Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_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: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 51
Found at i:2133741 original size:20 final size:20
Alignment explanation
Indices: 2133652--2133751 Score: 89
Period size: 20 Copynumber: 5.0 Consensus size: 20
2133642 TTGCGATTTT
*
2133652 CATAATTCGCAATGCGAATA
1 CATAAATCGCAATGCGAATA
* * *
2133672 CGTAAATCGC-ATCGTGATTA
1 CATAAATCGCAAT-GCGAATA
*
2133692 -AGTAAATCACAATGCGAATTA
1 CA-TAAATCGCAATGCGAA-TA
*
2133713 GGA-AAATCGCAATGCGAATA
1 -CATAAATCGCAATGCGAATA
2133733 CATAAATCGCAATGCGAAT
1 CATAAATCGCAATGCGAAT
2133752 CTGACTATCG
Statistics
Matches: 63, Mismatches: 10, Indels: 14
0.72 0.11 0.16
Matches are distributed among these distances:
19 3 0.05
20 41 0.65
21 18 0.29
23 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (20 bp):
CATAAATCGCAATGCGAATA
Found at i:2133776 original size:41 final size:41
Alignment explanation
Indices: 2133534--2133777 Score: 125
Period size: 41 Copynumber: 6.0 Consensus size: 41
2133524 TTTTTCCAAT
* *
2133534 TCGCAATGCGAATTTGAAAAATCGCAATGCGAATTTGA-A-AAA
1 TCGCAATGCGAATCTG-ACAATCGCAATGCG-ATTT-ACATAAA
* * * * *
2133576 TCGCAATGCG-ATACTGACTATCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGAAT-CTGACAATCGCAATGCGATTTACATAAA
* * * ** * *
2133617 TCGCATTACG-AT-TTACATATTCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGAATCTGACA-A-TCGCAATGCGATTTACATAAA
*
2133658 TCGCAATGCGAATAC-GTA-AATCGC-ATCGTGA-TTA-AGTAAA
1 TCGCAATGCGAAT-CTG-ACAATCGCAAT-GCGATTTACA-TAAA
* * *
2133698 TCACAATGCGAAT-TAGGAAAATCGCAATGCGA-ATACATAAA
1 TCGCAATGCGAATCT--GACAATCGCAATGCGATTTACATAAA
*
2133739 TCGCAATGCGAATCTGACTATCGCAATGCGATTTACATA
1 TCGCAATGCGAATCTGACAATCGCAATGCGATTTACATA
2133778 GCGCCATTCG
Statistics
Matches: 154, Mismatches: 29, Indels: 39
0.69 0.13 0.18
Matches are distributed among these distances:
39 4 0.03
40 38 0.25
41 91 0.59
42 19 0.12
43 1 0.01
44 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (41 bp):
TCGCAATGCGAATCTGACAATCGCAATGCGATTTACATAAA
Found at i:2134344 original size:19 final size:20
Alignment explanation
Indices: 2134299--2134346 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
2134289 TTCGAGAATG
**
2134299 AAAATCGCAACGCGGAAATG
1 AAAATCGCAACGCGGAAACC
**
2134319 ACTATCGCAACGC-GAAACC
1 AAAATCGCAACGCGGAAACC
2134338 AAAATCGCA
1 AAAATCGCA
2134347 TTGCGATTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.44, C:0.27, G:0.19, T:0.10
Consensus pattern (20 bp):
AAAATCGCAACGCGGAAACC
Found at i:2134393 original size:33 final size:33
Alignment explanation
Indices: 2134347--2134501 Score: 220
Period size: 33 Copynumber: 4.5 Consensus size: 33
2134337 CAAAATCGCA
2134347 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
2134380 TTGAGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
2134413 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
2134446 TTGCGATAGTCATTTCCGCGTTGCGATTTTCATTCTCTCG
1 TTGCGATTTTCATTT-CGCGTTGCG------ATTCTCTCG
2134486 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
2134502 AACCAAAAGA
Statistics
Matches: 109, Mismatches: 6, Indels: 8
0.89 0.05 0.07
Matches are distributed among these distances:
33 77 0.71
34 9 0.08
39 1 0.01
40 22 0.20
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:2134416 original size:14 final size:14
Alignment explanation
Indices: 2134364--2134452 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
2134354 TTTCATTTCG
2134364 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
2134378 CGTTGAGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2134397 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2134411 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2134430 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2134444 CGTTGCGAT
1 CGTTGCGAT
2134453 AGTCATTTCC
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 28 0.47
16 6 0.10
17 6 0.10
19 19 0.32
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2136765 original size:21 final size:21
Alignment explanation
Indices: 2136741--2136807 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2136731 TCATTCCTCG
2136741 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
2136762 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
2136783 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
2136804 AGAG
1 AGAG
2136808 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:2136765 original size:42 final size:42
Alignment explanation
Indices: 2136689--2136807 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
2136679 GACTCACCTG
* * * * * * *
2136689 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
2136731 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
2136773 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
2136808 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:2138178 original size:14 final size:14
Alignment explanation
Indices: 2138159--2138194 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2138149 ATTGTTTAAT
2138159 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
2138173 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
2138187 TGATTTGT
1 TGATTTGT
2138195 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2138336 original size:14 final size:14
Alignment explanation
Indices: 2138317--2138356 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
2138307 ATGCAAAATG
*
2138317 AAAATCGCAACGAG
1 AAAATCGCAACGAC
*
2138331 AGAATCGCAACGAC
1 AAAATCGCAACGAC
2138345 AAAATCGCAACG
1 AAAATCGCAACG
2138357 CGAAACTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.25, G:0.20, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2138389 original size:19 final size:19
Alignment explanation
Indices: 2138367--2138484 Score: 85
Period size: 19 Copynumber: 6.7 Consensus size: 19
2138357 CGAAACTAAA
2138367 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
2138386 TTCGCTTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
2138401 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
2138419 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
2138434 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* **
2138452 TTCGCATTGCGATAGTCAT
1 TTCGCGTTGCGATTTTCAT
2138471 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
2138485 AGACATTAAG
Statistics
Matches: 74, Mismatches: 14, Indels: 21
0.68 0.13 0.19
Matches are distributed among these distances:
14 17 0.23
16 6 0.08
17 6 0.08
19 35 0.47
20 10 0.14
ACGTcount: A:0.12, C:0.25, G:0.20, T:0.43
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:2138413 original size:33 final size:33
Alignment explanation
Indices: 2138371--2138464 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
2138361 ACTAAATTCG
*
2138371 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
2138404 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
2138437 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
2138465 AGTCATTTCC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:2138483 original size:20 final size:20
Alignment explanation
Indices: 2138437--2138530 Score: 68
Period size: 20 Copynumber: 4.7 Consensus size: 20
2138427 GCGATTCTCT
**
2138437 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATAGTCATTTCCG
*
2138456 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* **
2138476 CGTTGCGATAGACA-TTAAG
1 CGTTGCGATAGTCATTTCCG
*
2138495 ATGATTGCGA-ACGTCATTTCCG
1 -CG-TTGCGATA-GTCATTTCCG
*
2138517 TGTTGCGATAGTCA
1 CGTTGCGATAGTCA
2138531 AATGATTGCC
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
19 17 0.29
20 26 0.45
21 12 0.21
22 3 0.05
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:2140734 original size:12 final size:12
Alignment explanation
Indices: 2140717--2140741 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2140707 TCTTCGGGGA
2140717 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2140729 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2140741 C
1 C
2140742 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:2140955 original size:24 final size:24
Alignment explanation
Indices: 2140928--2140974 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
2140918 CAAAATCCGA
*
2140928 GTATTGACCAATATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
2140952 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
2140975 AATACTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:2140983 original size:24 final size:24
Alignment explanation
Indices: 2140932--2140983 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
2140922 ATCCGAGTAT
* ** *
2140932 TGACCAATATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
2140956 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
2140980 TGAC
1 TGAC
2140984 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:2141739 original size:20 final size:20
Alignment explanation
Indices: 2141709--2141795 Score: 93
Period size: 20 Copynumber: 4.3 Consensus size: 20
2141699 GATTCTGTAT
*
2141709 TATCTCGTTGCGATAGTTAG
1 TATCGCGTTGCGATAGTTAG
* * *
2141729 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTTAG
** *
2141749 TATCGCGTTGCGATTTTGTAT
1 TATCGCGTTGCGATAGT-TAG
*
2141770 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTTAG
2141790 TATCGC
1 TATCGC
2141796 ATTGTAATTT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
20 36 0.69
21 16 0.31
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTTAG
Found at i:2141834 original size:62 final size:61
Alignment explanation
Indices: 2141689--2141884 Score: 209
Period size: 61 Copynumber: 3.2 Consensus size: 61
2141679 AACTTTGAAA
* * * * * *
2141689 ATCGCATTGCGATTCTGTATTATCTCGTTGCGATAGTTAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCAGTATCGCATTGCGAAAGTCAAT
* * **
2141750 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGTATCGCATTG-TAATTTTCCAA-
1 ATCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCAGTATCGCATTGCGAA-AGT-CAAT
* * *
2141811 ATTCGCATTGCGATTTTGTATTATCGCGTTTCGATAGTCAGTATCCCATTGCGATAGT-AAT
1 A-TCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCAGTATCGCATTGCGAAAGTCAAT
*
2141872 AATCGCGTTGCGA
1 -ATCGCATTGCGA
2141885 ATCTGGAAAC
Statistics
Matches: 111, Mismatches: 18, Indels: 12
0.79 0.13 0.09
Matches are distributed among these distances:
60 4 0.04
61 56 0.50
62 50 0.45
63 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTATTATCGCGTTGCGATAGTCAGTATCGCATTGCGAAAGTCAAT
Found at i:2141837 original size:21 final size:21
Alignment explanation
Indices: 2141749--2141837 Score: 58
Period size: 21 Copynumber: 4.3 Consensus size: 21
2141739 CGAAAGTCAG
*
2141749 TATCGCGTTGCGATTTTGTAT
1 TATCGCATTGCGATTTTGTAT
* * *
2141770 TATCGCGTTGCGA--TAGTCAG
1 TATCGCATTGCGATTTTGT-AT
** **
2141790 TATCGCATTGTAATTTTCCA-
1 TATCGCATTGCGATTTTGTAT
*
2141810 AATTCGCATTGCGATTTTGTAT
1 TA-TCGCATTGCGATTTTGTAT
2141832 TATCGC
1 TATCGC
2141838 GTTTCGATAG
Statistics
Matches: 49, Mismatches: 14, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
19 3 0.06
20 12 0.24
21 32 0.65
22 2 0.04
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (21 bp):
TATCGCATTGCGATTTTGTAT
Found at i:2142515 original size:36 final size:36
Alignment explanation
Indices: 2142433--2142542 Score: 161
Period size: 36 Copynumber: 3.1 Consensus size: 36
2142423 AAGATGAACA
* * *
2142433 CTTGAATCAAAAGTG-CTGATGCTTCCTTCCGTTC-A
1 CTTGAATCGAAAGTGTC-GATGCTTCCTTTCGTTCTT
2142468 CTTGAATCGAAAGTGTCGATGCTTCCTTTCGTTCTT
1 CTTGAATCGAAAGTGTCGATGCTTCCTTTCGTTCTT
*
2142504 CTTGAATCGAAAGTGTCGATGCTGCCTTTCGTTCTT
1 CTTGAATCGAAAGTGTCGATGCTTCCTTTCGTTCTT
2142540 CTT
1 CTT
2142543 ATTCACCTTC
Statistics
Matches: 69, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
35 30 0.43
36 39 0.57
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.39
Consensus pattern (36 bp):
CTTGAATCGAAAGTGTCGATGCTTCCTTTCGTTCTT
Found at i:2149574 original size:32 final size:32
Alignment explanation
Indices: 2149531--2149620 Score: 144
Period size: 32 Copynumber: 2.8 Consensus size: 32
2149521 ACCATTAACA
* *
2149531 ACTAACATTCTAACTTTTATTTTGTTGTTCAT
1 ACTAACATTCTAACTTTTATTTTATTGTTCAC
*
2149563 ATTAACATTCTAACTTTTATTTTATTGTTCAC
1 ACTAACATTCTAACTTTTATTTTATTGTTCAC
*
2149595 ACTAACATTCTAACTTTTTTTTTATT
1 ACTAACATTCTAACTTTTATTTTATT
2149621 TTTATTGTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.27, C:0.16, G:0.03, T:0.54
Consensus pattern (32 bp):
ACTAACATTCTAACTTTTATTTTATTGTTCAC
Found at i:2149678 original size:33 final size:34
Alignment explanation
