Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002766.1 Hibiscus syriacus cultivar Beakdansim tig00005703_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: 84766
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:631 original size:2 final size:2
Alignment explanation
Indices: 624--659 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
614 TTGTCAAAAT
624 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
660 GATTTTATGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3834 original size:60 final size:60
Alignment explanation
Indices: 3734--3894 Score: 155
Period size: 60 Copynumber: 2.7 Consensus size: 60
3724 CGAATAATTT
** * * * *
3734 AGGAT-AAAATTGAAATATTCATAAAGTTCGGGGACCAATTTAGGATGAAGA-TCATGGATTA
1 AGGATGAAAA-TGAAATATTCA-AAAGTTTAGGGACTAATTTAGAAT-AAGAGCCATAGATTA
* * * *
3795 AGGATGAAAATGAAATGTTCAAAAGTTTAAGGACTAATTTAGAATAATAGCCATAGTTTA
1 AGGATGAAAATGAAATATTCAAAAGTTTAGGGACTAATTTAGAATAAGAGCCATAGATTA
* * * *
3855 AGGATGAAATTAAAATATTTAAAAGCTTAGGGACTAATTT
1 AGGATGAAAATGAAATATTCAAAAGTTTAGGGACTAATTT
3895 GAAATGAGGG
Statistics
Matches: 82, Mismatches: 16, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
59 3 0.04
60 60 0.73
61 15 0.18
62 4 0.05
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (60 bp):
AGGATGAAAATGAAATATTCAAAAGTTTAGGGACTAATTTAGAATAAGAGCCATAGATTA
Found at i:5636 original size:20 final size:20
Alignment explanation
Indices: 5611--5652 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
5601 CTGGACTTGT
5611 TTGGAAGACCT-ATAAATTGG
1 TTGGAAGACCTGA-AAATTGG
5631 TTGGAAGACCTGAAAATTGG
1 TTGGAAGACCTGAAAATTGG
5651 TT
1 TT
5653 TCTAATCGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (20 bp):
TTGGAAGACCTGAAAATTGG
Found at i:9317 original size:30 final size:30
Alignment explanation
Indices: 9255--9317 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
9245 GGCCAATCTA
* *
9255 GACCGAGCCATCGAGCTGAGCCAAGGCATT
1 GACCGAGCCATCGAGCTGAACCAAGCCATT
* *
9285 GACCGAGCCATCGAGTTGAACCAAGCCGTT
1 GACCGAGCCATCGAGCTGAACCAAGCCATT
9315 GAC
1 GAC
9318 TATGCCTTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.30, G:0.29, T:0.14
Consensus pattern (30 bp):
GACCGAGCCATCGAGCTGAACCAAGCCATT
Found at i:10015 original size:20 final size:20
Alignment explanation
Indices: 9990--10027 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9980 CCTGACTTGT
* *
9990 TTGGAAGACCTGTAAATCAG
1 TTGGAAAACCTGAAAATCAG
10010 TTGGAAAACCTGAAAATC
1 TTGGAAAACCTGAAAATC
10028 GATTCCCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (20 bp):
TTGGAAAACCTGAAAATCAG
Found at i:12278 original size:24 final size:23
Alignment explanation
Indices: 12247--12291 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
12237 ATTAAAATAG
*
12247 ATATATTATATTAAATTAATTTT
1 ATATATTATATTAAAATAATTTT
12270 ATATAATTATATTAAAATAATT
1 ATAT-ATTATATTAAAATAATT
12292 ATACTAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
ATATATTATATTAAAATAATTTT
Found at i:12289 original size:14 final size:15
Alignment explanation
Indices: 12272--12304 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
12262 TTAATTTTAT
*
12272 ATAATTATATTAAA-
1 ATAATTATACTAAAG
12286 ATAATTATACTAAAG
1 ATAATTATACTAAAG
12301 ATAA
1 ATAA
12305 ACATAAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (15 bp):
ATAATTATACTAAAG
Found at i:19654 original size:4 final size:4
Alignment explanation
Indices: 19645--19701 Score: 51
Period size: 4 Copynumber: 13.2 Consensus size: 4
19635 CTAAACATGG
* * *
19645 ATAA ATAA ATAAA ATAA CTAA ACAAA GATAA ATAA ATAA ATAC ATGAA
1 ATAA ATAA AT-AA ATAA ATAA A-TAA -ATAA ATAA ATAA ATAA AT-AA
