Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008397.1 Hibiscus syriacus cultivar Beakdansim tig00111166_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: 2560905
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 13
Found at i:2015886 original size:21 final size:21
Alignment explanation
Indices: 2015860--2015912 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
2015850 CGTGTGACAC
2015860 CTAGCTAGCTACCTAAGCTAA
1 CTAGCTAGCTACCTAAGCTAA
* *
2015881 CTAGCTAGCTACCTAAGTTAC
1 CTAGCTAGCTACCTAAGCTAA
2015902 CTAGCTAGCTA
1 CTAGCTAGCTA
2015913 AGTAACCTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (21 bp):
CTAGCTAGCTACCTAAGCTAA
Found at i:2015905 original size:17 final size:17
Alignment explanation
Indices: 2015864--2015921 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
2015854 TGACACCTAG
2015864 CTAGCTACCTAAGCTAAC
1 CTAGCTACCTAAG-TAAC
*
2015882 TAGCTAGCTACCTAAGTTAC
1 ---CTAGCTACCTAAGTAAC
*
2015902 CTAGCTAGCTAAGTAAC
1 CTAGCTACCTAAGTAAC
2015919 CTA
1 CTA
2015922 CTAAGCTACC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 18 0.53
20 3 0.09
21 13 0.38
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.26
Consensus pattern (17 bp):
CTAGCTACCTAAGTAAC
Found at i:2016682 original size:16 final size:17
Alignment explanation
Indices: 2016636--2016674 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
2016626 CATACCAACG
2016636 CCCAAATCATTTCACAA
1 CCCAAATCATTTCACAA
*
2016653 CCCAAATCATTTCACAG
1 CCCAAATCATTTCACAA
2016670 CCCAA
1 CCCAA
2016675 CTATTTCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.38, C:0.38, G:0.03, T:0.21
Consensus pattern (17 bp):
CCCAAATCATTTCACAA
Found at i:2017804 original size:23 final size:23
Alignment explanation
Indices: 2017738--2017806 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
2017728 CACCACAGCT
* * *
2017738 CGTATAAATGTACCGAAGTGACA
1 CGTAGAAATGCACCGAAGTGCCA
* *
2017761 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
2017784 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
2017807 TATAAGTTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:2018695 original size:2 final size:2
Alignment explanation
Indices: 2018688--2018718 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2018678 TAATTTACCC
2018688 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2018719 GTTTACGCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2019531 original size:64 final size:63
Alignment explanation
Indices: 2019418--2019539 Score: 163
Period size: 64 Copynumber: 1.9 Consensus size: 63
2019408 GCATAAATTC
** * * * *
2019418 CATTCGATGTTTGTATTTAAGGGGGTTCATCGATGCACTACTTGTGCATCGATACACTGATGG
1 CATTCGATGTTTGTATTTAAAAGAGTGCATCGATACACTACATGTGCATCGATACACTGATGG
* *
2019481 CATTCGATGTTTTTATTTTAAAAGAGTGCATCGATACACTTCATGTGCATCGATACACT
1 CATTCGATGTTTGTA-TTTAAAAGAGTGCATCGATACACTACATGTGCATCGATACACT
2019540 TTGAACAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
63 14 0.28
64 36 0.72
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (63 bp):
CATTCGATGTTTGTATTTAAAAGAGTGCATCGATACACTACATGTGCATCGATACACTGATGG
Found at i:2025944 original size:12 final size:12
Alignment explanation
Indices: 2025927--2025952 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2025917 AAAAACAAGC
2025927 TTTCAGATTTAA
1 TTTCAGATTTAA
2025939 TTTCAGATTTAA
1 TTTCAGATTTAA
2025951 TT
1 TT
2025953 CCACAATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (12 bp):
TTTCAGATTTAA
Found at i:2026577 original size:23 final size:23
Alignment explanation
Indices: 2026551--2026595 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2026541 TAGTGTTCAC
2026551 GAACATGTCCGTTTAACATTCGT
1 GAACATGTCCGTTTAACATTCGT
** *
2026574 GAACATGTTTGTTTAACGTTCG
1 GAACATGTCCGTTTAACATTCG
2026596 CAAACATCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (23 bp):
GAACATGTCCGTTTAACATTCGT
Found at i:2026601 original size:23 final size:23
Alignment explanation
Indices: 2026552--2026602 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
2026542 AGTGTTCACG
**
2026552 AACATGTCCGTTTAACATTCGTG
1 AACATGTCCGTTTAACATTCGCA
** *
2026575 AACATGTTTGTTTAACGTTCGCA
1 AACATGTCCGTTTAACATTCGCA
2026598 AACAT
1 AACAT
2026603 CATGTTCGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (23 bp):
AACATGTCCGTTTAACATTCGCA
Found at i:2035393 original size:21 final size:21
Alignment explanation
Indices: 2035363--2035588 Score: 169
Period size: 21 Copynumber: 10.6 Consensus size: 21
2035353 GATTTACATA
*
2035363 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
2035384 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* ** *
2035405 GTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
2035426 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
2035445 TTCGCGTTGCGATTTATTCCAAATTTG
1 TTCGCGTTGCGA--TAGTCC-AA---G
* *
2035472 TT-GCGATAGTCCATAGTCCAAG
1 TTCGCG-TTG-CGATAGTCCAAG
* * * *
2035494 TTCGCTTTGCGATTTACTACAAA
1 TTCGCGTTGCGA--TAGTCCAAG
2035517 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
2035536 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
2035555 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
2035576 TTTGCGTTGCGAT
1 TTCGCGTTGCGAT
2035589 TTATTTCAAA
Statistics
Matches: 163, Mismatches: 27, Indels: 30
0.74 0.12 0.14
Matches are distributed among these distances:
19 42 0.26
21 82 0.50
22 5 0.03
23 15 0.09
24 2 0.01
25 2 0.01
26 8 0.05
27 5 0.03
28 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:2035433 original size:19 final size:19
Alignment explanation
Indices: 2035409--2035478 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
2035399 TCGAAGGTCG
2035409 CGTTGCGATTTTCCAAATT
1 CGTTGCGATTTTCCAAATT
** *
2035428 CGTTGCGATAGTCCAAGTT
1 CGTTGCGATTTTCCAAATT
2035447 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGA-TT-TTCCAAATT
*
2035470 TGTTGCGAT
1 CGTTGCGAT
2035479 AGTCCATAGT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
19 16 0.40
20 1 0.03
21 15 0.38
22 1 0.03
23 7 0.17
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (19 bp):
CGTTGCGATTTTCCAAATT
Found at i:2035507 original size:49 final size:49
Alignment explanation
Indices: 2035435--2035533 Score: 162
Period size: 49 Copynumber: 2.0 Consensus size: 49
2035425 ATTCGTTGCG
* * *
2035435 ATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTTGTTGCGATAGTCC
1 ATAGTCCAAGTTCGCGTTGCGATTTACTACAAATTCGTTGCGATAGTCC
*
2035484 ATAGTCCAAGTTCGCTTTGCGATTTACTACAAATTCGTTGCGATAGTCC
1 ATAGTCCAAGTTCGCGTTGCGATTTACTACAAATTCGTTGCGATAGTCC
2035533 A
1 A
2035534 AGTTCGTTGC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (49 bp):
ATAGTCCAAGTTCGCGTTGCGATTTACTACAAATTCGTTGCGATAGTCC
Found at i:2035605 original size:42 final size:41
Alignment explanation
Indices: 2035484--2035616 Score: 139
Period size: 42 Copynumber: 3.2 Consensus size: 41
2035474 GCGATAGTCC
* * *
2035484 ATAGTCCAAGTTCGCTTTGCGATTTACTACAAATTCGTTGCG
1 ATAGTCCAAGTTTGCGTTGCGATTTA-TTCAAATTCGTTGCG
* *
2035526 ATAGTCCAAG-TT-CGTTGCGA--TAGTCGAAGTTCGCGTTGCG
1 ATAGTCCAAGTTTGCGTTGCGATTTATTC-AAATT--CGTTGCG
*
2035566 ATAGTCGAAGTTTGCGTTGCGATTTATTTCAAATTCGTTGCG
1 ATAGTCCAAGTTTGCGTTGCGATTTA-TTCAAATTCGTTGCG
2035608 ATAGTCCAA
1 ATAGTCCAA
2035617 AATCGCAATG
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
37 1 0.01
38 6 0.08
40 23 0.31
41 3 0.04
42 33 0.45
44 6 0.08
45 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (41 bp):
ATAGTCCAAGTTTGCGTTGCGATTTATTCAAATTCGTTGCG
Found at i:2041320 original size:2 final size:2
Alignment explanation
Indices: 2041313--2041337 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2041303 GATAGAAATA
2041313 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
2041338 AGAGAAGATC
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:2042697 original size:2 final size:2
Alignment explanation
Indices: 2042690--2042760 Score: 58
Period size: 2 Copynumber: 37.0 Consensus size: 2
2042680 GATGGTTATG
* * *
2042690 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A AA TA -A AA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
2042730 AA TG TA CA TA -A GA 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
2042761 AGGGAATAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
1 3 0.05
2 54 0.95
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.39
Consensus pattern (2 bp):
TA
Found at i:2042798 original size:51 final size:52
Alignment explanation
Indices: 2042689--2042799 Score: 127
Period size: 51 Copynumber: 2.1 Consensus size: 52
2042679 TGATGGTTAT
* * * *
2042689 GTATATATATATATATATATATATATATAAAATAAAATAAAAATGTACATAA
1 GTATATATATATATATATATAGAGATATAAAATAAAATAAAAATGAAAATAA
* * *
2042741 G-ATATATATATATATATATAAGGGA-ATAAAATATAATAATAATGAAAATATA
1 GTATATATATATATATATAT-AGAGATATAAAATAAAATAAAAATGAAAATA-A
2042793 GTATATA
1 GTATATA
2042800 ATAATAGTAG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
51 39 0.80
52 5 0.10
53 5 0.10
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.35
Consensus pattern (52 bp):
GTATATATATATATATATATAGAGATATAAAATAAAATAAAAATGAAAATAA
Found at i:2044322 original size:43 final size:43
Alignment explanation
Indices: 2044274--2044708 Score: 150
Period size: 43 Copynumber: 9.4 Consensus size: 43
2044264 GACAGCGGTC
*
2044274 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATAT
1 CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * * * *
2044317 CCTTCGTTGTGAAGTTGAAATTGGGAAATTGT-T-GATTGACAACCAGCGGT
1 CCTTCGTTGTGAAGTTGAACTTGCG---TTGTCTGGAGT-CCAA-TA----T
*
2044367 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 -CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * * * * * *
2044411 CCTTCATTGTGAAGTTAAAATTGGGAAATTGT-T-GATTGACAACCAGCGGT
1 CCTTCGTTGTGAAGTTGAACTTGCG---TTGTCTGGAGT-CCAA-TA----T
** *
2044461 CCCTTCGTCATGAAGTTGAACTTGCATTGTCTGGAGTCCAATAT
1 -CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * * *
2044505 CCTTCGTTGTGAAGTTGAAATTTG-GAAATTGT-T-GATTGACAACCAGCGGT
1 CCTTCGTTGTGAAGTTG-AACTTGCG---TTGTCTGGAGT-CCAA-TA----T
* ** *
2044555 CCCTTCATCATGAAGTTGAACTTGCATTGTCTGGAGTCCAATAT
1 -CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * * * *
2044599 CCTTCGTTGTGAAGTTGAAATTGGGAAATTGT-T-GATTGACAACCAGCGGT
1 CCTTCGTTGTGAAGTTGAACTTGCG---TTGTCTGGAGT-CCAA-TA----T
* *
2044649 CCATTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATAT
1 CC-TTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
2044693 CCTTCGTTGTGAAGTT