Indices: 2149614--2149678 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 34
2149604 CTAACTTTTT
* * * **
2149614 TTTTATTTTTATTGTTCATACTAACTTACTAAAA
1 TTTTATTTTTATTGCTCAAAATAACCAACTAAAA
2149648 TTTTA-TTTTATTGCTCAAAATAACCAACTAA
1 TTTTATTTTTATTGCTCAAAATAACCAACTAA
2149679 TTTTCTAACA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
33 21 0.81
34 5 0.19
ACGTcount: A:0.35, C:0.14, G:0.03, T:0.48
Consensus pattern (34 bp):
TTTTATTTTTATTGCTCAAAATAACCAACTAAAA
Found at i:2155788 original size:32 final size:32
Alignment explanation
Indices: 2155752--2155844 Score: 78
Period size: 33 Copynumber: 2.9 Consensus size: 32
2155742 TGACACTACA
* *
2155752 TCTATCTGAGTCACCAAAGTCATATCATTACC
1 TCTATCTGAGCCAACAAAGTCATATCATTACC
* * * * * *
2155784 TCTATTTGAGGCATTCAAAATCATACCCTTACC
1 TCTATCTGAGCCA-ACAAAGTCATATCATTACC
* * *
2155817 TCTCTCTGAGCCAATAAAGTCACATCAT
1 TCTATCTGAGCCAACAAAGTCATATCAT
2155845 ATTCTTCTCA
Statistics
Matches: 45, Mismatches: 15, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
32 20 0.44
33 25 0.56
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.31
Consensus pattern (32 bp):
TCTATCTGAGCCAACAAAGTCATATCATTACC
Found at i:2158866 original size:233 final size:232
Alignment explanation
Indices: 2158456--2159663 Score: 1432
Period size: 233 Copynumber: 5.2 Consensus size: 232
2158446 GTTATAAGTT
* * * *
2158456 AAAAAATGAGAAAATTTTCTCATTTAATGCTTTCAGAAAA-TGAATTTTTTGAAAAGTAAGAAAA
1 AAAAAATGAGAAAAGTTTCTCATTTAA--ATAT--GAAAATTGAAATTTTTGAAAAGTAAGAAAA
* * * * * ** *
2158520 ATTTATTACCTGGTAAACTATTTCCAAAATTGGTAAGCCCTTCGGGAAATCAATAAGTCTTTCGA
62 GTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCATTCGGGCCATCAGTAAGTCTTTCGA
* * ** * *
2158585 GCATTATGCTTAATTCCTTGGGGTCATCTGTAAGTCTTTTGAGCAAGATTATAAGTTCTTCGGGC
127 GCATGATGATTAA-AACTTCGGGTCATCTGTAAGTCTTTTGAGCAAGATGATAAGTTCTTCGGGC
* *
2158650 CATCCACAAGACCTTTGGGCAGGATATTTTCACATGTTTCTC
191 CATCCACAAGACCTTTGGGCAGGATGTTTTCACATGTCTCTC
* * *
2158692 AAAAAATGAGAAAA-TATTCTCATTTAAATATGAAAATTGAACTTTTTTAAAGGTAAGAAAAGTT
1 AAAAAATGAGAAAAGT-TTCTCATTTAAATATGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTT
* * * * *
2158756 TCTTACCTAGTAACCTATTTCCAAAATTGGTAAGTAATTCGGGCCATTAGTAAGTCTTTTGATCA
65 TCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCA
* * *
2158821 CGACGCTTAAAACCTTCGGGTCATCTGTAAGTCTTTTGAGCAAGATGATAAG-TCATTCGGGCCA
130 TGATGATTAAAA-CTTCGGGTCATCTGTAAGTCTTTTGAGCAAGATGATAAGTTC-TTCGGGCCA
* *
2158885 TCCACAAGACCTTTGGGCATGATCTTTT-ATCATGTCTCTC
193 TCCACAAGACCTTTGGGCAGGATGTTTTCA-CATGTCTCTC
* *
2158925 GAAAAATGAGAAAAGTTTCTCATTTAAATATGAAATTTGAAATTTTTGAAAAGTAAGAAAAGTTT
1 AAAAAATGAGAAAAGTTTCTCATTTAAATATGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTT
* * * * * ** *
2158990 CTTACCTGGTAAACTAATTCCAAAATTTGTAAGTTATTTGTCCCATCATTAAGTCTTTCGAGCAT
66 CTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCAT
* * * * *
2159055 GATGTTTAAATTCTT-GGAGTCATCTGTAAAT-TTTTCGAGCAAGATGATAAGTCCTAT-GGGAC
131 GATGATTAAA-ACTTCGG-GTCATCTGTAAGTCTTTT-GAGCAAGATGATAAGTTCT-TCGGGCC
*
2159117 ATCCACAAGACCTTTGGGTAGGATGTTTTCACATGTCTCTC
192 ATCCACAAGACCTTTGGGCAGGATGTTTTCACATGTCTCTC
* *
2159158 AAAAAATAAGAAAAGTTTCTCATTTAAATATGAAAATTAAAATTTTTGAAAAGTAAGAAAAGTTT
1 AAAAAATGAGAAAAGTTTCTCATTTAAATATGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTT
* * *
2159223 CTTACCTAGTAGACTATTTCCAAAATTGGTAAGTCTTTCGGGCCAT-AGTAAGTCTTTCAAGCAT
66 CTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCAT
* * * *
2159287 GATGATTAAATATTTCGGATCATCTGTAAGTCTTTTAAGCAAGATGATAAGTCCTT-GAGGCCAT
131 GATGATTAAA-ACTTCGGGTCATCTGTAAGTCTTTTGAGCAAGATGATAAGTTCTTCG-GGCCAT
2159351 CCACAAGACCTTTGGGCAGGATGTTTTCACATGTCTCTC
194 CCACAAGACCTTTGGGCAGGATGTTTTCACATGTCTCTC
*
2159390 AAAAAATGAGAAAAGTTTCTCATTTAAATATGAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTT
1 AAAAAATGAGAAAAGTTTCTCATTTAAATATGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTT
* * * *
2159455 CTTACCTAGTAAACTA-TTCCTAAATTTGGTAAGTCCTTCGGTCCATCAGTAAGTATTTCGAGCA
66 CTTACCTAGTAAACTATTTCC-AAAATTGGTAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCA
* * * * *
2159519 TGATGAGTAAGTACTTCGGGTCATCTATAAGCCTTTCGAGCAAGATGATAAG-TCATTCGGGCCA
130 TGATGATTAA-AACTTCGGGTCATCTGTAAGTCTTTTGAGCAAGATGATAAGTTC-TTCGGGCCA
* * * * * * *
2159583 TCCATAAGACCTTCGGCCAGGATGTTTTTAAATGTTTTTTTTTTTC
193 TCCACAAGACCTTTGGGCAGGATGTTTTCACATG------TCTCTC
2159629 AAAAAATGAGAAATA-TTTCTCATTTAAATATGAAA
1 AAAAAATGAGAAA-AGTTTCTCATTTAAATATGAAA
2159664 TTTCAAAATT
Statistics
Matches: 842, Mismatches: 103, Indels: 51
0.85 0.10 0.05
Matches are distributed among these distances:
231 6 0.01
232 214 0.25
233 551 0.65
234 7 0.01
235 1 0.00
236 25 0.03
239 37 0.04
240 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (232 bp):
AAAAAATGAGAAAAGTTTCTCATTTAAATATGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTT
CTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCAT
GATGATTAAAACTTCGGGTCATCTGTAAGTCTTTTGAGCAAGATGATAAGTTCTTCGGGCCATCC
ACAAGACCTTTGGGCAGGATGTTTTCACATGTCTCTC
Found at i:2159516 original size:465 final size:464
Alignment explanation
Indices: 2158456--2159610 Score: 1506
Period size: 465 Copynumber: 2.5 Consensus size: 464
2158446 GTTATAAGTT
* * * *
2158456 AAAAAATGAGAAAATTTTCTCATTTAATGCTTTCAGAAAA-TGAATTTTTTGAAAAGTAAGAAAA
1 AAAAAATGAGAAAAGTTTCTCATTTAA--ATAT--GAAAATTGAAATTTTTGAAAAGTAAGAAAA
* * * * ***
2158520 ATTTATTACCTGGTAAACTATTTCCAAAATTGGTAAGCCCTTCGGGAAATCAATAAGTCTTTCGA
62 GTTTCTTACCTGGTAAACTA-TTCCAAATTTGGTAAGTCCTTCGGTCCATCAATAAGTCTTTCGA
* * * *
2158585 GCATTATGCTT-AATTCCTTGGGGTCATCTGTAAGTCTTTT-GAGCAAGATTATAAGTTCTTCGG
126 GCATGATGATTAAATT-CTT-GGGTCATCTGTAAGT-TTTTCGAGCAAGATGATAAGTCCTTCGG
* * *
2158648 GCCATCCACAAGACCTTTGGGCAGGATATTTTCACATGTTTCTCAAAAAATGAGAAAATATTCTC
188 GCCATCCACAAGACCTTTGGGCAGGATGTTTTCACATGTCTCTCAAAAAATAAGAAAATATTCTC
* * * *
2158713 ATTTAAATATGAAAATTGAACTTTTTTAAAGGTAAGAAAAGTTTCTTACCTAGTAACCTATTTCC
253 ATTTAAATATGAAAATTAAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAACCTATTTCC
** * * *
2158778 AAAATTGGTAAGTAATTCGGGCCATTAGTAAGTCTTTTGATCACGACGCTTAAAACCTTCGGGTC
318 AAAATTGGTAAGTAATTCGGGCCATTAGTAAGTCTTTCAAGCACGACGATTAAAACCTTCGGATC
* *
2158843 ATCTGTAAGTCTTTTGAGCAAGATGATAAGTCATTCGGGCCATCCACAAGACCTTTGGGCATGAT
383 ATCTGTAAGTCTTTTAAGCAAGATGATAAGTCATTCGGGCCATCCACAAGACCTTTGGGCAGGAT
2158908 CTTTTATCATGTCTCTC
448 CTTTTATCATGTCTCTC
* *
2158925 GAAAAATGAGAAAAGTTTCTCATTTAAATATGAAATTTGAAATTTTTGAAAAGTAAGAAAAGTTT
1 AAAAAATGAGAAAAGTTTCTCATTTAAATATGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTT
** * *
2158990 CTTACCTGGTAAACTAATTCCAAAATTT-GTAAGTTATT-TGTCCCATCATTAAGTCTTTCGAGC
66 CTTACCTGGTAAACT-ATTCC-AAATTTGGTAAGTCCTTCGGT-CCATCAATAAGTCTTTCGAGC
* * *
2159053 ATGATGTTTAAATTCTTGGAGTCATCTGTAAATTTTTCGAGCAAGATGATAAGTCCTAT-GGGAC
128 ATGATGATTAAATTCTTGG-GTCATCTGTAAGTTTTTCGAGCAAGATGATAAGTCCT-TCGGGCC
*
2159117 ATCCACAAGACCTTTGGGTAGGATGTTTTCACATGTCTCTCAAAAAATAAGAAAAGT-TTCTCAT
191 ATCCACAAGACCTTTGGGCAGGATGTTTTCACATGTCTCTCAAAAAATAAGAAAA-TATTCTCAT
2159181 TTAAATATGAAAATTAAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAGA-CTATTTCCA
255 TTAAATATGAAAATTAAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTA-ACCTATTTCCA
** * * *
2159245 AAATTGGTAAGTCTTTCGGGCCA-TAGTAAGTCTTTCAAGCATGATGATTAAATA-TTTCGGATC
319 AAATTGGTAAGTAATTCGGGCCATTAGTAAGTCTTTCAAGCACGACGATTAAA-ACCTTCGGATC
*
2159308 ATCTGTAAGTCTTTTAAGCAAGATGATAAGTCCTT-GAGGCCATCCACAAGACCTTTGGGCAGGA
383 ATCTGTAAGTCTTTTAAGCAAGATGATAAGTCATTCG-GGCCATCCACAAGACCTTTGGGCAGGA
*
2159372 TGTTTTCA-CATGTCTCTC
447 TCTTTT-ATCATGTCTCTC
*
2159390 AAAAAATGAGAAAAGTTTCTCATTTAAATATGAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTT
1 AAAAAATGAGAAAAGTTTCTCATTTAAATATGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTT
* * *
2159455 CTTACCTAGTAAACTATTCCTAAATTTGGTAAGTCCTTCGGTCCATCAGTAAGTATTTCGAGCAT
66 CTTACCTGGTAAACTATTCC-AAATTTGGTAAGTCCTTCGGTCCATCAATAAGTCTTTCGAGCAT
* * * * ** *
2159520 GATGAGTAAGTACTTCGGGTCATCTATAAGCCTTTCGAGCAAGATGATAAGTCATTCGGGCCATC
130 GATGATTAAATTCTT-GGGTCATCTGTAAGTTTTTCGAGCAAGATGATAAGTCCTTCGGGCCATC
* * *
2159585 CATAAGACCTTCGGCCAGGATGTTTT
194 CACAAGACCTTTGGGCAGGATGTTTT
2159611 TAAATGTTTT
Statistics
Matches: 600, Mismatches: 69, Indels: 38
0.85 0.10 0.05
Matches are distributed among these distances:
464 13 0.02
465 292 0.49
466 255 0.43
467 15 0.03
469 25 0.04
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (464 bp):
AAAAAATGAGAAAAGTTTCTCATTTAAATATGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTT
CTTACCTGGTAAACTATTCCAAATTTGGTAAGTCCTTCGGTCCATCAATAAGTCTTTCGAGCATG
ATGATTAAATTCTTGGGTCATCTGTAAGTTTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCA
CAAGACCTTTGGGCAGGATGTTTTCACATGTCTCTCAAAAAATAAGAAAATATTCTCATTTAAAT
ATGAAAATTAAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAACCTATTTCCAAAATTGG
TAAGTAATTCGGGCCATTAGTAAGTCTTTCAAGCACGACGATTAAAACCTTCGGATCATCTGTAA
GTCTTTTAAGCAAGATGATAAGTCATTCGGGCCATCCACAAGACCTTTGGGCAGGATCTTTTATC
ATGTCTCTC
Found at i:2159590 original size:41 final size:42
Alignment explanation
Indices: 2159483--2159595 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 42
2159473 CCTAAATTTG
* * ** *
2159483 GTAAGTCCTTCGGTCCAT-CAGTAAGTATTTCGAGCATGATGA
1 GTAAGTCATTCGGGCCATCCA-TAAGCCTTTCGAGCAAGATGA
* *
2159525 GTAAGT-ACTTCGGGTCATCTATAAGCCTTTCGAGCAAGATGA
1 GTAAGTCA-TTCGGGCCATCCATAAGCCTTTCGAGCAAGATGA
2159567 -TAAGTCATTCGGGCCATCCATAAGACCTT
1 GTAAGTCATTCGGGCCATCCATAAG-CCTT
2159596 CGGCCAGGAT
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
41 20 0.34
42 37 0.64
43 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (42 bp):
GTAAGTCATTCGGGCCATCCATAAGCCTTTCGAGCAAGATGA
Found at i:2160175 original size:134 final size:134
Alignment explanation
Indices: 2159935--2160643 Score: 807
Period size: 134 Copynumber: 5.3 Consensus size: 134
2159925 GCAAATTGAA
* * * ** *
2159935 CTCGATTCAATCTTCTCTGAAGAACAATGAAAAGAATCAACA-TTTCCAGATCTGATTTTCCCTC
1 CTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAA-AGTCCCCAGATATGATTTTCCCTC
* * * **
2159999 AATAAGAAGCGAAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAACGGAACAAG
65 AAGAAAAAGCGAAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
2160064 TCTAC
130 TCTAC
* * *
2160069 CTCGATTAAATCTTCCCTGAAGAACATTGGAATGAATCAAAGTCCCCAGATATGATTTTTCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAAAGTCCCCAGATATGATTTTCCCTCA
* * * *
2160134 AGAAAAAGCGAAACAAATCTCTCTCTTACTAGATTTGATATTCCCTTAGTAACAGTGGAACAAGT
66 AGAAAAAGCGAAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
**
2160199 CTGT
131 CTAC
** * *
2160203 CTTTATTCAATCTTCCCT-AATGAACATTGGAATGAATCAAAGTCCCCAGATCTGATTTTCCCTC
1 CTCGATTCAATCTTCCCTGAA-GAACAATGGAATGAATCAAAGTCCCCAGATATGATTTTCCCTC
* * * ** * * * *
2160267 AAGAATAAGAGGATTATATCCCTCTATTTCAAGATTTGATATTCCTTGAGTAATAGTGGAACAAG
65 AAGAAAAAGCGAAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
*
2160332 TCTGC
130 TCTAC
** * * * * *
2160337 CTTAATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAAACT-CCCATATAGGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAAAGTCCCCAGATATGATTTTCCCTCA
* * * * *
2160401 AGAAAAA-CTGGAACAAATCTCTCTCTTTCAAGATTTGATATTCCTTGAGTGACGGTGGAACAAG
66 AGAAAAAGC-GAAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
2160465 TCTAC
130 TCTAC
* * * *
2160470 CTCGATTCAATCTTCCTTGAAGAACAATAGAATGAATCAAAGTTCCCATATATGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAAAGTCCCCAGATATGATTTTCCCTCA
* * * * * * *
2160535 AGAAGAAGCTG-AACATATCCGTCTCTTTCAAGATTTGATATTCTCTAAGTGACAGTGGAATAAG
66 AGAAAAAGC-GAAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
2160599 TCTAC
130 TCTAC
* * *
2160604 CTCGATTCAATCTTCCCTAAAGAACAGTGGAATGAGTCAA
1 CTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAA
2160644 CGTTTCTTGA
Statistics
Matches: 491, Mismatches: 78, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
133 114 0.23
134 372 0.76
135 5 0.01
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (134 bp):
CTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAAAGTCCCCAGATATGATTTTCCCTCA
AGAAAAAGCGAAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
CTAC
Found at i:2160536 original size:267 final size:267
Alignment explanation
Indices: 2159935--2160643 Score: 892
Period size: 267 Copynumber: 2.6 Consensus size: 267
2159925 GCAAATTGAA
* *
2159935 CTCGATTCAATCTT-CTCTGAAGAACAATGAAAAGAATCAACA-TTTCCAGATCTGATTTTCCCT
1 CTCGATTCAATCTTCCT-TGAAGAACAATG-AATGAATCAA-AGTTCCCAGATCTGATTTTCCCT
* * * * **
2159998 CAATAAGAAGCGAAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAACGGAACAA
