Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_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: 6025995
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 28
Found at i:2335219 original size:19 final size:18
Alignment explanation
Indices: 2335189--2335238 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 18
2335179 AAATATCACG
2335189 TATAAGTATATAATGA-TACA
1 TATAA-TATATAAT-ATTA-A
2335209 TATAATATATAATATTAA
1 TATAATATATAATATTAA
2335227 TATTAATATATA
1 TA-TAATATATA
2335239 CGACATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.14
19 19 0.68
20 5 0.18
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (18 bp):
TATAATATATAATATTAA
Found at i:2335378 original size:22 final size:20
Alignment explanation
Indices: 2335353--2335406 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 20
2335343 TACAGAATAA
2335353 TATATAAATACAATA-ATACATT
1 TATATAAATA-AA-ACATACA-T
*
2335375 TATATAATATAAAACATATAT
1 TATATAA-ATAAAACATACAT
2335396 TATATAAATAA
1 TATATAAATAA
2335407 GGTCGGACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 4 0.14
21 9 0.31
22 13 0.45
23 3 0.10
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (20 bp):
TATATAAATAAAACATACAT
Found at i:2335808 original size:34 final size:33
Alignment explanation
Indices: 2335770--2335861 Score: 76
Period size: 41 Copynumber: 2.5 Consensus size: 33
2335760 CCACTATCGC
*
2335770 AAATTCGCGTTGCATTTCGTGTTGCGATAGTTGA
1 AAATTCGCGTTGCATTTCGCGTTGCGATAGTT-A
*
2335804 AAATTGCAACGCGATTTTCCATTTCGCGTTGCGATAGTTA
1 AAATT----CGCG---TTGCATTTCGCGTTGCGATAGTTA
*
2335844 AAAATCGCGTTGCGATTT
1 AAATTCGCGTTGC-ATTT
2335862 TCCATTTTGC
Statistics
Matches: 46, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
33 3 0.07
34 9 0.20
36 4 0.09
38 4 0.09
40 5 0.11
41 21 0.46
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (33 bp):
AAATTCGCGTTGCATTTCGCGTTGCGATAGTTA
Found at i:2335829 original size:41 final size:41
Alignment explanation
Indices: 2335782--2335882 Score: 139
Period size: 41 Copynumber: 2.5 Consensus size: 41
2335772 ATTCGCGTTG
* * *
2335782 CATTTCGTGTTGCGATAGTTGAAAATTGCAACGCGATTTTC
1 CATTTCGCGTTGCGATAGTTAAAAATCGCAACGCGATTTTC
***
2335823 CATTTCGCGTTGCGATAGTTAAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTAAAAATCGCAACGCGATTTTC
*
2335864 CATTTTGCGTTGCGATAGT
1 CATTTCGCGTTGCGATAGT
2335883 CTACAGTTGT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.38
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTAAAAATCGCAACGCGATTTTC
Found at i:2336011 original size:6 final size:6
Alignment explanation
Indices: 2336000--2336028 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
2335990 GACACGTATT
2336000 ACCACG ACCACG ACCACG ACCACG ACCAC
1 ACCACG ACCACG ACCACG ACCACG ACCAC
2336029 AGACGAACGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.52, G:0.14, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:2336523 original size:5 final size:5
Alignment explanation
Indices: 2336509--2336540 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
2336499 CCGCCGCCGC
2336509 CGTC- CGTCT CGTCT CGTCT CGTCT CGTCT CGT
1 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGT
2336541 GGTCGTGGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.00, C:0.41, G:0.22, T:0.38
Consensus pattern (5 bp):
CGTCT
Found at i:2336561 original size:6 final size:6
Alignment explanation
Indices: 2336552--2336576 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2336542 GTCGTGGTCG
2336552 TGGTAA TGGTAA TGGTAA TGGTAA T
1 TGGTAA TGGTAA TGGTAA TGGTAA T
2336577 ACGTGTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (6 bp):
TGGTAA
Found at i:2336715 original size:22 final size:22
Alignment explanation
Indices: 2336687--2336739 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
2336677 AATTTGGAAA
2336687 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
*
2336709 ATCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
2336731 ATCGCAACG
1 ATCGCAACG
2336740 CAAAATGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:2336777 original size:41 final size:41
Alignment explanation
Indices: 2336728--2336933 Score: 184
Period size: 40 Copynumber: 5.0 Consensus size: 41
2336718 ACAACTGTAG
* * * *
2336728 ACTATCGCAACGCAAAATGGAAAATCGCTACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGAATTGCA
*** * *
2336769 ACTATCGCAACGCGAAATGGAAAATCGCGTTGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGAATTGCA
* * ** * *
2336810 ACTATTGCAACGAC-AACTGTAGACTATCGCAACGCGAAATGGA
1 ACTATCGCAACG-CGAAATG--GAAAATCGCAACGCGAATTGCA
* * *
2336853 A-AATCGCAACGCGAAATGGAAAATCGCAACGCGAACTGGA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGAATTGCA
* *
2336893 A-AATCGCAACGCGAAATGGAAAATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGAATTGCA
2336933 A
1 A
2336934 TGCGAATTTG
Statistics
Matches: 138, Mismatches: 23, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
40 58 0.42
41 53 0.38
42 13 0.09
43 14 0.10
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGAATTGCA
Found at i:2336850 original size:104 final size:103
Alignment explanation
Indices: 2336706--2336899 Score: 289
Period size: 104 Copynumber: 1.9 Consensus size: 103
2336696 ACAACTGTAG
* ** *
2336706 ACTATCGCAACAACAACTGTAGACTATCGCAACGCAAAATGGAAAATCGCTACGCGATTTTCAAC
1 ACTATCGCAACAACAACTGTAGACTATCGCAACGCAAAATGGAAAATCGCAACGCGAAATGCAA-
*
2336771 TATCGCAACGCGAAATGGAAAATCGCGTTGCGATTTTCA
65 AATCGCAACGCGAAATGGAAAATCGCGTTGCGATTTTCA
* * * *
2336810 ACTATTGCAACGACAACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGAAATGGAAA
1 ACTATCGCAACAACAACTGTAGACTATCGCAACGCAAAATGGAAAATCGCAACGCGAAATGCAAA
*
2336875 ATCGCAACGCGAACTGGAAAATCGC
66 ATCGCAACGCGAAATGGAAAATCGC
2336900 AACGCGAAAT
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
103 24 0.30
104 56 0.70
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.19
Consensus pattern (103 bp):
ACTATCGCAACAACAACTGTAGACTATCGCAACGCAAAATGGAAAATCGCAACGCGAAATGCAAA
ATCGCAACGCGAAATGGAAAATCGCGTTGCGATTTTCA
Found at i:2336860 original size:20 final size:20
Alignment explanation
Indices: 2336835--2336930 Score: 183
Period size: 20 Copynumber: 4.8 Consensus size: 20
2336825 ACTGTAGACT
2336835 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
2336855 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
2336875 ATCGCAACGCGAACTGGAAA
1 ATCGCAACGCGAAATGGAAA
2336895 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
2336915 ATCGCAACGCGAAATG
1 ATCGCAACGCGAAATG
2336931 CAATGCGAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 74 1.00
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:2337254 original size:44 final size:44
Alignment explanation
Indices: 2337177--2337265 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
2337167 GAAGTTATAA
* * * *
2337177 AATGGTCCTATAAATAGGATATTACTTTGTTGAGTCTATCGACT
1 AATGATCCTATAAATAGGACATTACTTTATTGAGTCCATCGACT
* * *
2337221 AATGATCCTATGAATAGGACATTGCTTTATTGAGTCCCTCGACT
1 AATGATCCTATAAATAGGACATTACTTTATTGAGTCCATCGACT
2337265 A
1 A
2337266 TTAAAAGTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (44 bp):
AATGATCCTATAAATAGGACATTACTTTATTGAGTCCATCGACT
Found at i:2338939 original size:215 final size:210
Alignment explanation
Indices: 2338593--2339310 Score: 937
Period size: 215 Copynumber: 3.4 Consensus size: 210
2338583 ATTCAATAAT
** * *
2338593 TAAATTGAACAAATATGAAATTACAAATTCAAATTTAAATAAATTCAACAACATATATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAAC--ACA-T-AT-AG
* * *
2338658 GGATCAAATAGAAATAATTTTAAATTGTGATGTTGAAATTAATAC-AAAAAGTACTAAATTATAC
61 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAAAAGTACTAAATTATAC
*
2338722 CCATTTAAAAAGTTATGGGCCAATTAAAAAATATAATTAAGTAATAAGTATGGGTCAATTTCAGA
126 CCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGA
2338787 TGCAAATATAATTTGGAAGAC
191 TGCAAATATAATTT-GAAGAC
* *
2338808 TAAATTGAACAAATATGAAATTACAAATAAAAAATTAAATAAATTAAACAACACA-A-AGGAATC
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACATATAGGGATC
2338871 AAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAAAAGTACTAATATAATTTGATA
66 AAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAAAAGTAC---TA-AA-TT-ATA
*
2338936 CCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAACTAAGTAATAAGTATGGGTCAATTTCAG
125 CCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAG
* *
2339001 ATACAAATATAATTTGAAGGAA
190 ATGCAAATATAATTTGAA-GAC
* * *
2339023 AAAATTGAATAAATATGAAATTA-AAA-AGAAATTTTAAATAAATTAAACAACACACATTGATGA
1 TAAATTGAACAAATATGAAATTACAAATA-AAAATTTAAATAAATTAAAC-A-ACACA-T-AT-A
* * * *
2339086 AGTATCAAATCAAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAAAAGTGCTAAATTATA
60 GGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAAAAGTACTAAATTATA
* ** * * *
2339151 CCCATTTAAAAAATTATGGAACAATTAAAAAATAGAAATAAGTAAGAAGTATAGGTCAATTTCAG
125 CCCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAG
* *
2339216 ATGAAAATATAATTTTAAAGAC
190 ATGCAAATATAA-TTTGAAGAC
* *
2339238 TAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAAAC-A-ACATAAAGGGATC
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACATATAGGGATC
2339301 AAATCGAAAT
66 AAATCGAAAT
2339311 GATTGCAAAA
Statistics
Matches: 445, Mismatches: 39, Indels: 44
0.84 0.07 0.08
Matches are distributed among these distances:
208 43 0.10
209 23 0.05
210 2 0.00
211 1 0.00
212 5 0.01
213 6 0.01
214 26 0.06
215 247 0.56
216 34 0.08
217 2 0.00
218 2 0.00
219 1 0.00
221 53 0.12
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (210 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACATATAGGGATC
AAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAAAAGTACTAAATTATACCCATT
TAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAA
ATATAATTTGAAGAC
Found at i:2339358 original size:2 final size:2
Alignment explanation
Indices: 2339351--2339487 Score: 54
Period size: 2 Copynumber: 68.5 Consensus size: 2
2339341 AACTATAATA
* * *
2339351 AT AT AT AT AT A- AT AA ACT AT AT AGT TT AT AT AT AA AGT AT AT
1 AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT A-T AT AT
* * * * *
2339393 GT AT -T AT AT AT AT AA ACT AT AT AT -T TT GT AT TT AT AT -T AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
* * *
2339433 -T AT AT ACT AT AT AT AA ACT AT AT AT -T AT GT AT AT AT -T AT GT
1 AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
*
2339474 AT AA ACT AT AT AT A
1 AT AT A-T AT AT AT A
2339488 CCATGTATAA
Statistics
Matches: 99, Mismatches: 22, Indels: 28
0.66 0.15 0.19
Matches are distributed among these distances:
1 7 0.07
2 84 0.85
3 8 0.08
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2339364 original size:11 final size:11
Alignment explanation
Indices: 2339344--2339457 Score: 58
Period size: 11 Copynumber: 10.5 Consensus size: 11
2339334 TTGAAACAAC
2339344 TATA-ATAATA
1 TATATATAATA
2339354 TATATATAATA
1 TATATATAATA
* * *
2339365 AACTATATAGTT
1 TA-TATATAATA
2339377 TATATATAA-A
1 TATATATAATA
* *
2339387 GTATATGTATTA
1 -TATATATAATA
2339399 TATATATAA-A
1 TATATATAATA
** *
2339409 CTATATATTTTG
1 -TATATATAATA
* *
2339421 TATTTATATTA
1 TATATATAATA
*
2339432 T-TATATACTA
1 TATATATAATA
2339442 TATATA-AACTA
1 TATATATAA-TA
2339453 TATAT
1 TATAT
2339458 TATGTATATA
Statistics
Matches: 77, Mismatches: 19, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
10 14 0.18
11 54 0.70
12 9 0.12
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (11 bp):
TATATATAATA
Found at i:2339391 original size:20 final size:20