1 CCTTCGTTGTGAAGTT
2044709 AAAATTGGCT
Statistics
Matches: 281, Mismatches: 61, Indels: 100
0.64 0.14 0.23
Matches are distributed among these distances:
43 90 0.32
44 23 0.08
45 16 0.06
46 20 0.07
48 20 0.07
49 16 0.06
50 23 0.08
51 73 0.26
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (43 bp):
CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
Found at i:2044409 original size:94 final size:95
Alignment explanation
Indices: 2044266--2045240 Score: 1219
Period size: 105 Copynumber: 9.8 Consensus size: 95
2044256 TGTTTATTGA
* **
2044266 CAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
2044331 TTGAAATTGG-GAAATTG-TTGATTGACAAC
66 TTGAAATTGGCGAAATTGTTTG-TTGACAAC
* *
2044360 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCATTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
2044425 TTAAAATTGG-GAAATTG-TTGATTGACAAC
66 TTGAAATTGGCGAAATTGTTTG-TTGACAAC
*
2044454 CAGCGGTCCCTTCGTCATGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
2044519 TTGAAATTTG-GAAATTG-TTGATTGACAAC
66 TTGAAATTGGCGAAATTGTTTG-TTGACAAC
* *
2044548 CAGCGGTCCCTTCATCATGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
2044613 TTGAAATTGG-GAAATTG-TTGATTGACAAC
66 TTGAAATTGGCGAAATTGTTTG-TTGACAAC
*
2044642 CAGCGGTCCATTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
2044707 TTAAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
66 TTGAAATTGG--C-GAAA-T------TGTTTGTTGACAAC
* *
2044747 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTACAATGTCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
2044812 TTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
66 TTGAAATTGG--C-GAAA-T------TGTTTGTTGACAAC
* *
2044852 CAGCGGTCCCTTCGTCGTTAAGTTGAACTTGCATTGTCTGGAATCCAATATCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
2044917 TTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
66 TTGAAATTGG--C-GAAA-T------TGTTTGTTGACAAC
*
2044957 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATGTCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
2045022 TTGAAATTGGCTCTGAAATTGAGAAATATTTGTTGACAAC
66 TTGAAATTGG--C-GAAATT--G-----TTTGTTGACAAC
*
2045062 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATGTCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
2045127 TTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
66 TTGAAATTGG--C-GAAA-T------TGTTTGTTGACAAC
* * *
2045167 CAGCGGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGAGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
2045232 TTGAAATTG
66 TTGAAATTG
2045241 ACTCTGGGTA
Statistics
Matches: 825, Mismatches: 30, Indels: 41
0.92 0.03 0.05
Matches are distributed among these distances:
94 342 0.41
98 5 0.01
99 1 0.00
100 1 0.00
104 1 0.00
105 469 0.57
106 4 0.00
110 1 0.00
112 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (95 bp):
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
TTGAAATTGGCGAAATTGTTTGTTGACAAC
Found at i:2046023 original size:21 final size:20
Alignment explanation
Indices: 2045995--2046037 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
2045985 ACCCACCTTA
2045995 TTTTCTCTTCTT-TTGTTCTT
1 TTTTCTCTT-TTCTTGTTCTT
*
2046015 TTTTCCTCTTTTCTTTTTCTT
1 TTTT-CTCTTTTCTTGTTCTT
2046036 TT
1 TT
2046038 CTCAATTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTCTCTTTTCTTGTTCTT
Found at i:2046096 original size:14 final size:14
Alignment explanation
Indices: 2046077--2046143 Score: 63
Period size: 14 Copynumber: 5.0 Consensus size: 14
2046067 ACCCTACGCG
*
2046077 TTCTTTTCTTCTTC
1 TTCTTTTCTTTTTC
*
2046091 TTCTTTTTTTTTTCC
1 TTCTTTTCTTTTT-C
2046106 TTCTTTGT-TTTTTC
1 TTCTTT-TCTTTTTC
2046120 TT-TTTTC-TTTT-
1 TTCTTTTCTTTTTC
2046131 TTCTTTT-TTTTTC
1 TTCTTTTCTTTTTC
2046144 AACTTAGAAC
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
11 2 0.04
12 13 0.29
13 3 0.07
14 14 0.31
15 12 0.27
16 1 0.02
ACGTcount: A:0.00, C:0.18, G:0.01, T:0.81
Consensus pattern (14 bp):
TTCTTTTCTTTTTC
Found at i:2046101 original size:18 final size:18
Alignment explanation
Indices: 2046080--2046132 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
2046070 CTACGCGTTC
2046080 TTTTCTTCTTCTTCTTTT
1 TTTTCTTCTTCTTCTTTT
*
2046098 TTTT-TTCCTTCTT-TGTT
1 TTTTCTT-CTTCTTCTTTT
2046115 TTTTCTT-TT-TTCTTTT
1 TTTTCTTCTTCTTCTTTT
2046131 TT
1 TT
2046133 CTTTTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
15 2 0.07
16 7 0.23
17 9 0.30
18 12 0.40
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTCTTCTTCTTCTTTT
Found at i:2046125 original size:7 final size:7
Alignment explanation
Indices: 2046080--2046139 Score: 61
Period size: 7 Copynumber: 8.6 Consensus size: 7
2046070 CTACGCGTTC
2046080 TTTTCTT
1 TTTTCTT
2046087 CTTCTTC-T
1 -TT-TTCTT
2046095 TTTT-TT
1 TTTTCTT
*
2046101 TTTCCTT
1 TTTTCTT
* *
2046108 CTTTGTT
1 TTTTCTT
2046115 TTTTCTT
1 TTTTCTT
2046122 TTTTCTT
1 TTTTCTT
2046129 TTTTCTT
1 TTTTCTT
2046136 TTTT
1 TTTT
2046140 TTTCAACTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
6 6 0.14
7 31 0.72
8 3 0.07
9 3 0.07
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.82
Consensus pattern (7 bp):
TTTTCTT
Found at i:2046141 original size:18 final size:19
Alignment explanation
Indices: 2046080--2046142 Score: 74
Period size: 21 Copynumber: 3.2 Consensus size: 19
2046070 CTACGCGTTC
2046080 TTTTCTTCTTCTTCTTTTTT
1 TTTTCTTCTT-TTCTTTTTT
*
2046100 TTTTCCTTCTTTGTTTTTTCTT
1 TTTT-CTTCTTT-TCTTTT-TT
2046122 TTTTCTT-TTTTCTTTTTT
1 TTTTCTTCTTTTCTTTTTT
2046140 TTT
1 TTT
2046143 CAACTTAGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
18 5 0.13
19 5 0.13
20 8 0.21
21 14 0.37
22 6 0.16
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTCTTCTTTTCTTTTTT
Found at i:2054195 original size:31 final size:31
Alignment explanation
Indices: 2054157--2054250 Score: 145
Period size: 31 Copynumber: 3.0 Consensus size: 31
2054147 CCCGAAGGAC
* * *
2054157 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
2054188 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2054219 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2054250 C
1 C
2054251 CCTCGACCCT
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 58 0.98
32 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:2059235 original size:2 final size:2
Alignment explanation
Indices: 2059228--2059261 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
2059218 GATGGTTATG
* *
2059228 TA TA TA TA TA TA TA TA TA TA TA AA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2059262 ATAAAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:2064251 original size:23 final size:24
Alignment explanation
Indices: 2064207--2064252 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
2064197 AAATAGTGTA
*
2064207 TTTTAATTAAATTTACATTTATAT
1 TTTTAATTAAATTTACAATTATAT
*
2064231 TTTTAATT-AATTTATAATTATA
1 TTTTAATTAAATTTACAATTATA
2064253 CGTTTACTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTTAATTAAATTTACAATTATAT
Found at i:2064258 original size:23 final size:24
Alignment explanation
Indices: 2064208--2064258 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
2064198 AATAGTGTAT
* **
2064208 TTTAATTAAATTTACATTTATATT
1 TTTAATTAAATTTACAATTATACG
*
2064232 TTTAATT-AATTTATAATTATACG
1 TTTAATTAAATTTACAATTATACG
2064255 TTTA
1 TTTA
2064259 CTACTTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTAATTAAATTTACAATTATACG
Found at i:2067999 original size:33 final size:33
Alignment explanation
Indices: 2067935--2067999 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
2067925 TGGCATACTT
**
2067935 ATATATCATGTTTATAATATGCTTATTTAGGTC
1 ATATATCATGTTTATAATATGCTTAAATAGGTC
2067968 ATATATCATGTTTATAATATGCTTAAATAGGT
1 ATATATCATGTTTATAATATGCTTAAATAGGT
2068000 TTTATTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.46
Consensus pattern (33 bp):
ATATATCATGTTTATAATATGCTTAAATAGGTC
Found at i:2073933 original size:65 final size:65
Alignment explanation
Indices: 2073849--2074004 Score: 224
Period size: 65 Copynumber: 2.4 Consensus size: 65
2073839 GAATACTATG
* * *
2073849 ATAATAATTCCTTTTGAAATTGTGAATATAGTAAGTTGAATGAATATTGATTTACTATTCTCCTC
1 ATAATAATT-CTTTTGAAATTGTGAATATACTAAGTTAAATGAATATTGATTTA-TATTCTCCCC
2073914 -C
64 AC
* *
2073915 ATAATAATTCTTTTGAAATTGTGAATATACTAAGTTAAATGAATATTGATTTATGTTGTCCCCAT
1 ATAATAATTCTTTTGAAATTGTGAATATACTAAGTTAAATGAATATTGATTTATATTCTCCCCA-
2073980 C
65 C
*
2073981 ATAATAACTCTTTTGAAATTGTGA
1 ATAATAATTCTTTTGAAATTGTGA
2074005 GAATATTCTA
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
64 7 0.09
65 42 0.51
66 33 0.40
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (65 bp):
ATAATAATTCTTTTGAAATTGTGAATATACTAAGTTAAATGAATATTGATTTATATTCTCCCCAC
Found at i:2078917 original size:18 final size:18
Alignment explanation
Indices: 2078894--2078929 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2078884 AGGGATTACC
2078894 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* *
2078912 AGTGGTTCTTCTGGACAT
1 AGTGGTCCTTCGGGACAT
2078930 TTCATAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:2079643 original size:19 final size:19
Alignment explanation
Indices: 2079616--2079686 Score: 115
Period size: 19 Copynumber: 3.7 Consensus size: 19
2079606 AATGCATTTG
2079616 ATGCATCGATGCACCAGCC
1 ATGCATCGATGCACCAGCC
*
2079635 ATACATCGATGCACCAGCC
1 ATGCATCGATGCACCAGCC
*
2079654 ATGCATCGATGTACCAGCC
1 ATGCATCGATGCACCAGCC
*
2079673 ATGCATTGATGCAC
1 ATGCATCGATGCAC
2079687 TCTGGCTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 47 1.00
ACGTcount: A:0.28, C:0.32, G:0.20, T:0.20
Consensus pattern (19 bp):
ATGCATCGATGCACCAGCC
Found at i:2079731 original size:17 final size:19
Alignment explanation
Indices: 2079703--2079751 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
2079693 TATTTTGAAA
2079703 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
2079721 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
2079740 CACCGATGCACT
1 CATCGATGCACT
2079752 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:2081245 original size:21 final size:21
Alignment explanation
Indices: 2081203--2081246 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2081193 GACCCGGGAG
*
2081203 CTAGCTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
2081224 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
2081245 CT
1 CT
2081247 CCGGTACCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.16, T:0.34
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:2081809 original size:14 final size:14
