Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1092
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: 788722
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:550065 original size:15 final size:16
Alignment explanation
Indices: 550045--550075 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
550035 TTATTACCAG
550045 TTGAAA-TTTAATTAA
1 TTGAAACTTTAATTAA
550060 TTGAAACTTTAATTAA
1 TTGAAACTTTAATTAA
550076 CATGTTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (16 bp):
TTGAAACTTTAATTAA
Found at i:551333 original size:32 final size:32
Alignment explanation
Indices: 551296--551378 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 32
551286 TTTGGGAAGA
* * *
551296 AAATGTATCAATACATTTTGGGTTTTTGATCC
1 AAATGTATCAATACATTCTAGGTTTTTGACCC
*
551328 AAATGTCT-AGATACATTCTAGGTTTTTGACCC
1 AAATGTATCA-ATACATTCTAGGTTTTTGACCC
*
551360 AAATGTATCGATACATTCT
1 AAATGTATCAATACATTCT
551379 TTAATGTATC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
31 1 0.02
32 42 0.98
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (32 bp):
AAATGTATCAATACATTCTAGGTTTTTGACCC
Found at i:553024 original size:38 final size:38
Alignment explanation
Indices: 552973--553066 Score: 188
Period size: 38 Copynumber: 2.5 Consensus size: 38
552963 TTCAAGCCTA
552973 AGCTGTCTAGAACCCTTAGAATCAACAAAATGTATTCT
1 AGCTGTCTAGAACCCTTAGAATCAACAAAATGTATTCT
553011 AGCTGTCTAGAACCCTTAGAATCAACAAAATGTATTCT
1 AGCTGTCTAGAACCCTTAGAATCAACAAAATGTATTCT
553049 AGCTGTCTAGAACCCTTA
1 AGCTGTCTAGAACCCTTA
553067 CAATTTTTGC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 56 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (38 bp):
AGCTGTCTAGAACCCTTAGAATCAACAAAATGTATTCT
Found at i:557270 original size:52 final size:52
Alignment explanation
Indices: 557208--557306 Score: 144
Period size: 52 Copynumber: 1.9 Consensus size: 52
557198 AATAAACTAG
****
557208 ATGTATTGATACATTTTTCAATGTATCGATACACCTGGGTAAAAAAAACAGA
1 ATGTATTGATACATTGAAAAATGTATCGATACACCTGGGTAAAAAAAACAGA
* *
557260 ATGTATTGATACGTTGAAAAATGTATCGATACATCTGGGTAAAAAAA
1 ATGTATTGATACATTGAAAAATGTATCGATACACCTGGGTAAAAAAA
557307 TGTATCGATA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 41 1.00
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.30
Consensus pattern (52 bp):
ATGTATTGATACATTGAAAAATGTATCGATACACCTGGGTAAAAAAAACAGA
Found at i:558757 original size:143 final size:144
Alignment explanation
Indices: 558491--558763 Score: 351
Period size: 143 Copynumber: 1.9 Consensus size: 144
558481 AAAAAAGACA
* *
558491 TAAAATTGCAAAATGGTACCTACATGATTAAAGTGCATGAAATGTACCAAAATGACCAAAACACC
1 TAAAATTGCAAAATGATACCTACATGATTAAAGTGCATGAAATGTACAAAAATGACCAAAACACC
*
558556 ATAAATGGATGACCTTATGAAGAAAATGACATAAATTGCCCTAACATGAACAAATTTGCTAAAAA
66 ATAAATGGATGACCTTATGAAGAAAATGACATAAATAGCCCTAACATGAACAAATTTGCTAAAAA
558621 GTCTCAAAACTTTC
131 GTCTCAAAACTTTC
* *
558635 TAAAATTGCAAAATGAT-CCGTACGTGATTAAAAGTG-ATG-AATGTATAAAAATGACC-AAACA
1 TAAAATTGCAAAATGATACC-TACATGATT-AAAGTGCATGAAATGTACAAAAATGACCAAAACA
* * * * * * *
558696 CCTTAAATGGGTGA-CTTTTTAATTGAAAATGACCTAAATAGCCTTAACATTGAA-AAGTTTGCT
64 CCATAAATGGATGACCTTATGAA--GAAAATGACATAAATAGCCCTAACA-TGAACAAATTTGCT
558759 AAAAA
126 AAAAA
558764 ACCCCTACAC
Statistics
Matches: 112, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
141 6 0.05
142 17 0.15
143 52 0.46
144 31 0.28
145 6 0.05
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.26
Consensus pattern (144 bp):
TAAAATTGCAAAATGATACCTACATGATTAAAGTGCATGAAATGTACAAAAATGACCAAAACACC
ATAAATGGATGACCTTATGAAGAAAATGACATAAATAGCCCTAACATGAACAAATTTGCTAAAAA
GTCTCAAAACTTTC
Found at i:559781 original size:21 final size:21
Alignment explanation
Indices: 559749--559793 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
559739 AAAAGTACCC
*
559749 AAAAATTGAATTCTA-ATTAA
1 AAAAATTAAATTCTATATTAA
*
559769 AAAAATTAAAATTCTATATTTA
1 AAAAATT-AAATTCTATATTAA
559791 AAA
1 AAA
559794 TATATGACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 7 0.33
22 7 0.33
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (21 bp):
AAAAATTAAATTCTATATTAA
Found at i:559936 original size:14 final size:14
Alignment explanation
Indices: 559901--559936 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
559891 AAAAATATTT
559901 GTAAAAAATGAAAA
1 GTAAAAAATGAAAA
**
559915 GTTTAAAATGAAAA
1 GTAAAAAATGAAAA
559929 GTAAAAAA
1 GTAAAAAA
559937 AAAATCAAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.14, T:0.19
Consensus pattern (14 bp):
GTAAAAAATGAAAA
Found at i:560943 original size:13 final size:13
Alignment explanation
Indices: 560925--560951 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
560915 ACATTATGCT
560925 TTGTATCGATACA
1 TTGTATCGATACA
560938 TTGTATCGATACA
1 TTGTATCGATACA
560951 T
1 T
560952 GGACAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:567213 original size:13 final size:13
Alignment explanation
Indices: 567195--567234 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
567185 ACAATATTCC
567195 TTATATCGATACA
1 TTATATCGATACA
567208 TTATATCGATACA
1 TTATATCGATACA
*
567221 TTGTATCGATACA
1 TTATATCGATACA
567234 T
1 T
567235 GGGTTACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (13 bp):
TTATATCGATACA
Found at i:569767 original size:13 final size:13
Alignment explanation
Indices: 569749--569773 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
569739 ATTATGCTTT
569749 GTATCGATACATA
1 GTATCGATACATA
569762 GTATCGATACAT
1 GTATCGATACAT
569774 GATTATTATA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
GTATCGATACATA
Found at i:569807 original size:20 final size:20
Alignment explanation
Indices: 569762--569813 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
569752 TCGATACATA
*
569762 GTATCGATACAT-GATTATT
1 GTATCGATACATGGATAATT
*
569781 ATATCGATACATGGATAATT
1 GTATCGATACATGGATAATT
569801 GTATCGATACATG
1 GTATCGATACATG
569814 AAACTGGCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.37
Consensus pattern (20 bp):
GTATCGATACATGGATAATT
Found at i:569867 original size:20 final size:20
Alignment explanation
Indices: 569842--569895 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
569832 CTACCACTGT
* *
569842 TTGTATCAATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
569862 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
