Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 61 of 89
Found at i:14063558 original size:33 final size:33
Alignment explanation
Indices: 14063514--14063582 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
14063504 CATCACCATA
*
14063514 TTCCATCACCATATCA-CGCCAATAACATCATCC
1 TTCCATCACCATATCATCACCAATAA-ATCATCC
* * *
14063547 TTCCATTACCATTTCATCACCATTAAATCATCC
1 TTCCATCACCATATCATCACCAATAAATCATCC
14063580 TTC
1 TTC
14063583 ATTCATCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.30, C:0.36, G:0.01, T:0.32
Consensus pattern (33 bp):
TTCCATCACCATATCATCACCAATAAATCATCC
Found at i:14066163 original size:8 final size:8
Alignment explanation
Indices: 14066133--14066176 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
14066123 TCTTTTTGAA
14066133 CTTCTCTTT
1 CTTCT-TTT
14066142 -TTCTTTT
1 CTTCTTTT
14066149 CTTTTCTTTT
1 C--TTCTTTT
14066159 CTTCTTTT
1 CTTCTTTT
14066167 CTTCTTTT
1 CTTCTTTT
14066175 CT
1 CT
14066177 GATTTTTCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
7 3 0.09
8 21 0.66
10 8 0.25
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (8 bp):
CTTCTTTT
Found at i:14066939 original size:19 final size:21
Alignment explanation
Indices: 14066896--14066947 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
14066886 GAAACCCCTT
14066896 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
14066917 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
14066936 TGAAGATACATG
1 TGAAAATACATG
14066948 CTCTTGGCTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:14069229 original size:16 final size:16
Alignment explanation
Indices: 14069208--14069248 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
14069198 AATATATGGT
14069208 AATGAAATAAGAAAAA
1 AATGAAATAAGAAAAA
* * *
14069224 AATGAAAGAATAAATA
1 AATGAAATAAGAAAAA
14069240 AATGAAATA
1 AATGAAATA
14069249 GTAAGAAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.17
Consensus pattern (16 bp):
AATGAAATAAGAAAAA
Found at i:14069726 original size:45 final size:48
Alignment explanation
Indices: 14069677--14069771 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 48
14069667 GCAAAAAATA
*
14069677 AAGAAAATAAATGATTAAG-ATGGAAAT-ATAA-ATAA-GAAATGGA-AG
1 AAGAAAAGAAATGA-TAAGAATGGAAATGATAAGA-AAGGAAATGGATAG
**
14069722 AAGAATGGAAATGATAAGAATGGAAATGATAAGAAAGGAAATGGATAG
1 AAGAAAAGAAATGATAAGAATGGAAATGATAAGAAAGGAAATGGATAG
14069770 AA
1 AA
14069772 ATGTTATCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
44 4 0.10
45 19 0.45
46 6 0.14
47 9 0.21
48 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.24, T:0.18
Consensus pattern (48 bp):
AAGAAAAGAAATGATAAGAATGGAAATGATAAGAAAGGAAATGGATAG
Found at i:14069742 original size:15 final size:15
Alignment explanation
Indices: 14069722--14069764 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
14069712 GAAATGGAAG
14069722 AAGAATGGAAATGAT
1 AAGAATGGAAATGAT
14069737 AAGAATGGAAATGAT
1 AAGAATGGAAATGAT
*
14069752 AAGAAAGGAAATG
1 AAGAATGGAAATG
14069765 GATAGAAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.16
Consensus pattern (15 bp):
AAGAATGGAAATGAT
Found at i:14071590 original size:19 final size:20
Alignment explanation
Indices: 14071566--14071611 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
14071556 CGGCCAAGAG
**
14071566 CATGTATCTTCAT-TTAAAT
1 CATGTATCTTCATCAAAAAT
*
14071585 CATGTATTTTCATCAAAAAT
1 CATGTATCTTCATCAAAAAT
14071605 CATGTAT
1 CATGTAT
14071612 TTTAAAAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (20 bp):
CATGTATCTTCATCAAAAAT
Found at i:14072003 original size:36 final size:36
Alignment explanation
Indices: 14071956--14072060 Score: 176
Period size: 36 Copynumber: 2.9 Consensus size: 36
14071946 GATACAATCT
14071956 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
14071992 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * *
14072028 TTCAATCACCA-TATCACGCCTATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
14072061 ACTTATAAAT
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 21 0.32
36 45 0.68
ACGTcount: A:0.31, C:0.35, G:0.05, T:0.29
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:14087482 original size:24 final size:21
Alignment explanation
Indices: 14087447--14087489 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
14087437 GGCTCATTCT
*
14087447 TTTGAATTTCAAGAGGTACATCC
1 TTTGAATGTCAA-AGG-ACATCC
14087470 TTTGAAATGTCAAAGGACAT
1 TTTG-AATGTCAAAGGACAT
14087490 ATCTTGTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTGAATGTCAAAGGACATCC
Found at i:14088771 original size:28 final size:28
Alignment explanation
Indices: 14088713--14088776 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
14088703 TTTCTTTTAT
* * *
14088713 TTTCTTTGCTTTTTTTTTAAGTGCTGGAA
1 TTTCTTT-CTTTCTTTTGAAGTGCTGCAA
* *
14088742 TTTCTTTCTTTCTTTTGGAGTGCTTCAA
1 TTTCTTTCTTTCTTTTGAAGTGCTGCAA
14088770 TTT-TTTC
1 TTTCTTTC
14088777 CCTGATTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 4 0.13
28 19 0.63
29 7 0.23
ACGTcount: A:0.11, C:0.14, G:0.14, T:0.61
Consensus pattern (28 bp):
TTTCTTTCTTTCTTTTGAAGTGCTGCAA
Found at i:14091310 original size:19 final size:21
Alignment explanation
Indices: 14091267--14091318 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
14091257 GAAACCCCTT
14091267 TGAAAATACATGACTTTTAAA
1 TGAAAATACATGACTTTTAAA
14091288 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGACTTTTAAA
*
14091307 TGAAGATACATG
1 TGAAAATACATG
14091319 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (21 bp):
TGAAAATACATGACTTTTAAA
Found at i:14094643 original size:18 final size:19
Alignment explanation
Indices: 14094620--14094661 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
14094610 CTTGGCTTGC
14094620 TTTCTTTT-TGAATTTCTT
1 TTTCTTTTCTGAATTTCTT
* *
14094638 TTTCTTTTCTTATTTTCTT
1 TTTCTTTTCTGAATTTCTT
14094657 TTTCT
1 TTTCT
14094662 GAATTTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTCTTTTCTGAATTTCTT
Found at i:14095438 original size:19 final size:21
Alignment explanation
Indices: 14095395--14095446 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
14095385 GAAACCCCTT
14095395 TGAAAATACATGACTTTTAAA
1 TGAAAATACATGACTTTTAAA
14095416 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGACTTTTAAA
*
14095435 TGAAGATACATG
1 TGAAAATACATG
14095447 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (21 bp):
TGAAAATACATGACTTTTAAA
Found at i:14098506 original size:12 final size:12
Alignment explanation
Indices: 14098491--14098533 Score: 54
Period size: 10 Copynumber: 3.7 Consensus size: 12
14098481 CAAAAAAAAC
14098491 AAAAAAAGGCAA
1 AAAAAAAGGCAA
*
14098503 AAAAAAAGG--T
1 AAAAAAAGGCAA
14098513 AAAAAAAGGCACA
1 AAAAAAAGGCA-A
14098526 AAAAAAAG
1 AAAAAAAG
14098534 TAAAAAAAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 9 0.35
12 9 0.35
13 8 0.31
ACGTcount: A:0.74, C:0.07, G:0.16, T:0.02
Consensus pattern (12 bp):
AAAAAAAGGCAA
Found at i:14098516 original size:22 final size:21
Alignment explanation
Indices: 14098482--14098548 Score: 91
Period size: 22 Copynumber: 3.1 Consensus size: 21
14098472 ATTTTTTTCC
*
14098482 AAAAAAAA-CAAAAAAAGGCA
1 AAAAAAAAGTAAAAAAAGGCA
14098502 AAAAAAAAGGTAAAAAAAGGCA
1 AAAAAAAA-GTAAAAAAAGGCA
*
14098524 CAAAAAAAAGTAAAAAAAGCCA
1 -AAAAAAAAGTAAAAAAAGGCA
14098546 AAA
1 AAA
14098549 TTTCAAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
20 8 0.19
21 3 0.07
22 23 0.55
23 8 0.19
ACGTcount: A:0.76, C:0.09, G:0.12, T:0.03
Consensus pattern (21 bp):
AAAAAAAAGTAAAAAAAGGCA
Found at i:14112216 original size:13 final size:12
Alignment explanation
Indices: 14112197--14112282 Score: 58
Period size: 13 Copynumber: 7.2 Consensus size: 12
14112187 ATATAGGCGT
14112197 GATATGGTGATG
1 GATATGGTGATG
14112209 GAATATGGTGAT-
1 G-ATATGGTGATG
*
14112221 GATATAGGCG-T-
1 GATAT-GGTGATG
14112232 GATAATGGTGATG
1 GAT-ATGGTGATG
14112245 GACTATGGTGAT-
1 GA-TATGGTGATG
*
14112257 GATATAGGCG-T-
1 GATAT-GGTGATG
14112268 GATAATGGTGATG
1 GAT-ATGGTGATG
14112281 GA
1 GA
14112283 CAGGTTGTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 21 0.35