63 CAAGAAGAAGCGGAACATATCCCTCTCTTTCAAGATTTGATATTCCTTGAGTAACAGTGGAACAA
* * * * *
2160063 GTCTACCTCGATTAAATCTTCCCTGAAGAACATTGGAATGAATCAAAGTCCCCAGATATGATTTT
128 GTCTACCTCGATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAAACTCCCCAGATAGGATTTT
* *
2160128 TCCTCAAGAAAAAGCGAAACAAATCTCTCTCTTACTAGATTTGATATTCCCTTAGTAACAGTGGA
193 CCCTCAAGAAAAAGCGAAACAAATCTCTCTCTTACAAGATTTGATATTCCCTTAGTAACAGTGGA
**
2160193 ACAAGTCTGT
258 ACAAGTCTAC
** * * *
2160203 CTTTATTCAATCTTCCCT-AATGAACATTGGAATGAATCAAAGTCCCCAGATCTGATTTTCCCTC
1 CTCGATTCAATCTTCCTTGAA-GAACAAT-GAATGAATCAAAGTTCCCAGATCTGATTTTCCCTC
* * ** * *
2160267 AAGAATAAGAGGATTATATCCCTCTATTTCAAGATTTGATATTCCTTGAGTAATAGTGGAACAAG
64 AAGAAGAAGCGGAACATATCCCTCTCTTTCAAGATTTGATATTCCTTGAGTAACAGTGGAACAAG
* ** *
2160332 TCTGCCTTAATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAAACT-CCCATATAGGATTTTC
129 TCTACCTCGATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAAACTCCCCAGATAGGATTTTC
* * * *
2160396 CCTCAAGAAAAA-CTGGAACAAATCTCTCTCTTTCAAGATTTGATATT-CCTTGAGTGACGGTGG
194 CCTCAAGAAAAAGC-GAAACAAATCTCTCTCTTACAAGATTTGATATTCCCTT-AGTAACAGTGG
2160459 AACAAGTCTAC
257 AACAAGTCTAC
* *
2160470 CTCGATTCAATCTTCCTTGAAGAACAATAGAATGAATCAAAGTTCCCATATATGATTTTCCCTCA
1 CTCGATTCAATCTTCCTTGAAGAACAAT-GAATGAATCAAAGTTCCCAGATCTGATTTTCCCTCA
* * * * *
2160535 AGAAGAAGCTGAACATATCCGTCTCTTTCAAGATTTGATATT-CTCTAAGTGACAGTGGAATAAG
65 AGAAGAAGCGGAACATATCCCTCTCTTTCAAGATTTGATATTCCT-TGAGTAACAGTGGAACAAG
*
2160599 TCTACCTCGATTCAATCTTCCCTAAAGAACAGTGGAATGAGTCAA
129 TCTACCTCGATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAA
2160644 CGTTTCTTGA
Statistics
Matches: 374, Mismatches: 59, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
266 7 0.02
267 221 0.59
268 144 0.39
269 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (267 bp):
CTCGATTCAATCTTCCTTGAAGAACAATGAATGAATCAAAGTTCCCAGATCTGATTTTCCCTCAA
GAAGAAGCGGAACATATCCCTCTCTTTCAAGATTTGATATTCCTTGAGTAACAGTGGAACAAGTC
TACCTCGATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAAACTCCCCAGATAGGATTTTCCC
TCAAGAAAAAGCGAAACAAATCTCTCTCTTACAAGATTTGATATTCCCTTAGTAACAGTGGAACA
AGTCTAC
Found at i:2162159 original size:32 final size:32
Alignment explanation
Indices: 2162118--2162222 Score: 165
Period size: 32 Copynumber: 3.2 Consensus size: 32
2162108 ACCATTAACA
*
2162118 ACTAACATTCTAACTTTTATTTTATTGTTCGT
1 ACTAACATTCTAACTTTTATTTTATTGTTCAT
*
2162150 ACTAACATTCTAACTTTTATTTTATTGTTCAC
1 ACTAACATTCTAACTTTTATTTTATTGTTCAT
2162182 ACTAACATTCTAACATTTTTATTTTTATTGTTCAT
1 ACTAACATTCTAAC--TTTTA-TTTTATTGTTCAT
2162217 ACTAAC
1 ACTAAC
2162223 TGACTAATAT
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
32 44 0.66
34 5 0.07
35 18 0.27
ACGTcount: A:0.29, C:0.17, G:0.04, T:0.50
Consensus pattern (32 bp):
ACTAACATTCTAACTTTTATTTTATTGTTCAT
Found at i:2162235 original size:35 final size:32
Alignment explanation
Indices: 2162118--2162243 Score: 155
Period size: 32 Copynumber: 3.8 Consensus size: 32
2162108 ACCATTAACA
* *
2162118 ACTAACATTCTAACTTTTATTTTATTGTTCGT
1 ACTAACATTCTAAATTTTATTTTATTGTTCAT
* *
2162150 ACTAACATTCTAACTTTTATTTTATTGTTCAC
1 ACTAACATTCTAAATTTTATTTTATTGTTCAT
2162182 ACTAACATTCTAACATTTTTATTTTTATTGTTCAT
1 ACTAACATTCTAA-A-TTTTA-TTTTATTGTTCAT
*
2162217 ACTAAC-TGACTAATATTTTATTTTATT
1 ACTAACAT-TCTAA-ATTTTATTTTATT
2162244 TCTCAAACTA
Statistics
Matches: 84, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
32 43 0.51
33 7 0.08
34 11 0.13
35 23 0.27
ACGTcount: A:0.29, C:0.15, G:0.04, T:0.52
Consensus pattern (32 bp):
ACTAACATTCTAAATTTTATTTTATTGTTCAT
Found at i:2169400 original size:41 final size:41
Alignment explanation
Indices: 2169333--2169445 Score: 115
Period size: 41 Copynumber: 2.7 Consensus size: 41
2169323 GCTAAAACTC
* * * *
2169333 GTACTTTAGTGGTGTATATTT-GACAAACGCCACTACA-TATAA
1 GTACTTTAGT-G-GTATTTTTAAACAAACGCCACCACAGAAT-A
2169375 GTACTTTAGTGGTATTTTTAAACAAACGCCACCACAGAATA
1 GTACTTTAGTGGTATTTTTAAACAAACGCCACCACAGAATA
**
2169416 GTTA-TTTAGTGGCGTTTTTAAACAAACGCC
1 G-TACTTTAGTGGTATTTTTAAACAAACGCC
2169446 GCAATAGGGC
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
40 7 0.11
41 41 0.66
42 14 0.23
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Consensus pattern (41 bp):
GTACTTTAGTGGTATTTTTAAACAAACGCCACCACAGAATA
Found at i:2169518 original size:41 final size:41
Alignment explanation
Indices: 2169425--2169519 Score: 136
Period size: 41 Copynumber: 2.3 Consensus size: 41
2169415 AGTTATTTAG
* * *
2169425 TGGCGTTTTTAAACAAACGCCGCAATAGGGCACATATATCG
1 TGGCGTTTTTAGACAAACGCCGCAATAAGGCACATATATCA
* * *
2169466 TGGCGTTTTTAGACAAACGCCGCAATAAGGTATATATATTA
1 TGGCGTTTTTAGACAAACGCCGCAATAAGGCACATATATCA
2169507 TGGCGTTTTTAGA
1 TGGCGTTTTTAGA
2169520 TAACAGCCAC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (41 bp):
TGGCGTTTTTAGACAAACGCCGCAATAAGGCACATATATCA
Found at i:2170300 original size:134 final size:134
Alignment explanation
Indices: 2170060--2170764 Score: 896
Period size: 134 Copynumber: 5.3 Consensus size: 134
2170050 AATCGAACTT
** * *
2170060 GATTCAATCTTCCCTAAAGAACAATGGAATGAATCAACA-TTTCCAGGTCTGATTTTCCCTTAAG
1 GATTCAATCTTCCCTAAAGAACAATGGAATGAATCAA-AGTCCCCAGATCTGATTTTCCCTCAAG
* * *
2170124 AAGAAAAGAAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGTCT
65 AAGAAGAGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCT
2170189 ACCTC
130 ACCTC
*
2170194 GATTCAATCTTCCCTGAAGAACAATGGAATGAATCAAAGTCCCCAGATCTGATTTTCCCTCAAGA
1 GATTCAATCTTCCCTAAAGAACAATGGAATGAATCAAAGTCCCCAGATCTGATTTTCCCTCAAGA
* * * * *
2170259 AGAAGTGGAACATATCCCTCTATTTCTAGATTTGATATTCCCTGAGTAACAATGGAACAAGTCTG
66 AGAAGAGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTA
*
2170324 TCTC
131 CCTC
* * * * *
2170328 AATTCAATCTTCCCTAAAGAACAGTAGAATGAATCAAAGTCCCCAGATCCGATTTTCTCTCAAGA
1 GATTCAATCTTCCCTAAAGAACAATGGAATGAATCAAAGTCCCCAGATCTGATTTTCCCTCAAGA
* * * *
2170393 AGAAGAGGAGCAGATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTT
66 AGAAGAGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTA
*
2170458 CCTT
131 CCTC
* * * * * * *
2170462 GATTCAGTCTTCTCTAAAGACCATTGGAATGAATCAAAGTCCCGAGATCTAATTTTCCCTCAATA
1 GATTCAATCTTCCCTAAAGAACAATGGAATGAATCAAAGTCCCCAGATCTGATTTTCCCTCAAGA
* * * * *
2170527 AGAAGAAGAACATAT--CTCTCTTTCAAGATTTGATATTCCTTGAGTGATAGTGGAATAAGTCTA
66 AGAAGAGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTA
*
2170590 CCTT
131 CCTC
* * * * * *
2170594 GATTCAATCTTCCTTGAAGAACAATGGAATAAATCAAAGTCCCAATATCTGATTTTTCCTCAAGA
1 GATTCAATCTTCCCTAAAGAACAATGGAATGAATCAAAGTCCCCAGATCTGATTTTCCCTCAAGA
* * * * *
2170659 GGAAGCGGAACATATCCCTCTCTTTCAAGATTTGATATTCCTTGAGTGACAATGGAACAAGTCTA
66 AGAAGAGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTA
2170724 CCTC
131 CCTC
* * * *
2170728 GATTCAATCTTACCTGAAA-AATAGTGGAATGAGTCAA
1 GATTCAATCTTCCCT-AAAGAACAATGGAATGAATCAA
2170765 CATTTCTTGA
Statistics
Matches: 491, Mismatches: 76, Indels: 8
0.85 0.13 0.01
Matches are distributed among these distances:
132 111 0.23
133 1 0.00
134 377 0.77
135 2 0.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (134 bp):
GATTCAATCTTCCCTAAAGAACAATGGAATGAATCAAAGTCCCCAGATCTGATTTTCCCTCAAGA
AGAAGAGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTA
CCTC
Found at i:2180904 original size:33 final size:33
Alignment explanation
Indices: 2180867--2180930 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
2180857 AAAGGGTTTT
* *
2180867 GGTTCTAGCTGAGCCAGTTAAAAGCTAGGGAAA
1 GGTTCTAGCTGAGCCAGTGAAAAACTAGGGAAA
* * *
2180900 GGTTCTAGTTTAGCCTGTGAAAAACTAGGGA
1 GGTTCTAGCTGAGCCAGTGAAAAACTAGGGA
2180931 GTTTGTAAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (33 bp):
GGTTCTAGCTGAGCCAGTGAAAAACTAGGGAAA
Found at i:2186713 original size:21 final size:21
Alignment explanation
Indices: 2186689--2186734 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
2186679 TGATTTATTA
2186689 TTATAAATTTCAAGTTGGTTG
1 TTATAAATTTCAAGTTGGTTG
** *
2186710 TTATGGATTTCAAGTTTGTTG
1 TTATAAATTTCAAGTTGGTTG
2186731 TTAT
1 TTAT
2186735 GGATGTCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.04, G:0.20, T:0.52
Consensus pattern (21 bp):
TTATAAATTTCAAGTTGGTTG
Found at i:2186735 original size:21 final size:21
Alignment explanation
Indices: 2186695--2186747 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
2186685 ATTATTATAA
*
2186695 ATTTCAAGTTGGTTGTTATGG
1 ATTTCAAGTTTGTTGTTATGG
2186716 ATTTCAAGTTTGTTGTTATGG
1 ATTTCAAGTTTGTTGTTATGG
* *
2186737 ATGTCGAGTTT
1 ATTTCAAGTTT
2186748 ATTGGATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.19, C:0.06, G:0.26, T:0.49
Consensus pattern (21 bp):
ATTTCAAGTTTGTTGTTATGG
Found at i:2192033 original size:29 final size:29
Alignment explanation
Indices: 2191991--2192049 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
2191981 TATTGGTTTT
*
2191991 CTGGAAATTGAATTCTGGAAAATGAATTA
1 CTGGAAATTGAATTCTGGAAAATAAATTA
2192020 CTGGAAATTGAATTCTGGAAAATAAATTA
1 CTGGAAATTGAATTCTGGAAAATAAATTA
2192049 C
1 C
2192050 ATTTCTGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (29 bp):
CTGGAAATTGAATTCTGGAAAATAAATTA
Found at i:2192042 original size:15 final size:14
Alignment explanation
Indices: 2191989--2192040 Score: 86
Period size: 14 Copynumber: 3.6 Consensus size: 14
2191979 GTTATTGGTT
2191989 TTCTGGAAATTGAA
1 TTCTGGAAATTGAA
*
2192003 TTCTGGAAAATGAA
1 TTCTGGAAATTGAA
2192017 TTACTGGAAATTGAA
1 TT-CTGGAAATTGAA
2192032 TTCTGGAAA
1 TTCTGGAAA
2192041 ATAAATTACA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
14 22 0.63
15 13 0.37
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (14 bp):
TTCTGGAAATTGAA
Found at i:2192047 original size:14 final size:14
Alignment explanation
Indices: 2191989--2192047 Score: 82
Period size: 14 Copynumber: 4.1 Consensus size: 14
2191979 GTTATTGGTT
*
2191989 TTCTGGAAATTGAA
1 TTCTGGAAAATGAA
2192003 TTCTGGAAAATGAA
1 TTCTGGAAAATGAA
*
2192017 TTACTGGAAATTGAA
1 TT-CTGGAAAATGAA
*
2192032 TTCTGGAAAATAAA
1 TTCTGGAAAATGAA
2192046 TT
1 TT
2192048 ACATTTCTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 27 0.68
15 13 0.32
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.34
Consensus pattern (14 bp):
TTCTGGAAAATGAA
Found at i:2192073 original size:14 final size:14
Alignment explanation
Indices: 2192051--2192084 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2192041 ATAAATTACA
*
2192051 TTTCTGGAAAACGT
1 TTTCCGGAAAACGT
*
2192065 TTTCCGGAAAATGT
1 TTTCCGGAAAACGT
2192079 TTTCCG
1 TTTCCG
2192085 TATGAATTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.38
Consensus pattern (14 bp):
TTTCCGGAAAACGT
Found at i:2192430 original size:27 final size:29
Alignment explanation
Indices: 2192380--2192451 Score: 85
Period size: 27 Copynumber: 2.5 Consensus size: 29
2192370 TATCTTTATT
*
2192380 AAAATATTATTATATTATTATATTAATAAA
1 AAAATAATATTAT-TTATTATATTAATAAA
*
2192410 AAAATAATATTATTTA-T-TATTAATAAT
1 AAAATAATATTATTTATTATATTAATAAA
**
2192437 TTAATAATATTATTT
1 AAAATAATATTATTT
2192452 CTATGAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 22 0.58
28 1 0.03
29 3 0.08
30 12 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
AAAATAATATTATTTATTATATTAATAAA
Found at i:2193035 original size:41 final size:41
Alignment explanation
Indices: 2192988--2193067 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
2192978 AAACACTAGA
* *
2192988 AAACATTTTCCGAATAATGAATTACGGGAAACAAACACGGG
1 AAACATTTTCCGAAAAACGAATTACGGGAAACAAACACGGG
* *
2193029 AAACATTTTTCGAAAAACGAATTACGTGAAACAAACACG
1 AAACATTTTCCGAAAAACGAATTACGGGAAACAAACACG
2193068 AGATTTCGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.46, C:0.17, G:0.16, T:0.20
Consensus pattern (41 bp):
AAACATTTTCCGAAAAACGAATTACGGGAAACAAACACGGG
Found at i:2193438 original size:33 final size:30
Alignment explanation
Indices: 2193396--2193480 Score: 84
Period size: 31 Copynumber: 2.7 Consensus size: 30
2193386 GTGGGAGCTT
* *
2193396 AAAT-ATTTTTTAATAAATTATCTTTT-TCAA
1 AAATAATTTTTAAAGAAATT-T-TTTTGTCAA
2193426 AATATAAATTTTTAAAGAAATTTTTTTGTCAA
1 AA-AT-AATTTTTAAAGAAATTTTTTTGTCAA
*
2193458 AAATAATTTTTCAAAGAAGTTTT
1 AAATAATTTTT-AAAGAAATTTT
2193481 GTTATATCAA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
30 9 0.19
31 18 0.38
32 7 0.15
33 13 0.28
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (30 bp):
AAATAATTTTTAAAGAAATTTTTTTGTCAA
Found at i:2193491 original size:33 final size:31
Alignment explanation
Indices: 2193400--2193493 Score: 84
Period size: 33 Copynumber: 2.9 Consensus size: 31
2193390 GAGCTTAAAT
* *
2193400 ATTTTTTAATAAATTATCTTTT-TCAAAATATAA
1 ATTTTTAAAGAAATT-T-TTTTATCAAAA-ATAA
*
2193433 ATTTTTAAAGAAATTTTTTTGTCAAAAAT-A