19693 ATAA ATAA A
1 ATAA ATAA A
19702 AAGGAATGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
4 31 0.72
5 11 0.26
6 1 0.02
ACGTcount: A:0.70, C:0.05, G:0.04, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:19664 original size:27 final size:27
Alignment explanation
Indices: 19633--19684 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
19623 AATATAATAA
**
19633 AACTAAACATGGATAAATAAATAAAAT
1 AACTAAACAAAGATAAATAAATAAAAT
19660 AACTAAACAAAGATAAATAAATAAA
1 AACTAAACAAAGATAAATAAATAAA
19685 TACATGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.67, C:0.08, G:0.06, T:0.19
Consensus pattern (27 bp):
AACTAAACAAAGATAAATAAATAAAAT
Found at i:19683 original size:31 final size:31
Alignment explanation
Indices: 19581--19686 Score: 90
Period size: 31 Copynumber: 3.3 Consensus size: 31
19571 TAAATGCAAC
*
19581 AATAAA-AAAATAACATATA-AAAGATAAATGA
1 AATAAATAAAATAAC-TAAACAAAGATAAAT-A
* * **
19612 AATATCAATAAAATATAATAAAACTAAACATGGATA
1 AATA--AATAAAATA-ACT-AAAC-AAAGATAAATA
19648 AATAAATAAAATAACTAAACAAAGATAAATA
1 AATAAATAAAATAACTAAACAAAGATAAATA
19679 AATAAATA
1 AATAAATA
19687 CATGAAATAA
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
31 20 0.34
32 4 0.07
33 4 0.07
34 16 0.27
35 3 0.05
36 5 0.08
37 7 0.12
ACGTcount: A:0.68, C:0.06, G:0.05, T:0.22
Consensus pattern (31 bp):
AATAAATAAAATAACTAAACAAAGATAAATA
Found at i:21338 original size:3 final size:3
Alignment explanation
Indices: 21300--21349 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
21290 TTGGCTTGTA
*
21300 AAT AA- AAT AA- AAT AAAT AAT -AT AAT ATT AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
21344 AAT AAT
1 AAT AAT
21350 TGGATTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
2 6 0.15
3 28 0.70
4 6 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:23146 original size:30 final size:29
Alignment explanation
Indices: 23107--23180 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 29
23097 GATGGCCTTG
*
23107 GTCCATGTACTATTTATCA-TGAGTGGCCAA
1 GTCC-TGTACTATTTAGCATTG-GTGGCCAA
*
23137 GTCCTTGTACTATTTGGCATTGGTGGCCAA
1 GTCC-TGTACTATTTAGCATTGGTGGCCAA
23167 GTCCTGTACTATTT
1 GTCCTGTACTATTT
23181 GGTGCTTAGC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
29 10 0.25
30 28 0.70
31 2 0.05
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (29 bp):
GTCCTGTACTATTTAGCATTGGTGGCCAA
Found at i:23590 original size:26 final size:25
Alignment explanation
Indices: 23504--23596 Score: 91
Period size: 26 Copynumber: 3.7 Consensus size: 25
23494 TTTCAAAAGG
*
23504 TAAAAAAGTTTGATG-AAGAAGTTT
1 TAAAAAAGTTTGATGAAAGAAATTT
*** *
23528 TAAAAGTTTCTTTATGAAAG-AATTT
1 TAAAAAAGT-TTGATGAAAGAAATTT
*
23553 TAAATAATGTTTGATGAAAGAAATTT
1 TAAA-AAAGTTTGATGAAAGAAATTT
23579 TGAAAAAAGTTTGATGAA
1 T-AAAAAAGTTTGATGAA
23597 GTTTTTGAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
24 6 0.11
25 22 0.40
26 24 0.44
27 3 0.05
ACGTcount: A:0.45, C:0.01, G:0.17, T:0.37
Consensus pattern (25 bp):
TAAAAAAGTTTGATGAAAGAAATTT
Found at i:26361 original size:2 final size:2
Alignment explanation
Indices: 26356--26397 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
26346 TTTAAAAAAT
26356 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26398 AGAATGTCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33624 original size:30 final size:30
Alignment explanation
Indices: 33568--33625 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
33558 AGTGACCACC
* * *
33568 ATAGGTCTCCAGGAGCATATGGCGACCTCT
1 ATAGGTCTCCAGGAGCACACGCCGACCTCT
*
33598 ATAGGTCTTCAGGAGCACACGCCGACCT
1 ATAGGTCTCCAGGAGCACACGCCGACCT
