTTTCTCTTGAAAC
*
288 ATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTAGATAGTTTCCCTTGAAACA
66 ATAAACATTGAAAACATTTCCCTTGAAATAAATTTTGTCTCTCTTAGATAGTTTCCCTTGAAACA
353 AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA-TTTCCCTTGAAA
131 AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACAGTTTCCCTTGAAA
417 TGGATTTTG
196 TGGATTTTG
*
426 TCTCTCTTGAGATAGTTTCCCCTGAAACAAAATTTTGTCTCCCTCGAGACAGTTTCTCTTGAAAC
1 TCTCGCTTGAGATAGTTTCCCCTGAAACAAAATTTTGTCTCCCTCGAGACAGTTTCTCTTGAAAC
*
491 ATAAACATTGAAAACATTTCTCTTGAAATAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC
66 ATAAACATTGAAAACATTTCCCTTGAAATAAATTTTGTCTCTCTT-AGATAGTTTCCCTTGAAAC
*
556 -AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAACAGTTTCCCTTGAA
130 AAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACAGTTTCCCTTGAA
620 CAAAATCTTT
Statistics
Matches: 184, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
203 154 0.84
204 30 0.16
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (204 bp):
TCTCGCTTGAGATAGTTTCCCCTGAAACAAAATTTTGTCTCCCTCGAGACAGTTTCTCTTGAAAC
ATAAACATTGAAAACATTTCCCTTGAAATAAATTTTGTCTCTCTTAGATAGTTTCCCTTGAAACA
AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACAGTTTCCCTTGAAA
TGGATTTTG
Found at i:717 original size:95 final size:98
Alignment explanation
Indices: 450--855 Score: 301
Period size: 101 Copynumber: 4.1 Consensus size: 98
440 GTTTCCCCTG
* * * * * *
450 AAACAAAATTTTGTCTCCCTCGAGACAGTTTCTCTTGAAACATAAA-CATTGAAAACATTTCT-C
1 AAAC-AAATTTTGTCTCTCTTGAGACAGTTTCACTTGAAACA-AAATCTTTGAATATATTT-TAC
* * * * **
513 -TTGAAATAAATTTTGTCTCTCTTGAGATAGTTTCCCTT
63 ATT-AAACAAATATCG--TCTCTTGAGACAGTTTCTATT
* * * * * * *
551 GAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAA-CTTTGAAAACAGTTTCCC
1 -AAACAAATTTTGTCTCTCTTGAGACAGTTTCACTTGAAACA-AAATCTTTGAATATATTTTACA
* *
615 TTGAACAAA-ATC-T-T-TTGA-ATATGTTT-TACATT
64 TTAAACAAATATCGTCTCTTGAGACA-GTTTCT--ATT
647 AAACAAATTTTGTCTCTCTTGAGACAGTTTCACTTGAAACAAAATCTTTGAATATATTTTACATT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCACTTGAAACAAAATCTTTGAATATATTTTACATT
* *
712 AAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTT
66 AAACAAATATCGTCT--CTTGAGACAGTTTCTATT
* * *
747 AGAACAAAGTTTTGTCTCTCTTGAGACTGTTTCCCTTGAAACAAAATCTTTTGAATATGTTTTAC
1 A-AACAAA-TTTTGTCTCTCTTGAGACAGTTTCACTTGAAACAAAATC-TTTGAATATATTTTAC
* * * *
812 ATTAAGCAAATTTCGTCTCCCCTGAGACAGTTTCTCTT
63 ATTAAACAAATATCGTCT--CTTGAGACAGTTTCTATT
850 GAAACA
1 -AAACA
856 CCAGCCTTTG
Statistics
Matches: 260, Mismatches: 26, Indels: 35
0.81 0.08 0.11
Matches are distributed among these distances:
94 6 0.02
95 68 0.26
96 5 0.02
97 2 0.01
98 1 0.00
100 5 0.02
101 72 0.28
102 46 0.18
103 54 0.21
104 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.38
Consensus pattern (98 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCACTTGAAACAAAATCTTTGAATATATTTTACATT
AAACAAATATCGTCTCTTGAGACAGTTTCTATT
Found at i:754 original size:65 final size:65
Alignment explanation
Indices: 605--742 Score: 224
Period size: 65 Copynumber: 2.1 Consensus size: 65
595 AACTTTGAAA
* * * *
605 ACAGTTTCCCTTGAACAAAATCTTTTGAATATGTTTTACATTAAACAAATTTTGTCTCTCTTGAG
1 ACAGTTTCACTTGAACAAAATCTTTTGAATATATTTTACATTAAACAAATTTCGTCTCCCTTGAG
670 ACAGTTTCACTTGAAACAAAATC-TTTGAATATATTTTACATTAAACAAATTTCGTCTCCCTTGA
1 ACAGTTTCACTTG-AACAAAATCTTTTGAATATATTTTACATTAAACAAATTTCGTCTCCCTTGA
734 G
65 G
735 ACAGTTTC
1 ACAGTTTC
743 TTTTAGAACA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
65 59 0.87
66 9 0.13
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (65 bp):
ACAGTTTCACTTGAACAAAATCTTTTGAATATATTTTACATTAAACAAATTTCGTCTCCCTTGAG
Found at i:779 original size:102 final size:102
Alignment explanation
Indices: 648--846 Score: 337
Period size: 103 Copynumber: 2.0 Consensus size: 102
638 TTTTACATTA
648 AACAAATTTTGTCTCTCTTGAGACAGTTTCACTTGAAACAAAATC-TTTGAATATATTTTACATT
1 AACAAATTTTGTCTCTCTTGAGACAGTTTCACTTGAAACAAAATCTTTTGAATATATTTTACATT
*
712 AAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTAG
66 AAACAAATTTCGTCTCCCCTGAGACAGTTTCTTTTAG
* * *
749 AACAAAGTTTTGTCTCTCTTGAGACTGTTTCCCTTGAAACAAAATCTTTTGAATATGTTTTACAT
1 AACAAA-TTTTGTCTCTCTTGAGACAGTTTCACTTGAAACAAAATCTTTTGAATATATTTTACAT
*
814 TAAGCAAATTTCGTCTCCCCTGAGACAGTTTCT
65 TAAACAAATTTCGTCTCCCCTGAGACAGTTTCT
847 CTTGAAACAC
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
101 6 0.07
102 37 0.41
103 48 0.53
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (102 bp):
AACAAATTTTGTCTCTCTTGAGACAGTTTCACTTGAAACAAAATCTTTTGAATATATTTTACATT
AAACAAATTTCGTCTCCCCTGAGACAGTTTCTTTTAG
Found at i:790 original size:37 final size:35