569882 TTGTATCGATACAT
1 TTGTATCGATACAT
569896 TACTTCTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:571141 original size:13 final size:13
Alignment explanation
Indices: 571123--571149 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
571113 ACATGCTGCC
571123 TTGTATCGATACA
1 TTGTATCGATACA
571136 TTGTATCGATACA
1 TTGTATCGATACA
571149 T
1 T
571150 GTTCAATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:571161 original size:19 final size:21
Alignment explanation
Indices: 571135--571190 Score: 80
Period size: 19 Copynumber: 2.8 Consensus size: 21
571125 GTATCGATAC
**
571135 ATTGTATCGATACATGTTC-A
1 ATTGTATCGATACATGGACAA
571155 A-TGTATCGATACATGGACAA
1 ATTGTATCGATACATGGACAA
571175 ATTGTATCGATACATG
1 ATTGTATCGATACATG
571191 AAATTGGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 15 0.47
20 3 0.09
21 14 0.44
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (21 bp):
ATTGTATCGATACATGGACAA
Found at i:571182 original size:21 final size:20
Alignment explanation
Indices: 571135--571292 Score: 85
Period size: 20 Copynumber: 7.8 Consensus size: 20
571125 GTATCGATAC
**
571135 ATTGTATCGATACATGTTCA
1 ATTGTATCGATACATGGACA
571155 A-TGTATCGATACATGGACAA
1 ATTGTATCGATACATGGAC-A
571175 ATTGTATCGATACAT-GA-A
1 ATTGTATCGATACATGGACA
* * *
571193 ATTGGTAGTAGCTACCCTAT-CACTA
1 ATT-GTA-TCGATA--C-ATGGAC-A
* *
571218 TTTGTATCGATACATGGTATA
1 ATTGTATCGATACATGG-ACA
*
571239 A-TGTATCGATACATGGTATA
1 ATTGTATCGATACATGG-ACA
* *
571259 A-TGTATCGATACATGAAGA
1 ATTGTATCGATACATGGACA
* *
571278 AATGTATTGATACAT
1 ATTGTATCGATACAT
571293 AGCTTGTAAC
Statistics
Matches: 112, Mismatches: 14, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
18 4 0.04
19 21 0.19
20 57 0.51
21 15 0.13
22 2 0.02
23 7 0.06
24 3 0.03
25 3 0.03
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:571284 original size:20 final size:20
Alignment explanation
Indices: 571220--571273 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
571210 TATCACTATT
571220 TGTATCGATACATGGTATAA
1 TGTATCGATACATGGTATAA
571240 TGTATCGATACATGGTATAA
1 TGTATCGATACATGGTATAA
571260 TGTATCGATACATG
1 TGTATCGATACATG
571274 AAGAAATGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATGGTATAA
Found at i:574108 original size:13 final size:13
Alignment explanation
Indices: 574090--574114 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
574080 TTCAACGATT
574090 TGTATCGATACAA
1 TGTATCGATACAA
574103 TGTATCGATACA
1 TGTATCGATACA
574115 TAAGTGTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:574127 original size:19 final size:19
Alignment explanation
Indices: 574103--574152 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
574093 ATCGATACAA
574103 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
574122 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
574141 TGTATCGATACA
1 TGTATCGATACA
574153 ATGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:574223 original size:13 final size:13
Alignment explanation
Indices: 574205--574229 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
574195 ATTACTCAAA
574205 TGTATCGATACAT
1 TGTATCGATACAT
574218 TGTATCGATACA
1 TGTATCGATACA
574230 CTAATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:574282 original size:52 final size:52
Alignment explanation
Indices: 574238--574366 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
574228 CACTAATCTT
574238 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
574290 TGTATCGATACATACAGGTAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
574342 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
574367 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:575256 original size:20 final size:20
Alignment explanation
Indices: 575219--575257 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
575209 ACAACCTTGA
*
575219 TCATGCATTTTTACCATGTT
1 TCATGCATTTATACCATGTT
*
575239 TCATGCATTTATAGCATGT
1 TCATGCATTTATACCATGT
575258 CCAACACCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (20 bp):
TCATGCATTTATACCATGTT
Found at i:581416 original size:15 final size:17
Alignment explanation
Indices: 581397--581456 Score: 63
Period size: 18 Copynumber: 3.6 Consensus size: 17
581387 TTTTCATGTA
581397 AAATAA-AAAAATCAA-
1 AAATAATAAAAATCAAG
* * *
581412 AAATAATAATATTCAAT
1 AAATAATAAAAATCAAG
581429 ATAATAATAAAAATCAAG
1 A-AATAATAAAAATCAAG
581447 AAATAA-AAAA
1 AAATAATAAAA
581457 TTTTAAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
15 6 0.16
16 11 0.30
17 6 0.16
18 14 0.38
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.22
Consensus pattern (17 bp):
AAATAATAAAAATCAAG
Found at i:596061 original size:42 final size:42
Alignment explanation
Indices: 595998--597447 Score: 1082
Period size: 42 Copynumber: 34.7 Consensus size: 42
595988 TTTTTTGTTT
* * *
595998 TCCCTTAGTCAGCCTATCGGCTTTGACCCTGGAGACTTTTCAA
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-A
* * * *
596041 T-CCTCAATCTGCCTGTCGGCTTCGTCCCTAGAGACTTTCTC-
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT-TCA
* * * * ** * *
596082 TCCCTTAGTCTGCCTATCGGCTTCGTCCCTAAAGATTTTTCT
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * * * * * *
596124 TCCCTCAGTCTGCCCGTCAGCCTTGACCTTAGAGACTTTCCT
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * *
596166 TCCTTTCAGTCTGCCTATCGGCTTTGACCCTAGAGACTTTTCAA
1 TCC-CTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-A
* * * *
596210 T-CCTCAGTCTGTCTGTCGGCTTCT-TCCCTAGAGAC-TTTCTT
1 TCCCTCAGTCTGCCTGTCGGCTT-TGACCCTGGAGACTTTTC-A
* * *
596251 TCCCTTAGTCTGCCTGTCAGCTTTGACCCTGGAGATTTTTCA
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * * * *
596293 TCCCTTAGTCTGCTTGTCGG-TTTAACCCTGGACAC-TTTCC
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * *
596333 TACCTTCAGTCTGCCTGTCAGCTTTGACCTTGGAGACTTTTCA
1 T-CCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * * ** *
596376 TCCCTTAGTCTGCCTATCGGCTTTGACCTTACAAACTTTTCA
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * * *
596418 ACCCTCAGTCTGCCTGTCGG-TTTAACCCTGGAGACTTTCCT
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
*
596459 TCCCTCAGTCTGCCTATCGGCTTTGACCCTGGAGACTTTTCA
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * * * * * *
596501 TCCCTTAGCCTACCTGT-GGGTTTAACCTTGGAGAC-TTTCC