1 ATTTTTAAAGAAATTTTTTTATCAAAAATAA
*
2193463 ATTTTTCAAAGAAGTTTTGTTATATCAAAAA
1 ATTTTT-AAAGAAATTTT-TT-TATCAAAAA
2193494 GGAGATATTG
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
30 7 0.13
31 16 0.30
32 9 0.17
33 21 0.40
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (31 bp):
ATTTTTAAAGAAATTTTTTTATCAAAAATAA
Found at i:2201132 original size:19 final size:21
Alignment explanation
Indices: 2201110--2201151 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
2201100 TTTATTGGTT
2201110 AGCATTTTT-TT-ATAAACCA
1 AGCATTTTTCTTGATAAACCA
*
2201129 AGCATTTTTCTTGATAAATCA
1 AGCATTTTTCTTGATAAACCA
2201150 AG
1 AG
2201152 AAAAATATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 2 0.10
21 9 0.45
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (21 bp):
AGCATTTTTCTTGATAAACCA
Found at i:2203371 original size:88 final size:88
Alignment explanation
Indices: 2203222--2203398 Score: 336
Period size: 88 Copynumber: 2.0 Consensus size: 88
2203212 ATTAGGCACT
2203222 GGTAATTTCACAGATATTGAGACCTGATATCACAGGCTGTAAACTGTTAAGAACCATGGTGATAC
1 GGTAATTTCACAGATATTGAGACCTGATATCACAGGCTGTAAACTGTTAAGAACCATGGTGATAC
2203287 CAAGAAGCTATGCGAGATGAGAA
66 CAAGAAGCTATGCGAGATGAGAA
* *
2203310 GGTAATTTCACAGATATTGAGACCTGATATCACAGGCTGTACACTTTTAAGAACCATGGTGATAC
1 GGTAATTTCACAGATATTGAGACCTGATATCACAGGCTGTAAACTGTTAAGAACCATGGTGATAC
2203375 CAAGAAGCTATGCGAGATGAGAA
66 CAAGAAGCTATGCGAGATGAGAA
2203398 G
1 G
2203399 CAGCTCGTTG
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 87 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (88 bp):
GGTAATTTCACAGATATTGAGACCTGATATCACAGGCTGTAAACTGTTAAGAACCATGGTGATAC
CAAGAAGCTATGCGAGATGAGAA
Found at i:2207594 original size:50 final size:50
Alignment explanation
Indices: 2207507--2207629 Score: 122
Period size: 50 Copynumber: 2.4 Consensus size: 50
2207497 AGAAAGACGA
* * * *
2207507 ACCCTTGAAGCGCGCCTTACGCTGATCTGGCGCCACGTGGGGTAAGGCAC
1 ACCCCTGAAGCGCGCCTTATGCTGATCTGGCGACACGTGGGCTAAGGCAC
** * *
2207557 ACCCCTGAAGCGCGCCTTATGCTGA-CATGGTTACACGTTGGCTAAGGCGC
1 ACCCCTGAAGCGCGCCTTATGCTGATC-TGGCGACACGTGGGCTAAGGCAC
** *
2207607 AGCCCCTGGGGTGCGCCTTATGC
1 A-CCCCTGAAGCGCGCCTTATGC
2207630 CACGTAGGGG
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
49 1 0.02
50 41 0.68
51 18 0.30
ACGTcount: A:0.17, C:0.32, G:0.31, T:0.20
Consensus pattern (50 bp):
ACCCCTGAAGCGCGCCTTATGCTGATCTGGCGACACGTGGGCTAAGGCAC
Found at i:2209664 original size:24 final size:24
Alignment explanation
Indices: 2209637--2209695 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
2209627 TCGAAATTTG
2209637 ATCTTGGTCAATACCCGGACTTTA
1 ATCTTGGTCAATACCCGGACTTTA
*
2209661 ATCTTGGTCAATACCCGGACTTTG
1 ATCTTGGTCAATACCCGGACTTTA
2209685 ATCTTGGTCAA
1 ATCTTGGTCAA
2209696 CACTCGAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (24 bp):
ATCTTGGTCAATACCCGGACTTTA
Found at i:2209708 original size:24 final size:24
Alignment explanation
Indices: 2209628--2209710 Score: 103
Period size: 24 Copynumber: 3.5 Consensus size: 24
2209618 AGTCAGTATT
*
2209628 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
* *
2209652 CGGACTTTAATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
* * *
2209676 CGGACTTTGATCTTGGTCAACACT
1 CGAACTTTGATCTTGGTCAATACC
*
2209700 CGAATTTTGAT
1 CGAACTTTGAT
2209711 GATGTGATGG
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (24 bp):
CGAACTTTGATCTTGGTCAATACC
Found at i:2211983 original size:18 final size:18
Alignment explanation
Indices: 2211960--2211995 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2211950 AAGCAAAAGG
2211960 AAATCAAAATCGCAATCA
1 AAATCAAAATCGCAATCA
*
2211978 AAATCAAAATCTCAATCA
1 AAATCAAAATCGCAATCA
2211996 CAACCGGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCGCAATCA
Found at i:2212600 original size:20 final size:20
Alignment explanation
Indices: 2212571--2212620 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
2212561 ATGTTGCGAT
2212571 CAACGCGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
*
2212591 CAATGCGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
2212611 CAACGCGAAA
1 CAACGCGAAA
2212621 TCGCAAACCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.24, G:0.20, T:0.14
Consensus pattern (20 bp):
CAACGCGAAAGTCAAATTCG
Found at i:2212646 original size:14 final size:14
Alignment explanation
Indices: 2212608--2212646 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
2212598 AAAGTCAAAT
2212608 TCGCAACGCG-AAA
1 TCGCAACGCGAAAA
2212621 TCGCAAAC-CGAAAA
1 TCGC-AACGCGAAAA
2212635 TCGCAACGCGAA
1 TCGCAACGCGAA
2212647 TTTAACTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 9 0.39
14 14 0.61
ACGTcount: A:0.41, C:0.31, G:0.21, T:0.08
Consensus pattern (14 bp):
TCGCAACGCGAAAA
Found at i:2212667 original size:20 final size:20
Alignment explanation
Indices: 2212642--2212731 Score: 137
Period size: 20 Copynumber: 4.5 Consensus size: 20
2212632 AAATCGCAAC
*
2212642 GCGAATTT-AACTTTCACATT
1 GCGAATTTGAA-TTTCGCATT
*
2212662 GCGAATTTGACTTTCGCATT
1 GCGAATTTGAATTTCGCATT
*
2212682 ACGAATTTGAATTTCGCATT
1 GCGAATTTGAATTTCGCATT
2212702 GCGAATTTGAATTTCGCATT
1 GCGAATTTGAATTTCGCATT
2212722 GCGAATTTGA
1 GCGAATTTGA
2212732 CTATCGTAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 63 0.98
21 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.39
Consensus pattern (20 bp):
GCGAATTTGAATTTCGCATT
Found at i:2212851 original size:14 final size:13
Alignment explanation
Indices: 2212832--2212881 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
2212822 AATCAATTAA
2212832 ACATTATTGTGGGT
1 ACATTATT-TGGGT
*
2212846 ACATTATTT--GA
1 ACATTATTTGGGT
*
2212857 ACATTGTTATGGGT
1 ACATTATT-TGGGT
2212871 ACATTATTTGG
1 ACATTATTTGG
2212882 AAAATAATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
11 8 0.28
12 1 0.03
13 4 0.14
14 16 0.55
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (13 bp):
ACATTATTTGGGT
Found at i:2212859 original size:25 final size:25
Alignment explanation
Indices: 2212831--2212880 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
2212821 AAATCAATTA
*
2212831 AACATTATTGTGGGTACATTATTTG
1 AACATTATTATGGGTACATTATTTG
*
2212856 AACATTGTTATGGGTACATTATTTG
1 AACATTATTATGGGTACATTATTTG
2212881 GAAAATAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (25 bp):
AACATTATTATGGGTACATTATTTG
Found at i:2213300 original size:24 final size:24
Alignment explanation
Indices: 2213249--2213301 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
2213239 TTTCATATGT
* * *
2213249 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
2213273 AATTTGAGTTTGAATTTTAATATA
1 AATTTGAGTTTGAATTTAAATATA
2213297 AATTT
1 AATTT
2213302 CGGTTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:2214829 original size:27 final size:28
Alignment explanation
Indices: 2214775--2214826 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
2214765 ATAATTCTTA
* *
2214775 TTTACACATCAAATTAAACAAATCAATT
1 TTTACAAATCAAATTAAACAAAGCAATT
2214803 TTTACAAATC-AATTAAAC-AAGCAA
1 TTTACAAATCAAATTAAACAAAGCAA
2214827 ATTCTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 8 0.36
28 9 0.41
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (28 bp):
TTTACAAATCAAATTAAACAAAGCAATT
Found at i:2216264 original size:21 final size:21
Alignment explanation
Indices: 2216240--2216315 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
2216230 GCAGGCGGGA
* *
2216240 CCTCTTAAACGATGACAGGGG
1 CCTCTTGAACGATGAGAGGGG
* *
2216261 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGAGAGGGG
* *
2216282 CTTCTTCG-ATGATGAGAGGGG
1 CCTCTT-GAACGATGAGAGGGG
2216303 CCTCTTGAACGAT
1 CCTCTTGAACGAT
2216316 AGGAGACACC
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 1 0.02
21 41 0.95
22 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (21 bp):
CCTCTTGAACGATGAGAGGGG
Found at i:2218793 original size:22 final size:23
Alignment explanation
Indices: 2218756--2218805 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
2218746 AACACAATAA
*
2218756 AATTTCTACACATAAACGTAAAT
1 AATTTCTACACATAAACATAAAT
*
2218779 AATTT-TATACATAAACATAAAT
1 AATTTCTACACATAAACATAAAT
2218801 AATTT
1 AATTT
2218806 AAATGATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (23 bp):
AATTTCTACACATAAACATAAAT
Found at i:2221201 original size:18 final size:18
Alignment explanation
Indices: 2221178--2221221 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
2221168 AATAAAATTT
*
2221178 TAAAATAAATATTATTAA
1 TAAAATAAATATAATTAA
2221196 TAAAAT--ATATAATTAA
1 TAAAATAAATATAATTAA
*
2221212 TAAAAAAAAT
1 TAAAATAAAT
2221222 TAAATTTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 14 0.64
18 8 0.36
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAAATAAATATAATTAA
Found at i:2223637 original size:2 final size:2
Alignment explanation
Indices: 2223630--2223675 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
2223620 TAGGCCGGCT
2223630 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2223671 TA TA T
1 TA TA T
2223676 TATTTTTCCC
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2223852 original size:13 final size:13
Alignment explanation
Indices: 2223834--2223859 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2223824 AGTTGTGAAA
2223834 GCTGAAAGACAAT
1 GCTGAAAGACAAT
2223847 GCTGAAAGACAAT
1 GCTGAAAGACAAT
2223860 CCTATTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.15
Consensus pattern (13 bp):
GCTGAAAGACAAT
Found at i:2225682 original size:9 final size:8
Alignment explanation
Indices: 2225656--2225686 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
2225646 AGGAGGTGTG
2225656 AAATTATA
1 AAATTATA
2225664 AAATTATA
1 AAATTATA
2225672 AAATATATA
1 AAAT-TATA
2225681 AAATTA
1 AAATTA
2225687 AGTAATTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AAATTATA
Found at i:2227938 original size:54 final size:53
Alignment explanation
Indices: 2227874--2227981 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 53
2227864 CTTTGCCTCC
2227874 TCATAAAGCTATCAAATCGCTTGTACCACTGCCCTCGGAGATTGCTTCAATCCA
1 TCATAAAGCTATCAAATCGCTTGTACCACTG-CCTCGGAGATTGCTTCAATCCA
2227928 TCATAAAGCTATCAAATCGCTTGTACCACTGCCTCGGAGATTGCTTCAATCCA
1 TCATAAAGCTATCAAATCGCTTGTACCACTGCCTCGGAGATTGCTTCAATCCA
2227981 T
1 T
2227982 ATAGCGATTT
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 23 0.43
54 31 0.57
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.29
Consensus pattern (53 bp):
TCATAAAGCTATCAAATCGCTTGTACCACTGCCTCGGAGATTGCTTCAATCCA
Found at i:2234019 original size:24 final size:24
Alignment explanation
Indices: 2233987--2234108 Score: 217
Period size: 24 Copynumber: 5.1 Consensus size: 24
2233977 ACTGTTAATA
**
2233987 TTTTTAGGTTAAAGTGGTTTATAG
1 TTTTTAGGTTAAAGTGGTTTAGGG
2234011 TTTTTAGGTTAAAGTGGTTTAGGG
1 TTTTTAGGTTAAAGTGGTTTAGGG
2234035 TTTTTAGGTTAAAGTGGTTTAGGG
1 TTTTTAGGTTAAAGTGGTTTAGGG
2234059 TTTTTAGGTTAAAGTGGTTTAGGG
1 TTTTTAGGTTAAAGTGGTTTAGGG
*
2234083 TTTTTAGGTTAAAATGGTTTAGGG
1 TTTTTAGGTTAAAGTGGTTTAGGG
2234107 TT
1 TT
2234109 GATTTTTTTA
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 95 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (24 bp):
TTTTTAGGTTAAAGTGGTTTAGGG
Found at i:2234540 original size:53 final size:51
Alignment explanation
Indices: 2234468--2234590 Score: 167
Period size: 53 Copynumber: 2.4 Consensus size: 51
2234458 ATATTGAAAT
*
2234468 ATATTAGAAAATACAATTACATTGAAATATTAGAAACAAACACATACAATGAA
1 ATATTAAAAAATACAATTACATTGAAATATTAG-AA-AAACACATACAATGAA
*
2234521 ATATTAAAAAATA-AGATTACATTGAAATATTAGAAAAACACATACATTGAA
1 ATATTAAAAAATACA-ATTACATTGAAATATTAGAAAAACACATACAATGAA
* * *
2234572 ATAATAGAAACTACAATTA
1 ATATTAAAAAATACAATTA
2234591 AATAAGTAAG
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
51 29 0.46
52 4 0.06
53 30 0.48
ACGTcount: A:0.57, C:0.10, G:0.07, T:0.26
Consensus pattern (51 bp):
ATATTAAAAAATACAATTACATTGAAATATTAGAAAAACACATACAATGAA
Found at i:2234548 original size:26 final size:26
Alignment explanation
Indices: 2234442--2234581 Score: 135
Period size: 26 Copynumber: 5.3 Consensus size: 26
2234432 CGAATATAAA
* * *
2234442 ATTATAAAATACACATATATTGAAATAT
1 ATTAGAAAAAACACATACATTG-AA-AT
*
2234470 ATTAGAAAATACA-ATTACATTGAAAT
1 ATTAGAAAAAACACA-TACATTGAAAT
*
2234496 ATTAGAAACAAACACATACAATGAAAT
1 ATTAGAAA-AAACACATACATTGAAAT
*
2234523 ATTA-AAAAATA-AGATTACATTGAAAT
1 ATTAGAAAAA-ACACA-TACATTGAAAT
2234549 ATTAG-AAAAACACATACATTGAAAT
1 ATTAGAAAAAACACATACATTGAAAT
*
2234574 AATAGAAA
1 ATTAGAAA
2234582 CTACAATTAA
Statistics
Matches: 96, Mismatches: 8, Indels: 18
0.79 0.07 0.15
