Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008375.1 Hibiscus syriacus cultivar Beakdansim tig00111132_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: 1210889
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 7
Found at i:738773 original size:24 final size:23
Alignment explanation
Indices: 738701--738781 Score: 87
Period size: 24 Copynumber: 3.6 Consensus size: 23
738691 GCATGGTCTT
*
738701 ATGCATCGATGCACATTCAAGGT
1 ATGCATCGATGCACATTCAAGGG
* *
738724 ATGCATCGGTG--CA-TCATGCGG
1 ATGCATCGATGCACATTCAAG-GG
738745 ATGCATCGATGCACATTCAAAGGG
1 ATGCATCGATGCACATTC-AAGGG
*
738769 ATGCATCGGTGCA
1 ATGCATCGATGCA
738782 TTAAGCACAA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
20 4 0.09
21 13 0.28
23 12 0.26
24 16 0.34
25 2 0.04
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (23 bp):
ATGCATCGATGCACATTCAAGGG
Found at i:744645 original size:64 final size:62
Alignment explanation
Indices: 744573--744735 Score: 186
Period size: 64 Copynumber: 2.5 Consensus size: 62
744563 CGGTGCACTA
* *
744573 AGAGTGCATCGATGCATGAAGTGCATTCGATGTTTAAA-AAAT-AGCCTGGTGCATCGATGCATG
1 AGAGTGCATCGATGCATGAA-TGCATTCGATGTTTAAATAAATCAG---AGTGCATCGATGCAGG
744636 G
62 G
** *
744637 ATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAAATAAATCAGAGTGCATCGATGCAGGG
1 AGAGTGCATCGATGCAT-GAATGCATTCGATG-TTTAAATAAATCAGAGTGCATCGATGCAGGG
* *
744701 AGAGTGCATCGGTACATGGAATGCATTCGATGTTT
1 AGAGTGCATCGATGCAT-GAATGCATTCGATGTTT
744736 CAATTTATTC
Statistics
Matches: 84, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
63 3 0.04
64 67 0.80
65 8 0.10
66 4 0.05
67 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (62 bp):
AGAGTGCATCGATGCATGAATGCATTCGATGTTTAAATAAATCAGAGTGCATCGATGCAGGG
Found at i:744770 original size:21 final size:21
Alignment explanation
Indices: 744746--744785 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
744736 CAATTTATTC
744746 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
744767 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
744786 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:745595 original size:14 final size:14
Alignment explanation
Indices: 745576--745604 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
745566 GGGATTGAAA
745576 TAAATATTAATTAT
1 TAAATATTAATTAT
745590 TAAATATTAATTAT
1 TAAATATTAATTAT
745604 T
1 T
745605 CTAAACTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAAATATTAATTAT
Found at i:746302 original size:26 final size:26
Alignment explanation
Indices: 746267--746321 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
746257 CCTCTAATGT
*
746267 TAAAATAACCAAAATACCCTGAACTC
1 TAAAAGAACCAAAATACCCTGAACTC
* *
746293 TAAAAGAACCAAAATACCTTGAAGTC
1 TAAAAGAACCAAAATACCCTGAACTC
746319 TAA
1 TAA
746322 GATGATTGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.51, C:0.22, G:0.07, T:0.20
Consensus pattern (26 bp):
TAAAAGAACCAAAATACCCTGAACTC
Found at i:749411 original size:52 final size:51
Alignment explanation
Indices: 749292--749470 Score: 243
Period size: 51 Copynumber: 3.5 Consensus size: 51
749282 ATGATAAGTA
* * *
749292 TGCTCCCTATTTCTTCAGAGAGTATAAGACTTGATCTTCAACAAACGTGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAATAAACGTGTC
** * * *
749343 CACTCCCTATTCCTTCAGAGAGTATAGGACTCGATCTTTAATAAAATGTGTC
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAAT-AAACGTGTC
*
749395 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAATAAGCGTGT-
1 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAATAAACGTGTC
*
749445 TCGCTCCCTATTGCTTCAGAGAGTAT
1 T-GCTCCCTATTCCTTCAGAGAGTAT
749471 GGAACTCAAA
Statistics
Matches: 111, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
50 1 0.01
51 64 0.58
52 46 0.41
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (51 bp):
TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAATAAACGTGTC
Found at i:749507 original size:54 final size:54
Alignment explanation
Indices: 749443--750193 Score: 1171
Period size: 54 Copynumber: 13.9 Consensus size: 54
749433 CAATAAGCGT
* * * *
749443 GTTCGCTCCCTATTGCT-TCAGAGAGTATGGAACTCAAACATCTTCTTCTTACGG
1 GTTCGCTCCCTCTTTCTCT-AGGGAGTATGGAACTCGAACATCTTCTTCTTACGG
* ** *
749497 GTTCGCTCCCTCTTTATCTAGGGAGTATAAAACTCGAACATCTTCTTCTTACAG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCTTACGG
* * * *
749551 ATTTGCTCCCTCTTTCTCTAGGGAGTATGGAAATCGAGCATCTTCTTCTTACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCTTACGG
* * *
749605 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCAAACATATTCTTCTTACAG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCTTACGG
*
749659 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAATATCTTCTTCTTACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCTTACGG
* *
749713 GTTCGTTCCCTCTTTCTCTAGGGAGTATGGAACTCGAGCATCTTCTTCTTACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCTTACGG
*
749767 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAGCATCTTCTTCTTACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCTTACGG
* * *
749821 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCAAACATATTCTTCTTACAG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCTTACGG
*
749875 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAATATCTTCTTCTTACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCTTACGG
* * * *
749929 GTTTGCTTCCTCTTTATCTAGGGAGTATGGAACTCGAGCATCTTCTTCTTACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCTTACGG
*
749983 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAGCATCTTCTTCTTACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCTTACGG
* * *
750037 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCAAACATATTCTTCTTACAG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCTTACGG
* *
750091 GTTTGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAATATCTTCTTCTTACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCTTACGG
* *
750145 GTTCGTTCCCTCTTTATCTAGGGAGTATGGAACTCGAACATCTTCTTCT
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCT
750194 ACTTTACTAC
Statistics
Matches: 636, Mismatches: 60, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
54 635 1.00
55 1 0.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (54 bp):
GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCTTACGG
Found at i:750622 original size:37 final size:37
Alignment explanation
Indices: 750581--750694 Score: 135
Period size: 37 Copynumber: 3.1 Consensus size: 37
750571 ACTATTCCGA
* * *
750581 GAAGGTTTAAAAAGGATATGCTTCACTACTCTTCGA-T
1 GAAGGCTTAAAATGGATTTGCTTCACTACTCTT-GAGT
* *
750618 GAAGGCTTAATATGG-TTTGCTTCACTACTCTTTAGT
1 GAAGGCTTAAAATGGATTTGCTTCACTACTCTTGAGT
*
750654 GAAGGCTCAAAATGGATTTGCTTCACTACTCTTTG-GT
1 GAAGGCTTAAAATGGATTTGCTTCACTACTC-TTGAGT
750691 GAAG
1 GAAG
750695 ACTTGGCTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
35 1 0.02
36 30 0.45
37 33 0.50
38 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (37 bp):
GAAGGCTTAAAATGGATTTGCTTCACTACTCTTGAGT
Found at i:750639 original size:36 final size:37
Alignment explanation
Indices: 750589--750694 Score: 128
Period size: 36 Copynumber: 2.9 Consensus size: 37
750579 GAGAAGGTTT
* * *
750589 AAAAAGGATATGCTTCACTACTCTTCGA-TGAAGGCTT
1 AAAATGGATTTGCTTCACTACTCTT-GAGTGAAGGCTC
* *
750626 AATATGG-TTTGCTTCACTACTCTTTAGTGAAGGCTC
1 AAAATGGATTTGCTTCACTACTCTTGAGTGAAGGCTC
750662 AAAATGGATTTGCTTCACTACTCTTTG-GTGAAG
1 AAAATGGATTTGCTTCACTACTC-TTGAGTGAAG
750695 ACTTGGCTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
35 1 0.02
36 30 0.51
37 26 0.44
38 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (37 bp):
AAAATGGATTTGCTTCACTACTCTTGAGTGAAGGCTC
Found at i:755456 original size:72 final size:72
Alignment explanation
Indices: 755339--755489 Score: 248
Period size: 72 Copynumber: 2.1 Consensus size: 72
755329 CCCCTAACAG
755339 GTTCTTGATCAGTTGCTATCATCACATTGGCTGCACCACTAACATTCAGATTCTCACCCGAAGTC
1 GTTCTTGATCAGTTGCTATCATCACATTGGCTGCACCACTAACATTCAGATTCTCACCCGAAGTC
*
755404 TTCATCT
66 TTCATAT
* * * *
755411 GTTCTTGATCATTTGTTATCATCACATTGGTTGCACCACTAACATTTAGATTCTCACCCGAAGTC
1 GTTCTTGATCAGTTGCTATCATCACATTGGCTGCACCACTAACATTCAGATTCTCACCCGAAGTC
755476 TTCATAT
66 TTCATAT
*
755483 TTTCTTG
1 GTTCTTG
755490 TGTAATAGGG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (72 bp):
GTTCTTGATCAGTTGCTATCATCACATTGGCTGCACCACTAACATTCAGATTCTCACCCGAAGTC
TTCATAT
Found at i:756220 original size:55 final size:55
Alignment explanation
Indices: 756157--756264 Score: 198
Period size: 55 Copynumber: 2.0 Consensus size: 55
756147 TGTGGATCAG
* *
756157 TCTTCAATCAGTTTCAAATTTCTTCATTCATCGTATGTCCTTCTTCATGAATCGT
1 TCTTCAATCAGGTTCAAATTTCTTCATTCATCGAATGTCCTTCTTCATGAATCGT
756212 TCTTCAATCAGGTTCAAATTTCTTCATTCATCGAATGTCCTTCTTCATGAATC
1 TCTTCAATCAGGTTCAAATTTCTTCATTCATCGAATGTCCTTCTTCATGAATC
756265 ATCTGAACGC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (55 bp):
TCTTCAATCAGGTTCAAATTTCTTCATTCATCGAATGTCCTTCTTCATGAATCGT
Found at i:774790 original size:17 final size:18
Alignment explanation
Indices: 774759--774792 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
774749 AGTCCTAAAC
774759 TCAAAGAAGATGAACAAT
1 TCAAAGAAGATGAACAAT
774777 TCAAAGAA-ATGAACAA
1 TCAAAGAAGATGAACAA
774793 CAAACAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.12, G:0.15, T:0.15
Consensus pattern (18 bp):
TCAAAGAAGATGAACAAT
Found at i:776315 original size:35 final size:35
Alignment explanation
Indices: 776268--776345 Score: 104
Period size: 35 Copynumber: 2.2 Consensus size: 35
776258 AACATAATCA
*
776268 TCAATTTCATTTTAAACCCCAAATTATGAAATAAT
1 TCAATTTCATTTTAAACCCCAAATTATAAAATAAT
* * *
776303 TCAATTAT-ATTTTAAACCCTAAATTCTAAAATACT
1 TCAATT-TCATTTTAAACCCCAAATTATAAAATAAT
776338 TCAATTTC