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * *
596541 TACCTTCAGTCTGCCTGTTGGCTTTGACCTTGGAGACTTTTTCA
1 T-CCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTTTCA
* * * * *
596585 TCCCTTAGTCTGCCTGTTGG-TTTAACCCTAGAGAC-TTTCC
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * * * *
596625 TGCCTTCAGTCTACCTATCAGCTTTGACCCTAGAGACTTTTCA
1 T-CCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * * * *
596668 TCCCTTAGTCTGCCTGTCGG-TTTCGTCCCTAGAGACTTTCCT
1 TCCCTCAGTCTGCCTGTCGGCTTT-GACCCTGGAGACTTTTCA
* * *
596710 TCCCTCAGCCTGCCTGTCGGCTTTGACCCTGGAGATTTTTCTT
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-A
* * * * *
596753 TCCCTAAGTCTGCTTGTCGACTTTGTCCCTAGAGAC-TTTCTA
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-A
* * **
596795 TCCCTTAGTCTGCCTGTCGACTTTGACCCCAGAGACTTTTCA
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * * * * *
596837 ACCCTTAATCTGCCTGTCGG-TTTCGTCCTTGGAGACTTTTCT
1 TCCCTCAGTCTGCCTGTCGGCTTT-GACCCTGGAGACTTTTCA
* * * *
596879 TCCCTCAGTCTGCCTGTTGGCTTTGACCCTAGAGATTTTTCTT
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-A
* * *
596922 TCCCT-A--ATGCTTGTTGGCTTTGACCCTGGAGACTTTTCA
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * * *
596961 TCCCTTAGTCTGCCTGTCGG-TTTAACCCTGAAGAC-TTTCC
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
** * * *
597001 TACTTTTAGTTTGCCTGTTGGCTTTGACCCTGGAGACTTTTCA
1 T-CCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * * * * * *
597044 TCCCTTAGTCTGCTTGTCGG-TTTCGTCTCTGGAGGCTTTCCT
1 TCCCTCAGTCTGCCTGTCGGCTTT-GACCCTGGAGACTTTTCA
* * * * * *
597086 TCCCTTAGTTTGCCTGTCGACTTTGACCTTGGAGATTTTTCTT
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-A
* * *
597129 TCCCTAAGTCTGCTTGTCGGCTTTGTCCCTGGAGAC-TTTCTA
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-A
* * *
597171 TCCCTTAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTTCA
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * * * **
597213 ACCCTCAGTCTGCCTGTTGG-TTTAACCTTAAAGACTTTTCA
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * * * * * **
597254 ACCCTTAGTCTGCTTATCGG-TTTAACCTTGGAGACTTTTTT
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * *
597295 TCCCTCAGTCTGCCTATCGG--TTAACCCTGGAGAC-TTTCTT
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-A
* ** * *
597335 TCCCTCAGTCTGCCTGTCGACTTTGACTTTGGAGACTTTCCT
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
* * * * *
597377 TCCCTCAGTCTGCCTATCTGCTTTGTCCCTAGAGACTTTTCTT
1 TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTC-A
* * * *
597420 TCCCTAAGTCTGCCCGTTGGTTTTGACC
1 TCCCTCAGTCTGCCTGTCGGCTTTGACC
597448 TGGGAGAATA
Statistics
Matches: 1125, Mismatches: 240, Indels: 84
0.78 0.17 0.06
Matches are distributed among these distances:
39 8 0.01
40 81 0.07
41 214 0.19
42 636 0.57
43 180 0.16
44 6 0.01
ACGTcount: A:0.14, C:0.30, G:0.18, T:0.38
Consensus pattern (42 bp):
TCCCTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCA
Found at i:596985 original size:376 final size:378
Alignment explanation
Indices: 595996--597442 Score: 1363
Period size: 376 Copynumber: 3.8 Consensus size: 378
595986 TCTTTTTTGT
* * * * * * * * *
595996 TTTCCCTTAGTCAGCCTATCGGCTTTGACCCTGGAGACTTTTCAAT-CCTCAATCTGCCTGTCGG
1 TTTCCCTAAGTCTGCTTGTCGGCTTTGTCCCTAGAGAC-TTTCTATCCCTTAGTCTGCCTGTCGG
* * * * * * * *
596060 CTTCGTCCCTAGAGACTTTCTC-TCCCTTAGTCTGCCTATCGGCTTCGTCCCTAAAGATTTTTCT
65 CTTTGACCCTAGAGACTTT-TCAACCCTCAGTCTGCCTATCGG-TTTGACCCTAAAGACTTTTCA
* * * * * * *
596124 TCCCTCAGTCTGCCCGTCAGCCTTGACCTTAGAGA-CTTTCCTTCCTTTCAGTCTGCCTATCGGC
128 TCCCTCAGTCTGCCTGTCGGCTTTAACCTTAGAGATTTTTCTTTCC-CTCAG-CTGCCTATCGGC
* * * *
596188 TTTGACCCTAGAGACTTTTCAAT-CCTCAGTCTGTCTGTCGGCTTCT-TCCCTAGAGACTTTCTT
191 TTTGACCCTGGAGACTTTTCAATCCCTCAGTCTGCCTGTCGG-TT-TAACCCTAGAGACTTTC-C
* * * * *
596251 TCCCTT-AGTCTGCCTGTCAGCTTTGACCCTGGAGATTTTTCATCCCTTAGTCTGCTTGTCGGTT
253 TACCTTCAGTCTGCCTATCAGCTTTGACCCTAGAGACTTTTCATCCCTTAGTCTGCCTGTCGGTT
** * * * * *
596315 T-AACCCTGGACACTTTCCTACCTTCAGTCTGCCTGTCAGCTTTGACCTTGGAGACTTTTC
318 TCGTCCCTGGAGACTTTCCTTCCCTCAGTCTGCCTGTCGGCTTTGACCTTGGAGATTTTTC
* * * * * * * * * *
596375 -ATCCCTTAGTCTGCCTATCGGCTTTGACCTTACAAACTTT-TCAACCCTCAGTCTGCCTGTCGG
1 TTTCCCTAAGTCTGCTTGTCGGCTTTGTCCCTAGAGACTTTCT-ATCCCTTAGTCTGCCTGTCGG
* * * ** **
596438 -TTTAACCCTGGAGACTTTCCTTCCCTCAGTCTGCCTATCGGCTTTGACCCTGGAGACTTTTCAT
65 CTTTGACCCTAGAGACTTTTCAACCCTCAGTCTGCCTATCGG-TTTGACCCTAAAGACTTTTCAT
* * * * * * * * * * *
596502 CCCTTAGCCTACCTGT-GGGTTTAACCTTGGAGA-CTTTCCTACCTTCAGTCTGCCTGTTGGCTT
129 CCCTCAGTCTGCCTGTCGGCTTTAACCTTAGAGATTTTTCTTTCCCTCAG-CTGCCTATCGGCTT
* * * *
596565 TGACCTTGGAGACTTTTTC-ATCCCTTAGTCTGCCTGTTGGTTTAACCCTAGAGACTTTCCTGCC
193 TGACCCTGGAGAC-TTTTCAATCCCTCAGTCTGCCTGTCGGTTTAACCCTAGAGACTTTCCTACC
*
596629 TTCAGTCTACCTATCAGCTTTGACCCTAGAGACTTTTCATCCCTTAGTCTGCCTGTCGGTTTCGT
257 TTCAGTCTGCCTATCAGCTTTGACCCTAGAGACTTTTCATCCCTTAGTCTGCCTGTCGGTTTCGT
* * *
596694 CCCTAGAGACTTTCCTTCCCTCAGCCTGCCTGTCGGCTTTGACCCTGGAGATTTTTC
322 CCCTGGAGACTTTCCTTCCCTCAGTCTGCCTGTCGGCTTTGACCTTGGAGATTTTTC
* *
596751 TTTCCCTAAGTCTGCTTGTCGACTTTGTCCCTAGAGACTTTCTATCCCTTAGTCTGCCTGTCGAC
1 TTTCCCTAAGTCTGCTTGTCGGCTTTGTCCCTAGAGACTTTCTATCCCTTAGTCTGCCTGTCGGC
* * * * * * ** *
596816 TTTGACCCCAGAGACTTTTCAACCCTTAATCTGCCTGTCGGTTTCGTCCTTGGAGACTTTTCTTC
66 TTTGACCCTAGAGACTTTTCAACCCTCAGTCTGCCTATCGGTTT-GACCCTAAAGACTTTTCATC
* * * * * * *
596881 CCTCAGTCTGCCTGTTGGCTTTGACCCTAGAGATTTTTCTTTCCCT-A-ATGCTTGTTGGCTTTG
130 CCTCAGTCTGCCTGTCGGCTTTAACCTTAGAGATTTTTCTTTCCCTCAGCTGCCTATCGGCTTTG
* *
596944 ACCCTGGAGACTTTTC-ATCCCTTAGTCTGCCTGTCGGTTTAACCCT-GAAGACTTTCCTACTTT
195 ACCCTGGAGACTTTTCAATCCCTCAGTCTGCCTGTCGGTTTAACCCTAG-AGACTTTCCTACCTT
* * * ** * * *
597007 TAGTTTGCCTGTTGGCTTTGACCCTGGAGACTTTTCATCCCTTAGTCTGCTTGTCGGTTTCGTCT
259 CAGTCTGCCTATCAGCTTTGACCCTAGAGACTTTTCATCCCTTAGTCTGCCTGTCGGTTTCGTCC
* * * *
597072 CTGGAGGCTTTCCTTCCCTTAGTTTGCCTGTCGACTTTGACCTTGGAGATTTTTC
324 CTGGAGACTTTCCTTCCCTCAGTCTGCCTGTCGGCTTTGACCTTGGAGATTTTTC
*
597127 TTTCCCTAAGTCTGCTTGTCGGCTTTGTCCCTGGAGACTTTCTATCCCTTAGTCTGCCTGTCGGC
1 TTTCCCTAAGTCTGCTTGTCGGCTTTGTCCCTAGAGACTTTCTATCCCTTAGTCTGCCTGTCGGC
* * * * * *
597192 TTTGACCTTAGAGACTTTTCAACCCTCAGTCTGCCTGTTGGTTTAACCTTAAAGACTTTTCAACC
66 TTTGACCCTAGAGACTTTTCAACCCTCAGTCTGCCTATCGGTTTGACCCTAAAGACTTTTCATCC
* * * * * *