33626 ATGTAGCTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.21
Consensus pattern (30 bp):
ATAGGTCTCCAGGAGCACACGCCGACCTCT
Found at i:38350 original size:21 final size:21
Alignment explanation
Indices: 38311--38351 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
38301 TGGCATGATA
*
38311 GTTCATAGTGCTAAGATGGCG
1 GTTCATAGTGCTAACATGGCG
*
38332 GTTCATAGTGCTGACATGGC
1 GTTCATAGTGCTAACATGGC
38352 AATTCATCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (21 bp):
GTTCATAGTGCTAACATGGCG
Found at i:38357 original size:21 final size:21
Alignment explanation
Indices: 38312--38358 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
38302 GGCATGATAG
* **
38312 TTCATAGTGCTAAGATGGCGG
1 TTCATAGTGCTAACATGGCAA
*
38333 TTCATAGTGCTGACATGGCAA
1 TTCATAGTGCTAACATGGCAA
38354 TTCAT
1 TTCAT
38359 CTGTCATGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (21 bp):
TTCATAGTGCTAACATGGCAA
Found at i:42142 original size:2 final size:2
Alignment explanation
Indices: 42135--42160 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
42125 TTAATATTTA
42135 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
42161 TTATGACTAT
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):
AT
Found at i:42177 original size:3 final size:3
Alignment explanation
Indices: 42169--42202 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
42159 ATTTATGACT
42169 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
42203 AATTACTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:42278 original size:32 final size:31
Alignment explanation
Indices: 42210--42294 Score: 82
Period size: 32 Copynumber: 2.7 Consensus size: 31
42200 TAAAATTACT
* *
42210 AAATTAAATAAATTGAAATTAAAAAGGGTAC
1 AAATAAAATAAATTGAAATTAAAAAGGATAC
* * *
42241 TAATAAAAATAAATTGCAATTAAATAATGATA-
1 AAAT-AAAATAAATTGAAATTAAA-AAGGATAC
*
42273 AAATAAAATAAAATTAAAATTA
1 AAATAAAAT-AAATTGAAATTA
42295 CAGGATTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
31 8 0.19
32 30 0.70
33 5 0.12
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.28
Consensus pattern (31 bp):
AAATAAAATAAATTGAAATTAAAAAGGATAC
Found at i:43533 original size:3 final size:3
Alignment explanation
Indices: 43527--43592 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
43517 TATTTATTAT
43527 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
43575 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
43593 AAGTAAAATG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:43951 original size:116 final size:116
Alignment explanation
Indices: 43732--44560 Score: 1291
Period size: 116 Copynumber: 7.1 Consensus size: 116
43722 AAAACATTAT
* *
43732 GCCCAGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATAACCCGGAGG-TTTAAATATCAAA
1 GCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATC-AA
*
43796 AAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTATGGATG
65 AAAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATG
*
43848 GCACTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAA
1 GCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAA
* *
43913 AAGCTCCCGAAGGCTTTTTGAAAACATCTTGCATTGTAGGTCTTATGGATG
66 AAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATG
* * *
43964 GCCCTCAGGTCTTATCATCTTGCACTGTATGTCTTACAGATGACCCGGAGGCTTTAAATATAAAA
1 GCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATAT-CAA
44029 AATAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATG
65 AA-AGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATG
*
44082 GCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGATTTAAATATCAAA
1 GCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAA
* * * * * *
44147 AACCTCCCAAAGGCTTTTTGAAAATATCCTGCACTATAGGTATTATAGATG
66 AAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATG
* * * * *
44198 GCCATGAGGTCTTGTCATCTTGCACTGTAGGTCTTACAGATGACCAGAAGGCTTTAAATATAAAA
1 GCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATAT-CAA
44263 AATAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATG
65 AA-AGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATG
* * * *
44316 GCCCTGAGGTCTTATCATCTTGCACTGTATGTCTTACAGATGACTCAGAGGCTTTAAATATGAAA
1 GCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAA
* *
44381 AAGCTCCCGAAAGCTTTTTGAAAACATCCTGCACTGTAAGTCTTATGGATG
66 AAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATG
* * * * *
44432 GTCGTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCCTTAAATATGAAA
1 GCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAA
* * *
44497 AAACTCCCGAAGGCTTTTTGAAACCATCCTGCACTATAGGTCTTATGGATG
66 AAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATG
44548 GCCCTGAGGTCTT
1 GCCCTGAGGTCTT
44561 GAAAACATCA
Statistics
Matches: 651, Mismatches: 57, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
116 421 0.65
117 26 0.04
118 204 0.31
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (116 bp):
GCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAA
AAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATG
Found at i:44116 original size:22 final size:23
Alignment explanation
Indices: 44055--44117 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 23
44045 TTTTTGAAAA
*
44055 CATCCTGCACTGTAGGTCTTATG
1 CATCTTGCACTGTAGGTCTTATG
* * *
44078 GA--TGGCCCTG-AGGTCTTAT-
1 CATCTTGCACTGTAGGTCTTATG
44097 CATCTTGCACTGTAGGTCTTA
1 CATCTTGCACTGTAGGTCTTA
44118 CAGATGACCC
Statistics
Matches: 30, Mismatches: 7, Indels: 7
0.68 0.16 0.16
Matches are distributed among these distances:
19 1 0.03
20 9 0.30
21 11 0.37
22 8 0.27
23 1 0.03
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (23 bp):
CATCTTGCACTGTAGGTCTTATG
Found at i:44145 original size:234 final size:233
Alignment explanation
Indices: 43737--44560 Score: 1328
Period size: 234 Copynumber: 3.5 Consensus size: 233
43727 ATTATGCCCA
* * *
43737 GAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATAACCCGGAGG-TTTAAATATCAAAAAAGC
1 GAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATAAAAAAAGC
* *
43801 TCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCACTGAGGTCTTATCAT
66 TCCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCAT
43866 CTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTT
131 CTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTT
* * *
43931 TGAAAACATCTTGCATTGTAGGTCTTATGGATGGCCCT
196 TGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCAT
* * *
43969 CAGGTCTTATCATCTTGCACTGTATGTCTTACAGATGACCCGGAGGCTTTAAATATAAAAAATAG
1 GAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATAAAAAA-AG
44034 CTCCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCA
65 CTCCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCA
* * *
44099 TCTTGCACTGTAGGTCTTACAGATGACCCGGAGGATTTAAATATCAAAAACCTCCCAAAGGCTTT
130 TCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTT
* * * *
44164 TTGAAAATATCCTGCACTATAGGTATTATAGATGGCCAT
195 TTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCAT
* *
44203 GAGGTCTTGTCATCTTGCACTGTAGGTCTTACAGATGACCAGAAGGCTTTAAATATAAAAAATAG
1 GAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATAAAAAA-AG
44268 CTCCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCA
65 CTCCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCA
