Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008645.1 Hibiscus syriacus cultivar Beakdansim tig00111621_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: 4138222
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 22
Found at i:1758092 original size:96 final size:95
Alignment explanation
Indices: 1757952--1758149 Score: 247
Period size: 96 Copynumber: 2.1 Consensus size: 95
1757942 AGTTCGTAAT
* * * *
1757952 GAAGAACTTGTTCAACCATTGCTCGATTCACGACATTTCGAATCAACAACGCCTTACATGAGGGA
1 GAAGAACTTGTTCAACCATTGATCAATTCACGACAATTCGAATCAACAACGCCTCACATGAGGGA
* *
1758017 CCAATATTTCCAGT-AGAGAATTCATAATGA
66 CCAATATTTCCAGTGA-AAAAATCATAATGA
* * *
1758047 GAAGAACTTGTTCGACCTATTGATCAATTCACGACAATT-GAAATCAGCAACGCCTCACTTGAGG
1 GAAGAACTTGTTCAACC-ATTGATCAATTCACGACAATTCG-AATCAACAACGCCTCACATGAGG
* * *
1758111 GATCAATATTTCTAGTGAAAAAATCATGATGA
64 GACCAATATTTCCAGTGAAAAAATCATAATGA
1758143 GAAGAAC
1 GAAGAAC
1758150 CCGCAGCTTA
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
95 17 0.19
96 70 0.80
97 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (95 bp):
GAAGAACTTGTTCAACCATTGATCAATTCACGACAATTCGAATCAACAACGCCTCACATGAGGGA
CCAATATTTCCAGTGAAAAAATCATAATGA
Found at i:1759705 original size:12 final size:12
Alignment explanation
Indices: 1759690--1759714 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1759680 AAATAAATAA
1759690 ATAAATAAAATT
1 ATAAATAAAATT
1759702 ATAAATAAAATT
1 ATAAATAAAATT
1759714 A
1 A
1759715 AAAAAAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAAATAAAATT
Found at i:1759795 original size:15 final size:15
Alignment explanation
Indices: 1759775--1759815 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
1759765 TAATAGTGTG
*
1759775 TGATGATGATGAGGA
1 TGATGATGATGACGA
1759790 TGATGATGATGACGA
1 TGATGATGATGACGA
*
1759805 CGATGATGATG
1 TGATGATGATG
1759816 GTGGTGATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.32, C:0.05, G:0.37, T:0.27
Consensus pattern (15 bp):
TGATGATGATGACGA
Found at i:1759832 original size:3 final size:3
Alignment explanation
Indices: 1759775--1759815 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
1759765 TAATAGTGTG
* * *
1759775 TGA TGA TGA TGA GGA TGA TGA TGA TGA CGA CGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1759816 GTGGTGATTG
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:0.32, C:0.05, G:0.37, T:0.27
Consensus pattern (3 bp):
TGA
Found at i:1762948 original size:24 final size:24
Alignment explanation
Indices: 1762887--1762948 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
1762877 GATTGGGTTA
*
1762887 AACATAAATGAACGAACATAAACG
1 AACATAAACGAACGAACATAAACG
* * *
1762911 AACATAATCAAACGAATATAAACG
1 AACATAAACGAACGAACATAAACG
*
1762935 AACATAACCGAACG
1 AACATAAACGAACG
1762949 TTCACGAACG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.56, C:0.19, G:0.11, T:0.13
Consensus pattern (24 bp):
AACATAAACGAACGAACATAAACG
Found at i:1762969 original size:34 final size:33
Alignment explanation
Indices: 1762886--1762971 Score: 86
Period size: 34 Copynumber: 2.5 Consensus size: 33
1762876 AGATTGGGTT
*
1762886 AAACATAAATGAACGAACATAAACGAACATAATC
1 AAACGTAAATGAACGAACATAAACGAACAT-ATC
* * *
1762920 AAACG-AATATAAACGAACATAACCGAACGT-TC
1 AAACGTAA-ATGAACGAACATAAACGAACATATC
1762952 ACGAACGTAAATGAACGAAC
1 A--AACGTAAATGAACGAAC
1762972 GATACCTATG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
32 3 0.07
33 2 0.05
34 36 0.84
35 2 0.05
ACGTcount: A:0.53, C:0.20, G:0.13, T:0.14
Consensus pattern (33 bp):
AAACGTAAATGAACGAACATAAACGAACATATC
Found at i:1764329 original size:62 final size:62
Alignment explanation
Indices: 1764232--1764361 Score: 242
Period size: 62 Copynumber: 2.1 Consensus size: 62
1764222 GTACAAAAAA
*
1764232 ACAACTCCGCTGTTATTTAATGCATGCTGCTCCATACAGTTTACACAAGCAATCGTGTCTCC
1 ACAACTCCGCTGTTATTTAATGCATGCAGCTCCATACAGTTTACACAAGCAATCGTGTCTCC
*
1764294 ACAACTCTGCTGTTATTTAATGCATGCAGCTCCATACAGTTTACACAAGCAATCGTGTCTCC
1 ACAACTCCGCTGTTATTTAATGCATGCAGCTCCATACAGTTTACACAAGCAATCGTGTCTCC
1764356 ACAACT
1 ACAACT
1764362 GGACCCCACT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 66 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (62 bp):
ACAACTCCGCTGTTATTTAATGCATGCAGCTCCATACAGTTTACACAAGCAATCGTGTCTCC
Found at i:1767393 original size:3 final size:3
Alignment explanation
Indices: 1767385--1767444 Score: 75
Period size: 3 Copynumber: 20.0 Consensus size: 3
1767375 TATCTGCTCC
* * * *
1767385 TGA TGA TGA TGA CGA TGA TGA TGA TGG TGG TGG TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
*
1767433 TAA TGA TGA TGA
1 TGA TGA TGA TGA
1767445 GAGTGAGGAG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.30, C:0.02, G:0.37, T:0.32
Consensus pattern (3 bp):
TGA
Found at i:1773678 original size:4 final size:4
Alignment explanation
Indices: 1773669--1773697 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
1773659 TAGTTATACT
1773669 CTCA CTCA CTCA CTCA CTCA CTCA CTCA C
1 CTCA CTCA CTCA CTCA CTCA CTCA CTCA C
1773698 AGAGAAGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.52, G:0.00, T:0.24
Consensus pattern (4 bp):
CTCA
Found at i:1774033 original size:18 final size:20
Alignment explanation
Indices: 1774012--1774048 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
1774002 TACTGAACTA
1774012 TTTGAGTAA-GA-TGAAAAC
1 TTTGAGTAATGACTGAAAAC
*
1774030 TTTGGGTAATGACTGAAAA
1 TTTGAGTAATGACTGAAAA
1774049 TTTTACTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 2 0.12
20 6 0.38
ACGTcount: A:0.41, C:0.05, G:0.24, T:0.30
Consensus pattern (20 bp):
TTTGAGTAATGACTGAAAAC
Found at i:1778992 original size:30 final size:31
Alignment explanation
Indices: 1778925--1779006 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 31
1778915 TTGCTTCTTG
* * *
1778925 AATTTTTTATAGAATATTAATTTGACTTATA
1 AATTTTATATAAAACATTAATTTGACTTATA
* *
1778956 AATTTTATATAAAACATTATTTTGACTTCT-
1 AATTTTATATAAAACATTAATTTGACTTATA
*
1778986 AATTTTA-AGTAAAATATTAAT
1 AATTTTATA-TAAAACATTAAT
1779007 CCGACTCTTG
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 1 0.02
30 17 0.40
31 25 0.58
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (31 bp):
AATTTTATATAAAACATTAATTTGACTTATA
Found at i:1782142 original size:16 final size:15
Alignment explanation
Indices: 1782098--1782143 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
1782088 ATAAAGTAAT
* *
1782098 TTTATTATAATATTT
1 TTTATTATATTATTG
1782113 TTTATTATACTTATTG
1 TTTATTATA-TTATTG
1782129 TTTATTATGATTATT
1 TTTATTAT-ATTATT
1782144 TGAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 9 0.33
16 17 0.63
17 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.65
Consensus pattern (15 bp):
TTTATTATATTATTG
Found at i:1784437 original size:21 final size:21
Alignment explanation
Indices: 1784413--1784456 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
1784403 AAGCAAAATT
*
1784413 GTGCATCGATGCACTGTTACA
1 GTGCATCGATGCACTGCTACA
1784434 GTGCATCGATGCACTGCTACA
1 GTGCATCGATGCACTGCTACA
1784455 GT
1 GT
1784457 AACTTTCGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (21 bp):
GTGCATCGATGCACTGCTACA
Found at i:1785213 original size:31 final size:31
Alignment explanation
Indices: 1785143--1785454 Score: 170
Period size: 31 Copynumber: 10.0 Consensus size: 31
1785133 AACCTCGGCA
* * ** *
1785143 ACTGTCCATAGGTCCCGAAGAACCTAGGTA-
1 ACTGTCCATATGTTCCGTGGAACATAGGTAT
* *
1785173 ATTGTCCATATGTTCCTTGGAACATAGGTAT
1 ACTGTCCATATGTTCCGTGGAACATAGGTAT
* **
1785204 ACTATCCATATG-TCTCG-AAAGACATAGGTAAT
1 ACTGTCCATATGTTC-CGTGGA-ACATAGGT-AT
* * * *
1785236 TCTGTCTATATATTCCGTAGAACATAGGTAT
1 ACTGTCCATATGTTCCGTGGAACATAGGTAT
*
1785267 ACTGTCCATATG-TCC-TGAAAGACATAGGTAAT
1 ACTGTCCATATGTTCCGTG-GA-ACATAGGT-AT
** *
1785299 TTTGTCCATATGTTCCGTAGAACATAGGTAT
1 ACTGTCCATATGTTCCGTGGAACATAGGTAT
* * * ** *
1785330 ATTATCCATATGTCCCG-AAAGACATAGGAAAT
1 ACTGTCCATATGTTCCGTGGA-ACATAGG-TAT
* * * *
1785362 TCTGTCTATATGTTCCGTAGAACATATGTAT
1 ACTGTCCATATGTTCCGTGGAACATAGGTAT
* * **
1785393 ACTGTCTATATGTCCCG-AAAGACATAGGTAAT
1 ACTGTCCATATGTTCCGTGGA-ACATAGGT-AT
* * *
1785425 TCTGTCCATATGTTTCGTAGAACATAGGTA
1 ACTGTCCATATGTTCCGTGGAACATAGGTA
1785455 ATCCCTCGAC
Statistics
Matches: 217, Mismatches: 48, Indels: 33
0.73 0.16 0.11
Matches are distributed among these distances:
29 1 0.00
30 34 0.16
31 86 0.40
32 83 0.38
33 12 0.06
34 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (31 bp):
ACTGTCCATATGTTCCGTGGAACATAGGTAT
Found at i:1785269 original size:63 final size:63
Alignment explanation
Indices: 1785147--1785454 Score: 433
Period size: 63 Copynumber: 4.9 Consensus size: 63
1785137 TCGGCAACTG
* * * *
1785147 TCCATAGGTCCCG-AAGAACCTAGGTAA-T-TGTCCATATGTTCCTTGGAACATAGGTATACTA
1 TCCATATGTCCCGAAAG-ACATAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTA
* * * *
1785208 TCCATATGTCTCGAAAGACATAGGTAATTCTGTCTATATATTCCGTAGAACATAGGTATACTG
1 TCCATATGTCCCGAAAGACATAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTA
* * *
1785271 TCCATATGTCCTGAAAGACATAGGTAATTTTGTCCATATGTTCCGTAGAACATAGGTATATTA
1 TCCATATGTCCCGAAAGACATAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTA
* * * *
1785334 TCCATATGTCCCGAAAGACATAGGAAATTCTGTCTATATGTTCCGTAGAACATATGTATACTG
1 TCCATATGTCCCGAAAGACATAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTA
* *
1785397 TCTATATGTCCCGAAAGACATAGGTAATTCTGTCCATATGTTTCGTAGAACATAGGTA
1 TCCATATGTCCCGAAAGACATAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTA
1785455 ATCCCTCGAC
Statistics
Matches: 217, Mismatches: 27, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
61 20 0.09
62 4 0.02
63 193 0.89
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (63 bp):
TCCATATGTCCCGAAAGACATAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTA
Found at i:1785305 original size:32 final size:31
Alignment explanation
Indices: 1785194--1785437 Score: 198
Period size: 32 Copynumber: 7.8 Consensus size: 31
1785184 GTTCCTTGGA
* *
1785194 ACATAGGT-ATACTATCCATATGTCTCGAAAG
1 ACATAGGTAATTCTGTCCATATGTC-CGAAAG