12 16 0.27
13 22 0.37
14 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.30
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:14112252 original size:36 final size:36
Alignment explanation
Indices: 14112179--14112283 Score: 185
Period size: 36 Copynumber: 2.9 Consensus size: 36
14112169 ATTTATAAGT
* *
14112179 TGGTGATAATATAGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
14112214 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
14112250 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
14112284 AGGTTGTATC
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
35 20 0.30
36 47 0.70
ACGTcount: A:0.29, C:0.05, G:0.36, T:0.30
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:14116240 original size:15 final size:15
Alignment explanation
Indices: 14116213--14116254 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
14116203 TTGCTTCACT
*
14116213 TTTTCTTTGTTTTT-
1 TTTTCTTTCTTTTTC
14116227 TTATTC-TTCTTTTTC
1 TT-TTCTTTCTTTTTC
14116242 TTTTCTTTCTTTT
1 TTTTCTTTCTTTT
14116255 GCACTCCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.81
Consensus pattern (15 bp):
TTTTCTTTCTTTTTC
Found at i:14116324 original size:23 final size:21
Alignment explanation
Indices: 14116280--14116325 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
14116270 TGTATGAGTC
* *
14116280 TTTTTCTTTTCTTTTTGTTTT
1 TTTTTCTTTTCTTGTTGCTTT
14116301 TTTTTCTTCTTTCTTGTTGCTTT
1 TTTTTC-T-TTTCTTGTTGCTTT
14116324 TT
1 TT
14116326 GTTGTAGCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 1 0.05
23 14 0.67
ACGTcount: A:0.00, C:0.13, G:0.07, T:0.80
Consensus pattern (21 bp):
TTTTTCTTTTCTTGTTGCTTT
Found at i:14116735 original size:22 final size:23
Alignment explanation
Indices: 14116707--14116753 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
14116697 ATTTATAAGT
14116707 TGGTGAT-AATATAGGC-ATGATA
1 TGGTGATGAATAT-GGCAATGATA
14116729 TGGTGATGGAATATGGCAATGATA
1 TGGTGAT-GAATATGGCAATGATA
14116753 T
1 T
14116754 AGGCGTGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 7 0.32
23 3 0.14
24 12 0.55
ACGTcount: A:0.34, C:0.04, G:0.30, T:0.32
Consensus pattern (23 bp):
TGGTGATGAATATGGCAATGATA
Found at i:14116780 original size:36 final size:36
Alignment explanation
Indices: 14116715--14116811 Score: 151
Period size: 36 Copynumber: 2.7 Consensus size: 36
14116705 GTTGGTGATA
*
14116715 ATATAGGCATGAT-ATGGTGATGGAATATGGCAATG
1 ATATAGGCGTGATAATGGTGATGGAATATGGCAATG
* **
14116750 ATATAGGCGTGATAATGGTGATGGACTATGGTGATG
1 ATATAGGCGTGATAATGGTGATGGAATATGGCAATG
14116786 ATATAGGCGTGATAATGGTGATGGAA
1 ATATAGGCGTGATAATGGTGATGGAA
14116812 AGATTGTGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
35 12 0.21
36 44 0.79
ACGTcount: A:0.32, C:0.05, G:0.34, T:0.29
Consensus pattern (36 bp):
ATATAGGCGTGATAATGGTGATGGAATATGGCAATG
Found at i:14124184 original size:5 final size:5
Alignment explanation
Indices: 14124174--14124237 Score: 78
Period size: 5 Copynumber: 12.4 Consensus size: 5
14124164 TGAACTTCTC
14124174 CTTTT CTTTT CTTTT CTTTT CTTCTT -TTCTT CTTTT CTTTT CTTTT CTTCTT
1 CTTTT CTTTT CTTTT CTTTT CTT-TT CTT-TT CTTTT CTTTT CTTTT CTT-TT
14124226 -TTCTT CTTTT CT
1 CTT-TT CTTTT CT
14124238 GATTTTTCTC
Statistics
Matches: 55, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
5 47 0.85
6 8 0.15
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (5 bp):
CTTTT
Found at i:14124197 original size:26 final size:26
Alignment explanation
Indices: 14124177--14124254 Score: 122
Period size: 26 Copynumber: 3.0 Consensus size: 26
14124167 ACTTCTCCTT
14124177 TTCTTTTCTTTTCTTTTCTTCTTTTC
1 TTCTTTTCTTTTCTTTTCTTCTTTTC
14124203 TTCTTTTCTTTTCTTTTCTTCTTTTC
1 TTCTTTTCTTTTCTTTTCTTCTTTTC
*
14124229 TTCTTTTCTGATTT-TTCTCTTCTTTT
1 TTCTTTTCT--TTTCTTTTCTTCTTTT
14124255 TGCACTCCAA
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
26 35 0.71
27 11 0.22
28 3 0.06
ACGTcount: A:0.01, C:0.22, G:0.01, T:0.76
Consensus pattern (26 bp):
TTCTTTTCTTTTCTTTTCTTCTTTTC
Found at i:14124198 original size:8 final size:8
Alignment explanation
Indices: 14124169--14124237 Score: 88
Period size: 8 Copynumber: 8.5 Consensus size: 8
14124159 CTTTTTGAAC
*
14124169 TTCTCCTT
1 TTCTTCTT
14124177 TTCTT-TT
1 TTCTTCTT
14124184 CTT-TTCTT
1 -TTCTTCTT
14124192 TTCTTCTT
1 TTCTTCTT
14124200 TTCTTCTT
1 TTCTTCTT
14124208 TTCTTTTCTT
1 TTC--TTCTT
14124218 TTCTTCTT
1 TTCTTCTT
14124226 TTCTTCTT
1 TTCTTCTT
14124234 TTCT
1 TTCT
14124238 GATTTTTCTC
Statistics
Matches: 55, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
7 6 0.11
8 41 0.75
10 8 0.15
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (8 bp):
TTCTTCTT
Found at i:14124198 original size:18 final size:18
Alignment explanation
Indices: 14124174--14124230 Score: 82
Period size: 18 Copynumber: 3.2 Consensus size: 18
14124164 TGAACTTCTC
14124174 CTTTTCTTTTCTT-TTCTT
1 CTTTTCTTTTCTTCTT-TT
14124192 -TTCTTCTTTTCTTCTTTT
1 CTT-TTCTTTTCTTCTTTT
14124210 CTTTTCTTTTCTTCTTTT
1 CTTTTCTTTTCTTCTTTT
14124228 CTT
1 CTT
14124231 CTTTTCTGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.06
18 30 0.83
19 4 0.11
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (18 bp):
CTTTTCTTTTCTTCTTTT
Found at i:14132990 original size:13 final size:13
Alignment explanation
Indices: 14132968--14132997 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
14132958 ACTAAACACC
14132968 TTTC-ACATACCT
1 TTTCAACATACCT
14132980 TTTCAACATACCT
1 TTTCAACATACCT
14132993 TTTCA
1 TTTCA
14132998 TATTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:14139895 original size:36 final size:36
Alignment explanation
Indices: 14139848--14139952 Score: 158
Period size: 36 Copynumber: 2.9 Consensus size: 36
14139838 GATACAATCT
*
14139848 GTCCATCACCATTATCATGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
*
14139884 GTCCATCACCATTATCACACCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * *
14139920 TTCCATTACCA-TATCACGCCTATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
14139953 ACTTATAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
35 20 0.32
36 43 0.68
ACGTcount: A:0.31, C:0.34, G:0.04, T:0.30
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:14139910 original size:11 final size:11
Alignment explanation
Indices: 14139851--14139935 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
14139841 ACAATCTGTC
14139851 CATCACCATTAT
1 CATCACCA-TAT
*
14139863 CATGC-CTATAT
1 CAT-CACCATAT
14139874 CATCACCATAGT
1 CATCACCATA-T
14139886 CCATCACCATTAT
1 -CATCACCA-TAT
14139899 CA-CACCTATAT
1 CATCACC-ATAT
14139910 CATCACCATATT
1 CATCACCATA-T
*
14139922 CCATTACCATAT
1 -CATCACCATAT
14139934 CA
1 CA
14139936 CGCCTATATT
Statistics
Matches: 61, Mismatches: 3, Indels: 19
0.73 0.04 0.23
Matches are distributed among these distances:
10 1 0.02
11 24 0.39
12 15 0.25
13 19 0.31
14 2 0.03
ACGTcount: A:0.33, C:0.34, G:0.02, T:0.31
Consensus pattern (11 bp):
CATCACCATAT
Found at i:14144802 original size:24 final size:25
Alignment explanation
Indices: 14144756--14144810 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
14144746 ACAGTTATGC
*
14144756 CACTTGAAGTTCAAAAAGATGTG-T
1 CACTTGAAGTGCAAAAAGATGTGAT
* * *
14144780 CACTTGAAGTGCCACAAGTTGTGAT
1 CACTTGAAGTGCAAAAAGATGTGAT
14144805 CA-TTGA
1 CACTTGA
14144811 GGCTCCAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (25 bp):
CACTTGAAGTGCAAAAAGATGTGAT
Found at i:14149479 original size:36 final size:36
Alignment explanation
Indices: 14149432--14149536 Score: 151
Period size: 36 Copynumber: 2.9 Consensus size: 36
14149422 GATACAATCT
14149432 GTCCATCACCATTATCACGACTATATCATCACCATA
1 GTCCATCACCATTATCACGACTATATCATCACCATA
14149468 GTCCATCACCATTATCAC-ACCTATATCATCACCATA
1 GTCCATCACCATTATCACGA-CTATATCATCACCATA
* * * *
14149504 TTCCATTACCA-TATCACGCCTATATTATCACCA
1 GTCCATCACCATTATCACGACTATATCATCACCA
14149537 ACTTATAAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
35 20 0.32
36 43 0.68
ACGTcount: A:0.32, C:0.34, G:0.04, T:0.30
Consensus pattern (36 bp):
GTCCATCACCATTATCACGACTATATCATCACCATA
