Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_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: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 58 of 62
Found at i:13974666 original size:20 final size:19
Alignment explanation
Indices: 13974543--13974674 Score: 130
Period size: 19 Copynumber: 7.1 Consensus size: 19
13974533 GAAACCAAAA
*
13974543 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
13974562 TCACGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
13974576 TCTCGTTGAAATTTTCATT
1 TCGCGTTGCGATTTTCATT
13974595 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
13974614 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
13974633 TCCGCGTTACGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
*
13974653 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
13974673 TC
1 TC
13974675 AACCAAAAGA
Statistics
Matches: 91, Mismatches: 15, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
14 8 0.09
16 3 0.03
17 3 0.03
19 45 0.49
20 31 0.34
21 1 0.01
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:13975998 original size:14 final size:14
Alignment explanation
Indices: 13975979--13976014 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
13975969 ATTGTTTAAT
13975979 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
13975993 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
13976007 TGATTTGT
1 TGATTTGT
13976015 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:13976180 original size:19 final size:18
Alignment explanation
Indices: 13976121--13976181 Score: 58
Period size: 19 Copynumber: 3.5 Consensus size: 18
13976111 AAAAATGACT
*
13976121 ATCGCAATGCGAAATGAAA
1 ATCGCAACG-GAAATGAAA
*
13976140 ATCGCAAC-G--A-GAGA
1 ATCGCAACGGAAATGAAA
13976154 ATCGCAACGTGAAATGAAA
1 ATCGCAACG-GAAATGAAA
13976173 ATCGCAACG
1 ATCGCAACG
13976182 ACAAAATCGC
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 11 0.32
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 19 0.56
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (18 bp):
ATCGCAACGGAAATGAAA
Found at i:13976211 original size:33 final size:33
Alignment explanation
Indices: 13976121--13976200 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
13976111 AAAAATGACT
* * *
13976121 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
13976154 ATCGCAACGTGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
13976187 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
13976201 CTAAATTCGC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:13976228 original size:19 final size:19
Alignment explanation
Indices: 13976206--13976303 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
13976196 CGAAACTAAA
*
13976206 TTCGCATTACGATTTTCAT
1 TTCGCATTGCGATTTTCAT
* *
13976225 TTCGCTTTGCGA-TTCCA-
1 TTCGCATTGCGATTTTCAT
13976242 -TCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
13976258 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
13976274 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
13976291 TTCGCATTGCGAT
1 TTCGCATTGCGAT
13976304 AGTCATTTCC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 12 0.19
15 4 0.06
16 10 0.16
17 10 0.16
18 4 0.06
19 23 0.37
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:13976257 original size:33 final size:33
Alignment explanation
Indices: 13976215--13976303 Score: 153
Period size: 33 Copynumber: 2.7 Consensus size: 33
13976205 ATTCGCATTA
*
13976215 CGATTTTCATTTCGCTTTGCGATTC-CATCGTTG
1 CGATTTTCATTTCGCATTGCGATTCTC-TCGTTG
13976248 CGATTTTCATTTCGCATTGCGATTCTCTCGTTG
1 CGATTTTCATTTCGCATTGCGATTCTCTCGTTG
13976281 CGATTTTCATTTCGCATTGCGAT
1 CGATTTTCATTTCGCATTGCGAT
13976304 AGTCATTTCC
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
33 53 0.98
34 1 0.02
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (33 bp):
CGATTTTCATTTCGCATTGCGATTCTCTCGTTG
Found at i:13976322 original size:20 final size:21
Alignment explanation
Indices: 13976276--13976330 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 21
13976266 GCGATTCTCT
**
13976276 CGTTGCGATTTTCATTTCGCA
1 CGTTGCGATAGTCATTTCGCA
13976297 --TTGCGATAGTCATTTC-CA
1 CGTTGCGATAGTCATTTCGCA
13976315 CGTTGCGATAGTCATT
1 CGTTGCGATAGTCATT
13976331 AAGATGATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 2 0.07
19 14 0.47
20 14 0.47
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (21 bp):
CGTTGCGATAGTCATTTCGCA
Found at i:13976330 original size:39 final size:35
Alignment explanation
Indices: 13976215--13976323 Score: 120
Period size: 33 Copynumber: 3.1 Consensus size: 35
13976205 ATTCGCATTA
*
13976215 CGATTTTCATTTCGCTTTGCGA---TTCCATCGTTG
1 CGATTTTCATTTCGCATTGCGATTCTTCCA-CGTTG
*
13976248 CGATTTTCATTTCGCATTGCGATTC-T-CTCGTTG
1 CGATTTTCATTTCGCATTGCGATTCTTCCACGTTG
13976281 CGATTTTCATTTCGCATTGCGATAGTCATTTCCACGTTG
1 CGATTTTCATTTCGCATTGCGAT--TC--TTCCACGTTG
13976320 CGAT
1 CGAT
13976324 AGTCATTAAG
Statistics
Matches: 64, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
33 49 0.77
34 1 0.02
35 3 0.05
38 1 0.02
39 10 0.16
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.43
Consensus pattern (35 bp):
CGATTTTCATTTCGCATTGCGATTCTTCCACGTTG
Found at i:13976369 original size:20 final size:20
Alignment explanation
Indices: 13976297--13976369 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
13976287 TCATTTCGCA
**
13976297 TTGCGATAGTCATTTCCACG
1 TTGCGATAGTCATTTCCGTG
**
13976317 TTGCGATAGTCA-TTAAGATG
1 TTGCGATAGTCATTTCCG-TG
**
13976337 ATTGCGACCGTCATTTCCGTG
1 -TTGCGATAGTCATTTCCGTG
13976358 TTGCGATAGTCA
1 TTGCGATAGTCA
13976370 AATGAATGCC
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
19 2 0.05
20 23 0.57
21 12 0.30
22 3 0.08
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGTG
Found at i:13979569 original size:20 final size:19
Alignment explanation
Indices: 13979553--13979778 Score: 245
Period size: 20 Copynumber: 11.3 Consensus size: 19
13979543 CAGAATCTCG
13979553 TTGCGATTACGTAAATCGCA
1 TTGCGATTACGT-AATCGCA
*
13979573 ATGCGATTACGTAAATCGCA
1 TTGCGATTACGT-AATCGCA
* * *
13979593 ATGCGAATTAGGAAAATCGCA
1 TTGCG-ATTACG-TAATCGCA
* * *
13979614 ATGTGATTACGTAAATTGCA
1 TTGCGATTACGT-AATCGCA
*
13979634 TTGCGATTACGTATTCGCA
1 TTGCGATTACGTAATCGCA
13979653 TTGCGATTTACGTAATCGCA
1 TTGCGA-TTACGTAATCGCA
13979673 TTGCGATTTACGTAATCGCA
1 TTGCGA-TTACGTAATCGCA
13979693 TTGCGATTTACGTAATCGCA
1 TTGCGA-TTACGTAATCGCA
* * *
13979713 TTGCGATTTTCCTATTCGCA
1 TTGCGA-TTACGTAATCGCA
13979733 TTGCGATTTACGTAATCGCA
1 TTGCGA-TTACGTAATCGCA
*
13979753 TTGCGATTTACGTATTCGCA
1 TTGCGA-TTACGTAATCGCA
13979773 TTGCGA
1 TTGCGA
13979779 ATTAGAAAAA
Statistics
Matches: 183, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.06
20 156 0.85
21 16 0.09
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (19 bp):
TTGCGATTACGTAATCGCA
Found at i:13979598 original size:40 final size:40
Alignment explanation
Indices: 13979553--13979778 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
13979543 CAGAATCTCG
*
13979553 TTGCGA-TTACGTAAATCGCAATGCGA-TTACGTAAATCGCA
1 TTGCGATTTACGT-AATCGCATTGCGATTTACGT-AATCGCA
* * * * * * *
13979593 ATGCGAATTAGGAAAATCGCAATGTGA-TTACGTAAATTGCA
1 TTGCGATTTACG-TAATCGCATTGCGATTTACGT-AATCGCA
*
13979634 TTGCGA-TTACGTATTCGCATTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTAATCGCATTGCGATTTACGTAATCGCA
13979673 TTGCGATTTACGTAATCGCATTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTAATCGCATTGCGATTTACGTAATCGCA
* * *
13979713 TTGCGATTTTCCTATTCGCATTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTAATCGCATTGCGATTTACGTAATCGCA
*
13979753 TTGCGATTTACGTATTCGCATTGCGA
1 TTGCGATTTACGTAATCGCATTGCGA
13979779 ATTAGAAAAA
Statistics
Matches: 164, Mismatches: 18, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
39 22 0.13
40 108 0.66
41 34 0.21
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (40 bp):
TTGCGATTTACGTAATCGCATTGCGATTTACGTAATCGCA
Found at i:13989674 original size:6 final size:6
Alignment explanation
Indices: 13989663--13989733 Score: 142
Period size: 6 Copynumber: 11.8 Consensus size: 6
13989653 AGCTTGTTAA
13989663 ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC
1 ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC
13989711 ACTCAC ACTCAC ACTCAC ACTCA
1 ACTCAC ACTCAC ACTCAC ACTCA
13989734 TATATAGATA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 65 1.00
ACGTcount: A:0.34, C:0.49, G:0.00, T:0.17
Consensus pattern (6 bp):
ACTCAC
Found at i:13990777 original size:2 final size:2
Alignment explanation
Indices: 13990770--13990830 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
13990760 ATTATTAAAT
13990770 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
13990812 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
13990831 TATTTACGCA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13997823 original size:18 final size:18
Alignment explanation
Indices: 13997800--13997846 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
13997790 ACCGTTGACC
13997800 GTTGATCGTTGACCAACT
1 GTTGATCGTTGACCAACT
* * *
13997818 GTTGATCATTGACCGATT
1 GTTGATCGTTGACCAACT
*
13997836 GTTGACCGTTG
1 GTTGATCGTTG
13997847 CCCGACGTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (18 bp):
GTTGATCGTTGACCAACT
Found at i:13999290 original size:81 final size:81
Alignment explanation
Indices: 13998733--13999268 Score: 815
Period size: 81 Copynumber: 6.6 Consensus size: 81
13998723 GCTGTGCAAT
* *
13998733 GTGTCAATTATGCCAGTTAGATGAAATGTTAAATACCTTTGAGTAGAAA-ATTAATTGCCTAGTT
1 GTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTA-AAAGATTAATTGCCTAGCT
13998797 GTGCATTTGACAGAAAG
65 GTGCATTTGACAGAAAG
* * *
13998814 GTGTCAATTATGTCAATCAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCTG
1 GTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCTG
* *
13998879 TGCATTTGATAGAAAT
66 TGCATTTGACAGAAAG
* * *
13998895 GTGTCAACTATGCCAGTTAGATGAAAGGTTAAACACCTTTGAGTAAAAGATTAATTGCCTAGCTC
1 GTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCTG
* *
13998960 TGTATTTGATAGAAAG
66 TGCATTTGACAGAAAG
* *
13998976 GTGCCAATTATGCCAGTTAGACGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCTG
1 GTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCTG
*
13999041 TGCAATTGACAGAAAG
66 TGCATTTGACAGAAAG
* * *
13999057 GTGTCAATTATGTCAGTTAGAT-AATAGGTTAAATACTTTTGAGTAAAAGATTAATTGCCTAACT
1 GTGTCAATTATGCCAGTTAGATGAA-AGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCT
13999121 GTGCATTTGACAGAAAG
65 GTGCATTTGACAGAAAG
* * * **
13999138 GTGTCAATTAAGCCAGTTAGATGAAAGGTAAAATACATTTGAGTAAAAGATTAATTGTATAGCTG
1 GTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCTG
13999203 TGCATTTGACAGAAAG
66 TGCATTTGACAGAAAG
* *
13999219 GTGTCAATCATGCCAATTAGATGAAAGGTTAAATACCTTTGAGTAAAAGA
1 GTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGA
13999269 CTAAATGCTT
Statistics
Matches: 411, Mismatches: 41, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
80 5 0.01
81 404 0.98
82 2 0.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (81 bp):
GTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCTG
TGCATTTGACAGAAAG
Found at i:14001065 original size:14 final size:14
Alignment explanation
Indices: 14001011--14001060 Score: 73
Period size: 14 Copynumber: 3.5 Consensus size: 14
14001001 TTCAATCACC
14001011 GAGTCAACTCGTCT
1 GAGTCAACTCGTCT
*
14001025 GAGTCAACTCGATTT
1 GAGTCAACTCG-TCT
*
14001040 GAGTCAACCCGTCT
1 GAGTCAACTCGTCT
14001054 GAGTCAA
1 GAGTCAA
14001061 TCCGTTGACT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
14 20 0.62
15 12 0.38
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (14 bp):
GAGTCAACTCGTCT
Found at i:14002961 original size:66 final size:66
Alignment explanation
Indices: 14002842--14002971 Score: 181
Period size: 66 Copynumber: 2.0 Consensus size: 66
14002832 GGTATGAAGA
* * * *
14002842 CTCTGGCAGGTTCAGTCGCTGAGGGTAATTCCTTGTATAGGTTATGCATCGATTGGTAATTCCTA
1 CTCTGGCAGGTTCAGTCACTGAGGGTAATTCCTTGTATAGGTTATACACCGATTGATAATTCCTA
14002907 T
66 T
** *
14002908 CTCTGGCAGGTTCAGTCACTGTTGGTAATTCCTTTTATAGGTTCA-ACACCGATTGATAATTCCT
1 CTCTGGCAGGTTCAGTCACTGAGGGTAATTCCTTGTATAGGTT-ATACACCGATTGATAATTCCT
14002972 TATGGACATA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 55 0.98
67 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (66 bp):
CTCTGGCAGGTTCAGTCACTGAGGGTAATTCCTTGTATAGGTTATACACCGATTGATAATTCCTA
T
Found at i:14009112 original size:81 final size:81
Alignment explanation
Indices: 14008977--14009545 Score: 774