Alignment explanation
Indices: 712--791 Score: 88
Period size: 37 Copynumber: 2.2 Consensus size: 35
702 ATTTTACATT
* *
712 AAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTT
1 AAACAAATTTCGTCTCCCTTGAGACAGTTTCCTTG
* * *
747 AGAACAAAGTTTTGTCTCTCTTGAGACTGTTTCCCTTG
1 A-AACAAA-TTTCGTCTCCCTTGAGACAGTTT-CCTTG
785 AAACAAA
1 AAACAAA
792 ATCTTTTGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 6 0.16
37 26 0.70
38 4 0.11
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (35 bp):
AAACAAATTTCGTCTCCCTTGAGACAGTTTCCTTG
Found at i:981 original size:33 final size:35
Alignment explanation
Indices: 909--986 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 35
899 CTGGAGACAG
909 TTTCTCTTGAAACACAAAAAAAAACCTTTGAAAATCA
1 TTTCTCTTGAAACAC--AAAAAAACCTTTGAAAATCA
*
946 TTTCTCTTGAAACAC-AAAGAACCTTT-AAAATCA
1 TTTCTCTTGAAACACAAAAAAACCTTTGAAAATCA
979 TTTCTCTT
1 TTTCTCTT
987 AAAAAACCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
33 15 0.38
34 10 0.25
37 15 0.38
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.33
Consensus pattern (35 bp):
TTTCTCTTGAAACACAAAAAAACCTTTGAAAATCA
Found at i:2889 original size:23 final size:21
Alignment explanation
Indices: 2835--2912 Score: 67
Period size: 20 Copynumber: 3.8 Consensus size: 21
2825 GTATATGTAT
2835 ATATTTTTT-TATTTTCATT--
1 ATATTTTTTATATTTT-ATTAC
2854 AT-TTCTTTTATATTTTATGTAC
1 ATATT-TTTTATATTTTAT-TAC
*
2876 ATATATTTTTATA-TTTATTAT
1 ATAT-TTTTTATATTTTATTAC
*
2897 ATATTTTTTTTATTTT
1 ATATTTTTTATATTTT
2913 TTTCTCTTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
18 2 0.04
19 8 0.16
20 14 0.29
21 9 0.18
22 7 0.14
23 8 0.16
24 1 0.02
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.71
Consensus pattern (21 bp):
ATATTTTTTATATTTTATTAC
Found at i:3069 original size:2 final size:2
Alignment explanation
Indices: 3028--3054 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3018 TTTCTTTTAT
3028 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
3055 TTCATTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3197 original size:26 final size:26
Alignment explanation
Indices: 3168--3217 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
3158 GTATTAGGTT
* * *
3168 TTTTTTATTACTATTTTGTTTTTTTC
1 TTTTTCATTACTATATTATTTTTTTC
*
3194 TTTTTCATTATTATATTATTTTTT
1 TTTTTCATTACTATATTATTTTTT
3218 ACATAATATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (26 bp):
TTTTTCATTACTATATTATTTTTTTC
Found at i:3233 original size:2 final size:2
Alignment explanation
Indices: 3223--3252 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
3213 TTTTTACATA
*
3223 AT AT TT 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
3253 TATTTTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:14481 original size:3 final size:3
Alignment explanation
Indices: 14473--14498 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14463 AGAGATATTC
14473 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
14499 ATGTACGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:15887 original size:31 final size:31
Alignment explanation
Indices: 15845--15938 Score: 138
Period size: 31 Copynumber: 3.0 Consensus size: 31
15835 AGGGTCGAGG
15845 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
15876 GTTTACTTATGTT-TATCGGGACATATGGACT
1 GTTTACCTATGTTCT-TCGGGACATATGGACT
*
15907 GTTTACCTAGGTTCTTCGGGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
15938 G
1 G
15939 GTCCTTCGAG
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
30 1 0.02
31 54 0.95
32 2 0.04
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:20282 original size:31 final size:31
Alignment explanation
Indices: 20247--20327 Score: 153
Period size: 31 Copynumber: 2.6 Consensus size: 31
20237 GGTCTAGGAC
*
20247 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTAT
20278 TTACCTATGTTCTTCGGGACATATGGACTAT
1 TTACCTATGTTCTTCGGGACATATGGACTAT
20309 TTACCTATGTTCTTCGGGA
1 TTACCTATGTTCTTCGGGA
20328 TCTATGAACT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.40
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTAT
Found at i:23515 original size:24 final size:24
Alignment explanation
Indices: 23483--23540 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
23473 TAAACATGAA
23483 CAATAGAAGAGCAAAGACTGATGC
1 CAATAGAAGAGCAAAGACTGATGC
23507 CAATAGAAGAGCAAAGACTGATGC
1 CAATAGAAGAGCAAAGACTGATGC
*
23531 CGATAGAAGA
1 CAATAGAAGA
23541 ACAACAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.47, C:0.16, G:0.26, T:0.12
Consensus pattern (24 bp):
CAATAGAAGAGCAAAGACTGATGC
Found at i:28210 original size:2 final size:2
Alignment explanation