1 TCAATTTC
776346 GGGTTTAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.03
35 35 0.95
36 1 0.03
ACGTcount: A:0.41, C:0.18, G:0.01, T:0.40
Consensus pattern (35 bp):
TCAATTTCATTTTAAACCCCAAATTATAAAATAAT
Found at i:776387 original size:36 final size:35
Alignment explanation
Indices: 776340--776415 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 35
776330 AAAATACTTC
* *
776340 AATTTCGGGTTTAGAATGTAATTAAAGTATTTTTGG
1 AATTTAGGGTTTAGAATGTAATTAAAGT-GTTTTGG
*
776376 AATTTAGGGTTTAGAATGTAATTGAAGTGTTTTGG
1 AATTTAGGGTTTAGAATGTAATTAAAGTGTTTTGG
776411 AATTT
1 AATTT
776416 TGAACATGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
35 11 0.30
36 26 0.70
ACGTcount: A:0.30, C:0.01, G:0.24, T:0.45
Consensus pattern (35 bp):
AATTTAGGGTTTAGAATGTAATTAAAGTGTTTTGG
Found at i:798611 original size:21 final size:21
Alignment explanation
Indices: 798577--798617 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
798567 TTTCTAGTGT
** *
798577 ATTTTAATTTAAATATTTTAA
1 ATTTTAATCAAAATAATTTAA
798598 ATTTTAATCAAAATAATTTA
1 ATTTTAATCAAAATAATTTA
798618 TCTTAGATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTTTAATCAAAATAATTTAA
Found at i:799441 original size:17 final size:18
Alignment explanation
Indices: 799411--799445 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
799401 TAAAAGTATT
799411 ATAAAAAATTAATTAAAAA
1 ATAAAAAA-TAATTAAAAA
799430 ATAAAAAA-AATTAAAA
1 ATAAAAAATAATTAAAA
799446 TTTTAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
ATAAAAAATAATTAAAAA
Found at i:800109 original size:30 final size:32
Alignment explanation
Indices: 800074--800141 Score: 95
Period size: 33 Copynumber: 2.2 Consensus size: 32
800064 ATAGTTATTA
800074 TATTTTATATT-AAT-ATATTTATATAAATAT
1 TATTTTATATTAAATAATATTTATATAAATAT
* *
800104 TATTTTTTATTAAAATAATATTTATATAATTAT
1 TATTTTATATT-AAATAATATTTATATAAATAT
800137 TATTT
1 TATTT
800142 ATTTAGAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 10 0.30
32 3 0.09
33 20 0.61
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (32 bp):
TATTTTATATTAAATAATATTTATATAAATAT
Found at i:800174 original size:16 final size:17
Alignment explanation
Indices: 800153--800186 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
800143 TTTAGAATTA
*
800153 TTAATTAT-TTTTTTTG
1 TTAATTATATTGTTTTG
800169 TTAATTATATTGTTTTG
1 TTAATTATATTGTTTTG
800186 T
1 T
800187 CTACAGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.71
Consensus pattern (17 bp):
TTAATTATATTGTTTTG
Found at i:800310 original size:17 final size:16
Alignment explanation
Indices: 800288--800341 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
800278 TAATGTTAAT
800288 ATTTAAATTTATTTTTA
1 ATTTAAA-TTATTTTTA
* *
800305 ATTTAAAGTTATTATGA
1 ATTTAAA-TTATTTTTA
* *
800322 ATTTATATTAATTTTA
1 ATTTAAATTATTTTTA
800338 ATTT
1 ATTT
800342 TTTATAATGT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 10 0.33
17 20 0.67
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (16 bp):
ATTTAAATTATTTTTA
Found at i:801905 original size:21 final size:21
Alignment explanation
Indices: 801875--801922 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
801865 GCAGGGGTAC
* *
801875 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
*
801896 ATGCCAAGCCCACCAGTTCAT
1 ATGCCAAGCCCACCACTTCAT
801917 ATGCCA
1 ATGCCA
801923 TATCCGCAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.42, G:0.12, T:0.21
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:802552 original size:29 final size:34
Alignment explanation
Indices: 802520--802596 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
802510 ATATTATTCG
*
802520 AATTTAAAA-T-AAA-A-AAATAATA-TATTCGA
1 AATTTAAAATTAAAATATAAATTATAGTATTCGA
802549 AATTTAAAATTAAAATATAAATTATAGTATTCGA
1 AATTTAAAATTAAAATATAAATTATAGTATTCGA
*
802583 AATTTAACATTAAA
1 AATTTAAAATTAAA
802597 TTTCAACTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
29 9 0.22
30 1 0.02
31 3 0.07
32 1 0.02
33 7 0.17
34 20 0.49
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (34 bp):
AATTTAAAATTAAAATATAAATTATAGTATTCGA
Found at i:802563 original size:28 final size:29
Alignment explanation
Indices: 802495--802596 Score: 84
Period size: 29 Copynumber: 3.4 Consensus size: 29
802485 GATAAATGTT
* * *
802495 TTTAAAA-TACAAATTATATTATTCG-AA
1 TTTAAAATTAAAAATAATAGTATTCGAAA
*
802522 TTTAAAATAAAAAAATAATA-TATTCGAAA
1 TTTAAAAT-TAAAAATAATAGTATTCGAAA
802551 TTTAAAATTAAAATATAAATTATAGTATTCGAAA
1 TTTAAAATTAAAA-AT--A--ATAGTATTCGAAA
*
802585 TTTAACATTAAA
1 TTTAAAATTAAA
802597 TTTCAACTTA
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
27 7 0.11
28 10 0.16
29 20 0.33
31 1 0.02
33 3 0.05
34 20 0.33
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.37
Consensus pattern (29 bp):
TTTAAAATTAAAAATAATAGTATTCGAAA
Found at i:802583 original size:34 final size:31
Alignment explanation
Indices: 802496--802596 Score: 100
Period size: 34 Copynumber: 3.2 Consensus size: 31
802486 ATAAATGTTT
*
802496 TTAAAATACAAATTATATTATTCG-AATTTAAAA
1 TTAAAA-A-AAATAATA-TATTCGAAATTTAAAA
802529 -T-AAAAAAATAATATATTCGAAATTTAAAA
1 TTAAAAAAAATAATATATTCGAAATTTAAAA
* *
802558 TTAAAATATAAATTATAGTATTCGAAATTTAACA
1 TTAAAA-A-AAATAATA-TATTCGAAATTTAAAA
802592 TTAAA
1 TTAAA
802597 TTTCAACTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
28 6 0.10
29 16 0.27
30 2 0.03
31 6 0.10
32 2 0.03
33 7 0.12
34 20 0.34
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.37
Consensus pattern (31 bp):
TTAAAAAAAATAATATATTCGAAATTTAAAA
Found at i:803297 original size:127 final size:128
Alignment explanation
Indices: 802991--803468 Score: 850
Period size: 128 Copynumber: 3.7 Consensus size: 128
802981 ACAATCCATC
*
802991 TAGTGTCCCCGAGGGATATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * * *
803056 AGAAGGCGCCCCCCCGAGAACGCGCCTTCGAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
*
803119 TAGTGTCCCTGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
803184 GGAAGGCGCGCCCCCGGGAACGCACCTTCAAGT-CCCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
*
803246 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGACAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
803311 GGAAGGCGCACCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
* *
803374 TAGTGTCTCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
803439 GGAAGGCGCGCCCCCGGGAACGCGCCTTCA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCA
803469 TGTGAATAGT
Statistics
Matches: 334, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
127 123 0.37
128 211 0.63
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (128 bp):
TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
Found at i:803442 original size:255 final size:255
Alignment explanation
Indices: 802991--803468 Score: 868
Period size: 255 Copynumber: 1.9 Consensus size: 255
802981 ACAATCCATC
* *
802991 TAGTGTCCCCGAGGGATATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGACAATGATAACATATTCTCTGACAAAATAAT
* *
803056 AGAAGGCGCCCCCCCGAGAACGCGCCTTCGAGTCCCCTGAGAAATAATAGGTACTGATATGAATA
66 AGAAGGCGCACCCCCGAGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATA
803121 GTGTCCCTGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGG
131 GTGTCCCTGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGG
803186 AAGGCGCGCCCCCGGGAACGCACCTTCAAGTCCCTGAGAAATAATAGGTACTGATATGAA
196 AAGGCGCGCCCCCGGGAACGCACCTTCAAGTCCCTGAGAAATAATAGGTACTGATATGAA
803246 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGACAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGACAATGATAACATATTCTCTGACAAAATAAT
* *
803311 GGAAGGCGCACCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATA
66 AGAAGGCGCACCCCCGAGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATA
*
803376 GTGTCTCC-GAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATAAAATAATG
131 GTGTC-CCTGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATG
*
803440 GAAGGCGCGCCCCCGGGAACGCGCCTTCA
195 GAAGGCGCGCCCCCGGGAACGCACCTTCA
803469 TGTGAATAGT
Statistics
Matches: 214, Mismatches: 8, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
255 212 0.99
256 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (255 bp):
TAGTGTCCCCGAGGGACATGAGTGACATAATAGGACAATGATAACATATTCTCTGACAAAATAAT
AGAAGGCGCACCCCCGAGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATA
GTGTCCCTGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGG
AAGGCGCGCCCCCGGGAACGCACCTTCAAGTCCCTGAGAAATAATAGGTACTGATATGAA
Found at i:807561 original size:93 final size:93
Alignment explanation
Indices: 807402--807587 Score: 372
Period size: 93 Copynumber: 2.0 Consensus size: 93
807392 AAACCCGAGT
807402 AAAACGCGTCCCCGGGGATGCGCCTTTCGCCAACTCAACCGAAAGGGTGTCACTTTAAGAAATAT
1 AAAACGCGTCCCCGGGGATGCGCCTTTCGCCAACTCAACCGAAAGGGTGTCACTTTAAGAAATAT
807467 ATATCAAACGATGTTAAAAATATAAATA
66 ATATCAAACGATGTTAAAAATATAAATA
807495 AAAACGCGTCCCCGGGGATGCGCCTTTCGCCAACTCAACCGAAAGGGTGTCACTTTAAGAAATAT
1 AAAACGCGTCCCCGGGGATGCGCCTTTCGCCAACTCAACCGAAAGGGTGTCACTTTAAGAAATAT
807560 ATATCAAACGATGTTAAAAATATAAATA
66 ATATCAAACGATGTTAAAAATATAAATA
807588 TTCAATTAAA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.23
Consensus pattern (93 bp):
AAAACGCGTCCCCGGGGATGCGCCTTTCGCCAACTCAACCGAAAGGGTGTCACTTTAAGAAATAT
ATATCAAACGATGTTAAAAATATAAATA
Found at i:820152 original size:15 final size:15
Alignment explanation
Indices: 820132--820169 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
820122 TTATTCTCAT
820132 TTGTACTTGTTGAAG
1 TTGTACTTGTTGAAG
820147 TTGTACTTGTTGAAG
1 TTGTACTTGTTGAAG
820162 TTGTACTT
1 TTGTACTT
820170 TGTGAGGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.18, C:0.08, G:0.24, T:0.50
Consensus pattern (15 bp):
TTGTACTTGTTGAAG