597257 CTTAGTCTGCTTATCGG-TTTAACCTTGGAGACTTTT-TTTCCCTCAGTCTGCCTATCGG--TTA
131 CTCAGTCTGCCTGTCGGCTTTAACCTTAGAGATTTTTCTTTCCCTCAG-CTGCCTATCGGCTTTG
** * * ** * * *
597318 ACCCTGGAGAC-TTTCTTTCCCTCAGTCTGCCTGTCGACTTTGACTTTGGAGACTTTCCTTCCCT
195 ACCCTGGAGACTTTTCAATCCCTCAGTCTGCCTGTCG-GTTTAACCCTAGAGACTTTCCTACCTT
* * * * * *
597382 CAGTCTGCCTATCTGCTTTGTCCCTAGAGACTTTTCTTTCCCTAAGTCTGCCCGTTGGTTT
259 CAGTCTGCCTATCAGCTTTGACCCTAGAGACTTTTC-ATCCCTTAGTCTGCCTGTCGGTTT
597443 TGACCTGGGA
Statistics
Matches: 885, Mismatches: 161, Indels: 47
0.81 0.15 0.04
Matches are distributed among these distances:
373 11 0.01
374 53 0.06
375 177 0.20
376 370 0.42
377 142 0.16
378 110 0.12
379 14 0.02
380 8 0.01
ACGTcount: A:0.14, C:0.30, G:0.18, T:0.38
Consensus pattern (378 bp):
TTTCCCTAAGTCTGCTTGTCGGCTTTGTCCCTAGAGACTTTCTATCCCTTAGTCTGCCTGTCGGC
TTTGACCCTAGAGACTTTTCAACCCTCAGTCTGCCTATCGGTTTGACCCTAAAGACTTTTCATCC
CTCAGTCTGCCTGTCGGCTTTAACCTTAGAGATTTTTCTTTCCCTCAGCTGCCTATCGGCTTTGA
CCCTGGAGACTTTTCAATCCCTCAGTCTGCCTGTCGGTTTAACCCTAGAGACTTTCCTACCTTCA
GTCTGCCTATCAGCTTTGACCCTAGAGACTTTTCATCCCTTAGTCTGCCTGTCGGTTTCGTCCCT
GGAGACTTTCCTTCCCTCAGTCTGCCTGTCGGCTTTGACCTTGGAGATTTTTC
Found at i:603406 original size:3 final size:3
Alignment explanation
Indices: 603398--603456 Score: 64
Period size: 3 Copynumber: 19.7 Consensus size: 3
603388 GATTTTCTCC
* * * * * *
603398 AAG AAG AAG AAG AAG AGG AGG AGG ACG AGG AAG ATG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
603446 AAG AAG AAG AA
1 AAG AAG AAG AA
603457 TCATCTTACG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.58, C:0.02, G:0.39, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:604685 original size:23 final size:24
Alignment explanation
Indices: 604640--604685 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
604630 TTGCTACTTA
* *
604640 GTGACAATTTTTAAATCCTTTTTC
1 GTGACAACTTTAAAATCCTTTTTC
604664 GTGACAACTTTAAAATCCTTTT
1 GTGACAACTTTAAAATCCTTTT
604686 GCAGATCCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.46
Consensus pattern (24 bp):
GTGACAACTTTAAAATCCTTTTTC
Found at i:608091 original size:185 final size:184
Alignment explanation
Indices: 607779--608148 Score: 695
Period size: 185 Copynumber: 2.0 Consensus size: 184
607769 GTGAATCTCC
* *
607779 TATCTACTAGAGAGCTAGCGTAGTCTGCTTCTGTTTAGGCTTCTAGTGTCACCCCTATATTTCTT
1 TATCTACTAGAGAGCTAGCGTAGTCTGCTTCTGTTTAAGCTTCTAGTGTCACCCCGATATTTCTT
* *
607844 CGAAATAGTATTCCTTTCAGGATTGGCTATTAGGTAATGCAGAATTTTGTAGACAACTTGTAGGT
66 CAAAATAGTATTCCTTTCAGGATTGGCTATTAGGTAATGCAGAATTCTGTAGACAACTTGTAGGT
607909 GAACTTCTTTAGGACTGTGCATGAACTGGCTTACTACACTTACCAGTATAGGCTA
131 GAACTTCTTTAGGACTGTGCATGAACTGGCTTACTACACTTACC-GTATAGGCTA
607964 TATCTACTAGAGAGCTAGCGTAGTCTGCTTCTGTTTAAGCTTCTAGTGTCACCCCGATATTTCTT
1 TATCTACTAGAGAGCTAGCGTAGTCTGCTTCTGTTTAAGCTTCTAGTGTCACCCCGATATTTCTT
608029 CAAAATAGTATTCCTTTCAGGATTGGCTATTAGGTAATGCAGAATTCTGTAGACAACTTGTAGGT
66 CAAAATAGTATTCCTTTCAGGATTGGCTATTAGGTAATGCAGAATTCTGTAGACAACTTGTAGGT
608094 GAACTTCTTTAGGACTGTGCATGAACTGGCTTACTACACTTACCGTATAGGCTA
131 GAACTTCTTTAGGACTGTGCATGAACTGGCTTACTACACTTACCGTATAGGCTA
608148 T
1 T
608149 GTCTGGTCTG
Statistics
Matches: 181, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
184 11 0.06
185 170 0.94
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (184 bp):
TATCTACTAGAGAGCTAGCGTAGTCTGCTTCTGTTTAAGCTTCTAGTGTCACCCCGATATTTCTT
CAAAATAGTATTCCTTTCAGGATTGGCTATTAGGTAATGCAGAATTCTGTAGACAACTTGTAGGT
GAACTTCTTTAGGACTGTGCATGAACTGGCTTACTACACTTACCGTATAGGCTA
Found at i:613299 original size:20 final size:20
Alignment explanation
Indices: 613271--613312 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
613261 TAAAATTTGC
*
613271 ACCTATAATCATCGACTTCT
1 ACCTATAATCATCAACTTCT
*
613291 ACCTGTAATCATCAACTTCT
1 ACCTATAATCATCAACTTCT
613311 AC
1 AC
613313 TTACAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.05, T:0.33
Consensus pattern (20 bp):
ACCTATAATCATCAACTTCT
Found at i:616762 original size:22 final size:23
Alignment explanation
Indices: 616737--616779 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
616727 ATGAAAAGCT
*
616737 ACAGAAAGAG-GAAAGAAAAAGG
1 ACAGAAAGAGTGAAAAAAAAAGG
*
616759 ACAGAGAGAGTGAAAAAAAAA
1 ACAGAAAGAGTGAAAAAAAAA
616780 AAAAAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.65, C:0.05, G:0.28, T:0.02
Consensus pattern (23 bp):
ACAGAAAGAGTGAAAAAAAAAGG
Found at i:617945 original size:90 final size:90
Alignment explanation
Indices: 617787--617966 Score: 351
Period size: 90 Copynumber: 2.0 Consensus size: 90
617777 GGTCCCTGAG
*
617787 TAATTTCTCCTACCATAACAACTCACATAGTCCAAGGGCTACTGCTCTAAATTCAGCTTTTGCGC
1 TAATTTCTCCTACCATAACAACTCACATAGTCCAAGGGCTACTGCTCTAAATTCAGCTTTTGCAC
617852 TGCTTTGAGCTACCACATTCTGTTT
66 TGCTTTGAGCTACCACATTCTGTTT
617877 TAATTTCTCCTACCATAACAACTCACATAGTCCAAGGGCTACTGCTCTAAATTCAGCTTTTGCAC
1 TAATTTCTCCTACCATAACAACTCACATAGTCCAAGGGCTACTGCTCTAAATTCAGCTTTTGCAC
617942 TGCTTTGAGCTACCACATTCTGTTT
66 TGCTTTGAGCTACCACATTCTGTTT
617967 CTTGCTTCTC
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (90 bp):
TAATTTCTCCTACCATAACAACTCACATAGTCCAAGGGCTACTGCTCTAAATTCAGCTTTTGCAC
TGCTTTGAGCTACCACATTCTGTTT
Found at i:620440 original size:13 final size:13
Alignment explanation
Indices: 620422--620446 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
620412 TTAATCAAAA
620422 AAAATTAAATTTC
1 AAAATTAAATTTC
620435 AAAATTAAATTT
1 AAAATTAAATTT
620447 TAATTTTTAG
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:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATTAAATTTC
Found at i:620449 original size:20 final size:20
Alignment explanation
Indices: 620426--620468 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
620416 TCAAAAAAAA
620426 TTAAATTTCAAAATTAAATT
1 TTAAATTTCAAAATTAAATT
* * * *
620446 TTAATTTTTAGATTTAAATT
1 TTAAATTTCAAAATTAAATT
620466 TTA
1 TTA
620469 TTTTATATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
TTAAATTTCAAAATTAAATT
Found at i:622261 original size:22 final size:22
Alignment explanation
Indices: 622220--622265 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
622210 GTTAAGAAAT
*
622220 ATATATTTATAAAATCATTAGA
1 ATATATTTATAAAATAATTAGA
622242 ATATATTTAT-AAATAAATTAGA
1 ATATATTTATAAAAT-AATTAGA
622264 AT
1 AT
622266 TCTAGATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.41