Matches are distributed among these distances:
25 20 0.21
26 36 0.38
27 21 0.22
28 19 0.20
ACGTcount: A:0.57, C:0.09, G:0.07, T:0.27
Consensus pattern (26 bp):
ATTAGAAAAAACACATACATTGAAAT
Found at i:2237563 original size:8 final size:8
Alignment explanation
Indices: 2237550--2237594 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
2237540 GAGAGATCAA
2237550 TTTGAGAG
1 TTTGAGAG
*
2237558 TTTGAGAA
1 TTTGAGAG
*
2237566 TTTAAGAG
1 TTTGAGAG
2237574 TTTGAGAG
1 TTTGAGAG
**
2237582 AATGAGAG
1 TTTGAGAG
2237590 TTTGA
1 TTTGA
2237595 CGGTGTAAGG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.33, C:0.00, G:0.31, T:0.36
Consensus pattern (8 bp):
TTTGAGAG
Found at i:2237567 original size:16 final size:16
Alignment explanation
Indices: 2237548--2237594 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
2237538 TAGAGAGATC
2237548 AATTTGAGAGTTTGAG
1 AATTTGAGAGTTTGAG
*
2237564 AATTTAAGAGTTTGAG
1 AATTTGAGAGTTTGAG
*
2237580 AGA-ATGAGAGTTTGA
1 A-ATTTGAGAGTTTGA
2237595 CGGTGTAAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 26 0.96
17 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.34
Consensus pattern (16 bp):
AATTTGAGAGTTTGAG
Found at i:2238029 original size:33 final size:33
Alignment explanation
Indices: 2237987--2238061 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 33
2237977 TATATATTTG
* * * **
2237987 ATTGTGTTTGTGGTCTTGACTTTTAAACTTCTC
1 ATTGTGTTTGTGGTCCTCACCTCCAAACTTCTC
2238020 ATTGTGTTTGTGGTCCTCACCTCCAAACTTCTC
1 ATTGTGTTTGTGGTCCTCACCTCCAAACTTCTC
*
2238053 ATTGAGTTT
1 ATTGTGTTT
2238062 CTTTAGACCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.16, C:0.20, G:0.17, T:0.47
Consensus pattern (33 bp):
ATTGTGTTTGTGGTCCTCACCTCCAAACTTCTC
Found at i:2238784 original size:6 final size:6
Alignment explanation
Indices: 2238753--2238853 Score: 94
Period size: 6 Copynumber: 16.8 Consensus size: 6
2238743 CTTTAATGTC
* * * * *
2238753 AATTTG AATGTA AATTTT AATTTG AATATG AATTTG GATTTG AATTTG
1 AATTTG AATTTG AATTTG AATTTG AATTTG AATTTG AATTTG AATTTG
* * * * * **
2238801 AATTTA AATTTG CATATG AATTTG AATTTG GATTTG GATTTG CGTTTG
1 AATTTG AATTTG AATTTG AATTTG AATTTG AATTTG AATTTG AATTTG
2238849 AATTT
1 AATTT
2238854 TATTTTTAGC
Statistics
Matches: 75, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 75 1.00
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.49
Consensus pattern (6 bp):
AATTTG
Found at i:2238810 original size:24 final size:24
Alignment explanation
Indices: 2238766--2238853 Score: 104
Period size: 24 Copynumber: 3.7 Consensus size: 24
2238756 TTGAATGTAA
* *
2238766 ATTTTAATTTGAATATGAATTTGG
1 ATTTGAATTTGAATTTGAATTTGG
* *
2238790 ATTTGAATTTGAATTTAAATTTGC
1 ATTTGAATTTGAATTTGAATTTGG
* *
2238814 ATATGAATTTGAATTTGGATTTGG
1 ATTTGAATTTGAATTTGAATTTGG
**
2238838 ATTTGCGTTTGAATTT
1 ATTTGAATTTGAATTT
2238854 TATTTTTAGC
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.50
Consensus pattern (24 bp):
ATTTGAATTTGAATTTGAATTTGG
Found at i:2241208 original size:23 final size:23
Alignment explanation
Indices: 2241171--2241232 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
2241161 CAGCTCATAT
*
2241171 AAATGCACCGAAGTGCCATGTAG
1 AAATGCACCGAAGTGCCACGTAG
* * *
2241194 AATTGCACCGTAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCACGTAG
2241217 AAATGCACCGAAGTGC
1 AAATGCACCGAAGTGC
2241233 TATATAAGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.18
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACGTAG
Found at i:2242016 original size:14 final size:14
Alignment explanation
Indices: 2241997--2242028 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
2241987 AGTTTTATCT
2241997 ATTTATTTAGTTCA
1 ATTTATTTAGTTCA
2242011 ATTTATTTAGTTCA
1 ATTTATTTAGTTCA
2242025 ATTT
1 ATTT
2242029 CCATGACTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.59
Consensus pattern (14 bp):
ATTTATTTAGTTCA
Found at i:2242248 original size:2 final size:2
Alignment explanation
Indices: 2242241--2242276 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2242231 ATATTATGTC
2242241 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
2242277 TATCAATGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:2246606 original size:216 final size:211
Alignment explanation
Indices: 2246223--2246627 Score: 702
Period size: 216 Copynumber: 1.9 Consensus size: 211
2246213 TTAGGGAACA
2246223 CACTAGAGAATCCAGTATTTTCAGAGGCCATTATAGTTATCATTTTGGATAACAAACTTATGAAT
1 CACTAGAGAATCCAGTATTTTCAGAGGCCATTATAGTTATCATTTTGGATAACAAACTTATGAAT
2246288 TTGATCGAATTCCAGGAAAAAGGTCCTATTGAGGAAAATCGATTACTAACCGATCTAGCCAGACA
66 TTGATCGAATTCCAGGAAAAAGGTCCTATTGAGGAAAATCGATTACTAACCGATCTAGCCAGACA
* * *
2246353 TTTAAGGTTGATACATTAGAATCCCACTATATTTTCGTGTGCATTAGGAAAACGTTCAGAGGCCA
131 TTTAAGGTTGATACATTAGAATCCCACTATATTTTCGTATGCATTAGAAAAACATTCAGAGGCCA
2246418 TTGTACATTAGAATCC
196 TTGTACATTAGAATCC
*
2246434 CACTAGAGAATCCAAGTATTTTCAGAGGCCATTGTAGTTATCATTTTGGATAACATGAAACTTAT
1 CACTAGAGAATCC-AGTATTTTCAGAGGCCATTATAGTTATCATTTTGGATAAC---AAACTTAT
* *
2246499 GAAATTTGATCGAATTCCAGGAACAAGGTCCTATTGAGGAGAATCGATTACTAACCGATCTAGCC
62 G-AATTTGATCGAATTCCAGGAAAAAGGTCCTATTGAGGAAAATCGATTACTAACCGATCTAGCC
*
2246564 AGACATTTAAGGTTGATACATTAGAATCCCACTATATTTTCGTATGTATTAGAAAAACATTCAG
126 AGACATTTAAGGTTGATACATTAGAATCCCACTATATTTTCGTATGCATTAGAAAAACATTCAG
2246628 GAACCTTTAT
Statistics
Matches: 182, Mismatches: 7, Indels: 5
0.94 0.04 0.03
Matches are distributed among these distances:
211 13 0.07
212 39 0.21
215 9 0.05
216 121 0.66
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (211 bp):
CACTAGAGAATCCAGTATTTTCAGAGGCCATTATAGTTATCATTTTGGATAACAAACTTATGAAT
TTGATCGAATTCCAGGAAAAAGGTCCTATTGAGGAAAATCGATTACTAACCGATCTAGCCAGACA
TTTAAGGTTGATACATTAGAATCCCACTATATTTTCGTATGCATTAGAAAAACATTCAGAGGCCA
TTGTACATTAGAATCC
Found at i:2247765 original size:18 final size:18
Alignment explanation
Indices: 2247742--2247776 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2247732 TTCCATCCGG
*
2247742 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
2247760 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
2247777 GTCCTTTCGA
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:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:2254145 original size:60 final size:60
Alignment explanation
Indices: 2254031--2254145 Score: 133
Period size: 60 Copynumber: 1.9 Consensus size: 60
2254021 ATTATAGGAT
* * * * * **
2254031 GTTACTTTGTTGAGTCTCTCGACTATTAAGAGTTATAAAATTATCTTCTAACTATAAGAA
1 GTTACTTTGTTGAGTCTCTCAACTACTAAAAATAATAAAATTATCACCTAACTATAAGAA
* *
2254091 GTTATTTTGTTGAGTCTCTCAACTACTAAAAATAATAAAA-TAGTCACCTGACTAT
1 GTTACTTTGTTGAGTCTCTCAACTACTAAAAATAATAAAATTA-TCACCTAACTAT
2254146 TCATATGTTT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
59 2 0.04
60 43 0.96
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (60 bp):
GTTACTTTGTTGAGTCTCTCAACTACTAAAAATAATAAAATTATCACCTAACTATAAGAA
Found at i:2264615 original size:8 final size:8
Alignment explanation
Indices: 2264602--2264637 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
2264592 AGATTCTCCC
2264602 ATATGTAT
1 ATATGTAT
2264610 ATATGTAT
1 ATATGTAT
2264618 ATATGTAT
1 ATATGTAT
2264626 ATATGTAT
1 ATATGTAT
2264634 ATAT
1 ATAT
2264638 ATCTTCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (8 bp):
ATATGTAT
Found at i:2268200 original size:9 final size:8
Alignment explanation
Indices: 2268152--2268203 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
2268142 AAAATGAGTG
2268152 AAAATGAA
1 AAAATGAA
*
2268160 AAAATAAA
1 AAAATGAA
*
2268168 AAAATAAA
1 AAAATGAA
*
2268176 AAAAT-AG
1 AAAATGAA
2268183 AAAATGAA
1 AAAATGAA
2268191 AAAATGGAA
1 AAAAT-GAA
2268200 AAAA
1 AAAA
2268204 AAGAAGGGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
7 6 0.15
8 26 0.67
9 7 0.18
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.12
Consensus pattern (8 bp):
AAAATGAA
Found at i:2268200 original size:15 final size:15
Alignment explanation
Indices: 2268151--2268201 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
2268141 AAAAATGAGT
2268151 GAAAATGAAAAAATAA
1 GAAAATGAAAAAAT-A
* *
2268167 AAAAATAAAAAAATA
1 GAAAATGAAAAAATA
*
2268182 GAAAATGAAAAAATG
1 GAAAATGAAAAAATA
2268197 GAAAA
1 GAAAA
2268202 AAAAGAAGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 18 0.60
16 12 0.40
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (15 bp):
GAAAATGAAAAAATA
Found at i:2268202 original size:16 final size:16
Alignment explanation
Indices: 2268152--2268202 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
2268142 AAAATGAGTG
*
2268152 AAAATGAAAAAATAAA
1 AAAATGAAAAAATAGA
*
2268168 AAAATAAAAAAATAG-
1 AAAATGAAAAAATAGA
*
2268183 AAAATGAAAAAATGGA
1 AAAATGAAAAAATAGA
2268199 AAAA
1 AAAA
2268203 AAAGAAGGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 13 0.43
16 17 0.57
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (16 bp):
AAAATGAAAAAATAGA
Found at i:2269335 original size:55 final size:55
Alignment explanation
Indices: 2269127--2269356 Score: 297
Period size: 53 Copynumber: 4.3 Consensus size: 55
2269117 AGATTTCCCA
*
2269127 ACAATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACAATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * * *
2269182 GCAATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
1 ACAATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * * * *
2269235 GCAATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGATATAGGGGGCAGAC
1 ACAATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* *
2269288 ACAATCGTTGAAGATCGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACAATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
*
2269343 ACGATTGTTGAAGA
1 ACAATTGTTGAAGA
2269357 CATTCGAGTT
Statistics
Matches: 156, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
53 97 0.62
54 2 0.01
55 57 0.37
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (55 bp):
ACAATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:2269570 original size:51 final size:51
Alignment explanation
Indices: 2269350--2269770 Score: 395
Period size: 54 Copynumber: 8.0 Consensus size: 51
2269340 GACACGATTG
** * * *
2269350 TTGAAGACATTCGAGTTCTATTCTCCTTAAAGGAAGAAGGAGCGAATCCGT
1 TTGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGT
* * * *
2269401 TTGAAGATATGTCTAAGTTCCATACTCCCTTGAAGAAA-AAGGGAGCGAACCCAG-
1 TTGAAGATGT-TC-GAGTTCTATACT-CCTTAAAGAAAGAA-GGAGCGAACCC-GT
*
2269455 TCGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGGAGCGAACCCAG-
1 TTGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAA-GGAGCGAACCC-GT
2269507 TTGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGT
1 TTGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGT
2269558 TTGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGT
1 TTGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGT
* * * *
2269609 TTGAAGAGATGTTCGAGTTCTATACTATCTGAAGGAATAG--GGAGC-AGACACGTTTT
1 TTG-A-AGATGTTCGAGTTCTATACT-CCTTAAAGAA-AGAAGGAGCGA-ACCCG---T
* * * * * *
2269665 TTAAAAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGAGAACCCGT
1 TT-GAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGT
* * * * * *
2269717 TTGCAGAAGATTTTCAAGTTCTATACTCCCTGAAGGAAGAGGGAGCGAACCCGT
1 TT---GAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGT
2269771 AGGCAAAAGA
Statistics
Matches: 319, Mismatches: 30, Indels: 39
0.82 0.08 0.10
Matches are distributed among these distances:
50 1 0.00
51 84 0.26
52 70 0.22
53 44 0.14
54 85 0.27
55 30 0.09
56 5 0.02
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (51 bp):
TTGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGT
Found at i:2269781 original size:54 final size:53
Alignment explanation
Indices: 2269298--2269821 Score: 390
Period size: 54 Copynumber: 9.8 Consensus size: 53
2269288 ACAATCGTTG
* * * * **
2269298 AAGATCGTTCGAG-TCTCATACTCTCTGAAGAAATAGGGAGC-AGACACGATTGTTG
1 AAGAT-GTTCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGCGA-ACCCGTTTG-AA
** * * * * * *
2269353 AAGACATTCGAGTTCTATTCTCCTTAAAGGAAGAAGGAGCGAATCCGTTTGAA
1 AAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
* * * * * *
2269406 GATATG-TCTAAGTTCCATACTCCCTTGAAGAAAAAGGGAGCGAACCCAG-TCG--
1 AAGATGTTC-GAGTTCTATACTCCC-TGAAGAAAGAGGGAGCGAACCC-GTTTGAA
* *
2269458 AAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGGAGCGAACCCAG-TTG--
1 AAGATGTTCGAGTTCTATACTCCCTGAAGAAAG-AGGGAGCGAACCC-GTTTGAA
* * *
2269510 AAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTG--
1 AAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
* * *