Found at i:14149494 original size:11 final size:11
Alignment explanation
Indices: 14149435--14149519 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
14149425 ACAATCTGTC
14149435 CATCACCATTAT
1 CATCACCA-TAT
*
14149447 CA-CGACTATAT
1 CATC-ACCATAT
14149458 CATCACCATAGT
1 CATCACCATA-T
14149470 CCATCACCATTAT
1 -CATCACCA-TAT
14149483 CA-CACCTATAT
1 CATCACC-ATAT
14149494 CATCACCATATT
1 CATCACCATA-T
*
14149506 CCATTACCATAT
1 -CATCACCATAT
14149518 CA
1 CA
14149520 CGCCTATATT
Statistics
Matches: 61, Mismatches: 3, Indels: 19
0.73 0.04 0.23
Matches are distributed among these distances:
11 25 0.41
12 16 0.26
13 18 0.30
14 2 0.03
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.29
Consensus pattern (11 bp):
CATCACCATAT
Found at i:14150972 original size:23 final size:23
Alignment explanation
Indices: 14150915--14150973 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
14150905 AAATCCAGCA
*
14150915 AAGAAAATCAAAGCACTCAAAAG
1 AAGAAAATGAAAGCACTCAAAAG
*
14150938 AAGAAATTGAAAGCACTCAAAAG
1 AAGAAAATGAAAGCACTCAAAAG
*
14150961 AAGAAAAAGAAAG
1 AAGAAAATGAAAG
14150974 AAAGAAAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.63, C:0.12, G:0.17, T:0.08
Consensus pattern (23 bp):
AAGAAAATGAAAGCACTCAAAAG
Found at i:14170793 original size:35 final size:37
Alignment explanation
Indices: 14170724--14170803 Score: 110
Period size: 35 Copynumber: 2.2 Consensus size: 37
14170714 ATACTATTTC
* *
14170724 CATCACCATAATCCATCTTCCGTTATCACACCTATAT
1 CATCACCATAATCCATCTACCGATATCACACCTATAT
* *
14170761 CATCACCATAGTCCATC-ACC-ATATCACGCCTATAT
1 CATCACCATAATCCATCTACCGATATCACACCTATAT
14170796 CATCACCA
1 CATCACCA
14170804 AATTCTCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 21 0.54
36 2 0.05
37 16 0.41
ACGTcount: A:0.31, C:0.38, G:0.04, T:0.28
Consensus pattern (37 bp):
CATCACCATAATCCATCTACCGATATCACACCTATAT
Found at i:14171230 original size:14 final size:13
Alignment explanation
Indices: 14171195--14171238 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
14171185 AAGCAAGAAG
14171195 AAAGAAGAAAACA
1 AAAGAAGAAAACA
*
14171208 AAA-AAGAAAAGTA
1 AAAGAAGAAAA-CA
14171221 AAAGAAGAAAATCA
1 AAAGAAGAAAA-CA
14171235 AAAG
1 AAAG
14171239 CAAAAGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 7 0.27
13 7 0.27
14 12 0.46
ACGTcount: A:0.75, C:0.05, G:0.16, T:0.05
Consensus pattern (13 bp):
AAAGAAGAAAACA
Found at i:14171231 original size:20 final size:20
Alignment explanation
Indices: 14171208--14171246 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14171198 GAAGAAAACA
* *
14171208 AAAAAGAAAAGTAAAAGAAG
1 AAAAACAAAAGCAAAAGAAG
*
14171228 AAAATCAAAAGCAAAAGAA
1 AAAAACAAAAGCAAAAGAA
14171247 AAGTGAAGCA
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:0.74, C:0.05, G:0.15, T:0.05
Consensus pattern (20 bp):
AAAAACAAAAGCAAAAGAAG
Found at i:14171243 original size:26 final size:25
Alignment explanation
Indices: 14171182--14171249 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 25
14171172 GCTACAACAA
14171182 AAAAAGCAAGAAG-AAAGAAGAAAAC
1 AAAAAGCAA-AAGAAAAGAAGAAAAC
14171207 AAAAAAG-AAAAGTAAAAGAAGAAAATC
1 -AAAAAGCAAAAG-AAAAGAAGAAAA-C
14171234 -AAAAGCAAAAGAAAAG
1 AAAAAGCAAAAGAAAAG
14171250 TGAAGCAAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
24 3 0.08
25 12 0.32
26 22 0.58
27 1 0.03
ACGTcount: A:0.74, C:0.06, G:0.18, T:0.03
Consensus pattern (25 bp):
AAAAAGCAAAAGAAAAGAAGAAAAC
Found at i:14174769 original size:13 final size:14
Alignment explanation
Indices: 14174751--14174813 Score: 50
Period size: 13 Copynumber: 4.9 Consensus size: 14
14174741 AGATACTATT
14174751 TCCATCACCATA-A
1 TCCATCACCATATA
*
14174764 TCCATCTTCCA-ATA
1 TCCATC-ACCATATA
14174778 T-CA-CACC-TATA
1 TCCATCACCATATA
*
14174789 T-CATCACCATA-G
1 TCCATCACCATATA
14174801 TCCATCACCATAT
1 TCCATCACCATAT
14174814 CACGCCTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 13
0.71 0.05 0.23
Matches are distributed among these distances:
11 8 0.20
12 6 0.15
13 21 0.52
14 5 0.12
ACGTcount: A:0.33, C:0.37, G:0.02, T:0.29
Consensus pattern (14 bp):
TCCATCACCATATA
Found at i:14174791 original size:11 final size:11
Alignment explanation
Indices: 14174775--14174832 Score: 57
Period size: 11 Copynumber: 5.1 Consensus size: 11
14174765 CCATCTTCCA
14174775 ATATCA-CACC
1 ATATCATCACC
14174785 TATATCATCACC
1 -ATATCATCACC
14174797 ATAGTCCATCACC
1 ATA-T-CATCACC
*
14174810 ATATCA-CGCC
1 ATATCATCACC
14174820 TATATCATCACC
1 -ATATCATCACC
14174832 A
1 A
14174833 AATTCTCAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
10 3 0.08
11 18 0.45
12 9 0.22
13 10 0.25
ACGTcount: A:0.34, C:0.36, G:0.03, T:0.26
Consensus pattern (11 bp):
ATATCATCACC
Found at i:14174822 original size:35 final size:37
Alignment explanation
Indices: 14174753--14174832 Score: 119
Period size: 35 Copynumber: 2.2 Consensus size: 37
14174743 ATACTATTTC
*
14174753 CATCACCATAATCCATCTTCCAATATCACACCTATAT
1 CATCACCATAATCCATCTACCAATATCACACCTATAT
* *
14174790 CATCACCATAGTCCATC-ACC-ATATCACGCCTATAT
1 CATCACCATAATCCATCTACCAATATCACACCTATAT
14174825 CATCACCA
1 CATCACCA
14174833 AATTCTCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 22 0.55
36 2 0.05
37 16 0.40
ACGTcount: A:0.34, C:0.38, G:0.03, T:0.26
Consensus pattern (37 bp):
CATCACCATAATCCATCTACCAATATCACACCTATAT
Found at i:14175253 original size:26 final size:27
Alignment explanation
Indices: 14175210--14175266 Score: 82
Period size: 26 Copynumber: 2.1 Consensus size: 27
14175200 TGCTACAACA
*
14175210 AAAAAAGCAAGAAGAAAGAAGAAAA-C
1 AAAAAAGAAAGAAGAAAGAAGAAAATC
14175236 AAAAAAGAAAAGAA-AAAGAAGAAAATC
1 AAAAAAG-AAAGAAGAAAGAAGAAAATC
14175263 AAAA
1 AAAA
14175267 TCAAAAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 18 0.64
27 10 0.36
ACGTcount: A:0.77, C:0.05, G:0.16, T:0.02
Consensus pattern (27 bp):
AAAAAAGAAAGAAGAAAGAAGAAAATC
Found at i:14175272 original size:26 final size:26
Alignment explanation
Indices: 14175219--14175277 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
14175209 AAAAAAAGCA
*
14175219 AGAAGAAAGAAGAAAACAAAAAAGAAA
1 AGAA-AAAGAAGAAAACAAAAAACAAA
*
14175246 AGAAAAAGAAGAAAATC-AAAATCAAA
1 AGAAAAAGAAGAAAA-CAAAAAACAAA
14175272 AGAAAA
1 AGAAAA
14175278 GTGAAGCAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 24 0.83
27 5 0.17
ACGTcount: A:0.76, C:0.05, G:0.15, T:0.03
Consensus pattern (26 bp):
AGAAAAAGAAGAAAACAAAAAACAAA
Found at i:14178796 original size:13 final size:13
Alignment explanation
Indices: 14178778--14178839 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
14178768 AGATACTATT
14178778 TCCATCACCATAA
1 TCCATCACCATAA
* *
14178791 TCCATCTTCCATTA
1 TCCATC-ACCATAA
14178805 T-CA-CACC-TATA
1 TCCATCACCATA-A
*
14178816 T-CATCACCATAG
1 TCCATCACCATAA
14178828 TCCATCACCATA
1 TCCATCACCATA
14178840 TCACGCCTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.15
12 6 0.15
13 20 0.51
14 6 0.15
ACGTcount: A:0.32, C:0.37, G:0.02, T:0.29
Consensus pattern (13 bp):
TCCATCACCATAA
Found at i:14178849 original size:35 final size:37
Alignment explanation
Indices: 14178780--14178859 Score: 119
Period size: 35 Copynumber: 2.2 Consensus size: 37
14178770 ATACTATTTC
*
14178780 CATCACCATAATCCATCTTCCATTATCACACCTATAT
1 CATCACCATAATCCATCTACCATTATCACACCTATAT
* *
14178817 CATCACCATAGTCCATC-ACCA-TATCACGCCTATAT
1 CATCACCATAATCCATCTACCATTATCACACCTATAT
14178852 CATCACCA
1 CATCACCA
14178860 AATTCTCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 21 0.52
36 3 0.08
37 16 0.40
ACGTcount: A:0.33, C:0.38, G:0.03, T:0.28
Consensus pattern (37 bp):
CATCACCATAATCCATCTACCATTATCACACCTATAT
Found at i:14179290 original size:23 final size:23
Alignment explanation
Indices: 14179237--14179290 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 23
14179227 TGCTACAACA
*
14179237 AAAAAAGCAAGAAGAAAGGAGAAAAC
1 AAAAAAG-AA-AAG-AAGAAGAAAAC
14179263 AAAAAAGAAAAGAAGAAGAAAATC
1 AAAAAAGAAAAGAAGAAGAAAA-C
14179287 AAAA
1 AAAA
14179291 TCAAAAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 9 0.35
24 8 0.31
25 2 0.08