Consensus pattern (22 bp):
ATATATTTATAAAATAATTAGA
Found at i:626757 original size:6 final size:6
Alignment explanation
Indices: 626742--626788 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
626732 TCTAGACTTG
* **
626742 GAAAAA -AAAAA GAAAAA -AATAA GAAAAA GAAAAA GAGTAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
626788 G
1 G
626789 TTATGCCAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
5 9 0.27
6 24 0.73
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (6 bp):
GAAAAA
Found at i:626758 original size:11 final size:11
Alignment explanation
Indices: 626742--626777 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
626732 TCTAGACTTG
626742 GAAAAAAAAAA
1 GAAAAAAAAAA
*
626753 GAAAAAAATAA
1 GAAAAAAAAAA
626764 GAAAAAGAAAAA
1 GAAAAA-AAAAA
626776 GA
1 GA
626778 GTAAGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:626775 original size:18 final size:17
Alignment explanation
Indices: 626748--626788 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
626738 CTTGGAAAAA
626748 AAAAAGAAAAAAATAAG
1 AAAAAGAAAAAAATAAG
*
626765 AAAAAGAAAAAGAGTAAG
1 AAAAAGAAAAA-AATAAG
626783 AAAAAG
1 AAAAAG
626789 TTATGCCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (17 bp):
AAAAAGAAAAAAATAAG
Found at i:628195 original size:11 final size:11
Alignment explanation
Indices: 628179--628209 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
628169 AAAAGTTTGG
628179 AATTTAAAAGA
1 AATTTAAAAGA
628190 AATTTAAAAGA
1 AATTTAAAAGA
*
628201 AATTCAAAA
1 AATTTAAAA
628210 AGGAAAAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (11 bp):
AATTTAAAAGA
Found at i:628496 original size:51 final size:51
Alignment explanation
Indices: 628428--628544 Score: 173
Period size: 51 Copynumber: 2.3 Consensus size: 51
628418 AAAATAACGG
* * * * *
628428 GGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTGGAACTAAAATCG-
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGA
628478 GAGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGA
1 G-GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGA
628530 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
628545 TCAGAAACAA
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
50 1 0.02
51 58 0.97
52 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGA
Found at i:628563 original size:79 final size:79
Alignment explanation
Indices: 628480--628904 Score: 661
Period size: 79 Copynumber: 5.4 Consensus size: 79
628470 TAAAATCGGA
* *
628480 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
* *
628545 TCAGAAACAAAGGG
66 TCAGAAATAACGGG
* * * *
628559 GTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAAAAATAAAACCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
*
628624 TCAGAAATAACGAG
66 TCAGAAATAACGGG
* * *
628638 GTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
*
628703 TCAAAAATAACGGG
66 TCAGAAATAACGGG
*
628717 GTTGGAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
*
628782 TCGGAAATAACGGG
66 TCAGAAATAACGGG
* * *
628796 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTGGGGTTAGAGTATCCTC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
*
628861 TCGGAAATAACGGG
66 TCAGAAATAACGGG
* *
628875 GTTGGAGTATCCCAGATTGTGAAAAATTGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGA
628905 GAAACTTAAC
Statistics
Matches: 322, Mismatches: 24, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 322 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.27
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
TCAGAAATAACGGG
Found at i:628571 original size:130 final size:132
Alignment explanation
Indices: 628331--628623 Score: 371
Period size: 130 Copynumber: 2.2 Consensus size: 132
628321 AACGGTGTTC
* **
628331 TAAAAAGTAAAATCGGGGTTAGAGTATCCCCGATTATAAAAAAATTGATGCTTTAGAAATAAGGG
1 TAAAAA-TAAAATCGGGGTTGGAGTATCCCCGATTATAAAAAAATTGATGCTTTAGAAATAAGAA
* * ** *
628396 CCGGGGTTGGAGTATCCCTATGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATTGGTG
65 CCGAGGTTGGAGTATCCCTATGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATA
628461 TTT
130 TTT
** * * * * *
628464 TGGAACTAAAATCGGAGTTGGAGTATCCCCGATTAT-GAAAAATTGGTGTTTTAGAAATAA-AAC
1 TAAAAATAAAATCGGGGTTGGAGTATCCCCGATTATAAAAAAATTGATGCTTTAGAAATAAGAAC
628527 CGAGGTTGGAGTATCCCCTCA-GAAACA-AA-GGGGTTGGAGTATCCCCGATTATGAGAAATTAA
66 CGAGGTTGGAGTAT-CCCT-ATGAAA-ATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAA
628589 TATTT
128 TATTT
*
628594 TAAAAATAAAACCGGGGTTGGAGTATCCCC
1 TAAAAATAAAATCGGGGTTGGAGTATCCCC
628624 TCAGAAATAA
Statistics
Matches: 137, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
130 73 0.53
131 31 0.23
132 30 0.22
133 3 0.02
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (132 bp):
TAAAAATAAAATCGGGGTTGGAGTATCCCCGATTATAAAAAAATTGATGCTTTAGAAATAAGAAC
CGAGGTTGGAGTATCCCTATGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATAT
TT
Found at i:630336 original size:35 final size:35
Alignment explanation
Indices: 630294--630562 Score: 497
Period size: 35 Copynumber: 7.7 Consensus size: 35
630284 ATTTTTTATG
630294 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
*
630329 CCATCATTCCATGCCTCCATTTTTATATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
630364 CCATCATTCCATGCCTTCA-TTTTATATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
630398 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
*
630433 CCATCATTCCATGCCTCCATTTTTATATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
*
630468 CCATCA-TCCATGCCTTCATTTTTATATTTCATGC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
630502 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
630537 CCATCATTCCATGCCTTCATTTTTAT
1 CCATCATTCCATGCCTTCATTTTTAT
630563 TATTATTTTT
Statistics
Matches: 226, Mismatches: 6, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
34 66 0.29
35 160 0.71
ACGTcount: A:0.20, C:0.32, G:0.06, T:0.42
Consensus pattern (35 bp):
CCATCATTCCATGCCTTCATTTTTATATTCCATGC
Found at i:630339 original size:14 final size:14
Alignment explanation
Indices: 630320--630412 Score: 51
Period size: 14 Copynumber: 5.7 Consensus size: 14
630310 TCATTTTTAT
630320 ATTCCATGCCCATC
1 ATTCCATGCCCATC
*
630334 ATTCCATGCCTCCATTTTT
1 ATTCCATG-C-CCA---TC
630353 ATATTCCATGCCCATC
1 AT--TCCATGCCCATC
*
630369 ATTCCATGCCTTCATTTTAT