* * * * *
44333 TCTTGCACTGTATGTCTTACAGATGACTCAGAGGCTTTAAATATGAAAAAGCTCCCGAAAGCTTT
130 TCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTT
* * *
44398 TTGAAAACATCCTGCACTGTAAGTCTTATGGATGGTCGT
195 TTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCAT
* *
44437 GAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCCTTAAATATGAAAAAA-C
1 GAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATAAAAAAAGC
* *
44501 TCCCGAAGGCTTTTTGAAACCATCCTGCACTATAGGTCTTATGGATGGCCCTGAGGTCTT
66 TCCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTT
44561 GAAAACATCA
Statistics
Matches: 548, Mismatches: 42, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
232 102 0.19
233 15 0.03
234 431 0.79
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (233 bp):
GAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATAAAAAAAGC
TCCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCAT
CTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTT
TGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCAT
Found at i:44388 original size:350 final size:349
Alignment explanation
Indices: 43732--44561 Score: 1333
Period size: 350 Copynumber: 2.4 Consensus size: 349
43722 AAAACATTAT
* *
43732 GCCCAGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATAACCCGGAGGTTTAAATATCAAAA
1 GCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGTTTAAATATCAAAA
* *
43797 AAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTATGGATGG-CACTGAGGTCTT
66 AA-CTCCCGAAGGCTTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGGCCA-TGAGGTCTT
* * * *
43861 ATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGG
129 GTCATCTTGCACTGTAGGTCTTACAGATGACCAGAAGGCTTTAAATATAAAAAAGCTCCCGAAGG
* *
43926 CTTTTTGAAAACATCTTGCATTGTAGGTCTTATGGATGGCCCTCAGGTCTTATCATCTTGCACTG
194 CTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTCAGGTCTTATCATCTTGCACTG
* *
43991 TATGTCTTACAGATGACCCGGAGGCTTTAAATATAAAAAATAGCTCCCGAAGGCTTTTTGAAAAC
259 TATGTCTTACAGATGACCCAGAGGCTTTAAATATAAAAAATAGCTCCCGAAAGCTTTTTGAAAAC
*
44056 ATCCTGCACTGTAGGTCTTATGGATG
324 ATCCTGCACTGTAAGTCTTATGGATG
44082 GCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGATTTAAATATCAAA
1 GCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAGG-TTTAAATATCAAA
* * * * *
44147 AACCTCCCAAAGGCTTTTTGAAAATATCCTGCACTATAGGTATTATAGATGGCCATGAGGTCTTG
65 AAACTCCCGAAGGCTTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGGCCATGAGGTCTTG
44212 TCATCTTGCACTGTAGGTCTTACAGATGACCAGAAGGCTTTAAATATAAAAAATAGCTCCCGAAG
130 TCATCTTGCACTGTAGGTCTTACAGATGACCAGAAGGCTTTAAATAT-AAAAA-AGCTCCCGAAG
*
44277 GCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACT
193 GCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTCAGGTCTTATCATCTTGCACT
* *
44342 GTATGTCTTACAGATGACTCAGAGGCTTTAAATAT-GAAAA-AGCTCCCGAAAGCTTTTTGAAAA
258 GTATGTCTTACAGATGACCCAGAGGCTTTAAATATAAAAAATAGCTCCCGAAAGCTTTTTGAAAA
44405 CATCCTGCACTGTAAGTCTTATGGATG
323 CATCCTGCACTGTAAGTCTTATGGATG
* * * * *
44432 GTCGTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCCTTAAATATGAAA
1 GCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAGG-TTTAAATATCAAA
* *
44497 AAACTCCCGAAGGCTTTTTGAAACCATCCTGCACTATAGGTCTTATGGATGGCCCTGAGGTCTTG
65 AAACTCCCGAAGGCTTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGGCCATGAGGTCTTG
44562 AAAACATCAT
Statistics
Matches: 442, Mismatches: 34, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
350 311 0.70
351 25 0.06
352 106 0.24
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (349 bp):
GCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGTTTAAATATCAAAA
AACTCCCGAAGGCTTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGGCCATGAGGTCTTGT
CATCTTGCACTGTAGGTCTTACAGATGACCAGAAGGCTTTAAATATAAAAAAGCTCCCGAAGGCT
TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTCAGGTCTTATCATCTTGCACTGTA
TGTCTTACAGATGACCCAGAGGCTTTAAATATAAAAAATAGCTCCCGAAAGCTTTTTGAAAACAT
CCTGCACTGTAAGTCTTATGGATG
Found at i:45755 original size:54 final size:54
Alignment explanation
Indices: 45655--45758 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
45645 CTGGTTCATG
* * * * *
45655 AAACATTTGACAACACATTCATCTTTTCTTGTGGGAAATGCCCAGATGTTCGTA
1 AAACATTTGACAACACATTCATCCTTTCCTATGGCAAATGCACAGATGTTCGTA
***
45709 AAACATTTGACAACACATTCATCCTTTCCTATGGCTTCTGCACAGATGTT
1 AAACATTTGACAACACATTCATCCTTTCCTATGGCAAATGCACAGATGTT
45759 AGCCAGTGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (54 bp):
AAACATTTGACAACACATTCATCCTTTCCTATGGCAAATGCACAGATGTTCGTA
Found at i:48892 original size:72 final size:72
Alignment explanation
Indices: 48775--48918 Score: 198
Period size: 72 Copynumber: 2.0 Consensus size: 72
48765 ATATAATAGT
* ** * * *
48775 ATAATTGACTAGCTGAATATTATCCAAAAAGTTAGGGAGATTAACCAATTACTTTAGGGGGATAA
1 ATAATAGACTAGCTGAATATTATCCAAAAAGCCAGGGAGATTAACCAATTACTTTAGAGAGACAA
48840 CTCAAGC
66 CTCAAGC
* * * *
48847 ATAATAGACTAGCTGAATATTATCCATAAAGCCGGGGCGATTAACCAATTTCTTTAGAGAGACAA
1 ATAATAGACTAGCTGAATATTATCCAAAAAGCCAGGGAGATTAACCAATTACTTTAGAGAGACAA
48912 CTCAAGC
66 CTCAAGC
48919 TTTATTGTAT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (72 bp):
ATAATAGACTAGCTGAATATTATCCAAAAAGCCAGGGAGATTAACCAATTACTTTAGAGAGACAA
CTCAAGC
Found at i:55540 original size:3 final size:3
Alignment explanation
Indices: 55532--55578 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
55522 GAAATGTATT
55532 TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
55579 GTAAAATGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:56817 original size:32 final size:32
Alignment explanation
Indices: 56781--56841 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
56771 AATAAGCACT
*
56781 AAAAAGACTAGGGGAAAAAAGAACTGAAACTG
1 AAAAAGACGAGGGGAAAAAAGAACTGAAACTG
56813 AAAAAGACGAGGGGAAAAAAGAACTGAAA
1 AAAAAGACGAGGGGAAAAAAGAACTGAAA
56842 ATCTGAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.59, C:0.08, G:0.26, T:0.07
Consensus pattern (32 bp):
AAAAAGACGAGGGGAAAAAAGAACTGAAACTG
Found at i:57636 original size:12 final size:12
Alignment explanation
Indices: 57619--57643 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57609 CCGTTTTCCA
57619 TCCCCGTATCCG
1 TCCCCGTATCCG
57631 TCCCCGTATCCG
1 TCCCCGTATCCG
57643 T
1 T
57644 ATCAGTGCAA
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:0.08, C:0.48, G:0.16, T:0.28
Consensus pattern (12 bp):
TCCCCGTATCCG
Found at i:64816 original size:20 final size:20
Alignment explanation
Indices: 64779--64817 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
64769 AGATTGAGTG
* * *
64779 GATTTTGATGTTGTTTGCAT
1 GATTTTAATGATGATTGCAT
64799 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
64818 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAT
Found at i:65051 original size:21 final size:22
Alignment explanation
Indices: 64997--65056 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
64987 ATTCCCTTGT
64997 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGGTT-CCCTTCAA
* *
65020 AGGAGGAATCGGTTCCC-TCAA
1 GGGGGGAATCGGTTCCCTTCAA
* *
65041 GGGGGGGATCGATTCC
1 GGGGGGAATCGGTTCC
65057 TTCTGCACCA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 16 0.52
22 3 0.10
23 12 0.39
ACGTcount: A:0.20, C:0.23, G:0.37, T:0.20
Consensus pattern (22 bp):
GGGGGGAATCGGTTCCCTTCAA