2269561 AAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAA
1 AAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
* ** * * * *
2269614 GAGATGTTCGAGTTCTATACTATCTGAAGGAATAGGGAGC-AGACACGTTTTTTAA
1 AAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGA-ACCCG--TTTGAA
* * *
2269669 AAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGAGAACCCGTTTGCAG
1 AAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG-AA
* * * **
2269723 AAGATTTTCAAGTTCTATACTCCCTGAAGGAAGAGGGAGCGAACCCGTAGGCAA
1 AAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG-AA
* * * * *
2269777 AAGATTGTACGAGTT-TCTACTCCATGAAGGAATAGGGAGCGAACC
1 AAGA-TGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACC
2269822 TGTTGTCTGA
Statistics
Matches: 384, Mismatches: 69, Indels: 33
0.79 0.14 0.07
Matches are distributed among these distances:
50 1 0.00
51 73 0.19
52 69 0.18
53 54 0.14
54 128 0.33
55 58 0.15
56 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (53 bp):
AAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
Found at i:2273030 original size:2 final size:2
Alignment explanation
Indices: 2273018--2273058 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
2273008 GGTGATGTTT
*
2273018 TA TA AA 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
2273059 GAAAAAACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2275219 original size:2 final size:2
Alignment explanation
Indices: 2275212--2275256 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
2275202 TTTGGAACTA
2275212 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2275254 AT A
1 AT A
2275257 ATCATCGTAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2275415 original size:3 final size:3
Alignment explanation
Indices: 2275409--2275489 Score: 103
Period size: 3 Copynumber: 27.3 Consensus size: 3
2275399 ATTTGTTGTC
* *
2275409 ATT ATT ATT ATT GTT ATT ATT ATT -TT ATTT ATA ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT
* *
2275454 ATT -TT ATA ATT ATT ATT ATT ATA ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2275490 ATAAAAAATT
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
2 4 0.06
3 60 0.90
4 3 0.04
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:2275500 original size:35 final size:36
Alignment explanation
Indices: 2275427--2275506 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 36
2275417 TATTGTTATT
* ** *
2275427 ATTATT-TTATTTATAATTATTATTATTATTTTATA
1 ATTATTATTATTTATAATTATTATTATTAATAAAAA
2275462 ATTATTATTA-TTATAATTATTATTATTAATAAAAA
1 ATTATTATTATTTATAATTATTATTATTAATAAAAA
*
2275497 ATTACTATTA
1 ATTATTATTA
2275507 CAAACAGGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 36 0.92
36 3 0.08
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (36 bp):
ATTATTATTATTTATAATTATTATTATTAATAAAAA
Found at i:2277629 original size:28 final size:27
Alignment explanation
Indices: 2277598--2277651 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
2277588 TAATTCTTTC
2277598 TTTTCAAAATT-TTTATATATACTTATTA
1 TTTTC-AAATTATTTATATATA-TTATTA
*
2277626 TTTTCATATTATTTATATATATTATT
1 TTTTCAAATTATTTATATATATTATT
2277652 TTATTAATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (27 bp):
TTTTCAAATTATTTATATATATTATTA
Found at i:2278735 original size:35 final size:35
Alignment explanation
Indices: 2278689--2278759 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
2278679 TTCACTTTCA
2278689 ATAAGGAGGACTTGGTTCCTACTATTGAAGAATAC
1 ATAAGGAGGACTTGGTTCCTACTATTGAAGAATAC
2278724 ATAAGGAGGACTTGGTTCCTACTATTGAAGAATAC
1 ATAAGGAGGACTTGGTTCCTACTATTGAAGAATAC
2278759 A
1 A
2278760 CAACTTTGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (35 bp):
ATAAGGAGGACTTGGTTCCTACTATTGAAGAATAC
Found at i:2281003 original size:16 final size:16
Alignment explanation
Indices: 2280982--2281014 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2280972 GATCAATACC
2280982 TTTTGCATACATTCAT
1 TTTTGCATACATTCAT
*
2280998 TTTTGCATAGATTCAT
1 TTTTGCATACATTCAT
2281014 T
1 T
2281015 ATTCATTGCA
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:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (16 bp):
TTTTGCATACATTCAT
Found at i:2288433 original size:175 final size:175
Alignment explanation
Indices: 2288122--2288472 Score: 677
Period size: 175 Copynumber: 2.0 Consensus size: 175
2288112 AAGCCATTGA
2288122 TCAATAACAAGAAACAACAAGCAACTAGAATCAAGAGAGAATCAAAGAGAAAGCATCAAACCTCA
1 TCAATAACAAGAAACAACAAGCAACTAGAATCAAGAGAGAATCAAAGAGAAAGCATCAAACCTCA
2288187 AGTTAAGCATTTCAAGCCTATTTTTCATTCAATATTCATTTTGCTTTCAAGAAAACTACTTGTAC
66 AGTTAAGCATTTCAAGCCTATTTTTCATTCAATATTCATTTTGCTTTCAAGAAAACTACTTGTAC
2288252 TCAATTGTATTCATTCTTGAGTGTTCTTTTCTTTG-TCTAGAATT
131 TCAATTGTATTCATTCTTGAGTGTTCTTTTCTTTGTTCTAGAATT
2288296 TCAATAACAAGAAACAACAAGCAACTAGAATCAAGAGAGAATCAAAGAGAAAGCATCAAACCTCA
1 TCAATAACAAGAAACAACAAGCAACTAGAATCAAGAGAGAATCAAAGAGAAAGCATCAAACCTCA
*
2288361 AGTTTAAGCATTTCAAGCCTATTTTTCATTCAATATTCATTTTGCTTTCAAGAACACTACTTGTA
66 AG-TTAAGCATTTCAAGCCTATTTTTCATTCAATATTCATTTTGCTTTCAAGAAAACTACTTGTA
2288426 CTCAATTGTATTCATTCTTGAGTGTTCTTTTCTTTGTTCTAGAATT
130 CTCAATTGTATTCATTCTTGAGTGTTCTTTTCTTTGTTCTAGAATT
2288472 T
1 T
2288473 GGGGTATAAT
Statistics
Matches: 174, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
174 67 0.39
175 97 0.56
176 10 0.06
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (175 bp):
TCAATAACAAGAAACAACAAGCAACTAGAATCAAGAGAGAATCAAAGAGAAAGCATCAAACCTCA
AGTTAAGCATTTCAAGCCTATTTTTCATTCAATATTCATTTTGCTTTCAAGAAAACTACTTGTAC
TCAATTGTATTCATTCTTGAGTGTTCTTTTCTTTGTTCTAGAATT
Found at i:2293787 original size:22 final size:22
Alignment explanation
Indices: 2293761--2293839 Score: 83
Period size: 23 Copynumber: 3.7 Consensus size: 22
2293751 ATAGGGCAGA
*
2293761 GGGAATCGATACCCCCTTGTAG
1 GGGAACCGATACCCCCTTGTAG
* *
2293783 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATACCCCC-TTGTAG
*
2293806 GGGAACCGATTCCCCC---TAG
1 GGGAACCGATACCCCCTTGTAG
*
2293825 GGGAATCGATACCCC
1 GGGAACCGATACCCC
2293840 TAGGGTTCTG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 15 0.30
22 14 0.28
23 21 0.42
ACGTcount: A:0.23, C:0.32, G:0.27, T:0.19
Consensus pattern (22 bp):
GGGAACCGATACCCCCTTGTAG
Found at i:2293807 original size:23 final size:23
Alignment explanation
Indices: 2293761--2293822 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2293751 ATAGGGCAGA
* * *
2293761 GGGAATCGATACCCCC-TTGTAG
1 GGGAACCGATTCCCCCTTTGAAG
2293783 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
2293806 GGGAACCGATTCCCCCT
1 GGGAACCGATTCCCCCT
2293823 AGGGGAATCG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 14 0.39
23 22 0.61
ACGTcount: A:0.21, C:0.32, G:0.26, T:0.21
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTTTGAAG
Found at i:2297843 original size:14 final size:14
Alignment explanation
Indices: 2297826--2297902 Score: 62
Period size: 11 Copynumber: 5.8 Consensus size: 14
2297816 AAATGATGAA
2297826 AAAAAATGAAAATG
1 AAAAAATGAAAATG
2297840 AAAAAATG-AAA--
1 AAAAAATGAAAATG
2297851 AAAAAATGATGAAATG
1 AAAAAATGA--AAATG
2297867 -AAAAATG-AAA--
1 AAAAAATGAAAATG
2297877 AAAAAATGATGAAATG
1 AAAAAATGA--AAATG
2297893 -AAAAATGAAA
1 AAAAAATGAAA
2297903 GAAAAAAGGA
Statistics
Matches: 52, Mismatches: 0, Indels: 23
0.69 0.00 0.31
Matches are distributed among these distances:
11 15 0.29
12 3 0.06
13 5 0.10
14 14 0.27
15 15 0.29
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AAAAAATGAAAATG
Found at i:2297853 original size:26 final size:25
Alignment explanation
Indices: 2297814--2297909 Score: 131
Period size: 26 Copynumber: 3.6 Consensus size: 25
2297804 TTGAAGAAGA
2297814 AAAAATGATGAAAAAAAATGA-AAATG
1 AAAAATGA--AAAAAAAATGAGAAATG
2297840 AAAAAATGAAAAAAAAATGATGAAATG
1 -AAAAATGAAAAAAAAATGA-GAAATG
2297867 AAAAATGAAAAAAAAATGATGAAATG
1 AAAAATGAAAAAAAAATGA-GAAATG
2297893 AAAAATGAAAGAAAAAA
1 AAAAATGAAA-AAAAAA
2297910 GGAGGGTCAA
Statistics
Matches: 66, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
25 11 0.17
26 36 0.55
27 19 0.29
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.14
Consensus pattern (25 bp):
AAAAATGAAAAAAAAATGAGAAATG
Found at i:2297885 original size:18 final size:19
Alignment explanation
Indices: 2297813--2297871 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
2297803 CTTGAAGAAG
2297813 AAAAAATGATGAAAA--AAA
1 AAAAAATGAT-AAAATGAAA
* *
2297831 ATGAAAATGAAAAAATGAAA
1 A-AAAAATGATAAAATGAAA
*
2297851 AAAAAATGATGAAATGAAA
1 AAAAAATGATAAAATGAAA
2297870 AA
1 AA
2297872 TGAAAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
18 5 0.15
19 24 0.73
20 4 0.12
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (19 bp):
AAAAAATGATAAAATGAAA
Found at i:2299775 original size:113 final size:113
Alignment explanation
Indices: 2299444--2299951 Score: 842
Period size: 113 Copynumber: 4.5 Consensus size: 113
2299434 TAGCAAAAAT
* *
2299444 TTGAATTCATCATTTGATGGATCAACTGTTCCAGAGGAAGTACATAATAAGAAGAACTCATCTGA
1 TTGAATTCATCATTCGATGGATCAACTGTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGA
*
2299509 AGAAGTAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
* *
2299557 TTGAATTCATCATTCGATGGATCAACTGTTCTAGAGAAAGTTCATAAT---AAGAACTCATCTGA
1 TTGAATTCATCATTCGATGGATCAACTGTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGA
* * *
2299619 AGAAGGAATAAGAAGTTCATAATGAGCAGAACTTGTTTAACCTTTTGG
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
*
2299667 TTGAATTCATCATTCTATGGATCAACTGTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGA
1 TTGAATTCATCATTCGATGGATCAACTGTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGA
* * *
2299732 ATAAGGAAAAAAAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
* *
2299780 TTTAATTCATCATTCGATGGATTAACTGTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGA
1 TTGAATTCATCATTCGATGGATCAACTGTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGA
*
2299845 AGAAGGAAGAAGAAGTTCATAAAGAGAAGAACTTGTTTAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
*
2299893 TTGAATTCATCATTCGATGGATCAACTGATTCCAGAGGAAGTTCATAATGAGAAGAACT
1 TTGAATTCATCATTCGATGGATCAACTG-TTCCAGAGGAAGTTCATAATAAGAAGAACT
2299952 TGTTTAACCT
Statistics
Matches: 365, Mismatches: 26, Indels: 7
0.92 0.07 0.02
Matches are distributed among these distances:
110 103 0.28
113 233 0.64
114 29 0.08
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (113 bp):
TTGAATTCATCATTCGATGGATCAACTGTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
Found at i:2299832 original size:223 final size:224
Alignment explanation
Indices: 2299444--2299951 Score: 831
Period size: 223 Copynumber: 2.3 Consensus size: 224
2299434 TAGCAAAAAT
*
2299444 TTGAATTCATCATT-TGATGGATCAACTGTTCCAGAGGAAGTACATAATAAGAAGAACTCATCTG
1 TTGAATTCATCATTCT-ATGGATCAACTGTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTG
* * *
2299508 AAGAAGTAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCG
65 AAGAAGGAAAAAAAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCG
* *
2299573 ATGGATCAACTGTTCTAGAGAAAGTTCATAAT-AAGAACTCATCTGAAGAAGGAATAAGAAGTTC
130 ATGGATCAACTGTTCCAGAGAAAGTTCATAATAAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
* * *
2299637 ATAATGAGCAGAACTTGTTTAACCTTTTGG
195 ATAAAGAGAAGAACTTGTTTAACCTTTTGC
2299667 TTGAATTCATCATTCTATGGATCAACTGTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGA
1 TTGAATTCATCATTCTATGGATCAACTGTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGA
* *
2299732 ATAAGGAAAAAAAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTTAATTCATCATTCGA
66 AGAAGGAAAAAAAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGA
* *
2299797 TGGATTAACTGTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
131 TGGATCAACTGTTCCAGAGAAAGTTCATAAT-A-AAGAACTCATCTGAAGAAGGAAGAAGAAGTT
2299862 CATAAAGAGAAGAACTTGTTTAACCTTTTGC
194 CATAAAGAGAAGAACTTGTTTAACCTTTTGC
* *
2299893 TTGAATTCATCATTCGATGGATCAACTGATTCCAGAGGAAGTTCATAATGAGAAGAACT
1 TTGAATTCATCATTCTATGGATCAACTG-TTCCAGAGGAAGTTCATAATAAGAAGAACT
2299952 TGTTTAACCT
Statistics
Matches: 265, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
223 150 0.57
224 1 0.00
226 85 0.32
227 29 0.11
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (224 bp):
TTGAATTCATCATTCTATGGATCAACTGTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGA
AGAAGGAAAAAAAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGA
TGGATCAACTGTTCCAGAGAAAGTTCATAATAAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
TAAAGAGAAGAACTTGTTTAACCTTTTGC
Found at i:2299940 original size:74 final size:73
Alignment explanation
Indices: 2299856--2300024 Score: 304