* * *
1785225 ACATAGGTAATTCTGTCTATATATTCCG-TAG
1 ACATAGGTAATTCTGTCCATAT-GTCCGAAAG
*
1785256 AACATAGGT-ATACTGTCCATATGTCCTGAAAG
1 -ACATAGGTAATTCTGTCCATATGTCC-GAAAG
* *
1785288 ACATAGGTAATTTTGTCCATATGTTCCG-TAG
1 ACATAGGTAATTCTGTCCATATG-TCCGAAAG
*
1785319 AACATAGGT-ATAT-TATCCATATGTCCCGAAAG
1 -ACATAGGTAAT-TCTGTCCATATGT-CCGAAAG
* * *
1785351 ACATAGGAAATTCTGTCTATATGTTCCG-TAG
1 ACATAGGTAATTCTGTCCATATG-TCCGAAAG
* * *
1785382 AACATATGT-ATACTGTCTATATGTCCCGAAAG
1 -ACATAGGTAATTCTGTCCATATGT-CCGAAAG
1785414 ACATAGGTAATTCTGTCCATATGT
1 ACATAGGTAATTCTGTCCATATGT
1785438 TTCGTAGAAC
Statistics
Matches: 170, Mismatches: 25, Indels: 35
0.74 0.11 0.15
Matches are distributed among these distances:
30 5 0.03
31 79 0.46
32 80 0.47
33 6 0.04
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (31 bp):
ACATAGGTAATTCTGTCCATATGTCCGAAAG
Found at i:1785366 original size:126 final size:126
Alignment explanation
Indices: 1785143--1785454 Score: 477
Period size: 126 Copynumber: 2.5 Consensus size: 126
1785133 AACCTCGGCA
* * * *
1785143 ACTGTCCATAGGTCCCG-AAGAACCTAGGTAA--TTGTCCATATGTTCCTTGGAACATAGGTATA
1 ACTGTCCATATGTCCCGAAAG-ACATAGGTAATTTTGTCCATATGTTCCGTAGAACATAGGTATA
* *
1785205 CTATCCATATGTCTCGAAAGACATAGGTAATTCTGTCTATATATTCCGTAGAACATAGGTAT
65 CTATCCATATGTCCCGAAAGACATAGGAAATTCTGTCTATATATTCCGTAGAACATAGGTAT
* *
1785267 ACTGTCCATATGTCCTGAAAGACATAGGTAATTTTGTCCATATGTTCCGTAGAACATAGGTATAT
1 ACTGTCCATATGTCCCGAAAGACATAGGTAATTTTGTCCATATGTTCCGTAGAACATAGGTATAC
* *
1785332 TATCCATATGTCCCGAAAGACATAGGAAATTCTGTCTATATGTTCCGTAGAACATATGTAT
66 TATCCATATGTCCCGAAAGACATAGGAAATTCTGTCTATATATTCCGTAGAACATAGGTAT
* * *
1785393 ACTGTCTATATGTCCCGAAAGACATAGGTAATTCTGTCCATATGTTTCGTAGAACATAGGTA
1 ACTGTCCATATGTCCCGAAAGACATAGGTAATTTTGTCCATATGTTCCGTAGAACATAGGTA
1785455 ATCCCTCGAC
Statistics
Matches: 171, Mismatches: 14, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
124 24 0.14
125 3 0.02
126 144 0.84
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (126 bp):
ACTGTCCATATGTCCCGAAAGACATAGGTAATTTTGTCCATATGTTCCGTAGAACATAGGTATAC
TATCCATATGTCCCGAAAGACATAGGAAATTCTGTCTATATATTCCGTAGAACATAGGTAT
Found at i:1788188 original size:34 final size:33
Alignment explanation
Indices: 1788150--1788233 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 33
1788140 GTAATAAACA
*
1788150 AAATTAACCAAAATACATTAACAA-AAAGTCCAA-C
1 AAATTAA-CAAAATAAATTAA-AATAAA-TCCAACC
1788184 AAATTTAACAAAATAAATTAAAATAAATCCAACC
1 AAA-TTAACAAAATAAATTAAAATAAATCCAACC
**
1788218 AAATTAATGAAATAAA
1 AAATTAACAAAATAAA
1788234 GTAAGTATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
33 18 0.41
34 22 0.50
35 4 0.09
ACGTcount: A:0.62, C:0.14, G:0.02, T:0.21
Consensus pattern (33 bp):
AAATTAACAAAATAAATTAAAATAAATCCAACC
Found at i:1788233 original size:33 final size:34
Alignment explanation
Indices: 1788146--1788222 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 34
1788136 AATGGTAATA
* *
1788146 AACAAAATTAACCAAAATACATTAACAAAAAGTCC
1 AACAAATTTAA-CAAAATAAATTAACAAAAAGTCC
1788181 AACAAATTTAACAAAATAAATTAA-AATAAA-TCC
1 AACAAATTTAACAAAATAAATTAACAA-AAAGTCC
1788214 AACCAAATT
1 AA-CAAATT
1788223 AATGAAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
33 7 0.18
34 21 0.55
35 10 0.26
ACGTcount: A:0.61, C:0.17, G:0.01, T:0.21
Consensus pattern (34 bp):
AACAAATTTAACAAAATAAATTAACAAAAAGTCC
Found at i:1790521 original size:17 final size:18
Alignment explanation
Indices: 1790501--1790539 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
1790491 ATTAATTAGA
1790501 TAAAATA-TTAAAAAAAT
1 TAAAATACTTAAAAAAAT
*
1790518 T-AAATACTTAAATAAAT
1 TAAAATACTTAAAAAAAT
1790535 TAAAA
1 TAAAA
1790540 ACAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 5 0.26
17 11 0.58
18 3 0.16
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATACTTAAAAAAAT
Found at i:1790529 original size:25 final size:26
Alignment explanation
Indices: 1790483--1790540 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
1790473 TTTTATATCT
* * *
1790483 TTAAAAAAATTAATTAGATAAA-ATA
1 TTAAAAAAATTAAATACATAAATAAA
*
1790508 TTAAAAAAATTAAATACTTAAATAAA
1 TTAAAAAAATTAAATACATAAATAAA
1790534 TTAAAAA
1 TTAAAAA
1790541 CAAAATATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 19 0.68
26 9 0.32
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (26 bp):
TTAAAAAAATTAAATACATAAATAAA
Found at i:1790775 original size:37 final size:37
Alignment explanation
Indices: 1790725--1790802 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
1790715 CCGCAGGGGG
*
1790725 CGCCTTTCTGACGCGTGTTAGATTTAAAGGTAAGGCA
1 CGCCTTTCTGACGCCTGTTAGATTTAAAGGTAAGGCA
*
1790762 CGCCTTTCTGACGCCTGTTAGATTTAAAGGTAAGGCG
1 CGCCTTTCTGACGCCTGTTAGATTTAAAGGTAAGGCA
1790799 CGCC
1 CGCC
1790803 GCAGGGGCCG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (37 bp):
CGCCTTTCTGACGCCTGTTAGATTTAAAGGTAAGGCA
Found at i:1792472 original size:38 final size:38
Alignment explanation
Indices: 1792419--1792493 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
1792409 TTTATAGTGA
* * *
1792419 AAATTTATTTTCGCTCCCTCATAAAATTTTAAAAGTTC
1 AAATCTATTATCGCTCCATCATAAAATTTTAAAAGTTC
*
1792457 AAATCTATTATCGCTCCATCATACAATTTTAAAAGTT
1 AAATCTATTATCGCTCCATCATAAAATTTTAAAAGTT
1792494 AACTCCTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.40
Consensus pattern (38 bp):
AAATCTATTATCGCTCCATCATAAAATTTTAAAAGTTC
Found at i:1793098 original size:18 final size:17
Alignment explanation
Indices: 1793060--1793092 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
1793050 GATAATCAAT
1793060 AAAAAATA-AAAAAATA
1 AAAAAATATAAAAAATA
1793076 AAAAAATATAAGAAAAT
1 AAAAAATATAA-AAAAT
1793093 TTAAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.53
17 2 0.13
18 5 0.33
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (17 bp):
AAAAAATATAAAAAATA
Found at i:1798083 original size:5 final size:5
Alignment explanation
Indices: 1798073--1798102 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
1798063 CATGTTTATA
1798073 TAAAT TAAAT TAAAT TAAAT TAAAT GTAAA
1 TAAAT TAAAT TAAAT TAAAT TAAAT -TAAA
1798103 ATAATAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (5 bp):
TAAAT
Found at i:1798138 original size:21 final size:20
Alignment explanation
Indices: 1798114--1798160 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 20
1798104 TAATAATAAC
1798114 AGTATGT-ATTTTTAATTTTT
1 AGTATGTAATTTTT-ATTTTT
*
1798134 AAGTAATTTAATTTTTATTTTT
1 -AGT-ATGTAATTTTTATTTTT
1798156 AGTAT
1 AGTAT
1798161 TTTTTATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 2 0.09
21 6 0.26
22 9 0.39
23 6 0.26
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.62
Consensus pattern (20 bp):
AGTATGTAATTTTTATTTTT
Found at i:1798147 original size:23 final size:23
Alignment explanation
Indices: 1798121--1798178 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
1798111 AACAGTATGT
1798121 ATTTTTAATTTTTAAGTA-ATTTA
1 ATTTTTAATTTTT-AGTATATTTA
* *
1798144 ATTTTT-ATTTTTAGTATTTTTT
1 ATTTTTAATTTTTAGTATATTTA
*
1798166 ATATTTAATTTTT
1 ATTTTTAATTTTT
1798179 TGAATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 4 0.13
22 14 0.47
23 12 0.40
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (23 bp):
ATTTTTAATTTTTAGTATATTTA
Found at i:1798185 original size:14 final size:14
Alignment explanation
Indices: 1798124--1798179 Score: 51
Period size: 16 Copynumber: 3.8 Consensus size: 14
1798114 AGTATGTATT
*
1798124 TTTAATTTTTAAGTAA
1 TTTAATTTTTTA-T-A
*
1798140 TTTAA-TTTTTATT
1 TTTAATTTTTTATA
1798153 TTTAGTATTTTTTATA
1 TTTA--ATTTTTTATA
1798169 TTTAATTTTTT
1 TTTAATTTTTT
1798180 GAATTTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
13 4 0.12
14 8 0.24
15 6 0.18
16 16 0.47
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.70
Consensus pattern (14 bp):
TTTAATTTTTTATA
Found at i:1798196 original size:26 final size:25
Alignment explanation
Indices: 1798160--1798211 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
1798150 ATTTTTAGTA
* *
1798160 TTTTTTATATTTAATTTTTTGAATT
1 TTTTTTATATTTAATATTTTAAATT
*
1798185 TTTTTATATATTTTATATTTTAAATT
1 TTTTT-TATATTTAATATTTTAAATT
1798211 T
1 T
1798212 CAAATATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTTTTATATTTAATATTTTAAATT
Found at i:1807857 original size:18 final size:18
Alignment explanation
Indices: 1807834--1807868 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1807824 CTAATTCCCG
*
1807834 CAGATTCCAATTCCTTCC
1 CAGATTCCAATTACTTCC
*
1807852 CAGATTTCAATTACTTC
1 CAGATTCCAATTACTTC
1807869 AGAAACATTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.31, G:0.06, T:0.37
Consensus pattern (18 bp):
CAGATTCCAATTACTTCC
Found at i:1818634 original size:2 final size:2
Alignment explanation
Indices: 1818627--1818660 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1818617 GAGTTGGCTA
1818627 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1818661 TCAGACAACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1820183 original size:143 final size:144
Alignment explanation
Indices: 1819847--1820278 Score: 735
Period size: 143 Copynumber: 3.0 Consensus size: 144
1819837 AAAAGAGTAA
*
1819847 GAATCTTTATCCAAAAATAAAAACAAACTATTTAACAAATGAATTGAAAACT-TCATCACAAACT
1 GAATCTTTATCCAAAGAT-AAAACAAACTATTTAACAAATGAATTGAAAA-TATCATCACAAACT
1819911 CAAAAAGAGTAAAGTTTCTTTTATATTATTCAGTTTT-TTTTACTTCAAATTCAACAATTTAGCT
64 C-AAAAGAGTAAAGTTTCTTTTATATTATTCAGTTTTATTTTACTTCAAATTCAACAATTTAGCT
1819975 AATTGTGTTCAAGTTAT
128 AATTGTGTTCAAGTTAT
*
1819992 GAATCTTTATCCAAAGATAAAACAAACTATTTAACAAATGAATGGAAAATATCATCACAAACTCA
1 GAATCTTTATCCAAAGATAAAACAAACTATTTAACAAATGAATTGAAAATATCATCACAAACTCA
1820057 AAAGAGTAAAGTTTCTTTTATATTATTCAGTTTTATTTTACTTCAAATTCAACAATTTAGCTAAT
66 AAAGAGTAAAGTTTCTTTTATATTATTCAGTTTTATTTTACTTCAAATTCAACAATTTAGCTAAT
*
1820122 TGTGCTCAAGTTAT
131 TGTGTTCAAGTTAT
* *
1820136 GAATCTTTATCCAAAGAT-AAACAAACTATTTAACAAATCAATTGAAAACATCATCACAAACTCA
1 GAATCTTTATCCAAAGATAAAACAAACTATTTAACAAATGAATTGAAAATATCATCACAAACTCA
* * * *
1820200 AAAGTGTAAAGTTTCTTTTATATTATTCAGTTTTATTTTAATTCAAATTCAACAATTAAGCAAAT