Alignment explanation
Indices: 2339356--2339614 Score: 74
Period size: 20 Copynumber: 12.8 Consensus size: 20
2339346 TAATAATATA
2339356 TATATAATAAACTATATAGT-T
1 TATAT-ATAAACTATAT-GTAT
*
2339377 TATATATAAAGTATATGTATT
1 TATATATAAACTATATGTA-T
* *
2339398 ATATATATAAACTATATATTT
1 -TATATATAAACTATATGTAT
* * * * * *
2339419 TGTATTTATATTATTATATAC
1 TATATATAAACTA-TATGTAT
2339440 TATATATAAACTATA--TAT
1 TATATATAAACTATATGTAT
* *
2339458 TATGTATATA-T-TATGTA-
1 TATATATAAACTATATGTAT
* * *
2339475 TAAACTATATA-TACCATGTA-
1 TATA-TATAAACTA-TATGTAT
*
2339495 TAAACTATAATACTATATAGT-T
1 TATA-TATAA-ACTATAT-GTAT
* * *
2339517 TATATATGAACTAT-TGAAC
1 TATATATAAACTATATGTAT
* *
2339536 TATATAGAAACTACATAGT-T
1 TATATATAAACTATAT-GTAT
*
2339556 TATTAATATAAATTATATAGT-T
1 TA-T-ATATAAACTATAT-GTAT
* * *
2339578 TATATATAAATTATATATGAAA
1 TATATATAAA--CTATATGTAT
2339600 TATATATAAACTATA
1 TATATATAAACTATA
2339615 CAATTTATAT
Statistics
Matches: 179, Mismatches: 38, Indels: 43
0.69 0.15 0.17
Matches are distributed among these distances:
16 2 0.01
17 3 0.02
18 20 0.11
19 14 0.08
20 54 0.30
21 32 0.18
22 54 0.30
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.44
Consensus pattern (20 bp):
TATATATAAACTATATGTAT
Found at i:2339428 original size:22 final size:21
Alignment explanation
Indices: 2339341--2339468 Score: 91
Period size: 22 Copynumber: 6.0 Consensus size: 21
2339331 AAATTGAAAC
*
2339341 AACTATAATAATATATATATAATA
1 AACTAT-AT-ATATTTATAT-ATA
*
2339365 AACTATATA-GTTTATATATA
1 AACTATATATATTTATATATA
* *
2339385 AAGTATATGTATTATATATATA
1 AACTATATATATT-TATATATA
* *
2339407 AACTATATAT-TTTGTATTTA
1 AACTATATATATTTATATATA
* * *
2339427 TATTAT-TATATACTATATATA
1 AACTATATATAT-TTATATATA
*
2339448 AACTATATATTATGTATATAT
1 AACTATATA-TATTTATATAT
2339469 TATGTATAAA
Statistics
Matches: 81, Mismatches: 17, Indels: 14
0.72 0.15 0.12
Matches are distributed among these distances:
19 3 0.04
20 21 0.26
21 20 0.25
22 26 0.32
23 5 0.06
24 6 0.07
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (21 bp):
AACTATATATATTTATATATA
Found at i:2339444 original size:30 final size:27
Alignment explanation
Indices: 2339392--2339446 Score: 74
Period size: 30 Copynumber: 1.9 Consensus size: 27
2339382 ATAAAGTATA
2339392 TGTATTATATATATAAACTATATATTT
1 TGTATTATATATATAAACTATATATTT
*
2339419 TGTATTTATATTATTATATACTATATAT
1 TGTA-TTATA-TA-TATAAACTATATAT
2339447 AAACTATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 5 0.21
29 2 0.08
30 13 0.54
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (27 bp):
TGTATTATATATATAAACTATATATTT
Found at i:2339465 original size:11 final size:11
Alignment explanation
Indices: 2339451--2339476 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2339441 ATATATAAAC
2339451 TATATATTATG
1 TATATATTATG
2339462 TATATATTATG
1 TATATATTATG
2339473 TATA
1 TATA
2339477 AACTATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (11 bp):
TATATATTATG
Found at i:2339476 original size:29 final size:28
Alignment explanation
Indices: 2339425--2339486 Score: 97
Period size: 29 Copynumber: 2.2 Consensus size: 28
2339415 ATTTTGTATT
2339425 TATATTATTATATACTATATATAAACTA
1 TATATTATTATATACTATATATAAACTA
* *
2339453 TATATTATGTATATATTATGTATAAACTA
1 TATATTAT-TATATACTATATATAAACTA
2339482 TATAT
1 TATAT
2339487 ACCATGTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 8 0.26
29 23 0.74
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (28 bp):
TATATTATTATATACTATATATAAACTA
Found at i:2339576 original size:22 final size:20
Alignment explanation
Indices: 2339536--2339721 Score: 87
Period size: 22 Copynumber: 9.1 Consensus size: 20
2339526 ACTATTGAAC
* * *
2339536 TATATAGAAACTACATAGTT
1 TATATATAAATTATATAGTT
2339556 TATTAATATAAATTATATAGTT
1 TA-T-ATATAAATTATATAGTT
**
2339578 TATATATAAATTATATATGAAA
1 TATATATAAATTATATA-G-TT
* * *
2339600 TATATATAAACTATACAATT
1 TATATATAAATTATATAGTT
* * *
2339620 TATATTTATA-TAT-TA-TG
1 TATATATAAATTATATAGTT
* *
2339637 TATAATTATAAATAATATA-TA
1 TAT-A-TATAAATTATATAGTT
*
2339658 T-TGTATAAATTATATA-TT
1 TATATATAAATTATATAGTT
* *
2339676 TATTAATATAAACTATATAGTG
1 TA-T-ATATAAATTATATAGTT
*
2339698 TATATATATAGTATATATAGTT
1 TATATATA-AAT-TATATAGTT
2339720 TA
1 TA
2339722 AGGTTTAGGG
Statistics
Matches: 125, Mismatches: 27, Indels: 26
0.70 0.15 0.15
Matches are distributed among these distances:
17 4 0.03
18 16 0.13
19 7 0.06
20 33 0.26
21 21 0.17
22 44 0.35
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (20 bp):
TATATATAAATTATATAGTT
Found at i:2339585 original size:11 final size:11
Alignment explanation
Indices: 2339557--2339694 Score: 60
Period size: 11 Copynumber: 12.7 Consensus size: 11
2339547 TACATAGTTT
2339557 ATTA-ATATAA
1 ATTATATATAA
2339567 ATTATATAGT--
1 ATTATATA-TAA
2339577 -TTATATATAA
1 ATTATATATAA
2339587 ATTATATATGAA
1 ATTATATAT-AA
2339599 A-TATATATAA
1 ATTATATATAA
* *
2339609 A--CTATACAA
1 ATTATATATAA
* *
2339618 TTTATATTTATAT
1 ATTATA--TATAA
*
2339631 ATTATGTAT-A
1 ATTATATATAA
*
2339641 ATTATAAATAA
1 ATTATATATAA
*
2339652 TATATATTGTATAA
1 -AT-TA-TATATAA
**
2339666 ATTATATATTT
1 ATTATATATAA
2339677 ATTA-ATATAA
1 ATTATATATAA
*
2339687 ACTATATA
1 ATTATATA
2339695 GTGTATATAT
Statistics
Matches: 94, Mismatches: 19, Indels: 29
0.66 0.13 0.20
Matches are distributed among these distances:
8 1 0.01
9 13 0.14
10 21 0.22
11 35 0.37
12 8 0.09
13 11 0.12
14 5 0.05
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (11 bp):
ATTATATATAA
Found at i:2339643 original size:24 final size:27
Alignment explanation
Indices: 2339611--2339678 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 27
2339601 ATATATAAAC
2339611 TATACAATTTATATTTATATAT-TA-TG
1 TATA-AATTTATATTTATATATATATTG
**
2339637 TAT-AA-TTATAAATA-ATATATATTG
1 TATAAATTTATATTTATATATATATTG
2339661 TATAAATTATATATTTAT
1 TATAAATT-TATATTTAT
2339679 TAATATAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
22 4 0.12
23 9 0.28
24 7 0.22
25 2 0.06
26 4 0.12
27 6 0.19
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (27 bp):
TATAAATTTATATTTATATATATATTG
Found at i:2339845 original size:11 final size:11
Alignment explanation
Indices: 2339796--2339858 Score: 57
Period size: 9 Copynumber: 6.2 Consensus size: 11
2339786 TAGTAGTATT
2339796 TAAACTATATA
1 TAAACTATATA
2339807 TAAAC-A-ATA
1 TAAACTATATA
2339816 TAAACTA-ACT-
1 TAAACTATA-TA
* *
2339826 TATACTATATG
1 TAAACTATATA
2339837 TAAACTATATA
1 TAAACTATATA
2339848 T--ACTATATA
1 TAAACTATATA
2339857 TA
1 TA
2339859 TGTGAACTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
9 17 0.39
10 10 0.23
11 17 0.39
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.37
Consensus pattern (11 bp):
TAAACTATATA
Found at i:2339887 original size:33 final size:33
Alignment explanation
Indices: 2339849--2339925 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 33
2339839 AACTATATAT
* *
2339849 ACTATATATATGTGAAC-TATAGTTTACATGTGA
1 ACTATATATAT-TAAACATATAGTTTACATATGA
2339882 ACTATATATA-TAAACTATATAGTTTACATATGA
1 ACTATATATATTAAAC-ATATAGTTTACATATGA
2339915 ACTATATATAT
1 ACTATATATAT
2339926 ACTATAGTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
31 4 0.10
33 35 0.90
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (33 bp):
ACTATATATATTAAACATATAGTTTACATATGA
Found at i:2339898 original size:31 final size:30
Alignment explanation
Indices: 2339853--2339934 Score: 103
Period size: 33 Copynumber: 2.6 Consensus size: 30
2339843 ATATATACTA
* *
2339853 TATATATGTGAACTATAGTTTACATGTGAAC
1 TATATATAT-AACTATAGTTTACATATGAAC
2339884 TATATATATAAACTATATAGTTTACATATGAAC
1 TATATATAT-AAC--TATAGTTTACATATGAAC
2339917 TATATATAT-ACTATAGTT
1 TATATATATAACTATAGTT
2339935 GATATTTATA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
29 7 0.15
31 13 0.28
33 26 0.57
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (30 bp):
TATATATATAACTATAGTTTACATATGAAC
Found at i:2339917 original size:20 final size:20
Alignment explanation
Indices: 2339889--2340056 Score: 92
Period size: 18 Copynumber: 8.7 Consensus size: 20
2339879 TGAACTATAT
*
2339889 ATATAAACTATATAGTTTAC
1 ATATGAACTATATAGTTTAC
*
2339909 ATATGAACTATATA-TATAC
1 ATATGAACTATATAGTTTAC
* *
2339928 -TAT--AGT-TGATA-TTTAT
1 ATATGAACTAT-ATAGTTTAC
2339944 ATATGAAC--TATAGTTTAC
1 ATATGAACTATATAGTTTAC
* * *
2339962 ATATAAAGTATATAGTTTAT
1 ATATGAACTATATAGTTTAC
2339982 ATACT-AAC--TATAGTTTAC
1 ATA-TGAACTATATAGTTTAC
* * *
2340000 ATATAAATTATAGTTGATATTTTAC
1 ATATGAA--CTA--T-ATAGTTTAC
2340025 ATATGAAC--TATAGTTTAC
1 ATATGAACTATATAGTTTAC
2340043 ATATGAACTATATA
1 ATATGAACTATATA
2340057 TATAGTTTAT
Statistics
Matches: 113, Mismatches: 17, Indels: 36
0.68 0.10 0.22
Matches are distributed among these distances:
15 1 0.01
16 8 0.07
17 7 0.06
18 44 0.39
19 6 0.05
20 31 0.27
21 1 0.01
24 1 0.01
25 14 0.12
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (20 bp):
ATATGAACTATATAGTTTAC
Found at i:2339960 original size:18 final size:18
Alignment explanation
Indices: 2339855--2340054 Score: 85
Period size: 18 Copynumber: 10.8 Consensus size: 18
2339845 ATATACTATA
*
2339855 TATATGTGAACTATAGTT
1 TATATATGAACTATAGTT
* *
2339873 TACATGTGAACTATA---
1 TATATATGAACTATAGTT
2339888 TATATA--AACTATATAGTT
1 TATATATGAAC--TATAGTT
* *
2339906 TACATATGAACTATA-TA
1 TATATATGAACTATAGTT
**
2339923 TATACTAT-AGTTGATA-TT
1 TATA-TATGAACT-ATAGTT
2339941 TATATATGAACTATAGTT
1 TATATATGAACTATAGTT
* * *
2339959 TACATATAAAGTATATAGTT
1 TATATATGAA--CTATAGTT
2339979 TATATACT-AACTATAGTT
1 TATATA-TGAACTATAGTT
* * *
2339997 TACATATAAATTATAGTT
1 TATATATGAACTATAGTT
2340015 GATATTTTACATATGAACTATAGTT
1 --TA---T--ATATGAACTATAGTT
*
2340040 TACATATGAACTATA
1 TATATATGAACTATA
2340055 TATATAGTTT
Statistics
Matches: 138, Mismatches: 22, Indels: 44
0.68 0.11 0.22
Matches are distributed among these distances:
13 3 0.02
15 8 0.06
17 13 0.09
18 79 0.57
20 19 0.14
21 1 0.01
23 2 0.01
25 13 0.09
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.42
Consensus pattern (18 bp):
TATATATGAACTATAGTT
Found at i:2339991 original size:38 final size:36
Alignment explanation
Indices: 2339889--2340046 Score: 128
Period size: 38 Copynumber: 4.1 Consensus size: 36
2339879 TGAACTATAT
*
2339889 ATATAAACTATATAGTTTACATATGAACTATA-TATATAC
1 ATATAAA-T-TATAGTTTATATATGAACTATAGT-T-TAC
*
2339928 -TAT-AGTTGATA-TTTATATATGAACTATAGTTTAC
1 ATATAAATT-ATAGTTTATATATGAACTATAGTTTAC
2339962 ATATAAAGTATATAGTTTATATACT-AACTATAGTTTAC
1 ATATAAA-T-TATAGTTTATATA-TGAACTATAGTTTAC
2340000 ATATAAATTATAGTTGATATTTTACATATGAACTATAGTTTAC
1 ATATAAATTATAGTT--TA---T--ATATGAACTATAGTTTAC
2340043 ATAT
1 ATAT
2340047 GAACTATATA
Statistics
Matches: 100, Mismatches: 3, Indels: 28
0.76 0.02 0.21
Matches are distributed among these distances:
34 3 0.03
35 21 0.21
36 13 0.13
37 6 0.06
38 34 0.34
39 1 0.01
41 1 0.01
42 1 0.01
43 20 0.20
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (36 bp):
ATATAAATTATAGTTTATATATGAACTATAGTTTAC
Found at i:2340064 original size:24 final size:24
Alignment explanation
Indices: 2340033--2340082 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
2340023 ACATATGAAC
2340033 TATAGTTTACATA-TGAACTATATA
1 TATAGTTTA-ATAGTGAACTATATA
* *
2340057 TATAGTTTATTAGTGAACTTTATA
1 TATAGTTTAATAGTGAACTATATA
2340081 TA
1 TA
2340083 CTATATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (24 bp):
TATAGTTTAATAGTGAACTATATA
Found at i:2340089 original size:22 final size:24
Alignment explanation
Indices: 2340046--2340089 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