Found at i:822074 original size:19 final size:19
Alignment explanation
Indices: 821982--822074 Score: 127
Period size: 18 Copynumber: 5.0 Consensus size: 19
821972 CCTGATACCA
*
821982 TGTAGAAAACAGACTGTAT
1 TGTAGAAAACAGACTGTAG
822001 TGTAGAAAACAGACTGTAG
1 TGTAGAAAACAGACTGTAG
**
822020 -AAAGAAAACAGACTGTAG
1 TGTAGAAAACAGACTGTAG
**
822038 -AAAGAAAACAGACTGTAG
1 TGTAGAAAACAGACTGTAG
822056 TGTAGAAAACAGACTGTAG
1 TGTAGAAAACAGACTGTAG
822075 GAAACAGACA
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
18 34 0.50
19 34 0.50
ACGTcount: A:0.47, C:0.11, G:0.24, T:0.18
Consensus pattern (19 bp):
TGTAGAAAACAGACTGTAG
Found at i:832490 original size:27 final size:26
Alignment explanation
Indices: 832438--832493 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 26
832428 GAAAATTAAG
832438 TATCAAATAAATTTTTACTTAAAAAAT
1 TATCAAATAAATTTTTA-TTAAAAAAT
*
832465 TATCAAATAATATTTATTTTATAAAAAAT
1 TATCAAATAA-ATTT-TTAT-TAAAAAAT
832494 ATAATTCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 10 0.40
28 5 0.20
29 10 0.40
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (26 bp):
TATCAAATAAATTTTTATTAAAAAAT
Found at i:845091 original size:14 final size:14
Alignment explanation
Indices: 845072--845105 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
845062 ATACATGAGA
845072 ATATGATATGAGCC-
1 ATATGATATGA-CCT
845086 ATATGATATGACCT
1 ATATGATATGACCT
845100 ATATGA
1 ATATGA
845106 ACATATGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 17 0.89
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (14 bp):
ATATGATATGACCT
Found at i:845194 original size:19 final size:19
Alignment explanation
Indices: 845170--845221 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
845160 TTATGAAATT
845170 ATGTGTCTATGTGATATGA
1 ATGTGTCTATGTGATATGA
845189 ATGTGTCTATGTGATATGA
1 ATGTGTCTATGTGATATGA
*
845208 ATGTGTATATGTGA
1 ATGTGTCTATGTGA
845222 AAAACATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.27, C:0.04, G:0.27, T:0.42
Consensus pattern (19 bp):
ATGTGTCTATGTGATATGA
Found at i:851128 original size:2 final size:2
Alignment explanation
Indices: 851121--851160 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
851111 ATTTATTGTT
851121 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
851161 GTTAGCATCC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:855002 original size:30 final size:31
Alignment explanation
Indices: 854966--855045 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
854956 TATTTTTATA
*
854966 AATTACT-GAAATTTGAATTACTAG-AATTTG
1 AATTACTGGAAA-ATGAATTACTAGAAATTTG
*
854996 AATTACTGGAAAATGAATTA-TTGAAATTTG
1 AATTACTGGAAAATGAATTACTAGAAATTTG
855026 AATT-CTGGAAAATGAATTAC
1 AATTACTGGAAAATGAATTAC
855046 ATTTCTGGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
29 17 0.38
30 24 0.53
31 4 0.09
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.36
Consensus pattern (31 bp):
AATTACTGGAAAATGAATTACTAGAAATTTG
Found at i:855036 original size:15 final size:16
Alignment explanation
Indices: 854966--855045 Score: 82
Period size: 15 Copynumber: 5.4 Consensus size: 16
854956 TATTTTTATA
854966 AATTACT-GAAATTTG
1 AATTACTGGAAATTTG
*
854981 AATTACTAG-AATTTG
1 AATTACTGGAAATTTG
*
854996 AATTACTGGAAA-ATG
1 AATTACTGGAAATTTG
*
855011 AATTA-TTGAAATTTG
1 AATTACTGGAAATTTG
*
855026 AATT-CTGGAAA-ATG
1 AATTACTGGAAATTTG
855040 AATTAC
1 AATTAC
855046 ATTTCTGGAA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
14 11 0.20
15 40 0.74
16 3 0.06
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.36
Consensus pattern (16 bp):
AATTACTGGAAATTTG
Found at i:855246 original size:28 final size:29
Alignment explanation
Indices: 855214--855270 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
855204 AATTTAATCA
*
855214 AATATTATTATATTTTA-AAAAAAATATT
1 AATATTAGTATATTTTATAAAAAAATATT
* *
855242 AATATTGGTATATTTTATAATAAAATATT
1 AATATTAGTATATTTTATAAAAAAATATT
855271 TAAAATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (29 bp):
AATATTAGTATATTTTATAAAAAAATATT
Found at i:855402 original size:28 final size:24
Alignment explanation
Indices: 855348--855430 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 24
855338 CTTTACTAAA
**
855348 ATATTATTTAAATATAAAATTAAT
1 ATATTATTTAAATATAAAAAAAAT
855372 ATATTCATTATAATATATAAAAAAAAT
1 ATATT-ATT-TAA-ATATAAAAAAAAT
855399 -TATATATATTAAA-ATAAAAATATAAT
1 ATAT-TAT-TTAAATATAAAAA-A-AAT
855425 ATATTA
1 ATATTA
855431 AATTATTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
24 12 0.24
25 5 0.10
26 16 0.33
27 16 0.33
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (24 bp):
ATATTATTTAAATATAAAAAAAAT
Found at i:855417 original size:21 final size:20
Alignment explanation
Indices: 855378--855432 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
855368 TAATATATTC
855378 ATTATA-ATA-TATAAAAAAA
1 ATTATATATATTA-AAAAAAA
855397 ATTATATATATTAAAATAAAA
1 ATTATATATATTAAAA-AAAA
855418 A-TATAATATATTAAA
1 ATTAT-ATATATTAAA
855433 TTATTAAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 6 0.19
20 9 0.28
21 17 0.53
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATTATATATATTAAAAAAAA
Found at i:855446 original size:22 final size:21
Alignment explanation
Indices: 855402--855474 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
855392 AAAAAATTAT
* * *
855402 ATATATTAAAATAAAAATATA
1 ATATATTAAATTATAAATCTA
855423 ATATATTAAATTATTAAATCTA
1 ATATATTAAATTA-TAAATCTA
*
855445 ATATAATT-GATTATAATATCTA
1 ATAT-ATTAAATTATAA-ATCTA
*
855467 TTATATTA
1 ATATATTA
855475 TTATATTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
21 18 0.42
22 22 0.51
23 3 0.07
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (21 bp):
ATATATTAAATTATAAATCTA
Found at i:855501 original size:25 final size:26
Alignment explanation
Indices: 855467--855566 Score: 73
Period size: 25 Copynumber: 3.9 Consensus size: 26
855457 ATAATATCTA
*
855467 TTATATTATTATATTAATAAAATATT
1 TTATAATATTATATTAATAAAATATT
* * **
855493 TTA-AATATTTTAATAATTTAAT-TT
1 TTATAATATTATATTAATAAAATATT
* *
855517 TTATTAAAATGATATT-A-AAAATATT
1 TTA-TAATATTATATTAATAAAATATT
* *
855542 TTATTAATATTAAATTCATAAAATA
1 TTA-TAATATTATATTAATAAAATA
855567 AAATTATTTT
Statistics
Matches: 55, Mismatches: 14, Indels: 9
0.71 0.18 0.12
Matches are distributed among these distances:
24 8 0.15
25 30 0.55
26 11 0.20
27 6 0.11
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (26 bp):
TTATAATATTATATTAATAAAATATT
Found at i:855523 original size:40 final size:41
Alignment explanation
Indices: 855478--855554 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 41
855468 TATATTATTA
**
855478 TATTAATAA-AATATTTTAAATATTTTAATAAT-TTAATTTT
1 TATTAA-AATAATATTAAAAATATTTTAATAATATTAATTTT
* *
855518 TATTAAAATGATATTAAAAATATTTTATTAATATTAA
1 TATTAAAATAATATTAAAAATATTTTAATAATATTAA
855555 ATTCATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
39 2 0.06
40 25 0.81
41 4 0.13
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (41 bp):
TATTAAAATAATATTAAAAATATTTTAATAATATTAATTTT
Found at i:856265 original size:82 final size:81
Alignment explanation
Indices: 856162--856324 Score: 317
Period size: 82 Copynumber: 2.0 Consensus size: 81
856152 AGGACACATA
856162 ATATATGTTTAAATCATTATCATAAACTGTTATGTGGTGCTGGGGTTTACTTTACAAGAGTGGTT
1 ATATATGTTTAAATCATTATCATAAACTGTTATGTGGTGCTGGGGTTTACTTTACAAGAGTGGTT
856227 CTGGGGTTTTTATGTGG
66 CTGGGG-TTTTATGTGG
856244 ATATATGTTTAAATCATTATCATAAACTGTTATGTGGTGCTGGGGTTTACTTTACAAGAGTGGTT
1 ATATATGTTTAAATCATTATCATAAACTGTTATGTGGTGCTGGGGTTTACTTTACAAGAGTGGTT
856309 CTGGGGTTTTATGTGG
66 CTGGGGTTTTATGTGG
856325 CTTGGTTTCT
Statistics
Matches: 81, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
81 10 0.12
82 71 0.88
ACGTcount: A:0.23, C:0.09, G:0.26, T:0.42
Consensus pattern (81 bp):
ATATATGTTTAAATCATTATCATAAACTGTTATGTGGTGCTGGGGTTTACTTTACAAGAGTGGTT
CTGGGGTTTTATGTGG
Found at i:859161 original size:3 final size:3
Alignment explanation
Indices: 859153--859177 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
859143 GATAGCTTTA
859153 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
859178 ATGTTCCGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:862065 original size:14 final size:14
Alignment explanation
Indices: 862042--862085 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
862032 GGGAGAATTG
862042 TTAGGATTTAGGGT
1 TTAGGATTTAGGGT
* **
862056 TTAGGGTTTATTGT
1 TTAGGATTTAGGGT
*
862070 TTAAGATTTAGGGT
1 TTAGGATTTAGGGT
862084 TT
1 TT
862086 TTAGCAACAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (14 bp):
TTAGGATTTAGGGT
Found at i:862352 original size:14 final size:14
Alignment explanation
Indices: 862329--862368 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
862319 ATTGTTAGGG
862329 TTTAGGGTTTAAAA
1 TTTAGGGTTTAAAA
* * *
862343 TTTAGTGTTTATAG
1 TTTAGGGTTTAAAA
862357 TTTAGGGTTTAA
1 TTTAGGGTTTAA
862369 GGTTTTTAGT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTAAAA
Found at i:862373 original size:14 final size:14
Alignment explanation
Indices: 862327--862373 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
862317 GAATTGTTAG
862327 GGTTTAGGGTTTAA
1 GGTTTAGGGTTTAA
** *
862341 AATTTAGTGTTTATA
1 GGTTTAGGGTTTA-A
862356 -GTTTAGGGTTTAA
1 GGTTTAGGGTTTAA
862369 GGTTT
1 GGTTT
862374 TTAGTAGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
13 1 0.04
14 24 0.92
15 1 0.04
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:862444 original size:7 final size:7
Alignment explanation
Indices: 862432--862461 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
862422 GTTACTTGTG
862432 AACCTTA
1 AACCTTA
862439 AACCTTA
1 AACCTTA
*
862446 AACCCTA
1 AACCTTA
862453 AACCTTA
1 AACCTTA