66 AAAGAGTAAAGTTTCTTTTATATTATTCAGTTTTATTTTACTTCAAATTCAACAATTTAGCTAAT
1820265 TGTGTTCAAGTTAT
131 TGTGTTCAAGTTAT
1820279 TCTAAAACCT
Statistics
Matches: 274, Mismatches: 11, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
143 153 0.56
144 104 0.38
145 17 0.06
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (144 bp):
GAATCTTTATCCAAAGATAAAACAAACTATTTAACAAATGAATTGAAAATATCATCACAAACTCA
AAAGAGTAAAGTTTCTTTTATATTATTCAGTTTTATTTTACTTCAAATTCAACAATTTAGCTAAT
TGTGTTCAAGTTAT
Found at i:1821744 original size:19 final size:19
Alignment explanation
Indices: 1821720--1821758 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1821710 TTTTGTAGTA
1821720 TTGTTATATTTAATGTATT
1 TTGTTATATTTAATGTATT
1821739 TTGTTATATTTAATGTATT
1 TTGTTATATTTAATGTATT
1821758 T
1 T
1821759 AATATCTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (19 bp):
TTGTTATATTTAATGTATT
Found at i:1821782 original size:25 final size:23
Alignment explanation
Indices: 1821754--1821801 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
1821744 ATATTTAATG
1821754 TATTTAATATCTTAATAATTTTTTA
1 TATTTAATATCTTAAT--TTTTTTA
* *
1821779 TATTTTATATTTTAATTTTTTTA
1 TATTTAATATCTTAATTTTTTTA
1821802 AAAAGTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
25 14 0.67
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
TATTTAATATCTTAATTTTTTTA
Found at i:1821862 original size:30 final size:31
Alignment explanation
Indices: 1821812--1821869 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
1821802 AAAAGTAAAT
*
1821812 CATCAAACTTTCTAAAAAAAATCAATTATAC
1 CATCAAACTTACTAAAAAAAATCAATTATAC
*
1821843 CATCAAACTTAGT-AAAAAAATCAATTA
1 CATCAAACTTACTAAAAAAAATCAATTA
1821870 AGCCTATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.53, C:0.17, G:0.02, T:0.28
Consensus pattern (31 bp):
CATCAAACTTACTAAAAAAAATCAATTATAC
Found at i:1822736 original size:18 final size:18
Alignment explanation
Indices: 1822699--1822735 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
1822689 TAATATTGAG
1822699 TTATTATAAAATATATTT
1 TTATTATAAAATATATTT
*
1822717 TTATTAT-AATTATATTT
1 TTATTATAAAATATATTT
1822734 TT
1 TT
1822736 TTAATTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATTATAAAATATATTT
Found at i:1824025 original size:118 final size:118
Alignment explanation
Indices: 1823860--1824253 Score: 397
Period size: 118 Copynumber: 3.4 Consensus size: 118
1823850 TACAAAGTTT
*
1823860 AAGCTGATGGAGCCTTAGAAATCCGACGATAACATAACTGGTTAATTACTGGAAACATTATCAAT
1 AAGCTGATGGAGCCTTAGAAATCCGACGATAACATAAATGGTTAATTACTGGAAACATTATCAAT
*
1823925 CATAATAACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCCTTTTTA
66 CATAATAACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCATTTTTA
* * * * *** *
1823978 AAGCTGACGGAGCTTTGGAAATCCGACGATAACA-AAATAGGTTAATTACT-TAATTTGTTATTA
1 AAGCTGATGGAGCCTTAGAAATCCGACGATAACATAAAT-GGTTAATTACTGGAA-ACATTATCA
* * * * * **
1824041 GT-ATTATCAACATATTAGGTAACGC----CTAA---AAT-GTTA-C-CAAAGTTT-
64 ATCATAAT-AACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGC-ATTTTTA
* * *
1824086 AAGCTGATGGAGCCTTAGAAATCCAACGATAACATAACTGGTTAATTACTGGAAACATTATCAAC
1 AAGCTGATGGAGCCTTAGAAATCCGACGATAACATAAATGGTTAATTACTGGAAACATTATCAAT
*
1824151 CATAATAACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCATTATTA
66 CATAATAACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCATTTTTA
* * * *
1824204 ATGTTGAT-GAGGCCTTAGAAATCCGATGATAACA-AAATAAGTTAATTACT
1 AAGCTGATGGA-GCCTTAGAAATCCGACGATAACATAAAT-GGTTAATTACT
1824254 TAATTTGTTA
Statistics
Matches: 214, Mismatches: 42, Indels: 40
0.72 0.14 0.14
Matches are distributed among these distances:
108 63 0.29
109 13 0.06
110 3 0.01
111 3 0.01
112 3 0.01
114 3 0.01
115 3 0.01
116 3 0.01
117 18 0.08
118 102 0.48
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (118 bp):
AAGCTGATGGAGCCTTAGAAATCCGACGATAACATAAATGGTTAATTACTGGAAACATTATCAAT
CATAATAACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCATTTTTA
Found at i:1824129 original size:108 final size:109
Alignment explanation
Indices: 1823978--1824392 Score: 344
Period size: 108 Copynumber: 3.7 Consensus size: 109
1823968 CGCCTTTTTA
* * * *
1823978 AAGCTGACGGAGCTTTGGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTAT-TAG
1 AAGCTGATGGAGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAAG
* *
1824042 TATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAAGTTT
66 TATTATCAACATATTAGGTAACGCCTAAAATGGTAACAAAGTTT
* * * ***
1824086 AAGCTGATGGAGCCTTAGAAATCCAACGATAACATAACT-GGTTAATTACTGGAA-ACATTATCA
1 AAGCTGATGGAGCCTTAGAAATCCGACGATAACA-AAATAGGTTAATTACT-TAATTTGTTATCA
** * * * * ** *
1824149 ACCATAAT-AACATATTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCATTATT
64 AGTATTATCAACATATTAGGTAACGC----CTAA---AAT-GGTAACAAAGT-TT
* * * *
1824203 AATGTTGAT-GAGGCCTTAGAAATCCGATGATAACAAAATAAGTTAATTACTTAATTTGTTAT-T
1 AA-GCTGATGGA-GCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATCA
*
1824266 AGTATTATCAACATATTAGGTAACACCTAAAATGGTAACAAAGTTT
64 AGTATTATCAACATATTAGGTAACGCCTAAAATGGTAACAAAGTTT
* * * * *
1824312 AAGCTGATGGAGCCTTAGGAATCCGATGATTACATAACCTA--TTAATTACTTGATTTGTTATCA
1 AAGCTGATGGAGCCTTAGAAATCCGACGATAACA-AA-ATAGGTTAATTACTTAATTTGTTATCA
1824375 AGCT-TTATCAACATATTA
64 AG-TATTATCAACATATTA
1824393 CCATGTACAT
Statistics
Matches: 239, Mismatches: 46, Indels: 43
0.73 0.14 0.13
Matches are distributed among these distances:
108 106 0.44
109 34 0.14
110 10 0.04
111 3 0.01
112 3 0.01
114 3 0.01
115 3 0.01
116 6 0.03
117 16 0.07
118 55 0.23
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.32
Consensus pattern (109 bp):
AAGCTGATGGAGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAATTTGTTATCAAG
TATTATCAACATATTAGGTAACGCCTAAAATGGTAACAAAGTTT
Found at i:1824157 original size:226 final size:224
Alignment explanation
Indices: 1823663--1824349 Score: 1079
Period size: 226 Copynumber: 3.0 Consensus size: 224
1823653 AAATTTAAAT
* * ** * *
1823663 GATAACATAACCGATTAATTACTGGAAACATTATCAAGTATAATAACATATTAGGTAGTGCTCAT
1 GATAACATAACTGGTTAATTACTGGAAACATTATCAACCATAATAACATATTAGGTAGCGCTTAT
* * * *
1823728 ATAACGTAATAGGTAGTGCCTTTTTAAAGCTGATGGGGCTTTGGAAATCCGACAATAACAAAATA
66 GTAACGTAATAGGTAGCGCCTTTTTAAAGCTGA-GGAGCTTTGGAAATCCGACGATAACAAAATA
*
1823793 GATT-ATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACAAAG
130 GGTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACAAAG
1823857 TTTAAGCTGATGGAGCCTTAGAAATCCGAC
195 TTTAAGCTGATGGAGCCTTAGAAATCCGAC
*
1823887 GATAACATAACTGGTTAATTACTGGAAACATTATCAATCATAATAACATATTAGGTAGCGCTTAT
1 GATAACATAACTGGTTAATTACTGGAAACATTATCAACCATAATAACATATTAGGTAGCGCTTAT
1823952 GTAACGTAATAGGTAGCGCCTTTTTAAAGCTGACGGAGCTTTGGAAATCCGACGATAACAAAATA
66 GTAACGTAATAGGTAGCGCCTTTTTAAAGCTGA-GGAGCTTTGGAAATCCGACGATAACAAAATA
1824017 GGTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACCAAA
130 GGTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACGCCTAAAATGTTA-CAAA
*
1824082 GTTTAAGCTGATGGAGCCTTAGAAATCCAAC
194 GTTTAAGCTGATGGAGCCTTAGAAATCCGAC
1824113 GATAACATAACTGGTTAATTACTGGAAACATTATCAACCATAATAACATATTAGGTAGCGCTTAT
1 GATAACATAACTGGTTAATTACTGGAAACATTATCAACCATAATAACATATTAGGTAGCGCTTAT
* * * * * * * *
1824178 GTAACGTAATAGGTAGCGCATTATTAATGTTGATGAGGCCTTAGAAATCCGATGATAACAAAATA
66 GTAACGTAATAGGTAGCGCCTTTTTAAAGCTGAGGA-GCTTTGGAAATCCGACGATAACAAAATA
* * *
1824243 AGTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACACCTAAAATGGTAACAAA
130 GGTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACGCCTAAAAT-GTTACAAA
* *
1824308 GTTTAAGCTGATGGAGCCTTAGGAATCCGAT
194 GTTTAAGCTGATGGAGCCTTAGAAATCCGAC
*
1824339 GATTACATAAC
1 GATAACATAAC
1824350 CTATTAATTA
Statistics
Matches: 430, Mismatches: 29, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
224 122 0.28
225 57 0.13
226 248 0.58
227 3 0.01
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (224 bp):
GATAACATAACTGGTTAATTACTGGAAACATTATCAACCATAATAACATATTAGGTAGCGCTTAT
GTAACGTAATAGGTAGCGCCTTTTTAAAGCTGAGGAGCTTTGGAAATCCGACGATAACAAAATAG
GTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACGCCTAAAATGTTACAAAGT
TTAAGCTGATGGAGCCTTAGAAATCCGAC
Found at i:1824182 original size:23 final size:24
Alignment explanation
Indices: 1824156--1824201 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
1824146 TCAACCATAA
*
1824156 TAACATATTAGGTAGCGC-TTATG
1 TAACATAATAGGTAGCGCATTATG
*
1824179 TAACGTAATAGGTAGCGCATTAT
1 TAACATAATAGGTAGCGCATTAT
1824202 TAATGTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.33
Consensus pattern (24 bp):
TAACATAATAGGTAGCGCATTATG
Found at i:1824510 original size:2 final size:2
Alignment explanation
Indices: 1824503--1824532 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1824493 TAAGTATGGA
1824503 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1824533 GTGTGTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1824537 original size:2 final size:2
Alignment explanation
Indices: 1824532--1824578 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1824522 TATATATATA
1824532 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1824574 TG TG T
1 TG TG T
1824579 CGATACATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:1826297 original size:2 final size:2
Alignment explanation
Indices: 1826290--1826322 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1826280 CATGAGTTAG
1826290 AT 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 AT A
1826323 GGAATTGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1827201 original size:32 final size:32
Alignment explanation
Indices: 1827160--1827256 Score: 128
Period size: 32 Copynumber: 3.1 Consensus size: 32
1827150 GAGTCGAGGG
1827160 TTTACCTATGTTCTACGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
*
1827192 TTTACCTATG-TCTTTC-GAGACATATGGACAG-
1 TTTACCTATGTTC-TACGGA-ACATATGGACAGT
* *
1827223 TATACCTATGTTCTAAGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
1827255 TT
1 TT
1827257 ACCGAGGATC
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
31 26 0.47
32 29 0.53