2340036 AGTTTACATA
* *
2340046 TGAACTATATATATAGTTTATTAG
1 TGAACTATATATATACTATATTAG
2340070 TGAACT-T-TATATACTATATT
1 TGAACTATATATATACTATATT
2340090 TAAAAAATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 1 0.06
24 6 0.33
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (24 bp):
TGAACTATATATATACTATATTAG
Found at i:2340144 original size:2 final size:2
Alignment explanation
Indices: 2340128--2340447 Score: 74
Period size: 2 Copynumber: 164.0 Consensus size: 2
2340118 AAAACAAAAT
* * *
2340128 TA TA -A TA TT TA TA TA TA -A TA TA -A GTT TA TA TA TA AA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA
* * * **
2340169 TT TA TA T- TA TA AA CTA TA TT TA TA T- TA TA -A GC 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
* * * *
2340209 TA TA TA T- TA TG TT TA TA TGA -A T- TA TA TA TA TA AA CTA TG TA
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA -TA TA TA
* * * * * *
2340250 TA TA -A AA TA TA TA TG TA TA AA CTA TA AA AA GTA TA TA GTT TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA TA
* *
2340292 TA -A AA TA TA -A TT TA TA T- TA -A TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
2340330 TA TA AA CTA TA TA TG TA TA AA CTA TA TA -A AA TA TA TA GTT TA
1 TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA
* * * *
2340372 TA AA T- TA TA -A TT TA TA T- TA -A TA TA GTA TA TA TA TG TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
*
2340411 TA TA -A CTA -A TA TA -A GTA -A TT TA TA GTA TA TA TA TA TA
1 TA TA TA -TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA
2340448 GTTTATAGAA
Statistics
Matches: 227, Mismatches: 53, Indels: 76
0.64 0.15 0.21
Matches are distributed among these distances:
1 23 0.10
2 188 0.83
3 16 0.07
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:2340172 original size:17 final size:17
Alignment explanation
Indices: 2340132--2340214 Score: 98
Period size: 18 Copynumber: 4.8 Consensus size: 17
2340122 CAAAATTATA
2340132 ATATTTATATAT-AA-T
1 ATATTTATATATAAACT
2340147 ATAAGTTTATATATAAACT
1 AT-A-TTTATATATAAACT
2340166 ATATTTATATTATAAACT
1 ATATTTATA-TATAAACT
*
2340184 ATATTTATATTATAAGCT
1 ATATTTATA-TATAAACT
*
2340202 ATATATATATATA
1 ATATTTATATATA
2340215 TTATGTTTAT
Statistics
Matches: 61, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
15 2 0.03
16 1 0.02
17 19 0.31
18 36 0.59
19 3 0.05
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (17 bp):
ATATTTATATATAAACT
Found at i:2340205 original size:36 final size:35
Alignment explanation
Indices: 2340132--2340226 Score: 94
Period size: 35 Copynumber: 2.8 Consensus size: 35
2340122 CAAAATTATA
2340132 ATATTTATA-TATAATATAAGTTTATATATAAACT
1 ATATTTATATTATAATATAAGTTTATATATAAACT
*
2340166 ATATTTATATTATAA-ACTATA-TTTATATTATAAGCT
1 ATATTTATATTATAATA-TA-AGTTTATA-TATAAACT
* *
2340202 ATATATATA-TAT-AT-TATGTTTATAT
1 ATATTTATATTATAATATAAGTTTATAT
2340227 GAATTATATA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
32 1 0.02
33 8 0.15
34 11 0.21
35 16 0.31
36 16 0.31
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (35 bp):
ATATTTATATTATAATATAAGTTTATATATAAACT
Found at i:2340238 original size:13 final size:13
Alignment explanation
Indices: 2340231--2340366 Score: 68
Period size: 13 Copynumber: 10.5 Consensus size: 13
2340221 TTATATGAAT
*
2340231 TATATATATAAAC
1 TATATATATAAAA
*
2340244 TATGTATATAAAA
1 TATATATATAAAA
*
2340257 TATATATGTATAAAC
1 TATATA--TATAAAA
*
2340272 TATA-A-A-AAGTA
1 TATATATATAA-AA
*
2340283 TATAGTTTATAAAA
1 TATA-TATATAAAA
* *
2340297 TATAATTTATATTAA
1 TAT-ATATATA-AAA
*
2340312 TATATATAT-ATA
1 TATATATATAAAA
*
2340324 TATATATATAAAC
1 TATATATATAAAA
* *
2340337 TATATATGTATAA
1 TATATATATAAAA
*
2340350 -A-CTATATAAAA
1 TATATATATAAAA
2340361 TATATA
1 TATATA
2340367 GTTTATAAAT
Statistics
Matches: 90, Mismatches: 21, Indels: 24
0.67 0.16 0.18
Matches are distributed among these distances:
10 2 0.02
11 12 0.13
12 12 0.13
13 29 0.32
14 17 0.19
15 18 0.20
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.41
Consensus pattern (13 bp):
TATATATATAAAA
Found at i:2340247 original size:28 final size:28
Alignment explanation
Indices: 2340201--2340354 Score: 90
Period size: 28 Copynumber: 5.6 Consensus size: 28
2340191 TATTATAAGC
* * * *
2340201 TATATATATATATATTATGTTTATATGAA
1 TATATATATATAAACTATGTATATA-AAA
2340230 T-TATATATATAAACTATGTATATAAAA
1 TATATATATATAAACTATGTATATAAAA
* *
2340257 TATATATGTATAAACTA--TA-A-AAAG
1 TATATATATATAAACTATGTATATAAAA
* * * * *
2340281 TATATAGTTTATAAAATATAATTTATATTAA
1 TATATA-TATATAAACTAT-GTATATA-AAA
* *
2340312 TATATATATAT--A-TATATATATAAAC
1 TATATATATATAAACTATGTATATAAAA
*
2340337 TATATATGTATAAACTAT
1 TATATATATATAAACTAT
2340355 ATAAAATATA
Statistics
Matches: 98, Mismatches: 16, Indels: 23
0.72 0.12 0.17
Matches are distributed among these distances:
24 9 0.09
25 21 0.21
26 8 0.08
27 7 0.07
28 39 0.40
29 2 0.02
30 5 0.05
31 7 0.07
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.44
Consensus pattern (28 bp):
TATATATATATAAACTATGTATATAAAA
Found at i:2340295 original size:40 final size:40
Alignment explanation
Indices: 2340250--2340380 Score: 153
Period size: 40 Copynumber: 3.3 Consensus size: 40
2340240 AAACTATGTA
2340250 TATAAAATATATATGTATAAACTATA-AAAAGTATATAGTT
1 TATAAAATATATATGTATAAACTATATAAAA-TATATAGTT
* * *
2340290 TATAAAATATA-ATTTATATTAA-TATATATATATATATA-TA
1 TATAAAATATATATGTATA--AACTATATA-AAATATATAGTT
*
2340330 TATAAACTATATATGTATAAACTATATAAAATATATAGTT
1 TATAAAATATATATGTATAAACTATATAAAATATATAGTT
*
2340370 TATAAATTATA
1 TATAAAATATA
2340381 ATTTATATTA
Statistics
Matches: 76, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
39 16 0.21
40 43 0.57
41 15 0.20
42 2 0.03
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (40 bp):
TATAAAATATATATGTATAAACTATATAAAATATATAGTT
Found at i:2340317 original size:10 final size:11
Alignment explanation
Indices: 2340296--2340447 Score: 66
Period size: 11 Copynumber: 13.3 Consensus size: 11
2340286 AGTTTATAAA
*
2340296 ATATAATTTAT
1 ATATAATATAT
2340307 AT-TAATATAT
1 ATATAATATAT
2340317 ATATATATATAT
1 ATATA-ATATAT
2340329 ATATAAACTATAT
1 ATAT-AA-TATAT
2340342 ATGTATAA-ACTAT
1 A--TATAATA-TAT
*
2340355 ATAAAATATAT
1 ATATAATATAT
* *
2340366 AGT-TTATAAAT
1 A-TATAATATAT
*
2340377 -TATAATTTAT
1 ATATAATATAT
2340387 AT-TAATATAGT
1 ATATAATATA-T
*
2340398 ATATATATGTAT
1 ATATA-ATATAT
*
2340410 GTATAACTA-AT
1 ATATAA-TATAT
*
2340421 ATAAGTAATTTAT
1 AT-A-TAATATAT
2340434 AGTAT-ATATAT
1 A-TATAATATAT
2340445 ATA
1 ATA
2340448 GTTTATAGAA
Statistics
Matches: 107, Mismatches: 15, Indels: 39
0.66 0.09 0.24
Matches are distributed among these distances:
9 1 0.01
10 22 0.21
11 31 0.29
12 25 0.23
13 22 0.21
14 3 0.03
15 3 0.03
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (11 bp):
ATATAATATAT
Found at i:2340546 original size:21 final size:21
Alignment explanation
Indices: 2340519--2340570 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
2340509 CTAAACCCTA
*
2340519 CCTAAACACTAAAACTTAAAT
1 CCTAAACACTAAAACTTAAAC
* *
2340540 CTTAAAC-CTTAAACCTTAAAC
1 CCTAAACAC-TAAAACTTAAAC
2340561 CCTAAACACT
1 CCTAAACACT
2340571 GTGCATAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 1 0.04
21 23 0.92
22 1 0.04
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (21 bp):
CCTAAACACTAAAACTTAAAC
Found at i:2340560 original size:14 final size:14
Alignment explanation
Indices: 2340528--2340567 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
2340518 ACCTAAACAC
* *
2340528 TAAAACTTAAATCT
1 TAAACCTTAAACCT
2340542 TAAACCTTAAACCT
1 TAAACCTTAAACCT
*
2340556 TAAACCCTAAAC
1 TAAACCTTAAAC
2340568 ACTGTGCATA
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:0.00, T:0.28
Consensus pattern (14 bp):
TAAACCTTAAACCT
Found at i:2340648 original size:16 final size:16
Alignment explanation
Indices: 2340590--2340650 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 16
2340580 CAATAGTTAA
*
2340590 TATATGTAACCTATAG
1 TATATGTAACTTATAG
2340606 TATATGTATACATGTAAACTA-
1 TATATGTA-AC-T-T--A-TAG
2340627 TATATGTAACTTATAG
1 TATATGTAACTTATAG
2340643 TATATGTA
1 TATATGTA
2340651 TGTATAAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
15 2 0.05
16 17 0.46
17 2 0.05
18 1 0.03
19 2 0.05
20 2 0.05
21 9 0.24
22 2 0.05
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.41
Consensus pattern (16 bp):
TATATGTAACTTATAG
Found at i:2340659 original size:35 final size:36
Alignment explanation
Indices: 2340589--2340662 Score: 105
Period size: 37 Copynumber: 2.1 Consensus size: 36
2340579 ACAATAGTTA
*
2340589 ATATATGTAACCTATAGTATATGTATACATGTAAACT
1 ATATATGTAACCTATAGTATATGTATA-ATATAAACT
* *
2340626 ATATATGTAACTTATAGTATATGTAT-GTATAAACT
1 ATATATGTAACCTATAGTATATGTATAATATAAACT
2340661 AT
1 AT
2340663 GTATAGCATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 9 0.26
37 25 0.74
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.41
Consensus pattern (36 bp):
ATATATGTAACCTATAGTATATGTATAATATAAACT
Found at i:2340686 original size:57 final size:57
Alignment explanation
Indices: 2340620--2340757 Score: 174
Period size: 57 Copynumber: 2.4 Consensus size: 57
2340610 TGTATACATG
* *
2340620 TAAACTATATATGTAACTTATAGTATATGTATGTATA-AA-CTATGTATA-GCATATA
1 TAAACTATATATGTAACCTATAGTATATGTATATATACAATCTATGTATATG-ATATA
* * * *
2340675 TAAACTATATATATATAACCTATAATATATGTATATATACAATCTATTTATATGTTATA
1 TAAAC--TATATATGTAACCTATAGTATATGTATATATACAATCTATGTATATGATATA
2340734 TAAACTATATATGTAACCTATAGT
1 TAAACTATATATGTAACCTATAGT
2340758 TTATAAACAA
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
55 5 0.07
57 45 0.64
58 2 0.03
59 17 0.24
60 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (57 bp):
TAAACTATATATGTAACCTATAGTATATGTATATATACAATCTATGTATATGATATA
Found at i:2340688 original size:13 final size:15
Alignment explanation
Indices: 2340670--2340704 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
2340660 TATGTATAGC
*
2340670 ATATATAAACTATAT
1 ATATATAACCTATAT
2340685 ATATATAACCTATA-
1 ATATATAACCTATAT
2340699 ATATAT
1 ATATAT
2340705 GTATATATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (15 bp):
ATATATAACCTATAT
Found at i:2340709 original size:24 final size:22
Alignment explanation
Indices: 2340684--2340742 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
2340674 ATAAACTATA
*
2340684 TATATATAACCTATAATATATG
1 TATATATAAACTATAATATATG
*
2340706 TATATATACAATCTAT-TTATATG
1 TATATATA-AA-CTATAATATATG
2340729 T-TATATAAACTATA
1 TATATATAAACTATA
2340743 TATGTAACCT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 4 0.12
21 2 0.06
22 14 0.44
23 8 0.25
24 4 0.12
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (22 bp):
TATATATAAACTATAATATATG
Found at i:2341596 original size:13 final size:13
Alignment explanation
Indices: 2341596--2341656 Score: 59
Period size: 13 Copynumber: 4.3 Consensus size: 13
2341586 CCGTTGACCC
*
2341596 GACCCGACCTGTT
1 GACCCGACCCGTT
*
2341609 TACCCGACCCGTT
1 GACCCGACCCGTT
2341622 GACCCGACCCGACCCGTT
1 G-----ACCCGACCCGTT
2341640 GACCCGACCCGTT
1 GACCCGACCCGTT
2341653 GACC
1 GACC
2341657 GTTGACCCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
13 27 0.68
18 13 0.32
ACGTcount: A:0.16, C:0.46, G:0.21, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:2341597 original size:18 final size:18
Alignment explanation
Indices: 2341574--2341650 Score: 101
Period size: 18 Copynumber: 4.6 Consensus size: 18
2341564 ACCGGTCACA
2341574 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