Alignment explanation
Indices: 2081790--2081816 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2081780 GGCTAATGTC
2081790 TCTTTTGATTGTGA
1 TCTTTTGATTGTGA
2081804 TCTTTTGATTGTG
1 TCTTTTGATTGTG
2081817 TTATAGTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.11, C:0.07, G:0.22, T:0.59
Consensus pattern (14 bp):
TCTTTTGATTGTGA
Found at i:2084135 original size:15 final size:15
Alignment explanation
Indices: 2084110--2084150 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
2084100 CTACATGGAG
*
2084110 CGATGAAGAGGGTTC
1 CGATAAAGAGGGTTC
*
2084125 TGATAAAGAGGGTTC
1 CGATAAAGAGGGTTC
*
2084140 CGATGAAGAGG
1 CGATAAAGAGG
2084151 AACAAGAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.32, C:0.10, G:0.39, T:0.20
Consensus pattern (15 bp):
CGATAAAGAGGGTTC
Found at i:2086096 original size:27 final size:27
Alignment explanation
Indices: 2086066--2086119 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
2086056 ATTTTCGATG
2086066 ATAATCCCCTTCCGAGGAAGGATTCTT
1 ATAATCCCCTTCCGAGGAAGGATTCTT
2086093 ATAATCCCCTTCCGAGGAAGGATTCTT
1 ATAATCCCCTTCCGAGGAAGGATTCTT
2086120 GTTTGAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (27 bp):
ATAATCCCCTTCCGAGGAAGGATTCTT
Found at i:2088243 original size:21 final size:22
Alignment explanation
Indices: 2088197--2088300 Score: 56
Period size: 21 Copynumber: 4.8 Consensus size: 22
2088187 ACACCTAACA
* *
2088197 GTGCATCGATGCATCCTTGAAT
1 GTGCATCGATGCATCCATGAAG
2088219 GTGCATCGACT-CA-CCATGAAG
1 GTGCATCGA-TGCATCCATGAAG
* * * * *
2088240 GTGCACCAATGCACGCCTTGAAT
1 GTGCATCGATGCA-TCCATGAAG
* * *
2088263 GTGCATCAATGCA-CAAGGACA-
1 GTGCATCGATGCATCCATGA-AG
2088284 -TGCATCGATGCATCCAT
1 GTGCATCGATGCATCCAT
2088301 CGGGTTTTTT
Statistics
Matches: 63, Mismatches: 13, Indels: 13
0.71 0.15 0.15
Matches are distributed among these distances:
20 12 0.19
21 20 0.32
22 12 0.19
23 19 0.30
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (22 bp):
GTGCATCGATGCATCCATGAAG
Found at i:2092750 original size:21 final size:23
Alignment explanation
Indices: 2092717--2092774 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 23
2092707 AAACCGTTTT
*
2092717 AAAAAAA-GAGAAAAAGACATG-
1 AAAAAAATGAGAAAAAGACAAGC
2092738 AAAAAAATG-G--AAAG-CAAGC
1 AAAAAAATGAGAAAAAGACAAGC
*
2092757 AAAAAAATGTGAAAAAGA
1 AAAAAAATGAGAAAAAGA
2092775 AAAAAAATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
18 3 0.10
19 13 0.43
20 1 0.03
21 8 0.27
22 5 0.17
ACGTcount: A:0.69, C:0.05, G:0.19, T:0.07
Consensus pattern (23 bp):
AAAAAAATGAGAAAAAGACAAGC
Found at i:2092751 original size:19 final size:20
Alignment explanation
Indices: 2092738--2092782 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
2092728 AAAAGACATG
2092738 AAAAAAATG-GAAAGCAAGC
1 AAAAAAATGTGAAAGCAAGC
*
2092757 AAAAAAATGTGAAA--AAGA
1 AAAAAAATGTGAAAGCAAGC
2092775 AAAAAAAT
1 AAAAAAAT
2092783 CAAATGCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 11 0.46
19 9 0.38
20 4 0.17
ACGTcount: A:0.71, C:0.04, G:0.16, T:0.09
Consensus pattern (20 bp):
AAAAAAATGTGAAAGCAAGC
Found at i:2112906 original size:39 final size:37
Alignment explanation
Indices: 2112821--2112906 Score: 86
Period size: 37 Copynumber: 2.3 Consensus size: 37
2112811 TAATAAGTTG
* *
2112821 AAAATATTTATATATTTTCTTTAAAAAATTTAAATTC
1 AAAAAATTTATATATTTTCTTTAAAAAATTAAAATTC
* *
2112858 ATAAAATTTATATAATTTT-TTTATAAAATTGAAAATAT-
1 AAAAAATTTATAT-ATTTTCTTTAAAAAATT-AAAAT-TC
2112896 AAAAAGATTTA
1 AAAAA-ATTTA
2112907 ATGAAAAGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
37 21 0.52
38 13 0.32
39 6 0.15
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (37 bp):
AAAAAATTTATATATTTTCTTTAAAAAATTAAAATTC
Found at i:2118155 original size:16 final size:16
Alignment explanation
Indices: 2118131--2118163 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2118121 TATCGCCGAC
*
2118131 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
2118147 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
2118163 C
1 C
2118164 ATGAATAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.33
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:2124612 original size:19 final size:18
Alignment explanation
Indices: 2124588--2124631 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
2124578 CTTTAATTTG
*
2124588 TTTATTTAATTATTTTTC
1 TTTATTTAATTATTATTC
*
2124606 TTTTATTTAATTCTTATTC
1 -TTTATTTAATTATTATTC
2124625 TTTATTT
1 TTTATTT
2124632 TAAAAACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTATTTAATTATTATTC
Found at i:2124690 original size:30 final size:30
Alignment explanation
Indices: 2124656--2124722 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
2124646 AAAAATCCTC
*
2124656 TTTTATATTTATTACTATTAATATTTA-TTA
1 TTTTATATTT-TTACTATTAATAATTATTTA
* * *
2124686 TTTTATTATTTTTCCTTTTTATAATTATTTA
1 TTTTA-TATTTTTACTATTAATAATTATTTA
2124717 TTTTAT
1 TTTTAT
2124723 TATTCATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
30 18 0.58
31 13 0.42
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (30 bp):
TTTTATATTTTTACTATTAATAATTATTTA
Found at i:2124732 original size:28 final size:27
Alignment explanation
Indices: 2124682--2124734 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
2124672 ATTAATATTT
* *
2124682 ATTATTTTATTATTTTTCCTTTTTATA
1 ATTATTTTATTATTATTCATTTTTATA
*
2124709 ATTATTTATTTTATTATTCATTTTTA
1 ATTATTT-TATTATTATTCATTTTTA
2124735 ACTTTACCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.70
Consensus pattern (27 bp):
ATTATTTTATTATTATTCATTTTTATA
Found at i:2128716 original size:2 final size:2
Alignment explanation
Indices: 2128705--2128744 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
2128695 TATTGATTTT
2128705 TA TA -A TA TA TA 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 TA TA TA TA TA TA T
2128745 TTAAAATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2130471 original size:50 final size:52
Alignment explanation
Indices: 2130386--2130493 Score: 150
Period size: 50 Copynumber: 2.1 Consensus size: 52
2130376 TTCTACATTA
*
2130386 TTATTAGAACTAATCACGTCGAAGTGGCGAGTTCCAATAAAA-AT-ATTTTT
1 TTATTAGAACTAATCACGTCGAAGTGACGAGTTCCAATAAAATATAATTTTT
* * *
2130436 TTATTCGAACTCATCACGTCG-AGATGACGATTTCCAATAAAATATAATTTTT
1 TTATTAGAACTAATCACGTCGAAG-TGACGAGTTCCAATAAAATATAATTTTT
2130488 TTATTA
1 TTATTA
2130494 AAATCTATCA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
49 2 0.04
50 35 0.70
51 2 0.04
52 11 0.22
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (52 bp):
TTATTAGAACTAATCACGTCGAAGTGACGAGTTCCAATAAAATATAATTTTT
Found at i:2131221 original size:120 final size:120
Alignment explanation
Indices: 2131006--2131240 Score: 398
Period size: 120 Copynumber: 2.0 Consensus size: 120
2130996 CCTCTTTTAT
* * *
2131006 CCCATGTGGCACACGCCAGTAGCGGCTCCTAAATGCTTCATTAGCCACCACGTGAGCACTAAACC
1 CCCATGTGGCACACGCCAGCAGCGGCTCCTAAATGCTTCATTAGCCACCACGTGAGCACCAAACA
2131071 GTGGCCCAAACATCATCTCATCGCCACACTAGCTGCCAACAGCAGCCACAACAGC
66 GTGGCCCAAACATCATCTCATCGCCACACTAGCTGCCAACAGCAGCCACAACAGC
* *
2131126 CCCATGTGGCACACGCCAGCAGCGGGTCCTGAATGCTTCATTAGCCACCACGTGAGCACCAAACA
1 CCCATGTGGCACACGCCAGCAGCGGCTCCTAAATGCTTCATTAGCCACCACGTGAGCACCAAACA
* * *
2131191 GTGGCCCAAACATTATCTCCTCGCCCCACTAGCTGCCAACAGCAGCCACA
66 GTGGCCCAAACATCATCTCATCGCCACACTAGCTGCCAACAGCAGCCACA
2131241 GCATCCTCAA
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
120 107 1.00
ACGTcount: A:0.27, C:0.38, G:0.19, T:0.16
Consensus pattern (120 bp):
CCCATGTGGCACACGCCAGCAGCGGCTCCTAAATGCTTCATTAGCCACCACGTGAGCACCAAACA
GTGGCCCAAACATCATCTCATCGCCACACTAGCTGCCAACAGCAGCCACAACAGC
Found at i:2132260 original size:95 final size:96
Alignment explanation
Indices: 2132096--2132287 Score: 350
Period size: 95 Copynumber: 2.0 Consensus size: 96
2132086 GGAATGTGAG
* *
2132096 ATTATCATAAAAATGAAATCCACATTTTTTTCGTTTGGTTGGTCGGGAATGTCATTTTCGATGAT
1 ATTATCATAAAAATGAAATCCACATTTTTCTCGTTTGGTTGGTCGGGAATGTCATTTCCGATGAT
2132161 CTTACTAATAGTAGATTTTTTTAGGTATATT
66 CTTACTAATAGTAGATTTTTTTAGGTATATT
*
2132192 ATTATCATAAAAATGAAATCCACA-TTTTCTCGTTTGGTTGGTTGGGAATGTCATTTCCGATGAT
1 ATTATCATAAAAATGAAATCCACATTTTTCTCGTTTGGTTGGTCGGGAATGTCATTTCCGATGAT
2132256 CTTACTAATAGTAGATTTTTTTAGGTATATT
66 CTTACTAATAGTAGATTTTTTTAGGTATATT
2132287 A
1 A
2132288 CTGAGAATGT
Statistics
Matches: 93, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
95 69 0.74
96 24 0.26
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.44
Consensus pattern (96 bp):
ATTATCATAAAAATGAAATCCACATTTTTCTCGTTTGGTTGGTCGGGAATGTCATTTCCGATGAT
CTTACTAATAGTAGATTTTTTTAGGTATATT
Found at i:2132606 original size:38 final size:38
Alignment explanation
Indices: 2132532--2132606 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
2132522 TTATATTTTT
*
2132532 AATTTTGTAAAAAAAATTATATAAATTTTATGAATTTA
1 AATTTTGTAAAAAAAATTATATAAATTTTATCAATTTA
* * *
2132570 AATTTTTTAAAGAAAATATATATATATTTT-TCAATTT
1 AATTTTGTAAAAAAAAT-TATATAAATTTTATCAATTT
2132607 GTTAAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 21 0.66
39 11 0.34
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (38 bp):
AATTTTGTAAAAAAAATTATATAAATTTTATCAATTTA
Found at i:2132769 original size:18 final size:19
Alignment explanation
Indices: 2132746--2132786 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
2132736 CAGTAATCCT
2132746 ATTCT-CTGGTAATCTTAC
1 ATTCTACTGGTAATCTTAC
2132764 ATTCTCACTGGTAATCTTAC
1 ATTCT-ACTGGTAATCTTAC
2132784 ATT
1 ATT
2132787 ATGTGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
20 16 0.76
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.44
Consensus pattern (19 bp):
ATTCTACTGGTAATCTTAC
Found at i:2138306 original size:29 final size:29
Alignment explanation
Indices: 2138225--2138309 Score: 73
Period size: 29 Copynumber: 2.9 Consensus size: 29
2138215 CTAAAATATA
* *
2138225 TAAATTTT-AAAAATTACAAATTTCAGTCCC
1 TAAATTTTCAAAAATTAC--ATTTTAGCCCC
* ** *
2138255 TACACTTTTCAAAGTTTATATTTTAGCCCC
1 TA-AATTTTCAAAAATTACATTTTAGCCCC
*
2138285 TAAATTTTCAAAACTTACATTTTAG
1 TAAATTTTCAAAAATTACATTTTAG
2138310 TCACTGGTCC
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
29 19 0.44
30 13 0.30
31 5 0.12
32 6 0.14
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (29 bp):
TAAATTTTCAAAAATTACATTTTAGCCCC
Found at i:2142407 original size:19 final size:21
Alignment explanation
Indices: 2142364--2142407 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