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (32 bp):
TTTACCTATGTTCTACGGAACATATGGACAGT
Found at i:1827232 original size:31 final size:31
Alignment explanation
Indices: 1827159--1827259 Score: 125
Period size: 31 Copynumber: 3.2 Consensus size: 31
1827149 AGAGTCGAGG
1827159 GTTTACCTATGTTCT-ACGGAACATATGGACA
1 GTTTACCTATGTTCTAAC-GAACATATGGACA
**
1827190 GTTTTACCTATG-TCTTTCGAGACATATGGACA
1 G-TTTACCTATGTTCTAACGA-ACATATGGACA
* *
1827222 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTAACGAACATATGGACA
1827253 GTTTACC
1 GTTTACC
1827260 GAGGATCTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
31 32 0.53
32 28 0.47
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (31 bp):
GTTTACCTATGTTCTAACGAACATATGGACA
Found at i:1827291 original size:30 final size:30
Alignment explanation
Indices: 1827247--1827340 Score: 136
Period size: 30 Copynumber: 3.1 Consensus size: 30
1827237 AAGGAACATA
1827247 TGGACAGTTTACCGAGGATCTTTATGACCTC
1 TGGACAG-TTACCGAGGATCTTTATGACCTC
1827278 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * * *
1827308 TGGATAGTTACCG-GGGTCTGTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
1827337 TGGA
1 TGGA
1827341 TAGGTCATTC
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
29 17 0.29
30 35 0.59
31 7 0.12
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:1831412 original size:32 final size:32
Alignment explanation
Indices: 1831371--1831467 Score: 119
Period size: 32 Copynumber: 3.1 Consensus size: 32
1831361 GAGTCGAGGG
*
1831371 TTTACCTATGTTCTACGGAACATATTGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
*
1831403 TTTACCTATG-TCTTTC-GAGACATATGGACAG-
1 TTTACCTATGTTC-TACGGA-ACATATGGACAGT
* *
1831434 TATACCTATGTTCTAAGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
1831466 TT
1 TT
1831468 ACCGAGGATC
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
31 26 0.48
32 28 0.52
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (32 bp):
TTTACCTATGTTCTACGGAACATATGGACAGT
Found at i:1831443 original size:31 final size:31
Alignment explanation
Indices: 1831370--1831470 Score: 116
Period size: 31 Copynumber: 3.2 Consensus size: 31
1831360 AGAGTCGAGG
*
1831370 GTTTACCTATGTTCT-ACGGAACATATTGACA
1 GTTTACCTATGTTCTAAC-GAACATATGGACA
**
1831401 GTTTTACCTATG-TCTTTCGAGACATATGGACA
1 G-TTTACCTATGTTCTAACGA-ACATATGGACA
* *
1831433 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTAACGAACATATGGACA
1831464 GTTTACC
1 GTTTACC
1831471 GAGGATCTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
31 32 0.54
32 27 0.46
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (31 bp):
GTTTACCTATGTTCTAACGAACATATGGACA
Found at i:1831502 original size:30 final size:30
Alignment explanation
Indices: 1831458--1831551 Score: 136
Period size: 30 Copynumber: 3.1 Consensus size: 30
1831448 AAGGAACATA
1831458 TGGACAGTTTACCGAGGATCTTTATGACCTC
1 TGGACAG-TTACCGAGGATCTTTATGACCTC
1831489 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * * *
1831519 TGGATAGTTACCG-GGGTCTGTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
1831548 TGGA
1 TGGA
1831552 TAGGTCCTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
29 17 0.29
30 35 0.59
31 7 0.12
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:1833441 original size:21 final size:21
Alignment explanation
Indices: 1833415--1833473 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
1833405 AACATACTAG
*
1833415 ACAAAAAGTATCGATATATAT
1 ACAAAAAGTATCGATACATAT
1833436 ACAAAAAGTATCGATACATAT
1 ACAAAAAGTATCGATACATAT
1833457 ACAAAAAGTATCGATAC
1 ACAAAAAGTATCGATAC
1833474 TTTATGTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.53, C:0.14, G:0.10, T:0.24
Consensus pattern (21 bp):
ACAAAAAGTATCGATACATAT
Found at i:1834354 original size:19 final size:19
Alignment explanation
Indices: 1834314--1834350 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
1834304 ATTTAATCTA
1834314 TTTTGTCAAATTTTAACCG
1 TTTTGTCAAATTTTAACCG
1834333 TTTT-TCAAATTTTAACCG
1 TTTTGTCAAATTTTAACCG
1834351 GTTTAGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.27, C:0.16, G:0.08, T:0.49
Consensus pattern (19 bp):
TTTTGTCAAATTTTAACCG
Found at i:1834360 original size:18 final size:18
Alignment explanation
Indices: 1834320--1834361 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1834310 TCTATTTTGT
* *
1834320 CAAATTTTAACCGTTTTT
1 CAAATTTTAACCGGTTTA
1834338 CAAATTTTAACCGGTTTA
1 CAAATTTTAACCGGTTTA
*
1834356 GAAATT
1 CAAATT
1834362 CTAAGTATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (18 bp):
CAAATTTTAACCGGTTTA
Found at i:1835756 original size:6 final size:6
Alignment explanation
Indices: 1835745--1835855 Score: 100
Period size: 6 Copynumber: 18.5 Consensus size: 6
1835735 AGTGGAGCCA
* * *
1835745 AAATTG AAATTG AAATTG AAATTCG -AAGTC AAATTA AAATTG AAATTG
1 AAATTG AAATTG AAATTG AAATT-G AAATTG AAATTG AAATTG AAATTG
* * * * * * *
1835793 AAATTG AAACTC AAATTA AAATTG AAATTG AAAATG AAATT- CATTCTA
1 AAATTG AAATTG AAATTG AAATTG AAATTG AAATTG AAATTG AAAT-TG
1835841 AAATTG AAATTG AAA
1 AAATTG AAATTG AAA
1835856 ACTACATAAA
Statistics
Matches: 84, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
5 2 0.02
6 79 0.94
7 3 0.04
ACGTcount: A:0.52, C:0.05, G:0.12, T:0.31
Consensus pattern (6 bp):
AAATTG
Found at i:1835785 original size:30 final size:30
Alignment explanation
Indices: 1835745--1835855 Score: 145
Period size: 30 Copynumber: 3.7 Consensus size: 30
1835735 AGTGGAGCCA
* *
1835745 AAATTGAAATTGAAATTGAAATTCG-AAGTC
1 AAATTAAAATTGAAATTGAAATT-GAAACTC
1835775 AAATTAAAATTGAAATTGAAATTGAAACTC
1 AAATTAAAATTGAAATTGAAATTGAAACTC
* *
1835805 AAATTAAAATTGAAATTGAAAATGAAATTC
1 AAATTAAAATTGAAATTGAAATTGAAACTC
*
1835835 -ATTCTAAAATTGAAATTGAAA
1 AAAT-TAAAATTGAAATTGAAA
1835856 ACTACATAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
29 3 0.04
30 71 0.96
ACGTcount: A:0.52, C:0.05, G:0.12, T:0.31
Consensus pattern (30 bp):
AAATTAAAATTGAAATTGAAATTGAAACTC
Found at i:1836214 original size:15 final size:15
Alignment explanation
Indices: 1836190--1836219 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1836180 CCAAACATAC
1836190 ATACAAAACAATGTT
1 ATACAAAACAATGTT
*
1836205 ATACATAACAATGTT
1 ATACAAAACAATGTT
1836220 CAAATAGTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (15 bp):
ATACAAAACAATGTT
Found at i:1838001 original size:2 final size:2
Alignment explanation
Indices: 1837994--1838019 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1837984 GAATCTGGAG
1837994 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1838020 CCTTCCCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1839132 original size:179 final size:175
Alignment explanation
Indices: 1838812--1839137 Score: 485
Period size: 179 Copynumber: 1.8 Consensus size: 175
1838802 ATTTTTAAAC
* *
1838812 TGGACAAAAAGTATCAATACACAAAAATATATAGATATTTTATGTTTACGTATTTTGTCATTAAA
1 TGGACAAAAAGTATCAATACACAAAAATATATAGATACTTTATGTTTACATATTTTGTCATTAAA
* * * *
1838877 CCGATATATTTTTACCACTTACATTGTAAATTTACCTATTACTTTATACTAATCGGTTTCGAAGT
66 CCGATATATTTTTACCACTAACATTGTAAATTTACATATTACCTTAAACTAATCGGTTTCGAAGT
1838942 TTTAAGAATCGATACTTCTGCGTGCATCTAGTTTGGAAAGCATTA
131 TTTAAGAATCGATACTTCTGCGTGCATCTAGTTTGGAAAGCATTA
* *
1838987 TGGACAAAAAGTATCGATACAAATACAAAAA-AGTATTGATACTTTATGTTTACATATTTTGTCA
1 TGGACAAAAAGTATCAATAC----ACAAAAATA-TATAGATACTTTATGTTTACATATTTTGTCA
* *
1839051 TTAAACTTG-TATATTTTTACCACTAACATTGTAAATTTACATATTACCTTAAATTAATCGGTTT
61 TTAAAC-CGATATATTTTTACCACTAACATTGTAAATTTACATATTACCTTAAACTAATCGGTTT
*
1839115 TGAAGTTTTAAGAATCGATACTT
125 CGAAGTTTTAAGAATCGATACTT
1839138 TTCATACGTG
Statistics
Matches: 134, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
175 19 0.14
178 1 0.01
179 113 0.84
180 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (175 bp):
TGGACAAAAAGTATCAATACACAAAAATATATAGATACTTTATGTTTACATATTTTGTCATTAAA
CCGATATATTTTTACCACTAACATTGTAAATTTACATATTACCTTAAACTAATCGGTTTCGAAGT
TTTAAGAATCGATACTTCTGCGTGCATCTAGTTTGGAAAGCATTA
Found at i:1839309 original size:200 final size:197
Alignment explanation
Indices: 1838949--1839563 Score: 741
Period size: 200 Copynumber: 3.1 Consensus size: 197
1838939 AGTTTTAAGA
* * **
1838949 ATCGATAC-TTCTGCGTGCATCTAGTTTGGAAAGCATTATGGACAAAAAGTATCGATACAAATAC
1 ATCGATACTTTCTGCATGCATCTAGTTTGGAAAGCA-TATGGACAAAAAATATCGATACTCATAC
* ** * *
1839013 AAAAAAGTATTGATACTTTATGTTTACATATTTTGTCATTAAACTTGTATATTTTTACCACTAAC
65 -AAAAAGTATTGATACTTTATGTTTACGTATTTTGTCA-TAAACCGGTATATTTTTACCCCTTAC
* * *
1839078 ATTGTAAATTTACATATTACCTTAAATTAATCGGTTTTGAAGTTTTAAGAATCGATACTTTTCAT
128 ATTGTAAATTTACCTATTA-CTTTAATTAATCAGTTTTGAAGTTTTAAGAATCGATACTTTTCAT
1839143 ACGTGT
192 ACGTGT
* * * * * *
1839149 ATCGATACTTTATGCATGCATCTCGTTTGGGATGCATACTGGACAAAAAATATTGATACTCTTAC
1 ATCGATACTTTCTGCATGCATCTAGTTTGGAAAGCATA-TGGACAAAAAATATCGATACTCATAC
* *
1839214 AAAAAGTATCGATACTTTATGTTTACGTATCTTGTCAGTAAACCGGTATATTTTTACCCCTTACA
65 AAAAAGTATTGATACTTTATGTTTACGTATTTTGTCA-TAAACCGGTATATTTTTACCCCTTACA
* *
1839279 TTGTAAATTTACCTATTACTTTATATTAATCAGTTTTGATGTTTTAAGAATCGATACCTTTCATA
129 TTGTAAATTTACCTATTACTTTA-ATTAATCAGTTTTGAAGTTTTAAGAATCGATACTTTTCATA
1839344 CGTGT
193 CGTGT
*** * * *
1839349 ATCGATACTTTCTTTTTACTTACTTAAGTTTGGAAAGCATATTGGACTAAAAATATCGATA-TAC
1 ATCGATACTTTCTGCATGCAT-C-T-AGTTTGGAAAGCATA-TGGACAAAAAATATCGATACT-C
* * * * * * *
1839413 ATACAAAAAGTATTGATACTATATGTTAACGTATTTTATCATAAATCGATATCTTTTTA-CCTTT
61 ATACAAAAAGTATTGATACTTTATGTTTACGTATTTTGTCATAAACCGGTATATTTTTACCCCTT
* *
1839477 AACATTGTAAATTTACCTATTACTTTAAGTTAATCAGTTTAGAAGTTTTAAGAATCGATATTTTT
126 -ACATTGTAAATTTACCTATTACTTTAA-TTAATCAGTTTTGAAGTTTTAAGAATCGATACTTTT
*
1839542 CATACTTGT
189 CATACGTGT
1839551 ATCGATACTTTCT
1 ATCGATACTTTCT
1839564 TTTTACTTCT
Statistics
Matches: 356, Mismatches: 50, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
199 4 0.01
200 142 0.40
201 49 0.14
202 96 0.27
203 65 0.18
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (197 bp):
ATCGATACTTTCTGCATGCATCTAGTTTGGAAAGCATATGGACAAAAAATATCGATACTCATACA