2341592 ACCCGACCCGACCTGTT-
1 ACCCGACCCGACCCGTTG
*
2341609 ----TACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
2341623 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
2341641 ACCCGACCCG
1 ACCCGACCCG
2341651 TTGACCGTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
13 11 0.22
18 39 0.78
ACGTcount: A:0.17, C:0.49, G:0.21, T:0.13
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:2341615 original size:31 final size:31
Alignment explanation
Indices: 2341578--2341656 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
2341568 GTCACAACCC
*
2341578 GACCCGACCCGTTGACCCGACCCGACCTGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
*
2341609 TACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
2341640 GACCCGACCCGTTGACC
1 GACCCGACCCGTTGACC
2341657 GTTGACCCAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.16, C:0.47, G:0.22, T:0.15
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCGTT
Found at i:2341643 original size:8 final size:8
Alignment explanation
Indices: 2341632--2341678 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
2341622 GACCCGACCC
2341632 GACCCGTT
1 GACCCGTT
2341640 GACCC---
1 GACCCGTT
2341645 GACCCGTT
1 GACCCGTT
2341653 GA-CCGTT
1 GACCCGTT
*
2341660 GACCCATT
1 GACCCGTT
2341668 GA-CCGTT
1 GACCCGTT
2341675 GACC
1 GACC
2341679 GGAGTTGACC
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
5 5 0.16
7 13 0.41
8 14 0.44
ACGTcount: A:0.17, C:0.38, G:0.23, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:2341669 original size:15 final size:15
Alignment explanation
Indices: 2341645--2341678 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2341635 CCGTTGACCC
*
2341645 GACCCGTTGACCGTT
1 GACCCATTGACCGTT
2341660 GACCCATTGACCGTT
1 GACCCATTGACCGTT
2341675 GACC
1 GACC
2341679 GGAGTTGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.35, G:0.24, T:0.24
Consensus pattern (15 bp):
GACCCATTGACCGTT
Found at i:2343002 original size:18 final size:18
Alignment explanation
Indices: 2342976--2343011 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2342966 TCGAAAGGAC
*
2342976 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
2342994 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
2343012 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:2344204 original size:24 final size:24
Alignment explanation
Indices: 2344109--2344210 Score: 111
Period size: 24 Copynumber: 4.2 Consensus size: 24
2344099 ATTTTCGATT
* *
2344109 TGATTTCTGATTTGATACTTGACA
1 TGATTTCTGATCTGATACTTGACC
*
2344133 TGGA-TTCTGATCTGATA-TCTGACT
1 T-GATTTCTGATCTGATACT-TGACC
*
2344157 TGGA-TTCTGATCTGTTACTTGACC
1 T-GATTTCTGATCTGATACTTGACC
*
2344181 TGATTTCTGATATGATACTTGACC
1 TGATTTCTGATCTGATACTTGACC
2344205 TGATTT
1 TGATTT
2344211 ATGTTTTGAT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
23 3 0.04
24 62 0.91
25 3 0.04
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.44
Consensus pattern (24 bp):
TGATTTCTGATCTGATACTTGACC
Found at i:2345143 original size:21 final size:21
Alignment explanation
Indices: 2345076--2345143 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
2345066 TTATCTTAAC
2345076 TATAATTTATATTA-ATATAGTA
1 TATAATTTATA--ACATATAGTA
* **
2345098 TATAGTTTATAA-ACTATACAA
1 TATAATTTATAACA-TATAGTA
*
2345119 TATAATTTATAACATATAGTT
1 TATAATTTATAACATATAGTA
2345140 TATA
1 TATA
2345144 TTAATATTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 2 0.05
21 24 0.65
22 11 0.30
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (21 bp):
TATAATTTATAACATATAGTA
Found at i:2345173 original size:31 final size:31
Alignment explanation
Indices: 2345117--2345186 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 31
2345107 TAAACTATAC
2345117 AATA-TAA-TTTATAACATATAGTTTATATT
1 AATATTAATTTTATAACATATAGTTTATATT
*
2345146 AATATTAATTTTATAGAC-TATATTTTATATT
1 AATATTAATTTTATA-ACATATAGTTTATATT
2345177 AATATTAATT
1 AATATTAATT
2345187 ACAAATTATA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
29 4 0.11
30 3 0.08
31 28 0.76
32 2 0.05
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (31 bp):
AATATTAATTTTATAACATATAGTTTATATT
Found at i:2345248 original size:34 final size:29
Alignment explanation
Indices: 2345139--2345278 Score: 91
Period size: 28 Copynumber: 4.9 Consensus size: 29
2345129 AACATATAGT
*
2345139 TTATATTAATATTAATTTTATAGACTAT-AT-T
1 TTATATTAATATTAA--TTATA-A-TATAATAA
* *
2345170 TTATATTAATATTAATTACAA-ATTATAAA
1 TTATATTAATATTAATTATAATATAAT-AA
* * *
2345199 CTATATT-ATGTTAA-TATAAGT-TAAT-G
1 TTATATTAATATTAATTATAA-TATAATAA
2345225 TTAATATTAATATTAATTATAATA-AATAA
1 TT-ATATTAATATTAATTATAATATAATAA
*
2345254 TTATTTTAATATTAATTATAA-ATAA
1 TTATATTAATATTAATTATAATATAA
2345279 CATTTTCTCC
Statistics
Matches: 87, Mismatches: 11, Indels: 25
0.71 0.09 0.20
Matches are distributed among these distances:
26 3 0.03
27 12 0.14
28 40 0.46
29 17 0.20
31 15 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (29 bp):
TTATATTAATATTAATTATAATATAATAA
Found at i:2348694 original size:10 final size:10
Alignment explanation
Indices: 2348676--2348746 Score: 52
Period size: 10 Copynumber: 7.1 Consensus size: 10
2348666 TATTTTCTTG
2348676 TTTAAATTAA
1 TTTAAATTAA
*
2348686 TTTAGATTAA
1 TTTAAATTAA
* * **
2348696 ATTAATTTTG
1 TTTAAATTAA
2348706 TTTAAATTAA
1 TTTAAATTAA
*
2348716 TTTAGATTAA
1 TTTAAATTAA
* * **
2348726 ATTAATTTTG
1 TTTAAATTAA
2348736 TTTAAATTAA
1 TTTAAATTAA
2348746 T
1 T
2348747 GTTTAGATTA
Statistics
Matches: 41, Mismatches: 20, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
10 41 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (10 bp):
TTTAAATTAA
Found at i:2348697 original size:15 final size:15
Alignment explanation
Indices: 2348677--2348761 Score: 116
Period size: 15 Copynumber: 5.5 Consensus size: 15
2348667 ATTTTCTTGT
2348677 TTAAATTAATTTAGA
1 TTAAATTAATTTAGA
* *
2348692 TTAAATTAATTTTGT
1 TTAAATTAATTTAGA
2348707 TTAAATTAATTTAGA
1 TTAAATTAATTTAGA
* *
2348722 TTAAATTAATTTTGT
1 TTAAATTAATTTAGA
2348737 TTAAATTAATGTTTAGA
1 TTAAATTAA--TTTAGA
2348754 TTAAATTA
1 TTAAATTA
2348762 TTGTTGTTTG
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
15 48 0.80
17 12 0.20
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (15 bp):
TTAAATTAATTTAGA
Found at i:2348709 original size:30 final size:30
Alignment explanation
Indices: 2348673--2348770 Score: 162
Period size: 30 Copynumber: 3.2 Consensus size: 30
2348663 AATTATTTTC
2348673 TTGTTTAAATTAATTTAGATTAAATTAATT
1 TTGTTTAAATTAATTTAGATTAAATTAATT
2348703 TTGTTTAAATTAATTTAGATTAAATTAATT
1 TTGTTTAAATTAATTTAGATTAAATTAATT
2348733 TTGTTTAAATTAATGTTTAGATTAAATT-ATT
1 TTGTTTAAATTAA--TTTAGATTAAATTAATT
2348764 GTTGTTT
1 -TTGTTT
2348771 GAAAAATTAT
Statistics
Matches: 65, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
30 43 0.66
31 3 0.05
32 19 0.29
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (30 bp):
TTGTTTAAATTAATTTAGATTAAATTAATT
Found at i:2358334 original size:11 final size:11
Alignment explanation
Indices: 2358315--2358349 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
2358305 TTAATAATAT
2358315 TATTATTTTTA
1 TATTATTTTTA
*
2358326 TATTCTTTTTA
1 TATTATTTTTA
2358337 TATTATTTATTA
1 TATTATTT-TTA
2358349 T
1 T
2358350 CATTTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (11 bp):
TATTATTTTTA
Found at i:2358371 original size:19 final size:19
Alignment explanation
Indices: 2358314--2358373 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
2358304 TTTAATAATA
2358314 TTAT-TATTTTTATATTC-T
1 TTATATATTTTTAT-TTCAT
*
2358332 TTTTATATTATTTATTATCAT
1 TTATATATT-TTTATT-TCAT
*
2358353 TTATATATTTCTATTTCAT
1 TTATATATTTTTATTTCAT
2358372 TT
1 TT
2358374 GCATTTCGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
18 3 0.09
19 11 0.31
20 12 0.34
21 9 0.26
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATATATTTTTATTTCAT
Found at i:2358746 original size:12 final size:12
Alignment explanation
Indices: 2358726--2358785 Score: 93
Period size: 12 Copynumber: 5.0 Consensus size: 12
2358716 ATAATGGTAG
*
2358726 ATTCGATCTAAT
1 ATTCAATCTAAT
2358738 ATTCAATCTAAT
1 ATTCAATCTAAT
**
2358750 ATTTGATCTAAT
1 ATTCAATCTAAT
2358762 ATTCAATCTAAT
1 ATTCAATCTAAT
2358774 ATTCAATCTAAT
1 ATTCAATCTAAT
2358786 GTTGATAGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.43
Consensus pattern (12 bp):
ATTCAATCTAAT
Found at i:2358940 original size:29 final size:29
Alignment explanation
Indices: 2358898--2358973 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
2358888 TCTTAGTTAT
2358898 ATTTTTATCTATTCTATTTTATTATATTA
1 ATTTTTATCTATTCTATTTTATTATATTA
2358927 ATTTTT-TGCTATTCTATTTTATTATATTA
1 ATTTTTAT-CTATTCTATTTTATTATATTA
* *
2358956 TATGTTATATTTATTCTA
1 -AT-TTTTATCTATTCTA
2358974 ATTATCTCTA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
28 1 0.02
29 27 0.66
30 2 0.05
31 10 0.24
32 1 0.02
ACGTcount: A:0.26, C:0.07, G:0.03, T:0.64
Consensus pattern (29 bp):
ATTTTTATCTATTCTATTTTATTATATTA
Found at i:2361557 original size:40 final size:40
Alignment explanation
Indices: 2361512--2361596 Score: 161
Period size: 40 Copynumber: 2.1 Consensus size: 40
2361502 ATTTTGAAAT
2361512 TTTGGTTATATTTGGGGACCAAAATTAAATTTTAATTAAA
1 TTTGGTTATATTTGGGGACCAAAATTAAATTTTAATTAAA
*
2361552 TTTGGTTATATTTGGGGACCAAAATTAATTTTTAATTAAA
1 TTTGGTTATATTTGGGGACCAAAATTAAATTTTAATTAAA
2361592 TTTGG
1 TTTGG
2361597 ACCCAAATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.45
Consensus pattern (40 bp):
TTTGGTTATATTTGGGGACCAAAATTAAATTTTAATTAAA
Found at i:2367219 original size:21 final size:20
Alignment explanation
Indices: 2367193--2367250 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
2367183 TCTCTTGATC
2367193 AAAGGATCGATCCCTTCACC-
1 AAAGGATCGATCCCTTC-CCT
*
2367213 AATAGGAACGATCCCTTTCCCT
1 AA-AGGATCGATCCC-TTCCCT
*
2367235 AAAAGATCGATCCCTT
1 AAAGGATCGATCCCTT
2367251 TCTTGCAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
20 4 0.12
21 23 0.72
22 5 0.16
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.24
Consensus pattern (20 bp):
AAAGGATCGATCCCTTCCCT
Found at i:2368898 original size:15 final size:15
Alignment explanation
Indices: 2368880--2368911 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2368870 TACAAAACTG
*
2368880 AAAAATGAAAATTTT
1 AAAAAAGAAAATTTT
2368895 AAAAAAGAAAATTTT
1 AAAAAAGAAAATTTT
2368910 AA
1 AA
2368912 TCTGAAAATT
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:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAAAAAGAAAATTTT
Found at i:2381367 original size:23 final size:22
Alignment explanation
Indices: 2381341--2381399 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 22
2381331 TTATATTTTA
2381341 TATTAATATATTAAAATAA-ATAT
1 TATTAAT-TATTAAAATAATAT-T
**
2381364 TATTTTTTTATTAAAATAATATT
1 TA-TTAATTATTAAAATAATATT
2381387 TATATAATTATTA
1 TAT-TAATTATTA
2381400 TTTATTTAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
22 1 0.03
23 23 0.79
24 5 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TATTAATTATTAAAATAATATT
Found at i:2383200 original size:21 final size:21
Alignment explanation
Indices: 2383174--2383267 Score: 154
Period size: 21 Copynumber: 4.5 Consensus size: 21
2383164 TATGCCATCT
*
2383174 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
2383195 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
2383216 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
2383237 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