862460 AA
1 AA
862462 ATATTTTGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (7 bp):
AACCTTA
Found at i:862491 original size:36 final size:36
Alignment explanation
Indices: 862444--862528 Score: 161
Period size: 36 Copynumber: 2.4 Consensus size: 36
862434 CCTTAAACCT
862444 TAAACCCTAAACCTTAAAATATTTTGGTTATTACTA
1 TAAACCCTAAACCTTAAAATATTTTGGTTATTACTA
*
862480 TAAACCCTAAACCTTAAAATATTTTGTTTATTACTA
1 TAAACCCTAAACCTTAAAATATTTTGGTTATTACTA
862516 TAAACCCTAAACC
1 TAAACCCTAAACC
862529 CTAACCATTC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.40, C:0.20, G:0.04, T:0.36
Consensus pattern (36 bp):
TAAACCCTAAACCTTAAAATATTTTGGTTATTACTA
Found at i:865716 original size:43 final size:43
Alignment explanation
Indices: 865655--865757 Score: 152
Period size: 43 Copynumber: 2.4 Consensus size: 43
865645 ATGTCTTAAT
* * *
865655 ATTTAGCGGCGTTTTTAGCGAAAACGCCACAATATGTGTTGAG
1 ATTTAGCAGCGTTTTTAGCGAAAACGCCACAATAGGCGTTGAG
* * *
865698 ATTTAGCAACGTTTTTAGCTAAAACGCCGCAATAGGCGTTGAG
1 ATTTAGCAGCGTTTTTAGCGAAAACGCCACAATAGGCGTTGAG
865741 ATTTAGCAGCGTTTTTA
1 ATTTAGCAGCGTTTTTA
865758 ATACAAACGC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (43 bp):
ATTTAGCAGCGTTTTTAGCGAAAACGCCACAATAGGCGTTGAG
Found at i:865766 original size:43 final size:43
Alignment explanation
Indices: 865655--865770 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
865645 ATGTCTTAAT
** ** * * *
865655 ATTTAGCGGCGTTTTTAGCGAAAACGCCACAATATGTGTTGAG
1 ATTTAGCAACGTTTTTAGATAAAACGCCGCAATAGGCGTTGAG
*
865698 ATTTAGCAACGTTTTTAGCTAAAACGCCGCAATAGGCGTTGAG
1 ATTTAGCAACGTTTTTAGATAAAACGCCGCAATAGGCGTTGAG
*
865741 ATTTAGCAGCGTTTTTA-ATACAAACGCCGC
1 ATTTAGCAACGTTTTTAGATA-AAACGCCGC
865771 TAAAAATTGG
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 2 0.03
43 62 0.97
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (43 bp):
ATTTAGCAACGTTTTTAGATAAAACGCCGCAATAGGCGTTGAG
Found at i:865805 original size:43 final size:44
Alignment explanation
Indices: 865749--865859 Score: 135
Period size: 43 Copynumber: 2.6 Consensus size: 44
865739 AGATTTAGCA
*
865749 GCGTTTTTA--ATACAAACGCCGCTAAAAAT-TGGTATA-TAGTG
1 GCGTTTTTATGATACAAACGCCGCTAAAAATATGGTATATTA-CG
**
865790 GCGTTTTTATGATACAAACGCCGCTAAATGTATGGTATATTACG
1 GCGTTTTTATGATACAAACGCCGCTAAAAATATGGTATATTACG
*
865834 GCG-TTTT-TGTTACAAACGCCGCTAAA
1 GCGTTTTTATGATACAAACGCCGCTAAA
865860 TAACACAGAA
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
41 9 0.15
42 18 0.29
43 22 0.35
44 11 0.18
45 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (44 bp):
GCGTTTTTATGATACAAACGCCGCTAAAAATATGGTATATTACG
Found at i:865860 original size:42 final size:41
Alignment explanation
Indices: 865744--865861 Score: 139
Period size: 42 Copynumber: 2.8 Consensus size: 41
865734 CGTTGAGATT
* * *
865744 TAGCAGCGTTTTTAATACAAACGCCGCTAAAAATTGGTATA
1 TAGCGGCGTTTTTGATACAAACGCCGCTAAATATTGGTATA
* *
865785 TAGTGGCGTTTTTATGATACAAACGCCGCTAAATGTATGGTATA
1 TAGCGGCG-TTTT-TGATACAAACGCCGCTAAATAT-TGGTATA
*
865829 TTA-CGGCGTTTTTGTTACAAACGCCGCTAAATA
1 -TAGCGGCGTTTTTGATACAAACGCCGCTAAATA
865862 ACACAGAATT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
41 6 0.09
42 23 0.35
43 23 0.35
44 11 0.17
45 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (41 bp):
TAGCGGCGTTTTTGATACAAACGCCGCTAAATATTGGTATA
Found at i:866236 original size:21 final size:21
Alignment explanation
Indices: 866197--866236 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
866187 TGTGTTGCCA
* * *
866197 CTGCTTCTCTCTTTTCTTCCG
1 CTGCTGCTCTCTCTGCTTCCG
866218 CTGCTGCTCTCTCTGCTTC
1 CTGCTGCTCTCTCTGCTTC
866237 TCTTGCTTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.00, C:0.40, G:0.12, T:0.47
Consensus pattern (21 bp):
CTGCTGCTCTCTCTGCTTCCG
Found at i:871910 original size:42 final size:42
Alignment explanation
Indices: 871805--871953 Score: 121
Period size: 41 Copynumber: 3.6 Consensus size: 42
871795 TACCAGTTTT
*
871805 TTGCGGCGTTTTGTGAGA-AAACGCCACTATAAATAAATATA
1 TTGCGGCGTTTTGTGACATAAACGCCACTATAAATAAATATA
** * * * *
871846 TACCGGTG-TTTGTGCCATAAACGCCGC-A-AAATTTCAACTATA
1 TTGCGGCGTTTTGTGACATAAACGCCACTATAAA--T-AAATATA
*
871888 TTGCGGCGTTTTGTGAGA-AAACGCCACTATAAATAAATATA
1 TTGCGGCGTTTTGTGACATAAACGCCACTATAAATAAATATA
** * *
871929 TACCGGTG-TTTGTGCCATAAACGCC
1 TTGCGGCGTTTTGTGACATAAACGCC
871954 GCAAAATTTC
Statistics
Matches: 81, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
39 3 0.04
40 15 0.19
41 32 0.40
42 20 0.25
43 8 0.10
44 3 0.04
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (42 bp):
TTGCGGCGTTTTGTGACATAAACGCCACTATAAATAAATATA
Found at i:871951 original size:41 final size:41
Alignment explanation
Indices: 871823--871953 Score: 142
Period size: 41 Copynumber: 3.2 Consensus size: 41
871813 TTTTGTGAGA
871823 AAACGCCACTATAAATAAATATATACCGGTGTTTGTGCCAT
1 AAACGCCACTATAAATAAATATATACCGGTGTTTGTGCCAT
* * ** * **
871864 AAACGCCGC-A-AAATTTCAACTATATTGCGGCGTTTTGTGAGA-
1 AAACGCCACTATAAA--T-AAATATATACCGGTG-TTTGTGCCAT
871906 AAACGCCACTATAAATAAATATATACCGGTGTTTGTGCCAT
1 AAACGCCACTATAAATAAATATATACCGGTGTTTGTGCCAT
871947 AAACGCC
1 AAACGCC
871954 GCAAAATTTC
Statistics
Matches: 69, Mismatches: 14, Indels: 14
0.71 0.14 0.14
Matches are distributed among these distances:
39 3 0.04
40 8 0.12
41 27 0.39
42 20 0.29
43 8 0.12
44 3 0.04
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (41 bp):
AAACGCCACTATAAATAAATATATACCGGTGTTTGTGCCAT
Found at i:871992 original size:83 final size:83
Alignment explanation
Indices: 871805--871982 Score: 356
Period size: 83 Copynumber: 2.1 Consensus size: 83
871795 TACCAGTTTT
871805 TTGCGGCGTTTTGTGAGAAAACGCCACTATAAATAAATATATACCGGTGTTTGTGCCATAAACGC
1 TTGCGGCGTTTTGTGAGAAAACGCCACTATAAATAAATATATACCGGTGTTTGTGCCATAAACGC
871870 CGCAAAATTTCAACTATA
66 CGCAAAATTTCAACTATA
871888 TTGCGGCGTTTTGTGAGAAAACGCCACTATAAATAAATATATACCGGTGTTTGTGCCATAAACGC
1 TTGCGGCGTTTTGTGAGAAAACGCCACTATAAATAAATATATACCGGTGTTTGTGCCATAAACGC
871953 CGCAAAATTTCAACTATA
66 CGCAAAATTTCAACTATA
871971 TTGCGGCGTTTT
1 TTGCGGCGTTTT
871983 TTGTAAAAAC
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 95 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (83 bp):
TTGCGGCGTTTTGTGAGAAAACGCCACTATAAATAAATATATACCGGTGTTTGTGCCATAAACGC
CGCAAAATTTCAACTATA
Found at i:876154 original size:20 final size:20
Alignment explanation
Indices: 876129--876180 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
876119 GATTGCCTAA
876129 AGGGTACCGATACCCCCAAG
1 AGGGTACCGATACCCCCAAG
876149 AGGGTACCGATACCCCCAAG
1 AGGGTACCGATACCCCCAAG
876169 AGGGTACCGATA
1 AGGGTACCGATA
876181 GCCCTATGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.31, G:0.27, T:0.12
Consensus pattern (20 bp):
AGGGTACCGATACCCCCAAG
Found at i:884723 original size:19 final size:20
Alignment explanation
Indices: 884696--884740 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
884686 TTGCTCGAAG
*
884696 GGTATCGATA-CCCCCAGTA
1 GGTACCGATACCCCCCAGTA
884715 GGTACCGATACCCCCCCAGTA
1 GGTACCGATA-CCCCCCAGTA
884736 GGTAC
1 GGTAC
884741 TAATACCCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.39
21 14 0.61
ACGTcount: A:0.24, C:0.36, G:0.22, T:0.18
Consensus pattern (20 bp):
GGTACCGATACCCCCCAGTA
Found at i:884746 original size:21 final size:21
Alignment explanation
Indices: 884706--884748 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
884696 GGTATCGATA
*
884706 CCCCCAGTAGGTACCGATACC
1 CCCCCAGTAGGTACCAATACC
*
884727 CCCCCAGTAGGTACTAATACC
1 CCCCCAGTAGGTACCAATACC
884748 C
1 C
884749 TCTGTCTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.42, G:0.16, T:0.16
Consensus pattern (21 bp):
CCCCCAGTAGGTACCAATACC
Found at i:894560 original size:5 final size:5
Alignment explanation
Indices: 894550--895035 Score: 958
Period size: 5 Copynumber: 97.6 Consensus size: 5
894540 CTTTGAACAA
894550 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
894600 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
894650 TATTG TA-TG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
894699 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
894749 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TA-TG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
894798 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
894848 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
894898 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
894948 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG TATTG
894998 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TAT
1 TATTG TATTG TATTG TATTG TATTG TATTG TATTG TAT
895036 ATAAATAAAT
Statistics
Matches: 479, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
4 8 0.02
5 471 0.98
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
TATTG
Found at i:895246 original size:2 final size:2
Alignment explanation
Indices: 895152--895229 Score: 103
Period size: 2 Copynumber: 40.5 Consensus size: 2
895142 TAACAATTAA
895152 AT AT AT AT -T CAT AT AT AT A- AT AT AT -T CA- AT AT AT AT AT AT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
895192 AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
895230 ATTTCGTAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 14
0.83 0.00 0.17
Matches are distributed among these distances:
1 5 0.07
2 63 0.91
3 1 0.01
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:895246 original size:25 final size:25
Alignment explanation
Indices: 895162--895230 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
895152 ATATATATTC
*
895162 ATATATATAATATAT-TCAATATAT
1 ATATATATAATATATATAAATATAT
895186 ATATATAT-ATATATATATAATATAT
1 ATATATATAATATATATA-AATATAT
895211 ATATATATATATATATATAA
1 ATATATATA-ATATATATAA