Indices: 28203--28227 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
28193 TCATAACATG
28203 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
28228 GCAATTAAAG
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:28737 original size:11 final size:11
Alignment explanation
Indices: 28696--28720 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
28686 AGACATTACA
28696 CGCCCCGCATC
1 CGCCCCGCATC
28707 CGCCCCGCATC
1 CGCCCCGCATC
28718 CGC
1 CGC
28721 TCGCCCCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.64, G:0.20, T:0.08
Consensus pattern (11 bp):
CGCCCCGCATC
Found at i:31313 original size:21 final size:20
Alignment explanation
Indices: 31227--31384 Score: 79
Period size: 21 Copynumber: 7.8 Consensus size: 20
31217 AAATGACCAA
**
31227 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
31246 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
31266 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
31286 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
31307 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
31328 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
*
31348 CCAAAATCGCAACGCGAATATT
1 -CAAAATCGCAACGCG-ATTTT
*
31370 -AAAATCGCGACGCGA
1 CAAAATCGCAACGCGA
31385 ACACATAAAT
Statistics
Matches: 104, Mismatches: 28, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
19 17 0.16
20 39 0.38
21 44 0.42
22 4 0.04
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:31413 original size:20 final size:20
Alignment explanation
Indices: 31390--31582 Score: 164
Period size: 20 Copynumber: 9.7 Consensus size: 20
31380 CGCGAACACA
31390 TAAATCGCAACACGTATCCG
1 TAAATCGCAACACGTATCCG
**
31410 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACACGTATCCG
* **
31430 TAAATCGCAACGCGTATGGG
1 TAAATCGCAACACGTATCCG
**
31450 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACACGTATCCG
* *
31470 TATATCGCAACGCGTATCCG
1 TAAATCGCAACACGTATCCG
31490 TAAATCGC-A-ACGATAATCCG
1 TAAATCGCAACACG-T-ATCCG
* *
31510 TAAATCGCAACGA-GAATCTG
1 TAAATCGCAAC-ACGTATCCG
31530 TAAATCGC-A-ACGATAATCCG
1 TAAATCGCAACACG-T-ATCCG
* *
31550 TAAATCGCAACGA-GAATCTG
1 TAAATCGCAAC-ACGTATCCG
*
31570 TAAATCACAACAC
1 TAAATCGCAACAC
31583 TGAAATTTTG
Statistics
Matches: 142, Mismatches: 19, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
17 1 0.01
18 3 0.02
19 4 0.03
20 128 0.90
21 2 0.01
22 2 0.01
23 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (20 bp):
TAAATCGCAACACGTATCCG
Found at i:31415 original size:40 final size:40
Alignment explanation
Indices: 31390--31580 Score: 215
Period size: 40 Copynumber: 4.8 Consensus size: 40
31380 CGCGAACACA
* *
31390 TAAATCGCAACACGTATCCGTAAATCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCG
** *
31430 TAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCG
* *
31470 TATATCGCAACGCGTATCCGTAAATCGCAACG-ATAATCCG
1 TAAATCGCAACGCGTATCCGTAAATCGCAACGCGT-ATCCG
* * * *
31510 TAAATCGCAACGAGAATCTGTAAATCGCAACG-ATAATCCG
1 TAAATCGCAACGCGTATCCGTAAATCGCAACGCGT-ATCCG
* * * *
31550 TAAATCGCAACGAGAATCTGTAAATCACAAC
1 TAAATCGCAACGCGTATCCGTAAATCGCAAC
31581 ACTGAAATTT
Statistics
Matches: 135, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 1 0.01
40 134 0.99
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (40 bp):
TAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCG
Found at i:31435 original size:60 final size:59
Alignment explanation
Indices: 31371--31582 Score: 203
Period size: 60 Copynumber: 3.5 Consensus size: 59
31361 GCGAATATTA
* *
31371 AAATCGCGACGCGAACACATAAATCGCAACACGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAAC-CGTAAATCGCAACACGTATCCGTAAATCGCAACGTGTATCCGT
*** ** * *
31431 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGCG-AACCGTAAATCGCAACACGTATCCGTAAATCGCAACGTGTATCCGT
** * * *
31491 AAATCGCAACGATAATCCGTAAATCGCAACGA-GAATCTGTAAATCGCAACGAT-AATCCGT
1 AAATCGCAACGCGAA-CCGTAAATCGCAAC-ACGTATCCGTAAATCGCAACG-TGTATCCGT
* * *
31551 AAATCGCAACGAGAATCTGTAAATCACAACAC
1 AAATCGCAACGCGAA-CCGTAAATCGCAACAC
31583 TGAAATTTTG
Statistics
Matches: 123, Mismatches: 24, Indels: 10
0.78 0.15 0.06
Matches are distributed among these distances:
59 2 0.02
60 120 0.98
61 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.20
Consensus pattern (59 bp):
AAATCGCAACGCGAACCGTAAATCGCAACACGTATCCGTAAATCGCAACGTGTATCCGT
Found at i:32295 original size:24 final size:24
Alignment explanation
Indices: 32256--32302 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
32246 AAATTTGGTC
32256 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