AAAAGTATTGATACTTTATGTTTACGTATTTTGTCATAAACCGGTATATTTTTACCCCTTACATT
GTAAATTTACCTATTACTTTAATTAATCAGTTTTGAAGTTTTAAGAATCGATACTTTTCATACGT
GT
Found at i:1845569 original size:19 final size:18
Alignment explanation
Indices: 1845526--1845573 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
1845516 TTGTTCATCT
*
1845526 CATACATAATTACAATCA
1 CATACAAAATTACAATCA
*
1845544 CATACAAAATTATAATTCA
1 CATACAAAATTACAA-TCA
*
1845563 TATACAAAATT
1 CATACAAAATT
1845574 TTGCTTACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (18 bp):
CATACAAAATTACAATCA
Found at i:1847475 original size:3 final size:3
Alignment explanation
Indices: 1847455--1847498 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
1847445 TTCCTTCTCT
* * * *
1847455 TCC TTC TCC TCT TCC TCC TCC TCT TCC TCC TCC TCT TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
1847499 TGCCTCCTTG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (3 bp):
TCC
Found at i:1847483 original size:9 final size:9
Alignment explanation
Indices: 1847443--1847506 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 9
1847433 TACCTTCTCT
*
1847443 TCTTCCTTC
1 TCTTCCTCC
*
1847452 TCTTCCTTC
1 TCTTCCTCC
* *
1847461 TCCTCTTCC
1 TCTTCCTCC
* *
1847470 TCCTCCTCT
1 TCTTCCTCC
*
1847479 TCCTCCTCC
1 TCTTCCTCC
1847488 TCTTCCTCC
1 TCTTCCTCC
*
1847497 TCTGCCTCC
1 TCTTCCTCC
1847506 T
1 T
1847507 TGCCAATAAC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 47 1.00
ACGTcount: A:0.00, C:0.53, G:0.02, T:0.45
Consensus pattern (9 bp):
TCTTCCTCC
Found at i:1847506 original size:12 final size:12
Alignment explanation
Indices: 1847439--1847498 Score: 93
Period size: 12 Copynumber: 5.0 Consensus size: 12
1847429 CTACTACCTT
* *
1847439 CTCTTCTTCCTT
1 CTCTTCCTCCTC
*
1847451 CTCTTCCTTCTC
1 CTCTTCCTCCTC
1847463 CTCTTCCTCCTC
1 CTCTTCCTCCTC
1847475 CTCTTCCTCCTC
1 CTCTTCCTCCTC
1847487 CTCTTCCTCCTC
1 CTCTTCCTCCTC
1847499 TGCCTCCTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 44 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (12 bp):
CTCTTCCTCCTC
Found at i:1849080 original size:19 final size:19
Alignment explanation
Indices: 1849052--1849129 Score: 59
Period size: 19 Copynumber: 4.1 Consensus size: 19
1849042 CATTTATACA
*
1849052 ACCTACAATATCATTTTCT
1 ACCTATAATATCATTTTCT
* * *
1849071 ACCTATAATATTATATAC-
1 ACCTATAATATCATTTTCT
** *
1849089 AAGTATCAATATTTATTTTCT
1 ACCTAT-AATA-TCATTTTCT
*
1849110 ACCTATAATATCACTTTCT
1 ACCTATAATATCATTTTCT
1849129 A
1 A
1849130 ACTCTAATCG
Statistics
Matches: 44, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
18 4 0.09
19 26 0.59
20 10 0.23
21 4 0.09
ACGTcount: A:0.36, C:0.19, G:0.01, T:0.44
Consensus pattern (19 bp):
ACCTATAATATCATTTTCT
Found at i:1849989 original size:194 final size:193
Alignment explanation
Indices: 1849724--1850248 Score: 667
Period size: 194 Copynumber: 2.7 Consensus size: 193
1849714 TTTTCTTTTA
* * *
1849724 AAAGTATCGATAATATGATACATATACTTATAAAAGTATCGATACCTTCAACATATCCGATAACG
1 AAAGTATCGATAATATGATACATATACTTATAAAAGTATCGATACCTTCAACATATCAGGT-ACT
* *
1849789 CTTTACCAGTTTTGTCATATTGAAACTGGTTTTGTCATATTTTAACTTGTTATATTGTCATGTAT
65 CTTTACCAGTTTTGTCATATTAAAACTGGTTTTGTCATATTTTAACCTGTTATATTGTCATGTAT
* ** **
1849854 CGATACATGTTTCTAAAGTATCGATACTTTATAGGCGCTATTATTGTAATTCTTTTAAATTCCT
130 CGATACATGTTTATAAAGTATCGATACTTTATACACGCTATTATTACAATTCTTTTAAATTCCT
*
1849918 AAAGTATCGATAATATGATACATATACTTATAAAAGTATCGATACCTTCAACATATCTGGTAGCT
1 AAAGTATCGATAATATGATACATATACTTATAAAAGTATCGATACCTTCAACATATCAGGTA-CT
* * * * *
1849983 CTTTACCGGTTTTGTCATATTAAAACCGGTTTTGTCATATTTTTACCTGTTGTATTCTCATGTAT
65 CTTTACCAGTTTTGTCATATTAAAACTGGTTTTGTCATATTTTAACCTGTTATATTGTCATGTAT
* * * *
1850048 CGATACATGTTTATAAAGTATTGATACTTTATACATGCTATTATTACATTTTTTTTAAATTCCT
130 CGATACATGTTTATAAAGTATCGATACTTTATACACGCTATTATTACAATTCTTTTAAATTCCT
* * * * * * *
1850112 AAAGTATCGATAATTTGGTGCATACACTTAGAAAAGTATCGATACAAATTTCAATA-ATTCAGGT
1 AAAGTATCGATAATATGATACATATACTTATAAAAGTATCGATAC---CTTCAACATA-TCAGGT
* * * * * * *
1850176 A-TCTCTATCAGTTTTGTCAAATTAAAACTGGTTTTGTCAAACTTCAACCTGTTATATTGTTATG
62 ACTCTTTACCAGTTTTGTCATATTAAAACTGGTTTTGTCATATTTTAACCTGTTATATTGTCATG
*
1850240 TATCTATAC
127 TATCGATAC
1850249 TTCTTTGCAA
Statistics
Matches: 286, Mismatches: 40, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
193 1 0.00
194 213 0.74
195 59 0.21
196 1 0.00
197 12 0.04
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (193 bp):
AAAGTATCGATAATATGATACATATACTTATAAAAGTATCGATACCTTCAACATATCAGGTACTC
TTTACCAGTTTTGTCATATTAAAACTGGTTTTGTCATATTTTAACCTGTTATATTGTCATGTATC
GATACATGTTTATAAAGTATCGATACTTTATACACGCTATTATTACAATTCTTTTAAATTCCT
Found at i:1851807 original size:21 final size:20
Alignment explanation
Indices: 1851774--1851812 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
1851764 GAATAAAATT
*
1851774 AAAAAGGATAAATAAACAGA
1 AAAAAGGACAAATAAACAGA
1851794 AAAAAGAGACAAATAAACA
1 AAAAAG-GACAAATAAACA
1851813 CAATCAGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.72, C:0.08, G:0.13, T:0.08
Consensus pattern (20 bp):
AAAAAGGACAAATAAACAGA
Found at i:1852281 original size:21 final size:21
Alignment explanation
Indices: 1852257--1852298 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1852247 TTTATTTAAC
*
1852257 ATATTATACTAATA-TAATAAT
1 ATATAATA-TAATAGTAATAAT
1852278 ATATAATATAATAGTAATAAT
1 ATATAATATAATAGTAATAAT
1852299 CAATTTACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
ATATAATATAATAGTAATAAT
Found at i:1852286 original size:15 final size:16
Alignment explanation
Indices: 1852261--1852290 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1852251 TTTAACATAT
1852261 TATACTAATATAATAA
1 TATACTAATATAATAA
1852277 TATA-TAATATAATA
1 TATACTAATATAATA
1852291 GTAATAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
TATACTAATATAATAA
Found at i:1852820 original size:16 final size:17
Alignment explanation
Indices: 1852791--1852822 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1852781 CTAAAATTAA
1852791 AAATTATCTAAAATATT
1 AAATTATCTAAAATATT
1852808 AAATTAT-TAAAATAT
1 AAATTATCTAAAATAT
1852823 AACAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATTATCTAAAATATT
Found at i:1852941 original size:21 final size:22
Alignment explanation
Indices: 1852908--1852948 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1852898 ATTTATAATT
1852908 TATTAAAAAACTATT-TAAAAA
1 TATTAAAAAACTATTCTAAAAA
* *
1852929 TATTCAAAGACTATTCTAAA
1 TATTAAAAAACTATTCTAAA
1852949 CGTTGAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (22 bp):
TATTAAAAAACTATTCTAAAAA
Found at i:1853257 original size:2 final size:2
Alignment explanation
Indices: 1853245--1853284 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1853235 CATCTCAAAC
1853245 AT AT AT A- AT 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 AT AT AT AT AT A
1853285 GCCAGTTTAA
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1853434 original size:13 final size:13
Alignment explanation
Indices: 1853411--1853444 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
1853401 GATCTATCAT
1853411 ATATCATACATATA
1 ATAT-ATACATATA
1853425 ATATATACATATA
1 ATATATACATATA
*
1853438 ACATATA
1 ATATATA
1853445 GACACAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (13 bp):
ATATATACATATA
Found at i:1854077 original size:20 final size:19
Alignment explanation
Indices: 1854054--1854107 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
1854044 TTTTTGGAAA
1854054 TTTTAATATTGTTTTATTG
1 TTTTAATATTGTTTTATTG
* *
1854073 TTTTTAT-TTTTAATTTATTG
1 TTTTAATATTGT--TTTATTG
*
1854093 TTTTAGTATTGTTTT
1 TTTTAATATTGTTTT
1854108 TAATTAATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
18 3 0.11
19 9 0.33
20 12 0.44
21 3 0.11
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (19 bp):
TTTTAATATTGTTTTATTG
Found at i:1855052 original size:60 final size:58
Alignment explanation
Indices: 1854974--1855109 Score: 141
Period size: 60 Copynumber: 2.3 Consensus size: 58
1854964 TTAATTGTTT
* *
1854974 CAATTTCAT-CCATGAACTATGACTAT-GATTCTAAATTAGTCCTCAAACTTTAGAACATTT
1 CAATTTCATCCCA--AACTATGACTATCG-TTCTAAATTAGCCCT-AAACTTTAGAACATTC
* * * * * *
1855034 TAATTTCATCCCCAAACTATGACTTTCGTTCTAAATTGGCCCTACACTTTTGAACGTTC
1 CAATTTCAT-CCCAAACTATGACTATCGTTCTAAATTAGCCCTAAACTTTAGAACATTC
1855093 CAATTTCATCCCAAACT
1 CAATTTCATCCCAAACT
1855110 GTATGTATAT
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
58 8 0.12
59 20 0.31
60 32 0.50
61 1 0.02
62 3 0.05
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (58 bp):
CAATTTCATCCCAAACTATGACTATCGTTCTAAATTAGCCCTAAACTTTAGAACATTC
Found at i:1859435 original size:19 final size:19
Alignment explanation
Indices: 1859411--1859450 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
1859401 TCTGATATGG
1859411 ATAGATATCATC-AGTAATC
1 ATAGATA-CATCTAGTAATC
*
1859430 ATAGATACATCTCGTAATC
1 ATAGATACATCTAGTAATC
1859449 AT
1 AT
1859451 CTCTTTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (19 bp):
ATAGATACATCTAGTAATC
Found at i:1860567 original size:18 final size:18
Alignment explanation
Indices: 1860546--1860587 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1860536 TTGTATACTA
*
1860546 TATATATATTTTAAAAAC
1 TATATATACTTTAAAAAC
*
1860564 TATATATACTTTCAAAAC
1 TATATATACTTTAAAAAC
1860582 TATATA
1 TATATA
1860588 ATGAATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.43
Consensus pattern (18 bp):
TATATATACTTTAAAAAC
Found at i:1863737 original size:28 final size:28
Alignment explanation
Indices: 1863663--1863748 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 28
1863653 AACTAATTAA
*
1863663 ATATTTTATTCTTAATTTAGAAAAATATGT
1 ATATTTTA-TCTTAATTTA-AAAAATATAT
* *
1863693 TTATTTTCAT-TTTATTTAAAAAATATAT
1 ATATTTT-ATCTTAATTTAAAAAATATAT
* **
1863721 ATATATTATCTTAATTTATTAAATATAT
1 ATATTTTATCTTAATTTAAAAAATATAT
1863749 TGTTTTCTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
27 2 0.04
28 29 0.63
29 7 0.15
30 7 0.15
31 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (28 bp):
ATATTTTATCTTAATTTAAAAAATATAT