895231 TTTCGTAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
23 6 0.15
24 9 0.22
25 15 0.38
26 1 0.03
27 9 0.22
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (25 bp):
ATATATATAATATATATAAATATAT
Found at i:898024 original size:35 final size:34
Alignment explanation
Indices: 897939--898025 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
897929 ATTTGGTATT
*
897939 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
897973 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
898011 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
898026 ACTGAAATAT
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:902353 original size:2 final size:2
Alignment explanation
Indices: 902284--902341 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
902274 ATTCATTCGT
902284 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
902326 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
902342 ATAAACATAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:902360 original size:4 final size:4
Alignment explanation
Indices: 902353--902390 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
902343 TAAACATATA
902353 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA- TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA
902391 CAAGCCCAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.09
4 30 0.91
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:907135 original size:161 final size:161
Alignment explanation
Indices: 906870--907191 Score: 644
Period size: 161 Copynumber: 2.0 Consensus size: 161
906860 TATCGTGCTA
906870 GAACTAAACATATTGATGTAAGGTTCCACAAGATCAGAGAGCTGGTTGCATCTGGAGAGGTTTTG
1 GAACTAAACATATTGATGTAAGGTTCCACAAGATCAGAGAGCTGGTTGCATCTGGAGAGGTTTTG
906935 TTTCAGAAGGTACATACTGATGAGAATGCCGCTGATATGTTCACCAAGCCAGTTACGACAGACAA
66 TTTCAGAAGGTACATACTGATGAGAATGCCGCTGATATGTTCACCAAGCCAGTTACGACAGACAA
907000 GTTCAAGCATTGCTTGGACTTGCTGAATGTT
131 GTTCAAGCATTGCTTGGACTTGCTGAATGTT
907031 GAACTAAACATATTGATGTAAGGTTCCACAAGATCAGAGAGCTGGTTGCATCTGGAGAGGTTTTG
1 GAACTAAACATATTGATGTAAGGTTCCACAAGATCAGAGAGCTGGTTGCATCTGGAGAGGTTTTG
907096 TTTCAGAAGGTACATACTGATGAGAATGCCGCTGATATGTTCACCAAGCCAGTTACGACAGACAA
66 TTTCAGAAGGTACATACTGATGAGAATGCCGCTGATATGTTCACCAAGCCAGTTACGACAGACAA
907161 GTTCAAGCATTGCTTGGACTTGCTGAATGTT
131 GTTCAAGCATTGCTTGGACTTGCTGAATGTT
907192 TCGAGTTGTT
Statistics
Matches: 161, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
161 161 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (161 bp):
GAACTAAACATATTGATGTAAGGTTCCACAAGATCAGAGAGCTGGTTGCATCTGGAGAGGTTTTG
TTTCAGAAGGTACATACTGATGAGAATGCCGCTGATATGTTCACCAAGCCAGTTACGACAGACAA
GTTCAAGCATTGCTTGGACTTGCTGAATGTT
Found at i:918688 original size:32 final size:32
Alignment explanation
Indices: 918647--918723 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
918637 TTTAAATAGT
* *
918647 TATTATTTTTTA-TATTAATATATTTATGTAAA
1 TATTATTTTTTATTA-AAATATATTTATATAAA
*
918679 TATTATTTTTTATTAAAATATATTTATATAAT
1 TATTATTTTTTATTAAAATATATTTATATAAA
918711 TATTATTTATTTA
1 TATTATTT-TTTA
918724 GAATTATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
32 34 0.85
33 6 0.15
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (32 bp):
TATTATTTTTTATTAAAATATATTTATATAAA
Found at i:918885 original size:17 final size:17
Alignment explanation
Indices: 918863--918916 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
918853 AATGTTAATA
918863 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
918880 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
918897 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
918914 TTT
1 TTT
918917 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:920524 original size:21 final size:21
Alignment explanation
Indices: 920498--920570 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
920488 TATGCCATCT
*
920498 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
920519 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
* *
920540 CCACCA-GGTTACATGCCTAGC
1 CC-GCAGGGTTACATTCCTAGC
920561 CCGCAGGGTT
1 CCGCAGGGTT
920571 TTATACCATA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.04
21 42 0.91
22 2 0.04
ACGTcount: A:0.19, C:0.34, G:0.26, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:921131 original size:34 final size:34
Alignment explanation
Indices: 921093--921190 Score: 133
Period size: 34 Copynumber: 2.9 Consensus size: 34
921083 AAATGTTTTT
* *
921093 AAAATACAAATTATATTATTTGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
921127 AAAATAAAAATAATATTATTCGAAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
921161 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
921191 CATTAAATTT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:921818 original size:128 final size:128
Alignment explanation
Indices: 921590--922212 Score: 1042
Period size: 128 Copynumber: 4.9 Consensus size: 128
921580 TTACCTGATT
*
921590 TACTGATATATCTGGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
*** *
921655 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCT-GAGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGT-GAATAGTGAAATAATAGG
* *
921718 TACTGATATGA-ATAATGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCT
1 TACTGATAT-ATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCT
*
921782 ATGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
65 ATGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTGAATAGTGAAATAATAGG
921846 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
* *
921911 TGACAAAATAATGGAAGGCGCGCCCCCGGAAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTGAATAGTGAAATAATAGG
* *
921974 TACTGATATATCTAGTGTCCACGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
922039 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTT-AATGTGAATAGTGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAA-GTGAATAGTGAAATAATAGG
*
922102 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
* *
922167 TG---AAATAATGGAAGGCGCGCCCCCGAGAACGCGCCTTCATGTGAAT
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTGAAT
922213 TGTACTCCGA
Statistics
Matches: 472, Mismatches: 18, Indels: 13
0.94 0.04 0.03
Matches are distributed among these distances:
125 40 0.08
126 1 0.00
127 3 0.01
128 427 0.90
129 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTGAATAGTGAAATAATAGG
Found at i:926214 original size:18 final size:18
Alignment explanation
Indices: 926191--926225 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
926181 TCAAATGAAG
926191 GGATTATAGCTGTTTGGA
1 GGATTATAGCTGTTTGGA
926209 GGATTATAGCTGTTTGG
1 GGATTATAGCTGTTTGG
926226 GAAGCTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.20, C:0.06, G:0.34, T:0.40
Consensus pattern (18 bp):
GGATTATAGCTGTTTGGA
Found at i:928127 original size:21 final size:21
Alignment explanation
Indices: 928097--928141 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
928087 AGTGGGAGGA
928097 GAAGGACGAGAGATCGAAGAT
1 GAAGGACGAGAGATCGAAGAT
*
928118 GAAGGGCGAGAGATCGAAGAT
1 GAAGGACGAGAGATCGAAGAT
928139 GAA
1 GAA
928142 TTAGGGGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.40, T:0.09
Consensus pattern (21 bp):
GAAGGACGAGAGATCGAAGAT
Found at i:930123 original size:21 final size:21
Alignment explanation
Indices: 930097--930139 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
930087 ACTTCTTAAA
930097 TTGGGTGTAAGTGATGTGGTG
1 TTGGGTGTAAGTGATGTGGTG
930118 TTGGGTGTAAGTGATGTGGTG
1 TTGGGTGTAAGTGATGTGGTG
930139 T
1 T
930140 GGTGTTAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.47, T:0.40
Consensus pattern (21 bp):
TTGGGTGTAAGTGATGTGGTG
Found at i:933402 original size:22 final size:22
Alignment explanation
Indices: 933374--933415 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
933364 TTAACCAAGC
*
933374 AGTCCAGCAGATCCAGGTGGGT
1 AGTCCAGCAGATCCAAGTGGGT
*
933396 AGTCCAGCATATCCAAGTGG
1 AGTCCAGCAGATCCAAGTGG
933416 TGTGCGGGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.24, G:0.31, T:0.19
Consensus pattern (22 bp):
AGTCCAGCAGATCCAAGTGGGT
Found at i:937617 original size:18 final size:17
Alignment explanation
Indices: 937580--937634 Score: 60
Period size: 16 Copynumber: 3.3 Consensus size: 17
937570 TTTAAAATTT
*
937580 AAAATATTCAAATAAT-
1 AAAATATTCAAAAAATA
937596 AAAATATTCAAAAATATA
1 AAAATATTCAAAAA-ATA
* *
937614 AAAA-ATACCAAAAATA
1 AAAATATTCAAAAAATA
937630 AAAAT
1 AAAAT
937635 TTAATTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
16 20 0.61
17 9 0.27
18 4 0.12
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAATATTCAAAAAATA
Found at i:940104 original size:13 final size:13
Alignment explanation
Indices: 940086--940114 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
940076 CCCCAAGATG
940086 TGAAGGTTTATCA
1 TGAAGGTTTATCA
940099 TGAAGGTTTATCA
1 TGAAGGTTTATCA
940112 TGA
1 TGA
940115 CGTCAAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (13 bp):
TGAAGGTTTATCA
Found at i:942976 original size:29 final size:29
Alignment explanation
Indices: 942942--943000 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
942932 CCTAAATTAA
942942 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
942971 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
943000 T
1 T
943001 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:943922 original size:54 final size:54
Alignment explanation
Indices: 943858--943994 Score: 265
Period size: 54 Copynumber: 2.5 Consensus size: 54
943848 GTGAGTAAAT
943858 AAATCTAAGTAATACAAGTTCAAAATTTTGTCATAGGAGCTAATAGTTGATCTA
1 AAATCTAAGTAATACAAGTTCAAAATTTTGTCATAGGAGCTAATAGTTGATCTA
943912 AAATCTAAGTAATACAAGTTCAAAATTTTGTCATAGGAGCTAATAGTTGATCTA