Period size: 74 Copynumber: 2.3 Consensus size: 73
2299846 GAAGGAAGAA
2299856 GAAGTTCATAAAGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTG
1 GAAGTTCATAAAGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTG
2299921 ATTCCAGAG
66 -TTCCAGAG
*
2299930 GAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTG
1 GAAGTTCATAAAGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTG
2299995 TTCCAGAG
66 TTCCAGAG
2300003 GAAGTTCATAATA-AGAAGAACT
1 GAAGTTCATAA-AGAGAAGAACT
2300025 CATCTGAAGA
Statistics
Matches: 92, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
73 28 0.30
74 64 0.70
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (73 bp):
GAAGTTCATAAAGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTG
TTCCAGAG
Found at i:2300061 original size:187 final size:186
Alignment explanation
Indices: 2299744--2300137 Score: 734
Period size: 187 Copynumber: 2.1 Consensus size: 186
2299734 AAGGAAAAAA
* *
2299744 AAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTTAATTCATCATTCGATGGATTAACTGT
1 AAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTGT
*
2299809 TCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAAGAGAAG
66 TCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAAAGAGAAG
2299874 AACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTGATTCCAGAGG
131 AACTTG-TTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTGATTCCAGAGG
2299931 AAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTGT
1 AAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTGT
*
2299996 TCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAG
66 TCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAAAGAGAAG
*
2300061 AACTTGTTAACCTTTTGCTTGAATTCATCATTCGATTGATCAACTGATTCCAGAGG
131 AACTTGTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTGATTCCAGAGG
2300117 AAGTTCATAATGAGAAGAACT
1 AAGTTCATAATGAGAAGAACT
2300138 CATCTGAAGA
Statistics
Matches: 202, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
186 70 0.35
187 132 0.65
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.30
Consensus pattern (186 bp):
AAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTGT
TCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAAAGAGAAG
AACTTGTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTGATTCCAGAGG
Found at i:2300133 original size:113 final size:113
Alignment explanation
Indices: 2299930--2300414 Score: 846
Period size: 113 Copynumber: 4.3 Consensus size: 113
2299920 GATTCCAGAG
2299930 GAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTG
1 GAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTG
*
2299995 TTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAA
66 TTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAA
*
2300043 GAAGTTCATAATGAGAAGAACTTG-TTAACCTTTTGCTTGAATTCATCATTCGATTGATCAACTG
1 GAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTG
*
2300107 ATTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
66 -TTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAA
2300156 GAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTG
1 GAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTG
* * *
2300221 TTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAATAAGGAAGAA
66 TTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAA
* * *
2300269 AAAGTTCATAATGAGAAGAACTTGTTTAACTTTTTGATTGAATTCATCATTCGATGGATCAACTG
1 GAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTG
*
2300334 TTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAATAA
66 TTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAA
* *
2300382 GAAGTTCATAATGAGAATAACTTGTTCAACCTT
1 GAAGTTCATAATGAGAAGAACTTGTTTAACCTT
2300415 AATTTGATTC
Statistics
Matches: 353, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
112 39 0.11
113 275 0.78
114 39 0.11
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (113 bp):
GAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTG
TTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAA
Found at i:2300174 original size:300 final size:299
Alignment explanation
Indices: 2299630--2300250 Score: 1100
Period size: 300 Copynumber: 2.1 Consensus size: 299
2299620 GAAGGAATAA
* * *
2299630 GAAGTTCATAATGAGCAGAACTTGTTTAACCTTTTGGTTGAATTCATCATTCTATGGATCAACTG
1 GAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTG
* *
2299695 TTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGAATAAGGAAAAAAAAGTTCATAATGAGAA
66 TTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAAAAAAAGTTCATAATGAGAA
* *
2299760 GAACTTGTTTAACCTTTTGCTTTAATTCATCATTCGATGGATTAACTGTTCCAGAGGAAGTTCAT
131 GAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTGTTCCAGAGGAAGTTCAT
2299825 AATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAAGAGAAGAACTTGTTTAACCTTT
196 AATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAAGAGAAGAACTTGTTTAACCTTT
2299890 TGCTTGAATTCATCATTCGATGGATCAACTGATTCCAGAG
261 TGCTTGAATTCATCATTCGATGGATCAACTG-TTCCAGAG
2299930 GAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTG
1 GAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTG
* *
2299995 TTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAA
66 TTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAAAAAAAGTTCATAATGAGAA
*
2300060 GAACTTG-TTAACCTTTTGCTTGAATTCATCATTCGATTGATCAACTGATTCCAGAGGAAGTTCA
131 GAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTG-TTCCAGAGGAAGTTCA
* *
2300124 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTT
195 TAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAAGAGAAGAACTTGTTTAACCTT
2300189 TTGCTTGAATTCATCATTCGATGGATCAACTGTTCCAGAG
260 TTGCTTGAATTCATCATTCGATGGATCAACTGTTCCAGAG
*
2300229 AAAGTTCATAATGAGAAGAACT
1 GAAGTTCATAATGAGAAGAACT
2300251 CATCTGAATA
Statistics
Matches: 307, Mismatches: 13, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
299 66 0.21
300 241 0.79
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (299 bp):
GAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTG
TTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAAAAAAAGTTCATAATGAGAA
GAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTGTTCCAGAGGAAGTTCAT
AATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAAGAGAAGAACTTGTTTAACCTTT
TGCTTGAATTCATCATTCGATGGATCAACTGTTCCAGAG
Found at i:2300287 original size:413 final size:409
Alignment explanation
Indices: 2299520--2300363 Score: 1438
Period size: 413 Copynumber: 2.1 Consensus size: 409
2299510 GAAGTAAGAA
2299520 GAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTG
1 GAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTG
* * * *
2299585 TTCTAGAGAAAGTTCATAATAAGAACTCATCTGAAGAAGGAATAAGAAGTTCATAATGAGCAGAA
66 TTCCAGAGAAAGTTCATAATAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAA
* *
2299650 CTTGTTTAACCTTTTGGTTGAATTCATCATTCTATGGATCAACTGTTCCAGAGGAAGTTCATAAT
131 CTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTGTTCCAGAGGAAGTTCATAAT
*
2299715 AAGAAGAACTCATCTGAATAAGGAAAAAAAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
196 AAGAAGAACTCATCTGAAGAAGGAAAAAAAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
* * *
2299780 TTTAATTCATCATTCGATGGATTAACTGTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGA
261 TTGAATTCATCATTCGATGGATCAACTGTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGA
* *
2299845 AGAAGGAAGAAGAAGTTCATAAAGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGA
326 AGAAGGAAGAAAAAGTTCATAAAGAGAAGAACTTGTTTAACCTTTTGATTGAATTCATCATTCGA
2299910 TGGATCAACTGATTCCAGAG
391 TGGATCAACTG-TTCCAGAG
2299930 GAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTG
1 GAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTG
*
2299995 TTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAA
66 TTCCAGAGAAAGTTCATAAT---AAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAA
*
2300060 GAACTTG-TTAACCTTTTGCTTGAATTCATCATTCGATTGATCAACTGATTCCAGAGGAAGTTCA
128 GAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTG-TTCCAGAGGAAGTTCA
* * *
2300124 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTT
192 TAATAAGAAGAACTCATCTGAAGAAGGAAAAAAAAGTTCATAATGAGAAGAACTTGTTTAACCTT
*
2300189 TTGCTTGAATTCATCATTCGATGGATCAACTGTTCCAGAGAAAGTTCATAATGAGAAGAACTCAT
257 TTGCTTGAATTCATCATTCGATGGATCAACTGTTCCAGAGAAAGTTCATAATAAGAAGAACTCAT
* * *
2300254 CTGAATAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTTAACTTTTTGATTGAATTCATCAT
322 CTGAAGAAGGAAGAAAAAGTTCATAAAGAGAAGAACTTGTTTAACCTTTTGATTGAATTCATCAT
2300319 TCGATGGATCAACTGTTCCAGAG
387 TCGATGGATCAACTGTTCCAGAG
*
2300342 GAAGTTCATAATAAGAAGAACT
1 GAAGTTCATAATGAGAAGAACT
2300364 CATCTGAAGA
Statistics
Matches: 408, Mismatches: 22, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
410 83 0.20
412 66 0.16
413 259 0.63
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (409 bp):
GAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTG
TTCCAGAGAAAGTTCATAATAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAA
CTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACTGTTCCAGAGGAAGTTCATAAT
AAGAAGAACTCATCTGAAGAAGGAAAAAAAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
TTGAATTCATCATTCGATGGATCAACTGTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGA
AGAAGGAAGAAAAAGTTCATAAAGAGAAGAACTTGTTTAACCTTTTGATTGAATTCATCATTCGA
TGGATCAACTGTTCCAGAG
Found at i:2300758 original size:3 final size:3
Alignment explanation
Indices: 2300750--2300824 Score: 73
Period size: 3 Copynumber: 25.3 Consensus size: 3
2300740 ATTTATTGTC
* *
2300750 ATT ATT ATT ATT GTT ATT ATT ATT -TT ATTT ATT ACT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT
* * * *
2300795 ATT -TT ATA ATA ATA ATA ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2300825 ATAATAAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
2 4 0.06
3 56 0.89
4 3 0.05
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:2300762 original size:15 final size:15
Alignment explanation
Indices: 2300742--2300773 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2300732 TTTCATCCAT
2300742 TTATTGTCATTATTA
1 TTATTGTCATTATTA
*
2300757 TTATTGTTATTATTA
1 TTATTGTCATTATTA
2300772 TT
1 TT
2300774 TTATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.66
Consensus pattern (15 bp):
TTATTGTCATTATTA
Found at i:2300844 original size:24 final size:25
Alignment explanation
Indices: 2300786--2300851 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 25
2300776 ATTTATTACT
* *
2300786 ATTATTATTATTTTATAATAATAATA
1 ATTATTATTA-TTAATAATAATAAAA
2300812 ATTATTATTATTAATAATAA-AAAA
1 ATTATTATTATTAATAATAATAAAA
* *
2300836 ATTACTATTATAAATA
1 ATTATTATTATTAATA
2300852 GGCCCAATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
24 17 0.47
25 9 0.25
26 10 0.28
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTATTATTATTAATAATAATAAAA
Found at i:2302077 original size:21 final size:22
Alignment explanation
Indices: 2302031--2302083 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
2302021 AATTACCAAT
*
2302031 TTTATTATTG-TTTATATTTCA
1 TTTATTATAGTTTTATATTTCA
*
2302052 -ATATTATAGTTTTA-ATTTCA
1 TTTATTATAGTTTTATATTTCA
*
2302072 TTTATTTTAGTT
1 TTTATTATAGTT
2302084 ATTGTTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (22 bp):
TTTATTATAGTTTTATATTTCA
Found at i:2306225 original size:27 final size:28
Alignment explanation
Indices: 2306180--2306236 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
2306170 GGTCAGATTC
* *
2306180 AAAAATTATACATCTTCCACCCGACCCG
1 AAAAATTATACACCATCCACCCGACCCG
* *
2306208 AAAAA-TATACACCATCCACTCGGCCCG
1 AAAAATTATACACCATCCACCCGACCCG
2306235 AA
1 AA
2306237 CCCGATCCGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.39, C:0.35, G:0.09, T:0.18
Consensus pattern (28 bp):
AAAAATTATACACCATCCACCCGACCCG
Found at i:2308988 original size:15 final size:16
Alignment explanation
Indices: 2308949--2308995 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
2308939 TAATTATTTT
2308949 TAATATTTTTAATAAT-
1 TAATATTTTTAA-AATA
*
2308965 TAATTTTTTTAAAATA
1 TAATATTTTTAAAATA
2308981 T-ATATTTTTAAAATA
1 TAATATTTTTAAAATA
2308996 AATTTTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATATTTTTAAAATA
Found at i:2309009 original size:29 final size:31
Alignment explanation
Indices: 2308951--2309009 Score: 70
Period size: 31 Copynumber: 2.0 Consensus size: 31
2308941 ATTATTTTTA
* *
2308951 ATATTTTTAATAATTAATTTTTTTAAAATAT
1 ATATTTTTAATAATTAATATTTTAAAAATAT
2308982 ATATTTTTAA-AA-TAA-ATTTTAAATAATA
1 ATATTTTTAATAATTAATATTTTAAA-AATA
2309010 AAAGTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 6 0.24
29 7 0.28
30 2 0.08