Period size: 81 Copynumber: 7.1 Consensus size: 81
14008967 TATTTTAAAA
* * * * *
14008977 TAAAAGATTAATGGCCTAGCTGTGCATTTGATAGAAATGTGTCAATTATACCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGATGTGCATTTGAAAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
14009042 GTTAACTACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * *
14009058 TAAAAGATTAATCGCCTAGTTATGCATTTGAAAGAAATGTGTCAATTACGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGATGTGCATTTGAAAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
14009123 CTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
*
14009139 TAAAAGATTAATTGCCTAGATGTGCA-TTAAATAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
1 TAAAAGATTAATTGCCTAGATGTGCATTTGAA-AGAAAGGTGTCAATTATGCCAGTTAGATGAAA
14009203 GGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* *
14009220 TAGAAGATTAATTTCCTAGATGTGCATTT-AATAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
1 TAAAAGATTAATTGCCTAGATGTGCATTTGAA-AGAAAGGTGTCAATTATGCCAGTTAGATGAAA
* *
14009284 TGTTAAATACATTT--G
65 GGTTAAATACCTTTGAG
* * * *
14009299 --AAAGATTAATTTCCTAGTTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGATGTGCATTTGAAAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
**
14009362 GTTAAATTTCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
14009378 TAAAAGATTAATTCCCTAGATGTGCATTTGACAGAAAGATGTCAATTATG-TAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGATGTGCATTTGAAAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
14009442 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * *
14009458 TAAAAGATTATTTGCCTAGCTATGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGATGTGCATTTGAAAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
14009523 GTTAAATACTTTTGAG
66 GTTAAATACCTTTGAG
14009539 TAAAAGA
1 TAAAAGA
14009546 CTAAATGCTT
Statistics
Matches: 438, Mismatches: 42, Indels: 16
0.88 0.08 0.03
Matches are distributed among these distances:
77 66 0.15
78 1 0.00
79 2 0.00
80 75 0.17
81 292 0.67
82 2 0.00
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (81 bp):
TAAAAGATTAATTGCCTAGATGTGCATTTGAAAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:14009403 original size:239 final size:238
Alignment explanation
Indices: 14008977--14009537 Score: 791
Period size: 239 Copynumber: 2.3 Consensus size: 238
14008967 TATTTTAAAA
** * *
14008977 TAAAAGATTAATGGCCTAGCTGTGCATTTGATAGAAATGTGTCAATTATACCAGTTAGATGAAAG
1 TAAAAGATTAATTTCCTAGCTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* * * *
14009042 GTTAACTACCTTTGAGTAAAAGATTAATCGCCTAGTTATGCATTTGAAAGAAATGTGTCAATTAC
66 GTTAAATACATTT--G--AAAGATTAATCGCCTAGTTATGCAATTGAAAGAAAGGTGTCAATTAC
* *
14009107 GCCAGTTAGATGAAAGCTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGATGTGCATTAAATA
127 GCCAGTTAGATGAAAGCTTAAATACCTTTGAGTAAAAGATTAATTCCCTAGATGTGCATTAAACA
*
14009172 GAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAG
192 GAAAGATGTCAATTATG-CAGTTAGATGAAAGGTTAAATACCTTTGAG
* * * *
14009220 TAGAAGATTAATTTCCTAGATGTGCATTTAATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAT
1 TAAAAGATTAATTTCCTAGCTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
** * * *
14009285 GTTAAATACATTTGAAAGATTAATTTCCTAGTTGTGCAATTGACAGAAAGGTGTCAATTATGCCA
66 GTTAAATACATTTGAAAGATTAATCGCCTAGTTATGCAATTGAAAGAAAGGTGTCAATTACGCCA
* ** **
14009350 GTTAGATGAAAGGTTAAATTTCTTTGAGTAAAAGATTAATTCCCTAGATGTGCATTTGACAGAAA
131 GTTAGATGAAAGCTTAAATACCTTTGAGTAAAAGATTAATTCCCTAGATGTGCATTAAACAGAAA
*
14009415 GATGTCAATTATGTAGTTAGATGAAAGGTTAAATACCTTTGAG
196 GATGTCAATTATGCAGTTAGATGAAAGGTTAAATACCTTTGAG
* * *
14009458 TAAAAGATT-ATTTGCCTAGCTATGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAA
1 TAAAAGATTAATTT-CCTAGCTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
*
14009522 GGTTAAATACTTTTGA
65 GGTTAAATACATTTGA
14009538 GTAAAAGACT
Statistics
Matches: 283, Mismatches: 34, Indels: 7
0.87 0.10 0.02
Matches are distributed among these distances:
237 4 0.01
238 96 0.34
239 114 0.40
241 1 0.00
243 68 0.24
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (238 bp):
TAAAAGATTAATTTCCTAGCTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACATTTGAAAGATTAATCGCCTAGTTATGCAATTGAAAGAAAGGTGTCAATTACGCCA
GTTAGATGAAAGCTTAAATACCTTTGAGTAAAAGATTAATTCCCTAGATGTGCATTAAACAGAAA
GATGTCAATTATGCAGTTAGATGAAAGGTTAAATACCTTTGAG
Found at i:14010507 original size:39 final size:39
Alignment explanation
Indices: 14010464--14010653 Score: 240
Period size: 39 Copynumber: 4.9 Consensus size: 39
14010454 TTACCGCAGT
* ** *
14010464 CTCCTCGACTTTGTGCTCAGGGTAAGTCCTTACTGTATG
1 CTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACTACAGG
* * * * *
14010503 CTCCTCGGCTTTGTTCTTAGGGTAAGTCATTACCATAGG
1 CTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACTACAGG
*
14010542 CTCCTTGGCTTTGTGCTCAGGGTAAGTCCTTACTACAGG
1 CTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACTACAGG
*
14010581 CTCCTCGGCTTTGTGCTCAGGGTAAGTTCTTA-TCACAGG
1 CTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACT-ACAGG
*
14010620 CTCCTCTGCTTTGTG-TACAGGGTAAGTCCTTACT
1 CTCCTCGGCTTTGTGCT-CAGGGTAAGTCCTTACT
14010654 GCAAGTCCTT
Statistics
Matches: 131, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
38 2 0.02
39 128 0.98
40 1 0.01
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (39 bp):
CTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACTACAGG
Found at i:14011273 original size:18 final size:17
Alignment explanation
Indices: 14011234--14011276 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
14011224 ATTATATGGA
14011234 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
14011250 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
14011268 TATTATTAT
1 TATTATTAT
14011277 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:14011286 original size:56 final size:59
Alignment explanation
Indices: 14011218--14011348 Score: 137
Period size: 62 Copynumber: 2.2 Consensus size: 59
14011208 ATTAGTCCCT
* *
14011218 TTATTTAT-TATATGGATATT-TTA-TTCATTTATTTTTATTA-T-TCATGTTATTATTA
1 TTATATATATATATAGATATTATTATTTCATTTATTTTTATTACTAT-ATGTTATTATTA
* * * *
14011273 TTATATGTATATATATATATTAAATTATTTTCATTTATTTTTTTTACTATATTTTATTATTA
1 TTATATATATATATAGATATT--ATTA-TTTCATTTATTTTTATTACTATATGTTATTATTA
14011335 TTATATATATATAT
1 TTATATATATATAT
14011349 TTCCTTAATA
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
55 6 0.10
56 10 0.16
59 3 0.05
61 16 0.26
62 25 0.41
63 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (59 bp):
TTATATATATATATAGATATTATTATTTCATTTATTTTTATTACTATATGTTATTATTA
Found at i:14016242 original size:183 final size:182
Alignment explanation
Indices: 14015895--14016247 Score: 616
Period size: 183 Copynumber: 1.9 Consensus size: 182
14015885 ATTAAATCCG
*
14015895 TAAAGCTGAGCTATTCCACTAATACAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGACAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
**
14015960 ATAGATTATGTTCAAACATGACACTGCTCGGACACTTGCCAATTCGGTGTTTGCTCCACTGCTTT
66 ATAGATTACATTCAAACATGACACTGCTCGGACACTTGCCAATTCGGTGTTTGCTCCACTGCTTT
14016025 TGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
131 TGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
*
14016077 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGACAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
* * *
14016142 ATAGATTACATTCAAATTATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTACATTCAAA-CATGACACTGCTCGGACACTTGCCAATTCGGTGTTTGCTCCACTGCTT
* *
14016207 TTGTCAGGTCAAAGACTTTGTGATGAGATGAACCCTTCAGT
130 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGT
14016248 TAAACCTGAT
Statistics
Matches: 161, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
182 77 0.48
183 84 0.52
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (182 bp):
TAAAGCTGAGCTATTCCACTAAGACAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTACATTCAAACATGACACTGCTCGGACACTTGCCAATTCGGTGTTTGCTCCACTGCTTT
TGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
Found at i:14017437 original size:72 final size:75
Alignment explanation
Indices: 14017341--14017501 Score: 204
Period size: 72 Copynumber: 2.2 Consensus size: 75
14017331 ATGCAGATGA
* * * * * *
14017341 TTATCTCACTCAAATTTGTTTTTCTTAAAACATA-CTTTGTCTCACTTGAGACTGTTTT-TCTCG
1 TTATTTCACTCAAAATTGTTTTTCTTAAAACA-AGATTTGTCTCACTTGAGACCGTTTTCACTAG
14017404 AAAGAA-G-AT
65 AAAGAAGGCAT
* *
14017413 TTATTTCACTCAAAATTGTTTTTCTTAAAATAAGATTTGTCTCGCTTGAGACCGTTTTCACTAGA
1 TTATTTCACTCAAAATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTAGA
14017478 AAGAAGGCAT
66 AAGAAGGCAT
14017488 TTCATTTCACTCAA
1 TT-ATTTCACTCAA
14017502 GGCTATTTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
71 1 0.01
72 50 0.66
73 9 0.12
74 1 0.01
75 4 0.05
76 11 0.14
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (75 bp):
TTATTTCACTCAAAATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTAGA
AAGAAGGCAT
Found at i:14017574 original size:39 final size:39
Alignment explanation
Indices: 14017531--14017683 Score: 110
Period size: 39 Copynumber: 3.6 Consensus size: 39
14017521 TTTTATCTTA
*
14017531 CTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
1 CTTGAGACAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
* * *
14017570 CTTGAGACAGTTTCTCTTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTC
1 CTTGAGACAGTTTCCCTCG-AAACA--------G-AA--AATTTTGTCTC-C
*
14017622 C-TGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
1 CTTGAGACAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
* * *
14017660 CTTAAGACAGTTTCTCTTGAAACA
1 CTTGAGACAGTTTCCCTCGAAACA
14017684 TAAACATTGA
Statistics
Matches: 88, Mismatches: 12, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
38 2 0.02
39 44 0.50
40 5 0.06
41 2 0.02
42 1 0.01
48 1 0.01
49 2 0.02
50 5 0.06
51 24 0.27
52 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (39 bp):
CTTGAGACAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
Found at i:14017754 original size:106 final size:105
Alignment explanation
Indices: 14017586--14017905 Score: 488
Period size: 106 Copynumber: 3.1 Consensus size: 105
14017576 ACAGTTTCTC
* * *
14017586 TTGAAAACATTTCCCTTGAAATTA-ATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAAAA
1 TTGAAAACATTTCCCTTGAAATGATATTTTTTCTCTCTTGAGATAGTTTCCCTTGAAACAGAAAA
*
14017650 TTTTGTCTCCCTTAAGACAGTTTCTCTTGAAACATAAACA
66 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
* *
14017690 TTGAAAACATTTCCCTTGAAATGATTTTTTTTTCTCTCTTGATATAGTTTCCCTTGAAACAGAAA
1 TTGAAAACATTTCCCTTGAAATGA-TATTTTTTCTCTCTTGAGATAGTTTCCCTTGAAACAGAAA
14017755 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
65 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
* * *
14017796 ATGAAAACATTTCCCTTGAAATGA-ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC-G--AA
1 TTGAAAACATTTCCCTTGAAATGATATTTTTTCTCTCTTGAGATAGTTTCCCTTGAAACAGAAAA
** *
14017857 TTTTGTCTCCCTTGAGACAGTTTCTCTCCAAACATAAACT
66 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
14017897 TTGAAAACA
1 TTGAAAACA
14017906 ATTTAACGAA
Statistics
Matches: 199, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
101 47 0.24
103 1 0.01
104 53 0.27
106 98 0.49
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (105 bp):
TTGAAAACATTTCCCTTGAAATGATATTTTTTCTCTCTTGAGATAGTTTCCCTTGAAACAGAAAA
TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
Found at i:14017852 original size:36 final size:36
Alignment explanation
Indices: 14017805--14017880 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
14017795 AATGAAAACA
* * *
14017805 TTTCCCTTGAAATGAATTTTATCTCGCTTGAGATAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
*
14017841 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
14017877 TTTC
1 TTTC
14017881 TCTCCAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
Found at i:14018279 original size:105 final size:105
Alignment explanation
Indices: 14018080--14018710 Score: 914
Period size: 105 Copynumber: 6.0 Consensus size: 105
14018070 ATATCGTGAC
* * * * * *
14018080 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCCC
14018145 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
14018186 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGATCGCTGCTTGTCAACAACAACTTCTCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
14018251 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
14018291 ACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
* *