Found at i:1863789 original size:28 final size:26
Alignment explanation
Indices: 1863758--1863845 Score: 79
Period size: 28 Copynumber: 3.1 Consensus size: 26
1863748 TTGTTTTCTT
1863758 AATATTTTATTCTTATCATTAACTTTAA
1 AATATTTTATTCTTAT--TTAACTTTAA
* *
1863786 AATATTCTAATCTTATTTTAA-TTTAAAA
1 AATATTTTATTCTTA-TTTAACTTT--AA
1863814 AATATACTTTATTCTTAGTTTAACTTTAA
1 AATAT--TTTATTCTTA-TTTAACTTTAA
1863843 AAT
1 AAT
1863846 GTATATTTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
26 3 0.06
27 4 0.08
28 20 0.41
29 6 0.12
30 13 0.27
31 3 0.06
ACGTcount: A:0.39, C:0.09, G:0.01, T:0.51
Consensus pattern (26 bp):
AATATTTTATTCTTATTTAACTTTAA
Found at i:1863856 original size:31 final size:30
Alignment explanation
Indices: 1863759--1863956 Score: 102
Period size: 31 Copynumber: 6.5 Consensus size: 30
1863749 TGTTTTCTTA
1863759 ATATTTTATTCTTATCATTAACTTT-AAA---
1 ATATTTTATTCTTAT--TTAACTTTAAAATGT
* * **
1863787 ATATTCTAATCTTATTTTAA-TTTAAAAAAT
1 ATATTTTATTCTTA-TTTAACTTTAAAATGT
*
1863817 ATACTTTATTCTTAGTTTAACTTTAAAATGT
1 ATATTTTATTCTTA-TTTAACTTTAAAATGT
* *
1863848 ATATTTTATTATTACTATAAC-TTAAGAATGT
1 ATATTTTATTCTTA-TTTAACTTTAA-AATGT
* * * **
1863879 ATATTTTTGTTATTATCTTAACTTAAAAAAAT
1 ATA-TTTTATTCTTAT-TTAACTTTAAAATGT
* * * * * *
1863911 ATATTTTGTTTTTATATGAAATTCAAAATAT
1 ATATTTTATTCTTAT-TTAACTTTAAAATGT
*
1863942 ATATTTTATTTTTAT
1 ATATTTTATTCTTAT
1863957 CTTCATTTAA
Statistics
Matches: 136, Mismatches: 24, Indels: 17
0.77 0.14 0.10
Matches are distributed among these distances:
26 3 0.02
27 7 0.05
28 12 0.09
29 1 0.01
30 20 0.15
31 70 0.51
32 20 0.15
33 3 0.02
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.53
Consensus pattern (30 bp):
ATATTTTATTCTTATTTAACTTTAAAATGT
Found at i:1863901 original size:32 final size:29
Alignment explanation
Indices: 1863833--1863906 Score: 94
Period size: 32 Copynumber: 2.4 Consensus size: 29
1863823 TATTCTTAGT
1863833 TTAACTTTAAAATGTATATTTTATTATTAC
1 TTAAC-TTAAAATGTATATTTTATTATTAC
*
1863863 TATAACTTAAGAATGTATATTTTTGTTATTATC
1 T-TAACTTAA-AATGTATA-TTTTATTATTA-C
1863896 TTAACTTAAAA
1 TTAACTTAAAA
1863907 AAATATATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
30 5 0.13
31 14 0.36
32 18 0.46
33 2 0.05
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (29 bp):
TTAACTTAAAATGTATATTTTATTATTAC
Found at i:1863970 original size:31 final size:31
Alignment explanation
Indices: 1863798--1863976 Score: 127
Period size: 31 Copynumber: 5.8 Consensus size: 31
1863788 TATTCTAATC
* * *
1863798 TTATTTTAATTTAAAAA-ATATACTTTATTC
1 TTATCTTAATTTAAAAATATATATTTTATTT
* *
1863828 TTAGT-TTAACTTT-AAAATGTATATTTTATTA
1 TTA-TCTTAA-TTTAAAAATATATATTTTATTT
* * *
1863859 TTA-CTATAACTTAAGAATGTATATTTT-TGTT
1 TTATCT-TAATTTAAAAATATATATTTTAT-TT
* * *
1863890 ATTATCTTAACTTAAAAAAATATATTTTGTTT
1 -TTATCTTAATTTAAAAATATATATTTTATTT
* * * *
1863922 TTATATGAAATTCAAAATATATATTTTATTT
1 TTATCTTAATTTAAAAATATATATTTTATTT
*
1863953 TTATCTTCATTTAAAAATAT-TATT
1 TTATCTTAATTTAAAAATATATATT
1863977 AACATATATT
Statistics
Matches: 119, Mismatches: 20, Indels: 20
0.75 0.13 0.13
Matches are distributed among these distances:
30 19 0.16
31 74 0.62
32 23 0.19
33 3 0.03
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.53
Consensus pattern (31 bp):
TTATCTTAATTTAAAAATATATATTTTATTT
Found at i:1864031 original size:29 final size:29
Alignment explanation
Indices: 1863980--1864104 Score: 153
Period size: 29 Copynumber: 4.3 Consensus size: 29
1863970 TATTATTAAC
* *
1863980 ATATATTTAATAAATTAACATAAGAATAAA
1 ATATATTT-TTAAATTAAGATAAGAATAAA
* *
1864010 ATATATTTTTAAGTTAAGATAAGAATAAT
1 ATATATTTTTAAATTAAGATAAGAATAAA
* * * *
1864039 ATGTATATTTAAATTAAAATAATAATAAA
1 ATATATTTTTAAATTAAGATAAGAATAAA
1864068 ATAT-TTTTTAAAATTAAGATAAGAATAAA
1 ATATATTTTT-AAATTAAGATAAGAATAAA
1864097 ATATATTT
1 ATATATTT
1864105 GTAAGTGAAT
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
28 4 0.05
29 64 0.81
30 11 0.14
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (29 bp):
ATATATTTTTAAATTAAGATAAGAATAAA
Found at i:1875906 original size:42 final size:41
Alignment explanation
Indices: 1875837--1875938 Score: 123
Period size: 42 Copynumber: 2.5 Consensus size: 41
1875827 TATTTCCAAG
* *
1875837 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGA
1 ATAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAGAT-A
* * * * *
1875879 TTAAATCCTTCGGGTCGTCTGTCAGTCTTTCGAGCAAGATA
1 ATAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAGATA
*
1875920 ATAATTCCTTCGGGCCATC
1 ATAAATCCTTCGGGCCATC
1875939 TATAAGACCT
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 16 0.33
42 33 0.67
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAGATA
Found at i:1875945 original size:255 final size:254
Alignment explanation
Indices: 1875475--1876194 Score: 1064
Period size: 255 Copynumber: 2.8 Consensus size: 254
1875465 TTGAAAAGTA
* * * *
1875475 AGAAAGGGATTTCCAAAGTTTCTCATTTAAATCTTTTCAGAAAATGAAAATTTTGAATACTAAGA
1 AGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCA-AAAATGAAATTTTTGAAAAGTAAGA
* * * *
1875540 AAGCGATTTCCTAAGTTTTTTACCTAGTAAACTATTTCCAAGATAAGTCATTCGGGTCATCAGTA
65 AAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAGATAAGTCCTTCGGGCCATCAGTA
* * *
1875605 AGTCTTTCGAGCATGATGATTAAATCTTTCAGGTCATTTGTCAGTCTTTCGAGTAAGATGATAAG
130 AGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATTTGTCAGTCTTTCGAGCAAGATGATAAG
** * **
1875670 TCCTTCGACCCATTTATAAGACCTTTA-GGCAGGATGTTTTCACATGATTTTTAAAAAATG
195 TCCTTCGGGCCATCTATAAGACC-TTAGGGCAGGATGTTTTCACATGATTTCCAAAAAATG
1875730 AGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCACAAAATGAAATTTTTGAAAAGTAAGA
1 AGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCA-AAAATGAAATTTTTGAAAAGTAAGA
*
1875795 AAGTGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAGATAAGTCCTTCGGGCCATCAGTA
65 AAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAGATAAGTCCTTCGGGCCATCAGTA
* * * *
1875860 AGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCGTCTGTCAGTCTTTCGAGCAAGATAATAAT
130 AGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATTTGTCAGTCTTTCGAGCAAGATGATAAG
**
1875925 TCCTTCGGGCCATCTATAAGACCTTAGGGCATTATGTTTTCACATGATTTCCAAAAAATG
195 TCCTTCGGGCCATCTATAAGACCTTAGGGCAGGATGTTTTCACATGATTTCCAAAAAATG
** * *
1875985 AGAAAATGATTTCCAAAGATTCTCATTTAAATCTTTTCTGAAAAATGAAATTTTCGAAAAGTAAG
1 AGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTC--AAAAATGAAATTTTTGAAAAGTAAG
* * *
1876050 AAAGCGATTTTCAAAGTTTCTTAACTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGGCCAT
64 AAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCC--AA--GATAAGTCCTTCGGGCCAT
* *
1876115 CAGTAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGTCATTTGTTAGTCTTTCGAGCAAGATG
125 CAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATTTGTCAGTCTTTCGAGCAAGATG
1876180 ATAAGTCCTTCGGGC
190 ATAAGTCCTTCGGGC
1876195 AGGATGTTTT
Statistics
Matches: 420, Mismatches: 38, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
254 3 0.01
255 262 0.62
256 60 0.14
257 1 0.00
258 2 0.00
260 92 0.22
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (254 bp):
AGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTCAAAAATGAAATTTTTGAAAAGTAAGAA
AGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAGATAAGTCCTTCGGGCCATCAGTAA
GTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATTTGTCAGTCTTTCGAGCAAGATGATAAGT
CCTTCGGGCCATCTATAAGACCTTAGGGCAGGATGTTTTCACATGATTTCCAAAAAATG
Found at i:1880223 original size:22 final size:23
Alignment explanation
Indices: 1880187--1880234 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
1880177 ACATTTAGAT
1880187 TTTAATTAATTTATAA-TTATACA
1 TTTAATTAATTTATAATTTA-ACA
*
1880210 TTTAA-TACTTTATAATTTAACA
1 TTTAATTAATTTATAATTTAACA
1880232 TTT
1 TTT
1880235 TATAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTAATTAATTTATAATTTAACA
Found at i:1880229 original size:15 final size:15
Alignment explanation
Indices: 1880203--1880245 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
1880193 TAATTTATAA
1880203 TTATACATTTAATACT
1 TTATA-ATTTAATACT
* *
1880219 TTATAATTTAACATT
1 TTATAATTTAATACT
*
1880234 TTATAAATTAAT
1 TTATAATTTAAT
1880246 TTAATAGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (15 bp):
TTATAATTTAATACT
Found at i:1891713 original size:39 final size:39
Alignment explanation
Indices: 1891669--1891775 Score: 148
Period size: 39 Copynumber: 2.7 Consensus size: 39
1891659 ATTGAAAAAT
1891669 TAATTTAGAATGTTAGGATGAAATAATTTAAAAAATTAAG
1 TAATTTAGAATGTTAGGATGAAATAATTTAAAAAATT-AG
* *
1891709 -AATTTAAAATGTTATGG-TGAAATAATTTAAGAAATTAG
1 TAATTTAGAATGTTA-GGATGAAATAATTTAAAAAATTAG
1891747 TAATTTAGAATGTT-GGAGTGAAATAATTT
1 TAATTTAGAATGTTAGGA-TGAAATAATTT
1891776 GAGAATTAGG
Statistics
Matches: 60, Mismatches: 3, Indels: 9
0.83 0.04 0.12
Matches are distributed among these distances:
37 2 0.03
38 2 0.03
39 54 0.90
40 2 0.03
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (39 bp):
TAATTTAGAATGTTAGGATGAAATAATTTAAAAAATTAG
Found at i:1892296 original size:24 final size:24
Alignment explanation
Indices: 1892247--1892296 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
1892237 GCGTTTGATC
** *
1892247 CATTTTAAGTACTAAAATCTAGTA
1 CATTTTAAGTACTAAAAAATACTA
*
1892271 CATTTTAAGTACTAAAAAATTCTA
1 CATTTTAAGTACTAAAAAATACTA
1892295 CA
1 CA
1892297 AACAAAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (24 bp):
CATTTTAAGTACTAAAAAATACTA
Found at i:1892938 original size:3 final size:3
Alignment explanation
Indices: 1892932--1892988 Score: 87
Period size: 3 Copynumber: 19.0 Consensus size: 3
1892922 CTACTACTAC
* * *
1892932 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT CAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1892980 TAT TAT TAT
1 TAT TAT TAT
1892989 CTTAACAATA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:1894553 original size:2 final size:2
Alignment explanation
Indices: 1894546--1894574 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1894536 CATATGTATG