26 7 0.27
ACGTcount: A:0.74, C:0.06, G:0.19, T:0.02
Consensus pattern (23 bp):
AAAAAAGAAAAGAAGAAGAAAAC
Found at i:14182820 original size:13 final size:13
Alignment explanation
Indices: 14182802--14182863 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
14182792 AGATACTATT
14182802 TCCATCACCATAA
1 TCCATCACCATAA
* *
14182815 TCCATCTTCCATTA
1 TCCATC-ACCATAA
14182829 T-CA-CACC-TATA
1 TCCATCACCATA-A
*
14182840 T-CATCACCATAG
1 TCCATCACCATAA
14182852 TCCATCACCATA
1 TCCATCACCATA
14182864 TCACGCCTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.15
12 6 0.15
13 20 0.51
14 6 0.15
ACGTcount: A:0.32, C:0.37, G:0.02, T:0.29
Consensus pattern (13 bp):
TCCATCACCATAA
Found at i:14182873 original size:35 final size:37
Alignment explanation
Indices: 14182804--14182883 Score: 119
Period size: 35 Copynumber: 2.2 Consensus size: 37
14182794 ATACTATTTC
*
14182804 CATCACCATAATCCATCTTCCATTATCACACCTATAT
1 CATCACCATAATCCATCTACCATTATCACACCTATAT
* *
14182841 CATCACCATAGTCCATC-ACCA-TATCACGCCTATAT
1 CATCACCATAATCCATCTACCATTATCACACCTATAT
14182876 CATCACCA
1 CATCACCA
14182884 AATTCTCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 21 0.52
36 3 0.08
37 16 0.40
ACGTcount: A:0.33, C:0.38, G:0.03, T:0.28
Consensus pattern (37 bp):
CATCACCATAATCCATCTACCATTATCACACCTATAT
Found at i:14183304 original size:26 final size:27
Alignment explanation
Indices: 14183261--14183317 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
14183251 TGCTACAACA
* *
14183261 AAAAAAGCAAGAAGAAAGGAGAAAA-C
1 AAAAAAGAAAGAAGAAAGAAGAAAATC
14183287 AAAAAAGAAAAGAA-AAAGAAGAAAATC
1 AAAAAAG-AAAGAAGAAAGAAGAAAATC
14183314 AAAA
1 AAAA
14183318 TCAAAAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 17 0.63
27 10 0.37
ACGTcount: A:0.75, C:0.05, G:0.18, T:0.02
Consensus pattern (27 bp):
AAAAAAGAAAGAAGAAAGAAGAAAATC
Found at i:14186848 original size:13 final size:13
Alignment explanation
Indices: 14186830--14186891 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
14186820 AGATACTATT
14186830 TCCATCACCATAA
1 TCCATCACCATAA
* *
14186843 TCCATCTTCCATTA
1 TCCATC-ACCATAA
14186857 T-CA-CACC-TATA
1 TCCATCACCATA-A
*
14186868 T-CATCACCATAG
1 TCCATCACCATAA
14186880 TCCATCACCATA
1 TCCATCACCATA
14186892 TCACGCCTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.15
12 6 0.15
13 20 0.51
14 6 0.15
ACGTcount: A:0.32, C:0.37, G:0.02, T:0.29
Consensus pattern (13 bp):
TCCATCACCATAA
Found at i:14186901 original size:35 final size:37
Alignment explanation
Indices: 14186832--14186911 Score: 119
Period size: 35 Copynumber: 2.2 Consensus size: 37
14186822 ATACTATTTC
*
14186832 CATCACCATAATCCATCTTCCATTATCACACCTATAT
1 CATCACCATAATCCATCTACCATTATCACACCTATAT
* *
14186869 CATCACCATAGTCCATC-ACCA-TATCACGCCTATAT
1 CATCACCATAATCCATCTACCATTATCACACCTATAT
14186904 CATCACCA
1 CATCACCA
14186912 AATTCTCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 21 0.52
36 3 0.08
37 16 0.40
ACGTcount: A:0.33, C:0.38, G:0.03, T:0.28
Consensus pattern (37 bp):
CATCACCATAATCCATCTACCATTATCACACCTATAT
Found at i:14187356 original size:25 final size:25
Alignment explanation
Indices: 14187297--14187355 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
14187287 CAAAAAAAGC
* *
14187297 AAGAAGAAAGGAGAAAACAAAAAGAA
1 AAGAA-AAAGAAGAAAACAAAAACAA
*
14187323 AAGAAAAAGAAGAAAATCAAAATCAA
1 AAGAAAAAGAAGAAAA-CAAAAACAA
14187349 AAGAAAA
1 AAGAAAA
14187356 GTGAAGCAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 10 0.34
26 19 0.66
ACGTcount: A:0.75, C:0.05, G:0.17, T:0.03
Consensus pattern (25 bp):
AAGAAAAAGAAGAAAACAAAAACAA
Found at i:14197130 original size:35 final size:37
Alignment explanation
Indices: 14197060--14197139 Score: 112
Period size: 35 Copynumber: 2.2 Consensus size: 37
14197050 ATACTATTTC
*
14197060 CATCACCATAATCCATCTTCCATTATCACAGCTATAT
1 CATCACCATAATCCATCTACCATTATCACAGCTATAT
*
14197097 CATCACCATAGTCCATC-ACCA-TATCAC-GCCTATAT
1 CATCACCATAATCCATCTACCATTATCACAG-CTATAT
14197132 CATCACCA
1 CATCACCA
14197140 AATTCTCAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
34 1 0.03
35 20 0.50
36 3 0.08
37 16 0.40
ACGTcount: A:0.33, C:0.36, G:0.04, T:0.28
Consensus pattern (37 bp):
CATCACCATAATCCATCTACCATTATCACAGCTATAT
Found at i:14197560 original size:26 final size:27
Alignment explanation
Indices: 14197517--14197573 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
14197507 TGCTACAACA
* *
14197517 AAAAAAGCAAGAAGAAAGGAGAAAA-C
1 AAAAAAGAAAGAAGAAAGAAGAAAATC
14197543 AAAAAAGAAAAGAA-AAAGAAGAAAATC
1 AAAAAAG-AAAGAAGAAAGAAGAAAATC
14197570 AAAA
1 AAAA
14197574 TCAAAAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 17 0.63
27 10 0.37
ACGTcount: A:0.75, C:0.05, G:0.18, T:0.02
Consensus pattern (27 bp):
AAAAAAGAAAGAAGAAAGAAGAAAATC
Found at i:14201152 original size:35 final size:37
Alignment explanation
Indices: 14201082--14201161 Score: 112
Period size: 35 Copynumber: 2.2 Consensus size: 37
14201072 ATACTATTTC
*
14201082 CATCACCATAATCCATCTTCCATTATCACAGCTATAT
1 CATCACCATAATCCATCTACCATTATCACAGCTATAT
*
14201119 CATCACCATAGTCCATC-ACCA-TATCAC-GCCTATAT
1 CATCACCATAATCCATCTACCATTATCACAG-CTATAT
14201154 CATCACCA
1 CATCACCA
14201162 AATTCTCAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
34 1 0.03
35 20 0.50
36 3 0.08
37 16 0.40
ACGTcount: A:0.33, C:0.36, G:0.04, T:0.28
Consensus pattern (37 bp):
CATCACCATAATCCATCTACCATTATCACAGCTATAT
Found at i:14201582 original size:26 final size:27
Alignment explanation
Indices: 14201539--14201595 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
14201529 TGCTACAACA
* *
14201539 AAAAAAGCAAGAAGAAAGGAGAAAA-C
1 AAAAAAGAAAGAAGAAAGAAGAAAATC
14201565 AAAAAAGAAAAGAA-AAAGAAGAAAATC
1 AAAAAAG-AAAGAAGAAAGAAGAAAATC
14201592 AAAA
1 AAAA
14201596 GCAAAAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 17 0.63
27 10 0.37
ACGTcount: A:0.75, C:0.05, G:0.18, T:0.02
Consensus pattern (27 bp):
AAAAAAGAAAGAAGAAAGAAGAAAATC
Found at i:14201589 original size:20 final size:20
Alignment explanation
Indices: 14201566--14201604 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14201556 GGAGAAAACA
*
14201566 AAAAAGAAAAGAAAAAGAAG
1 AAAAACAAAAGAAAAAGAAG
* *
14201586 AAAATCAAAAGCAAAAGAA
1 AAAAACAAAAGAAAAAGAA
14201605 AAGTGAAGCA
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:0.77, C:0.05, G:0.15, T:0.03
Consensus pattern (20 bp):
AAAAACAAAAGAAAAAGAAG
Found at i:14201606 original size:25 final size:25
Alignment explanation
Indices: 14201540--14201607 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 25
14201530 GCTACAACAA
*
14201540 AAAAAGCAAGAAG-AAAGGAGAAAAC
1 AAAAAGCAA-AAGAAAAGAAGAAAAC
14201565 AAAAAAG-AAAAGAAAAAGAAGAAAATC
1 -AAAAAGCAAAAG-AAAAGAAGAAAA-C
14201592 -AAAAGCAAAAGAAAAG
1 AAAAAGCAAAAGAAAAG
14201608 TGAAGCAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
24 3 0.08
25 12 0.32
26 21 0.57
27 1 0.03
ACGTcount: A:0.74, C:0.06, G:0.19, T:0.01
Consensus pattern (25 bp):
AAAAAGCAAAAGAAAAGAAGAAAAC
Found at i:14204564 original size:13 final size:14
Alignment explanation
Indices: 14204546--14204608 Score: 50
Period size: 13 Copynumber: 4.9 Consensus size: 14
14204536 AGATACTATT
14204546 TCCATCACCATA-A
1 TCCATCACCATATA
*
14204559 TCCATCTTCCA-ATA
1 TCCATC-ACCATATA
14204573 T-CA-CACC-TATA
1 TCCATCACCATATA
*
14204584 T-CATCACCATA-G
1 TCCATCACCATATA
14204596 TCCATCACCATAT
1 TCCATCACCATAT
14204609 CACGCCTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 13
0.71 0.05 0.23
Matches are distributed among these distances:
11 8 0.20
12 6 0.15
13 21 0.52
14 5 0.12
ACGTcount: A:0.33, C:0.37, G:0.02, T:0.29
Consensus pattern (14 bp):
TCCATCACCATATA
Found at i:14204586 original size:11 final size:11
Alignment explanation
Indices: 14204570--14204627 Score: 57
Period size: 11 Copynumber: 5.1 Consensus size: 11
14204560 CCATCTTCCA
14204570 ATATCA-CACC
1 ATATCATCACC
14204580 TATATCATCACC
1 -ATATCATCACC
14204592 ATAGTCCATCACC
1 ATA-T-CATCACC
*
14204605 ATATCA-CGCC
1 ATATCATCACC
14204615 TATATCATCACC
1 -ATATCATCACC
14204627 A
1 A