1 AAATCTAAGTAATACAAGTTCAAAATTTTGTCATAGGAGCTAATAGTTGATCTA
*
943966 AAATCCAAGTAATACAAGTTCAAAATTTT
1 AAATCTAAGTAATACAAGTTCAAAATTTT
943995 CATTTTTTTT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 82 1.00
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (54 bp):
AAATCTAAGTAATACAAGTTCAAAATTTTGTCATAGGAGCTAATAGTTGATCTA
Found at i:949375 original size:70 final size:70
Alignment explanation
Indices: 949258--949440 Score: 287
Period size: 70 Copynumber: 2.6 Consensus size: 70
949248 AATTTTTTTT
* *
949258 AAAA-AAAACAATCTCACATGGCTAAGAAACATAGAAGAACATCCCAAAAGTCTAAAGAGTAAAA
1 AAAACAAAACAATCTCACATGACTAAGAAACATAGAATAACATCCCAAAAGTCTAAAGAGTAAAA
949322 ATATG
66 ATATG
* * *
949327 ATAACAAAACAATCTCACATAACTAATAAACATAGAATAACATCCCAAAAGTCTAAAGAGTAAAA
1 AAAACAAAACAATCTCACATGACTAAGAAACATAGAATAACATCCCAAAAGTCTAAAGAGTAAAA
949392 ATATG
66 ATATG
* * *
949397 AAAACCAAACAATCCCACATGACTAAGAAACATAGAATAGCATC
1 AAAACAAAACAATCTCACATGACTAAGAAACATAGAATAACATC
949441 ACAATTGAAT
Statistics
Matches: 102, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
69 3 0.03
70 99 0.97
ACGTcount: A:0.55, C:0.19, G:0.10, T:0.17
Consensus pattern (70 bp):
AAAACAAAACAATCTCACATGACTAAGAAACATAGAATAACATCCCAAAAGTCTAAAGAGTAAAA
ATATG
Found at i:953326 original size:161 final size:162
Alignment explanation
Indices: 953150--953472 Score: 639
Period size: 161 Copynumber: 2.0 Consensus size: 162
953140 TACAAAAAAA
953150 ATGGCAAGCACAAAATAAAATGATAAAAGCATTAAAAAACAAGTGCCCGACATAGGAAAAACTAG
1 ATGGCAAGCACAAAATAAAATGATAAAAGCATTAAAAAACAAGTGCCCGACATAGGAAAAACTAG
953215 CAGAAACTTACATTCACAGTTCAATTTTAGGCACCCAATTCAAAACTGAAATATAAAA-CTCGAC
66 CAGAAACTTACATTCACAGTTCAATTTTAGGCACCCAATTCAAAACTGAAATATAAAACCTCGAC
953279 TCCTTTACACTAAAATGATTTAAACAATAATT
131 TCCTTTACACTAAAATGATTTAAACAATAATT
953311 ATGGCAAGCACAAAATAAAATGATAAAAGCATTAAAAAACAAGTGCCCGACATAGGAAAAACTAG
1 ATGGCAAGCACAAAATAAAATGATAAAAGCATTAAAAAACAAGTGCCCGACATAGGAAAAACTAG
953376 CAGAAACTTACATTCACAGTTCAATTTTAGGCACCCAATTCAAAACTGAAATATAAAACCTCGAC
66 CAGAAACTTACATTCACAGTTCAATTTTAGGCACCCAATTCAAAACTGAAATATAAAACCTCGAC
953441 TCCTTTACACTAAAATGATTTAAACAATAATT
131 TCCTTTACACTAAAATGATTTAAACAATAATT
953473 TATATATTTT
Statistics
Matches: 161, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
161 123 0.76
162 38 0.24
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.23
Consensus pattern (162 bp):
ATGGCAAGCACAAAATAAAATGATAAAAGCATTAAAAAACAAGTGCCCGACATAGGAAAAACTAG
CAGAAACTTACATTCACAGTTCAATTTTAGGCACCCAATTCAAAACTGAAATATAAAACCTCGAC
TCCTTTACACTAAAATGATTTAAACAATAATT
Found at i:961882 original size:26 final size:25
Alignment explanation
Indices: 961853--961919 Score: 98
Period size: 25 Copynumber: 2.6 Consensus size: 25
961843 ACTTCTCCCA
*
961853 TGGTTTATATTGGCATGTTGTTTAGC
1 TGGTTTACA-TGGCATGTTGTTTAGC
*
961879 TGGTTTGCATGGCATGTTGTTTAGC
1 TGGTTTACATGGCATGTTGTTTAGC
*
961904 TGGTTTGCATGGCATG
1 TGGTTTACATGGCATG
961920 CTGAAGATCA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 32 0.82
26 7 0.18
ACGTcount: A:0.13, C:0.10, G:0.31, T:0.45
Consensus pattern (25 bp):
TGGTTTACATGGCATGTTGTTTAGC
Found at i:961893 original size:25 final size:25
Alignment explanation
Indices: 961863--961919 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
961853 TGGTTTATAT
961863 TGGCATGTTGTTTAGCTGGTTTGCA
1 TGGCATGTTGTTTAGCTGGTTTGCA
961888 TGGCATGTTGTTTAGCTGGTTTGCA
1 TGGCATGTTGTTTAGCTGGTTTGCA
961913 TGGCATG
1 TGGCATG
961920 CTGAAGATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.12, C:0.12, G:0.33, T:0.42
Consensus pattern (25 bp):
TGGCATGTTGTTTAGCTGGTTTGCA
Found at i:973545 original size:20 final size:19
Alignment explanation
Indices: 973503--973556 Score: 60
Period size: 21 Copynumber: 2.9 Consensus size: 19
973493 GAGATATAGA
973503 AAAAACAGAAAAAGAAAGT
1 AAAAACAGAAAAAGAAAGT
*
973522 AAAAACAGGAAAAAAGAGAG-
1 AAAAACA-G-AAAAAGAAAGT
973542 AAAAAC--AAAAAGAAA
1 AAAAACAGAAAAAGAAA
973557 AACAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
16 8 0.26
19 7 0.23
20 7 0.23
21 9 0.29
ACGTcount: A:0.76, C:0.06, G:0.17, T:0.02
Consensus pattern (19 bp):
AAAAACAGAAAAAGAAAGT
Found at i:973546 original size:31 final size:27
Alignment explanation
Indices: 973502--973633 Score: 80
Period size: 25 Copynumber: 4.9 Consensus size: 27
973492 AGAGATATAG
*
973502 AAAAAACAGAAAAAGAAAGTAAAAACAGGA
1 AAAAAAGAGAAAAAGAAAG-AAAAACA--A
*
973532 AAAAAGAGAGAAAAACAAAAAGAAAAACAA
1 AAAAA-AGAG-AAAA-AGAAAGAAAAACAA
*
973562 AAAAAAGAGAAAAAG--AG-AAAACAT
1 AAAAAAGAGAAAAAGAAAGAAAAACAA
* * * *
973586 AAGAAAGCGGTAAAA-AAGGAAAAA-AA
1 AAAAAAG-AGAAAAAGAAAGAAAAACAA
973612 GAAAAAAGA-AAAAAG-AAGAAAA
1 -AAAAAAGAGAAAAAGAAAGAAAA
973634 TAGACAGATC
Statistics
Matches: 80, Mismatches: 13, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
24 12 0.15
25 17 0.21
26 2 0.03
27 11 0.14
28 4 0.05
29 4 0.05
30 11 0.14
31 3 0.04
32 11 0.14
33 5 0.06
ACGTcount: A:0.76, C:0.05, G:0.17, T:0.02
Consensus pattern (27 bp):
AAAAAAGAGAAAAAGAAAGAAAAACAA
Found at i:974308 original size:28 final size:28
Alignment explanation
Indices: 974267--974329 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
974257 GCAAGAAGCC
*
974267 AACCTGAAATACATTACCTCCCCAAAAT
1 AACCTGAAACACATTACCTCCCCAAAAT
* *
974295 AACCTGAAGCACATTACCTCCCCAAATT
1 AACCTGAAACACATTACCTCCCCAAAAT
974323 AACCTGA
1 AACCTGA
974330 GCCTTTTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.40, C:0.33, G:0.06, T:0.21
Consensus pattern (28 bp):
AACCTGAAACACATTACCTCCCCAAAAT
Found at i:975837 original size:41 final size:42
Alignment explanation
Indices: 975737--975837 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
975727 TGAGTAAGTT
** * *
975737 CTTCGGGCCATCGGTAAGTCTTTCGAGCATGATGCTTAAATC
1 CTTCGGGCCATCCATAAGTCTTTCGAGCAAGATGCATAAATC
** * *
975779 CTTCGGGTTATCTATAAGTCTTTCGAGCAAGATG-ATAAGTC
1 CTTCGGGCCATCCATAAGTCTTTCGAGCAAGATGCATAAATC
*
975820 TTTCGGGCCATCCATAAG
1 CTTCGGGCCATCCATAAG
975838 ACATTCGGAC
Statistics
Matches: 48, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 19 0.40
42 29 0.60
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.32
Consensus pattern (42 bp):
CTTCGGGCCATCCATAAGTCTTTCGAGCAAGATGCATAAATC
Found at i:976100 original size:41 final size:42
Alignment explanation
Indices: 975998--976100 Score: 99
Period size: 42 Copynumber: 2.5 Consensus size: 42
975988 AAAGAGTAAG
* *
975998 TCCTTCGAGC-CAT-CAGTAAGTCTTTCGAGCATGATGCTTATA
1 TCCTTCG-GCTCATCCA-TAAGTCTTTCGAGCAAGATGCATATA
* *
976040 TCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATG-ATA-A
1 TCCTTCGGCTCATCCATAAGTCTTTCGAGCAAGATGCATATA
976080 GTCCTTCAGGCT-ATCCATAAG
1 -TCCTTC-GGCTCATCCATAAG
976101 ACCTTCGGGC
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
40 1 0.02
41 17 0.33
42 32 0.63
43 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (42 bp):
TCCTTCGGCTCATCCATAAGTCTTTCGAGCAAGATGCATATA
Found at i:976119 original size:263 final size:263
Alignment explanation
Indices: 975652--976170 Score: 835
Period size: 263 Copynumber: 2.0 Consensus size: 263
975642 AACAAAGCTT
* *
975652 GAGGGACCAACGTGATATGTAGGGGTTCCTTATAGACAATTAAGAAACTAAGTTTGATTTTCAAG
1 GAGGGACCAACGTGATATGTAGGGGTTCCTTATAGACAACTAAGAAACTAAGCTTGATTTTCAAG
* ** * * *
975717 GGTTTCTTAGTGAGTAAGTTCTTCGGGCCATCGGTAAGTCTTTCGAGCATGATGCTTAAATCCTT
66 AGTTTCTTAAAGAGTAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTT
* * *
975782 CGGGTTATCTATAAGTCTTTCGAGCAAGATGATAAGTCTTTCGGGCCATCCATAAGACATTCGGA
131 CGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCAGGCCATCCATAAGACATTCGGA
* *
975847 CAGGGTGTTTTCAACATTTCTGATACTCGATTCATCACATAT-AGAGTTGAATCAGCAACACCTC
196 CAGGGTGTTTTCAACATTTCTGATACTCAATTCATCACAAATGA-AGTTGAATCAGCAACACCTC
975911 ACTC
260 ACTC
*
975915 GAGGGACCAACGTGATATGTAGGGGTTCCTTGAT-GACAACTAAGAAACTGAGCTTGATTTTCAA
1 GAGGGACCAACGTGATATGTAGGGGTTCCTT-ATAGACAACTAAGAAACTAAGCTTGATTTTCAA
*
975979 GAGTTTCTTAAAGAGTAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGATGCTTATATCCT
65 GAGTTTCTTAAAGAGTAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCT
* *
976044 TCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCAGGCTATCCATAAGACCTTCGG
130 TCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCAGGCCATCCATAAGACATTCGG
* *
976109 GCAGGGTGTTTTCAACATTTTTGATACTCAATTCATCACAAATGAAGTTGAATCAGCAACAC
195 ACAGGGTGTTTTCAACATTTCTGATACTCAATTCATCACAAATGAAGTTGAATCAGCAACAC
976171 ATCGCTAGAA
Statistics
Matches: 235, Mismatches: 19, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
263 232 0.99
264 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (263 bp):
GAGGGACCAACGTGATATGTAGGGGTTCCTTATAGACAACTAAGAAACTAAGCTTGATTTTCAAG
AGTTTCTTAAAGAGTAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTT
CGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCAGGCCATCCATAAGACATTCGGA
CAGGGTGTTTTCAACATTTCTGATACTCAATTCATCACAAATGAAGTTGAATCAGCAACACCTCA
CTC
Found at i:977014 original size:20 final size:21
Alignment explanation
Indices: 976982--977020 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
976972 TTTATTTTCT
976982 TTCGAGCATAATATATATATA
1 TTCGAGCATAATATATATATA
*
977003 TTCGAG-ATAATATGTATA
1 TTCGAGCATAATATATATA
977021 AAAAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (21 bp):
TTCGAGCATAATATATATATA
Found at i:983481 original size:28 final size:28
Alignment explanation
Indices: 983449--983511 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
983439 GGAGGGGGTT
*
983449 GTTGGGTTACTTGAAACGTGGAGGGGCA
1 GTTGGGTTACTTGAAACGTAGAGGGGCA
** **
983477 GTTGGGTTGTTTGAAACGTAGAGGGGTT
1 GTTGGGTTACTTGAAACGTAGAGGGGCA
983505 GTTGGGT
1 GTTGGGT
983512 ATGAAAGGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.17, C:0.06, G:0.44, T:0.32
Consensus pattern (28 bp):
GTTGGGTTACTTGAAACGTAGAGGGGCA