1894546 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1894575 GAATCAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1896249 original size:23 final size:21
Alignment explanation
Indices: 1896208--1896248 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
1896198 ATACCATGCA
1896208 CTATAGTAGTACCGATACTAC
1 CTATAGTAGTACCGATACTAC
1896229 CTAT-GTAGTACCGATACTAC
1 CTATAGTAGTACCGATACTAC
1896249 TCCTTTGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (21 bp):
CTATAGTAGTACCGATACTAC
Found at i:1897745 original size:16 final size:16
Alignment explanation
Indices: 1897724--1897757 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1897714 CTCATGAAAT
1897724 GATGGTTAAAGAAGAG
1 GATGGTTAAAGAAGAG
1897740 GATGGTTAAAGAAGAG
1 GATGGTTAAAGAAGAG
1897756 GA
1 GA
1897758 AGATCAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.38, T:0.18
Consensus pattern (16 bp):
GATGGTTAAAGAAGAG
Found at i:1902875 original size:12 final size:12
Alignment explanation
Indices: 1902858--1902894 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
1902848 ACCAAACCCA
1902858 CCTCCAAATCCT
1 CCTCCAAATCCT
*
1902870 CTTCCAAATCCT
1 CCTCCAAATCCT
*
1902882 CCTCCCAATCCT
1 CCTCCAAATCCT
1902894 C
1 C
1902895 AAGAAATGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.22, C:0.51, G:0.00, T:0.27
Consensus pattern (12 bp):
CCTCCAAATCCT
Found at i:1902877 original size:24 final size:24
Alignment explanation
Indices: 1902849--1902894 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1902839 CAATAAACCA
1902849 CCAAACCCACCTCCAAATCCTCTT
1 CCAAACCCACCTCCAAATCCTCTT
* * *
1902873 CCAAATCCTCCTCCCAATCCTC
1 CCAAACCCACCTCCAAATCCTC
1902895 AAGAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.26, C:0.52, G:0.00, T:0.22
Consensus pattern (24 bp):
CCAAACCCACCTCCAAATCCTCTT
Found at i:1904401 original size:14 final size:13
Alignment explanation
Indices: 1904373--1904399 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1904363 AGTAAGAGAG
1904373 AGTAATTTTTCAA
1 AGTAATTTTTCAA
1904386 AGTAATTTTTCAA
1 AGTAATTTTTCAA
1904399 A
1 A
1904400 AGAAAATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (13 bp):
AGTAATTTTTCAA
Found at i:1904793 original size:24 final size:23
Alignment explanation
Indices: 1904741--1904794 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 23
1904731 TACCAAAATG
*
1904741 GTACTGATACCATGCACATAGTA
1 GTACTGATACCATACACATAGTA
1904764 -T-C-GATACCATACACTATAGTA
1 GTACTGATACCATACAC-ATAGTA
1904785 GTACTGATAC
1 GTACTGATAC
1904795 TATCTATGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 11 0.42
21 7 0.27
22 2 0.08
23 1 0.04
24 5 0.19
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (23 bp):
GTACTGATACCATACACATAGTA
Found at i:1906701 original size:20 final size:22
Alignment explanation
Indices: 1906676--1906733 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
1906666 TCCCCTTTGA
1906676 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCATAAC
1906696 AGTGCATCGATGCATTCATTAAC
1 AGTGCATCGATGCATTCA-TAAC
1906719 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
1906734 GTACCCATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 17 0.50
22 1 0.03
23 3 0.09
24 13 0.38
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (22 bp):
AGTGCATCGATGCATTCATAAC
Found at i:1906830 original size:64 final size:64
Alignment explanation
Indices: 1906722--1906842 Score: 147
Period size: 64 Copynumber: 1.9 Consensus size: 64
1906712 CATTAACATG
*
1906722 TGCATCGATGCAGTACCCATGCATCGATACACAAATCACCTTCGATGTTTT-CATTTTAAGGGGA
1 TGCATCGATGCAGTACCCATGCATCGATACACAAATCACATTCGAT-TTTTCCATTTTAAGGGGA
* * * * **
1906786 TGCATCGATTCAGT-CCTTATGCATCGATGCACTAATTGCATTCGATTTTTCCATTTT
1 TGCATCGATGCAGTACC-CATGCATCGATACACAAATCACATTCGATTTTTCCATTTT
1906843 TAATAGGTGC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
63 6 0.12
64 42 0.88
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.36
Consensus pattern (64 bp):
TGCATCGATGCAGTACCCATGCATCGATACACAAATCACATTCGATTTTTCCATTTTAAGGGGA
Found at i:1906854 original size:64 final size:63
Alignment explanation
Indices: 1906721--1906858 Score: 145
Period size: 64 Copynumber: 2.2 Consensus size: 63
1906711 TCATTAACAT
* *
1906721 GTGCATCGATGCAGTACCCATGCATCGATACACAAATCACCTTCGATGTTTTCATTTTAAGGG
1 GTGCATCGATGCAGTACCCATGCATCGATACACAAATCACATTCGATGTTTTCATTTTAAGAG
* * * * ** *
1906784 GATGCATCGATTCAGT-CCTTATGCATCGATGCACTAATTGCATTCGAT-TTTTCCATTTTTAAT
1 G-TGCATCGATGCAGTACC-CATGCATCGATACACAAATCACATTCGATGTTTT-CA-TTTTAAG
1906847 AG
62 AG
1906849 GTGCATCGAT
1 GTGCATCGAT
1906859 ACACTTTCTG
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
63 7 0.11
64 47 0.76
65 8 0.13
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (63 bp):
GTGCATCGATGCAGTACCCATGCATCGATACACAAATCACATTCGATGTTTTCATTTTAAGAG
Found at i:1910980 original size:20 final size:20
Alignment explanation
Indices: 1910955--1910992 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1910945 TCCCCTTTGA
1910955 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
1910975 AGTGCATCGATGCATTCT
1 AGTGCATCGATGCATTCT
1910993 TTAAAATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:1911008 original size:24 final size:20
Alignment explanation
Indices: 1910954--1911012 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 20
1910944 TTCCCCTTTG
1910954 AAGTGCATCGATGCATTCTA
1 AAGTGCATCGATGCATTCTA
*
1910974 CAGTGCATCGATGCATTCTTTAA
1 AAGTGCATCGATGCATTC--T-A
1910997 AATGTGCATCGATGCA
1 AA-GTGCATCGATGCA
1911013 GTACCCATGC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 17 0.52
22 1 0.03
23 2 0.06
24 13 0.39
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (20 bp):
AAGTGCATCGATGCATTCTA
Found at i:1911087 original size:64 final size:63
Alignment explanation
Indices: 1911000--1911160 Score: 171
Period size: 64 Copynumber: 2.5 Consensus size: 63
1910990 TCTTTAAAAT
* * * * *
1911000 GTGCATCGATGCAGTACCCATGCATCGATACACAAATCACCTTTGATGTTTTCA-TTTTAAGGGG
1 GTGCATCGATGCACT-CCTATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAA-GGG
* * * ** *
1911064 GTGCATCGATTCACTCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCATTTTTAATGG
1 GTGCATCGATGCACTCC-TATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAAGGG
* *
1911128 GTGCATCGATGCATTCCTGTGCATCGATACACA
1 GTGCATCGATGCACTCCTATGCATCGATACACA
1911161 CTAAACAATT
Statistics
Matches: 79, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
63 15 0.19
64 58 0.73
65 6 0.08
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTATGCATCGATACACAAATCACATTCGATGTTTCCATTTTTAAGGG
Found at i:1917145 original size:25 final size:25
Alignment explanation
Indices: 1917092--1917205 Score: 88
Period size: 25 Copynumber: 4.5 Consensus size: 25
1917082 GTTAACCGGA
* *
1917092 TTAGGGTTTTTTAATGTTATAA-TGGT
1 TTAGAGTTTTTT-ATGTTA-AAGTGAT
1917118 TTAGGAG-TTTTTATGTTAAAGTGAT
1 TTA-GAGTTTTTTATGTTAAAGTGAT
* * * ** *
1917143 TTAGGGATTTTTAGGTTGGAGTAAT
1 TTAGAGTTTTTTATGTTAAAGTGAT
* *
1917168 TTAGAGTTTTTTTAGGTTAAAGTGGT
1 TTAGAG-TTTTTTATGTTAAAGTGAT
1917194 TTAGAGTTTTTT
1 TTAGAGTTTTTT
1917206 GTTTAAATGG
Statistics
Matches: 71, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
24 4 0.06
25 37 0.52
26 28 0.39
27 2 0.03
ACGTcount: A:0.24, C:0.00, G:0.25, T:0.51
Consensus pattern (25 bp):
TTAGAGTTTTTTATGTTAAAGTGAT
Found at i:1917205 original size:26 final size:26
Alignment explanation
Indices: 1917125--1917205 Score: 92
Period size: 26 Copynumber: 3.2 Consensus size: 26
1917115 GGTTTAGGAG
* **
1917125 TTTTTATGTTAAAGTGATTTAG-GGA
1 TTTTTAGGTTAAAGTGATTTAGAGTT
** *
1917150 TTTTTAGGTTGGAGTAATTTAGAGTT
1 TTTTTAGGTTAAAGTGATTTAGAGTT
*
1917176 TTTTTAGGTTAAAGTGGTTTAGAGTT
1 TTTTTAGGTTAAAGTGATTTAGAGTT
1917202 TTTT
1 TTTT
1917206 GTTTAAATGG
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 18 0.40
26 27 0.60
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (26 bp):
TTTTTAGGTTAAAGTGATTTAGAGTT
Found at i:1919055 original size:29 final size:29
Alignment explanation
Indices: 1919023--1919079 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
1919013 TATATTTCTA
* *
1919023 ATTAACTACTAGCTTTCATTTTATTGCAT
1 ATTAACCACTAACTTTCATTTTATTGCAT
* *
1919052 ATTAACCATTAACTTTTATTTTATTGCA
1 ATTAACCACTAACTTTCATTTTATTGCA
1919080 CTCTAACCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.30, C:0.16, G:0.05, T:0.49
Consensus pattern (29 bp):
ATTAACCACTAACTTTCATTTTATTGCAT
Found at i:1925228 original size:54 final size:54
Alignment explanation
Indices: 1925164--1925383 Score: 223
Period size: 54 Copynumber: 4.1 Consensus size: 54
1925154 CCAAACAATG
*
1925164 TGATGTTTTCAAATGAATTTGGAAATAAACTAAGCCTGATTTTCAAGGGTTTCT
1 TGATGTTTTCAAATGAATTTGGAAAGAAACTAAGCCTGATTTTCAAGGGTTTCT
* * *
1925218 TGATGTTTTCAAATAAATTTTGG-GAGAAACTAAGCCTGATTTT-TAGGGTTTCT
1 TGATGTTTTCAAATGAA-TTTGGAAAGAAACTAAGCCTGATTTTCAAGGGTTTCT
* * * * * *
1925271 TGATGTTTTCAAATGGAGTTGGGAAGGAACTAAACCTGATTTTCAGGGGTTT-T
1 TGATGTTTTCAAATGAATTTGGAAAGAAACTAAGCCTGATTTTCAAGGGTTTCT
** ** * * * *
1925324 GTGAT-TATTTCTGATGAATTTCAAAAGAATCTAAGCCTAATTTTTATGGGTTTCT
1 -TGATGT-TTTCAAATGAATTTGGAAAGAAACTAAGCCTGATTTTCAAGGGTTTCT
1925379 TGATG
1 TGATG
1925384 ATAACTATAA
Statistics
Matches: 134, Mismatches: 25, Indels: 13
0.78 0.15 0.08
Matches are distributed among these distances:
52 4 0.03
53 43 0.32
54 81 0.60
55 6 0.04
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (54 bp):
TGATGTTTTCAAATGAATTTGGAAAGAAACTAAGCCTGATTTTCAAGGGTTTCT
Found at i:1926112 original size:18 final size:18
Alignment explanation
Indices: 1926089--1926126 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1926079 CCAGGAAAAG
*
1926089 AATGAAGACTGCTCTAGC
1 AATGAAGAATGCTCTAGC
*
1926107 AATGAAGAATGCTCTTGC
1 AATGAAGAATGCTCTAGC
1926125 AA
1 AA
1926127 CCATTCCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (18 bp):
AATGAAGAATGCTCTAGC
Found at i:1926320 original size:38 final size:38
Alignment explanation
Indices: 1926277--1926377 Score: 105
Period size: 37 Copynumber: 2.7 Consensus size: 38