14018356 ATCTCAGAGGCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
14018396 ACTCCAGACAGCGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAATAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
*
14018461 ATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
14018501 ACTCCAGACAACGCAAGTTCAACTCCACGATGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
* *
14018562 A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * * *
14018601 ACTCGAGACAACACAAGTTCAACTTCACAACGAAAGGA-CGACTGGTTGTCAACAAATAATTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGCTTGTCAAC-AACAACTTCC
** * * *
14018665 CGGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
64 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
14018707 ACTC
1 ACTC
14018711 GGAACAATGC
Statistics
Matches: 482, Mismatches: 36, Indels: 14
0.91 0.07 0.03
Matches are distributed among these distances:
99 2 0.00
100 78 0.16
101 3 0.01
102 3 0.01
103 4 0.01
104 3 0.01
105 305 0.63
106 84 0.17
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:14019786 original size:61 final size:58
Alignment explanation
Indices: 14019712--14019825 Score: 158
Period size: 58 Copynumber: 1.9 Consensus size: 58
14019702 TATTATATGG
* * *
14019712 ATATTTTATTCATTTATTTTTATTATTAATGTTATTATTATTATATGTATATATATATATT
1 ATATTTTATTCATTTATTTTT-TTACT-ATATT-TTATTATTATATATATATATATATATT
14019773 ATATTATT-TTCATTTATTTTTTTACTATATTTTATTATTATATATATATATAT
1 ATATT-TTATTCATTTATTTTTTTACTATATTTTATTATTATATATATATATAT
14019826 TTCCTTAATA
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
58 21 0.43
59 4 0.08
60 4 0.08
61 18 0.37
62 2 0.04
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (58 bp):
ATATTTTATTCATTTATTTTTTTACTATATTTTATTATTATATATATATATATATATT
Found at i:14024308 original size:3 final size:3
Alignment explanation
Indices: 14024300--14024326 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14024290 AAACATTTTG
14024300 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
14024327 AACATTCGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14025265 original size:54 final size:54
Alignment explanation
Indices: 14025203--14025628 Score: 459
Period size: 54 Copynumber: 7.9 Consensus size: 54
14025193 GTGTCGATAT
* * * *
14025203 GGTTGTTCATCAACATATGATTAATTATGTGGGTTGCACACTTAGTGCCTATAC
1 GGTTGTTCATCAACTTATGATGAATTATGTGGGTTGCACACTTAGTGCCAAAAC
* * * * * *
14025257 GGTCGTTCATCAACATATGATGAATTCTGTGGGTTGCTCACTTAGTGCCTATAC
1 GGTTGTTCATCAACTTATGATGAATTATGTGGGTTGCACACTTAGTGCCAAAAC
* * * * * * *
14025311 AGTCGTTCATCAACATATGATGAATTCTGTGGGTTGCATACTTAATACCAAAAC
1 GGTTGTTCATCAACTTATGATGAATTATGTGGGTTGCACACTTAGTGCCAAAAC
* *** * *
14025365 GGGTT-TTTATCAACTTATGATGAATTCCATGGGTTGTACA-TTAATGCCAAAAC
1 -GGTTGTTCATCAACTTATGATGAATTATGTGGGTTGCACACTTAGTGCCAAAAC
* * *
14025418 GGTTGTTCATCAACTTATGATGAATTATGTGGGTTGCATACATAGTGCCAAAAT
1 GGTTGTTCATCAACTTATGATGAATTATGTGGGTTGCACACTTAGTGCCAAAAC
* * *
14025472 GGTTGTTCATCAACTTATGTTGAATT-TCATGGGTTGCACA-TATAGTGCCAAAAT
1 GGTTGTTCATCAACTTATGATGAATTAT-GTGGGTTGCACACT-TAGTGCCAAAAC
* * * *
14025526 GGTTGTTCATTAACTTATGATGAATT-TCGTGGGTTTCACACATAGTGCCAAAAT
1 GGTTGTTCATCAACTTATGATGAATTAT-GTGGGTTGCACACTTAGTGCCAAAAC
*
14025580 GGTTGTTCATCAACTTATTATGAATTATGTGGGTTGCACA-TATAGTGCC
1 GGTTGTTCATCAACTTATGATGAATTATGTGGGTTGCACACT-TAGTGCC
14025629 TAAAGTACAC
Statistics
Matches: 322, Mismatches: 42, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
52 4 0.01
53 42 0.13
54 273 0.85
55 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (54 bp):
GGTTGTTCATCAACTTATGATGAATTATGTGGGTTGCACACTTAGTGCCAAAAC
Found at i:14025594 original size:215 final size:215
Alignment explanation
Indices: 14025203--14025605 Score: 499
Period size: 215 Copynumber: 1.9 Consensus size: 215
14025193 GTGTCGATAT
* * * *
14025203 GGTTGTTCATCAACATATGATTAATTATGTGGGTTGCACACTTAGTGCCTATACGGTCGTTCATC
1 GGTTGTTCATCAACATATGATGAATTATGTGGGTTGCACACATAGTGCCAAAACGGTCGTTCATC
* * * *
14025268 AACATATGATGAATTCTGTGGGTTGCTCACTTAGTGCCTATACAGTCGTTCATCAACATATGATG
66 AACATATGATGAATTCTATGGGTTGCACACTTAGTGCCAAAACAGTCGTTCATCAACATATGATG
* * *
14025333 AATTCTGTGGGTTGCATACTTAATACCAAAACGGGTTTTTATCAACTTATGATGAATTCCATGGG
131 AATTCTGTGGGTTGCACACATAATACCAAAACGGGTTTTCATCAACTTATGATGAATTCCATGGG
14025398 TTGTACATTAATGCCAAAAC
196 TTGTACATTAATGCCAAAAC
* * * *
14025418 GGTTGTTCATCAACTTATGATGAATTATGTGGGTTGCATACATAGTGCCAAAATGGTTGTTCATC
1 GGTTGTTCATCAACATATGATGAATTATGTGGGTTGCACACATAGTGCCAAAACGGTCGTTCATC
* * ** * * *
14025483 AACTTATGTTGAATT-TCATGGGTTGCACA-TATAGTGCCAAAATGGTTGTTCATTAACTTATGA
66 AACATATGATGAATTCT-ATGGGTTGCACACT-TAGTGCCAAAACAGTCGTTCATCAACATATGA
* * * * *
14025546 TGAATT-TCGTGGGTTTCACACATAGTGCCAAAA-TGGTTGTTCATCAACTTATTATGAATT
129 TGAATTCT-GTGGGTTGCACACATAATACCAAAACGGGTT-TTCATCAACTTATGATGAATT
14025606 ATGTGGGTTG
Statistics
Matches: 157, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
214 7 0.04
215 150 0.96
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (215 bp):
GGTTGTTCATCAACATATGATGAATTATGTGGGTTGCACACATAGTGCCAAAACGGTCGTTCATC
AACATATGATGAATTCTATGGGTTGCACACTTAGTGCCAAAACAGTCGTTCATCAACATATGATG
AATTCTGTGGGTTGCACACATAATACCAAAACGGGTTTTCATCAACTTATGATGAATTCCATGGG
TTGTACATTAATGCCAAAAC
Found at i:14028764 original size:3 final size:3
Alignment explanation
Indices: 14028756--14028780 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14028746 TAAGACATAC
14028756 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
14028781 CGAAAGGACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:14031559 original size:10 final size:10
Alignment explanation
Indices: 14031544--14031568 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14031534 TTCACAACAT
14031544 TTTAGTTGCA
1 TTTAGTTGCA
14031554 TTTAGTTGCA
1 TTTAGTTGCA
14031564 TTTAG
1 TTTAG
14031569 GTTATATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.08, G:0.20, T:0.52
Consensus pattern (10 bp):
TTTAGTTGCA
Found at i:14034633 original size:21 final size:20
Alignment explanation
Indices: 14034605--14034644 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
14034595 TGTTTCAGGA
*
14034605 ATTTATGGCCTCAACAAAAG
1 ATTTATGGACTCAACAAAAG
*
14034625 ATTTCATGGATTCAACAAAA
1 ATTT-ATGGACTCAACAAAA
14034645 AAAACCTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.28
Consensus pattern (20 bp):
ATTTATGGACTCAACAAAAG
Found at i:14034830 original size:13 final size:13
Alignment explanation
Indices: 14034812--14034838 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14034802 AGCATCATGG
14034812 AAAGGAGCAATGT
1 AAAGGAGCAATGT
14034825 AAAGGAGCAATGT
1 AAAGGAGCAATGT
14034838 A
1 A
14034839 GTGTACTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.30, T:0.15
Consensus pattern (13 bp):
AAAGGAGCAATGT
Found at i:14043661 original size:45 final size:45
Alignment explanation
Indices: 14043599--14043850 Score: 353
Period size: 45 Copynumber: 5.6 Consensus size: 45
14043589 CAAGCGATGA
* *
14043599 AAATGCATTTAGGTGCATTATCAACAGAAAAGTATGCTATAGTTG
1 AAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTG
* * *
14043644 AAATGCACATGGGTGCATTATCAACAGAAAAGTATGTTATAGTTA
1 AAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTG
* * *
14043689 AAATACATATGGTTGCATTATCAATAGAAAAGTATGCTATAGTTG
1 AAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTG
*
14043734 AAATGCATATGGGTGCATTATCAGCAGAAAAGTATGCTATAGTTG
1 AAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTG
* * * *
14043779 AAATGCATATGGGTGCATTGTCAATAGAAAAGTATGTTATAGTTA
1 AAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTG
*
14043824 AAATTGCATAAT-GGTGCATTATAAACA
1 AAA-TGCAT-ATGGGTGCATTATCAACA
14043851 TGAATGGAGT
Statistics
Matches: 182, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
45 163 0.90
46 17 0.09
47 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (45 bp):
AAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTG
Found at i:14049887 original size:20 final size:20
Alignment explanation
Indices: 14049862--14049908 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
14049852 AATCAATATT
*
14049862 GATACCGTTG-AGGCAGTATC
1 GATACCATTGTAGG-AGTATC
*
14049882 GATACCATTGTAGGGGTATC
1 GATACCATTGTAGGAGTATC
14049902 GATACCA
1 GATACCA
14049909 AGCAAACATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (20 bp):
GATACCATTGTAGGAGTATC
Found at i:14050057 original size:95 final size:95
Alignment explanation
Indices: 14049876--14050062 Score: 243
Period size: 95 Copynumber: 2.0 Consensus size: 95
14049866 CCGTTGAGGC
* * * *
14049876 AGTATCGATACCATTGTAGGGGTATCGATACCAAGCAAACATCGAATCTAATTTTGGTATCGATA
1 AGTATCGATACCATGGTAAGGGTATCGATACCAAGCAAACATCGAACCTAATTTTGGCATCGATA
* * *
14049941 CCGTAAGACGATATTGGACCATAGTATGGT
66 CCATAAGAAGATATCGGACCATAGTATGGT
* *
14049971 AGTATCGATACCATGGTAAGGGTATCGATACCATG-AAACATCTAACCTAATTTTGGCATCGATA
1 AGTATCGATACCATGGTAAGGGTATCGATACCAAGCAAACATCGAACCTAATTTTGGCATCGATA
* *
14050035 CCATGAGGAAG-TATCGATACCATAGTAT
66 CCAT-AAGAAGATATCG-GACCATAGTAT
14050063 TGATGTATTG
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
94 33 0.42
95 46 0.58
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (95 bp):
AGTATCGATACCATGGTAAGGGTATCGATACCAAGCAAACATCGAACCTAATTTTGGCATCGATA
CCATAAGAAGATATCGGACCATAGTATGGT
Found at i:14050602 original size:45 final size:45
Alignment explanation
Indices: 14050550--14050813 Score: 438
Period size: 45 Copynumber: 5.8 Consensus size: 45
14050540 ATGCCATAGT
*
14050550 ATTATCAACAGAAAAGTATGCCATAGTTGAAATGCATATGGGTGC
1 ATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTGC
*
14050595 GTTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTGC
1 ATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTGC
*
14050640 ATTATCAATAGAAAAGTATGCTATAGTTGAAATGCATATGGGTGC
1 ATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTGC
14050685 ATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTGC
1 ATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTGC
* * *
14050730 ATTATCAATAGAAAAATATGTTATAGTTGAAATGCATATGGGTGC
1 ATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTGC
* * *
14050775 ATTGTCAACAGAAAAGTATGTTATAGTTAAAAATGCATA
1 ATTATCAACAGAAAAGTATGCTATAGTT-GAAATGCATA
14050814 ATGGAGCATT
Statistics
Matches: 206, Mismatches: 12, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
45 197 0.96
46 9 0.04
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (45 bp):
ATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATGGGTGC
Found at i:14051350 original size:49 final size:49
Alignment explanation
Indices: 14051277--14051381 Score: 138
Period size: 49 Copynumber: 2.1 Consensus size: 49
14051267 GTGTTACAAT
* * * *
14051277 ATTAGTGGCACCTTTCTGCAAAAAATACACCATTCGTCATCTAACTTGC
1 ATTAGTGGAACCTTTCTACAAAAAATACACCATTAGGCATCTAACTTGC
* ** *
14051326 ATTAGTGGAACCTTTCTACCAAAAATACACTGTTAGGCATTTAACTTGC
1 ATTAGTGGAACCTTTCTACAAAAAATACACCATTAGGCATCTAACTTGC
14051375 ATTAGTG
1 ATTAGTG
14051382 ATGCAAGAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.32
Consensus pattern (49 bp):
ATTAGTGGAACCTTTCTACAAAAAATACACCATTAGGCATCTAACTTGC
Found at i:14051550 original size:54 final size:54
Alignment explanation
Indices: 14051478--14051710 Score: 229
Period size: 54 Copynumber: 4.3 Consensus size: 54
14051468 TTCTTTGAGA
* * * * * *
14051478 TGCACACGTACTGTCTATATGGTCGTTCACCAACATATGATGAATTTCGTGGAT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGT
** *
14051532 TGCACACTTAGTGCCTATACAATCGTTCATTAACATATGATGAA-TTCTGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTC-GTGGGT
** * * *
14051586 TGCACACTTAGTGATTGTACGGTCGTTCATCAACATATGATGAATTCCATGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGT
* ** * * * *
14051640 TGCACACTTAATGCAAAAACGGTTGTTCATCAACTTATGATGAATTAT-GTAGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATT-TCGTGGGT
14051694 TGCACA-TATAGTGCCTA
1 TGCACACT-TAGTGCCTA
14051711 AAGTACACAT
Statistics
Matches: 144, Mismatches: 31, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
53 4 0.03
54 138 0.96
55 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (54 bp):
TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGT
Found at i:14051706 original size:108 final size:108
Alignment explanation
Indices: 14051498--14051699 Score: 269
Period size: 108 Copynumber: 1.9 Consensus size: 108
14051488 CTGTCTATAT
* * * ** * *
14051498 GGTCGTTCACCAACATATGATGAATTTCGTGGATTGCACACTTAGTGCCTATACAATCGTTCATT
1 GGTCGTTCACCAACATATGATGAATTCCATGGATTGCACACTTAATGCAAAAACAATCGTTCATC
* *
14051563 AACATATGATGAATTCTGTGGGTTGCACACTTAGTGATTGTAC