2383258 CCGCAGGGTT
1 CCGCAGGGTT
2383268 TTATACCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.03
21 65 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.34, G:0.27, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:2387701 original size:35 final size:34
Alignment explanation
Indices: 2387616--2387702 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
2387606 ATTTGATATT
*
2387616 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
2387650 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
2387688 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
2387703 ACTAAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:2387945 original size:21 final size:21
Alignment explanation
Indices: 2387912--2387960 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
2387902 GACTCCTCGC
*
2387912 TGTCATCATCATCATCATCGT
1 TGTCATCACCATCATCATCGT
* *
2387933 TGTCGTCACCATCGTCATCGT
1 TGTCATCACCATCATCATCGT
*
2387954 CGTCATC
1 TGTCATC
2387961 GTCATCGTCG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.33, G:0.14, T:0.35
Consensus pattern (21 bp):
TGTCATCACCATCATCATCGT
Found at i:2387953 original size:15 final size:15
Alignment explanation
Indices: 2387935--2387969 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2387925 ATCATCGTTG
2387935 TCGTCACCATCGTCA
1 TCGTCACCATCGTCA
**
2387950 TCGTCGTCATCGTCA
1 TCGTCACCATCGTCA
2387965 TCGTC
1 TCGTC
2387970 GTCATCCTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.14, C:0.37, G:0.17, T:0.31
Consensus pattern (15 bp):
TCGTCACCATCGTCA
Found at i:2387970 original size:15 final size:15
Alignment explanation
Indices: 2387942--2387975 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
2387932 TTGTCGTCAC
2387942 CATCGTCATCGTCGT
1 CATCGTCATCGTCGT
2387957 CATCGTCATCGTCGT
1 CATCGTCATCGTCGT
2387972 CATC
1 CATC
2387976 CTGAGAAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.15, C:0.35, G:0.18, T:0.32
Consensus pattern (15 bp):
CATCGTCATCGTCGT
Found at i:2390011 original size:111 final size:111
Alignment explanation
Indices: 2389817--2390030 Score: 392
Period size: 111 Copynumber: 1.9 Consensus size: 111
2389807 ATTACAAAAA
* * * *
2389817 TTAATTTTTAATCTAATAATCATGCATTAAATGAATCAACTAATTATTACTAGTAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
2389882 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
2389928 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
2389993 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGT
2390031 ATAGATATAT
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 99 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
Found at i:2390394 original size:51 final size:50
Alignment explanation
Indices: 2390314--2390439 Score: 153
Period size: 51 Copynumber: 2.5 Consensus size: 50
2390304 GATATCCAGG
** * * * *
2390314 TATAGCGCGGATCAGGGGGCACGCTATACCCATGTGGCGCCAGATCACCG
1 TATAGCGCGGGGCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACCA
* *
2390364 TATATCGCGGGGGCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCAGCA
1 TATAGCGC-GGGGCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACCA
* *
2390415 TATAGCGCGGTGTAGGGGGCGCGCT
1 TATAGCGCGGGGCAGGGGGCGCGCT
2390440 TTCCTGCTAA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 22 0.34
51 42 0.66
ACGTcount: A:0.20, C:0.28, G:0.37, T:0.16
Consensus pattern (50 bp):
TATAGCGCGGGGCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACCA
Found at i:2391021 original size:15 final size:15
Alignment explanation
Indices: 2391001--2391033 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2390991 TGGCTACTTT
*
2391001 TTTTAATTAATTTAA
1 TTTTAACTAATTTAA
2391016 TTTTAACTAATTTAA
1 TTTTAACTAATTTAA
2391031 TTT
1 TTT
2391034 AATCAATGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTAACTAATTTAA
Found at i:2392096 original size:17 final size:18
Alignment explanation
Indices: 2392076--2392112 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
2392066 ATATTAACAC
2392076 AATGAAAAGATAA-GAAT
1 AATGAAAAGATAAGGAAT
*
2392093 AATGTAAAGATAAGGAAT
1 AATGAAAAGATAAGGAAT
2392111 AA
1 AA
2392113 CTTAGCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (18 bp):
AATGAAAAGATAAGGAAT
Found at i:2393136 original size:20 final size:22
Alignment explanation
Indices: 2393111--2393151 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2393101 GTACTATCTC
2393111 CTTGAA-T-CTTGCAATTTGTT
1 CTTGAATTACTTGCAATTTGTT
*
2393131 CTTGAATTACTTTCAATTTGT
1 CTTGAATTACTTGCAATTTGT
2393152 GTTGTGGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.22, C:0.15, G:0.12, T:0.51
Consensus pattern (22 bp):
CTTGAATTACTTGCAATTTGTT
Found at i:2396158 original size:16 final size:16
Alignment explanation
Indices: 2396128--2396157 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2396118 CTTTTATCAG
2396128 TTTTGACCTCTTTTTC
1 TTTTGACCTCTTTTTC
2396144 TTTTG-CCTCTTTTT
1 TTTTGACCTCTTTTT
2396158 TGAAATTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.03, C:0.23, G:0.07, T:0.67
Consensus pattern (16 bp):
TTTTGACCTCTTTTTC
Found at i:2407179 original size:30 final size:31
Alignment explanation
Indices: 2407144--2407201 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
2407134 TGCATGGTGT
2407144 GCAT-GGGGGGGGGGAGATCGGTGCATGCAC
1 GCATGGGGGGGGGGGAGATCGGTGCATGCAC
2407174 GCATGGGGGGGGGGGAGATCGGTGCATG
1 GCATGGGGGGGGGGGAGATCGGTGCATG
2407202 AATGGGGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.16, C:0.14, G:0.57, T:0.14
Consensus pattern (31 bp):
GCATGGGGGGGGGGGAGATCGGTGCATGCAC
Found at i:2407219 original size:19 final size:20
Alignment explanation
Indices: 2407185--2407268 Score: 129
Period size: 19 Copynumber: 4.3 Consensus size: 20
2407175 CATGGGGGGG
*
2407185 GGGGAGATCGGTGCATGAAT
1 GGGGAGATCGGTGCATGCAT
2407205 GGGGAGATC-GTGCATGC-T
1 GGGGAGATCGGTGCATGCAT
2407223 CGGGGAGATCGGTGCATGCAT
1 -GGGGAGATCGGTGCATGCAT
2407244 GGGGAGATC-GTGCATGCAT
1 GGGGAGATCGGTGCATGCAT
2407263 GGGGAG
1 GGGGAG
2407269 TGTGTAGGTC
Statistics
Matches: 60, Mismatches: 1, Indels: 7
0.88 0.01 0.10
Matches are distributed among these distances:
18 1 0.02
19 32 0.53
20 26 0.43
21 1 0.02
ACGTcount: A:0.20, C:0.14, G:0.46, T:0.19
Consensus pattern (20 bp):
GGGGAGATCGGTGCATGCAT
Found at i:2407231 original size:39 final size:39
Alignment explanation
Indices: 2407185--2407268 Score: 143
Period size: 39 Copynumber: 2.2 Consensus size: 39
2407175 CATGGGGGGG
2407185 GGGGAGATCGGTGCATGAATGGGGAGATCGTGCATGC-T
1 GGGGAGATCGGTGCATGAATGGGGAGATCGTGCATGCAT
*
2407223 CGGGGAGATCGGTGCATGCATGGGGAGATCGTGCATGCAT
1 -GGGGAGATCGGTGCATGAATGGGGAGATCGTGCATGCAT
2407263 GGGGAG
1 GGGGAG
2407269 TGTGTAGGTC
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
39 42 0.98
40 1 0.02
ACGTcount: A:0.20, C:0.14, G:0.46, T:0.19
Consensus pattern (39 bp):
GGGGAGATCGGTGCATGAATGGGGAGATCGTGCATGCAT
Found at i:2407379 original size:17 final size:17
Alignment explanation
Indices: 2407357--2407390 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2407347 GCCCAAACTT
2407357 TAACCCTATCCCTCATC
1 TAACCCTATCCCTCATC
2407374 TAACCCTATCCCTCATC
1 TAACCCTATCCCTCATC
2407391 ATGCATCCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.47, G:0.00, T:0.29
Consensus pattern (17 bp):
TAACCCTATCCCTCATC
Found at i:2407506 original size:21 final size:20
Alignment explanation
Indices: 2407480--2407524 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
2407470 AGGAGATTCC
*
2407480 TGCATCCGTAGCTACATGCAT
1 TGCATCCATAGCTACATG-AT
*
2407501 TGCATCCATAGCTGCATGAT
1 TGCATCCATAGCTACATGAT
2407521 TGCA
1 TGCA
2407525 GCGTTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (20 bp):
TGCATCCATAGCTACATGAT
Found at i:2407904 original size:21 final size:21
Alignment explanation
Indices: 2407879--2407922 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2407869 AATCTAGTTA
2407879 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
2407900 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
2407921 AT
1 AT
2407923 ATATTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:2407955 original size:8 final size:8
Alignment explanation
Indices: 2407942--2407966 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
2407932 TATATAAAAA
2407942 ATTAGTTT
1 ATTAGTTT
2407950 ATTAGTTT
1 ATTAGTTT
2407958 ATTAGTTT
1 ATTAGTTT
2407966 A
1 A
2407967 AGTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (8 bp):
ATTAGTTT
Found at i:2407995 original size:50 final size:50
Alignment explanation
Indices: 2407898--2408005 Score: 114
Period size: 50 Copynumber: 2.2 Consensus size: 50
2407888 TTAGTATAAA
* * * * *
2407898 TTATTAGTTTGTTAGTTTAAGTTATATATTATATTATATAAAAAATTAGT
1 TTATTAGTTTATTAGTTTAAGTTATATATAATATTAAAAAAAAAATTAAT
2407948 TTATTAGTTTATTAGTTTAAGTTAT-TA-AATA-TAAAAAAATATTAATTAAT
1 TTATTAGTTTATTAGTTTAAGTTATATATAATATTAAAAAAA-A--AATTAAT
*
2407998 TTGTTAGT
1 TTATTAGT
2408006 GTCTTTAAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
47 6 0.12
48 4 0.08
49 2 0.04
50 37 0.76
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (50 bp):
TTATTAGTTTATTAGTTTAAGTTATATATAATATTAAAAAAAAAATTAAT
Found at i:2408351 original size:14 final size:14
Alignment explanation
Indices: 2408332--2408358 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2408322 AGTAATTTAT
2408332 TATTTTTTGTTGTC
1 TATTTTTTGTTGTC
2408346 TATTTTTTGTTGT
1 TATTTTTTGTTGT
2408359 TGTGTATGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.04, G:0.15, T:0.74
Consensus pattern (14 bp):
TATTTTTTGTTGTC
Found at i:2408358 original size:17 final size:17
Alignment explanation
Indices: 2408329--2408361 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2408319 GTGAGTAATT
2408329 TATTATTTTTTGTTGTC
1 TATTATTTTTTGTTGTC
2408346 TATT-TTTTGTTGTTGT
1 TATTATTTT-TTGTTGT
2408362 GTATGTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.09, C:0.03, G:0.15, T:0.73
Consensus pattern (17 bp):
TATTATTTTTTGTTGTC
Found at i:2408498 original size:22 final size:23
Alignment explanation
Indices: 2408455--2408498 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
2408445 TATTGTGTTT
**
2408455 AAAAATATTTAGTGTTGTTTTAA
1 AAAAATATTTAGTGTTAATTTAA
*
2408478 AAAAATATTTTGT-TTAATTTA
1 AAAAATATTTAGTGTTAATTTA
2408499 TATTGTATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (23 bp):
AAAAATATTTAGTGTTAATTTAA
Found at i:2412230 original size:3 final size:3
Alignment explanation
Indices: 2412201--2412285 Score: 107
Period size: 3 Copynumber: 27.7 Consensus size: 3
2412191 TTGGGTTTTG
* *
2412201 TAA TAT TAA TAAA TAA TATA TAT TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
2412248 TAA TTA TAA TAA TTA TAA TTA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2412286 TAAATAACAT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
3 64 0.91
4 6 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:2412694 original size:113 final size:112
Alignment explanation
Indices: 2412516--2413414 Score: 1123
Period size: 113 Copynumber: 8.0 Consensus size: 112
2412506 TAGAGTCATT
* ** *
2412516 CAAAAGGTTGAATAAGCTCTTCTTATTATGAAC--TTTC-T-CTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCA
**** * * *
2412577 TTATGAACTTTCTCTGTAAAGGTTGATCCATTAAGTGATGAATTTGAA
66 TTATGAACTCGAACTGGAAAAGCTGATCCATTAA-TGATGAATTTGAA
* * * * *
2412625 CAAAGGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
2412690 TTATGAACTCGAAATGGAAAAGCAGATCCATCAAGTGATG-ATTTGGGA
66 TTATGAACTCGAACTGGAAAAGCTGATCCATTAA-TGATGAATTT-GAA
* *