2142354 TTAATTCAAA
2142364 ATTCAGCATACTAATAAATTT
1 ATTCAGCATACTAATAAATTT
*
2142385 -TTCAGCATTC-AAT-AATTT
1 ATTCAGCATACTAATAAATTT
2142403 ATTCA
1 ATTCA
2142408 AATAATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.24
19 7 0.33
20 9 0.43
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.41
Consensus pattern (21 bp):
ATTCAGCATACTAATAAATTT
Found at i:2143826 original size:15 final size:16
Alignment explanation
Indices: 2143796--2143828 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2143786 ATTTACAGAC
*
2143796 TAAAATATATAAATTT
1 TAAAATATACAAATTT
2143812 TAAAAT-TACAAATTT
1 TAAAATATACAAATTT
2143827 TA
1 TA
2143829 GTCCCTACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAAATATACAAATTT
Found at i:2143881 original size:29 final size:30
Alignment explanation
Indices: 2143825--2143888 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
2143815 AATTACAAAT
* * **
2143825 TTTAGTCCCTACACTTTTCAAAGGTTATAC
1 TTTAGCCCCTACAATTTTCAAAACTTATAC
*
2143855 TTTAGCCCCTA-AATTTTCAAAACTTATAT
1 TTTAGCCCCTACAATTTTCAAAACTTATAC
2143884 TTTAG
1 TTTAG
2143889 TCACTGGTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.42
Consensus pattern (30 bp):
TTTAGCCCCTACAATTTTCAAAACTTATAC
Found at i:2146309 original size:2 final size:2
Alignment explanation
Indices: 2146304--2146342 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
2146294 TATATATATA
*
2146304 TG TG TG CG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
2146343 TGGCATATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.03, G:0.49, T:0.49
Consensus pattern (2 bp):
TG
Found at i:2146800 original size:151 final size:151
Alignment explanation
Indices: 2146336--2146790 Score: 828
Period size: 151 Copynumber: 3.0 Consensus size: 151
2146326 TGTGTGTGTG
2146336 TGTGTGTTGGCATATAAATGATTATTTTGCATCTCATG-A--CATGCATAACGAATAGCTATATA
1 TGTGTGTTGGCATATAAATGATTATTTTGCATCTCATGAACTCATGCATAACGAATAGCTATATA
*
2146398 TGTATGCACCAAT-CGTGTATCTCATAGTAAATAACAGTCGTTCTATCAAATGGGTTTCCGTCTT
66 TGTATGCACC-ATGCGTGTATCTCATAGTAAATAATAGTCGTTCTATCAAATGGGTTTCCGTCTT
2146462 TTAATTTCATCAATTAATTTAA
130 TTAATTTCATCAATTAATTTAA
2146484 TGTGTGTTGGCATATAAATGATTATTTTGCATCTCATGAACTCATGCATAACGAATAGCTATATA
1 TGTGTGTTGGCATATAAATGATTATTTTGCATCTCATGAACTCATGCATAACGAATAGCTATATA
*
2146549 TGTATGCACCATGCGTGTATCTCATAGTAAATAATAGTCGTTCTATCAAATGGGGTTCCGTCTTT
66 TGTATGCACCATGCGTGTATCTCATAGTAAATAATAGTCGTTCTATCAAATGGGTTTCCGTCTTT
*
2146614 TAATTTCATTAATTAATTTAA
131 TAATTTCATCAATTAATTTAA
*
2146635 TGTGTGTTGGCATATAAATGATTATTTTGCATCTCATGAACTCATGCATAACGAATAGTTATATA
1 TGTGTGTTGGCATATAAATGATTATTTTGCATCTCATGAACTCATGCATAACGAATAGCTATATA
*
2146700 TGTATGCACCATGCGTGTATCTCATAGTAAATAATAGTCGTTCTATCAAATGGGTTTCCGTCCTT
66 TGTATGCACCATGCGTGTATCTCATAGTAAATAATAGTCGTTCTATCAAATGGGTTTCCGTCTTT
2146765 TAATTTCATCAATTAATTTAA
131 TAATTTCATCAATTAATTTAA
2146786 TGTGT
1 TGTGT
2146791 AAAGTCATAT
Statistics
Matches: 296, Mismatches: 7, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
148 38 0.13
149 1 0.00
150 2 0.01
151 255 0.86
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (151 bp):
TGTGTGTTGGCATATAAATGATTATTTTGCATCTCATGAACTCATGCATAACGAATAGCTATATA
TGTATGCACCATGCGTGTATCTCATAGTAAATAATAGTCGTTCTATCAAATGGGTTTCCGTCTTT
TAATTTCATCAATTAATTTAA
Found at i:2148903 original size:62 final size:63
Alignment explanation
Indices: 2148795--2148913 Score: 170
Period size: 62 Copynumber: 1.9 Consensus size: 63
2148785 GAAGGTCAAT
* *
2148795 ATATTCCCTCAAGAGATAGATACAGTCATACTAAGGGCGAAGAGACCCTTCA-AAAGGCTAGG
1 ATATTCCCTCAAGAGATAGATACAGTCATACCAAGGACGAAGAGACCCTTCACAAAGGCTAGG
* **
2148857 ATATTCCCTCATGATCTAGATACAGTCATACCAAGGACG-AGAAGACCCTTCACAAAG
1 ATATTCCCTCAAGAGATAGATACAGTCATACCAAGGACGAAG-AGACCCTTCACAAAG
2148914 ACATGAAGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
61 2 0.04
62 44 0.88
63 4 0.08
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (63 bp):
ATATTCCCTCAAGAGATAGATACAGTCATACCAAGGACGAAGAGACCCTTCACAAAGGCTAGG
Found at i:2153379 original size:25 final size:25
Alignment explanation
Indices: 2153351--2153409 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
2153341 GTGATCATGT
*
2153351 GTTGTTTTCATTACCCAAGGTGAAG
1 GTTGTTTTCATTACCCAAAGTGAAG
2153376 GTTGTTTTCATTACCCAAAGTGAAG
1 GTTGTTTTCATTACCCAAAGTGAAG
2153401 GTTGTTTTC
1 GTTGTTTTC
2153410 TACAACCCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (25 bp):
GTTGTTTTCATTACCCAAAGTGAAG
Found at i:2154622 original size:19 final size:19
Alignment explanation
Indices: 2154598--2154651 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
2154588 GTTTGACATG
*
2154598 TGTTTGACCTGACCCGAAC
1 TGTTTGACCAGACCCGAAC
2154617 TGTTTGACCAGACCCGAAC
1 TGTTTGACCAGACCCGAAC
2154636 TGTTTGACCAGACCCG
1 TGTTTGACCAGACCCG
2154652 TTGACTTTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.24
Consensus pattern (19 bp):
TGTTTGACCAGACCCGAAC
Found at i:2159005 original size:48 final size:48
Alignment explanation
Indices: 2158936--2159414 Score: 570
Period size: 48 Copynumber: 9.9 Consensus size: 48
2158926 ATGGATCGCA
* *
2158936 TCTCTT-TCC-AGATCTGATATTCCCTTCAGAGTAAGCGGAACATGCC
1 TCTCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACATGTC
*
2158982 TCTCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACATGTC
1 TCTCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACATGTC
** * * *
2159030 TCTCTTCTTAAAGATTTGATATTCCCTTAAGAGTAAGAGAAACATGTC
1 TCTCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACATGTC
* ** * * *
2159078 TCTCAACTTC-CCTAGACCTGATATTTCTCTTCAGAGTAAACGGAACATGCC
1 TCT---CTTCTCCAAGATTTGATA-TTCCCTTCAGAGTAAGCGGAACATGTC
*
2159129 TCTCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACATGTC
1 TCTCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACATGTC
** * *
2159177 TCTCTTCTTAAAGATTTGATATTCCCTTAAGAGTAAGAGGAACATGTC
1 TCTCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACATGTC
* ** * * *
2159225 TCTCAACTTC-CCTAGACCTGATATTTCCTTCAGAGTAAGCGGAATAAGTC
1 TCT---CTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACATGTC
* * *
2159275 TCTCTTCTCAAAGATTTGATATTCCCTTCAGAGTAAGAGGAACAAGTC
1 TCTCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACATGTC
* * *
2159323 TCTTTTTTCCAAGATTTGATATTCCCTTTAGAGTAAGCGGAACATGTC
1 TCTCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACATGTC
* *
2159371 TCTCTTTTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACA
1 TCTCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACA
2159415 AGTATGCCCC
Statistics
Matches: 366, Mismatches: 56, Indels: 20
0.83 0.13 0.05
Matches are distributed among these distances:
46 6 0.02
47 7 0.02
48 270 0.74
49 10 0.03
50 41 0.11
51 32 0.09
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (48 bp):
TCTCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACATGTC
Found at i:2159226 original size:147 final size:146
Alignment explanation
Indices: 2158949--2159414 Score: 713
Period size: 147 Copynumber: 3.2 Consensus size: 146
2158939 CTTTCCAGAT
*
2158949 CTGATATTCCCTTCAGAGTAAGCGGAACATGCCTCTCTTCTCCAAGATTTGATATTCCCTTCAGA
1 CTGATATTTCCTTCAGAGTAAGCGGAACATGCCTCTCTTCTCCAAGATTTGATATTCCCTTCAGA
*
2159014 GTAAGTGGAACATGTCTCTCTTCTTAAAGATTTGATATTCCCTTAAGAGTAAGAGAAACATGTCT
66 GTAAGTGGAACATGTCTCTCTTCTTAAAGATTTGATATTCCCTTAAGAGTAAGAGGAACATGTCT
2159079 CTCAACTTCCCTAGAC
131 CTCAACTTCCCTAGAC
*
2159095 CTGATATTTCTCTTCAGAGTAAACGGAACATGCCTCTCTTCTCCAAGATTTGATATTCCCTTCAG
1 CTGATATTTC-CTTCAGAGTAAGCGGAACATGCCTCTCTTCTCCAAGATTTGATATTCCCTTCAG
2159160 AGTAAGTGGAACATGTCTCTCTTCTTAAAGATTTGATATTCCCTTAAGAGTAAGAGGAACATGTC
65 AGTAAGTGGAACATGTCTCTCTTCTTAAAGATTTGATATTCCCTTAAGAGTAAGAGGAACATGTC
2159225 TCTCAACTTCCCTAGAC
130 TCTCAACTTCCCTAGAC
* * * *
2159242 CTGATATTTCCTTCAGAGTAAGCGGAATAAGTCTCTCTTCTCAAAGATTTGATATTCCCTTCAGA
1 CTGATATTTCCTTCAGAGTAAGCGGAACATGCCTCTCTTCTCCAAGATTTGATATTCCCTTCAGA
* * * * * *
2159307 GTAAGAGGAACAAGTCTCT-TTTTTCCAAGATTTGATATTCCCTTTAGAGTAAGCGGAACATGTC
66 GTAAGTGGAACATGTCTCTCTTCTT-AAAGATTTGATATTCCCTTAAGAGTAAGAGGAACATGTC
* * * *
2159371 TCTC--TTTTCCAAGAT
130 TCTCAACTTCCCTAGAC
* * *
2159386 TTGATATTCCCTTCAGAGTAAGTGGAACA
1 CTGATATTTCCTTCAGAGTAAGCGGAACA
2159415 AGTATGCCCC
Statistics
Matches: 296, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
144 32 0.11
145 4 0.01
146 116 0.39
147 144 0.49
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.33
Consensus pattern (146 bp):
CTGATATTTCCTTCAGAGTAAGCGGAACATGCCTCTCTTCTCCAAGATTTGATATTCCCTTCAGA
GTAAGTGGAACATGTCTCTCTTCTTAAAGATTTGATATTCCCTTAAGAGTAAGAGGAACATGTCT
CTCAACTTCCCTAGAC
Found at i:2159823 original size:3 final size:3
Alignment explanation
Indices: 2159817--2159857 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
2159807 TCCTCTTTTT
* * *
2159817 TTA TTA TAA TAA TTA TTA TTA CTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2159858 TATTTTTACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:2161483 original size:21 final size:21
Alignment explanation
Indices: 2161438--2161483 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
2161428 TTAATTTTAT
2161438 AATG-ACATTTATATATATGA
1 AATGTACATTTATATATATGA
* *
2161458 CATGTACATATTATAT-TATTA
1 AATGTACAT-TTATATATATGA
2161479 AATGT
1 AATGT
2161484 TATTTTCAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 3 0.14
21 12 0.57
22 6 0.29
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (21 bp):
AATGTACATTTATATATATGA
Found at i:2164886 original size:25 final size:27
Alignment explanation
Indices: 2164857--2164914 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 27
2164847 TGATTAATTT
*
2164857 ATTTTAATTTGTGTAA-AAAATTAA-A
1 ATTTTAATTTATGTAATAAAATTAATA
* *
2164882 ATTTT-ATTTATTTAATAAAATTAATT
1 ATTTTAATTTATGTAATAAAATTAATA
2164908 ATTTTAA
1 ATTTTAA
2164915 AATAATATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 8 0.30
25 13 0.48
26 5 0.19
27 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (27 bp):
ATTTTAATTTATGTAATAAAATTAATA
Found at i:2165550 original size:22 final size:22
Alignment explanation
Indices: 2165507--2165550 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
2165497 TATTAGGAGG
2165507 ATTTTTTTTATCTTCTTCTAAA
1 ATTTTTTTTATCTTCTTCTAAA
2165529 ATTTTTATTT-TCTCTCTT-TAAA
1 ATTTTT-TTTATCT-TCTTCTAAA
2165551 TAAATTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTTTTTTTATCTTCTTCTAAA
Found at i:2170837 original size:23 final size:22
Alignment explanation