Found at i:984175 original size:48 final size:47
Alignment explanation
Indices: 984116--984305 Score: 319
Period size: 47 Copynumber: 4.0 Consensus size: 47
984106 TAAGATCTCA
984116 TTTGAAAACATCCTGCACTGAAGGTCTTATGGATAACCCGAAGGCTT
1 TTTGAAAACATCCTGCACTGAAGGTCTTATGGATAACCCGAAGGCTT
* *
984163 TTTGAAAAACATCATGCACTGAAGGTCTTATGGATAACCCTAAGGCTT
1 TTTG-AAAACATCCTGCACTGAAGGTCTTATGGATAACCCGAAGGCTT
*
984211 TTTGAAAACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGCTT
1 TTTGAAAACATCCTGCACTGAAGGTCTTATGGATAACCCGAAGGCTT
* *
984258 TTTGAAAATATCCTGCACTGAAGGTCTTATGGATGACCCGAAGG-TT
1 TTTGAAAACATCCTGCACTGAAGGTCTTATGGATAACCCGAAGGCTT
984304 TT
1 TT
984306 ACAAATTACC
Statistics
Matches: 136, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
46 4 0.03
47 87 0.64
48 45 0.33
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (47 bp):
TTTGAAAACATCCTGCACTGAAGGTCTTATGGATAACCCGAAGGCTT
Found at i:984463 original size:41 final size:42
Alignment explanation
Indices: 984418--984514 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
984408 AGGCTTTACG
* * * *
984418 GATGGCCCTAAGGACTT-ATCATCTTGCTCGAAAGACTGACA
1 GATGGCCCGAAGGACTTAAGCATCATGCTCGAAAGACTAACA
* **
984459 GATGGCCCGGAGGTTTTAAGCATCATGCTCGAAAGACTAACA
1 GATGGCCCGAAGGACTTAAGCATCATGCTCGAAAGACTAACA
*
984501 GATGACCCGAAGGA
1 GATGGCCCGAAGGA
984515 TTTACAAATT
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 13 0.29
42 32 0.71
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.21
Consensus pattern (42 bp):
GATGGCCCGAAGGACTTAAGCATCATGCTCGAAAGACTAACA
Found at i:984491 original size:42 final size:42
Alignment explanation
Indices: 984437--984518 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
984427 AAGGACTTAT
* * * * *
984437 CATCTTGCTCGAAAGACTGACAGATGGCCCGGAGGTTTTAAG
1 CATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTAAG
984479 CATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTA
1 CATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTA
984519 CAAATTTGTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTAAG
Found at i:987878 original size:13 final size:13
Alignment explanation
Indices: 987860--987884 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
987850 AATCAAAAAC
987860 ATCAAATTTAGAA
1 ATCAAATTTAGAA
987873 ATCAAATTTAGA
1 ATCAAATTTAGA
987885 TTTTTGATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (13 bp):
ATCAAATTTAGAA
Found at i:988339 original size:23 final size:22
Alignment explanation
Indices: 988305--988383 Score: 88
Period size: 22 Copynumber: 3.6 Consensus size: 22
988295 CATGGCCTTA
988305 TGCATCGATGCACATTCAAGGCG
1 TGCATCGATGCACATTCAAGG-G
* * *
988328 TGCATCGGTGCACCTTC-ATGG
1 TGCATCGATGCACATTCAAGGG
** *
988349 TGTTTCGATGCACATTCAAGGA
1 TGCATCGATGCACATTCAAGGG
988371 TGCATCGATGCAC
1 TGCATCGATGCAC
988384 TGTTAGGTGT
Statistics
Matches: 44, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
21 14 0.32
22 15 0.34
23 15 0.34
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGG
Found at i:993689 original size:45 final size:47
Alignment explanation
Indices: 993622--993730 Score: 161
Period size: 45 Copynumber: 2.4 Consensus size: 47
993612 CGGTGCACTA
* *
993622 AGAGTGCATCGATGCATGAAATGCATTCGATG-TTTCA-AAATAGC-C
1 AGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-AACTC
993667 AGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAACTC
1 AGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAACTC
*
993714 TGAGTGCATCGATGCAT
1 AGAGTGCATCGATGCAT
993731 AGTATGTGCA
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
45 31 0.53
46 7 0.12
47 20 0.34
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (47 bp):
AGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAACTC
Found at i:994499 original size:249 final size:249
Alignment explanation
Indices: 994061--994667 Score: 1079
Period size: 249 Copynumber: 2.4 Consensus size: 249
994051 TATTTTCAAC
994061 ACTAACAGATGACCCGAAGGATTTACAAATTTGTGGGAAATACTTTACTAGGTAAGAAACTTCTT
1 ACTAACAGATGACCCGAAGGATTTACAAATTTGTGGGAAATACTTTACTAGGTAAGAAACTTCTT
994126 ACTTTTCAAGAATTTGATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCTATCTCATTTT
66 ACTTTTCAAGAATTTGATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCTATCTCATTTT
994191 CATGCGAAAATCATATGTGAACATCCTACCCAAAGGCTTTACAAATGGCCCTAAGGACTTATCAT
131 CATGCGAAAATCATATGTGAACATCCTACCCAAAGGCTTTACAAATGGCCCTAAGGACTTATCAT
*
994256 CTTGCTCGAAAGACTGACAGATAACCTAAAGGTTTTAAGCATCATGCTCGAAAG
196 CTTGCTCGAAAGACTGACAGATAACCCAAAGGTTTTAAGCATCATGCTCGAAAG
994310 ACTAACAGATGACCCGAAGGATTTACAAATTTGTGGGAAATACTTTACTAGGTAAGAAACTTCTT
1 ACTAACAGATGACCCGAAGGATTTACAAATTTGTGGGAAATACTTTACTAGGTAAGAAACTTCTT
994375 ACTTTTCAAGAATTTGATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCTATCTCATTTT
66 ACTTTTCAAGAATTTGATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCTATCTCATTTT
* * **
994440 TATGCGAAAATCATATGTGAACATCTTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATCAT
131 CATGCGAAAATCATATGTGAACATCCTACCCAAAGGCTTTACAAATGGCCCTAAGGACTTATCAT
* *
994505 CTTGCTTGAAAGACTGACAGATGACCCAAAGGTTTTAAGCATCATGCTCGAAAG
196 CTTGCTCGAAAGACTGACAGATAACCCAAAGGTTTTAAGCATCATGCTCGAAAG
* **
994559 ACTAACAGATGACCTGAAAAATTTACAAATTTGTGGGAAATACTTTACTAGGTAAGAAACTTCTT
1 ACTAACAGATGACCCGAAGGATTTACAAATTTGTGGGAAATACTTTACTAGGTAAGAAACTTCTT
* * *
994624 ACTTTTCAAGAATTTCATTTTCTAAAAAAGATTAAATGAGAAAC
66 ACTTTTCAAGAATTTGATTTTCT--AGAACATTAAATGAGAAAC
994668 CTGTTGGTTG
Statistics
Matches: 343, Mismatches: 13, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
249 326 0.95
251 17 0.05
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.30
Consensus pattern (249 bp):
ACTAACAGATGACCCGAAGGATTTACAAATTTGTGGGAAATACTTTACTAGGTAAGAAACTTCTT
ACTTTTCAAGAATTTGATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCTATCTCATTTT
CATGCGAAAATCATATGTGAACATCCTACCCAAAGGCTTTACAAATGGCCCTAAGGACTTATCAT
CTTGCTCGAAAGACTGACAGATAACCCAAAGGTTTTAAGCATCATGCTCGAAAG
Found at i:995878 original size:50 final size:51
Alignment explanation
Indices: 995773--995892 Score: 161
Period size: 50 Copynumber: 2.4 Consensus size: 51
995763 CATACTGGTA
* * * *
995773 TGAGCCTTCAAGATGCCTCACATGGATTACTTCTGTCTTTCTCATGCTGATG
1 TGAGCCTTCAAGATACC-CACACGGATCACTTATGTCTTTCTCATGCTGATG
* * *
995825 TGAGCCTTTAAGATACCCACACGGATCATTTATGTCTTT-TTATGCTGATG
1 TGAGCCTTCAAGATACCCACACGGATCACTTATGTCTTTCTCATGCTGATG
995875 TGAGCCTTCAAGATACCC
1 TGAGCCTTCAAGATACCC
995893 CAGATAGATA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 27 0.45
51 18 0.30
52 15 0.25
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (51 bp):
TGAGCCTTCAAGATACCCACACGGATCACTTATGTCTTTCTCATGCTGATG
Found at i:997427 original size:9 final size:9
Alignment explanation
Indices: 997413--997487 Score: 72
Period size: 9 Copynumber: 8.8 Consensus size: 9
997403 ATTCAATTTC
997413 TTTTTTCTA
1 TTTTTTCTA
997422 TTTTTTCTA
1 TTTTTTCTA
997431 TTTTTTCTA
1 TTTTTTCTA
997440 TTTTTTC--
1 TTTTTTCTA
*
997447 -TTCTT-T-
1 TTTTTTCTA
997453 TTTTTTCTA
1 TTTTTTCTA
*
997462 TTTTTTCTTT
1 TTTTTTC-TA
997472 TCTTTTTCT-
1 T-TTTTTCTA
997481 TTTTTTC
1 TTTTTTC
997488 CCTGATGGAT
Statistics
Matches: 57, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
6 4 0.07
7 4 0.07
8 7 0.12
9 33 0.58
10 3 0.05
11 6 0.11
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTCTA
Found at i:997459 original size:22 final size:20
Alignment explanation
Indices: 997413--997487 Score: 93
Period size: 22 Copynumber: 3.8 Consensus size: 20
997403 ATTCAATTTC
*
997413 TTTTTTCTATTTTTTC--TA
1 TTTTTTCTATTTTTTCTTTT
997431 TTTTTTCTATTTTTTCTTCTTT
1 TTTTTTCTATTTTTTC-T-TTT
997453 TTTTTTCTATTTTTTCTTTT
1 TTTTTTCTATTTTTTCTTTT
*
997473 CTTTTTCT-TTTTTTC
1 TTTTTTCTATTTTTTC
997488 CCTGATGGAT
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
18 16 0.31
19 7 0.14
20 10 0.20
21 1 0.02
22 17 0.33
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTTCTATTTTTTCTTTT
Found at i:997460 original size:31 final size:30
Alignment explanation
Indices: 997409--997486 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 30
997399 CTTGATTCAA
*
997409 TTTCTTTTT-TCTATTTTTTCTATTTTTTCT
1 TTTCTTTTTCT-TTTTTTTTCTATTTTTTCT
997439 ATTT-TTTCTTCTTTTTTTTTCTATTTTTTCT
1 -TTTCTTT-TTCTTTTTTTTTCTATTTTTTCT
997470 TTTCTTTTTCTTTTTTT
1 TTTCTTTTTCTTTTTTT
997487 CCCTGATGGA
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
30 16 0.37
31 26 0.60
32 1 0.02
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (30 bp):
TTTCTTTTTCTTTTTTTTTCTATTTTTTCT
Found at i:1000026 original size:14 final size:14
Alignment explanation
Indices: 1000007--1000056 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
999997 AATAAATGTG
1000007 ATGCAAATATGAAA
1 ATGCAAATATGAAA
* *
1000021 ATGCAAAAATGAGA
1 ATGCAAATATGAAA
*
1000035 ATGCAAATTATG-CA
1 ATGCAAA-TATGAAA
1000049 ATGCAAAT
1 ATGCAAAT
1000057 GCATGTATGC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 1 0.03
14 27 0.87
15 3 0.10
ACGTcount: A:0.52, C:0.10, G:0.16, T:0.22
Consensus pattern (14 bp):
ATGCAAATATGAAA
Found at i:1002385 original size:45 final size:45
Alignment explanation
Indices: 1002314--1002415 Score: 141
Period size: 45 Copynumber: 2.2 Consensus size: 45
1002304 ATACGAGGAA
* *
1002314 AAATATAAAAGAAATAAATAATGTACAACACACAAATATAATCTTT
1 AAATAT-AAAGAAACAAATAATGTACAACAAACAAATATAATCTTT
* * *
1002360 AAATCTAAAGAAACAAATAATGTACAACAAACAAATTTATTCTTT
1 AAATATAAAGAAACAAATAATGTACAACAAACAAATATAATCTTT
*
1002405 CAATATAAAGA
1 AAATATAAAGA
1002416 CATATAATTA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 44 0.90
46 5 0.10
ACGTcount: A:0.57, C:0.12, G:0.05, T:0.26
Consensus pattern (45 bp):
AAATATAAAGAAACAAATAATGTACAACAAACAAATATAATCTTT
Found at i:1003404 original size:24 final size:23