14204628 AATTCTCAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
10 3 0.08
11 18 0.45
12 9 0.22
13 10 0.25
ACGTcount: A:0.34, C:0.36, G:0.03, T:0.26
Consensus pattern (11 bp):
ATATCATCACC
Found at i:14204617 original size:35 final size:37
Alignment explanation
Indices: 14204548--14204627 Score: 119
Period size: 35 Copynumber: 2.2 Consensus size: 37
14204538 ATACTATTTC
*
14204548 CATCACCATAATCCATCTTCCAATATCACACCTATAT
1 CATCACCATAATCCATCTACCAATATCACACCTATAT
* *
14204585 CATCACCATAGTCCATC-ACC-ATATCACGCCTATAT
1 CATCACCATAATCCATCTACCAATATCACACCTATAT
14204620 CATCACCA
1 CATCACCA
14204628 AATTCTCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 22 0.55
36 2 0.05
37 16 0.40
ACGTcount: A:0.34, C:0.38, G:0.03, T:0.26
Consensus pattern (37 bp):
CATCACCATAATCCATCTACCAATATCACACCTATAT
Found at i:14205048 original size:26 final size:27
Alignment explanation
Indices: 14205005--14205061 Score: 82
Period size: 26 Copynumber: 2.1 Consensus size: 27
14204995 TGCTACAACA
*
14205005 AAAAAAGCAAGAAGAAAGAAGAAAA-C
1 AAAAAAGAAAGAAGAAAGAAGAAAATC
14205031 AAAAAAGAAAAGAA-AAAGAAGAAAATC
1 AAAAAAG-AAAGAAGAAAGAAGAAAATC
14205058 AAAA
1 AAAA
14205062 GCAAAAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 18 0.64
27 10 0.36
ACGTcount: A:0.77, C:0.05, G:0.16, T:0.02
Consensus pattern (27 bp):
AAAAAAGAAAGAAGAAAGAAGAAAATC
Found at i:14205055 original size:20 final size:20
Alignment explanation
Indices: 14205032--14205070 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14205022 GAAGAAAACA
*
14205032 AAAAAGAAAAGAAAAAGAAG
1 AAAAACAAAAGAAAAAGAAG
* *
14205052 AAAATCAAAAGCAAAAGAA
1 AAAAACAAAAGAAAAAGAA
14205071 AAGTGAAGCA
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:0.77, C:0.05, G:0.15, T:0.03
Consensus pattern (20 bp):
AAAAACAAAAGAAAAAGAAG
Found at i:14205061 original size:14 final size:13
Alignment explanation
Indices: 14205019--14205062 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
14205009 AAGCAAGAAG
14205019 AAAGAAGAAAACA
1 AAAGAAGAAAACA
*
14205032 AAA-AAGAAAAGAA
1 AAAGAAGAAAA-CA
14205045 AAAGAAGAAAATCA
1 AAAGAAGAAAA-CA
14205059 AAAG
1 AAAG
14205063 CAAAAGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 7 0.27
13 7 0.27
14 12 0.46
ACGTcount: A:0.77, C:0.05, G:0.16, T:0.02
Consensus pattern (13 bp):
AAAGAAGAAAACA
Found at i:14205067 original size:26 final size:25
Alignment explanation
Indices: 14205013--14205072 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 25
14205003 CAAAAAAAGC
14205013 AAGAAGAAAGAAGAAAACAAAAAAGAA
1 AAGAA-AAAGAAGAAAAC-AAAAAGAA
14205040 AAGAAAAAGAAGAAAATC-AAAAGCAA
1 AAGAAAAAGAAGAAAA-CAAAAAG-AA
14205066 AAGAAAA
1 AAGAAAA
14205073 GTGAAGCAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
25 5 0.16
26 20 0.65
27 6 0.19
ACGTcount: A:0.77, C:0.05, G:0.17, T:0.02
Consensus pattern (25 bp):
AAGAAAAAGAAGAAAACAAAAAGAA
Found at i:14208604 original size:13 final size:13
Alignment explanation
Indices: 14208586--14208647 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
14208576 AGATACTATT
14208586 TCCATCACCATAA
1 TCCATCACCATAA
* *
14208599 TCCATCTTCCATTA
1 TCCATC-ACCATAA
14208613 T-CA-CACC-TATA
1 TCCATCACCATA-A
*
14208624 T-CATCACCATAG
1 TCCATCACCATAA
14208636 TCCATCACCATA
1 TCCATCACCATA
14208648 TCACGCCTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.15
12 6 0.15
13 20 0.51
14 6 0.15
ACGTcount: A:0.32, C:0.37, G:0.02, T:0.29
Consensus pattern (13 bp):
TCCATCACCATAA
Found at i:14208657 original size:35 final size:37
Alignment explanation
Indices: 14208588--14208667 Score: 119
Period size: 35 Copynumber: 2.2 Consensus size: 37
14208578 ATACTATTTC
*
14208588 CATCACCATAATCCATCTTCCATTATCACACCTATAT
1 CATCACCATAATCCATCTACCATTATCACACCTATAT
* *
14208625 CATCACCATAGTCCATC-ACCA-TATCACGCCTATAT
1 CATCACCATAATCCATCTACCATTATCACACCTATAT
14208660 CATCACCA
1 CATCACCA
14208668 AATTCTCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 21 0.52
36 3 0.08
37 16 0.40
ACGTcount: A:0.33, C:0.38, G:0.03, T:0.28
Consensus pattern (37 bp):
CATCACCATAATCCATCTACCATTATCACACCTATAT
Found at i:14213605 original size:25 final size:25
Alignment explanation
Indices: 14213556--14213605 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
14213546 TAGAAATGGT
* *
14213556 TAAGAAAGATGATAAGGTAATGGAA
1 TAAGAAAGATGATAAGGAAAAGGAA
14213581 TAAGAAAAGATGA-AAGGAAAAGGAA
1 TAAG-AAAGATGATAAGGAAAAGGAA
14213606 ATGAAATAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.58, C:0.00, G:0.28, T:0.14
Consensus pattern (25 bp):
TAAGAAAGATGATAAGGAAAAGGAA
Found at i:14220064 original size:36 final size:36
Alignment explanation
Indices: 14220013--14220117 Score: 158
Period size: 36 Copynumber: 2.9 Consensus size: 36
14220003 GATACAATCT
14220013 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* *
14220049 GTCTATCACCATTATCACACCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * *
14220085 TTCCATTACCA-TATCACGCCTATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
14220118 ACTTATAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
35 20 0.32
36 42 0.68
ACGTcount: A:0.31, C:0.34, G:0.04, T:0.30
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:14220075 original size:11 final size:11
Alignment explanation
Indices: 14220016--14220100 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
14220006 ACAATCTGTC
14220016 CATCACCATTAT
1 CATCACCA-TAT
*
14220028 CA-CGCCTATAT
1 CATCACC-ATAT
14220039 CATCACCATAGT
1 CATCACCATA-T
14220051 CTATCACCATTAT
1 C-ATCACCA-TAT
14220064 CA-CACCTATAT
1 CATCACC-ATAT
14220075 CATCACCATATT
1 CATCACCATA-T
*
14220087 CCATTACCATAT
1 -CATCACCATAT
14220099 CA
1 CA
14220101 CGCCTATATT
Statistics
Matches: 61, Mismatches: 3, Indels: 19
0.73 0.04 0.23
Matches are distributed among these distances:
11 25 0.41
12 16 0.26
13 18 0.30
14 2 0.03
ACGTcount: A:0.33, C:0.34, G:0.02, T:0.31
Consensus pattern (11 bp):
CATCACCATAT
Found at i:14220496 original size:6 final size:6
Alignment explanation
Indices: 14220485--14220527 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
14220475 AAGCAATAAA
* *
14220485 AAAAAG AAAAAG TAAGAAG AAAAAT AAAAAG -AAAAG AAAAAG A
1 AAAAAG AAAAAG -AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
14220528 CTCCTACATC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
5 5 0.16
6 21 0.68
7 5 0.16
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (6 bp):
AAAAAG
Found at i:14220514 original size:20 final size:17
Alignment explanation
Indices: 14220485--14220525 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
14220475 AAGCAATAAA
*
14220485 AAAAAGAAAAAGTAAGAAG
1 AAAAATAAAAAG-AA-AAG
14220504 AAAAATAAAAAGAAAAG
1 AAAAATAAAAAGAAAAG
14220521 AAAAA
1 AAAAA
14220526 GACTCCTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.38
18 2 0.10
19 11 0.52
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (17 bp):
AAAAATAAAAAGAAAAG
Found at i:14225743 original size:36 final size:36
Alignment explanation
Indices: 14225695--14225798 Score: 147
Period size: 36 Copynumber: 2.9 Consensus size: 36
14225685 ATACAATCTT
* *
14225695 TCCATCATCATTATCATGCCTATATCATCACCATAG
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* *
14225731 TCCATCACCATTATCACACCTATATCATCACCATAT
1 TCCATCACCATTATCACGCCTATATCATCACCATAG
* *
14225767 TCCATTACCA-TATCACGCCTATATTATCACCA
1 TCCATCACCATTATCACGCCTATATCATCACCA
14225799 ACTTATAAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
35 20 0.33
36 41 0.67
ACGTcount: A:0.32, C:0.34, G:0.03, T:0.32
Consensus pattern (36 bp):
TCCATCACCATTATCACGCCTATATCATCACCATAG
Found at i:14225756 original size:11 final size:11
Alignment explanation
Indices: 14225716--14225781 Score: 62
Period size: 13 Copynumber: 5.5 Consensus size: 11
14225706 TATCATGCCT
14225716 ATATCATCACC
1 ATATCATCACC
14225727 ATAGTCCATCACC
1 ATA-T-CATCACC
14225740 ATTATCA-CACC
1 A-TATCATCACC
14225751 TATATCATCACC
1 -ATATCATCACC
*
14225763 ATATTCCATTACC
1 ATA-T-CATCACC
14225776 ATATCA
1 ATATCA
14225782 CGCCTATATT
Statistics
Matches: 47, Mismatches: 1, Indels: 14
0.76 0.02 0.23