32280 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
32303 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:32494 original size:12 final size:12
Alignment explanation
Indices: 32477--32501 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32467 ATATAATCCT
32477 GAAGAAGAAAAA
1 GAAGAAGAAAAA
32489 GAAGAAGAAAAA
1 GAAGAAGAAAAA
32501 G
1 G
32502 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:34870 original size:67 final size:67
Alignment explanation
Indices: 34760--35183 Score: 331
Period size: 70 Copynumber: 6.2 Consensus size: 67
34750 GCATTTGACT
** * *
34760 ATCGCAACACGGAAATTACAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAAC-ATG
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACGA-G
34824 AAA
65 AAA
* *
34827 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGTAATGCGAAATG-AAATCGCAACGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACGAGA
*
34891 GA
66 AA
*
34893 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--CGA
*
34957 AATGAA
64 GA--AA
* * * *
34963 ATCGCAA--CGAGAGAATCG-CAATGCGAAATGA-A-AATCGCAATGCGAAATGAAAATCGCAAC
1 ATCGCAATGCG-GA-AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAAC
*
35023 GAGAGA
62 GAGAAA
* * * * * *
35029 ATCGCAATGC-GAAATG-AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-TAATGCG
1 ATCGCAATGCGGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGA-AAT-GAAAATCCC
35091 AA--ATGAAA
59 AACGA-GAAA
* *
35099 ATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATG-AAATCGCAA
1 ATCGCAATGCGGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCCCAA
*
35162 CGAGAGA
61 CGAGAAA
35169 ATCGCAATGC-GAAAT
1 ATCGCAATGCGGAAAT
35184 TATAAACGCA
Statistics
Matches: 299, Mismatches: 32, Indels: 49
0.79 0.08 0.13
Matches are distributed among these distances:
63 4 0.01
64 4 0.01
65 42 0.14
66 41 0.14
67 47 0.16
68 10 0.03
69 8 0.03
70 88 0.29
71 47 0.16
72 8 0.03
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (67 bp):
ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACGAGA
AA
Found at i:34916 original size:19 final size:19
Alignment explanation
Indices: 34793--35161 Score: 375
Period size: 19 Copynumber: 21.4 Consensus size: 19
34783 GCAACGAGAG
34793 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
34812 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
34826 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
34846 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
34860 AATCGTAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
*
34878 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
34892 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
34911 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
34925 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
34944 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
*
34962 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
34976 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
34995 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
35014 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
35028 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
35046 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
35065 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
35079 AATCGTAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
35098 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
35117 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
35136 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
35154 AATCGCAA
1 AATCGCAA
35162 CGAGAGAATC
Statistics
Matches: 293, Mismatches: 18, Indels: 79
0.75 0.05 0.20
Matches are distributed among these distances:
13 2 0.01
14 68 0.23
15 4 0.01
16 17 0.06
17 8 0.03
18 49 0.17
19 132 0.45
20 13 0.04
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:34965 original size:84 final size:83
Alignment explanation
Indices: 34860--35143 Score: 324
Period size: 84 Copynumber: 3.3 Consensus size: 83
34850 GCAACGAGAG
* *
34860 AATCGTAATGCGAAATGAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGAGA-
34925 AATCGCAATGCGAAATGAA
65 AATCGCAATGCGAAATGAA
*
34944 AATCGCAATGCGAAATGAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 AATCGCAATGCGAAATGAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGAGAA
* * *
35009 AT-GAAAAT-CGCAACGAGA
66 ATCG-CAATGCGAAATGA-A
* * * *
35027 GAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-TAATGCG
1 -AATCGCAATGCGAAATGAAATCGCAA--CG--A-GAGAATCGCAATGCGA-AAT-GAAAAT-CG
*
35091 AAATGA-AAATCGCAATGCGAAATGAA
57 CAATGAGAAATCGCAATGCGAAATGAA
35117 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATG-AAATCGCAA