1926267 AACTATTTTA
* *
1926277 TCCTTCCTAGGATTATTTTTCTAGAAAAATTGTTTGAG
1 TCCTTCTTAGGATTATTTTTCTAGAAAAATCGTTTGAG
* * ** **
1926315 TCCTTCTTAAGATCATTTTTCT-GGGATGTCGTTTGAG
1 TCCTTCTTAGGATTATTTTTCTAGAAAAATCGTTTGAG
* *
1926352 TCCTTCTTAGGATTGTTTCTCTAGAA
1 TCCTTCTTAGGATTATTTTTCTAGAA
1926378 GCCTTTTTAG
Statistics
Matches: 48, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
37 28 0.58
38 20 0.42
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.46
Consensus pattern (38 bp):
TCCTTCTTAGGATTATTTTTCTAGAAAAATCGTTTGAG
Found at i:1926948 original size:135 final size:135
Alignment explanation
Indices: 1926705--1927281 Score: 726
Period size: 135 Copynumber: 4.3 Consensus size: 135
1926695 GATAAACCAT
1926705 TTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCAT
1 TTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCAT
* * *
1926770 AATGAGAAGAACTTGTTCAACCTTT-CTTCAATTCACAATATTTCGAATCAGCGATGCCTCACTT
66 AATGAGAAGAACTTGTTCAACCTTTGC-TCAATTCACAACATTTCGAATCAGCAACGCCTCACTT
1926834 GAGGGA
130 GAGGGA
* * * *
1926840 TTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATATAGTGAGTAGAATTTCAT
1 TTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCAT
* ** * *
1926905 AATGAGAAGAAATTGTTCAACCTTTGCTCAATTCACGGCATTTCGAATCAGTAACGCCTTACTTG
66 AATGAGAAGAACTTGTTCAACCTTTGCTCAATTCACAACATTTCGAATCAGCAACGCCTCACTTG
1926970 AGGGA
131 AGGGA
* *
1926975 TTAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAAAAGTTCAT
1 TTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCAT
* * ** * * * *
1927040 AATGGGAAGAACTTATTCAACCTTTTATCGATTCACATCATTTTGAATCAGTAACGCCTCACTTG
66 AATGAGAAGAACTTGTTCAACCTTTGCTCAATTCACAACATTTCGAATCAGCAACGCCTCACTTG
1927105 AGGGA
131 AGGGA
* * * * * * *
1927110 TTACCATTTACAATTGAGAGTTCATAATGAGAATAACTCATCTGATAAAGGGAGAAGAAGTTCGT
1 TTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCAT
* * * * *** *
1927175 AATGAGAAGAACTTGTTCAAACTTTGCT-AGATCCACGACATTTCGATTCAGCATTTCCTCACTC
66 AATGAGAAGAACTTGTTCAACCTTTGCTCA-ATTCACAACATTTCGAATCAGCAACGCCTCACTT
1927239 GAGGGA
130 GAGGGA
** * ** * *
1927245 CCAACATTTCCAGTATAGAGCTCGTAATGAGAAGAAC
1 TTAACATTTCCAATGGAGAGTTCATAATGAGAAGAAC
1927282 CTGTAGTTTG
Statistics
Matches: 377, Mismatches: 63, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
135 376 1.00
136 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (135 bp):
TTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTTGCTCAATTCACAACATTTCGAATCAGCAACGCCTCACTTG
AGGGA
Found at i:1928629 original size:29 final size:29
Alignment explanation
Indices: 1928597--1928653 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
1928587 TATATTTCTA
* *
1928597 ATTAACTACTAGCTTTCATTTTATTGCAT
1 ATTAACCACTAACTTTCATTTTATTGCAT
* *
1928626 ATTAACCATTAACTTTTATTTTATTGCA
1 ATTAACCACTAACTTTCATTTTATTGCA
1928654 CTCTAACCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.30, C:0.16, G:0.05, T:0.49
Consensus pattern (29 bp):
ATTAACCACTAACTTTCATTTTATTGCAT
Found at i:1928660 original size:29 final size:29
Alignment explanation
Indices: 1928609--1928664 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
1928599 TAACTACTAG
*
1928609 CTTTCATTTTATTGCATATTAACCATTAA
1 CTTTCATTTTATTGCATACTAACCATTAA
*
1928638 CTTTTATTTTATTGCACT-CTAACCATT
1 CTTTCATTTTATTGCA-TACTAACCATT
1928665 GTTATTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.27, C:0.20, G:0.04, T:0.50
Consensus pattern (29 bp):
CTTTCATTTTATTGCATACTAACCATTAA
Found at i:1931498 original size:21 final size:21
Alignment explanation
Indices: 1931474--1931515 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1931464 TTTTCATCTT
1931474 TACATTAGCAT-ATATACATTG
1 TACATTA-CATGATATACATTG
*
1931495 TACATTACATGGTATACATTG
1 TACATTACATGATATACATTG
1931516 CATCTCAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (21 bp):
TACATTACATGATATACATTG
Found at i:1934322 original size:24 final size:24
Alignment explanation
Indices: 1934289--1934336 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
1934279 AAAGTATCAA
1934289 TACTGGTATAAAG-AGTATCGATAC
1 TACTGGTAT-AAGTAGTATCGATAC
*
1934313 TACTGTTATAAGTAGTATCGATAC
1 TACTGGTATAAGTAGTATCGATAC
1934337 CAAAAACAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (24 bp):
TACTGGTATAAGTAGTATCGATAC
Found at i:1938728 original size:101 final size:101
Alignment explanation
Indices: 1938544--1938731 Score: 234
Period size: 101 Copynumber: 1.9 Consensus size: 101
1938534 ATGAATGTGG
* * * * * *
1938544 TCCCCTTGAACTTGAAGGCATTATGTCATATGAGTTTTGAACATACTGTTGTGTCGAAGGCATCT
1 TCCCCTAGAACTTGAAGGCATAATGCCATATGAGTATTGAACAGACTATTGTGTCGAAGGCATCT
* *
1938609 TCATATTAAGGTCCAAGAAGTTAGTAGATAAATGTC
66 TCATATTAAGATCAAAGAAGTTAGTAGATAAATGTC
* ** *
1938645 TCCCCTAGAACTTGAAGGCATAATGCCATATGGGTATTGAGTAGACTATTGTGTCGATGGCAT-T
1 TCCCCTAGAACTTGAAGGCATAATGCCATATGAGTATTGAACAGACTATTGTGTCGAAGGCATCT
* *
1938709 TCCATGTTGAGATCAAAGAAGTT
66 T-CATATTAAGATCAAAGAAGTT
1938732 GACTGATGAA
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
100 2 0.03
101 70 0.97
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.32
Consensus pattern (101 bp):
TCCCCTAGAACTTGAAGGCATAATGCCATATGAGTATTGAACAGACTATTGTGTCGAAGGCATCT
TCATATTAAGATCAAAGAAGTTAGTAGATAAATGTC
Found at i:1945224 original size:53 final size:54
Alignment explanation
Indices: 1945124--1945497 Score: 407
Period size: 54 Copynumber: 6.9 Consensus size: 54
1945114 TATAGTTATT
* * *
1945124 ATCAAGAAACCCCTAAAAATTATGCTTAGTTTATTTAAAAATTCATTTGAAGAC
1 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAGAC
* * * * ** *
1945178 GTCAAGAAACCCCT-AAAATCAAGCTTAGCTCCTTTCCAAATACATTTGTAA-AC
1 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTG-AAGAC
* * * * *
1945231 ATCAATAAACCCCTGAAAATCAGGCTT-GCCTCATTT-AAAATTCATTTGAAAAC
1 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTC-TTTAAAAATTCATTTGAAGAC
* * * * *
1945284 ATCAAGAAACCCCTGAAAATCAGGCTTAAGCTTCTTTCAAAATTCATTTGAAAAAT
1 ATCAAGAAACCCCTAAAAATTAGGCTT-AGCTTCTTTAAAAATTCATTTG-AAGAC
* * * *
1945340 ATCAAGAAACCCCTAAAAATTGGGCTTAGCTTTTTTAAAAATTCATTTTAAGAG
1 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAGAC
* * *
1945394 ATCAAGAAATCCCTAAAAATTAGGCTTATCTTCTTTAAAAATTCATTTAAAGAC
1 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAGAC
* *
1945448 ATCAAGAAACCCCTAAAAATTAGGCGTAGCTCCTTTAAAAAATT-ATTTGA
1 ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTT-AAAAATTCATTTGA
1945498 GAATTGTTTG
Statistics
Matches: 273, Mismatches: 38, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.01
53 81 0.30
54 120 0.44
55 42 0.15
56 28 0.10
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (54 bp):
ATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAGAC
Found at i:1947416 original size:11 final size:11
Alignment explanation
Indices: 1947390--1947422 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
1947380 GTTTGTGTAT
1947390 CTTTTATTTT-
1 CTTTTATTTTC
1947400 CTTTTATTTTC
1 CTTTTATTTTC
*
1947411 CTTTTAATTTC
1 CTTTTATTTTC
1947422 C
1 C
1947423 ATGATCTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.70
Consensus pattern (11 bp):
CTTTTATTTTC
Found at i:1947641 original size:10 final size:10
Alignment explanation
Indices: 1947626--1947668 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 10
1947616 CGATATCTTG
1947626 TTATTTCACT
1 TTATTTCACT
1947636 TTATTTCACAT
1 TTATTTCAC-T
1947647 GAGTTATTTCACT
1 ---TTATTTCACT
1947660 TTATTTCAC
1 TTATTTCAC
1947669 ATGTGGAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 18 0.62
11 1 0.03
13 1 0.03
14 9 0.31
ACGTcount: A:0.23, C:0.19, G:0.05, T:0.53
Consensus pattern (10 bp):
TTATTTCACT
Found at i:1947653 original size:24 final size:24
Alignment explanation
Indices: 1947625--1947671 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
1947615 ACGATATCTT
1947625 GTTATTTCACTTTATTTCACATGA
1 GTTATTTCACTTTATTTCACATGA
1947649 GTTATTTCACTTTATTTCACATG
1 GTTATTTCACTTTATTTCACATG
1947672 TGGAGGGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.17, G:0.09, T:0.51
Consensus pattern (24 bp):
GTTATTTCACTTTATTTCACATGA
Found at i:1954836 original size:16 final size:17
Alignment explanation
Indices: 1954805--1954838 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1954795 AAAAATATTT
1954805 AATTATTTAGTAAACAA
1 AATTATTTAGTAAACAA
1954822 AATTATTTA-TAAACAA
1 AATTATTTAGTAAACAA
1954838 A
1 A
1954839 TTCAGTATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (17 bp):
AATTATTTAGTAAACAA
Found at i:1955611 original size:27 final size:28
Alignment explanation
Indices: 1955581--1955643 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 28
1955571 ACATTATACG
1955581 AATTAAAATTTGA-AATAATA-TTAAAAA
1 AATTAAAATTTGAGAA-AATATTTAAAAA
1955608 AATT-AAA-TTGAGAAAATATTTTAAAAA
1 AATTAAAATTTGAGAAAATA-TTTAAAAA
*
1955635 AAGTAAAAT
1 AATTAAAAT
1955644 AACATTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
25 8 0.27
26 5 0.17
27 14 0.47
28 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (28 bp):
AATTAAAATTTGAGAAAATATTTAAAAA
Found at i:1956613 original size:99 final size:101
Alignment explanation
Indices: 1956500--1956703 Score: 333
Period size: 100 Copynumber: 2.0 Consensus size: 101
1956490 GATATGGTAA
*
1956500 AAATATTAAATTATGTTATTTTAATTTTTTGAATATTTTGTTAATTGCA-A-TTTTTAATATTAT
1 AAATATTAAATTATGTTATTTTAATTTTTTGAATATTTT-TTAATTGAATATTTTTTAATATTAT
*
1956563 TTTAAATTTTAATTCATAAAATGTTTATTAATTA-GG
65 TTCAAATTTTAATTCATAAAATGTTTATTAATTAGGG
*
1956599 AAATATTAAATTATGTTATTTTAATTTTTTGAATATTTTTTAATTTAATATTTTTTAATATTATT
1 AAATATTAAATTATGTTATTTTAATTTTTTGAATATTTTTTAATTGAATATTTTTTAATATTATT
* *
1956664 TCAAATTTTAATTCGTAGAATGTTTATTAATTAGGG
66 TCAAATTTTAATTCATAAAATGTTTATTAATTAGGG
1956700 AAAT
1 AAAT
1956704 TGTTGTATAT
Statistics
Matches: 97, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
98 7 0.07
99 40 0.41
100 44 0.45
101 6 0.06
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.54
Consensus pattern (101 bp):
AAATATTAAATTATGTTATTTTAATTTTTTGAATATTTTTTAATTGAATATTTTTTAATATTATT
TCAAATTTTAATTCATAAAATGTTTATTAATTAGGG
Done.