66 AACATATGATGAATTATGTAGGTTGCACACTTAGTGATTGTAC
* * ** *
14051606 GGTCGTTCATCAACATATGATGAATTCCATGGGTTGCACACTTAATGCAAAAACGGTTGTTCATC
1 GGTCGTTCACCAACATATGATGAATTCCATGGATTGCACACTTAATGCAAAAACAATCGTTCATC
*
14051671 AACTTATGATGAATTATGTAGGTTGCACA
66 AACATATGATGAATTATGTAGGTTGCACA
14051700 TATAGTGCCT
Statistics
Matches: 79, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
108 79 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (108 bp):
GGTCGTTCACCAACATATGATGAATTCCATGGATTGCACACTTAATGCAAAAACAATCGTTCATC
AACATATGATGAATTATGTAGGTTGCACACTTAGTGATTGTAC
Found at i:14054401 original size:31 final size:31
Alignment explanation
Indices: 14054328--14054406 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
14054318 TTCAATGTCC
*
14054328 AAGTGACCAAAACTTAATAAAACAATAACGT
1 AAGTGACCAAAACTTAATAAAACAACAACGT
** *
14054359 ATA-TGGTCAAAACTTAATAAAACAACAACTT
1 A-AGTGACCAAAACTTAATAAAACAACAACGT
14054390 AAGTGACCAAAACTTAA
1 AAGTGACCAAAACTTAA
14054407 GCTTTTTGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 1 0.03
31 38 0.95
32 1 0.03
ACGTcount: A:0.53, C:0.16, G:0.09, T:0.22
Consensus pattern (31 bp):
AAGTGACCAAAACTTAATAAAACAACAACGT
Found at i:14058339 original size:19 final size:20
Alignment explanation
Indices: 14058304--14058341 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
14058294 CGAAAATCAA
14058304 AAAATAAAAGTGAAAAAGGT
1 AAAATAAAAGTGAAAAAGGT
14058324 AAAA-AAAA-TGAGAAAAGG
1 AAAATAAAAGTGA-AAAAGG
14058342 CCAAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.18
19 10 0.59
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.21, T:0.11
Consensus pattern (20 bp):
AAAATAAAAGTGAAAAAGGT
Found at i:14060960 original size:54 final size:54
Alignment explanation
Indices: 14060912--14061239 Score: 467
Period size: 54 Copynumber: 6.1 Consensus size: 54
14060902 TTTCACACCC
* * *
14060912 AGTGCCAATACAAAAATACATAAACTTATTATGAATTTCTTAAGTTTCACACAT
1 AGTGCCAATACAAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACAT
* * * *
14060966 AGTGTCAATACGAAAATTCATAAACTCATTATGAATTTCTTAAGTTGTACATAT
1 AGTGCCAATACAAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACAT
* *
14061020 AGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAAATTGCACACAT
1 AGTGCCAATACAAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACAT
** *
14061074 AGTGCCAATGTAGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACAT
1 AGTGCCAATACAAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACAT
* * * * *
14061128 AGCGCCAATGCAGAAATTCACAAACTCATTATGAATTTCTTAAGATGCACACAT
1 AGTGCCAATACAAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACAT
* * * *
14061182 AGTGTCAATACTAAAATTCATAAACTCATTATGAATTTATTAAGTTGAACACAT
1 AGTGCCAATACAAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACAT
14061236 AGTG
1 AGTG
14061240 TCATTCGGTA
Statistics
Matches: 245, Mismatches: 29, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 245 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (54 bp):
AGTGCCAATACAAAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACAT
Found at i:14062316 original size:32 final size:31
Alignment explanation
Indices: 14062280--14062377 Score: 103
Period size: 31 Copynumber: 3.1 Consensus size: 31
14062270 GAGCACATTA
* *
14062280 GGGCCTGAGAGCCTACCCAAGAAAGATTTTTG
1 GGGCCTGAG-GCCTACCCAAGAAAGATTATCG
*
14062312 GGGCCATGAGGCCTACCCAAGAAA-AATATCG
1 GGGCC-TGAGGCCTACCCAAGAAAGATTATCG
*
14062343 GGG-CTGCAGGGCATACCCAAGAAAGA-TATCG
1 GGGCCTG-A-GGCCTACCCAAGAAAGATTATCG
14062374 GGGC
1 GGGC
14062378 TACATAGCCT
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
29 2 0.04
30 2 0.04
31 29 0.51
32 20 0.35
33 4 0.07
ACGTcount: A:0.31, C:0.23, G:0.31, T:0.15
Consensus pattern (31 bp):
GGGCCTGAGGCCTACCCAAGAAAGATTATCG
Found at i:14062397 original size:21 final size:21
Alignment explanation
Indices: 14062373--14062417 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
14062363 GAAAGATATC
*
14062373 GGGGCTACATAGCCTACACAA
1 GGGGCTACAGAGCCTACACAA
*
14062394 GGGGCTACAGAGCCTACTCAA
1 GGGGCTACAGAGCCTACACAA
14062415 GGG
1 GGG
14062418 TCAGCTTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.29, C:0.27, G:0.31, T:0.13
Consensus pattern (21 bp):
GGGGCTACAGAGCCTACACAA
Found at i:14071235 original size:10 final size:10
Alignment explanation
Indices: 14071220--14071244 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14071210 GTCGCCCACC
14071220 TACCCACCTA
1 TACCCACCTA
14071230 TACCCACCTA
1 TACCCACCTA
14071240 TACCC
1 TACCC
14071245 TTTCTATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.52, G:0.00, T:0.20
Consensus pattern (10 bp):
TACCCACCTA
Found at i:14071426 original size:21 final size:22
Alignment explanation
Indices: 14071402--14071442 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
14071392 TGATGAGGAT
*
14071402 TGGAAAT-CAAATGGAGGGTCA
1 TGGAAATAAAAATGGAGGGTCA
*
14071423 TGGACATAAAAATGGAGGGT
1 TGGAAATAAAAATGGAGGGT
14071443 TGTGTTGGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.39, C:0.07, G:0.34, T:0.20
Consensus pattern (22 bp):
TGGAAATAAAAATGGAGGGTCA
Found at i:14072471 original size:72 final size:72
Alignment explanation
Indices: 14072395--14072669 Score: 257
Period size: 72 Copynumber: 3.8 Consensus size: 72
14072385 TCACATTTAC
* *
14072395 TGCTTCTGCTTGTACTTGACTTTCAGG-GACCATATTTGCTTCCTCTTCAACTGTTTCCTGCTTT
1 TGCTTCTGCTTGTACATGACTTTCAGGAG-CCATATTTGCTTCCTCTTCAACTATTTCCTGCTTT
*
14072459 CCCTGTGT
65 CCCTCTGT
* * * *** * * *
14072467 TGCTTCTGCTTGTACACGACTTTCAAGATCCATATTCATTTCCTCTTCGACTATTTCATG-ATTC
1 TGCTTCTGCTTGTACATGACTTTCAGGAGCCATATTTGCTTCCTCTTCAACTATTTCCTGCTTTC
*
14072531 CTCTTTGT
66 C-CTCTGT
* * * ** * *
14072539 AGGTTCTGCTTGTACAAGACTTTCAGGAGGTATATTTGTTTCCTCTTCAACTATTTCCTGCTTCC
1 TGCTTCTGCTTGTACATGACTTTCAGGAGCCATATTTGCTTCCTCTTCAACTATTTCCTGCTTTC
*
14072604 CCTCTGA
66 CCTCTGT
* * * * * * * *
14072611 TGCTTCTGCTTGTACTTGACTTTCAAGAACGACATTAGCTTCCTGTTCAACTGTTTCCT
1 TGCTTCTGCTTGTACATGACTTTCAGGAGCCATATTTGCTTCCTCTTCAACTATTTCCT
14072670 TTTCCCCATC
Statistics
Matches: 160, Mismatches: 40, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
71 4 0.03
72 153 0.96
73 3 0.02
ACGTcount: A:0.16, C:0.26, G:0.15, T:0.43
Consensus pattern (72 bp):
TGCTTCTGCTTGTACATGACTTTCAGGAGCCATATTTGCTTCCTCTTCAACTATTTCCTGCTTTC
CCTCTGT
Found at i:14072687 original size:72 final size:72
Alignment explanation
Indices: 14072394--14072735 Score: 255
Period size: 72 Copynumber: 4.8 Consensus size: 72
14072384 GTCACATTTA
* * * *
14072394 CTGCTTCTGCTTGTACTTGACTTTCAGGGACCATATTTGCTTCCTCTTCAACTGTTTCCTGCTTT
1 CTGCTTCTGCTTGTACTTGACTTTCAAGAACCATATTAGCTTCCTCTTCAACTATTTCCTG-TTT
*
14072459 -CCCTGTGT
65 CCCCTCT-T
** * * * * *
14072467 -TGCTTCTGCTTGTACACGACTTTCAAGATCCATATTCA-TTTCCTCTTCGACTATTTCATGATT
1 CTGCTTCTGCTTGTACTTGACTTTCAAGAACCATATT-AGCTTCCTCTTCAACTATTTCCTGTTT
*
14072530 CCTCT-TT
65 CCCCTCTT
* * ** * *** * * *
14072537 GTAGGTTCTGCTTGTACAAGACTTTCAGGAGGTATATTTGTTTCCTCTTCAACTATTTCCTGCTT
1 CT-GCTTCTGCTTGTACTTGACTTTCAAGAACCATATTAGCTTCCTCTTCAACTATTTCCTGTTT
*
14072602 CCCCTCTG
65 CCCCTCTT
* * * * *
14072610 ATGCTTCTGCTTGTACTTGACTTTCAAGAACGACATTAGCTTCCTGTTCAACTGTTTCCT-TTTC
1 CTGCTTCTGCTTGTACTTGACTTTCAAGAACCATATTAGCTTCCTCTTCAACTATTTCCTGTTTC
14072674 CCCATCTT
66 CCC-TCTT
* * * ** * *
14072682 CTGCTTCGGCTTCTACTTGGCTTT-GGGAAACCACATTGGCTTCCTCTTCAACTA
1 CTGCTTCTGCTTGTACTTGACTTTCAAG-AACCATATTAGCTTCCTCTTCAACTA
14072736 ACTCAAGCCC
Statistics
Matches: 212, Mismatches: 49, Indels: 17
0.76 0.18 0.06
Matches are distributed among these distances:
70 1 0.00
71 11 0.05
72 198 0.93
73 2 0.01
ACGTcount: A:0.16, C:0.27, G:0.15, T:0.42
Consensus pattern (72 bp):
CTGCTTCTGCTTGTACTTGACTTTCAAGAACCATATTAGCTTCCTCTTCAACTATTTCCTGTTTC
CCCTCTT
Found at i:14084528 original size:18 final size:19
Alignment explanation
Indices: 14084505--14084540 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14084495 AATAAGATTC
*
14084505 TTTCACA-TAAAGCAAGTA
1 TTTCACATTAAACCAAGTA
14084523 TTTCACATTAAACCAAGT
1 TTTCACATTAAACCAAGT
14084541 CTAGATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (19 bp):
TTTCACATTAAACCAAGTA
Found at i:14096148 original size:19 final size:19
Alignment explanation
Indices: 14096097--14096149 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
14096087 CCTTCACTGG
*
14096097 TGTATCGGTACACAACCTA
1 TGTATCGGTACACTACCTA
*
14096116 TGTATCAGTACACTACCTA
1 TGTATCGGTACACTACCTA
14096135 TGTATCGGTACACTA
1 TGTATCGGTACACTA
14096150 ATTACATTCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (19 bp):
TGTATCGGTACACTACCTA
Found at i:14099523 original size:18 final size:18
Alignment explanation
Indices: 14099500--14099543 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
14099490 ATTTTCCTGT
14099500 AGGACCACTA-AGTCCCGA
1 AGGACCACTATA-TCCCGA
14099518 AGGACCACTATATCCCGA
1 AGGACCACTATATCCCGA
14099536 AGGACCAC
1 AGGACCAC
14099544 ATAGAACACA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 24 0.96
19 1 0.04
ACGTcount: A:0.34, C:0.34, G:0.20, T:0.11
Consensus pattern (18 bp):
AGGACCACTATATCCCGA
Found at i:14107919 original size:27 final size:28
Alignment explanation
Indices: 14107881--14107937 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
14107871 TCAACTCAAA
14107881 GGCTATCCATATTA-TTTTTGTGCTCTT
1 GGCTATCCATATTATTTTTTGTGCTCTT
14107908 GGCTATCCATATTATTTTTTGTGCTCTT
1 GGCTATCCATATTATTTTTTGTGCTCTT
14107936 GG
1 GG
14107938 ACCAGATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.14, C:0.18, G:0.18, T:0.51
Consensus pattern (28 bp):
GGCTATCCATATTATTTTTTGTGCTCTT
Found at i:14119432 original size:45 final size:45
Alignment explanation
Indices: 14119383--14119528 Score: 206
Period size: 45 Copynumber: 3.2 Consensus size: 45
14119373 TATTCATTAT
* *
14119383 TTTCATTTATGGCATCTTTTCATGCCTTTAATGTACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGTACTGTTATGCA
*
14119428 TTTCATTTATGACATCCTTTCATGCCTTTAAT-TCACTGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGT-ACTGTTATGCA
* * *
14119473 TTTCTTTTTTGGCATCCTTTCATGCCTTTAATGCA-TGATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGTACTG-TTATGCA
14119518 TTTCATTTATG
1 TTTCATTTATG
14119529 AAATGAAAAT
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
44 3 0.03
45 86 0.97
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.49
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTAATGTACTGTTATGCA
Found at i:14120036 original size:95 final size:96
Alignment explanation
Indices: 14119891--14120093 Score: 263
Period size: 95 Copynumber: 2.1 Consensus size: 96
14119881 ACCCCTACCA
** *
14119891 TGGTATCGATACTTCTATACTATGGTATTGATACACCCTTCTAGTATCGATACGATTTCTAT-AT
1 TGGTATCGATACTTCTATACTATGGTACAGATACACCCTTCTAGTATCGATACCATTT-TATCAT
14119955 TCT-GTAATT-CATGGTATCAATACATTTCTCT
65 TCTAG-AATTCCATGGTATCAATACATTTCTCT
*
14119986 TGGTATCGATACTTCTATACTATGGTACAGATA-ATCCCTT-TCAGTATCGATACCATTTTTTCA
1 TGGTATCGATACTTCTATACTATGGTACAGATACA-CCCTTCT-AGTATCGATACCATTTTATCA
* * *
14120049 TTCTAGAATTCCCTGGTATCGATACCTTTCTCT
64 TTCTAGAATTCCATGGTATCAATACATTTCTCT
*
14120082 TGGTATCTATAC
1 TGGTATCGATAC
14120094 CCACATCAGT
Statistics
Matches: 95, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
94 4 0.04
95 60 0.63
96 31 0.33
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (96 bp):
TGGTATCGATACTTCTATACTATGGTACAGATACACCCTTCTAGTATCGATACCATTTTATCATT
CTAGAATTCCATGGTATCAATACATTTCTCT
Found at i:14121668 original size:30 final size:30
Alignment explanation
Indices: 14121634--14121691 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
14121624 CAAGCCAATG
14121634 TTTTAGGTGTCACTCCTTACCATAGTAAAA
1 TTTTAGGTGTCACTCCTTACCATAGTAAAA
14121664 TTTTAGGTGTCACTCCTTACCATAGTAA
1 TTTTAGGTGTCACTCCTTACCATAGTAA
14121692 TTTAAGCCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (30 bp):
TTTTAGGTGTCACTCCTTACCATAGTAAAA
Found at i:14124425 original size:40 final size:40
Alignment explanation
Indices: 14124360--14124455 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
14124350 GAATATTGGG
* * *
14124360 TAAGAACTTTGGTGC-AAAGGATCGACACAACCTTATGCA
1 TAAGCACTTCGGTGCAAAAGGATCGACACAACCTTAAGCA
* * *
14124399 TAAGCACTTCGGTGCAAAAGGGTCGACGCAACCTTAAGCG
1 TAAGCACTTCGGTGCAAAAGGATCGACACAACCTTAAGCA
14124439 TAAGCACTTCGGTGCAA
1 TAAGCACTTCGGTGCAA
14124456 CTCGAATACG
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
39 13 0.26
40 37 0.74
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (40 bp):