Found at i:72955 original size:7 final size:7
Alignment explanation
Indices: 72943--73010 Score: 57
Period size: 7 Copynumber: 9.1 Consensus size: 7
72933 CAATCAGAAT
72943 AAAAAGA
1 AAAAAGA
72950 AAAAAGA
1 AAAAAGA
72957 GAAAAA-A
1 -AAAAAGA
*
72964 ACAAAGA
1 AAAAAGA
* *
72971 GAAAATA
1 AAAAAGA
72978 AAAAAGA
1 AAAAAGA
72985 AAAAAGGA
1 AAAAA-GA
72993 AAATTGAAGA
1 AAA---AAGA
73003 AAAAAGA
1 AAAAAGA
73010 A
1 A
73011 GACAAGATGC
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
6 4 0.08
7 28 0.57
8 10 0.20
10 5 0.10
11 2 0.04
ACGTcount: A:0.78, C:0.01, G:0.16, T:0.04
Consensus pattern (7 bp):
AAAAAGA
Found at i:73186 original size:69 final size:69
Alignment explanation
Indices: 73067--73198 Score: 228
Period size: 69 Copynumber: 1.9 Consensus size: 69
73057 AGATTCAAAC
*
73067 TATGAGATTGATCAAGCACAATCATTTCTAAATCACTGAACCACTTCACTCAAAGATCATAGAGC
1 TATGAGATTGATCAAGCACAATCATTTCTAAATCACTGAACCACTCCACTCAAAGATCATAGAGC
73132 ATCA
66 ATCA
* * *
73136 TATGATATTGATCAAGCACAATCATTTCTAAATCACTGAATCACTCCACTCGAAGATCATAGA
1 TATGAGATTGATCAAGCACAATCATTTCTAAATCACTGAACCACTCCACTCAAAGATCATAGA
73199 AAATTAAGAG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (69 bp):
TATGAGATTGATCAAGCACAATCATTTCTAAATCACTGAACCACTCCACTCAAAGATCATAGAGC
ATCA
Found at i:74208 original size:32 final size:32
Alignment explanation
Indices: 74139--74247 Score: 105
Period size: 32 Copynumber: 3.4 Consensus size: 32
74129 GCATCTTTAA
* *
74139 AGATTCAACATTAAATG-TTGAGGCATTTTTTTT
1 AGATTCAACATCAAATGTTTG-GGCA-TTTTTTG
*
74172 AGATTTAACATCAAATGTTTGGGCATTTTTTG
1 AGATTCAACATCAAATGTTTGGGCATTTTTTG
* * * *
74204 AGATTCAACATCGAATATTGGGGCA-TCTTTG
1 AGATTCAACATCAAATGTTTGGGCATTTTTTG
*
74235 GGAATTCAACATC
1 AG-ATTCAACATC
74248 CTGATGCAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
31 6 0.09
32 37 0.57
33 19 0.29
34 3 0.05
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (32 bp):
AGATTCAACATCAAATGTTTGGGCATTTTTTG
Found at i:74960 original size:106 final size:105
Alignment explanation
Indices: 74829--75150 Score: 387
Period size: 106 Copynumber: 3.0 Consensus size: 105
74819 TGTGCCACTT
* * * *
74829 GAGAAAACACAAGTTCAACTCCACAATGAAGGGAAGACTGGTTGTCAAAAAATAATTTCCCAATT
1 GAGAAAACAC-AGTTCAACTTCACAATGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAATT
74894 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
65 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
* *
74935 GAGATAACACGAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAATT
1 GAGAAAACAC-AGTTCAACTTCACAATGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAATT
75000 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
65 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
* * * * * * * * ** *
75041 AAGACATCACAGACTCAACTTCAC-ATCGAAGGGGCGGCTAGCTGTCAACAAACAATTTCTTAGT
1 GAGAAAACACAG-TTCAACTTCACAAT-GAAGGGACGACTGGTTGTCAACAAACAATTTCCCAAT
* * * * * *
75105 TCCAGAGTCAATTTTAACTTCACGGCGGAGAATATTGGACTC
64 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
75147 -AGAA
1 GAGAA
75151 CAATAACGCT
Statistics
Matches: 188, Mismatches: 26, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
105 6 0.03
106 182 0.97
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (105 bp):
GAGAAAACACAGTTCAACTTCACAATGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAATTT
CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
Found at i:75589 original size:37 final size:37
Alignment explanation
Indices: 75515--75703 Score: 141
Period size: 37 Copynumber: 5.4 Consensus size: 37
75505 ATTGAAAACA
* * * * *
75515 TTTCCCTTGAAA-TAAATTTTATCTCGCTTGGGGTAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