1 ATTCCATGCC--CA---T-C
630389 ATTCCATGCCCATC
1 ATTCCATGCCCATC
630403 ATTCCATGCC
1 ATTCCATGCC
630413 TTCATTTTTA
Statistics
Matches: 62, Mismatches: 4, Indels: 26
0.67 0.04 0.28
Matches are distributed among these distances:
14 26 0.42
15 2 0.03
16 8 0.13
18 2 0.03
19 7 0.11
20 11 0.18
21 6 0.10
ACGTcount: A:0.20, C:0.35, G:0.06, T:0.38
Consensus pattern (14 bp):
ATTCCATGCCCATC
Found at i:630400 original size:69 final size:70
Alignment explanation
Indices: 630294--630562 Score: 497
Period size: 69 Copynumber: 3.9 Consensus size: 70
630284 ATTTTTTATG
*
630294 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTCCATTTTTATATTC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTATATTC
630359 CATGC
66 CATGC
630364 CCATCATTCCATGCCTTCA-TTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTATATTC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTATATTC
630428 CATGC
66 CATGC
* *
630433 CCATCATTCCATGCCTCCATTTTTATATTCCATGCCCATCA-TCCATGCCTTCATTTTTATATTT
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTATATTC
630497 CATGC
66 CATGC
630502 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTAT
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTAT
630563 TATTATTTTT
Statistics
Matches: 193, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
69 134 0.69
70 59 0.31
ACGTcount: A:0.20, C:0.32, G:0.06, T:0.42
Consensus pattern (70 bp):
CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTATATTC
CATGC
Found at i:630447 original size:104 final size:104
Alignment explanation
Indices: 630294--630562 Score: 504
Period size: 104 Copynumber: 2.6 Consensus size: 104
630284 ATTTTTTATG
630294 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTCCATTTTTATATTC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTCCATTTTTATATTC
630359 CATGCCCATCATTCCATGCCTTCA-TTTTATATTCCATGC
66 CATGCCCATCA-TCCATGCCTTCATTTTTATATTCCATGC
630398 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTCCATTTTTATATTC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTCCATTTTTATATTC
*
630463 CATGCCCATCATCCATGCCTTCATTTTTATATTTCATGC
66 CATGCCCATCATCCATGCCTTCATTTTTATATTCCATGC
*
630502 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTAT
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTCCATTTTTAT
630563 TATTATTTTT
Statistics
Matches: 162, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
103 12 0.07
104 150 0.93
ACGTcount: A:0.20, C:0.32, G:0.06, T:0.42
Consensus pattern (104 bp):
CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTCCATTTTTATATTC
CATGCCCATCATCCATGCCTTCATTTTTATATTCCATGC
Found at i:630613 original size:6 final size:6
Alignment explanation
Indices: 630572--630606 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
630562 TTATTATTTT
*
630572 TTTTGAA TTTTAA ATTTAA TTTTAA TTTTAA TTTT
1 TTTT-AA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
630607 TGATTTTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 22 0.85
7 4 0.15
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (6 bp):
TTTTAA
Found at i:631083 original size:40 final size:41
Alignment explanation
Indices: 631037--631140 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 41
631027 TCCCACTTTT
* *
631037 TTGAGGACAAAGAAAAAGAG-AATGAAATAG-GTCTTGCTCC
1 TTGAGGACAAAGAAAAAGAGAAAAGAAA-AGTGTCCTGCTCC
* * *
631077 TTGAGGACAAAGGAAAAGAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGAAAAAG-AGAAAAGAAAAGTGTCCTGCTCC
631119 TTGAGGACAAAGTGAAAAAGAG
1 TTGAGGACAAA--GAAAAAGAG
631141 TACGTCTCAT
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
40 17 0.32
41 4 0.08
42 24 0.45
43 2 0.04
44 6 0.11
ACGTcount: A:0.44, C:0.11, G:0.28, T:0.17
Consensus pattern (41 bp):
TTGAGGACAAAGAAAAAGAGAAAAGAAAAGTGTCCTGCTCC
Found at i:631363 original size:61 final size:59
Alignment explanation
Indices: 631274--631446 Score: 170
Period size: 61 Copynumber: 2.8 Consensus size: 59
631264 AAGAAGTGTG
* ** * * *
631274 TCCTGCTCTTTGACAACTGAAAAGTGCCACCAACTCATGTGGTCTTTG-AAAAGAAAAGGCG
1 TCCTGCTCTTCGAGGACTAAAAAGTGCCACCAACT-ATGTGGGCTTTGAAAAAG-AAA-GCA
** *
631335 TCCTGCTCTTCGAGGACT-GGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCA
1 TCCTGCTCTTCGAGGACTAAAAAG-TGCCACCAACTA-TGTGGGCTTTG-AAAAAGAAAGCA
* *
631396 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAA
1 TCCTGCTCTTCGAGGACTAAAAAGTGCCACCAAC-TATGTGGGCTTTGAAA
631447 GACGTCCTGC
Statistics
Matches: 93, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
60 7 0.08
61 74 0.80
62 7 0.08
63 5 0.05
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (59 bp):
TCCTGCTCTTCGAGGACTAAAAAGTGCCACCAACTATGTGGGCTTTGAAAAAGAAAGCA
Found at i:631562 original size:94 final size:95
Alignment explanation
Indices: 631396--631641 Score: 372
Period size: 95 Copynumber: 2.6 Consensus size: 95
631386 AAAGAAAGCA
** *
631396 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAA-GACGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-GTCCTGCTCT
* *
631460 TTGAGGACT-AAAGGGTGAAAGGA-GAGAGCG
65 TTAAGGACTGAAAGGGCGAAAGGATG-GAGCG
* * *
631490 TCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCTTGCTTTT
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTT
631555 TAAGGACTGAAAGGGCGAAAGGATGGAGCG
66 TAAGGACTGAAAGGGCGAAAGGATGGAGCG
*
631585 TCCTGCTCTTTGAGGACTAGGAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGAGTC
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTC
631642 ACCAACTTGT
Statistics
Matches: 139, Mismatches: 10, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
94 63 0.45
95 75 0.54
96 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (95 bp):
TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTT
TAAGGACTGAAAGGGCGAAAGGATGGAGCG
Found at i:631654 original size:29 final size:29
Alignment explanation
Indices: 631612--631670 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
631602 TAGGAAGCGC
631612 CACCAACTTGTGTGGGCTTTAAAAGGAGT
1 CACCAACTTGTGTGGGCTTTAAAAGGAGT
*
631641 CACCAACTTGTGTGGGCTTTGAAAGGAGT
1 CACCAACTTGTGTGGGCTTTAAAAGGAGT
631670 C
1 C
631671 CTGCTCTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (29 bp):
CACCAACTTGTGTGGGCTTTAAAAGGAGT
Found at i:631717 original size:55 final size:55
Alignment explanation
Indices: 631641--632221 Score: 597
Period size: 55 Copynumber: 9.9 Consensus size: 55