TAAGCACTTCGGTGCAAAAGGATCGACACAACCTTAAGCA
Found at i:14128410 original size:81 final size:81
Alignment explanation
Indices: 14128270--14128749 Score: 631
Period size: 81 Copynumber: 5.9 Consensus size: 81
14128260 TTTTAAAATG
* * *
14128270 AAAGATTAAATGCCTAACTATGCATTTGGTAGAAAGGTGCCAATCATGCTAGTTAGATGAAAGGT
1 AAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGATGCCAATCATGCTAGTTAGATGAAAGGT
*
14128335 TAAATGCATTTGAGTA
66 TAAATGCCTTTGAGTA
* * *
14128351 AAAGGTTAAATGTCTAACTGTGCATTTGGAAGAAATG-TGCCAATCATGCTAGTTAGATGAAAGG
1 AAAGATTAAATGCCTAACTGTGCATTTGGCAGAAA-GATGCCAATCATGCTAGTTAGATGAAAGG
* *
14128415 TTAAATGCCTATAAGTA
65 TTAAATGCCTTTGAGTA
* * * * *
14128432 AAAGATTAAATACCTAACTGTGCATTTGGCAGAGAGCTGCCAATCATGCTAGTTATATGAAATGT
1 AAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGATGCCAATCATGCTAGTTAGATGAAAGGT
* * *
14128497 TAAATGCCTTCGGGTC
66 TAAATGCCTTTGAGTA
* * *
14128513 AAAGATTAAATGCCTAACTGTACATTTGGCAGAAATATGCCAATCATACTAGTTAGATGAAAGGT
1 AAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGATGCCAATCATGCTAGTTAGATGAAAGGT
*
14128578 TAAATACCTTTGAGTA
66 TAAATGCCTTTGAGTA
* * *
14128594 AAAGATTAAATGCCTAACTATGCATTTGGCATAAAGATGCCAATCATGCTTGTTAGATGAAAGGT
1 AAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGATGCCAATCATGCTAGTTAGATGAAAGGT
* ***
14128659 TAAATGACTTTTTTTA
66 TAAATGCCTTTGAGTA
* * * * * *
14128675 AAAGATTAAATGCCTAATTG-GCATTTGGAAGAAAGATGCCAATAATGCAAGTTAGACGAAATGT
1 AAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGATGCCAATCATGCTAGTTAGATGAAAGGT
14128739 TAAATGCCTTT
66 TAAATGCCTTT
14128750 ACAGGAAAGA
Statistics
Matches: 345, Mismatches: 52, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
80 48 0.14
81 296 0.86
82 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (81 bp):
AAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGATGCCAATCATGCTAGTTAGATGAAAGGT
TAAATGCCTTTGAGTA
Found at i:14131319 original size:81 final size:80
Alignment explanation
Indices: 14131096--14131339 Score: 348
Period size: 81 Copynumber: 3.0 Consensus size: 80
14131086 GGGGTGTATA
**
14131096 GCCTAACTATGCATTTGGCAGAAAGGTGTCAATCATGCTAGTTAGATGAAAGGTTAAATGTATTT
1 GCCTAACTATGCATTTGGCAGAAAGGTGT-AATCATGCTAGTTAGATGAAAGGTTAAATGCCTTT
14131161 GAGTAAAAGATTAAAT
65 GAGTAAAAGATTAAAT
*
14131177 GCCAAACTATGCATTTGGCAGAAAGGTGTTAATCATGCTAGTTAGATGAAAGGTTAAATGCCTTT
1 GCCTAACTATGCATTTGGCAGAAAGGTG-TAATCATGCTAGTTAGATGAAAGGTTAAATGCCTTT
14131242 GAGTAAAAGATTAAAT
65 GAGTAAAAGATTAAAT
* * * *
14131258 GCCTAACTATGCTTTTGGCAGAAAGGTGCTAATAATGCAAGTTATACT-AAAGGTTAAATGCCTT
1 GCCTAACTATGCATTTGGCAGAAAGGTG-TAATCATGCTAGTTAGA-TGAAAGGTTAAATGCCTT
* *
14131322 TAGAG-GAAAGAATAAAT
64 T-GAGTAAAAGATTAAAT
14131339 G
1 G
14131340 TTCAATAGTG
Statistics
Matches: 149, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
81 144 0.97
82 5 0.03
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (80 bp):
GCCTAACTATGCATTTGGCAGAAAGGTGTAATCATGCTAGTTAGATGAAAGGTTAAATGCCTTTG
AGTAAAAGATTAAAT
Found at i:14131470 original size:24 final size:24
Alignment explanation
Indices: 14131443--14131491 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
14131433 TATGTGCATC
14131443 ACAATTCGTACCAGTATGACCTAA
1 ACAATTCGTACCAGTATGACCTAA
*
14131467 ACAATTTGTACCAGTATGACCTAA
1 ACAATTCGTACCAGTATGACCTAA
14131491 A
1 A
14131492 TTTTCGTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (24 bp):
ACAATTCGTACCAGTATGACCTAA
Found at i:14141541 original size:54 final size:54
Alignment explanation
Indices: 14141464--14142159 Score: 725
Period size: 54 Copynumber: 12.9 Consensus size: 54
14141454 TGCAATTGTA
* * * * *
14141464 TATAGGTACTATCTGTGCAACCCACGAAATTCATCATATGCTGATGAACAACCA
1 TATAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
* * ** * *
14141518 TAAAGGCACTAGGTGTGCAACCCATAAAATTCATCATATGTTGATGAACAATCG
1 TATAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
* * * * * *
14141572 TATAGGCACCAGGTGTGCAATCCA-AAGAATTCATCATATGTTAATAAACGACCG
1 TATAGGCACTATGTGTGCAACCCACGA-AATTCATCATATGTTGATGAACGACCG
* * * * * *
14141626 TATATGTATTATGTGTGCAGCCGAC-ATAATTCATCATATGTTGATGAATGACCG
1 TATAGGCACTATGTGTGCAACCCACGA-AATTCATCATATGTTGATGAACGACCG
* ** *
14141680 TATAGGCACTACGTGTGCAACCCATAAAATTCATCATATGTTGATGAACGACCA
1 TATAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
* *
14141734 TATAGGCACTATTTGTGCAACCCACGAAATTCATCATATGTTGATGAACGGCCG
1 TATAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
* * * * * *
14141788 TATAGGCACTAGGTGTACAACCCACGTAATTCATCATATGTTGATAAATGTCCG
1 TATAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
* * **
14141842 TAGAGGCACTATGTGTACAACCCAC-AGAATTCATCATATGTTGATGAACGGTCG
1 TATAGGCACTATGTGTGCAACCCACGA-AATTCATCATATGTTGATGAACGACCG
* * * * *
14141896 TATAGGCACTATATGTGCAACCCACGAAATCCATCATATGTTGATAAATGACCA
1 TATAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
* * * * * *
14141950 TATAGGCACAATGTCTGCAACCCACGGAATTCGTCATATTTTGATGAACGATCG
1 TATAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
* * ** * * *
14142004 TATAAGAACTACATGTGCAACCCATGAAATTCATCATATGTTGATGACCAACCG
1 TATAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
* * * * * *
14142058 TATAGGCACTAGGTGTACAACCCACGAAATTTATCATATGTTAATAAACGACCA
1 TATAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
* * * *
14142112 TATAGGCACTAAGTGTGCAAACCATGAAATTCATAATATGATT-ATGAA
1 TATAGGCACTATGTGTGCAACCCACGAAATTCATCATATG-TTGATGAA
14142160 TAGTCGTATC
Statistics
Matches: 527, Mismatches: 109, Indels: 12
0.81 0.17 0.02
Matches are distributed among these distances:
53 2 0.00
54 521 0.99
55 4 0.01
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (54 bp):
TATAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
Found at i:14147847 original size:54 final size:54
Alignment explanation
Indices: 14147774--14148273 Score: 568
Period size: 54 Copynumber: 9.4 Consensus size: 54
14147764 TGCAATTGTA
* * * * * *
14147774 TATAGGCACTATGTGTGCAATCCATATAATTCATCACATGTTGATGAATGATCG
1 TATAGGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
* * * *
14147828 TATAGGCACTAGGTATGCAACCCACA-AAAT--TC--A--TTGATGAATGACCG
1 TATAGGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
* * *
14147875 TATAGGCACTAGGTGTACAACCCACAGAATTCATCATATGTTGACGAACGACCG
1 TATAGGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
*
14147929 TATAGGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGATCG
1 TATAGGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
* *
14147983 TATAGGCAATATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACTG
1 TATAGGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
* * *
14148037 TATAGACACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACTG
1 TATAGGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
* * * * *
14148091 TATAGGAACTTTGTGTGTAACTCAC-GAAATTCATCATATGTTGATGAACGACCA
1 TATAGGCACTATGTGTGCAACCCACAG-AATTCATCATATGTTGATGAACGACCG
* * * ** * *
14148145 TATAGGCACTAGGAGTACAACCCATGGAATTCCATCATATGCTGATGAACGATCG
1 TATAGGCACTATGTGTGCAACCCACAGAATT-CATCATATGTTGATGAACGACCG
* * * **
14148200 TATAGGCACTAGGTGTGCAACCCAC-GAAATTTATCATATGTTGATGAACAACAA
1 TATAGGCACTATGTGTGCAACCCACAG-AATTCATCATATGTTGATGAACGACCG
* *
14148254 TATAGACACTAAGTGTGCAA
1 TATAGGCACTATGTGTGCAA
14148274 ACCGTAAAAT
Statistics
Matches: 384, Mismatches: 51, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
47 37 0.10
48 3 0.01
49 1 0.00
50 2 0.01
51 2 0.01
52 1 0.00
53 4 0.01
54 287 0.75
55 47 0.12
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (54 bp):
TATAGGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
Found at i:14147968 original size:27 final size:27
Alignment explanation
Indices: 14147938--14148077 Score: 80
Period size: 27 Copynumber: 5.2 Consensus size: 27
14147928 GTATAGGCAC
14147938 TATGTGTGCAACCCACAGAATTCATCA
1 TATGTGTGCAACCCACAGAATTCATCA
* * *
14147965 TATGTTGATG-AA-CGATC-GTA-T-AGGCA
1 TATG-TG-TGCAACCCA-CAGAATTCA-TCA
14147991 ATATGTGTGCAACCCACAGAATTCATCA
1 -TATGTGTGCAACCCACAGAATTCATCA
* * * **
14148019 TATGTTGATG-AA-CGACTGTATAGA-CA
1 TATG-TG-TGCAACCCACAGAATTCATCA
14148045 CTATGTGTGCAACCCACAGAATTCATCA
1 -TATGTGTGCAACCCACAGAATTCATCA
14148073 TATGT
1 TATGT
14148078 TGATGAACAA
Statistics
Matches: 81, Mismatches: 16, Indels: 32
0.63 0.12 0.25
Matches are distributed among these distances:
25 5 0.06
26 14 0.17
27 43 0.53
28 14 0.17
29 5 0.06
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (27 bp):
TATGTGTGCAACCCACAGAATTCATCA
Found at i:14148284 original size:54 final size:53
Alignment explanation
Indices: 14147873--14148325 Score: 469
Period size: 54 Copynumber: 8.4 Consensus size: 53
14147863 GATGAATGAC
* * * *
14147873 CGTATAGGCACTAGGTGTACAACCCACAGAATTCATCATATGTTGACGAACGAC
1 CGTATAGGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAAC-AA
*
14147927 CGTATAGGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGAT
1 CGTATAGGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAAC-AA
* *
14147981 CGTATAGGCAATATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGA
1 CGTATAGGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAA
*
14148034 CTGTATAGACACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAA
1 C-GTATAGGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAA
* * * * *
14148088 CTGTATAGGAACTTTGTGTGTAACTCAC-GAAATTCATCATATGTTGATGAACGAC
1 C-GTATAGGCACTATGTGTGCAACCCACAG-AATTCATCATATGTTGATGAAC-AA
* * * * ** * *
14148143 CATATAGGCACTAGGAGTACAACCCATGGAATTCCATCATATGCTGATGAACGAT
1 CGTATAGGCACTATGTGTGCAACCCACAGAATT-CATCATATGTTGATGAAC-AA
* *
14148198 CGTATAGGCACTAGGTGTGCAACCCAC-GAAATTTATCATATGTTGATGAACAA
1 CGTATAGGCACTATGTGTGCAACCCACAG-AATTCATCATATGTTGATGAACAA
* * * * ** * * * * *
14148251 CAATATAGACACTAAGTGTGCAAACCGTAAAATTCATAATGTGTTTATGAATCAT
1 C-GTATAGGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAA-CAA
* *
14148306 CGTATCGGCACTAAGTGTGC
1 CGTATAGGCACTATGTGTGC
14148326 CCCCAGAGAA
Statistics
Matches: 341, Mismatches: 49, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
53 4 0.01
54 285 0.84
55 52 0.15
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (53 bp):
CGTATAGGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAA
Found at i:14148287 original size:217 final size:216
Alignment explanation
Indices: 14147902--14148301 Score: 577
Period size: 217 Copynumber: 1.8 Consensus size: 216
14147892 CAACCCACAG
* * * *
14147902 AATTCATCATATGTTGACGAACGACCGTATAGGCACTATGTGTGCAACCCACAGAATTCATCATA
1 AATTCATCATATGTTGACGAACGACCATATAGGCACTAGGAGTACAACCCACAGAATTCATCATA
* *
14147967 TGTTGATGAACGATCGTATAGGCAATATGTGTGCAACCCACAGAATTCATCATATGTTGATGAAC
66 TGCTGATGAACGATCGTATAGGCAATAGGTGTGCAACCCACAGAATTCATCATATGTTGATGAAC
* ** * * * *
14148032 GACTGTATAGACACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACTGTATAGG
131 AACAATATAGACACTAAGTGTGCAAACCACAAAATTCATAATATGTTGATGAACAACTGTATAGG
14148097 AACTTTGTGTGTAACTCACGA
196 AACTTTGTGTGTAACTCACGA
* **
14148118 AATTCATCATATGTTGATGAACGACCATATAGGCACTAGGAGTACAACCCATGGAATTCCATCAT
1 AATTCATCATATGTTGACGAACGACCATATAGGCACTAGGAGTACAACCCACAGAATT-CATCAT
* *
14148183 ATGCTGATGAACGATCGTATAGGCACTAGGTGTGCAACCCAC-GAAATTTATCATATGTTGATGA
65 ATGCTGATGAACGATCGTATAGGCAATAGGTGTGCAACCCACAG-AATTCATCATATGTTGATGA
** * *
14148247 ACAACAATATAGACACTAAGTGTGCAAACCGTAAAATTCATAATGTGTTTATGAA
129 ACAACAATATAGACACTAAGTGTGCAAACCACAAAATTCATAATATGTTGATGAA
14148302 TCATCGTATC
Statistics
Matches: 160, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
216 52 0.32
217 108 0.68
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (216 bp):
AATTCATCATATGTTGACGAACGACCATATAGGCACTAGGAGTACAACCCACAGAATTCATCATA
TGCTGATGAACGATCGTATAGGCAATAGGTGTGCAACCCACAGAATTCATCATATGTTGATGAAC
AACAATATAGACACTAAGTGTGCAAACCACAAAATTCATAATATGTTGATGAACAACTGTATAGG
AACTTTGTGTGTAACTCACGA
Found at i:14149332 original size:20 final size:20
Alignment explanation
Indices: 14149309--14149358 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
14149299 GGACCACGAT
*
14149309 TATCGATACTTCTTGAAGGG
1 TATCGATACTCCTTGAAGGG
14149329 TATCGATACTCCTTGAAGGG
1 TATCGATACTCCTTGAAGGG
14149349 TATCGATACT
1 TATCGATACT
14149359 GCCCTTGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (20 bp):
TATCGATACTCCTTGAAGGG
Found at i:14159370 original size:81 final size:81
Alignment explanation
Indices: 14159230--14159579 Score: 470
Period size: 81 Copynumber: 4.3 Consensus size: 81
14159220 ATGGATTCCA
* * * *
14159230 AAATACCTTTGAGTAAAATATTAAATGCCTAATTGTGCATTTGGCAGAAATGTGCCAATCATGCT
1 AAATGCCTTTGAGTAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATCATGCT
*
14159295 AGTTATATGAAAGGTT
66 AGTTAGATGAAAGGTT
* * * *
14159311 AAATGCCTTTGAGTAAAAGAGTAATTGCCTAACTGTGCATTTGGAAGAAAGGTGTCAATCATGCT
1 AAATGCCTTTGAGTAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATCATGCT
14159376 AGTTAGATGAAAGGTT
66 AGTTAGATGAAAGGTT
* * * *
14159392 AAATGCCTTTGAGTGAAAGATTAAATGCCTAAATGTGCATTTGGCAGAAAGGTGTCAATCATGTT
1 AAATGCCTTTGAGTAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATCATGCT
*
14159457 AGGTAGATGAAAGGTT
66 AGTTAGATGAAAGGTT
* * * * * *
14159473 -AATGCCTTTGGGTAAAAGATTAAATGTCTAACTATGCATTTGGCAGAAAGATGCCAATAATGCA
1 AAATGCCTTTGAGTAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATCATGCT
*
14159537 AATTAGATGAAAGGTT
66 AGTTAGATGAAAGGTT
* *
14159553 AAATGCCTTTAGAG-GAAAGAATAAATG
1 AAATGCCTTT-GAGTAAAAGATTAAATG
14159580 TTTAATAGTG
Statistics
Matches: 236, Mismatches: 31, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
80 68 0.29
81 166 0.70
82 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.30
Consensus pattern (81 bp):
AAATGCCTTTGAGTAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAGGTGCCAATCATGCT
AGTTAGATGAAAGGTT
Found at i:14159664 original size:3 final size:3
Alignment explanation
Indices: 14159656--14159726 Score: 69
Period size: 3 Copynumber: 23.7 Consensus size: 3
14159646 TTATTTTAAA
*
14159656 TAT TAT TAT TAT TA- TAT T-T GTAC TAT T-T TATT TATT TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TA-T TA-T TA-T TAT TAT
14159702 TAT TAT TA- TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
14159727 CAAACAGGCC
Statistics
Matches: 60, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
2 7 0.12
3 42 0.70
4 11 0.18
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:14159699 original size:17 final size:18
Alignment explanation
Indices: 14159655--14159726 Score: 71
Period size: 17 Copynumber: 4.1 Consensus size: 18
14159645 TTTATTTTAA
14159655 ATATTATTATTATTATATTT
1 ATATTATTATTATT-TA-TT
* *
14159675 GTACTATT-TTATTTATT
1 ATATTATTATTATTTATT
14159692 -TATTTATTATTA-TTATT
1 ATA-TTATTATTATTTATT
14159709 ATATTATTATTA-TTATT
1 ATATTATTATTATTTATT
14159726 A
1 A
14159727 CAAACAGGCC
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
16 2 0.04
17 26 0.57
18 7 0.15
19 5 0.11
20 6 0.13
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (18 bp):
ATATTATTATTATTTATT
Found at i:14159704 original size:14 final size:15
Alignment explanation
Indices: 14159687--14159724 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
14159677 ACTATTTTAT
14159687 TTATTTATT-TATTA
1 TTATTTATTATATTA
14159701 TTA-TTATTATATTA
1 TTATTTATTATATTA
14159715 TTA-TTATTAT
1 TTATTTATTAT
14159725 TACAAACAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATTTATTATATTA
Found at i:14160232 original size:23 final size:23
Alignment explanation
Indices: 14160206--14160263 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
14160196 ACGAGAGTAA
* * *
14160206 GACAGAGAGGAACGTAGAACAAC
1 GACAGAGAGCAACATACAACAAC
*
14160229 GACAGAGAGCAACATACAGCAAC
1 GACAGAGAGCAACATACAACAAC
14160252 GACAGAGAGCAA
1 GACAGAGAGCAA
14160264 GAACTACACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.48, C:0.21, G:0.28, T:0.03
Consensus pattern (23 bp):
GACAGAGAGCAACATACAACAAC
Found at i:14160271 original size:25 final size:23
Alignment explanation
Indices: 14160225--14160278 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
14160215 GAACGTAGAA
* *
14160225 CAACGACAGAGAGCAACATACAG
1 CAACGACAGAGAGCAAAATACAC
14160248 CAACGACAGAGAGCAAGAACTACAC
1 CAACGACAGAGAGCAA-AA-TACAC
14160273 CAACGA
1 CAACGA
14160279 TCCTAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 16 0.59
24 1 0.04
25 10 0.37
ACGTcount: A:0.48, C:0.28, G:0.20, T:0.04
Consensus pattern (23 bp):
CAACGACAGAGAGCAAAATACAC
Found at i:14161552 original size:157 final size:149
Alignment explanation
Indices: 14161171--14161566 Score: 394
Period size: 157 Copynumber: 2.6 Consensus size: 149
14161161 GATTAAATAA
*
14161171 TAATGTTTATTTATTTTTAATATCAAAGAAAATGGCAGTCTTAATATAACTGGATGTCCTATTCT
1 TAATGTTTATTTATTTTTAATATCAAAGAAAATGG-AGTCTTAA-ATAACTGGATGTCATATTCT
* * * * *
14161236 GGTATTTT--AAATAATTAAATAT-TATAAAAATTATAATTATTTTTATTTAAATTATTTTTTGT
64 TGTATTTTAAAAATAAATAAATATCTATAAAAATCATAATTATATTTACTTAAATTATTTTTTGT
* * *
14161298 TAGGAAAAATTATTATAGTTT
129 TAAGAAAAATCATTATACTTT
* * *
14161319 TAATGTTTATTTATTTTTTTTAATA-CTAAGAAAATGCG-GTCTTAAAATAACTGGACGTCTTAT
1 TAATGTTTATTTA---TTTTTAATATCAAAGAAAATG-GAGTCTT-AAATAACTGGATGTCATAT
* * * *
14161382 TCTTGTACTTTAAAAATAAATAAATATCCTCCTTACAAATGCAT-A-TATATTTACTTAGATT-T
61 TCTTGTATTTTAAAAATAAATAAATAT-CT--ATAAAAAT-CATAATTATATTTACTTAAATTAT
*
14161444 TATTATTTTTAAGAAAAATCATTATATTCTTCT
122 T-TT-TTGTTAAGAAAAATCATTATA--CTT-T
* * *
14161477 TAATATTTATTTATTTTTAATATCAAAGAAAATGGAAGTCTTAAAGCAACTAGATGTCATATTCT
1 TAATGTTTATTTATTTTTAATATCAAAGAAAATGG-AGTCTTAAA-TAACTGGATGTCATATTCT
14161542 TGTATTTTAAAAATAAATAAATATC
64 TGTATTTTAAAAATAAATAAATATC
14161567 ATACTTATAA
Statistics
Matches: 204, Mismatches: 23, Indels: 34
0.78 0.09 0.13
Matches are distributed among these distances:
148 13 0.06
149 29 0.14
150 12 0.06
151 23 0.11
153 3 0.01
154 15 0.07
155 35 0.17
156 16 0.08
157 45 0.22
158 13 0.06
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.45
Consensus pattern (149 bp):
TAATGTTTATTTATTTTTAATATCAAAGAAAATGGAGTCTTAAATAACTGGATGTCATATTCTTG
TATTTTAAAAATAAATAAATATCTATAAAAATCATAATTATATTTACTTAAATTATTTTTTGTTA
AGAAAAATCATTATACTTT
Found at i:14162757 original size:5 final size:5
Alignment explanation
Indices: 14162743--14162776 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
14162733 AAGCTCTAGC
*
14162743 TTTTA ATTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
14162777 CTTCTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:14171407 original size:22 final size:22
Alignment explanation
Indices: 14171350--14171407 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
14171340 TACATCTACA
* *
14171350 CTCTTCAAAGATAATAGATTTT
1 CTCTTCAAAGATGATAGATTCT
*
14171372 CTCTTCAAATATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
*
14171394 CTTTTCAAAGATGA
1 CTCTTCAAAGATGA
14171408 AAGCATAGGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (22 bp):
CTCTTCAAAGATGATAGATTCT
Found at i:14172889 original size:3 final size:3
Alignment explanation
Indices: 14172871--14172969 Score: 125
Period size: 3 Copynumber: 34.0 Consensus size: 3
14172861 CATTTGTTTT
* * *
14172871 TTA TTT TTA ATA TTA TTA TTA ATA TTA TTA TTA TT- TTA TT- TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
*
14172915 CTA TT- TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14172961 TTA TTA TTA
1 TTA TTA TTA
14172970 CAAACAAGCC
Statistics
Matches: 83, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
2 7 0.08
3 76 0.92
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:14175498 original size:19 final size:19
Alignment explanation
Indices: 14175474--14175513 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
14175464 CGTAGGTAAA
14175474 AATCAAAGATTTACGGAGT
1 AATCAAAGATTTACGGAGT
14175493 AATCAAAGATTTACGGAGT
1 AATCAAAGATTTACGGAGT
14175512 AA
1 AA
14175514 GGAGTGCAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (19 bp):
AATCAAAGATTTACGGAGT
Found at i:14178776 original size:55 final size:55
Alignment explanation
Indices: 14178612--14179207 Score: 804
Period size: 55 Copynumber: 10.9 Consensus size: 55
14178602 TATACTGTAG
* * * * * *
14178612 TTCATCAACTCATGATGAATAT-CGTGG-GTTGTACATATCGTGCCTATACGGTTA
1 TTCATCAACTCATGATGAAT-TCCGTGGATTTGCACACATAGTGCCTGTATGGTTA
* * *
14178666 TTCATCAACTCATGATGAATT-CGTGGATTTGCAGACATAGTGCATGTACGGTTA
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTATGGTTA
* * *
14178720 TTCATCAACTCTTGATGAATTCCGTGGATTTGCACAGATAGTGCCTGTATGATTA
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTATGGTTA
* ** * * *
14178775 TTCATCAACTCATAATGAATTTTGTAGATTTGCACACGTAGTGCTTGTATGGTTA
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTATGGTTA
* * ***
14178830 TTCATCAACTCATTATGAATTCCGTGGATTTGAACACATAGTTATTGTATGGTTA
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTATGGTTA
* * * *
14178885 TTCATCAACTTATGATGAATTTCGTGGATTTGCACACATAGTGTCTGTATAGTTA
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTATGGTTA
14178940 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCT-TATGGTTA
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTATGGTTA
* * *
14178994 TTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGCATGTACGGTTA
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTATGGTTA
* * * *
14179049 TTCATCAACTCATGATGAATTCCGTAGATTTGCATACGTAGTGTCTGTATGGTTA
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTATGGTTA
* * *
14179104 TTCATCAACTCATGATGAATTCCATGGATTTGCACACATAGTGCCTATACGGTTA
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTATGGTTA
* *
14179159 TTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGCATGTA
1 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTA
14179208 GTGCACTTAG
Statistics
Matches: 476, Mismatches: 63, Indels: 5
0.88 0.12 0.01
Matches are distributed among these distances:
53 6 0.01
54 111 0.23
55 359 0.75
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.36
Consensus pattern (55 bp):
TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTGTATGGTTA
Found at i:14179160 original size:274 final size:274
Alignment explanation
Indices: 14178587--14179202 Score: 864
Period size: 274 Copynumber: 2.3 Consensus size: 274
14178577 TTTATTAAGA
* * * * * *
14178587 TGCACA-ACTAGTGTCTATACTG-TAGTTCATCAACTCATGATGAATATCGTGG-GTTGTACATA
1 TGCACACA-TAGTGACTATACGGTTA-TTCATCAACTCATGATGAATTTCGTGGATTTGCACACA
* * *
14178649 TCGTGCCTATACGGTTATTCATCAACTCATGATGAATTCGTGGATTTGCAGACATAGTGCATGTA
64 TAGTGCCTATACAGTTATTCATCAACTCATGATGAATTCGTGGATTTGCACACATAGTGCATGTA
* * * *
14178714 CGGTTATTCATCAACTCTTGATGAATTCCGTGGATTTGCACAGATAGTGCCTGTATGATTATTCA
129 CGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGATTATTCA
** *
14178779 TCAACTCATAATGAATTTTGTAGATTTGCACACGTAGTGCTTGTATGGTTATTCATCAACTCATT
194 TCAACTCATAATGAATTCCGTAGATTTGCACACGTAGTGCTTGTATGGTTATTCATCAACTCATG
*
14178844 ATGAATTCCGTGGATT
259 ATGAATTCCATGGATT
* * * * * *
14178860 TGAACACATAGTTATTGTATGGTTATTCATCAACTTATGATGAATTTCGTGGATTTGCACACATA
1 TGCACACATAGTGACTATACGGTTATTCATCAACTCATGATGAATTTCGTGGATTTGCACACATA
* * * * *
14178925 GTGTCTGTATAGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCT-TAT
66 GTGCCTATACAGTTATTCATCAACTCATGATGAATT-CGTGGATTTGCACACATAGTGCATGTAC
* *
14178989 GGTTATTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGCATGTACGGTTATTCAT
130 GGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGATTATTCAT
* *
14179054 CAACTCATGATGAATTCCGTAGATTTGCATACGTAGTG-TCTGTATGGTTATTCATCAACTCATG
195 CAACTCATAATGAATTCCGTAGATTTGCACACGTAGTGCT-TGTATGGTTATTCATCAACTCATG
14179118 ATGAATTCCATGGATT
259 ATGAATTCCATGGATT
*
14179134 TGCACACATAGTGCCTATACGGTTATTCATCAACTCATGATGAATTTCGTGGATTTGCACACATA
1 TGCACACATAGTGACTATACGGTTATTCATCAACTCATGATGAATTTCGTGGATTTGCACACATA
14179199 GTGC
66 GTGC
14179203 ATGTAGTGCA
Statistics
Matches: 298, Mismatches: 40, Indels: 9
0.86 0.12 0.03
Matches are distributed among these distances:
273 39 0.13
274 237 0.80
275 22 0.07
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (274 bp):
TGCACACATAGTGACTATACGGTTATTCATCAACTCATGATGAATTTCGTGGATTTGCACACATA
GTGCCTATACAGTTATTCATCAACTCATGATGAATTCGTGGATTTGCACACATAGTGCATGTACG
GTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGATTATTCATC
AACTCATAATGAATTCCGTAGATTTGCACACGTAGTGCTTGTATGGTTATTCATCAACTCATGAT
GAATTCCATGGATT
Found at i:14185704 original size:55 final size:55
Alignment explanation
Indices: 14185567--14186022 Score: 517
Period size: 55 Copynumber: 8.3 Consensus size: 55
14185557 TTTATTAAGA
** * * *
14185567 TGCACACGCAGTGCCTATACGG-TAGTTCATCAACTAATGATGAATT-TCGTGG-GT
1 TGCACACATAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTAT-GTGGATT
* * * * *
14185621 TGTACATATCGTGCCTGTACGGTTATTCATCAACTCCTAATGAATTATGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTATGTGGATT
**
14185676 TGCACACATAGTGCCTGTACAATTATTCATCAACTCATGATGAATTATGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTATGTGGATT
* ***
14185731 TGCACACAT-GATGCCTGCACGGTTATTCATCAACTCATGATGAATTCCATGGATT
1 TGCACACATAG-TGCCTGTACGGTTATTCATCAACTCATGATGAATTATGTGGATT
* * * * *
14185786 TGCACACATAGTGCATGTACGATTATTCATCAACTCATGATAAATTCTGTGAATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTATGTGGATT
* * *
14185841 TGTACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATT-TCGTGAATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTAT-GTGGATT
* * * *
14185896 TGCACACATAGTGCATGTACAGTTATTCATCAACTTATGATAAATTATGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTATGTGGATT
* * * * **
14185951 TGCACACATAGTGCCTGTATGGTTACTCATTACCTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTATGTGGATT
**
14186006 TGCGTACATAGTGCCTG
1 TGCACACATAGTGCCTG
14186023 CAGTGCACTT
Statistics
Matches: 345, Mismatches: 50, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
54 40 0.12
55 303 0.88
56 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (55 bp):
TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTATGTGGATT
Found at i:14187172 original size:81 final size:81
Alignment explanation
Indices: 14187036--14187227 Score: 330
Period size: 81 Copynumber: 2.4 Consensus size: 81
14187026 ATGGATTCCA
* *
14187036 AAATGCCTTTGAGTAAAAGATTAAATGCCTAACTGTGCATTTGGTATAAAGGTGCCAATCATGGT
1 AAATGCCTTTGAGTAAAAGATTAAATGCCTAACTGTGCATTTGGTAGAAAGGTGCCAATCATGCT
14187101 AGCTAGATGAAAGGTT
66 AGCTAGATGAAAGGTT
* *
14187117 AAATGCCTTTGTGTAAAAGATTAAATGCCTAACTGTGCATTTGGTAGAAATGTGCCAATCATGCT
1 AAATGCCTTTGAGTAAAAGATTAAATGCCTAACTGTGCATTTGGTAGAAAGGTGCCAATCATGCT
*
14187182 AGTTAGATGAAAGGTT
66 AGCTAGATGAAAGGTT
*
14187198 AAATTCCTTTGAGTAAAAGATTAAATGCCT
1 AAATGCCTTTGAGTAAAAGATTAAATGCCT
14187228 TTTAGTAAAA
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 104 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.31
Consensus pattern (81 bp):
AAATGCCTTTGAGTAAAAGATTAAATGCCTAACTGTGCATTTGGTAGAAAGGTGCCAATCATGCT
AGCTAGATGAAAGGTT
Found at i:14187221 original size:22 final size:22
Alignment explanation
Indices: 14187191--14187249 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
14187181 TAGTTAGATG
* *
14187191 AAAGGTTAAATTCCTTTGAGTA
1 AAAGATTAAATGCCTTTGAGTA
*
14187213 AAAGATTAAATGCCTTTTAGTA
1 AAAGATTAAATGCCTTTGAGTA
14187235 AAAGATTAAATGCCT
1 AAAGATTAAATGCCT
14187250 AACTGTGCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (22 bp):
AAAGATTAAATGCCTTTGAGTA
Found at i:14187240 original size:103 final size:103
Alignment explanation
Indices: 14187110--14187330 Score: 354
Period size: 103 Copynumber: 2.1 Consensus size: 103
14187100 TAGCTAGATG
* * *
14187110 AAAGGTTAAATGCCTTTGTGTAAAAGATTAAATGCCTAACTGTGCATTTGGTAGAAATGTGCCAA
1 AAAGATTAAATGCCTTTGTGTAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAAGTGCCAA
*
14187175 TCATGCTAGTTAGATGAAAGGTTAAATTCCTTTGAGTA
66 TCATGCTAGTTAGATGAAAGGTTAAATGCCTTTGAGTA
*
14187213 AAAGATTAAATGCCTTT-TAGTAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAAGTGTCA
1 AAAGATTAAATGCCTTTGT-GTAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAAGTGCCA
* *
14187277 ATCATGCTAGTTATATGAAAGGTTAAATGCCTTTGGGTA
65 ATCATGCTAGTTAGATGAAAGGTTAAATGCCTTTGAGTA
*
14187316 AAATATTAAATGCCT
1 AAAGATTAAATGCCT
14187331 AATTATGCAT
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
102 1 0.01
103 108 0.99
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.33
Consensus pattern (103 bp):
AAAGATTAAATGCCTTTGTGTAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAAGTGCCAA
TCATGCTAGTTAGATGAAAGGTTAAATGCCTTTGAGTA
Found at i:14187304 original size:81 final size:81
Alignment explanation
Indices: 14187213--14187408 Score: 241
Period size: 81 Copynumber: 2.4 Consensus size: 81
14187203 CCTTTGAGTA
* * * *
14187213 AAAGATTAAATGCCTTTTAGTAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAAGTGTCAA
1 AAAGGTTAAATGCCTTTGAGTAAAAGATTAAATGCCTAACTATGCATTTGGCAGAAAAGTATCAA
* * * *
14187278 TCATGCTAGTTATATG
66 TAATGCAAGTTAGACG
* * * * *
14187294 AAAGGTTAAATGCCTTTGGGTAAAATATTAAATGCCTAATTATGCATTTGGTAGAAAGGTATCAA
1 AAAGGTTAAATGCCTTTGAGTAAAAGATTAAATGCCTAACTATGCATTTGGCAGAAAAGTATCAA
14187359 TAATGCAAGTTAGACG
66 TAATGCAAGTTAGACG
* *
14187375 AAAGGTTAAATGCCTTTAGAG-GAAAGAATAAATG
1 AAAGGTTAAATGCCTTT-GAGTAAAAGATTAAATG
14187409 TTTAATAGTG
Statistics
Matches: 97, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
81 95 0.98
82 2 0.02
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.30
Consensus pattern (81 bp):
AAAGGTTAAATGCCTTTGAGTAAAAGATTAAATGCCTAACTATGCATTTGGCAGAAAAGTATCAA
TAATGCAAGTTAGACG
Found at i:14187345 original size:184 final size:184
Alignment explanation
Indices: 14187036--14187408 Score: 541
Period size: 184 Copynumber: 2.0 Consensus size: 184
14187026 ATGGATTCCA
* * * *
14187036 AAATGCCTTTGAGTAAAAGATTAAATGCCTAACTGTGCATTTGGTATAAAGGTGCCAATCATGGT
1 AAATGCCTTTGAGTAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAAGTGCCAATCATGCT
* *
14187101 AGCTAGATGAAAGGTTAAATGCCTTTGTGTAAAAGATTAAATGCCTAACTGTGCATTTGGTAGAA
66 AGCTAGATGAAAGGTTAAATGCCTTTGGGTAAAAGATTAAATGCCTAACTATGCATTTGGTAGAA
* * * * * * *
14187166 ATGTGCCAATCATGCTAGTTAGATGAAAGGTTAAATTCCTTT-GAGTAAAAGATT
131 AGGTACCAATAATGCAAGTTAGACGAAAGGTTAAATGCCTTTAGAG-AAAAGAAT
* *
14187220 AAATGCCTTTTAGTAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAAGTGTCAATCATGCT
1 AAATGCCTTTGAGTAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAAGTGCCAATCATGCT
* * * *
14187285 AGTTATATGAAAGGTTAAATGCCTTTGGGTAAAATATTAAATGCCTAATTATGCATTTGGTAGAA
66 AGCTAGATGAAAGGTTAAATGCCTTTGGGTAAAAGATTAAATGCCTAACTATGCATTTGGTAGAA
* *
14187350 AGGTATCAATAATGCAAGTTAGACGAAAGGTTAAATGCCTTTAGAGGAAAGAAT
131 AGGTACCAATAATGCAAGTTAGACGAAAGGTTAAATGCCTTTAGAGAAAAGAAT
14187404 AAATG
1 AAATG
14187409 TTTAATAGTG
Statistics
Matches: 167, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
184 164 0.98
185 3 0.02
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (184 bp):
AAATGCCTTTGAGTAAAAGATTAAATGCCTAACTGTGCATTTGGCAGAAAAGTGCCAATCATGCT
AGCTAGATGAAAGGTTAAATGCCTTTGGGTAAAAGATTAAATGCCTAACTATGCATTTGGTAGAA
AGGTACCAATAATGCAAGTTAGACGAAAGGTTAAATGCCTTTAGAGAAAAGAAT
Found at i:14195621 original size:15 final size:16
Alignment explanation
Indices: 14195598--14195631 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
14195588 TATCGTTTTT
*
14195598 TTAATTCTGAA-TTAA
1 TTAAATCTGAATTTAA
14195613 TTAAATCTGAATTTAA
1 TTAAATCTGAATTTAA
14195629 TTA
1 TTA
14195632 TTCTAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (16 bp):
TTAAATCTGAATTTAA
Found at i:14200092 original size:38 final size:38
Alignment explanation
Indices: 14200050--14200126 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
14200040 TGTACTCTTT
*
14200050 AAAACTTTCTTCTCTAGAAGTCTTTTGATGTTTGTATC
1 AAAACTTTCTTCTCTAGAAGTCTTTCGATGTTTGTATC
14200088 AAAACTTTCTTCTCTAGAAGTCTTTCGATGTTTGTATC
1 AAAACTTTCTTCTCTAGAAGTCTTTCGATGTTTGTATC
14200126 A
1 A
14200127 GAGTTTGATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (38 bp):
AAAACTTTCTTCTCTAGAAGTCTTTCGATGTTTGTATC
Found at i:14213764 original size:17 final size:18
Alignment explanation
Indices: 14213747--14213785 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
14213737 TATATAATTA
14213747 AATTTAG-AAT-ATTTTT
1 AATTTAGTAATAATTTTT
14213763 AATTTAGTAATAATTTTT
1 AATTTAGTAATAATTTTT
*
14213781 TATTT
1 AATTT
14213786 TTTATTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 3 0.15
18 10 0.50
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
AATTTAGTAATAATTTTT
Found at i:14216977 original size:55 final size:55
Alignment explanation
Indices: 14216903--14217202 Score: 442
Period size: 55 Copynumber: 5.5 Consensus size: 55
14216893 AAGTGTGCAA
*
14216903 AAACTTAAGAAATTCATACTAAGTGGATGGATTTCCGTATGGGCACTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
* * * *
14216958 AAACTAAAGAAATTAATACTAAGTGGGTGAATTTCCGTATGGGCACTTTATATGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
* *
14217013 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGCATGGGCACCTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
*
14217068 AAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
** * * * *
14217123 AAACTTAAGAAATT-ATACTAAGTGGATGAATTTATGTATGGGTAGTTTATGCGCA
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTG-T
14217178 AAAC-TAAGAAATTTCATACTAAGTG
1 AAACTTAAGAAA-TTCATACTAAGTG
14217203 TATATATATT
Statistics
Matches: 222, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
54 41 0.18
55 171 0.77
56 10 0.05
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (55 bp):
AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
Found at i:14227195 original size:35 final size:37
Alignment explanation
Indices: 14227119--14227196 Score: 124
Period size: 37 Copynumber: 2.2 Consensus size: 37
14227109 ACCTCCGATT
*
14227119 TTGGTCTCTAGCTCAGTTGTTTGGAGAGAATACGCTT
1 TTGGTCTCTAGCTCAGTTGTTTGGAGAGAATACGCTC
*
14227156 TTGGTCTCTAGCTCATTTGTTT-G-GAGAATACGCTC
1 TTGGTCTCTAGCTCAGTTGTTTGGAGAGAATACGCTC
14227191 TTGGTC
1 TTGGTC
14227197 GCTCTGGGTC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
35 17 0.44
36 1 0.03
37 21 0.54
ACGTcount: A:0.17, C:0.18, G:0.26, T:0.40
Consensus pattern (37 bp):
TTGGTCTCTAGCTCAGTTGTTTGGAGAGAATACGCTC
Found at i:14229704 original size:57 final size:57
Alignment explanation
Indices: 14229643--14230189 Score: 752
Period size: 57 Copynumber: 9.5 Consensus size: 57
14229633 GTGAAAAATA
*
14229643 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
* *
14229700 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCATACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
* * **
14229757 TGAGAAATCATACTAAGTGTAAGAATTTCAGATAGGGTGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
* *
14229814 TAAGAAATCATACTAAGTGTATGAACTTCAGATAGGGCATTTCGTACGCTAGAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
*
14229871 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACACTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
* * *
14229928 TAATAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTTGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
* * * *
14229985 GAAGAAATCATACTAAGTGTATGAATTTCAAATAGGACATTTCGTACGCTAAAATGA
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
* * * ** * *
14230042 TAAGGAAATCATACTAAATGTTTGAATTTCCAGATAGGGCACTTCGTGTGCTAACATGA
1 TAA-GAAATCATACTAAGTGTATGAATTT-CAGATAGGGCATTTCGTACGCTAAAATGT
* * * *** * *
14230101 TAAGGAAATCATACTAAATGTATGAATTTTCAGATAGGGCACTTCTTGTTCTAACATGA
1 TAA-GAAATCATACTAAGTGTATGAA-TTTCAGATAGGGCATTTCGTACGCTAAAATGT
*
14230160 TAAGAAATTCATGCTAAGTGTATGAATTTC
1 TAAGAAA-TCATACTAAGTGTATGAATTTC
14230190 TGTATTGGAC
Statistics
Matches: 447, Mismatches: 39, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
57 319 0.71
58 31 0.07
59 94 0.21
60 3 0.01
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (57 bp):
TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
Found at i:14230682 original size:81 final size:81
Alignment explanation
Indices: 14230541--14230694 Score: 202
Period size: 81 Copynumber: 1.9 Consensus size: 81
14230531 GATGGCCTAG
* * * **
14230541 CTGTGCAATTGATAGAAAAGTGTCAATTATGCCAGTTAGATTAATGGTTAAGTACCGTTGAATAA
1 CTGTGCAATTGACAGAAAAGTGTCAATTATGCCAGTTAGATAAAGGGTTAAACACCGTTGAATAA
14230606 AAGAATAATGGTTTAA
66 AAGAATAATGGTTTAA
* * * *
14230622 CTGTGCATTTGACAG-AAAGATGTCAATTATGCCAGTTAGCTAAAGGGTTAAACACTGTTGAGTA
1 CTGTGCAATTGACAGAAAAG-TGTCAATTATGCCAGTTAGATAAAGGGTTAAACACCGTTGAATA
*
14230686 AGAGAATAA
65 AAAGAATAA
14230695 AGGAATTTGA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
80 4 0.06
81 58 0.94
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (81 bp):
CTGTGCAATTGACAGAAAAGTGTCAATTATGCCAGTTAGATAAAGGGTTAAACACCGTTGAATAA
AAGAATAATGGTTTAA
Found at i:14230755 original size:2 final size:2
Alignment explanation
Indices: 14230748--14230806 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
14230738 TGAAGGGATA
14230748 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14230790 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
14230807 ATGTATAACC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14235353 original size:59 final size:57
Alignment explanation
Indices: 14235054--14235435 Score: 460
Period size: 57 Copynumber: 6.6 Consensus size: 57
14235044 TTAAATGTGC
* *
14235054 AAAAT-ATAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCATACGCT
1 AAAATGATAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCT
* *
14235110 AAAATGTTAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCT
1 AAAATGATAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCT
* * *
14235167 AAAATGTTGAGAAATCATACTAAGTGTATGAATTTCAGATAGGACATTTCGTACGCT
1 AAAATGATAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCT
* * * * *
14235224 AAAATGTTAATAAATCATACTAAGTGTATGAATTTCAAATAAGGCATTTCGTAAGCT
1 AAAATGATAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCT
* * * **
14235281 AAAATGATAAGGAAATCTTACTAAATGTATGAATTTCCAGATAGGGTATTTCGTGTGCT
1 AAAATGATAA-GAAATCATACTAAGTGTATGAATTT-CAGATAGGGCATTTCGTACGCT
* * * * * ***
14235340 AACATGATAAGGAAATCATACTAAATGTATGAATTTCCAGATAAGGTACTTCGTGTTCT
1 AAAATGATAA-GAAATCATACTAAGTGTATGAATTT-CAGATAGGGCATTTCGTACGCT
* *
14235399 AACATGATAAAAAAATTCATACTAAGTGTATGAATTT
1 AAAATGAT-AAGAAA-TCATACTAAGTGTATGAATTT
14235436 TTGAATTGGA
Statistics
Matches: 294, Mismatches: 27, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
56 5 0.02
57 163 0.55
58 22 0.07
59 82 0.28
60 22 0.07
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.32
Consensus pattern (57 bp):
AAAATGATAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCT
Found at i:14240528 original size:21 final size:23
Alignment explanation
Indices: 14240477--14240529 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
14240467 AGTCGAGGGT
*
14240477 ACTATGTGATCCTTTGGGACAAA
1 ACTATGTGGTCCTTTGGGACAAA
14240500 ACTATGTGGTCCTTTGGGAC-AA
1 ACTATGTGGTCCTTTGGGACAAA
14240522 A-TATGTGG
1 ACTATGTGG
14240530 CACTTCGGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 7 0.24
22 3 0.10
23 19 0.66
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (23 bp):
ACTATGTGGTCCTTTGGGACAAA
Found at i:14246381 original size:25 final size:26
Alignment explanation
Indices: 14246336--14246387 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
14246326 GCTATTTTTT
* *
14246336 AAAAACAAAAAACAAAAAAAGGCAAA
1 AAAAAAAAAAAACAAAAAAAGCCAAA
14246362 AAAAAAAAAAAAC-AAAAAAGCCAAA
1 AAAAAAAAAAAACAAAAAAAGCCAAA
14246387 A
1 A
14246388 TTTCAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.83, C:0.12, G:0.06, T:0.00
Consensus pattern (26 bp):
AAAAAAAAAAAACAAAAAAAGCCAAA
Found at i:14250722 original size:23 final size:22
Alignment explanation
Indices: 14250684--14250726 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
14250674 CAATTCCTCT
14250684 ATCTTTTCTTTATCTTGTTTTA
1 ATCTTTTCTTTATCTTGTTTTA
*
14250706 ATCTTATTTTTTATCTTGTTT
1 ATCTT-TTCTTTATCTTGTTT
14250727 CCAGCACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.70
Consensus pattern (22 bp):
ATCTTTTCTTTATCTTGTTTTA
Found at i:14259504 original size:15 final size:15
Alignment explanation
Indices: 14259484--14259515 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14259474 AAATACGTCC
*
14259484 ACTGAAATACTCGAG
1 ACTGAAATACTCAAG
14259499 ACTGAAATACTCAAG
1 ACTGAAATACTCAAG
14259514 AC
1 AC
14259516 GTACTCTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.19
Consensus pattern (15 bp):
ACTGAAATACTCAAG
Found at i:14261225 original size:2 final size:2
Alignment explanation
Indices: 14261218--14261243 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14261208 CATTTAAAAC
14261218 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
14261244 TATTTATTCA
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:14262160 original size:20 final size:20
Alignment explanation
Indices: 14262135--14262186 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
14262125 TGTTGATAGA
* *
14262135 GGTATCGATACCAT-CAGGGT
1 GGTATCGATACC-TGAAGGAT
14262155 GGTATCGATACCTGAAGGAT
1 GGTATCGATACCTGAAGGAT
14262175 GGTATCGATACC
1 GGTATCGATACC
14262187 CTTAAAACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (20 bp):
GGTATCGATACCTGAAGGAT
Found at i:14262242 original size:54 final size:53
Alignment explanation
Indices: 14262154--14262296 Score: 178
Period size: 54 Copynumber: 2.6 Consensus size: 53
14262144 ACCATCAGGG
*
14262154 TGGTATCGATACCTGAAGGATGGTATCGATACCCTTAAAACATCGAATGTAATTT
1 TGGTATCGGTACCTG-AGGA-GGTATCGATACCCTTAAAACATCGAATGTAATTT
* * *
14262209 TGGTATCGGTACCTTGAGGAGGTATCAATACCCTTGAAACATCGAATGTAGTTT
1 TGGTATCGGTACC-TGAGGAGGTATCGATACCCTTAAAACATCGAATGTAATTT
* * * * *
14262263 CGATATCGGTACATGTGGAGGTATTGATACCCTT
1 TGGTATCGGTACCTGAGGAGGTATCGATACCCTT
14262297 GAAGTGGGTG
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 18 0.23
54 41 0.53
55 16 0.21
56 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (53 bp):
TGGTATCGGTACCTGAGGAGGTATCGATACCCTTAAAACATCGAATGTAATTT
Found at i:14262848 original size:23 final size:22
Alignment explanation
Indices: 14262821--14262895 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 22
14262811 TCGGGACAAT
14262821 TATATGGCACTTCGATGCAACCC
1 TATATGGCACTTCG-TGCAACCC
*
14262844 TATATGGCACTTCCGTGCAGCCC
1 TATATGGCACTT-CGTGCAACCC
* * *
14262867 TATGTGACACTTCGGTGCAA-AC
1 TATATGGCACTTC-GTGCAACCC
14262889 TATATGG
1 TATATGG
14262896 TTCTCCGGGA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
22 7 0.16
23 34 0.79
24 2 0.05
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (22 bp):
TATATGGCACTTCGTGCAACCC
Found at i:14269165 original size:54 final size:53
Alignment explanation
Indices: 14269086--14269208 Score: 131
Period size: 54 Copynumber: 2.3 Consensus size: 53
14269076 TGAAGGATGT
* * * * * *
14269086 TATCGATACTCTTTAAACATTGAATGTAATATT-GATATCGGTACCTTGAGGAGG
1 TATCGATACCCTTGAAACATCGAATGTAAT-TTCGATATCGAT-CCATGAAGAGG
* * * *
14269140 TATCGATACCCTTGAAATATCGAATGTAGTTTCGATATTGATGCATGAAGAGG
1 TATCGATACCCTTGAAACATCGAATGTAATTTCGATATCGATCCATGAAGAGG
14269193 TATCGATACCCTTGAA
1 TATCGATACCCTTGAA
14269209 GGGGGTGGTA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
53 26 0.45
54 32 0.55
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (53 bp):
TATCGATACCCTTGAAACATCGAATGTAATTTCGATATCGATCCATGAAGAGG
Found at i:14269803 original size:23 final size:21
Alignment explanation
Indices: 14269753--14269860 Score: 80
Period size: 21 Copynumber: 5.0 Consensus size: 21
14269743 AGTAGAGGGT
14269753 CTATGTGGTC-CTTCGG-GACAA
1 CTATGTGG-CACTTCGGTG-CAA
*
14269774 TTATGTGGCACTTCGGTGCAA
1 CTATGTGGCACTTCGGTGCAA
* *
14269795 CCCTATGTGGCATTTCAGTGCAAA
1 --CTATGTGGCACTTCGGTGC-AA
*
14269819 CTATTTGGTCA-TTCGG-GACAA
1 CTATGTGG-CACTTCGGTG-CAA
*
14269840 TTATGTGGCACTTCGGTGCAA
1 CTATGTGGCACTTCGGTGCAA
14269861 ATTACGAGAT
Statistics
Matches: 70, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
20 3 0.04
21 33 0.47
22 14 0.20
23 18 0.26
24 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (21 bp):
CTATGTGGCACTTCGGTGCAA
Found at i:14275359 original size:26 final size:26
Alignment explanation
Indices: 14275304--14275361 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
14275294 TTTCTTTTCT
* *
14275304 TTTCTTCTTTTTCTGAGTGCTTGATT
1 TTTCTTCTTTTTCTGAGTGCTTCATA
14275330 TTTCTTCTTCTTT-TGGAGTGCTTCA-A
1 TTTCTTCTT-TTTCT-GAGTGCTTCATA
14275356 TTTCTT
1 TTTCTT
14275362 TTGCTAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 16 0.57
27 12 0.43
ACGTcount: A:0.09, C:0.17, G:0.14, T:0.60
Consensus pattern (26 bp):
TTTCTTCTTTTTCTGAGTGCTTCATA
Found at i:14284046 original size:2 final size:2
Alignment explanation
Indices: 14284039--14284067 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14284029 AAAGAATAAT
14284039 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14284068 TATTCATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14297271 original size:2 final size:2
Alignment explanation
Indices: 14297264--14297293 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14297254 ATTCTATCGT
14297264 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
14297294 CTTTTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14297348 original size:16 final size:15
Alignment explanation
Indices: 14297311--14297384 Score: 60
Period size: 16 Copynumber: 4.7 Consensus size: 15
14297301 ATTCTTTTTC
*
14297311 ATATATCATTATTATTT
1 ATATAT-ATTTTTA-TT
14297328 ATATATATTTTTATT
1 ATATATATTTTTATT
* *
14297343 ACTATA-ATTATATGTT
1 A-TATATATT-TTTATT
14297359 ATATATATTTATTATT
1 ATATATATTT-TTATT
*
14297375 TTATATATTT
1 ATATATATTT
14297385 CATTTTATCT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
15 11 0.23
16 30 0.64
17 6 0.13
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (15 bp):
ATATATATTTTTATT
Found at i:14297407 original size:15 final size:15
Alignment explanation
Indices: 14297387--14297418 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14297377 ATATATTTCA
*
14297387 TTTTATCTTTTATTT
1 TTTTATCTTCTATTT
14297402 TTTTATCTTCTATTT
1 TTTTATCTTCTATTT
14297417 TT
1 TT
14297419 ATTTTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTATCTTCTATTT
Found at i:14297435 original size:20 final size:20
Alignment explanation
Indices: 14297388--14297441 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
14297378 TATATTTCAT
*
14297388 TTTATCTTTTATTTTTTTATC
1 TTTAT-TTTTATTTTTGTATC
14297409 TTCTATTTTTATTTTTGTAT-
1 TT-TATTTTTATTTTTGTATC
*
14297429 TGTTATTGTTATT
1 T-TTATTTTTATT
14297442 ATCTTCTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 10 0.34
21 16 0.55
22 3 0.10
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.74
Consensus pattern (20 bp):
TTTATTTTTATTTTTGTATC
Found at i:14298544 original size:10 final size:9
Alignment explanation
Indices: 14298526--14298550 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14298516 TTTTCTTTCG
14298526 TTATTTTTT
1 TTATTTTTT
14298535 TTATTTTTT
1 TTATTTTTT
14298544 TTATTTT
1 TTATTTT
14298551 ACTAATCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTATTTTTT
Found at i:14307692 original size:18 final size:17
Alignment explanation
Indices: 14307683--14307721 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
14307673 AAAAATTGAA
14307683 AAAAAAGAAAAAAGAAC
1 AAAAAAGAAAAAAGAAC
*
14307700 AAAAAAG-AGAAAGAAC
1 AAAAAAGAAAAAAGAAC
14307716 AAAAAA
1 AAAAAA
14307722 TAAGGTGGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.82, C:0.05, G:0.13, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAAAAGAAC
Found at i:14308878 original size:110 final size:110
Alignment explanation
Indices: 14308680--14308883 Score: 327
Period size: 110 Copynumber: 1.9 Consensus size: 110
14308670 GCTTCCCAGT
* *
14308680 TTCAGAGCCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
* *
14308745 CAACGAAGGGGCGACTGATTGTCAACAAAGAACTTTTCAGTTTCA
66 CAACGAAAGGGCGACTGACTGTCAACAAAGAACTTTTCAGTTTCA
* *
14308790 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
** *
14308855 CAGTGAAAGGGCGGCTGACTGTCAACAAA
66 CAACGAAAGGGCGACTGACTGTCAACAAA
14308884 CAATTTTAAG
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
110 85 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.22
Consensus pattern (110 bp):
TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
CAACGAAAGGGCGACTGACTGTCAACAAAGAACTTTTCAGTTTCA
Found at i:14310308 original size:2 final size:2
Alignment explanation
Indices: 14310303--14310327 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14310293 TTATTCTTAT
14310303 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
14310328 TAATTATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14310393 original size:2 final size:2
Alignment explanation
Indices: 14310386--14310419 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
14310376 ATTCTATCGT
14310386 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
14310420 CTTTTAATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14310460 original size:19 final size:18
Alignment explanation
Indices: 14310392--14310509 Score: 70
Period size: 20 Copynumber: 6.5 Consensus size: 18
14310382 TCGTTATATA
*
14310392 TATATATATATATATATATA
1 TATATATATAT-TAT-TATT
* *
14310412 TATATATACTTTTAATTCTT
1 TATATATA-TATT-ATTATT
*
14310432 TTTCATATATCATTATTATT
1 TAT-ATATAT-ATTATTATT
14310452 TATATATATA-T-TTA-T
1 TATATATATATTATTATT
*
14310467 TA-CTATA-ATTA-TATGT
1 TATATATATATTATTAT-T
14310483 TATATATATATTTATTATT
1 TATATATATA-TTATTATT
14310502 T-TATATAT
1 TATATATAT
14310510 TTCATTTTAT
Statistics
Matches: 77, Mismatches: 9, Indels: 26
0.69 0.08 0.23
Matches are distributed among these distances:
13 1 0.01
14 7 0.09
15 3 0.04
16 6 0.08
17 5 0.06
18 9 0.12
19 11 0.14
20 24 0.31
21 11 0.14
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (18 bp):
TATATATATATTATTATT
Found at i:14310546 original size:13 final size:14
Alignment explanation
Indices: 14310514--14310544 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
14310504 ATATATTTCA
*
14310514 TTTTATCTTTTATT
1 TTTTATCTTCTATT
14310528 TTTTATCTTCTATT
1 TTTTATCTTCTATT
14310542 TTT
1 TTT
14310545 ATTTTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATCTTCTATT
Done.