35144 TGCGAAATGA
Statistics
Matches: 171, Mismatches: 15, Indels: 22
0.82 0.07 0.11
Matches are distributed among these distances:
82 7 0.04
83 7 0.04
84 87 0.51
86 2 0.01
88 1 0.01
89 30 0.18
90 23 0.13
91 14 0.08
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (83 bp):
AATCGCAATGCGAAATGAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGAGAA
ATCGCAATGCGAAATGAA
Found at i:35018 original size:103 final size:103
Alignment explanation
Indices: 34838--35183 Score: 310
Period size: 103 Copynumber: 3.4 Consensus size: 103
34828 TCGCAATGCG
* *
34838 GAAATGAAAATCGCAACGAGAGAATCGTAATGCGAAATG-AAATCGCAA--CG--A-GAGAATCG
1 GAAATG-AAATCGCAACGAGAGAATCGAAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCG
*
34897 CAATGCGAAATGAAAATCGCAA-CGAGA-GAATCGCAATGC
65 CAA-GCGAAATGAAAATCGCAAGCGA-ATAAATCGCAATGC
* * * *
34936 GAAATGAAAATCGCAATGCGA-AAT-GAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAAAAT
1 GAAATG-AAATCGCAACGAGAGAATCGAAATGCGAAATGA-A-AATCGCAATGCGAAATGAAAAT
*
34998 CGCAATGCGAAATGAAAATCGCAA-CGAGA-GAATCGCAATGC
63 CGCAA-GCGAAATGAAAATCGCAAGCGA-ATAAATCGCAATGC
* * * * *
35039 GAAATGAAATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGAGAATCGTAATGCGAAATGAAAAT
1 GAAATGAAATCGCAACGAGAGAATCG-AAATGCGAAATGA-A-AATCGCAATGCGAAATGAAAAT
35101 CGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC
63 CGCAA-GCGAAATGAAAATCGCAA-GCG-AAT--AAATCGCAATGC
*
35147 GAAATGAAATCGCAACGAGAGAATCGCAATGCGAAAT
1 GAAATGAAATCGCAACGAGAGAATCGAAATGCGAAAT
35184 TATAAACGCA
Statistics
Matches: 217, Mismatches: 13, Indels: 24
0.85 0.05 0.09
Matches are distributed among these distances:
95 5 0.02
96 4 0.02
97 4 0.02
98 27 0.12
100 2 0.01
102 19 0.09
103 112 0.52
105 3 0.01
106 1 0.00
108 29 0.13
109 6 0.03
110 5 0.02
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (103 bp):
GAAATGAAATCGCAACGAGAGAATCGAAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGC
AAGCGAAATGAAAATCGCAAGCGAATAAATCGCAATGC
Found at i:35178 original size:51 final size:50
Alignment explanation
Indices: 34793--35183 Score: 268
Period size: 51 Copynumber: 7.6 Consensus size: 50
34783 GCAACGAGAG
* *
34793 AATCGCAATGCGAAAT-GAAAATCCCAACATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGAGAAATCG-AAAT-CGAA-ATGAAAATCGCAATGC-GAAATGAA
* * *
34846 AATCGCAACGAGAGAATCGTAATGCGAAATG-AAATCGCAA--CG--A-GAG
1 AATCGCAATGAGA-AATCGAAAT-CGAAATGAAAATCGCAATGCGAAATGAA
* * *
34892 AATCGCAATGCGAAAT-GAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGAGAAATCG-AAATCGAAATGA-A-AATCGCAATGCGAAATGAA
* * *
34944 AATCGCAATGCGAAAT-GAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGAGAAATCGAAATCGAAATGA-A-AATCGCAATGCGAAATGAA
* * *
34995 AATCGCAATGCGAAAT-GAAAATCGCAACGAGAGAATCGCAATGCGAAATG-A
1 AATCGCAATGAGAAATCG-AAATCGAAATGA-A-AATCGCAATGCGAAATGAA
* * * *
35046 AATCGCAATGCGAAAT-GAAAATCGCAACGAGAGAATCGTAATGCGAAATGAA
1 AATCGCAATGAGAAATCG-AAATCGAAATGA-A-AATCGCAATGCGAAATGAA
*
35098 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATG-A
1 AATCGCAAT--G--A-G-AAATCGAAAT-CGAAATGAAAATCGCAATGCGAAATGAA
* *
35154 AATCGCAACGAGAGAATCGCAATGCGAAAT
1 AATCGCAATGAGA-AATCGAAAT-CGAAAT
35184 TATAAACGCA
Statistics
Matches: 297, Mismatches: 19, Indels: 46
0.82 0.05 0.13
Matches are distributed among these distances:
44 6 0.02
45 6 0.02
46 14 0.05
47 9 0.03
49 3 0.01
50 2 0.01
51 119 0.40
52 71 0.24
53 14 0.05
54 11 0.04
55 1 0.00
56 9 0.03
57 17 0.06
58 8 0.03
59 7 0.02
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (50 bp):
AATCGCAATGAGAAATCGAAATCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:35299 original size:52 final size:53
Alignment explanation
Indices: 35190--35305 Score: 225
Period size: 52 Copynumber: 2.2 Consensus size: 53
35180 AAATTATAAA
35190 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTTCGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTTCGCATTGCGATTTTCATTT
35243 CGCATTGCGATTCTCTCGTTGCGATTTTCA-TTTCGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTTCGCATTGCGATTTTCATTT
35295 CGCATTGCGAT
1 CGCATTGCGAT
35306 AGTCATTTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 33 0.52
53 30 0.48
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (53 bp):
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTTCGCATTGCGATTTTCATTT
Found at i:35313 original size:19 final size:19
Alignment explanation
Indices: 35208--35305 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
35198 GATTCTCTCG
35208 TTGCGATTTTCATTTTCGCA
1 TTGCGATTTTCA-TTTCGCA
35228 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