Matches are distributed among these distances:
11 17 0.36
12 10 0.21
13 18 0.38
14 2 0.04
ACGTcount: A:0.35, C:0.33, G:0.02, T:0.30
Consensus pattern (11 bp):
ATATCATCACC
Found at i:14242410 original size:24 final size:24
Alignment explanation
Indices: 14242379--14242428 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
14242369 TTTAAAGGGT
14242379 TTAGGCCGAATAGACACATGATGG
1 TTAGGCCGAATAGACACATGATGG
14242403 TTAGGCCGAATAGACACATGATGG
1 TTAGGCCGAATAGACACATGATGG
14242427 TT
1 TT
14242429 CGGCTAAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (24 bp):
TTAGGCCGAATAGACACATGATGG
Found at i:14242474 original size:19 final size:19
Alignment explanation
Indices: 14242450--14242491 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
14242440 GACACCCATT
*
14242450 TGAAAACACATGATTTTAA
1 TGAAAACACATAATTTTAA
*
14242469 TGAAAATACATAATTTTAA
1 TGAAAACACATAATTTTAA
14242488 TGAA
1 TGAA
14242492 GATAAATGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (19 bp):
TGAAAACACATAATTTTAA
Found at i:14247006 original size:23 final size:23
Alignment explanation
Indices: 14246949--14247007 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
14246939 AAATCCAGCA
*
14246949 AAGAAAATCAAAGCACTCAAAAG
1 AAGAAAATGAAAGCACTCAAAAG
*
14246972 AAGAAATTGAAAGCACTCAAAAG
1 AAGAAAATGAAAGCACTCAAAAG
*
14246995 AAGAAAAAGAAAG
1 AAGAAAATGAAAG
14247008 AAAGAAAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.63, C:0.12, G:0.17, T:0.08
Consensus pattern (23 bp):
AAGAAAATGAAAGCACTCAAAAG
Found at i:14248252 original size:24 final size:21
Alignment explanation
Indices: 14248218--14248260 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
14248208 TCCACAAGAT
*
14248218 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
14248240 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
14248261 ATAATGAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:14261194 original size:12 final size:12
Alignment explanation
Indices: 14261177--14261204 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
14261167 GATATATGGA
14261177 TAAAATCAGCCC
1 TAAAATCAGCCC
14261189 TAAAATCAGCCC
1 TAAAATCAGCCC
14261201 TAAA
1 TAAA
14261205 TACCAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.29, G:0.07, T:0.18
Consensus pattern (12 bp):
TAAAATCAGCCC
Found at i:14264256 original size:1 final size:1
Alignment explanation
Indices: 14264252--14264305 Score: 54
Period size: 1 Copynumber: 54.0 Consensus size: 1
14264242 AAATTTTTGC
* * ** * *
14264252 TTTTTTGTTTTTTTTTTTGTTTTTTTCCTTTTTTTTTTGTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
14264306 GAAAAAAATA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.00, C:0.04, G:0.07, T:0.89
Consensus pattern (1 bp):
T
Found at i:14264267 original size:12 final size:12
Alignment explanation
Indices: 14264252--14264305 Score: 74
Period size: 12 Copynumber: 4.4 Consensus size: 12
14264242 AAATTTTTGC
14264252 TTTTTTGTTTTT
1 TTTTTTGTTTTT
14264264 TTTTTTGTTTTT
1 TTTTTTGTTTTT
14264276 TTCCTTTT-TTTTT
1 TT--TTTTGTTTTT
*
14264289 TGTTTTGTTTTT
1 TTTTTTGTTTTT
14264301 TTTTT
1 TTTTT
14264306 GAAAAAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
11 4 0.11
12 23 0.62
13 6 0.16
14 4 0.11
ACGTcount: A:0.00, C:0.04, G:0.07, T:0.89
Consensus pattern (12 bp):
TTTTTTGTTTTT
Found at i:14264268 original size:20 final size:19
Alignment explanation
Indices: 14264245--14264305 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 19
14264235 TTTTTTAAAA
14264245 TTTTTGCTTTTTTGTTTTTT
1 TTTTTG-TTTTTTGTTTTTT
14264265 TTTTTGTTTTTT-TCCTTTTT
1 TTTTTGTTTTTTGT--TTTTT
14264285 TTTTTG--TTTTGTTTTTT
1 TTTTTGTTTTTTGTTTTTT
14264302 TTTT
1 TTTT
14264306 GAAAAAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
17 9 0.24
18 5 0.13
19 7 0.18
20 17 0.45
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (19 bp):
TTTTTGTTTTTTGTTTTTT
Found at i:14271170 original size:14 final size:14
Alignment explanation
Indices: 14271148--14271186 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
14271138 TTTTAAAAAA
*
14271148 AAAACAAAAAAAGGC
1 AAAA-AAAAAAAGAC
14271163 AAAAAAAAAAAGAC
1 AAAAAAAAAAAGAC
14271177 AAAAAAAAAA
1 AAAAAAAAAA
14271187 CAAAATTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.85, C:0.08, G:0.08, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAGAC
Found at i:14271171 original size:15 final size:15
Alignment explanation
Indices: 14271147--14271186 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
14271137 TTTTTAAAAA
*
14271147 AAAAACAAAAAAAGGC
1 AAAAA-AAAAAAAGAC
14271163 -AAAAAAAAAAAGAC
1 AAAAAAAAAAAAGAC
14271177 AAAAAAAAAA
1 AAAAAAAAAA
14271187 CAAAATTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAGAC
Found at i:14271191 original size:24 final size:23
Alignment explanation
Indices: 14271142--14271191 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
14271132 TGCTATTTTT
**
14271142 AAAAAAAAAACAAAAAAAGGCAA
1 AAAAAAAAAACAAAAAAAAACAA
14271165 AAAAAAAAAGACAAAAAAAAAACAA
1 AAAAAAAAA-AC-AAAAAAAAACAA
14271190 AA
1 AA
14271192 TTTCAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 9 0.39
24 2 0.09
25 12 0.52
ACGTcount: A:0.86, C:0.08, G:0.06, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAACAAAAAAAAACAA
Found at i:14288717 original size:10 final size:10
Alignment explanation
Indices: 14288704--14288760 Score: 69
Period size: 10 Copynumber: 5.5 Consensus size: 10
14288694 AAATTTTGGC
14288704 TTTTTTGTTT
1 TTTTTTGTTT
14288714 TTTTTTGTTT
1 TTTTTTGTTT
** *
14288724 TTTGCCTCTTT
1 TTT-TTTGTTT
14288735 TTTTTTGTTTT
1 TTTTTTG-TTT
14288746 TTTTTTGTTT
1 TTTTTTGTTT
14288756 TTTTT
1 TTTTT
14288761 GAAAAAATAG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
10 22 0.56
11 17 0.44
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:14288718 original size:11 final size:11
Alignment explanation
Indices: 14288704--14288760 Score: 64
Period size: 11 Copynumber: 5.4 Consensus size: 11
14288694 AAATTTTGGC
14288704 TTTTTTG-TTT
1 TTTTTTGTTTT
14288714 TTTTTTGTTTT
1 TTTTTTGTTTT
*** *
14288725 TTGCCT-CTTT
1 TTTTTTGTTTT
14288735 TTTTTTGTTTT
1 TTTTTTGTTTT
14288746 TTTTTTGTTTT
1 TTTTTTGTTTT
14288757 TTTT
1 TTTT
14288761 GAAAAAATAG
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
10 13 0.35
11 24 0.65
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:14290760 original size:28 final size:29
Alignment explanation
Indices: 14290729--14290788 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
14290719 ATCAGAAAAA
* *
14290729 AAATTGAAGCACTCCAAAAGAAAG-AAAG
1 AAATTCAAGCACTCCAAAAAAAAGCAAAG
* **
14290757 AAATTCCAGCACTTTAAAAAAAAGCAAAG
1 AAATTCAAGCACTCCAAAAAAAAGCAAAG
14290786 AAA
1 AAA
14290789 AGAAAAGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.58, C:0.15, G:0.13, T:0.13
Consensus pattern (29 bp):
AAATTCAAGCACTCCAAAAAAAAGCAAAG
Found at i:14290790 original size:5 final size:5
Alignment explanation
Indices: 14290772--14290817 Score: 69
Period size: 5 Copynumber: 9.6 Consensus size: 5
14290762 CCAGCACTTT
*
14290772 AAAA- AAAAG CAAAG AAAAG AAAAG AAAAG AAAAG AAAAG -AAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA
14290818 GTTGAAGCAC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
4 8 0.21
5 30 0.79
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:14292060 original size:24 final size:21
Alignment explanation
Indices: 14292026--14292068 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
14292016 TGCACAAGAT
*
14292026 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
14292048 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
14292069 AGAATGAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:14295924 original size:13 final size:11
Alignment explanation
Indices: 14295883--14295967 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
14295873 ACAATATGTC
14295883 CATCACCATTAT
1 CATCACCA-TAT
*
14295895 CA-CGCCTATAT
1 CATCACC-ATAT
14295906 CATCACCATAGT
1 CATCACCATA-T
14295918 CCATCACCATTAT
1 -CATCACCA-TAT
*
14295931 CACTC-CTATAT
1 CA-TCACCATAT
14295942 CATCACCATATT