2412738 -AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCCTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
2412802 TTATGAACTCGAACTGGAAAAACAT-ATCCATTGAATGATGGATTTGAG
66 TTATGAACTCGAACTGGAAAAGC-TGATCCATT-AATGATGAATTTGAA
* *
2412850 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTTTTCTTCTTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
2412915 TTATGAACTCGAACTGGAAAAGCTAATCCATTGAATGATGGATTTGAG
66 TTATGAACTCGAACTGGAAAAGCTGATCCATT-AATGATGAATTTGAA
* *
2412963 CAAAAGGTTGAACAAATTCTTCTGATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTTA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* **** * * *
2413028 TTATGGACTTTCTCTGGCAAAGCTGATCCATCAAATGATGAA-TTCAA
66 TTATGAACTCGAACTGGAAAAGCTGATCCAT-TAATGATGAATTTGAA
*
2413075 GCAAAATGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 -CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
2413140 ATTATGAACTCGAACTGGAAAAGCTAATCCATTGAATGATGGATTTGAG
65 ATTATGAACTCGAACTGGAAAAGCTGATCCATT-AATGATGAATTTGAA
* *
2413189 CAAAAGGTTGAACAAATTCTTCTGATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTTA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* **** * * *
2413254 TTATGGACTTTCTCTGGCAAAGCTGATCCATCAAATGATGAA-TTCAA
66 TTATGAACTCGAACTGGAAAAGCTGATCCAT-TAATGATGAATTTGAA
*
2413301 GCAAAAGGTTGAACAAATTCTTCTCATTGTGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 -CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
2413366 ATTATGAACTCGAACTGGAAAAGCTGATCCATTGAATGATGGATTTGAA
65 ATTATGAACTCGAACTGGAAAAGCTGATCCATT-AATGATGAATTTGAA
2413415 TCTTTGCTAA
Statistics
Matches: 684, Mismatches: 88, Indels: 31
0.85 0.11 0.04
Matches are distributed among these distances:
109 28 0.04
111 3 0.00
112 104 0.15
113 542 0.79
114 7 0.01
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (112 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCGAACTGGAAAAGCTGATCCATTAATGATGAATTTGAA
Found at i:2413067 original size:226 final size:226
Alignment explanation
Indices: 2412516--2413413 Score: 1312
Period size: 226 Copynumber: 4.0 Consensus size: 226
2412506 TAGAGTCATT
* ** *
2412516 CAAAAGGTTGAATAAGCTCTTCTTATTATGAAC--TTTC-T-CTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTGATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * * * *
2412577 TTATGAACTTTCTCT-GTAAAGGTTGATCCATTAAGTGATGAATTTGAA-CAAAGGGTTAAACAA
66 TTATGAACTTTCTCTGGCAAA-GCTGATCCATCAAATGATGAA-TTCAAGCAAAAGGTTGAACAA
* * * *
2412640 GTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAAT
129 ATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACT
* *
2412705 GGAAAAGC-AGATCCA-TCAAGTGAT-GATTTGGG
194 GGAAAAGCTA-ATCCATTGAA-TGATGGATTTGAG
* * * *
2412737 AAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCCTCTCA
1 CAAAAGGTTGAACAAATTCTTCTGATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCA
**** * * ** * **
2412802 TTATGAACTCGAACTGGAAAAACAT-ATCCATTGAATGATGGATTTGAGCAAAAGGTTGAACAAA
66 TTATGAACTTTCTCTGGCAAAGC-TGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
* *
2412866 TTCTTCTTATTATGAACTTTTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
130 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
2412931 GAAAAGCTAATCCATTGAATGATGGATTTGAG
195 GAAAAGCTAATCCATTGAATGATGGATTTGAG
*
2412963 CAAAAGGTTGAACAAATTCTTCTGATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTTA
1 CAAAAGGTTGAACAAATTCTTCTGATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
2413028 TTATGGACTTTCTCTGGCAAAGCTGATCCATCAAATGATGAATTCAAGCAAAATGTTGAACAAAT
66 TTATGAACTTTCTCTGGCAAAGCTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAAT
2413093 TCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
131 TCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
2413158 AAAAGCTAATCCATTGAATGATGGATTTGAG
196 AAAAGCTAATCCATTGAATGATGGATTTGAG
*
2413189 CAAAAGGTTGAACAAATTCTTCTGATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTTA
1 CAAAAGGTTGAACAAATTCTTCTGATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
2413254 TTATGGACTTTCTCTGGCAAAGCTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAAT
66 TTATGAACTTTCTCTGGCAAAGCTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAAT
*
2413319 TCTTCTCATTGTGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
131 TCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
*
2413384 AAAAGCTGATCCATTGAATGATGGATTTGA
196 AAAAGCTAATCCATTGAATGATGGATTTGA
2413414 ATCTTTGCTA
Statistics
Matches: 615, Mismatches: 51, Indels: 17
0.90 0.07 0.02
Matches are distributed among these distances:
221 28 0.05
223 3 0.00
224 4 0.01
225 138 0.22
226 442 0.72
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (226 bp):
CAAAAGGTTGAACAAATTCTTCTGATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTGGCAAAGCTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAAT
TCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
AAAAGCTAATCCATTGAATGATGGATTTGAG
Found at i:2413173 original size:339 final size:336
Alignment explanation
Indices: 2412516--2413406 Score: 1250
Period size: 339 Copynumber: 2.6 Consensus size: 336
2412506 TAGAGTCATT
* **
2412516 CAAAAGGTTGAATAAGCTCTTCTTATTATGAAC--TTTC-TCTTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTTTTCTTCTTCTTCAGATGAGTTCTTCTCAT
* * * * * * *
2412578 TATGAACTTTCTCTGTAAAGGTTGATCCATTAAGTGATGAATTTGAACAAAGGGTTAAACAAGTT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATTAA-TGATGAATTTGAGCAAAAGGTTGAACAAATT
* *
2412643 CTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAATGGA
130 CTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAATGGA
* ***
2412708 AAAGCAGATCCATCAAGTGATGATTTGGGAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
195 AAAGCAGATCCATCAAATGATGATTCAAGAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
2412773 TTCTTCCTTCTTCAGATGAGTTCCTCTCATTATGAACTCGAACTGGAAAAACATATCCATTGAAT
260 TTCTTCCTTCTTCAGATGAGTTCCTCTCATTATGAACTCGAACTGGAAAAACATATCCATTGAAT
2412838 GATGGATTTGAG
325 GATGGATTTGAG
2412850 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTTTTCTTCTTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTTTTCTTC-TTCTTCAGATGAGTTCTTCTCA
**** * *
2412915 TTATGAACTCGAACTGGAAAAGCTAATCCATTGAATGATGGATTTGAGCAAAAGGTTGAACAAAT
65 TTATGAACTTTCTCTGGAAAAGCTGATCCATT-AATGATGAATTTGAGCAAAAGGTTGAACAAAT
* * * *****
2412980 TCTTCTGATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGGACTTTCTCTGG
129 TCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAATGG
* * * *
2413045 CAAAGCTGATCCATCAAATGATGAATTCAAGCAAAATGTTGAACAAATTCTTCTCATTATGAACT
194 AAAAGCAGATCCATCAAATGATG-ATTCAAGAAAAAGGTTGAACAAATTCTTCTCATTATGAACT
* * *
2413110 TTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGC-TAATCCATTG
258 TCTTCTTCCTTCTTCAGATGAGTTCCTCTCATTATGAACTCGAACTGGAAAAACAT-ATCCATTG
2413174 AATGATGGATTTGAG
322 AATGATGGATTTGAG
* *
2413189 CAAAAGGTTGAACAAATTCTTCTGATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTTA
1 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTTTTCTT-CTTCTTCAGATGAGTTCTTCTCA
* * * **
2413254 TTATGGACTTTCTCTGGCAAAGCTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAAT
65 TTATGAACTTTCTCTGGAAAAGCTGATCCAT-TAATGATGAATTTGAGCAAAAGGTTGAACAAAT
* *
2413319 TCTTCTCATTGTGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
129 TCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAATGG
* **
2413384 AAAAGCTGATCCATTGAATGATG
194 AAAAGCAGATCCATCAAATGATG
2413407 GATTTGAATC
Statistics
Matches: 487, Mismatches: 61, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
334 30 0.06
336 4 0.01
337 2 0.00
338 147 0.30
339 303 0.62
340 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (336 bp):
CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTTTTCTTCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGCTGATCCATTAATGATGAATTTGAGCAAAAGGTTGAACAAATTC
TTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAATGGAA
AAGCAGATCCATCAAATGATGATTCAAGAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCT
TCTTCCTTCTTCAGATGAGTTCCTCTCATTATGAACTCGAACTGGAAAAACATATCCATTGAATG
ATGGATTTGAG
Found at i:2414226 original size:92 final size:92
Alignment explanation
Indices: 2414103--2414738 Score: 1060
Period size: 92 Copynumber: 6.9 Consensus size: 92
2414093 TTCATCTTTT
* *
2414103 AATTCCAATGATTGGTTCTGTGGTTCCTACCAAACCAGATCAGATAATTCAAAGAACACTTCCAG
1 AATT-CAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
* * **
2414168 AAGATGCTATTAGCACATTCCTCTTCCA
65 AAGATACTATGAGCACATTTATCTTCCA
2414196 AATTCAAT-ATCTGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
1 AATTCAATGAT-TGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
2414260 AAGATACTATGAGCACATTTATCTTCCA
65 AAGATACTATGAGCACATTTATCTTCCA
*
2414288 AATTCAATGATTGGTTCTGTGGTTCATACCAAACCAAATCAGATAACTCAAAGAACACTTCCAGA
1 AATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGA
2414353 AGATACTATGAGCACATTTATCTTCCA
66 AGATACTATGAGCACATTTATCTTCCA
* *
2414380 AATTCAATGATTGATTATGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGA
1 AATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGA
* * *
2414445 AGATGCTATTAGCACATTGCAT-TTCCA
66 AGATACTATGAGCACATT-TATCTTCCA
* *
2414472 AATTCAATAATTGGTTATGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGA
1 AATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGA
2414537 AGATACTATGAGCACATTTATCTTCCA
66 AGATACTATGAGCACATTTATCTTCCA
* *
2414564 AATTCAATGATTAGTTCTGTGGTTCATACCAAACCAAATCAGATAACTCAAAGAACACTTCCAGA
1 AATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGA
2414629 AGATACTATGAGCACATTTATCTTCCA
66 AGATACTATGAGCACATTTATCTTCCA
*
2414656 AATTCAATGATTGATTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGA
1 AATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGA
* *
2414721 AGATGCTATTAGCACATT
66 AGATACTATGAGCACATT
2414739 GCATTTGTTC
Statistics
Matches: 512, Mismatches: 27, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
91 4 0.01
92 500 0.98
93 8 0.02
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.28
Consensus pattern (92 bp):
AATTCAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGA
AGATACTATGAGCACATTTATCTTCCA
Found at i:2414601 original size:276 final size:276
Alignment explanation
Indices: 2414103--2414744 Score: 1180
Period size: 276 Copynumber: 2.3 Consensus size: 276
2414093 TTCATCTTTT
* * *
2414103 AATTCCAATGATTGGTTCTGTGGTTCCTACCAAACCAGATCAGATAATTCAAAGAACACTTCCAG
1 AATT-CAATGATTGATTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
* *
2414168 AAGATGCTATTAGCACATT-CCTCTTCCAAATTCAATATCTGGTTCTGTGGTTCATACCAAACCA
65 AAGATGCTATTAGCACATTGCAT-TTCCAAATTCAATATCTGGTTATGTGGTTCATACCAAACCA
2414232 GATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCACATTTATCTTCCAAATTCAATG
129 GATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCACATTTATCTTCCAAATTCAATG
*
2414297 ATTGGTTCTGTGGTTCATACCAAACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATACTAT
194 ATTAGTTCTGTGGTTCATACCAAACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATACTAT
2414362 GAGCACATTTATCTTCCA
259 GAGCACATTTATCTTCCA
*
2414380 AATTCAATGATTGATTATGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGA
1 AATTCAATGATTGATTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGA
2414445 AGATGCTATTAGCACATTGCATTTCCAAATTCAATAAT-TGGTTATGTGGTTCATACCAAACCAG
66 AGATGCTATTAGCACATTGCATTTCCAAATTCAAT-ATCTGGTTATGTGGTTCATACCAAACCAG
2414509 ATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCACATTTATCTTCCAAATTCAATGA
130 ATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCACATTTATCTTCCAAATTCAATGA
2414574 TTAGTTCTGTGGTTCATACCAAACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATACTATG
195 TTAGTTCTGTGGTTCATACCAAACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATACTATG
2414639 AGCACATTTATCTTCCA
260 AGCACATTTATCTTCCA
2414656 AATTCAATGATTGATTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGA
1 AATTCAATGATTGATTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGA
2414721 AGATGCTATTAGCACATTGCATTT
66 AGATGCTATTAGCACATTGCATTT
2414745 GTTCCAGTTA
Statistics
Matches: 355, Mismatches: 8, Indels: 5
0.96 0.02 0.01
Matches are distributed among these distances:
276 347 0.98
277 8 0.02
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (276 bp):
AATTCAATGATTGATTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGA
AGATGCTATTAGCACATTGCATTTCCAAATTCAATATCTGGTTATGTGGTTCATACCAAACCAGA
TCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCACATTTATCTTCCAAATTCAATGAT
TAGTTCTGTGGTTCATACCAAACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGA
GCACATTTATCTTCCA
Found at i:2415778 original size:16 final size:16
Alignment explanation
Indices: 2415742--2415779 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2415732 TGGATTTTCG
2415742 AAAATAAATTGAATCT
1 AAAATAAATTGAATCT
*
2415758 CAAATAAATTGAA-CTT
1 AAAATAAATTGAATC-T
2415774 AAAATA
1 AAAATA
2415780 GATAGAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 1 0.05
16 18 0.95
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.29
Consensus pattern (16 bp):
AAAATAAATTGAATCT
Found at i:2416110 original size:6 final size:6
Alignment explanation
Indices: 2416099--2416181 Score: 87
Period size: 6 Copynumber: 13.0 Consensus size: 6
2416089 CTTGACCCCC
*
2416099 CTTTTT CTTTTT CTTTTTT CTTTTCT CTTTTTT CTTTCTT CTTTCT CTTTTT
1 CTTTTT CTTTTT C-TTTTT CTTTT-T C-TTTTT CTTT-TT CTTTTT CTTTTT
*
2416151 CTTTTT CTTTTT -TTCTCTT TTTTTT CTTTTT
1 CTTTTT CTTTTT CTT-T-TT CTTTTT CTTTTT
2416182 TTTCTTCTCT
Statistics
Matches: 67, Mismatches: 3, Indels: 14
0.80 0.04 0.17
Matches are distributed among these distances:
5 2 0.03
6 40 0.60
7 19 0.28
8 6 0.09
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
CTTTTT
Found at i:2416129 original size:20 final size:20
Alignment explanation
Indices: 2416099--2416186 Score: 92
Period size: 20 Copynumber: 4.3 Consensus size: 20
2416089 CTTGACCCCC
2416099 CTTTT-TCTTTTTCTTTTTT
1 CTTTTCTCTTTTTCTTTTTT
*
2416118 CTTTTCTCTTTTTTCTTTCTT
1 CTTTTCTC-TTTTTCTTTTTT
2416139 C-TTTCTCTTTTTCTTTTTCTT
1 CTTTTCTCTTTTTC-TTTT-TT
*
2416160 TTTTTCTCTTTTT-TTTCTTT
1 CTTTTCTCTTTTTCTTT-TTT
*
2416180 TTTTTCT
1 CTTTTCT
2416187 TCTCTTCAAG
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
19 11 0.18
20 23 0.38
21 15 0.25
22 11 0.18
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (20 bp):
CTTTTCTCTTTTTCTTTTTT
Found at i:2416133 original size:9 final size:9
Alignment explanation
Indices: 2416119--2416187 Score: 58
Period size: 9 Copynumber: 8.0 Consensus size: 9
2416109 TTCTTTTTTC
2416119 TTTTCTCTT
1 TTTTCTCTT
2416128 TTTTCT-TT
1 TTTTCTCTT
*
2416136 CTTCTT-TCTC
1 -TT-TTCTCTT
2416146 TTTT-TC-T
1 TTTTCTCTT
2416153 TTTTCT-TT
1 TTTTCTCTT
2416161 TTTTCTCTT
1 TTTTCTCTT
*
2416170 TTTTTTCTT
1 TTTTCTCTT
*
2416179 TTTTTTCTT
1 TTTTCTCTT
2416188 CTCTTCAAGC
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
7 4 0.08
8 14 0.27
9 30 0.59
10 3 0.06
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTCTCTT
Found at i:2416177 original size:40 final size:40
Alignment explanation
Indices: 2416099--2416179 Score: 80
Period size: 37 Copynumber: 2.1 Consensus size: 40
2416089 CTTGACCCCC
* * *
2416099 CTTT-TTCTTTTTCTTTTTTCTTTTCTCTTTTTTCTTTCTT
1 CTTTCTTCTTTTTC-TTTTTCTTTTTTCTTTTCTCTTTTTT
* *
2416139 CTTTC-TCTTTTTCTTTTTC-TTTTT-TTCTCTTTTTTTT
1 CTTTCTTCTTTTTCTTTTTCTTTTTTCTTTTCTCTTTTTT
2416176 CTTT
1 CTTT
2416180 TTTTTCTTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
37 13 0.37
38 4 0.11
39 6 0.17
40 12 0.34
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (40 bp):
CTTTCTTCTTTTTCTTTTTCTTTTTTCTTTTCTCTTTTTT
Found at i:2416192 original size:14 final size:14
Alignment explanation
Indices: 2416100--2416178 Score: 51
Period size: 15 Copynumber: 5.6 Consensus size: 14
2416090 TTGACCCCCC
*
2416100 TTTTTCTTTTTCTTT
1 TTTTTC-TTCTCTTT
2416115 TTTCTT-TTCTCTTTT
1 TTT-TTCTTCTC-TTT
2416130 TTCTTTCTTCT-TTCT
1 TT-TTTCTTCTCTT-T
*
2416145 CTTTTTCTT-T-TTC
1 -TTTTTCTTCTCTTT
2416158 TTTTT-TTCTCTTT
1 TTTTTCTTCTCTTT
2416171 TTTTTCTT
1 TTTTTCTT
2416179 TTTTTTCTTC
Statistics
Matches: 52, Mismatches: 3, Indels: 19
0.70 0.04 0.26
Matches are distributed among these distances:
11 2 0.04
12 6 0.12
13 7 0.13
14 11 0.21
15 17 0.33
16 9 0.17
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTCTTCTCTTT
Found at i:2428916 original size:17 final size:16
Alignment explanation
Indices: 2428894--2428925 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
2428884 GGGTTTTGTA
2428894 ATATTAATAAATAATAT
1 ATATTAAT-AATAATAT
2428911 ATATTAATAATAATA
1 ATATTAATAATAATA
2428926 ATTATTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATATTAATAATAATAT
Found at i:2428921 original size:3 final size:3
Alignment explanation
Indices: 2428892--2428952 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
2428882 TTGGGTTTTG
* * * * *
2428892 TAA TAT TAA TAAA TAA TATA TAT TAA TAA TAA TAA TTA TTA TTA TAA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
2428939 TAA TCA TAA TAA TA
1 TAA TAA TAA TAA TA
2428953 TAAATAACAT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
3 42 0.88
4 6 0.12
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:2430537 original size:17 final size:18
Alignment explanation
Indices: 2430511--2430545 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
2430501 AATGATTAGT
2430511 AATTATTAATAATAATGA
1 AATTATTAATAATAATGA
2430529 AATTA-TAATAATAATGA
1 AATTATTAATAATAATGA
2430546 TTTACTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (18 bp):
AATTATTAATAATAATGA
Found at i:2430762 original size:12 final size:11
Alignment explanation
Indices: 2430741--2431047 Score: 98
Period size: 14 Copynumber: 24.6 Consensus size: 11
2430731 AATAATCATT
2430741 ATAATGATTTA
1 ATAATGATTTA
2430752 ATAATGAATTTA
1 ATAATG-ATTTA
* * * *
2430764 ATATTTAATGA
1 ATAATGATTTA
* *
2430775 TTTGATGATTTA
1 -ATAATGATTTA
*
2430787 GTAATGATATGATA
1 ATAATGAT-T--TA
*
2430801 ATAATCATTATA
1 ATAATGATT-TA
2430813 ATAATGATTTGATA
1 ATAATGA-TT--TA
*
2430827 ATAATCATTATA
1 ATAATGATT-TA
2430839 ATAATGATTTAGTA
1 ATAATGA-TT--TA
*
2430853 ATAATCATTATA
1 ATAATGATT-TA
*
2430865 ATAATAATTTA
1 ATAATGATTTA
2430876 ATAATGATTT-
1 ATAATGATTTA
2430886 A-AAT-ATTTA
1 ATAATGATTTA
2430895 ATGATTTGATGATTTA
1 AT-A----ATGATTTA
*
2430911 GTAATGATTTGA
1 ATAATGATTT-A
*
2430923 TACTAATCATTATA
1 -A-TAATGATT-TA
2430937 ATAATGATTTGATA
1 ATAATGA-TT--TA
*
2430951 ATAATCATTATA
1 ATAATGATT-TA
2430963 ATAATGATTTAATA
1 ATAATGA-TT--TA
*
2430977 ATAATCATTATA
1 ATAATGATT-TA
2430989 ATAATGATTTAATA
1 ATAATGA-TT--TA
2431003 ATAATGATTTGA
1 ATAATGATTT-A
2431015 TAGTAATGATTTA
1 -A-TAATGATTTA
*
2431028 GTAATGATTAGTA
1 ATAATGATT--TA
2431041 ATAATGA
1 ATAATGA
2431048 AATTATTATT
Statistics
Matches: 232, Mismatches: 32, Indels: 62
0.71 0.10 0.19
Matches are distributed among these distances:
8 4 0.02
9 4 0.02
10 1 0.00
11 43 0.19
12 68 0.29
13 32 0.14
14 70 0.30
15 4 0.02
16 6 0.03
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.43
Consensus pattern (11 bp):
ATAATGATTTA
Found at i:2430818 original size:26 final size:26
Alignment explanation
Indices: 2430788--2431026 Score: 258
Period size: 26 Copynumber: 9.3 Consensus size: 26
2430778 GATGATTTAG
*
2430788 TAATGATATGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
2430814 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
2430840 TAATGATTT-AGTAATAATCATTATAA
1 TAATGATTTGA-TAATAATCATTATAA
* * *
2430866 TAATAATTTAATAATGAT--TTA-AA
1 TAATGATTTGATAATAATCATTATAA
* * * * * * *
2430889 TATTTA-ATGAT-TTGATGATT-TAG
1 TAATGATTTGATAATAATCATTATAA
*
2430912 TAATGATTTGATACTAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
2430938 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
*
2430964 TAATGATTTAATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
* * *
2430990 TAATGATTTAATAATAATGATTTGATAG
1 TAATGATTTGATAATAATCA-TT-ATAA
2431018 TAATGATTT
1 TAATGATTT
2431027 AGTAATGATT
Statistics
Matches: 183, Mismatches: 20, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
21 4 0.02
22 3 0.02
23 13 0.07
24 7 0.04
25 7 0.04
26 134 0.73
27 3 0.02
28 12 0.07
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.44
Consensus pattern (26 bp):
TAATGATTTGATAATAATCATTATAA
Found at i:2430881 original size:124 final size:124
Alignment explanation
Indices: 2430715--2431004 Score: 480
Period size: 124 Copynumber: 2.4 Consensus size: 124
2430705 TCAATTAACC
* * *
2430715 ATAAAAATTATTTGATAATAATCA-T-T-ATAATGATTTAATAATGAATTT-AATATTTAATGAT
1 ATAATAATGATTTAATAATAATCATTATAATAATGATTTAATAATG-ATTTAAATATTTAATGAT
2430776 TTGATGATTTAGTAATGATATGATAATAATCATTATAATAATGATTTGATAATAATCATT
65 TTGATGATTTAGTAATGATATGATAATAATCATTATAATAATGATTTGATAATAATCATT
* *
2430836 ATAATAATGATTTAGTAATAATCATTATAATAATAATTTAATAATGATTTAAATATTTAATGATT
1 ATAATAATGATTTAATAATAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGATT
* *
2430901 TGATGATTTAGTAATGATTTGATACTAATCATTATAATAATGATTTGATAATAATCATT
66 TGATGATTTAGTAATGATATGATAATAATCATTATAATAATGATTTGATAATAATCATT
2430960 ATAATAATGATTTAATAATAATCATTATAATAATGATTTAATAAT
1 ATAATAATGATTTAATAATAATCATTATAATAATGATTTAATAAT
2431005 AATGATTTGA
Statistics
Matches: 156, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
121 20 0.13
122 1 0.01
123 5 0.03
124 130 0.83
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (124 bp):
ATAATAATGATTTAATAATAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGATT
TGATGATTTAGTAATGATATGATAATAATCATTATAATAATGATTTGATAATAATCATT
Found at i:2431025 original size:14 final size:13
Alignment explanation
Indices: 2430788--2431032 Score: 173
Period size: 14 Copynumber: 18.1 Consensus size: 13
2430778 GATGATTTAG
*
2430788 TAATGATATGATAA
1 TAATGAT-TTATAA
*
2430802 TAATCA-TTATAA
1 TAATGATTTATAA
2430814 TAATGATTTGATAA
1 TAATGATTT-ATAA
*
2430828 TAATCA-TTATAA
1 TAATGATTTATAA
2430840 TAATGATTTAGTAA
1 TAATGATTTA-TAA
*
2430854 TAATCA-TTATAA
1 TAATGATTTATAA
*
2430866 TAAT-AATT-TAA
1 TAATGATTTATAA
*
2430877 TAATGATTTAAATATT
1 TAATGATTT--ATA-A
2430893 TAATGATTTGATGATTTA
1 TAATGATTT-AT-A---A
*
2430911 GTAATGATTTGATAC
1 -TAATGATTT-ATAA
*
2430926 TAATCA-TTATAA
1 TAATGATTTATAA
2430938 TAATGATTTGATAA
1 TAATGATTT-ATAA
*
2430952 TAATCA-TTATAA
1 TAATGATTTATAA
2430964 TAATGATTTAATAA
1 TAATGATTT-ATAA
*
2430978 TAATCA-TTATAA
1 TAATGATTTATAA
2430990 TAATGATTTAATAA
1 TAATGATTT-ATAA
*
2431004 TAATGATTTGATAG
1 TAATGATTT-ATAA
2431018 TAATGATTTAGTAA
1 TAATGATTTA-TAA
2431032 T
1 T
2431033 GATTAGTAAT
Statistics
Matches: 189, Mismatches: 21, Indels: 42
0.75 0.08 0.17
Matches are distributed among these distances:
11 8 0.04
12 57 0.30
13 23 0.12
14 73 0.39
15 4 0.02
16 10 0.05
18 2 0.01
19 12 0.06
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (13 bp):
TAATGATTTATAA
Found at i:2431069 original size:22 final size:22
Alignment explanation
Indices: 2431042--2431087 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
2431032 TGATTAGTAA
2431042 TAATGAAATTATTATTAAT-ATT
1 TAATGAAATTA-TATTAATGATT
**
2431064 TAATGATTTTATATTAATGATT
1 TAATGAAATTATATTAATGATT