631631 TAAAAGGAGT
631641 CACCAACTTGTGTGGGCTTTGAAAGGAGTCCTGCTCTTTGAGGACTGAAAGGTGC
1 CACCAACTTGTGTGGGCTTTGAAAGGAGTCCTGCTCTTTGAGGACTGAAAGGTGC
* * *
631696 CACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTTTTTGAAGACTGAAAGGTGC
1 CACCAACTTGTGTGGGCTTTGAAAGGAGTCCTGCTCTTTGAGGACTGAAAGGTGC
* *
631751 CACCAACTTGTGTGGACTTTGAAAGGCGAAGGCATCCTGCTCTTTGAGGACTAGAAAAGTGC
1 CACCAACTTGTGTGGGCTTTGAAA-G-G-A-G--TCCTGCTCTTTGAGGACT-GAAAGGTGC
* *
631813 CACCAACTTGTGTGGGCTTTAAAAGAAGTGCCTGCTCTTTGAGGACTGAAAGGTGC
1 CACCAACTTGTGTGGGCTTTGAAAGGAGT-CCTGCTCTTTGAGGACTGAAAGGTGC
* * * *
631869 CACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGTTCTTTGAAGACTAAAAGGTGC
1 CACCAACTTGTGTGGGCTTTGAAAGGAGTCCTGCTCTTTGAGGACTGAAAGGTGC
* * *
631924 CATCAACTTATGTGGGCTTTGAAAGGCGAAGGCATCCTGCTCTTTGAGGACTAGAAAAGTGC
1 CACCAACTTGTGTGGGCTTTGAAA-G-G-A-G--TCCTGCTCTTTGAGGACT-GAAAGGTGC
* * *
631986 CACCAACTTGTGTGGGCTTTGAAAAGAAAAGGACGTCCTGCTCTTCGAGGACTGGAAGATGC
1 CACCAACTTGTGTGGGCTTT-----G-AAAGGA-GTCCTGCTCTTTGAGGACTGAAAGGTGC
* * * * **
632048 CACAAACTAGTGTGGGATTTGCAAAAAGAAAGCATCCTGCTCTTTGAGGACTGAAAATTGC
1 CACCAACTTGTGTGGGCTTTG---AAAG-GAG--TCCTGCTCTTTGAGGACTGAAAGGTGC
* * *
632109 CACC-ACTTGTGTGGGACTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAAGACTAAAAGGTGC
1 CACCAACTTGTGTGGG-CTTT-----G-AAAGGAGTCCTGCTCTTTGAGGACTGAAAGGTGC
*
632170 CACCAACTTGTGTGGACTTTGAAAGGAGTCCTGCTCTTTGAGGACTGAAAGG
1 CACCAACTTGTGTGGGCTTTGAAAGGAGTCCTGCTCTTTGAGGACTGAAAGG
632222 GCGAAAGAAG
Statistics
Matches: 440, Mismatches: 53, Indels: 66
0.79 0.09 0.12
Matches are distributed among these distances:
55 148 0.34
56 38 0.09
57 20 0.05
58 1 0.00
59 9 0.02
60 11 0.03
61 93 0.21
62 88 0.20
63 18 0.04
64 5 0.01
65 2 0.00
66 2 0.00
67 2 0.00
68 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (55 bp):
CACCAACTTGTGTGGGCTTTGAAAGGAGTCCTGCTCTTTGAGGACTGAAAGGTGC
Found at i:632097 original size:61 final size:63
Alignment explanation
Indices: 631890--632193 Score: 297
Period size: 61 Copynumber: 4.9 Consensus size: 63
631880 GTGGGCTTTG
* * * * * * * * *
631890 AAAGGCGTCCTGTTCTTTGAAGACTA-AAAGGTGCCATCAACTTATGTGGGCTTTG-AAAGGC
1 AAAGGCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGATTTGAAAAAGA
* *
631951 GAAGGCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAGA
1 AAAGGCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGATTTGAAAAAGA
* * * * * *
632013 AAAGGACGTCCTGCTCTTCGAGGACTGGAAGA-TGCCACAAACTAGTGTGGGATTTGCAAAAAG-
1 AAAGG-CATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGATTTG-AAAAAGA
* *
632076 AAA-GCATCCTGCTCTTTGAGGACT-GAAAATTGCCACC-ACTTGTGTGGGACTTT-AAAAGGA
1 AAAGGCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGA-TTTGAAAAAGA
* * *
632136 AAAGGCGTCCTGCTCTTTGAAGACTA-AAAGGTGCCACCAACTTGTGT-GGACTTTGAAA
1 AAAGGCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGA-TTTGAAA
632194 GGAGTCCTGC
Statistics
Matches: 205, Mismatches: 27, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
59 5 0.02
60 18 0.09
61 85 0.41
62 67 0.33
63 25 0.12
64 5 0.02
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (63 bp):
AAAGGCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGATTTGAAAAAGA
Found at i:632297 original size:55 final size:56
Alignment explanation
Indices: 632237--632483 Score: 329
Period size: 55 Copynumber: 4.4 Consensus size: 56
632227 AGAAGGGAGT
* * *
632237 GTCCTACTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 GTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
* *
632292 GTCCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
* *
632347 GTCCTGCTCTTTGAAGA-TTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGAAGGC
1 GTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT--AA----AAGGC
* *
632408 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGT
1 GTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
*
632464 GTCCTGCTCTTTAAGGACTA
1 GTCCTGCTCTTTGAGGACTA
632484 AAGGGCGAAA
Statistics
Matches: 172, Mismatches: 11, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
54 4 0.02
55 92 0.53
56 23 0.13
57 1 0.01
60 2 0.01
61 21 0.12
62 29 0.17
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (56 bp):
GTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
Found at i:632305 original size:95 final size:95
Alignment explanation
Indices: 632142--632316 Score: 280
Period size: 95 Copynumber: 1.8 Consensus size: 95
632132 AGGAAAAGGC
* * *
632142 GTCCTGCTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGACTTTGAAAGGAGTCCTGCTCT
1 GTCCTACTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGACTTTAAAAGGAGTCCTACTCT
632207 TTGAGGACTGAAAGGGCGAAAGAAGGGAGT
66 TTGAGGACTGAAAGGGCGAAAGAAGGGAGT
* * *
632237 GTCCTACTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTACTC
1 GTCCTACTCTTTGAAGACTA-AAAGGTGCCACCAACTTGTGTGGACTTTAAAAGGAGTCCTACTC
632301 TTTGAGGACTGAAAGG
65 TTTGAGGACTGAAAGG
632317 TGCCACCAAC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
95 71 0.97
96 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (95 bp):
GTCCTACTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGACTTTAAAAGGAGTCCTACTCT
TTGAGGACTGAAAGGGCGAAAGAAGGGAGT
Found at i:632369 original size:150 final size:152
Alignment explanation
Indices: 632082--632371 Score: 408
Period size: 150 Copynumber: 1.9 Consensus size: 152
632072 AAAGAAAGCA
* *
632082 TCCTGCTCTTTGAGGACTGAAAATTGCCACCACTTGTGTGGGACTTTAAAAGGAAAAGGCGTCCT
1 TCCTACTCTTTGAGGACTGAAAAGTGCCACCACTTGTGTGGGACTTTAAAAGG--AA-G-GTCCT
* *
632147 GCTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGACTTTGAAAGGAGTCCTGCTCTTTGAG
62 ACTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGACTTTGAAAGGAGTCCTGCTCTTTGAA
632212 GACTGAAAGGGCGAAAGAAGGGAGTG
127 GACTGAAAGGGCGAAAGAAGGGAGTG
*
632238 TCCTACTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGG-CTTTAAAAGG-A-GTCCTAC
1 TCCTACTCTTTGAGGACTGA-AAAGTGCCACC-ACTTGTGTGGGACTTTAAAAGGAAGGTCCTAC
* * * *
632299 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAAGA
64 TCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGACTTTGAAAGGAGTCCTGCTCTTTGAAGA
*
632364 TTGAAAGG
129 CTGAAAGG
632372 TGCCACCAAC
Statistics
Matches: 122, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
150 73 0.60
153 1 0.01
155 1 0.01
156 36 0.30
157 11 0.09
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (152 bp):