1 CATCACCATA-T
14295954 CCATCACCATAT
1 -CATCACCATAT
14295966 CA
1 CA
14295968 CGCCTATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
10 2 0.03
11 22 0.37
12 13 0.22
13 21 0.35
14 2 0.03
ACGTcount: A:0.32, C:0.36, G:0.02, T:0.29
Consensus pattern (11 bp):
CATCACCATAT
Found at i:14295927 original size:36 final size:36
Alignment explanation
Indices: 14295880--14295984 Score: 176
Period size: 36 Copynumber: 2.9 Consensus size: 36
14295870 GATACAATAT
14295880 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
*
14295916 GTCCATCACCATTATCACTCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* *
14295952 TTCCATCACCA-TATCACGCCTATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
14295985 ACTTATAAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
35 20 0.31
36 45 0.69
ACGTcount: A:0.30, C:0.36, G:0.04, T:0.30
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:14296393 original size:11 final size:11
Alignment explanation
Indices: 14296379--14296411 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
14296369 AAGCAACAAG
14296379 AAAGAAGAAA-A
1 AAAGAA-AAAGA
14296390 AAAGAAAAAGA
1 AAAGAAAAAGA
14296401 AAAGAAAAAGA
1 AAAGAAAAAGA
14296412 GTCCTACATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 3 0.14
11 18 0.86
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAGA
Found at i:14296401 original size:17 final size:17
Alignment explanation
Indices: 14296379--14296411 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14296369 AAGCAACAAG
14296379 AAAGAAGAA-AAAAAGAA
1 AAAGAA-AAGAAAAAGAA
14296396 AAAGAAAAGAAAAAGA
1 AAAGAAAAGAAAAAGA
14296412 GTCCTACATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAGAAAAGAAAAAGAA
Found at i:14301623 original size:13 final size:11
Alignment explanation
Indices: 14301583--14301666 Score: 73
Period size: 11 Copynumber: 7.1 Consensus size: 11
14301573 CAATCTGTCT
14301583 ATCACCATGATC
1 ATCACCAT-ATC
*
14301595 A-CGCCTATATC
1 ATCACC-ATATC
14301606 ATCACCATAGTCC
1 ATCACCATA-T-C
14301619 ATCACCATTATC
1 ATCACCA-TATC
14301631 AT-ACCTATATC
1 ATCACC-ATATC
14301642 ATCACCATATTCC
1 ATCACCATA-T-C
14301655 ATCACCATATC
1 ATCACCATATC
14301666 A
1 A
14301667 CGCCTATATT
Statistics
Matches: 61, Mismatches: 2, Indels: 19
0.74 0.02 0.23
Matches are distributed among these distances:
11 24 0.39
12 16 0.26
13 19 0.31
14 2 0.03
ACGTcount: A:0.33, C:0.35, G:0.04, T:0.29
Consensus pattern (11 bp):
ATCACCATATC
Found at i:14301638 original size:36 final size:36
Alignment explanation
Indices: 14301583--14301683 Score: 150
Period size: 36 Copynumber: 2.8 Consensus size: 36
14301573 CAATCTGTCT
*
14301583 ATCACCATGATCACGCCTATATCATCACCATAGTCC
1 ATCACCATTATCACGCCTATATCATCACCATAGTCC
** *
14301619 ATCACCATTATCATACCTATATCATCACCATATTCC
1 ATCACCATTATCACGCCTATATCATCACCATAGTCC
*
14301655 ATCACCA-TATCACGCCTATATTATCACCA
1 ATCACCATTATCACGCCTATATCATCACCA
14301684 ACTTATAAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
35 19 0.33
36 39 0.67
ACGTcount: A:0.33, C:0.35, G:0.04, T:0.29
Consensus pattern (36 bp):
ATCACCATTATCACGCCTATATCATCACCATAGTCC
Found at i:14304445 original size:22 final size:24
Alignment explanation
Indices: 14304418--14304473 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
14304408 GAATTGTTGA
14304418 TGAGTGCTTCCAA-CT-TTTTTTT
1 TGAGTGCTTCCAATCTCTTTTTTT
** *
14304440 TGAGTGCTTTTAATTTCTTTTTTT
1 TGAGTGCTTCCAATCTCTTTTTTT
14304464 TGAGTGCTTC
1 TGAGTGCTTC
14304474 TTTTCTGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 11 0.39
23 1 0.04
24 16 0.57
ACGTcount: A:0.12, C:0.14, G:0.16, T:0.57
Consensus pattern (24 bp):
TGAGTGCTTCCAATCTCTTTTTTT
Found at i:14304485 original size:24 final size:23
Alignment explanation
Indices: 14304433--14304488 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 23
14304423 GCTTCCAACT
*
14304433 TTTTTTTTGAGTGCTTTTAATTTC
1 TTTTTTTTGAGTGCTTCT-ATTTC
14304457 TTTTTTTTGAGTGCTTCT-TTTC
1 TTTTTTTTGAGTGCTTCTATTTC
14304479 TGATTTTTTT
1 T--TTTTTTT
14304489 CTTACTTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 5 0.17
24 24 0.83
ACGTcount: A:0.09, C:0.09, G:0.12, T:0.70
Consensus pattern (23 bp):
TTTTTTTTGAGTGCTTCTATTTC
Found at i:14316010 original size:36 final size:36
Alignment explanation
Indices: 14315963--14316067 Score: 167
Period size: 36 Copynumber: 2.9 Consensus size: 36
14315953 GATACAATCT
14315963 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
*
14315999 GTCCATCACCATTATCACACCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * *
14316035 TTCCATTACCA-TATCACGCCTATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
14316068 ACTTATAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 20 0.31
36 44 0.69
ACGTcount: A:0.31, C:0.35, G:0.04, T:0.30
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:14316025 original size:11 final size:11
Alignment explanation
Indices: 14315966--14316050 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
14315956 ACAATCTGTC
14315966 CATCACCATTAT
1 CATCACCA-TAT
*
14315978 CA-CGCCTATAT
1 CATCACC-ATAT
14315989 CATCACCATAGT
1 CATCACCATA-T
14316001 CCATCACCATTAT
1 -CATCACCA-TAT
14316014 CA-CACCTATAT
1 CATCACC-ATAT
14316025 CATCACCATATT
1 CATCACCATA-T
*
14316037 CCATTACCATAT
1 -CATCACCATAT
14316049 CA
1 CA
14316051 CGCCTATATT
Statistics
Matches: 61, Mismatches: 3, Indels: 19
0.73 0.04 0.23
Matches are distributed among these distances:
11 25 0.41
12 16 0.26
13 18 0.30
14 2 0.03
ACGTcount: A:0.33, C:0.35, G:0.02, T:0.29
Consensus pattern (11 bp):
CATCACCATAT
Found at i:14316737 original size:16 final size:17
Alignment explanation
Indices: 14316701--14316739 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
14316691 TTTCTTACTA
14316701 TTTCATTTCTTTATTCG
1 TTTCATTTCTTTATTCG
*
14316718 -TTCATTTTTTTATT-G
1 TTTCATTTCTTTATTCG
14316733 TTTCATT
1 TTTCATT
14316740 ACCATATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 19 0.95
ACGTcount: A:0.13, C:0.13, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTCATTTCTTTATTCG
Found at i:14317801 original size:22 final size:22
Alignment explanation
Indices: 14317768--14317809 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
14317758 CAATTCATTT
14317768 ATCTTTTCTTTATCTTGTTTTA
1 ATCTTTTCTTTATCTTGTTTTA
14317790 ATCTTATT-TTTATCTTGTTT
1 ATCTT-TTCTTTATCTTGTTT
14317810 CCAGCACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.69
Consensus pattern (22 bp):
ATCTTTTCTTTATCTTGTTTTA
Found at i:14318140 original size:10 final size:10
Alignment explanation
Indices: 14318125--14318164 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 10
14318115 TGCTATTTAA
14318125 AAAAAAAAAC
1 AAAAAAAAAC
*
14318135 AAAAAAAAGGC
1 AAAAAAAA-AC
14318146 AAAAAAAAAC
1 AAAAAAAAAC
14318156 AACAAAAAA
1 AA-AAAAAA
14318165 GCCAAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 11 0.42
11 15 0.58
ACGTcount: A:0.85, C:0.10, G:0.05, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:14318151 original size:21 final size:22
Alignment explanation
Indices: 14318125--14318171 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
14318115 TGCTATTTAA
*
14318125 AAAAAAAAACAA-AAAAAAGGC
1 AAAAAAAAACAACAAAAAAGCC
14318146 AAAAAAAAACAACAAAAAAGCC
1 AAAAAAAAACAACAAAAAAGCC
14318168 AAAA
1 AAAA
14318172 TTTCAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.81, C:0.13, G:0.06, T:0.00
Consensus pattern (22 bp):
AAAAAAAAACAACAAAAAAGCC
Found at i:14323488 original size:8 final size:8
Alignment explanation
Indices: 14323477--14323516 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
14323467 TTTGATTTTG
14323477 TTTTTGTT
1 TTTTTGTT
*
14323485 TTTTTGCT
1 TTTTTGTT
14323493 TTTTTGCTTT
1 TTTTTG--TT
14323503 TTTTTGTT
1 TTTTTGTT
14323511 TTTTTG
1 TTTTTG
14323517 AAAAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 21 0.75
10 7 0.25
ACGTcount: A:0.00, C:0.05, G:0.12, T:0.82
Consensus pattern (8 bp):
TTTTTGTT
Found at i:14329795 original size:22 final size:22
Alignment explanation
Indices: 14329762--14329803 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