75551 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
* * * *
75588 TTTCTCTTGAAACATAAA---------CATTGA-AAACA
1 TTTCCCTTGAAACA-AAATTTTGTCTCCCTTGAGATA-G
* ** *
75617 TTTCCTTTGAAA-TTAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
*
75653 TTTCCCTTGAAACAAAATTTTCTCTCCCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
*
75690 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
75704 TAAACCTTGA
Statistics
Matches: 116, Mismatches: 23, Indels: 27
0.70 0.14 0.16
Matches are distributed among these distances:
27 2 0.02
28 2 0.02
29 15 0.13
36 27 0.23
37 67 0.58
38 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
Found at i:75602 original size:87 final size:87
Alignment explanation
Indices: 75404--75582 Score: 322
Period size: 87 Copynumber: 2.1 Consensus size: 87
75394 GACAATTTCT
*
75404 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
75469 CTTGAAACAAAATTTTGTCTCC
66 CTTGAAACAAAATTTTGTCTCC
* * *
75491 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
75556 CTTGAAACAAAATTTTGTCTCC
66 CTTGAAACAAAATTTTGTCTCC
75578 CTTGA
1 CTTGA
75583 GATAGTTTCT
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (87 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
CTTGAAACAAAATTTTGTCTCC
Found at i:75602 original size:102 final size:102
Alignment explanation
Indices: 75491--75730 Score: 399
Period size: 102 Copynumber: 2.4 Consensus size: 102
75481 TTTTGTCTCC
* *
75491 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
*
75556 CTTGAAACAAAATTTTGTCTCCCTTGAGATAGTTTCT
66 CTTGAAACAAAATTTTCTCTCCCTTGAGATAGTTTCT
* * * *
75593 CTTGAAACATAAACATTGAAAACATTTCCTTTGAAATTAATTTTGTCTCTCTTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
75658 CTTGAAACAAAATTTTCTCTCCCTTGAGATAGTTTCT
66 CTTGAAACAAAATTTTCTCTCCCTTGAGATAGTTTCT
* *
75695 CTTGAAACATAAACCTTGAAAACGTTTCCCTTGAAA
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
75731 CATAAAATAT
Statistics
Matches: 128, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 128 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (102 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
CTTGAAACAAAATTTTCTCTCCCTTGAGATAGTTTCT
Found at i:75909 original size:36 final size:36
Alignment explanation
Indices: 75812--75928 Score: 166
Period size: 36 Copynumber: 3.2 Consensus size: 36
75802 TATCTTTTCC
*
75812 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTT
1 TTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTT
*
75848 TT-AGAACTAAGTTTTGTCTCCCTTGAGACAGTTTCTT
1 TTGA-AAC-AAATTTTGTCTCCCTTGAGACAGTTTCTT
*
75885 TTGAAACAAATTTTGTC-CCTCTTGAGACAGTTTCTC
1 TTGAAACAAATTTTGTCTCC-CTTGAGACAGTTTCTT
75921 TTGAAACA
1 TTGAAACA
75929 CAAAAAAAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
35 3 0.04
36 37 0.51
37 32 0.44
38 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.39
Consensus pattern (36 bp):
TTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTT
Found at i:75955 original size:37 final size:38
Alignment explanation
Indices: 75914--76004 Score: 132
Period size: 38 Copynumber: 2.4 Consensus size: 38
75904 TCTTGAGACA
*
75914 GTTTCTCTTGAAACACA-A-AAAAAAACCCCTTGAAATT
1 GTTTCTCTTGAAACACACACAAAAAAA-CCCTTGAAAAT
* *
75951 GTTTCTCTTGAAACACACACACAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACACACACAAAAAAACCCTTGAAAAT
75989 GTTTCTCTTGAAACAC
1 GTTTCTCTTGAAACAC
76005 CAAACCCTCG
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
37 17 0.35
38 26 0.53
39 6 0.12
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (38 bp):
GTTTCTCTTGAAACACACACAAAAAAACCCTTGAAAAT
Done.