2431086 TA
1 TA
2431088 GTAATGATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (22 bp):
TAATGAAATTATATTAATGATT
Found at i:2431148 original size:10 final size:10
Alignment explanation
Indices: 2431135--2431219 Score: 58
Period size: 10 Copynumber: 8.7 Consensus size: 10
2431125 AATGATTTGA
2431135 TAGTAATGAT
1 TAGTAATGAT
2431145 TAGTAATGAT
1 TAGTAATGAT
2431155 TAGTAAT-A-
1 TAGTAATGAT
*
2431163 -A-TAATTTAT
1 TAGTAA-TGAT
*
2431172 TATTAAT-AT
1 TAGTAATGAT
2431181 T--TAATGATTT
1 TAGTAATGA--T
2431191 GATAGTAATGAT
1 --TAGTAATGAT
2431203 TAGTAATGAT
1 TAGTAATGAT
2431213 TAGTAAT
1 TAGTAAT
2431220 AATAATTTAT
Statistics
Matches: 63, Mismatches: 0, Indels: 24
0.72 0.00 0.28
Matches are distributed among these distances:
6 3 0.05
7 6 0.10
8 2 0.03
9 4 0.06
10 37 0.59
11 3 0.05
12 2 0.03
14 6 0.10
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:2431189 original size:58 final size:59
Alignment explanation
Indices: 2431004--2431390 Score: 591
Period size: 58 Copynumber: 6.5 Consensus size: 59
2430994 GATTTAATAA
2431004 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
1 TAATGATTTGATAGTAATGA-TTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
* * ** * *
2431064 TAATGATTTTATATTAATGATTTAGTAATGATTAACAATAATAAAATTATTATTAATTTT
1 TAATGATTTGATAGTAATGA-TTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
*
2431124 TAATGATTTGATAGTAATGATTAGTAATGATTAGTAATAAT-AATTTATTATTAATATT
1 TAATGATTTGATAGTAATGATTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
*
2431182 TAATGATTTGATAGTAATGATTAGTAATGATTAGTAATAAT-AATTTATTATTAATATT
1 TAATGATTTGATAGTAATGATTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
* * *
2431240 TAATGATTTGATACTAATGTTTGAATAATGATTAGTAATAATGAAATTATTATTAATATT
1 TAATGATTTGATAGTAATGATT-AGTAATGATTAGTAATAATGAAATTATTATTAATATT
*
2431300 TAATGATTTGATAGTAATGATTAGTAATGATTAGTAATAAT-AATTTATTATTAATATT
1 TAATGATTTGATAGTAATGATTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
* *
2431358 TAATGATTTGATATTAATGATTTAGTAGTGATT
1 TAATGATTTGATAGTAATGA-TTAGTAATGATT
2431391 TGATAGTAAT
Statistics
Matches: 302, Mismatches: 22, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
58 128 0.42
59 66 0.22
60 108 0.36
ACGTcount: A:0.41, C:0.01, G:0.12, T:0.47
Consensus pattern (59 bp):
TAATGATTTGATAGTAATGATTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
Found at i:2431200 original size:118 final size:118
Alignment explanation
Indices: 2431004--2431390 Score: 627
Period size: 118 Copynumber: 3.3 Consensus size: 118
2430994 GATTTAATAA
2431004 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
1 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
* * ** * *
2431069 ATTTTATATTAATGATTTAGTAATGATTAACAATAATAAAATTATTATTAATTTT
66 ATTTGATAGTAATGA-TTAGTAATGATTAGTAATAAT-AATTTATTATTAATATT
*
2431124 TAATGATTTGATAGTAATGA-TTAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATG
1 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
2431187 ATTTGATAGTAATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATT
66 ATTTGATAGTAATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATT
* *
2431240 TAATGATTTGATACTAATG-TTTGAATAATGATTAGTAATAATGAAATTATTATTAATATTTAAT
1 TAATGATTTGATAGTAATGATTT-AGTAATGATTAGTAATAATGAAATTATTATTAATATTTAAT
2431304 GATTTGATAGTAATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATT
65 GATTTGATAGTAATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATT
* *
2431358 TAATGATTTGATATTAATGATTTAGTAGTGATT
1 TAATGATTTGATAGTAATGATTTAGTAATGATT
2431391 TGATAGTAAT
Statistics
Matches: 250, Mismatches: 13, Indels: 10
0.92 0.05 0.04
Matches are distributed among these distances:
116 35 0.14
117 37 0.15
118 134 0.54
119 24 0.10
120 20 0.08
ACGTcount: A:0.41, C:0.01, G:0.12, T:0.47
Consensus pattern (118 bp):
TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
ATTTGATAGTAATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATT
Found at i:2431273 original size:176 final size:178
Alignment explanation
Indices: 2431004--2431581 Score: 673
Period size: 176 Copynumber: 3.1 Consensus size: 178
2430994 GATTTAATAA
2431004 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
1 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
* * * *
2431069 ATTTTATATTAATGATTTAGTAATGATTAACAATAATAAAATTATTATTAATTTTTAATGATTTG
66 ATTTGATACTAATGATTTAATAATGATTAACAATAATAAAATTATTATTAATATTTAATGATTTG
2431134 ATAGTAATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATT
131 ATAGTAATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATT
*
2431182 TAATGATTTGATAGTAATGA-TTAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATG
1 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
** *
2431245 ATTTGATACTAATG-TTTGAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTT
66 ATTTGATACTAATGATTT-AATAATGATTAACAATAATAAAATTATTATTAATATTTAATGATTT
2431309 GATAGTAATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATT
130 GATAGTAATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATT
* * * * * *
2431358 TAATGATTTGATATTAATGATTTAGTAGTGATTTGATAGTAATGATTTAGTAATGATTAGTAATA
1 TAATGATTTGATAGTAATGATTTAGTAATGA--T--TAGTAAT-A-AT-GAAATTATTATTAAT-
** * * * *
2431423 ATGAAATTATTATTAATATTTAATGATTTGATAATAATGATTAGTAATGATTAGTAATAATGAAA
58 ATTTAATGA-T-TTGATA-CTAATGA-TT--TAATAATGA-T--TAA-CA--A-TAATA---AAA
* *
2431488 TTATTATTAATATTTAATGATTTGATATTAATGATATAGTAATGATTAGTAATAATGAAATTATT
107 TTATTATTAATATTTAATGATTTGATAGTAATGAT-TAGTAATGATTAGTAATAAT-AATTTATT
2431553 ATTAATATT
170 ATTAATATT
2431562 TAATGA-TT--TAGTAATGATTT
1 TAATGATTTGATAGTAATGATTT
2431582 GTTAAGGTTT
Statistics
Matches: 344, Mismatches: 26, Indels: 37
0.85 0.06 0.09
Matches are distributed among these distances:
175 3 0.01
176 142 0.41
177 30 0.09
178 20 0.06
179 1 0.00
181 7 0.02
182 1 0.00
183 1 0.00
185 10 0.03
186 6 0.02
187 1 0.00
188 5 0.01
189 5 0.01
191 2 0.01
192 8 0.02
193 2 0.01
195 2 0.01
196 1 0.00
198 1 0.00
199 4 0.01
201 11 0.03
202 37 0.11
203 22 0.06
204 22 0.06
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (178 bp):
TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
ATTTGATACTAATGATTTAATAATGATTAACAATAATAAAATTATTATTAATATTTAATGATTTG
ATAGTAATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATT
Found at i:2431326 original size:10 final size:10
Alignment explanation
Indices: 2431311--2431337 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
2431301 AATGATTTGA
2431311 TAGTAATGAT
1 TAGTAATGAT
2431321 TAGTAATGAT
1 TAGTAATGAT
2431331 TAGTAAT
1 TAGTAAT
2431338 AATAATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:2431374 original size:14 final size:14
Alignment explanation
Indices: 2431358--2431405 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
2431348 TATTAATATT
*
2431358 TAATGATTTGATAT
1 TAATGATTTGATAG
2431372 TAATGA-TT--TAG
1 TAATGATTTGATAG
*
2431383 TAGTGATTTGATAG
1 TAATGATTTGATAG
2431397 TAATGATTT
1 TAATGATTT
2431406 AGTAATGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
11 7 0.25
12 2 0.07
13 2 0.07
14 17 0.61
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:2431390 original size:25 final size:25
Alignment explanation
Indices: 2431358--2431415 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
2431348 TATTAATATT
*
2431358 TAATGATTTGATATTAATGATTTAG
1 TAATGATTTGATAGTAATGATTTAG
*
2431383 TAGTGATTTGATAGTAATGATTTAG
1 TAATGATTTGATAGTAATGATTTAG
2431408 TAATGATT
1 TAATGATT
2431416 AGTAATAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (25 bp):
TAATGATTTGATAGTAATGATTTAG
Found at i:2431391 original size:11 final size:11
Alignment explanation
Indices: 2431372--2431421 Score: 57
Period size: 11 Copynumber: 4.4 Consensus size: 11
2431362 GATTTGATAT
2431372 TAATGATTTAG
1 TAATGATTTAG
*
2431383 TAGTGATTTGATAG
1 TAATGA-TT--TAG
2431397 TAATGATTTAG
1 TAATGATTTAG
2431408 TAATGA-TTAG
1 TAATGATTTAG
2431418 TAAT
1 TAAT
2431422 AATGAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
10 8 0.24
11 14 0.41
12 2 0.06
13 2 0.06
14 8 0.24
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (11 bp):
TAATGATTTAG
Found at i:2431401 original size:143 final size:144
Alignment explanation
Indices: 2431240--2431534 Score: 513
Period size: 143 Copynumber: 2.1 Consensus size: 144
2431230 TATTAATATT
2431240 TAATGATTTGATACTAATG-TTTGAATAATGATTAGTAATAATGAAATTATTATTAATATTTAAT
1 TAATGATTTGATACTAATGATTT-AATAATGATTAGTAATAATGAAATTATTATTAATATTTAAT
* *
2431304 GATTTGATAGTAATGATTAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTG
65 GATTTGATAATAATGATTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTG
*
2431368 ATATTAATGATTTAG
130 ATATTAATGATATAG
* * *
2431383 TAGTGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
1 TAATGATTTGATACTAATGATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
2431448 ATTTGATAATAATGATTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
66 ATTTGATAATAATGATTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
2431513 TATTAATGATATAG
131 TATTAATGATATAG
2431527 TAATGATT
1 TAATGATT
2431535 AGTAATAATG
Statistics
Matches: 143, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
143 93 0.65
144 50 0.35
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.45
Consensus pattern (144 bp):
TAATGATTTGATACTAATGATTTAATAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
ATTTGATAATAATGATTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
TATTAATGATATAG
Found at i:2431461 original size:60 final size:60
Alignment explanation
Indices: 2431386--2431570 Score: 336
Period size: 60 Copynumber: 3.1 Consensus size: 60
2431376 GATTTAGTAG
*
2431386 TGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAA
1 TGATTTGATAATAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAA
2431446 TGATTTGATAATAATGA-TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAA
1 TGATTTGATAATAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAA
* *
2431505 TGATTTGATATTAATGATATAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAA
1 TGATTTGATAATAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAA
2431565 TGATTT
1 TGATTT
2431571 AGTAATGATT
Statistics
Matches: 121, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
59 58 0.48
60 63 0.52
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (60 bp):
TGATTTGATAATAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAA
Found at i:2431498 original size:18 final size:18
Alignment explanation
Indices: 2431472--2431559 Score: 52
Period size: 18 Copynumber: 4.6 Consensus size: 18
2431462 ATTAGTAATG
*
2431472 ATTAGTAATAATGAAATT
1 ATTATTAATAATGAAATT
* *
2431490 ATTATTAATATTTAATGATT
1 ATTATTAATAATGAA--ATT
* *
2431510 -TGATATTAATGATATAGTAATG
1 AT--TATTAAT-A-AT-GAAATT
*
2431532 ATTAGTAATAATGAAATT
1 ATTATTAATAATGAAATT
2431550 ATTATTAATA
1 ATTATTAATA
2431560 TTTAATGATT
Statistics
Matches: 51, Mismatches: 11, Indels: 16
0.65 0.14 0.21
Matches are distributed among these distances:
18 25 0.49
19 3 0.06
20 4 0.08
21 13 0.25
22 3 0.06
23 2 0.04
24 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.44
Consensus pattern (18 bp):
ATTATTAATAATGAAATT
Found at i:2432485 original size:23 final size:23
Alignment explanation
Indices: 2432459--2432503 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2432449 AAAATTACAA
*
2432459 AAATAATAAAATTTATTTAAATC
1 AAATAATAAAATTAATTTAAATC
* *
2432482 AAATAATATAGTTAATTTAAAT
1 AAATAATAAAATTAATTTAAAT
2432504 AATAATTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
AAATAATAAAATTAATTTAAATC
Done.