35247 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
35261 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
35280 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
35299 TTGCGAT
1 TTGCGAT
35306 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 39 0.55
20 12 0.17
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:35431 original size:14 final size:14
Alignment explanation
Indices: 35412--35448 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
35402 CATCAATTAC
35412 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
35426 ACAAATCATCTTTT
1 ACAAATCAACTTTT
35440 ACAAATCAA
1 ACAAATCAA
35449 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:36966 original size:19 final size:18
Alignment explanation
Indices: 36922--36973 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
36912 ACTCTCGAGG
36922 AATGAAAATCGCAA-CGA
1 AATGAAAATCGCAAGCGA
36939 AA-G--AATCGCAACGCGA
1 AATGAAAATCGCAA-GCGA
36955 AATGAAAATCGCAATGCGA
1 AATGAAAATCGCAA-GCGA
36974 TTTTGGTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
14 8 0.28
16 6 0.21
17 3 0.10
19 12 0.41
ACGTcount: A:0.48, C:0.19, G:0.21, T:0.12
Consensus pattern (18 bp):
AATGAAAATCGCAAGCGA
Found at i:36991 original size:19 final size:19
Alignment explanation
Indices: 36969--37045 Score: 83
Period size: 19 Copynumber: 4.3 Consensus size: 19
36959 AAAATCGCAA
36969 TGCGATTTTGGTTTCGTGT
1 TGCGATTTTGGTTTCGTGT
*
36988 TGCGATCTT-G--TC--GT
1 TGCGATTTTGGTTTCGTGT
*
37002 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGTGT
*
37021 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGTGT
37041 TGCGA
1 TGCGA
37046 AAGTAAACTA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
14 10 0.21
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 19 0.40
20 13 0.27
ACGTcount: A:0.09, C:0.14, G:0.30, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGTGT
Found at i:37037 original size:20 final size:19
Alignment explanation
Indices: 36999--37045 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
36989 GCGATCTTGT
*
36999 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTTAGTTTCG
37018 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTT-AGTTTCG
*
37038 TGTTGCGA
1 CGTTGCGA
37046 AAGTAAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.11, C:0.15, G:0.30, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTAGTTTCG
Found at i:37209 original size:93 final size:93
Alignment explanation
Indices: 37093--37466 Score: 700
Period size: 93 Copynumber: 4.1 Consensus size: 93
37083 ATGGATTGCA
37093 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
37157 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
37185 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
37250 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
37278 TTACTTTCAACCAAAACACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
37343 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
37371 TTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATATACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
37435 TAGCAGAATT-GCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
37462 TTACT
1 TTACT
37467 AAGCAATCTA
Statistics
Matches: 277, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
91 21 0.08
92 47 0.17
93 209 0.75
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:39181 original size:14 final size:14
Alignment explanation
Indices: 39162--39218 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
39152 TTGAAATGAA
39162 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
39176 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
39195 AATCGCAACGAGAG
1 AATCGCAACGAGAG
39209 AATCGCAACG
1 AATCGCAACG
39219 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.42, C:0.25, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:39199 original size:33 final size:33
Alignment explanation
Indices: 39154--39237 Score: 159
Period size: 33 Copynumber: 2.5 Consensus size: 33
39144 TCTTTTGGTT
39154 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
39187 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
39220 GAAATGAAAATCGCAACG
1 GAAATGAAAATCGCAACG
39238 CGAAATGAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:39200 original size:19 final size:19
Alignment explanation
Indices: 39176--39259 Score: 106
Period size: 19 Copynumber: 4.7 Consensus size: 19
39166 GCAACGAGAG
*
39176 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
39195 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
39209 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
39228 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