Alignment explanation
Indices: 1003377--1003421 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
1003367 GAATTCTTAA
1003377 ATTAAAATTGCATAAAATAAAAGT
1 ATTAAAATTGCA-AAAATAAAAGT
* *
1003401 ATTAATATTGGAAAAATAAAA
1 ATTAAAATTGCAAAAATAAAA
1003422 ACTTAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (23 bp):
ATTAAAATTGCAAAAATAAAAGT
Found at i:1004196 original size:28 final size:28
Alignment explanation
Indices: 1004165--1004261 Score: 158
Period size: 28 Copynumber: 3.5 Consensus size: 28
1004155 TGTGGTAGAG
1004165 GGGGCTGCTGGGTTACTTGAAACGTGGA
1 GGGGCTGCTGGGTTACTTGAAACGTGGA
1004193 GGGGCTGCTGGGTTACTTGAAACGTGGA
1 GGGGCTGCTGGGTTACTTGAAACGTGGA
* **
1004221 GGGGTTGCTGGGTTGTTTGAAACGTGGA
1 GGGGCTGCTGGGTTACTTGAAACGTGGA
*
1004249 GGGGCTACTGGGT
1 GGGGCTGCTGGGT
1004262 ATGAAAGGTA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.15, C:0.12, G:0.45, T:0.27
Consensus pattern (28 bp):
GGGGCTGCTGGGTTACTTGAAACGTGGA
Found at i:1007074 original size:20 final size:20
Alignment explanation
Indices: 1007051--1007101 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
1007041 CACAGAATGT
* * *
1007051 AAGATTATCAGTGTGAATAA
1 AAGATTACCAATGAGAATAA
1007071 AAGATTACCAATGAGAATAA
1 AAGATTACCAATGAGAATAA
1007091 AAGATTACCAA
1 AAGATTACCAA
1007102 AGAATAGGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.51, C:0.10, G:0.16, T:0.24
Consensus pattern (20 bp):
AAGATTACCAATGAGAATAA
Found at i:1007107 original size:18 final size:19
Alignment explanation
Indices: 1007065--1007107 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
1007055 TTATCAGTGT
1007065 GAATAAAAGATTACCAATGA
1 GAATAAAAGATTACCAA-GA
1007085 GAATAAAAGATTACCAA-A
1 GAATAAAAGATTACCAAGA
1007103 GAATA
1 GAATA
1007108 GGATTACTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 6 0.26
20 17 0.74
ACGTcount: A:0.58, C:0.09, G:0.14, T:0.19
Consensus pattern (19 bp):
GAATAAAAGATTACCAAGA
Found at i:1007275 original size:15 final size:15
Alignment explanation
Indices: 1007257--1007289 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1007247 AAATTCTAAA
1007257 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
1007272 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
1007287 TAT
1 TAT
1007290 ATATGTTAAT
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:1010249 original size:2 final size:2
Alignment explanation
Indices: 1010242--1010292 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
1010232 AATATGAATA
1010242 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1010284 AT AT AT AT A
1 AT AT AT AT A
1010293 AAAGAAAATG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1015068 original size:41 final size:42
Alignment explanation
Indices: 1015022--1015102 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
1015012 ATTTTATAAC
* *
1015022 TTTTAATAG-T-TGAAGACTTAATAAAATAACA-TCTTATAAGT
1 TTTTAATAGATATG-AGACTCAATAAAACAACACTC-TATAAGT
1015063 TTTTAATAGATATGAGACTCAATAAAACAACACTCTATAA
1 TTTTAATAGATATGAGACTCAATAAAACAACACTCTATAA
1015103 ATGTACTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
41 9 0.26
42 22 0.63
43 4 0.11
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.35
Consensus pattern (42 bp):
TTTTAATAGATATGAGACTCAATAAAACAACACTCTATAAGT
Found at i:1019993 original size:17 final size:17
Alignment explanation
Indices: 1019962--1019994 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1019952 TATTATATTA
1019962 TTAAATATAAAAATAAT
1 TTAAATATAAAAATAAT
1019979 TTAAA-ATAAATAATAA
1 TTAAATATAAA-AATAA
1019995 AATAACATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAAATATAAAAATAAT
Found at i:1020298 original size:20 final size:21
Alignment explanation
Indices: 1020273--1020324 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1020263 TTTTCCCAAT
*
1020273 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
1020293 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
1020314 TCGCAATGCGA
1 TCGCAATGCGA
1020325 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:1020338 original size:20 final size:20
Alignment explanation
Indices: 1020313--1020446 Score: 126
Period size: 20 Copynumber: 6.7 Consensus size: 20
1020303 AATTGGGAAA
*
1020313 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
1020333 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
1020353 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
1020374 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
1020394 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* *
1020414 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* *
1020434 TTCACAACGCGAT
1 ATCGCAACGCGAT
1020447 TTACATAGCG
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
19 2 0.02
20 83 0.83
21 13 0.13
22 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:1020357 original size:61 final size:61
Alignment explanation
Indices: 1020310--1020426 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
1020300 GCGAATTGGG
* * * * *
1020310 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
1020371 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
1020427 TCTGACTTTC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:1021011 original size:19 final size:20
Alignment explanation
Indices: 1020966--1021013 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
1020956 TTCGAGAATG
1020966 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGCGGAAATA
**
1020986 ACTATCGCAACGC-GAAATA
1 AAAATCGCAACGCGGAAATA
1021005 AAAATCGCA
1 AAAATCGCA
1021014 TTCGCGTTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.48, C:0.23, G:0.17, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACGCGGAAATA
Found at i:1021071 original size:33 final size:33
Alignment explanation
Indices: 1021029--1021116 Score: 149
Period size: 33 Copynumber: 2.6 Consensus size: 33
1021019 GTTGCGATTT
1021029 TCATTTCGCGTTGCGATTCTCTCGTCACGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCACGATAG
**
1021062 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCACGATAG
1021095 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
1021117 ATTATCTCGT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
33 37 0.71
34 15 0.29
ACGTcount: A:0.12, C:0.27, G:0.22, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCACGATAG
Found at i:1021118 original size:20 final size:20
Alignment explanation
Indices: 1021084--1021141 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
1021074 GCGATTCTCT
**
1021084 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
1021104 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
1021124 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
1021142 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:1023310 original size:21 final size:21
Alignment explanation
Indices: 1023286--1023436 Score: 56
Period size: 21 Copynumber: 7.2 Consensus size: 21
1023276 TCATTCCTTG
1023286 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** *
1023307 AGAGGCCACTGTCATCC-CTCA
1 AGAGTCCCCTCCCA-CCGTTCA
* * * *
1023328 AGAGTCCACTCCTATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
* ** ** *
1023349 AGAGGCCCCTATCA-TTTCTCG
1 AGAGTCCCCTCCCACCGT-TCA
1023370 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
1023391 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
1023412 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
1023433 AGAG
1 AGAG
1023437 CCCGATTCAC
Statistics
Matches: 85, Mismatches: 40, Indels: 11
0.62 0.29 0.08
Matches are distributed among these distances:
20 3 0.04
21 78 0.92
22 4 0.05
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.22
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:1023310 original size:42 final size:42
Alignment explanation
Indices: 1023244--1023436 Score: 176
Period size: 42 Copynumber: 4.6 Consensus size: 42
1023234 TCATCCTTCA
* * * * *
1023244 AGAGTCCACTCCTATCGTTAAAGAGGCC-CTTATCATTCCTTG
1 AGAGTCCCCTCCCACCGTTCAAGAGGCCAC-TATCATTCCTCG
* * *
1023286 AGAGTCCCCTCCCACCGTTCAAGAGGCCACTGTCATCCCTCA
1 AGAGTCCCCTCCCACCGTTCAAGAGGCCACTATCATTCCTCG
* * * * * *
1023328 AGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTTCTCG
1 AGAGTCCCCTCCCACCGTTCAAGAGGCCACTATCATTCCTCG
* * *
1023370 AGAGTCCCCTCCCACCGTTCAAGAGGCCACTGTCA-TCGTTG
1 AGAGTCCCCTCCCACCGTTCAAGAGGCCACTATCATTCCTCG
*
1023411 AAGAGGT-CCCTCCCACCATTCAAGAG
1 -AGA-GTCCCCTCCCACCGTTCAAGAG
1023437 CCCGATTCAC
Statistics
Matches: 121, Mismatches: 27, Indels: 6
0.79 0.18 0.04
Matches are distributed among these distances:
41 3 0.02
42 115 0.95
43 3 0.02
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.24
Consensus pattern (42 bp):
AGAGTCCCCTCCCACCGTTCAAGAGGCCACTATCATTCCTCG
Found at i:1023415 original size:84 final size:84
Alignment explanation
Indices: 1023231--1023423 Score: 307
Period size: 84 Copynumber: 2.3 Consensus size: 84
1023221 CCAGACTCGC
* *
1023231 CTGTCATCCTTCAAGAGTCCACTCCTATCGTTAAAGAGGCCCTTATCATTCCTTGAGAGTCCCCT
1 CTGTCATCCTTCAAGAGTCCACTCCTATCGTTAAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1023296 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
* * *
1023315 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTTCTCGAGAGTCCCCT
1 CTGTCATCCTTCAAGAGTCCACTCCTATCGTTAAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1023380 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
* *
1023399 CTGTCATCGTTGAAGAGGTCC-CTCC
1 CTGTCATCCTTCAAGA-GTCCACTCC
1023424 CACCATTCAA
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
84 96 0.96
85 4 0.04
ACGTcount: A:0.21, C:0.35, G:0.18, T:0.25
Consensus pattern (84 bp):
CTGTCATCCTTCAAGAGTCCACTCCTATCGTTAAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Done.