14329752 CAATTCATTT
14329762 ATCTTTTCTTTATCTTGTTTTA
1 ATCTTTTCTTTATCTTGTTTTA
14329784 ATCTTATT-TTTATCTTGTTT
1 ATCTT-TTCTTTATCTTGTTT
14329804 CAAGCAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.69
Consensus pattern (22 bp):
ATCTTTTCTTTATCTTGTTTTA
Found at i:14332290 original size:35 final size:36
Alignment explanation
Indices: 14332196--14332300 Score: 167
Period size: 36 Copynumber: 2.9 Consensus size: 36
14332186 GATACAATCT
*
14332196 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATTATCACCATA
*
14332232 GTCCATCACCATTATCACACCTATATTATCACCATA
1 GTCCATCACCATTATCACGCCTATATTATCACCATA
* *
14332268 TTCCATTACCA-TATCACGCCTATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATTATCACCA
14332301 ACTTATAGAT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 21 0.33
36 43 0.67
ACGTcount: A:0.31, C:0.34, G:0.04, T:0.30
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATTATCACCATA
Found at i:14345067 original size:15 final size:17
Alignment explanation
Indices: 14345035--14345067 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
14345025 TCAATGCTTT
14345035 TCTTCAAAGCATCTTGA
1 TCTTCAAAGCATCTTGA
14345052 TCTTCAAA-CA-CTTGA
1 TCTTCAAAGCATCTTGA
14345067 T
1 T
14345068 ATGGTGAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 2 0.12
17 8 0.50
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.36
Consensus pattern (17 bp):
TCTTCAAAGCATCTTGA
Found at i:14345474 original size:35 final size:37
Alignment explanation
Indices: 14345428--14345507 Score: 110
Period size: 35 Copynumber: 2.2 Consensus size: 37
14345418 TTTGAGAATT
* * *
14345428 TGGTGATGATATAGGTGTGCT-ATGG-TGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
*
14345463 TGGTGATGATATAGGCGTGATAATGGAAGATGGATTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
14345500 TGGTGATG
1 TGGTGATG
14345508 GAAATAGTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 19 0.49
36 4 0.10
37 16 0.41
ACGTcount: A:0.26, C:0.04, G:0.38, T:0.33
Consensus pattern (37 bp):
TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
Found at i:14348912 original size:24 final size:21
Alignment explanation
Indices: 14348878--14348920 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
14348868 AGTACAAGAT
*
14348878 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
14348900 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
14348921 AGAATGAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:14351559 original size:19 final size:20
Alignment explanation
Indices: 14351517--14351567 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
14351507 GAAACCCCTT
*
14351517 TGAAAATACATGATTTTTAA
1 TGAAAATACATGATTTTAAA
14351537 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
14351556 TGAAGATACATG
1 TGAAAATACATG
14351568 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:14355153 original size:22 final size:24
Alignment explanation
Indices: 14355125--14355171 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
14355115 TTTGAGAATT
14355125 TGGTGAT-GA-TATAGGTG-TGATA
1 TGGTGATGGACTAT-GGTGATGATA
14355147 TGGTGATGGACTATGGTGATGATA
1 TGGTGATGGACTATGGTGATGATA
14355171 T
1 T
14355172 AGGCATGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 7 0.32
23 6 0.27
24 9 0.41
ACGTcount: A:0.26, C:0.02, G:0.36, T:0.36
Consensus pattern (24 bp):
TGGTGATGGACTATGGTGATGATA
Found at i:14355171 original size:35 final size:37
Alignment explanation
Indices: 14355125--14355204 Score: 110
Period size: 35 Copynumber: 2.2 Consensus size: 37
14355115 TTTGAGAATT
** *
14355125 TGGTGATGATATAGGTGTGAT-ATGG-TGATGGACTA
1 TGGTGATGATATAGGCATGATAATGGAAGATGGACTA
*
14355160 TGGTGATGATATAGGCATGATAATGGAAGATGGATTA
1 TGGTGATGATATAGGCATGATAATGGAAGATGGACTA
14355197 TGGTGATG
1 TGGTGATG
14355205 GAAATAGTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 19 0.49
36 4 0.10
37 16 0.41
ACGTcount: A:0.29, C:0.03, G:0.36, T:0.33
Consensus pattern (37 bp):
TGGTGATGATATAGGCATGATAATGGAAGATGGACTA
Found at i:14355567 original size:19 final size:20
Alignment explanation
Indices: 14355520--14355570 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
14355510 GAAATCCCTT
**
14355520 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
14355540 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
14355559 TGAAGATACATG
1 TGAAAATACATG
14355571 CTCTTGGCTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:14357670 original size:8 final size:8
Alignment explanation
Indices: 14357659--14357683 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14357649 TCTTTTTCTT
14357659 TTCTTTTC
1 TTCTTTTC
14357667 TTCTTTTC
1 TTCTTTTC
14357675 TTCTTTTC
1 TTCTTTTC
14357683 T
1 T
14357684 GATTTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (8 bp):
TTCTTTTC
Found at i:14360628 original size:24 final size:24
Alignment explanation
Indices: 14360574--14360628 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
14360564 AAAAAATCAG
*
14360574 AAAAG-AAGCACTCAAAAAGAAGA
1 AAAAGAAAACACTCAAAAAGAAGA
**
14360597 AATTGAAAACACTC-AAAAGAAGAA
1 AAAAGAAAACACTCAAAAAGAAG-A
14360621 AAAAGAAA
1 AAAAGAAA
14360629 GAAAAGTTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.67, C:0.11, G:0.15, T:0.07
Consensus pattern (24 bp):
AAAAGAAAACACTCAAAAAGAAGA
Found at i:14362063 original size:19 final size:21
Alignment explanation
Indices: 14362039--14362090 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
14362029 CGGCCAAGAG
*
14362039 CATGTATCTTCA-TT-AAAAT
1 CATGTATTTTCATTTAAAAAT
14362058 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCATTTAAAAAT
14362079 CATGTATTTTCA
1 CATGTATTTTCA
14362091 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAAT
Found at i:14362535 original size:19 final size:20
Alignment explanation
Indices: 14362511--14362550 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
14362501 TATCCTTTAT
14362511 TTATTTCATTTT-ATT-CTTA
1 TTATTT-ATTTTCATTACTTA
14362530 TTATTTATTTTCATTACTTA
1 TTATTTATTTTCATTACTTA
14362550 T
1 T
14362551 ATTATTATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 9 0.47
20 5 0.26
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATTTATTTTCATTACTTA
Found at i:14362851 original size:8 final size:8
Alignment explanation
Indices: 14362840--14362864 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14362830 AAAAAAAATC
14362840 AGAAAAGA
1 AGAAAAGA
14362848 AGAAAAGA
1 AGAAAAGA
14362856 AGAAAAGA
1 AGAAAAGA
14362864 A
1 A
14362865 AAGAAAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (8 bp):
AGAAAAGA
Found at i:14362863 original size:13 final size:12
Alignment explanation
Indices: 14362808--14362878 Score: 54
Period size: 13 Copynumber: 5.6 Consensus size: 12
14362798 GTGCAAAAAG
*
14362808 AAAGAAAAAGACA
1 AAAG-AAAAGAAA
* *
14362821 AAATAAGAGAAA
1 AAAGAAAAGAAA
*
14362833 AAA-AATCAGAAA
1 AAAGAA-AAGAAA
14362845 AGAAGAAAAGAAGA
1 A-AAGAAAAGAA-A
14362859 AAAGAAAAGAAA
1 AAAGAAAAGAAA
14362871 AAGAGAAA
1 AA-AGAAA
14362879 GCAAGACAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
11 2 0.04
12 18 0.38
13 24 0.50
14 4 0.08
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (12 bp):
AAAGAAAAGAAA
Found at i:14366142 original size:20 final size:20
Alignment explanation
Indices: 14366113--14366153 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
14366103 AGCATTTATC
14366113 TTCATT-AAAATCATGTATT
1 TTCATTAAAAATCATGTATT
14366132 TTCATTTAAAAATCATGTATT
1 TTCA-TTAAAAATCATGTATT
14366153 T
1 T
14366154 ACAAAGGGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
20 2 0.10
21 14 0.70
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.49
Consensus pattern (20 bp):
TTCATTAAAAATCATGTATT
Found at i:14369112 original size:11 final size:13
Alignment explanation
Indices: 14369080--14369109 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
14369070 TGGGTAAAGA
14369080 TGAAAAGGTATGT
1 TGAAAAGGTATGT
14369093 TGAAAAGGTATG-
1 TGAAAAGGTATGT
14369105 TGAAA
1 TGAAA
14369110 GGTGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Done.