39247 AATCGCAATGCGA
1 AATCGCAACGCGA
39260 TTTTGGTTTC
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 41 0.72
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:39340 original size:20 final size:21
Alignment explanation
Indices: 39282--39354 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
39272 GTTGCGATTA
39282 TCTCGTTGCGATTTTCATTTC
1 TCTCGTTGCGATTTTCATTTC
***
39303 TCTCGTTGCGACAGTCA-TTC
1 TCTCGTTGCGATTTTCATTTC
*
39323 TCTCGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTC
39344 TCTCGTTGCGA
1 TCTCGTTGCGA
39355 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 17 0.39
21 27 0.61
ACGTcount: A:0.12, C:0.25, G:0.18, T:0.45
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTC
Found at i:39476 original size:33 final size:33
Alignment explanation
Indices: 39434--39504 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
39424 AATACTAACT
*
39434 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
39467 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
39500 TGAAA
1 TGAAA
39505 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:39738 original size:22 final size:22
Alignment explanation
Indices: 39686--39740 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
39676 TGGTTGTGAG
**
39686 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
39708 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
39730 GGATTTCTTCG
1 GGATTTCTTCG
39741 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:39912 original size:20 final size:20
Alignment explanation
Indices: 39887--40080 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
39877 CTTTAAATAT
39887 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
39907 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
39929 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
39948 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
39968 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
39988 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
40008 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
40028 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
40048 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
40068 CGCGTTGCGATTT
1 CGCGTTGCGATTT
40081 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:40074 original size:60 final size:60
Alignment explanation
Indices: 39887--40080 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
39877 CTTTAAATAT
**
39887 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
39948 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
40008 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
40068 CGCGTTGCGATTT
1 CGCGTTGCGATTT
40081 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:40097 original size:21 final size:21
Alignment explanation
Indices: 40067--40191 Score: 117
Period size: 21 Copynumber: 6.0 Consensus size: 21
40057 ATTTTCATAT
*
40067 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
40088 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
40109 TCGCATTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
40130 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
40151 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
40172 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
40192 CTGATTTGCG
Statistics
Matches: 79, Mismatches: 23, Indels: 4
0.75 0.22 0.04
Matches are distributed among these distances:
20 1 0.01
21 76 0.96
22 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:40182 original size:42 final size:42
Alignment explanation
Indices: 40067--40165 Score: 189
Period size: 42 Copynumber: 2.4 Consensus size: 42
40057 ATTTTCATAT
*
40067 TCGCGTTGCGATTTTGGAAAATCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAATCGCAATGCGAATTTGTACTA
40109 TCGCATTGCGATTTTGGAAAATCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAATCGCAATGCGAATTTGTACTA
40151 TCGCATTGCGATTTT
1 TCGCATTGCGATTTT
40166 CAAGAATCGC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.35
Consensus pattern (42 bp):
TCGCATTGCGATTTTGGAAAATCGCAATGCGAATTTGTACTA
Found at i:43151 original size:28 final size:30
Alignment explanation
Indices: 43120--43178 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
43110 ACAAGCACAC
43120 ATCA-AAGAAATA-AAAA-AATGAGGATTAA
1 ATCACAAG-AATACAAAATAATGAGGATTAA
* *
43148 ATCACATGAATACAAAATTATGAGGATTAA
1 ATCACAAGAATACAAAATAATGAGGATTAA
43178 A
1 A
43179 GAAAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 8 0.31
29 6 0.23
30 12 0.46
ACGTcount: A:0.58, C:0.07, G:0.14, T:0.22
Consensus pattern (30 bp):