31 10 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (31 bp):
ATATTTTTAATAATTAATATTTTAAAAATAT
Found at i:2316620 original size:190 final size:192
Alignment explanation
Indices: 2316190--2316938 Score: 746
Period size: 190 Copynumber: 3.9 Consensus size: 192
2316180 CAATTTTTTA
* * *
2316190 TGATATTAGTCCTCTTTT-TTAATCAGATGTCAAATT-ATTGTGCATCAAGAATATTACGGAGCA
1 TGATATTGGTCCT-TTTTCTTAATCAGATGTC-AATTGA-TGTGCATCAAGAATGTTATGGAGCA
* * *
2316253 AGAAATGTCGAGGGTTTCACTTCATGGGTTTGTAATTATTAAATTTTTTTCATGGATAATGTTAT
63 AGAAATGTTGAGAGTTTCACTTCATGGGTTTGTAATTATT-AATTTTTTTCATTGATAATGTTAT
** * * * * * * * * * *
2316318 GATTTGAACTCTTAACAATATTTAAAGAATCTAATGATTCGTCCCGCTAGACCAACTGATTATTG
127 GATTTGAACTCTTAACCTTACTTAAGGGATTTAATGAATCATCCCACTAGACCAACTGGTTGTTA
2316383 G
192 G
* * *
2316384 TGAAATTGGTCCTTGTTCTT-A--A-ATGTCAAATTGGTGTGCATCAAGAATGGTTATGGAGCAA
1 TGATATTGGTCCTTTTTCTTAATCAGATGTC-AATTGATGTGCATCAAGAAT-GTTATGGAGCAA
* *
2316445 GAAATGTTGACAGTTTCATTTCATGGGTTTGTAATTATTAATTTTTTTCATTGATAATGTTATGA
64 GAAATGTTGAGAGTTTCACTTCATGGGTTTGTAATTATTAATTTTTTTCATTGATAATGTTATGA
* * * * *
2316510 TTTGAACTTTTGACCTTACTTAAGGGATTTAA-CAAT-ATCCCATTAGACCAATTGGTTGTTAG
129 TTTGAACTCTTAACCTTACTTAAGGGATTTAATGAATCATCCCACTAGACCAACTGGTTGTTAG
* *
2316572 TGATATTGGTCCTTTTTCTTAATTAGATGTC-ATTGATGTGCGTCAAGAATGTTATGGAGCAAGA
1 TGATATTGGTCCTTTTTCTTAATCAGATGTCAATTGATGTGCATCAAGAATGTTATGGAGCAAGA
* * * * * * *
2316636 AATGATGGGGGTTTTCACTTCATGTGTTTGTAATTATTATTTTTTTTCATTGATAATTTTATGAC
66 AATGTTGAGAG-TTTCACTTCATGGGTTTGTAATTATTAATTTTTTTCATTGATAATGTTATGAT
* * ** * * * *
2316701 TTAAACTCCTAAATTTGCTTAAGGGATTTAATGACTCTTCCCACTAGACCAACTAGTTGTTAG
130 TTGAACTCTTAACCTTACTTAAGGGATTTAATGAATCATCCCACTAGACCAACTGGTTGTTAG
* * * * * *
2316764 TGACATTGATCTTTTTTCTTAATCAGATGTC-ATTGATGTGCGT-AAAAAGTGTTATAGAGCAAG
1 TGATATTGGTCCTTTTTCTTAATCAGATGTCAATTGATGTGCATCAAGAA-TGTTATGGAGCAAG
* * * * * * *
2316827 AAATGTTTAGAGGTTTCGCTTCATGGGTTTGTAATTGTTAATATTTTTCATCGATATTGTTTTGA
65 AAATGTTGAGA-GTTTCACTTCATGGGTTTGTAATTATTAATTTTTTTCATTGATAATGTTATGA
* * * * * * * *
2316892 TTTGAACTTTTGATCTTATTTAAGGAATCTAATTATTCATCCCACTA
129 TTTGAACTCTTAACCTTACTTAAGGGATTTAATGAATCATCCCACTA
2316939 TCCGTAACCT
Statistics
Matches: 456, Mismatches: 87, Indels: 26
0.80 0.15 0.05
Matches are distributed among these distances:
188 37 0.08
189 24 0.05
190 162 0.36
191 53 0.12
192 162 0.36
193 5 0.01
194 13 0.03
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.41
Consensus pattern (192 bp):
TGATATTGGTCCTTTTTCTTAATCAGATGTCAATTGATGTGCATCAAGAATGTTATGGAGCAAGA
AATGTTGAGAGTTTCACTTCATGGGTTTGTAATTATTAATTTTTTTCATTGATAATGTTATGATT
TGAACTCTTAACCTTACTTAAGGGATTTAATGAATCATCCCACTAGACCAACTGGTTGTTAG
Found at i:2321562 original size:26 final size:26
Alignment explanation
Indices: 2321533--2321979 Score: 142
Period size: 26 Copynumber: 19.3 Consensus size: 26
2321523 AGTTATATCG
*
2321533 TTCATACATTTTAGTTATGGCATCCT
1 TTCATGCATTTTAGTTATGGCATCCT
* *
2321559 TTCATGC--CTTA---AT-GCATCCG
1 TTCATGCATTTTAGTTATGGCATCCT
*
2321579 TTCATGCATTTTAGTTATGACATCCT
1 TTCATGCATTTTAGTTATGGCATCCT
* *
2321605 TTCATGC--CTTAG---T-GCATCCG
1 TTCATGCATTTTAGTTATGGCATCCT
* * * *
2321625 TTCATGCACTTTAATTATGACATTCT
1 TTCATGCATTTTAGTTATGGCATCCT
* * *
2321651 TTTATGC--CTTA---AT-GCATCCA
1 TTCATGCATTTTAGTTATGGCATCCT
* *
2321671 TTCATGCATTTTATTTATGGAATCCT
1 TTCATGCATTTTAGTTATGGCATCCT
* * *
2321697 TTCATGC--CTTAG---T-GCATTCG
1 TTCATGCATTTTAGTTATGGCATCCT
* * *
2321717 TTCATGCACTTTAATTATGGCATCCG
1 TTCATGCATTTTAGTTATGGCATCCT
* * *
2321743 CTCATTC--CTTA---AT-GCAT-CT
1 TTCATGCATTTTAGTTATGGCATCCT
*
2321762 GTTCATGCATTTTAGTTATGGCATCTT
1 -TTCATGCATTTTAGTTATGGCATCCT
* *
2321789 TTCATGC--CTTAG---T-GCATCCA
1 TTCATGCATTTTAGTTATGGCATCCT
* * * *
2321809 TTCATGCACTTTAATTAAGGCATCCG
1 TTCATGCATTTTAGTTATGGCATCCT
* *
2321835 TTCATGC--CTTA---AT-GCATCCG
1 TTCATGCATTTTAGTTATGGCATCCT
2321855 TTCATGCATTTTAGTTATGGCATCCT
1 TTCATGCATTTTAGTTATGGCATCCT
* *
2321881 TTCATGC--CTTAG---T-GCATCCA
1 TTCATGCATTTTAGTTATGGCATCCT
*
2321901 TTCATGC-TCTTTAATTATGGCATCCT
1 TTCATGCAT-TTTAGTTATGGCATCCT
*
2321927 TTCATGCA--TTA---AT-GCATCCA
1 TTCATGCATTTTAGTTATGGCATCCT
2321947 TTCATGCATTTTAGTTATGGCATCCT
1 TTCATGCATTTTAGTTATGGCATCCT
*
2321973 TTTATGC
1 TTCATGC
2321980 CTTAGTGCAT
Statistics
Matches: 306, Mismatches: 58, Indels: 114
0.64 0.12 0.24
Matches are distributed among these distances:
19 1 0.00
20 108 0.35
21 13 0.04
22 27 0.09
24 30 0.10
25 13 0.04
26 113 0.37
27 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (26 bp):
TTCATGCATTTTAGTTATGGCATCCT
Found at i:2321582 original size:46 final size:46
Alignment explanation
Indices: 2321531--2322011 Score: 640
Period size: 46 Copynumber: 10.5 Consensus size: 46
2321521 TCAGTTATAT
*
2321531 CGTTCATACATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
1 CGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
* *
2321577 CGTTCATGCATTTTAGTTATGACATCCTTTCATGCCTTAGTGCATC
1 CGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
* * * * *
2321623 CGTTCATGCACTTTAATTATGACATTCTTTTATGCCTTAATGCATC
1 CGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
* * * * *
2321669 CATTCATGCATTTTATTTATGGAATCCTTTCATGCCTTAGTGCATT
1 CGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
* * ** *
2321715 CGTTCATGCACTTTAATTATGGCATCCGCTCATTCCTTAATGCATC
1 CGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
* * *
2321761 TGTTCATGCATTTTAGTTATGGCATCTTTTCATGCCTTAGTGCATC
1 CGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
* * * * *
2321807 CATTCATGCACTTTAATTAAGGCATCCGTTCATGCCTTAATGCATC
1 CGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
*
2321853 CGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAGTGCATC
1 CGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
* * *
2321899 CATTCATGC-TCTTTAATTATGGCATCCTTTCATGCATTAATGCATC
1 CGTTCATGCAT-TTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
* * *
2321945 CATTCATGCATTTTAGTTATGGCATCCTTTTATGCCTTAGTGCATC
1 CGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
*
2321991 CGTTCATGCACTTTAGTTATG
1 CGTTCATGCATTTTAGTTATG
2322012 ATTTGGTTTA
Statistics
Matches: 375, Mismatches: 58, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
45 1 0.00
46 373 0.99
47 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
CGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATC
Found at i:2321660 original size:92 final size:92
Alignment explanation
Indices: 2321531--2322011 Score: 737
Period size: 92 Copynumber: 5.2 Consensus size: 92
2321521 TCAGTTATAT
* * *
2321531 CGTTCATACATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTA
1 CGTTCATGCACTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTA
*
2321596 TGACATCCTTTCATGCCTTAGTGCATC
66 TGGCATCCTTTCATGCCTTAGTGCATC
* * * * *
2321623 CGTTCATGCACTTTAATTATGACATTCTTTTATGCCTTAATGCATCCATTCATGCATTTTATTTA
1 CGTTCATGCACTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTA
* *
2321688 TGGAATCCTTTCATGCCTTAGTGCATT
66 TGGCATCCTTTCATGCCTTAGTGCATC
** * *
2321715 CGTTCATGCACTTTAATTATGGCATCCGCTCATTCCTTAATGCATCTGTTCATGCATTTTAGTTA
1 CGTTCATGCACTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTA
*
2321780 TGGCATCTTTTCATGCCTTAGTGCATC
66 TGGCATCCTTTCATGCCTTAGTGCATC
* * *
2321807 CATTCATGCACTTTAATTAAGGCATCCGTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTA
1 CGTTCATGCACTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTA
2321872 TGGCATCCTTTCATGCCTTAGTGCATC
66 TGGCATCCTTTCATGCCTTAGTGCATC
* * * *
2321899 CATTCATGCTCTTTAATTATGGCATCCTTTCATGCATTAATGCATCCATTCATGCATTTTAGTTA
1 CGTTCATGCACTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTA
*
2321964 TGGCATCCTTTTATGCCTTAGTGCATC
66 TGGCATCCTTTCATGCCTTAGTGCATC
*
2321991 CGTTCATGCACTTTAGTTATG
1 CGTTCATGCACTTTAATTATG
2322012 ATTTGGTTTA
Statistics
Matches: 351, Mismatches: 38, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 351 1.00
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (92 bp):
CGTTCATGCACTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTAGTTA
TGGCATCCTTTCATGCCTTAGTGCATC
Found at i:2328758 original size:20 final size:20
Alignment explanation
Indices: 2328735--2328807 Score: 56
Period size: 20 Copynumber: 3.4 Consensus size: 20
2328725 ATGGCATCTT
2328735 TTCATGCCTTAATGCATCCG
1 TTCATGCCTTAATGCATCCG
* *
2328755 TTCATGCATTTTAGTTATGGCATCCT
1 TTCATGC--CTTA---AT-GCATCCG
* *
2328781 TTCATGCCTTAGTGCATCTG
1 TTCATGCCTTAATGCATCCG
2328801 TTCATGC
1 TTCATGC
2328808 ACTTTAATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
20 19 0.46
21 1 0.02
22 3 0.07
24 3 0.07
25 2 0.05
26 13 0.32
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (20 bp):
TTCATGCCTTAATGCATCCG
Found at i:2328765 original size:46 final size:46
Alignment explanation
Indices: 2328715--2328879 Score: 240
Period size: 46 Copynumber: 3.6 Consensus size: 46
2328705 ATGTCGTTCA
*
2328715 CATTTTAGTTATGGCATCTTTTCATGCCTTAATGCATCCGTTCATG
1 CATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATG
* *
2328761 CATTTTAGTTATGGCATCCTTTCATGCCTTAGTGCATCTGTTCATG
1 CATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATG
* * * * * * *
2328807 CACTTTAATTATGACGTCTTTTCATGCCTTAATACATTCGTTCATG
1 CATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATG
2328853 CATTTTAGTTATGGCATCCTTTCATGC
1 CATTTTAGTTATGGCATCCTTTCATGC
2328880 ATTTTAGTTA
Statistics
Matches: 102, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 102 1.00
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.44
Consensus pattern (46 bp):
CATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATG
Found at i:2328784 original size:26 final size:26
Alignment explanation
Indices: 2328715--2328905 Score: 123
Period size: 26 Copynumber: 8.0 Consensus size: 26
2328705 ATGTCGTTCA
*
2328715 CATTTTAGTTATGGCATCTTTTCATG
1 CATTTTAGTTATGGCATCCTTTCATG
* *
2328741 C--CTTA---AT-GCATCCGTTCATG
1 CATTTTAGTTATGGCATCCTTTCATG
2328761 CATTTTAGTTATGGCATCCTTTCATG
1 CATTTTAGTTATGGCATCCTTTCATG
*
2328787 C--CTTAG---T-GCAT-CTGTTCATG
1 CATTTTAGTTATGGCATCCT-TTCATG
* * * * *
2328807 CACTTTAATTATGACGTCTTTTCATG
1 CATTTTAGTTATGGCATCCTTTCATG
* * * *
2328833 C--CTTA---AT-ACATTCGTTCATG
1 CATTTTAGTTATGGCATCCTTTCATG
2328853 CATTTTAGTTATGGCATCCTTTCATG
1 CATTTTAGTTATGGCATCCTTTCATG
2328879 CATTTTAGTTATGGCATCCTTTCATG
1 CATTTTAGTTATGGCATCCTTTCATG
2328905 C
1 C
2328906 CTTAGTGCAT
Statistics
Matches: 125, Mismatches: 20, Indels: 40
0.68 0.11 0.22
Matches are distributed among these distances:
19 2 0.02
20 33 0.26
21 5 0.04
22 9 0.07
24 10 0.08
25 5 0.04
26 60 0.48
27 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.44
Consensus pattern (26 bp):
CATTTTAGTTATGGCATCCTTTCATG
Found at i:2328877 original size:72 final size:72
Alignment explanation
Indices: 2328801--2328949 Score: 208
Period size: 72 Copynumber: 2.1 Consensus size: 72
2328791 AGTGCATCTG
* * * *
2328801 TTCATGCACTTTAATTATGACGTCTTTTCATGCCTTAATACATTCGTTCATGCATTTTAGTTATG
1 TTCATGCACTTTAATTATGACATCCTTTCATGCCTTAATACATTCGTTCATGCACTTTAATTATG
2328866 GCATCCT
66 GCATCCT
* * * * *
2328873 TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAGTGCATTCGTTCATGCACTTTAATTATG
1 TTCATGCACTTTAATTATGACATCCTTTCATGCCTTAATACATTCGTTCATGCACTTTAATTATG
*
2328938 GCATCTT
66 GCATCCT
2328945 TTCAT
1 TTCAT
2328950 CCCTTAATGC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (72 bp):
TTCATGCACTTTAATTATGACATCCTTTCATGCCTTAATACATTCGTTCATGCACTTTAATTATG
GCATCCT
Found at i:2328879 original size:118 final size:118
Alignment explanation
Indices: 2328748--2328996 Score: 410
Period size: 118 Copynumber: 2.1 Consensus size: 118
2328738 ATGCCTTAAT
*
2328748 GCATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAGTGCA-TCTGTTCATGCACTT
1 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAGTGCATTC-GTTCATGCACTT
* * *
2328812 TAATTATGACGTCTTTTCATGCCTTAATACATTCGTTCATGCATTTTAGTTATG
65 TAATTATGACATCTTTTCATCCCTTAATACATCCGTTCATGCATTTTAGTTATG
2328866 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAGTGCATTCGTTCATGCACTTT
1 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAGTGCATTCGTTCATGCACTTT
* * *
2328931 AATTATGGCATCTTTTCATCCCTTAATGCATCCGTTCATGGATTTTAGTTATG
66 AATTATGACATCTTTTCATCCCTTAATACATCCGTTCATGCATTTTAGTTATG
*
2328984 GCATCTTTTCATG
1 GCATCCTTTCATG
2328997 TCTTAGTGCA
Statistics
Matches: 122, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
118 120 0.98
119 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (118 bp):
GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAGTGCATTCGTTCATGCACTTT
AATTATGACATCTTTTCATCCCTTAATACATCCGTTCATGCATTTTAGTTATG
Done.