Indices: 2170811--2170853 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
2170801 TATAAAAAAT
2170811 TATTTTTTATTAAATATTTTTGG
1 TATTTTTTATTAAAT-TTTTTGG
*
2170834 TATTTTTTATTTAATTTTTT
1 TATTTTTTATTAAATTTTTT
2170854 AAATAATTAT
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:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (22 bp):
TATTTTTTATTAAATTTTTTGG
Found at i:2180622 original size:43 final size:43
Alignment explanation
Indices: 2180540--2180622 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
2180530 AGGTATCGAG
* * * * *
2180540 ACAAACGTCACAATAGGTTTTGATATTTAGCGACGTTTTTCCC
1 ACAAACGCCACAATAGGTGTTGAGATTTAACGACATTTTTCCC
*
2180583 ACAAACGCCACAATAGGTGTTGAGATTTAACGGCATTTTT
1 ACAAACGCCACAATAGGTGTTGAGATTTAACGACATTTTT
2180623 TTATTCAAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (43 bp):
ACAAACGCCACAATAGGTGTTGAGATTTAACGACATTTTTCCC
Found at i:2180677 original size:44 final size:43
Alignment explanation
Indices: 2180628--2180783 Score: 197
Period size: 44 Copynumber: 3.6 Consensus size: 43
2180618 TTTTTTTATT
* * *
2180628 CAAACGCAGCTAAATGTATAGTATATAGCGGTGTTTTTAGGATA
1 CAAACGC-GCTAAAGGTATGGTATATAGCGGTATTTTTAGGATA
* *
2180672 TAAACGTCGCTAAAGGTATGGTATATAGCGGCATTTTTAGGATA
1 CAAACG-CGCTAAAGGTATGGTATATAGCGGTATTTTTAGGATA
* *
2180716 CAAAC-CGCTAAAGGTCTGGTATATAACGGTATTTTTAGGATA
1 CAAACGCGCTAAAGGTATGGTATATAGCGGTATTTTTAGGATA
* *
2180758 CAAACGCCGTTAAATGTATGGTATAT
1 CAAACG-CGCTAAAGGTATGGTATAT
2180784 TGAGGCATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
42 39 0.40
44 57 0.59
45 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.31
Consensus pattern (43 bp):
CAAACGCGCTAAAGGTATGGTATATAGCGGTATTTTTAGGATA
Found at i:2180709 original size:86 final size:86
Alignment explanation
Indices: 2180613--2180814 Score: 214
Period size: 86 Copynumber: 2.3 Consensus size: 86
2180603 TGAGATTTAA
* * *
2180613 CGGCATTTTTTTATTCAAACGCAGCTAAATGTATAGTATATAGCGGTGTTTTTAGGATATAAACG
1 CGGCA-TTTTTTATTCAAACGCAGCTAAATGTATAGTATATAACGGTATTTTTAGGATACAAACG
*
2180678 TCGCTAAAGGTATGGTATATAG
65 CCGCTAAAGGTATGGTATATAG
* * * * *
2180700 CGGCATTTTTAGGATACAAAC-C-GCTAAAGGTCTGGTATATAACGGTATTTTTAGGATACAAAC
1 CGGCATTTTT--TATTCAAACGCAGCTAAATGTATAGTATATAACGGTATTTTTAGGATACAAAC
* * *
2180763 GCCGTTAAATGTATGGTATATTG
64 GCCGCTAAAGGTATGGTATATAG
*
2180786 AGGCATTTTTT-TTACAAACGCCA-CTAAAT
1 CGGCATTTTTTATT-CAAACG-CAGCTAAAT
2180815 AACATAGAAT
Statistics
Matches: 93, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
83 1 0.01
84 5 0.05
86 74 0.80
87 6 0.06
88 7 0.08
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (86 bp):
CGGCATTTTTTATTCAAACGCAGCTAAATGTATAGTATATAACGGTATTTTTAGGATACAAACGC
CGCTAAAGGTATGGTATATAG
Found at i:2181855 original size:31 final size:31
Alignment explanation
Indices: 2181817--2182003 Score: 277
Period size: 31 Copynumber: 6.0 Consensus size: 31
2181807 AGGGTCGAGG
*
2181817 GTTTACCTATGTTCTTCGGGACATATGAACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
2181848 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
2181879 ATTTACCTATGTTCTTCGGGACATATGGGA-T
1 GTTTACCTATGTTCTTCGGGACATAT-GGACT
* *
2181910 GTTTACCTATGTTCTTCGGGACATATGAAAT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
2181941 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * * *
2181972 GATTACCTAGGTTCTTCGGAACCTATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
2182003 G
1 G
2182004 GTCCTTCGGG
Statistics
Matches: 144, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
30 2 0.01
31 139 0.97
32 3 0.02
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:2181978 original size:93 final size:93
Alignment explanation
Indices: 2181817--2181999 Score: 305
Period size: 93 Copynumber: 2.0 Consensus size: 93
2181807 AGGGTCGAGG
* *
2181817 GTTTACCTATGTTCTTCGGGACATATGAACTGTTTACCTATGTTCTTCGGGACATATGGACTATT
1 GTTTACCTATGTTCTTCGGGACATATGAAATGTTTACCTATGTTCTTCGGAACATATGGACTATT
* *
2181882 TACCTATGTTCTTCGGGACATATGGGAT
66 TACCTAGGTTCTTCGGAACATATGGGAT
2181910 GTTTACCTATGTTCTTCGGGACATATGAAATGTTTACCTATGTTCTTCGGAACATATGGACTGA-
1 GTTTACCTATGTTCTTCGGGACATATGAAATGTTTACCTATGTTCTTCGGAACATATGGACT-AT
*
2181974 TTACCTAGGTTCTTCGGAACCTATGG
65 TTACCTAGGTTCTTCGGAACATATGG
2182000 ACTGGTCCTT
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
93 83 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (93 bp):
GTTTACCTATGTTCTTCGGGACATATGAAATGTTTACCTATGTTCTTCGGAACATATGGACTATT
TACCTAGGTTCTTCGGAACATATGGGAT
Found at i:2184033 original size:42 final size:43
Alignment explanation
Indices: 2183970--2184067 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 43
2183960 TAAACAACCA
* * *
2183970 TATTACGACGTTT-TAGATATAAACGCCGCTAATTTACCACTC
1 TATTATGACGTTTGTAGATATAAACGCCGCTAAATTAACACTC
* * *
2184012 TATTATGACGTTTGT-GGTATAAACGCTGCTAAATTAACAGTC
1 TATTATGACGTTTGTAGATATAAACGCCGCTAAATTAACACTC
* *
2184054 TATTGTGGCGTTTG
1 TATTATGACGTTTG
2184068 GACTAAAACA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 46 0.98
43 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (43 bp):
TATTATGACGTTTGTAGATATAAACGCCGCTAAATTAACACTC
Found at i:2192694 original size:22 final size:22
Alignment explanation
Indices: 2192669--2192714 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
2192659 TTACATGTCA
2192669 ACCAAATTCAGTATAACAAAAT
1 ACCAAATTCAGTATAACAAAAT
2192691 ACCAAATTCAGTATAACAAAAT
1 ACCAAATTCAGTATAACAAAAT
2192713 AC
1 AC
2192715 ATACGGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.54, C:0.20, G:0.04, T:0.22
Consensus pattern (22 bp):
ACCAAATTCAGTATAACAAAAT
Found at i:2194334 original size:15 final size:15
Alignment explanation
Indices: 2194314--2194354 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
2194304 TGACATAAGT
2194314 TATGTGA-AAATGGTC
1 TATGTGATAAAT-GTC
2194329 TATGTGAATAAATGTC
1 TATGTG-ATAAATGTC
2194345 TATGTGATAA
1 TATGTGATAA
2194355 GCTATGTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.42
16 10 0.42
17 4 0.17
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.37
Consensus pattern (15 bp):
TATGTGATAAATGTC
Found at i:2195521 original size:23 final size:23
Alignment explanation
Indices: 2195424--2195524 Score: 112
Period size: 23 Copynumber: 4.4 Consensus size: 23
2195414 ACCAAAGTGT
*
2195424 CACGTAGAAATGTCCCAAAGGAC
1 CACGTAGAAATGTCCCGAAGGAC
* * *
2195447 CACATACAAATATCCCGAAGGAC
1 CACGTAGAAATGTCCCGAAGGAC
** * *
2195470 TTCATAGAAATGTCGCGAAGGAC
1 CACGTAGAAATGTCCCGAAGGAC
*
2195493 CACGTAGAATTGTCCCGAAGGAC
1 CACGTAGAAATGTCCCGAAGGAC
*
2195516 CGCGTAGAA
1 CACGTAGAA
2195525 CCCTCGACTC
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.16
Consensus pattern (23 bp):
CACGTAGAAATGTCCCGAAGGAC
Found at i:2195663 original size:14 final size:13
Alignment explanation
Indices: 2195630--2195708 Score: 52
Period size: 14 Copynumber: 5.5 Consensus size: 13
2195620 TAGACAAATA
*
2195630 ATCACATAGATCAT
1 ATCACATA-ATTAT
2195644 -TCACATAACTTAT
1 ATCACATAA-TTAT
**
2195657 ATCACATTTTCATAT
1 ATCACATAAT--TAT
2195672 AATCACATAATTCAAT
1 -ATCACATAATT--AT
2195688 ATCACATAGATTAT
1 ATCACATA-ATTAT
2195702 ATCACAT
1 ATCACAT
2195709 TTTTATGTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
12 1 0.02
13 11 0.21
14 16 0.31
15 11 0.21
16 13 0.25
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.35
Consensus pattern (13 bp):
ATCACATAATTAT
Found at i:2195674 original size:43 final size:44
Alignment explanation
Indices: 2195627--2195739 Score: 142
Period size: 45 Copynumber: 2.6 Consensus size: 44
2195617 ATATAGACAA
2195627 ATAATCACATAGATCAT-TCACATAACTTATATCACATTTTCAT
1 ATAATCACATAGATCATATCACATAACTTATATCACATTTTCAT
*
2195670 ATAATCACATA-ATTCAATATCACATAGA-TTATATCACATTTTTAT
1 ATAATCACATAGA-TC-ATATCACATA-ACTTATATCACATTTTCAT
* * *
2195715 GTAATTACATAGATCATGTCACATA
1 ATAATCACATAGATCATATCACATA
2195740 GTATAAAATA
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
42 1 0.02
43 13 0.21
44 11 0.18
45 34 0.56
46 2 0.03
ACGTcount: A:0.41, C:0.18, G:0.04, T:0.37
Consensus pattern (44 bp):
ATAATCACATAGATCATATCACATAACTTATATCACATTTTCAT
Found at i:2195703 original size:45 final size:43
Alignment explanation
Indices: 2195600--2195739 Score: 140
Period size: 43 Copynumber: 3.2 Consensus size: 43
2195590 TTTATACCAT
* * *** *
2195600 TTCACATAGCTTATATCATATAGACAAATAATCACATAGATCA
1 TTCACATAACTTATATCACATTTTCATATAATCACATAGATCA
2195643 TTCACATAACTTATATCACATTTTCATATAATCACATA-ATTCAA
1 TTCACATAACTTATATCACATTTTCATATAATCACATAGA-TC-A
* * *
2195687 TATCACATAGA-TTATATCACATTTTTATGTAATTACATAGATCA
1 T-TCACATA-ACTTATATCACATTTTCATATAATCACATAGATCA
2195731 TGTCACATA
1 T-TCACATA
2195740 GTATAAAATA
Statistics
Matches: 82, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
42 1 0.01
43 34 0.41
44 11 0.13
45 34 0.41
46 2 0.02
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (43 bp):
TTCACATAACTTATATCACATTTTCATATAATCACATAGATCA
Found at i:2209069 original size:100 final size:100
Alignment explanation
Indices: 2208896--2209098 Score: 406
Period size: 100 Copynumber: 2.0 Consensus size: 100
2208886 GAAATTTAAG
2208896 CAGTTTTATGACCAATTACAGTTTTTTATGGAAAAAAATATTAGAAGTGCCTTTTTTATATTTTT
1 CAGTTTTATGACCAATTACAGTTTTTTATGGAAAAAAATATTAGAAGTGCCTTTTTTATATTTTT
2208961 CATTATATAAGTTTTTCAATTCTTTAATATTAGGC
66 CATTATATAAGTTTTTCAATTCTTTAATATTAGGC
2208996 CAGTTTTATGACCAATTACAGTTTTTTATGGAAAAAAATATTAGAAGTGCCTTTTTTATATTTTT
1 CAGTTTTATGACCAATTACAGTTTTTTATGGAAAAAAATATTAGAAGTGCCTTTTTTATATTTTT
2209061 CATTATATAAGTTTTTCAATTCTTTAATATTAGGC
66 CATTATATAAGTTTTTCAATTCTTTAATATTAGGC
2209096 CAG
1 CAG
2209099 ACTTTAGGTG
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 103 1.00
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.46
Consensus pattern (100 bp):
CAGTTTTATGACCAATTACAGTTTTTTATGGAAAAAAATATTAGAAGTGCCTTTTTTATATTTTT
CATTATATAAGTTTTTCAATTCTTTAATATTAGGC
Found at i:2209912 original size:3 final size:3
Alignment explanation
Indices: 2209904--2209934 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
2209894 ATTGCAATTG
*
2209904 TCT TCT TCT TCT TCT TCT TCT TCC TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
2209935 GTTATTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:2212666 original size:29 final size:31
Alignment explanation
Indices: 2212625--2212697 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 31
2212615 TAAATTATAT
* * * *
2212625 TAAAATGACCATTGGAGTT-TCAAAA-GTTA
1 TAAAATGATCATTGAACTTATCAAAATATTA
2212654 TAAAATGATCATTGAACTTATCAAAATATTA
1 TAAAATGATCATTGAACTTATCAAAATATTA