ATCACAAGAATACAAAATAATGAGGATTAA
Found at i:44570 original size:24 final size:24
Alignment explanation
Indices: 44543--44594 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
44533 TAGGGTAGGT
*
44543 TCCGAGTCGAGTT-TAGTTTTGGGC
1 TCCGAGTCGGGTTAT-GTTTTGGGC
*
44567 TCCGGGTCGGGTTATGTTTTGGGC
1 TCCGAGTCGGGTTATGTTTTGGGC
44591 TCCG
1 TCCG
44595 GATTGCGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.08, C:0.19, G:0.37, T:0.37
Consensus pattern (24 bp):
TCCGAGTCGGGTTATGTTTTGGGC
Found at i:44646 original size:23 final size:23
Alignment explanation
Indices: 44611--44660 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
44601 GTTTTGGTTA
44611 GGTTTTAGGTTAGGACTT-GTTTG
1 GGTTTTAGGTTAGG-CTTGGTTTG
** *
44634 GGTTTTATTTTAGGGTTGGTTTG
1 GGTTTTAGGTTAGGCTTGGTTTG
44657 GGTT
1 GGTT
44661 GGGCTTGAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.10, C:0.02, G:0.36, T:0.52
Consensus pattern (23 bp):
GGTTTTAGGTTAGGCTTGGTTTG
Found at i:45466 original size:139 final size:138
Alignment explanation
Indices: 45087--45562 Score: 611
Period size: 139 Copynumber: 3.4 Consensus size: 138
45077 AGATAGAACA
* * * * *
45087 ATTATGAATTTCTTATCCCTCTATCTGATGAGTTCTTCTCATTATTAACTTTCCATTGGAAATGT
1 ATTATGAACTTCTTCTCCCTCTATC-AATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGT
* * * *
45152 TAATCCCTCAACTGAGGAGTCACT-ATTCAA----AATGCGATAAATCGAGCAAAGATTGAACAA
65 TAATCCCTCAAGTGAGGCGTCACTGATTCAACTCCAATGCGATGAATCGAGCAAAGGTTGAACAA
*
45212 GTTCTTCTT
130 GTTCTTCTC
* ** * *
45221 ATTATGAACTTCTTCTCCATCTATTGGATGAATTCTTCTCATTATGATCTCTCCATTGGAAATGT
1 ATTATGAACTTCTTCTCCCTCTA-TCAATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGT
* * * *
45286 TAATCCCTCAAGTGAGGCATCGCTGATTTAACTCCAAATGCGATGAATCAAGCAAAGGTTGAACA
65 TAATCCCTCAAGTGAGGCGTCACTGATTCAACTCC-AATGCGATGAATCGAGCAAAGGTTGAACA
*
45351 AGTTCTTATC
129 AGTTCTTCTC
* * * **
45361 ATTATGAACTTCTTCTCCCTCTATCAATGAGTTCTCCTCGTTATGAACTCTCTATTCAAAATGTT
1 ATTATGAACTTCTTCTCCCTCTATCAATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTT
45426 AATCCCTCAAGTGAGGCGTCACTGATTCAACTCCATATGCGATGAATCGAGCAAAGGTTGAACAA
66 AATCCCTCAAGTGAGGCGTCACTGATTCAACTCCA-ATGCGATGAATCGAGCAAAGGTTGAACAA
45491 GTTCTTCTC
130 GTTCTTCTC
* * * *
45500 ATTACGAACTTCTTCTCCCTCTATCAGATGAGTTCTTCTCAGTATAAACTCTCTATTGGAAAT
1 ATTATGAACTTCTTCTCCCTCTATCA-ATGAGTTCTTCTCATTATGAACTCTCCATTGGAAAT
45563 ATTGATTGGT
Statistics
Matches: 293, Mismatches: 40, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
134 75 0.26
135 6 0.02
138 1 0.00
139 125 0.43
140 86 0.29
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (138 bp):
ATTATGAACTTCTTCTCCCTCTATCAATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTT
AATCCCTCAAGTGAGGCGTCACTGATTCAACTCCAATGCGATGAATCGAGCAAAGGTTGAACAAG
TTCTTCTC
Found at i:46589 original size:6 final size:6
Alignment explanation
Indices: 46565--46654 Score: 76
Period size: 6 Copynumber: 14.3 Consensus size: 6
46555 TGAACCCTTT
* * *
46565 TTTTTC TTGTTC TTATTTC TTTTTC TTCTTTTC TTTTTC ATTTTC ATTTTC
1 TTTTTC TTTTTC TT-TTTC TTTTTC -T-TTTTC TTTTTC TTTTTC TTTTTC
*
46616 TTTTTC TCTTATT- TTACTTC -TTTTC TTTTTC TTTTTC TT
1 TTTTTC T-TT-TTC TT-TTTC TTTTTC TTTTTC TTTTTC TT
46655 AGGCGTAATA
Statistics
Matches: 70, Mismatches: 6, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
5 3 0.04
6 50 0.71
7 10 0.14
8 7 0.10
ACGTcount: A:0.06, C:0.18, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTTTC
Found at i:46614 original size:26 final size:26
Alignment explanation
Indices: 46564--46625 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
46554 TTGAACCCTT
* *
46564 TTTTTTCTTGTTCTTATTTCTTTTTC
1 TTTTTTCTTGTTCATATTTCATTTTC
*
46590 TTCTTTTCTTTTTCAT-TTTCATTTTC
1 TT-TTTTCTTGTTCATATTTCATTTTC
46616 TTTTTCTCTT
1 TTTTT-TCTT
46626 ATTTTACTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
25 3 0.10
26 17 0.55
27 11 0.35
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.76
Consensus pattern (26 bp):
TTTTTTCTTGTTCATATTTCATTTTC
Found at i:46646 original size:31 final size:30
Alignment explanation
Indices: 46561--46653 Score: 93
Period size: 31 Copynumber: 3.0 Consensus size: 30
46551 ACCTTGAACC
46561 CTTTT-TT-TTCTTGTTCTTATTTCTTTTTCTT
1 CTTTTCTTCTTCTT-TTCTT-TTTCTTTTTC-T
* *
46592 CTTTTCTTTTTCATTTTCATTTTCTTTTTCT
1 CTTTTCTTCTTC-TTTTCTTTTTCTTTTTCT
46623 CTTATT-TTACTTCTTTTCTTTTTCTTTTTCT
1 CTT-TTCTT-CTTCTTTTCTTTTTCTTTTTCT
46654 TAGGCGTAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
31 28 0.52
32 17 0.31
33 7 0.13
34 2 0.04
ACGTcount: A:0.05, C:0.18, G:0.01, T:0.75
Consensus pattern (30 bp):
CTTTTCTTCTTCTTTTCTTTTTCTTTTTCT
Done.