*
2212685 CAAAATGATCATT
1 TAAAATGATCATT
2212698 ACATGTTATG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 16 0.43
30 6 0.16
31 15 0.41
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (31 bp):
TAAAATGATCATTGAACTTATCAAAATATTA
Found at i:2215527 original size:182 final size:183
Alignment explanation
Indices: 2215227--2215706 Score: 682
Period size: 182 Copynumber: 2.6 Consensus size: 183
2215217 GTCGATCCAA
* * * *
2215227 ATAAAATATGTATCGATCCATATCAATATAACATGTAAAAATATGACAAAATCGGTCA-CGAAAA
1 ATAAAA-ATGTATCGATCCACAACGATATAACATGTAAAAATATGACAAAATCGGT-ATCGAAAT
* * * * * *
2215291 AACAATACCGGTAAAGCACTACCGGATATATTGAAAGT-GTCGATACTTTAATATAAGTATCGAC
64 GATAAAACCGGTAAATCACTACCGGATATATTGAAAGTGGTCAATACTGTAATATAAGTATCGAC
* * *
2215355 ACTTTGTGAATTTAAAAGAGAATCAGTTTTAGCGCCTATAAAGTGTCGATACTTT
129 ACTTTGTGAATTTAAAAAAGAAGCAGTTTTAACGCCTATAAAGTGTCGATACTTT
* *
2215410 ATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTATCGAAATGA
1 ATAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGACAAAATCGGTATCGAAATGA
* *
2215475 TAAAACCGGTAAATTACTACCGGATATATTGAAAGTGGT-AATACTGTAATATAAGTATTGACAC
66 TAAAACCGGTAAATCACTACCGGATATATTGAAAGTGGTCAATACTGTAATATAAGTATCGACAC
2215539 TTTGTGAATTTAAAAAAGAAGCAGTTTTAACGCCTATAAAGTGTCGATACTTT
131 TTTGTGAATTTAAAAAAGAAGCAGTTTTAACGCCTATAAAGTGTCGATACTTT
** * * *
2215592 A-AAAAAAATATCGATTCACAACGATATAACATGTAAAAAAATGACAAAATAGGTATCGAAATGA
1 ATAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGACAAAATCGGTATCGAAATGA
* * *
2215656 TAAAACCGGTAAATCGCTACCGGATATATTGAAAGT-GTCGATACTTTAATA
66 TAAAACCGGTAAATCACTACCGGATATATTGAAAGTGGTCAATACTGTAATA
2215707 AGTACGTGTA
Statistics
Matches: 266, Mismatches: 28, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
180 2 0.01
181 101 0.38
182 155 0.58
183 8 0.03
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.28
Consensus pattern (183 bp):
ATAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGACAAAATCGGTATCGAAATGA
TAAAACCGGTAAATCACTACCGGATATATTGAAAGTGGTCAATACTGTAATATAAGTATCGACAC
TTTGTGAATTTAAAAAAGAAGCAGTTTTAACGCCTATAAAGTGTCGATACTTT
Found at i:2217520 original size:22 final size:23
Alignment explanation
Indices: 2217469--2217524 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 23
2217459 ACTTTTTATC
*
2217469 ATTTT-TTATATAAAATGATAGT
1 ATTTTATTATATAAAATGATAGA
* *
2217491 ATAGTTATTATATAAAATTATA-A
1 AT-TTTATTATATAAAATGATAGA
2217514 ATTTTATTATA
1 ATTTTATTATA
2217525 AATGCAGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 10 0.36
23 4 0.14
24 14 0.50
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (23 bp):
ATTTTATTATATAAAATGATAGA
Found at i:2217927 original size:21 final size:21
Alignment explanation
Indices: 2217901--2217965 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
2217891 AAGAAAATCA
2217901 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
2217922 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
2217943 AGAGTCAAAGAGACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
2217964 AG
1 AG
2217966 GCATAAGGGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.43, C:0.11, G:0.32, T:0.14
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:2218056 original size:33 final size:33
Alignment explanation
Indices: 2218014--2218079 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2218004 AAATAGATGG
* *
2218014 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAAGGGTGA
*
2218047 AGTGGTGAAAGAAGTTGAGGTGTTAAAGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAAGGGTGA
2218080 TCTTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.32, C:0.00, G:0.45, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAAGGGTGA
Found at i:2218299 original size:18 final size:18
Alignment explanation
Indices: 2218262--2218300 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2218252 GAAAAAATAT
*
2218262 GAAGAAGAAAAGAGGGAG
1 GAAGAAGAAAAGAGGAAG
*
2218280 GAAGAAGAAAAGATGAAG
1 GAAGAAGAAAAGAGGAAG
2218298 GAA
1 GAA
2218301 ATGAGGAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (18 bp):
GAAGAAGAAAAGAGGAAG
Found at i:2219898 original size:19 final size:19
Alignment explanation
Indices: 2219874--2219922 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
2219864 AATGTAGGGT
2219874 TAATTTTGTATAATATTTA
1 TAATTTTGTATAATATTTA
* *
2219893 TAATTTTGTTTATTATTTA
1 TAATTTTGTATAATATTTA
2219912 TAATTTTGTAT
1 TAATTTTGTAT
2219923 GTGAATGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (19 bp):
TAATTTTGTATAATATTTA
Found at i:2222035 original size:127 final size:128
Alignment explanation
Indices: 2221809--2222075 Score: 362
Period size: 127 Copynumber: 2.1 Consensus size: 128
2221799 ATAAAATGTT
*
2221809 GATACATTTTTAAAAAGTAACGACCCCAAAAACATTAAAACCGATAATTATAATGTAATAGGTAA
1 GATACATTTTTAAAAAGTAACGACCCCAAAAACATCAAAACCGATAATTATAATGTAATAGGTAA
* * *
2221874 ATTTACAATGTAACCGGTATAAATATACAGGTTTTATGA-AAAATAGGTCTATAACATGTATC
66 ATTTACAATATAACCGGTATAAATATACAGGTTTTATGAGAAAATAGGTATACAACATGTATC
** * *
2221936 GATACATTTTCT-AAAAGTGTCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTA
1 GATACATTTT-TAAAAAGTAACGACCCCAAAAACATCAAAACCGATAATTATAATGTAATAGGTA
* ** * *
2222000 ATTTTGTAATATAACCGGTATAAATATA-ATGGTTTTATGAGAGAATAGGTATACAATATGTATC
65 AATTTACAATATAACCGGTATAAATATACA-GGTTTTATGAGAAAATAGGTATACAACATGTATC
*
2222064 GACAC-TTTTTAA
1 GATACATTTTTAA
2222076 TATTGTGTCG
Statistics
Matches: 122, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
126 2 0.02
127 96 0.79
128 24 0.20
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (128 bp):
GATACATTTTTAAAAAGTAACGACCCCAAAAACATCAAAACCGATAATTATAATGTAATAGGTAA
ATTTACAATATAACCGGTATAAATATACAGGTTTTATGAGAAAATAGGTATACAACATGTATC
Found at i:2222091 original size:21 final size:20
Alignment explanation
Indices: 2222054--2222095 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
2222044 ATAGGTATAC
2222054 AATATGTATCGACACTTTTT
1 AATATGTATCGACACTTTTT
* *
2222074 AATATTGTGTCGATACTTTTT
1 AATA-TGTATCGACACTTTTT
2222095 A
1 A
2222096 TCCAGAATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.48
Consensus pattern (20 bp):
AATATGTATCGACACTTTTT
Found at i:2222277 original size:200 final size:200
Alignment explanation
Indices: 2221934--2222693 Score: 1207
Period size: 200 Copynumber: 3.8 Consensus size: 200
2221924 ATAACATGTA
* *
2221934 TCGATACATTTTCTAAAAGTGTCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGT
1 TCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
* * *
2221999 AATTTTGTAATATAACCGGTATAAATATAAT-GGTTTTATGAGAGAATAGGTATACAATATGTAT
66 AATTTTGTAATATAACCGATATAAATAT-ATCGGTTTTATGAGAGAATAGGTCTACAACATGTAT
* * * * *
2222063 CGACACTTTTTAATATTGTGTCGATACTTTTTATCCAGAATGGATGTCAAAAAGGGTTAACGCAC
130 CGACACTTTTTAATATTGTGTCGATACTTTTTGTCCAGAATGGATGCCAAAAAGGGTGAACGAAT
2222128 AAAGTG
195 AAAGTG
* * * * *
2222134 TCGATACATTTTCAAAAAGTGTCGATTCCTAAAACAACGTAACCGATAATTATAATGTAATAGGT
1 TCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
* *
2222199 AATTTTGTAATATAACCGATATAAATATATCGGTTTTATGAGATAATAGGTCTACAAGATGTATC
66 AATTTTGTAATATAACCGATATAAATATATCGGTTTTATGAGAGAATAGGTCTACAACATGTATC
* * * *
2222264 GGCACTTTTTAATATTATGTCGATACTTTTTGTCTATAATGGATGCCAAAAAGGGTGAACGAATA
131 GACACTTTTTAATATTGTGTCGATACTTTTTGTCCAGAATGGATGCCAAAAAGGGTGAACGAATA
2222329 AAGTG
196 AAGTG
* *
2222334 TCGATACATTTTCAAAATGTGTTGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
1 TCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
*
2222399 AATTTTGTAATATAACCGGTATAAATATATCGGTTTTATGAGAGAATAGGTCTACAACATGTATC
66 AATTTTGTAATATAACCGATATAAATATATCGGTTTTATGAGAGAATAGGTCTACAACATGTATC
*
2222464 GACACTTTTTAATATTGTGTCGATACTTTTTGTCCTGAATGGATGCCAAAAAGGGTGAACGAATA
131 GACACTTTTTAATATTGTGTCGATACTTTTTGTCCAGAATGGATGCCAAAAAGGGTGAACGAATA
2222529 AAGTG
196 AAGTG
* * * *
2222534 TCGATACATTTTCAAAAAGTGTTGATCTCAAAAACATTGAAACCCATAATTATAATATAATAGGT
1 TCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
* * *
2222599 AATTTTGTAATATAACCGATATAAATATACCGATTTTATGAGATAATAGGTCTACAACATGTATC
66 AATTTTGTAATATAACCGATATAAATATATCGGTTTTATGAGAGAATAGGTCTACAACATGTATC
*
2222664 GATACTTTTTAATATTGTGTCGATACTTTT
131 GACACTTTTTAATATTGTGTCGATACTTTT
2222694 AAATAACGTG
Statistics
Matches: 517, Mismatches: 42, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
199 2 0.00
200 515 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (200 bp):
TCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGT
AATTTTGTAATATAACCGATATAAATATATCGGTTTTATGAGAGAATAGGTCTACAACATGTATC
GACACTTTTTAATATTGTGTCGATACTTTTTGTCCAGAATGGATGCCAAAAAGGGTGAACGAATA
AAGTG
Found at i:2224307 original size:17 final size:17
Alignment explanation
Indices: 2224281--2224314 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2224271 ATACGATTTA
* *
2224281 TAATTTTGTATGTGATG
1 TAATTATGTATGAGATG
2224298 TAATTATGTATGAGATG
1 TAATTATGTATGAGATG
2224315 AGAAAAGTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (17 bp):
TAATTATGTATGAGATG
Found at i:2226986 original size:21 final size:21
Alignment explanation
Indices: 2226962--2227016 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
2226952 GTGCACGCAT
*
2226962 AAAGTGTCGATACATTTATTA
1 AAAGTATCGATACATTTATTA
2226983 AAAGTATCGATACATTTATTA
1 AAAGTATCGATACATTTATTA
2227004 AAAGTATCGATAC
1 AAAGTATCGATAC
2227017 CAAAAACATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.35
Consensus pattern (21 bp):
AAAGTATCGATACATTTATTA
Found at i:2227173 original size:221 final size:221
Alignment explanation
Indices: 2226797--2227200 Score: 596
Period size: 221 Copynumber: 1.8 Consensus size: 221
2226787 TATCGGCCCA
*
2226797 AAAAACATCAAAACCAATAATTATAATGTAATAGGTAAATTAACAATGTAACTGGTATAAATATA
1 AAAAACATCAAAACCAATAATTATAATGTAATAGGTAAATTAACAATGTAACTGATATAAATATA
* * * * *
2226862 CCGGTTAATTAGAAAACAGATCAACATAATGTATCGACACTTGTGGAATTTGTGTCGATACTTAT
66 CCGGTTAATGAGAAAACAGATCAACATAAAGTATCGACAATTGTGAAATTTATGTCGATACTTAT
* *
2226927 TGTCCAGAATGAATGCCCAAACGAGGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTATCG
131 TGTCCAGAATGAATGCCCAAACGAGGTGCAAGAATAAAGTGTCGATACATTTATTAAAAGTATCG
2226992 ATACATTTATTAAAAGTATCGATACC
196 ATACATTTATTAAAAGTATCGATACC
** * *
2227018 AAAAACATTGAAATCAATAATTATAATGTAATAGGTAAATTTACAATGTAACTGATATAAATATA
1 AAAAACATCAAAACCAATAATTATAATGTAATAGGTAAATTAACAATGTAACTGATATAAATATA
* * * * * *
2227083 CCAGTTTTATGAGAAAATAGGTCAGCATAAAGTATCGACAATTGTTAAATTTATGTCGATACATT
66 CC-GGTTAATGAGAAAACAGATCAACATAAAGTATCGACAATTGTGAAATTTATGTCGATAC-TT
* *
2227148 -TTGTCCATAATGAATG-CCTAACGAGGTGCAAGAATAAAGTGTCGATACATTTA
129 ATTGTCCAGAATGAATGCCCAAACGAGGTGCAAGAATAAAGTGTCGATACATTTA
2227201 AAATTGTATT
Statistics
Matches: 161, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
221 96 0.60
222 63 0.39
223 2 0.01
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (221 bp):
AAAAACATCAAAACCAATAATTATAATGTAATAGGTAAATTAACAATGTAACTGATATAAATATA
CCGGTTAATGAGAAAACAGATCAACATAAAGTATCGACAATTGTGAAATTTATGTCGATACTTAT
TGTCCAGAATGAATGCCCAAACGAGGTGCAAGAATAAAGTGTCGATACATTTATTAAAAGTATCG
ATACATTTATTAAAAGTATCGATACC
Found at i:2227603 original size:64 final size:64
Alignment explanation
Indices: 2227530--2227649 Score: 213
Period size: 64 Copynumber: 1.9 Consensus size: 64
2227520 TACCTATTAC
2227530 ATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAATGCTTATTTT
1 ATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAATGCTTATTTT
* * *
2227594 ATTATATAAGCGCTACCTAATATGTTGTTGTACTTGATAATATTTCTGGTTAAATG
1 ATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAATG
2227650 ATATAACATA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (64 bp):
ATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTTCCGGTTAAATGCTTATTTT
Found at i:2232141 original size:64 final size:65
Alignment explanation
Indices: 2232012--2232145 Score: 202
Period size: 64 Copynumber: 2.1 Consensus size: 65
2232002 CTCATTCTAA
*
2232012 TAAACCAAATATACCGTGTATATATTATATATACTCAATTTGCACGAATCAAATTAACGTTGTGA
1 TAAACCAAATATACCGTGTATATATTATATATACTCAATTTGCACAAATCAAATTAACG-TGTGA
2232077 T
65 T
*
2232078 TAAACCAAATATACCGTGTATATA-T-TATATACTTAATTTGCACAAATCAAATTACCACG-GTG
1 TAAACCAAATATACCGTGTATATATTATATATACTCAATTTGCACAAATCAAATTA--ACGTGTG
2232140 AT
64 AT
2232142 TAAA
1 TAAA
2232146 GAGATAGTTA
Statistics
Matches: 64, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
64 36 0.56
65 1 0.02
66 27 0.42
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.34
Consensus pattern (65 bp):
TAAACCAAATATACCGTGTATATATTATATATACTCAATTTGCACAAATCAAATTAACGTGTGAT
Found at i:2234622 original size:181 final size:183
Alignment explanation
Indices: 2234266--2234740 Score: 693
Period size: 182 Copynumber: 2.6 Consensus size: 183
2234256 GATCCAAATT
* * * **
2234266 AAAAATGTATCGATCCACAACGATATAACAGGTAAAACTATGACAAAACCAGTATTGAAATGATA
1 AAAAATGTATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCAGTATCAAAATGATA
* * * * *
2234331 AAACCGGTAAAGCGGTACCGAATATATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* * * *
2234396 GTTAATTTAAAAGAGAAGTAGTTTTAGCGCCTATAAAGTGTCGATACTTT-CA
131 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAATGTCGATACTTTAAA
* * ** *
2234448 AAAAATATATCGATCAACAACGATATAACATGTAAAAATATGATAAAACTGGTATCAAAATGATG
1 AAAAATGTATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCAGTATCAAAATGATA
* * * *
2234513 AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGAAACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
2234577 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAATGTCGATACTTTAAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAATGTCGATACTTTAAA
*
2234630 AAAAATGTATCGATCAAACAACGATATAGCAGGTAAAAATATGATAAAACCAGTATCAAAATGAT
1 AAAAATGTATCGATC-AACAACGATATAACAGGTAAAAATATGATAAAACCAGTATCAAAATGAT
* *
2234695 AAAACCGGTAAAATGATACCAGATATATTAAAAGTGTCGATACTTT
65 AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
2234741 CGTAAGTACG
Statistics
Matches: 259, Mismatches: 32, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
181 65 0.25
182 109 0.42
183 85 0.33
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (183 bp):
AAAAATGTATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCAGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAATGTCGATACTTTAAA
Found at i:2236869 original size:15 final size:15
Alignment explanation
Indices: 2236849--2236881 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
2236839 TGGTTGTATT
2236849 GGGGGATGACGGTGA
1 GGGGGATGACGGTGA
2236864 GGGGGATGACGGTGA
1 GGGGGATGACGGTGA
2236879 GGG
1 GGG
2236882 AAAACAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.06, G:0.64, T:0.12
Consensus pattern (15 bp):
GGGGGATGACGGTGA
Found at i:2236990 original size:21 final size:21
Alignment explanation
Indices: 2236964--2237004 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2236954 AAGATAATCA
2236964 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAT
* *
2236985 AGAGTCGAAGATACACTTGA
1 AGAGTCGAAGAGAAACTTGA
2237005 GAGGCATAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.27, T:0.20
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAT
Found at i:2237078 original size:33 final size:33
Alignment explanation
Indices: 2237041--2237105 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
2237031 AAATAGATGG
* *
2237041 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTAAAAGAAGTAGAGGTGTTAAGGGGTGA
*
2237074 AGTGGTAAAAGAAGTTGAGGTGTTAAGGGGTG
1 AGTGGTAAAAGAAGTAGAGGTGTTAAGGGGTG
2237106 GTCTTAAGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.46, T:0.23
Consensus pattern (33 bp):
AGTGGTAAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:2238915 original size:19 final size:19
Alignment explanation
Indices: 2238891--2238939 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
2238881 AATGTAGGGT
*
2238891 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
2238910 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
2238929 TAATTTTGTAT
1 TAATTTTGTAT
2238940 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:2239523 original size:200 final size:200
Alignment explanation
Indices: 2239175--2239615 Score: 828
Period size: 200 Copynumber: 2.2 Consensus size: 200
2239165 ATTTACAATT
2239175 TGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACATC
1 TGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACATC
2239240 GAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTTA
66 GAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTTA
* * * *
2239305 TGAGATAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAGA
131 TGACAAAATAGATGTAATACATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAGA
2239370 ATGAA
196 ATGAA
*
2239375 TGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAGAGGTGTCGATCCCAGAAACATC
1 TGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACATC
*
2239440 GAAACCTATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTTA
66 GAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTTA
2239505 TGACAAAATAGATGTAATACATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAGA
131 TGACAAAATAGATGTAATACATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAGA
2239570 ATGAA
196 ATGAA
2239575 TGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATA
1 TGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATA
2239616 TATATAAGTA
Statistics
Matches: 235, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
200 235 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (200 bp):
TGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACATC
GAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGATTTA
TGACAAAATAGATGTAATACATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAGA
ATGAA
Found at i:2239723 original size:132 final size:132
Alignment explanation
Indices: 2239486--2239723 Score: 449
Period size: 132 Copynumber: 1.8 Consensus size: 132
2239476 ATCTAACCGG
*
2239486 TATAAGTATACCGGATTTATGACAAAATAGATGTAATACATGTATCGACACTTTTTAATTTTGTG
1 TATAAGTATACCAGATTTATGACAAAATAGATGTAATACATGTATCGACACTTTTTAATTTTGTG
2239551 TCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATA
66 TCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATA
2239616 TA
131 TA
* *
2239618 TATAAGTATACCAGATTTATGAGAGAATAGATGTAATACATGTATCGACACTTTTTAATTTTGTG
1 TATAAGTATACCAGATTTATGACAAAATAGATGTAATACATGTATCGACACTTTTTAATTTTGTG
2239683 TCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAA
66 TCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAA
2239724 TATATAAAAG
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 103 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (132 bp):
TATAAGTATACCAGATTTATGACAAAATAGATGTAATACATGTATCGACACTTTTTAATTTTGTG
TCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATA
TA
Found at i:2241399 original size:6 final size:6
Alignment explanation
Indices: 2241388--2241439 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
2241378 CAAGCGGTCA
* * * * * *
2241388 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGAAT ATGACG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
2241436 ATGA
1 ATGA
2241440 TGATCCAAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.40, C:0.08, G:0.31, T:0.21
Consensus pattern (6 bp):
ATGAAG
Found at i:2241410 original size:12 final size:12
Alignment explanation
Indices: 2241388--2241439 Score: 68
Period size: 12 Copynumber: 4.3 Consensus size: 12
2241378 CAAGCGGTCA
*
2241388 ATGAAGATGAAG
1 ATGACGATGAAG
*
2241400 CTGACGATGAAG
1 ATGACGATGAAG
*
2241412 ATGACGATGAAT
1 ATGACGATGAAG
*
2241424 ATGACGATGATG
1 ATGACGATGAAG
2241436 ATGA
1 ATGA
2241440 TGATCCAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.40, C:0.08, G:0.31, T:0.21
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:2243017 original size:184 final size:184
Alignment explanation
Indices: 2242703--2243047 Score: 620
Period size: 184 Copynumber: 1.9 Consensus size: 184
2242693 CAGCATAAAG
2242703 TGTCAATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTAATAG
1 TGTCAATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTAATAG
*
2242768 GTAATTTTGTAATATAACCGGTATAGATATACCGGTTTTATGAGAGAATAGGTATACAACCTATA
66 GTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTATACAACCTATA
*
2242833 TCGACACTTTTTAATATTGTGTCGC-TACTTTATGTCCAGAATGGATGAAAAAAA
131 TCGACACTTTTTAATATTATGTC-CATACTTTATGTCCAGAATGGATGAAAAAAA
*
2242887 TGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTAATAG
1 TGTCAATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTAATAG
* * *
2242952 GTAATTTTTTAATATAACCGGTATAAATATACTGGTTTTATGAGAGAATAGGTCTACAACCTATA
66 GTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTATACAACCTATA
2243017 TCGACACTTTTTAATATTATGTCCATACTTT
131 TCGACACTTTTTAATATTATGTCCATACTTT
2243048 TAAGTAACGC
Statistics
Matches: 154, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
183 1 0.01
184 153 0.99
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (184 bp):
TGTCAATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTAATAG
GTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTATACAACCTATA
TCGACACTTTTTAATATTATGTCCATACTTTATGTCCAGAATGGATGAAAAAAA
Found at i:2246396 original size:182 final size:182
Alignment explanation
Indices: 2245746--2246585 Score: 1445
Period size: 182 Copynumber: 4.6 Consensus size: 182
2245736 TTTTACCTTT
* **
2245746 TTTAAAAGAGAAGAAGTTATATCGTTAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAACGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
2245811 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
2245876 CGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
2245928 TTTAAAAGAGAAG-AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAACGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
2245992 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGAAAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
2246057 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* * *
2246107 -TTAATAAGAGAAGAAGTTATAGCGCTAATAACGTGTCGATACTTTATAAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAACGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
2246171 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
65 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
* *
2246236 CCGGTTATGTTGAAAGTGTCGATAATATATTATAAGTATCAACACTTTTGGAA
130 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
2246289 TTTAAAAGAGAAGAAGTTATAACGCCAATAAAGTGTCGATATTTTATAAAAATGTATCGATCTAT
1 TTTAAAAGAGAAGAAGTTATAACGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
2246354 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
* *
2246419 CGGATATGTTGAAAGTGTTGATAATTTATTATAAGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
2246471 TTTAAAAGAGAAGAAGTTATAACGCCAATAAAGTGTCGATATTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAACGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * **
2246536 AATAATATAACATGTAAAAATATGATAAAACCGGTCTATAAATGACAAAA
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAA
2246586 GGTGAACGCA
Statistics
Matches: 626, Mismatches: 27, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
178 4 0.01
179 18 0.03
180 151 0.24
181 150 0.24
182 299 0.48
183 4 0.01
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (182 bp):
TTTAAAAGAGAAGAAGTTATAACGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
Found at i:2246756 original size:23 final size:23
Alignment explanation
Indices: 2246721--2246768 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
2246711 AAATAGGTCA
*
2246721 ATATAAACACTACCTATTACATT
1 ATATAAACACTACCTAATACATT
* * *
2246744 ATATGAACGCTACCTAATATATT
1 ATATAAACACTACCTAATACATT
2246767 AT
1 AT
2246769 TGTACTTGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (23 bp):
ATATAAACACTACCTAATACATT
Found at i:2246867 original size:87 final size:86
Alignment explanation
Indices: 2246721--2246887 Score: 264
Period size: 87 Copynumber: 1.9 Consensus size: 86
2246711 AAATAGGTCA
2246721 ATATAAACACTACCTATTACATTATATGAACGCTACCTAATATATTATTGTACTTGATAATATTT
1 ATATAAACACTACCTATTACATTATATGAACGCTACCTAATATATTATTGTACTTGATAATATTT
2246786 CCGGTTAAATACATATTTTATT
66 CCGGTTAAATA-ATATTTTATT
* * * * *
2246808 ATATAAACACTATCTATTACATTATAT-AGGCGCTGCCTAATATGTTATTGTTCTTGATAATATT
1 ATATAAACACTACCTATTACATTATATGA-ACGCTACCTAATATATTATTGTACTTGATAATATT
2246872 TCCGGTTAAATAATAT
65 TCCGGTTAAATAATAT
2246888 AACATAACTG
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
86 5 0.07
87 69 0.93
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.41
Consensus pattern (86 bp):
ATATAAACACTACCTATTACATTATATGAACGCTACCTAATATATTATTGTACTTGATAATATTT
CCGGTTAAATAATATTTTATT
Found at i:2253985 original size:5 final size:5
Alignment explanation
Indices: 2253977--2254001 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2253967 GTCTAAATGG
2253977 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
2254002 CATTAAGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:2259330 original size:229 final size:227
Alignment explanation
Indices: 2258925--2259373 Score: 799
Period size: 229 Copynumber: 2.0 Consensus size: 227
2258915 GTAAATTATC
* * * *
2258925 TATCCTTTTTATAAAAGTGTTCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
*
2258990 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
2259055 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
2259120 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
2259153 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
2259218 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATT
* *
2259283 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
2259348 GAAACATAAATTACATAACTTTAAAA
195 GAAACATAAATTACATAACTTTAAAA
2259374 GCAGTTTTAA
Statistics
Matches: 211, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
228 39 0.18
229 172 0.82
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:2259629 original size:20 final size:19
Alignment explanation
Indices: 2259606--2259652 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
2259596 CGATATAACA
2259606 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
2259626 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
2259646 GGTAAAA
1 GGTAAAA
2259653 TGATACCAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:2259654 original size:17 final size:19
Alignment explanation
Indices: 2259615--2259657 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
2259605 AGGTAAAAAT
2259615 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
2259635 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
2259652 ATGATA
1 ATGATA
2259658 CCAGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:2261913 original size:21 final size:21
Alignment explanation
Indices: 2261886--2261938 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
2261876 AAGACAATTA
* *
2261886 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTCGAG
* *
2261907 CGAGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
2261928 AGAGTCGAAGA
1 AGAGTCGAAGA
2261939 TACAGTTGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.13, G:0.32, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:2262026 original size:33 final size:33
Alignment explanation
Indices: 2261984--2262049 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
2261974 AAATAGATGG
* *
2261984 AGTGGTGAAAGAAGTAGATGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* * *
2262017 AGTGGTGAAATAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
2262050 TATTAAGATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.45, T:0.26
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:2263865 original size:19 final size:19
Alignment explanation
Indices: 2263841--2263889 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
2263831 AATGTAGGGT
2263841 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
2263860 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
2263879 TATTTTTGTAT
1 TAATTTTGTAT
2263890 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:2264349 original size:199 final size:199
Alignment explanation
Indices: 2264008--2264979 Score: 1779
Period size: 199 Copynumber: 4.9 Consensus size: 199
2263998 CAATATGGCC
* * *
2264008 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
* *
2264073 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
*
2264138 GAATATGTCTAAATAATATGTCGACACTAATATAGTTTGTGTCGATATTTTTTGTT-CAGAATGA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTT-TTCCAGAATGA
*
2264202 ATGTAA
194 ATGGAA
*
2264208 AACAGGGTGCACCTATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
2264273 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
2264338 AATATGTCTAAATAATGTGTTGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
2264403 GGAA
196 GGAA
2264407 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
2264472 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
2264537 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
2264602 GGAA
196 GGAA
2264606 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
2264671 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
2264736 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
2264801 GGAA
196 GGAA
2264805 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
2264870 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
2264935 AATATGTCTAAATAATGTGTCGACACGT--TATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACAC-TAATATAGTTTGTGTCGATA
2264980 CTAATTTAAA
Statistics
Matches: 752, Mismatches: 18, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
198 19 0.03
199 674 0.90
200 59 0.08
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (199 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAA
Found at i:2266462 original size:18 final size:18
Alignment explanation
Indices: 2266441--2266502 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
2266431 AGCGGTCGCA
2266441 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* * *
2266459 GAAGATGACGATGATGAT
1 GAAGATGAAGCTGACGAT
* *
2266477 GACGATGAAGCTGGCGAT
1 GAAGATGAAGCTGACGAT
2266495 GAAGATGA
1 GAAGATGA
2266503 TGACGATGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:2266465 original size:6 final size:6
Alignment explanation
Indices: 2266441--2266532 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
2266431 AGCGGTCGCA
* * * * * *
2266441 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * * * *
2266489 GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
2266533 TGATCCAAAC
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:2266476 original size:3 final size:3
Alignment explanation
Indices: 2266456--2266536 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
2266446 TGAAGCTGAC
* * * * * ** *
2266456 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
2266504 GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
2266537 CCAAACAAGT
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:2266495 original size:36 final size:36
Alignment explanation
Indices: 2266444--2266520 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
2266434 GGTCGCAGAA
*
2266444 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* * *
2266480 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
2266516 GATGA
1 GATGA
2266521 TGATGAAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.21
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Done.