TCCTACTCTTTGAGGACTGAAAAGTGCCACCACTTGTGTGGGACTTTAAAAGGAAGGTCCTACTC
TTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGACTTTGAAAGGAGTCCTGCTCTTTGAAGACT
GAAAGGGCGAAAGAAGGGAGTG
Found at i:632470 original size:117 final size:110
Alignment explanation
Indices: 632235--632483 Score: 322
Period size: 117 Copynumber: 2.2 Consensus size: 110
632225 AAAGAAGGGA
* * *
632235 GTGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTACT
1 GTGTCCTGCTCTTTGAAGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTACT
* *
632300 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
66 CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
632345 GCGTCCTGCTCTTTGAAGA-TTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGAAGGCG
1 GTGTCCTGCTCTTTGAAGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTT--AA----AAGGAG
*
632409 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
59 TCCTACTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
632462 GTGTCCTGCTCTTT-AAGGACTA
1 GTGTCCTGCTCTTTGAA-GACTA
632484 AAGGGCGAAA
Statistics
Matches: 118, Mismatches: 11, Indels: 12
0.84 0.08 0.09
Matches are distributed among these distances:
109 4 0.03
110 40 0.34
112 2 0.02
116 24 0.20
117 47 0.40
118 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (110 bp):
GTGTCCTGCTCTTTGAAGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTACT
CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:632593 original size:61 final size:61
Alignment explanation
Indices: 632501--632649 Score: 228
Period size: 61 Copynumber: 2.4 Consensus size: 61
632491 AAAGGAGGGA
* * *
632501 GCGTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTGA-AAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
*
632562 GCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
*
632623 GCGTCCCGCTCTTTGAGGACTAGAAAA
1 GCGTCCTGCTCTTTGAGGACT-GAAAA
632650 GTGGAAAAAA
Statistics
Matches: 81, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
61 75 0.93
62 6 0.07
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (61 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
Found at i:646037 original size:105 final size:102
Alignment explanation
Indices: 645928--646144 Score: 238
Period size: 105 Copynumber: 2.1 Consensus size: 102
645918 AACAGGGCTA
* * *
645928 GAGTATCCCCGACTATG-GAAAACGGTGTTCTAAAAAGTAAAATCGGGGTTAGAGTATCCCCGAT
1 GAGTATCCCCGACTATGAGAAAACGGTGTT-TAAAAACTAAAATCGGAGTTAGAGTATCCCCAAT
**
645992 TATAAAAAAAATTGATGCTTTAGAAATAAGGGCCGGGGTTG
65 TAT-AAAAAAATTG-TGCTTTAGAAATAA-AACCGGGGTTG
* * ** *** *
646033 GAGTATCCCCGATTGTGAGAAATTGGTGTTTCGGAACTAAAATCGGAGTTGGAGTATCCCCAATT
1 GAGTATCCCCGACTATGAGAAAACGGTGTTTAAAAACTAAAATCGGAGTTAGAGTATCCCCAATT
* * * *
646098 ATGAAAAATTTGTGTTTTAGAAATAAAATCGGGGTTG
66 ATAAAAAAATTGTGCTTTAGAAATAAAACCGGGGTTG
646135 GAGTATCCCC
1 GAGTATCCCC
646145 TCGGAAACAA
Statistics
Matches: 94, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
102 18 0.19
103 13 0.14
104 8 0.09
105 45 0.48
106 10 0.11
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (102 bp):
GAGTATCCCCGACTATGAGAAAACGGTGTTTAAAAACTAAAATCGGAGTTAGAGTATCCCCAATT
ATAAAAAAATTGTGCTTTAGAAATAAAACCGGGGTTG
Found at i:646093 original size:51 final size:51
Alignment explanation
Indices: 645965--646144 Score: 164
Period size: 51 Copynumber: 3.5 Consensus size: 51
645955 TTCTAAAAAG
* * * * *
645965 TAAAATCGGGGTTAGAGTATCCCCGATTATAAAAAAAATTGATGCTTT-AGAAA
1 TAAAATCGGAGTTGGAGTATCCCCAATTAT--GAAAAATTGGTG-TTTCAGAAA
*** * * * * * *
646018 TAAGGGCCGGGGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTCGGAAC
1 TAA-AATCGGAGTTGGAGTATCCCCAATTATGAAAAATTGGTGTTTCAGAAA
* *
646070 TAAAATCGGAGTTGGAGTATCCCCAATTATGAAAAATTTGTGTTTTAGAAA
1 TAAAATCGGAGTTGGAGTATCCCCAATTATGAAAAATTGGTGTTTCAGAAA
*
646121 TAAAATCGGGGTTGGAGTATCCCC
1 TAAAATCGGAGTTGGAGTATCCCC
646145 TCGGAAACAA
Statistics
Matches: 103, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
51 63 0.61
52 15 0.15
53 3 0.03
54 22 0.21
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (51 bp):
TAAAATCGGAGTTGGAGTATCCCCAATTATGAAAAATTGGTGTTTCAGAAA
Found at i:646211 original size:79 final size:79
Alignment explanation
Indices: 646080--646501 Score: 659
Period size: 79 Copynumber: 5.4 Consensus size: 79
646070 TAAAATCGGA
* ** *
646080 GTTGGAGTATCCCCAATTATGAAAAATTTGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
* *
646145 TCGGAAACAACGGG
66 TCAGAAATAACGGG
* * *
646159 GTTGGAGTATCCCCGAGTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
646224 TCAGAAATAACGGG
66 TCAGAAATAACGGG
* *
646238 GTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
646303 TC-GAAAATAACGGG
66 TCAG-AAATAACGGG
* * *
646317 ATTGGAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
646382 TCAGAAATAACGGG
66 TCAGAAATAACGGG
* *
646396 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
646461 TCAGAAATAAC-GG
66 TCAGAAATAACGGG
* *
646474 GTTGGAGTACCCCCGATTGTGAAAAATT
1 GTTGGAGTATCCCCGATTATGAAAAATT
646502 GAGAAACTTA
Statistics
Matches: 321, Mismatches: 20, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
78 29 0.09
79 291 0.91
80 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
TCAGAAATAACGGG
Found at i:647710 original size:35 final size:35
Alignment explanation
Indices: 647664--647973 Score: 548
Period size: 35 Copynumber: 8.9 Consensus size: 35
647654 TTCATTTTTT
647664 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
* *
647699 ATGCCCATCATTCGATGCCTCCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
*
647734 ATGCCTATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
*
647769 ATGCCTATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
*
647804 ATGCCCATCATTCCATGCCTCCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
* * *
647839 ATGCCTATCATCCCATGCCTTCATCTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
647874 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
647909 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
1 ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
647944 ATGCCCATCATTCCATGCCTTCATTTTTAT
1 ATGCCCATCATTCCATGCCTTCATTTTTAT
647974 TATTATTTTT
Statistics
Matches: 261, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 261 1.00
ACGTcount: A:0.20, C:0.31, G:0.06, T:0.43
Consensus pattern (35 bp):
ATGCCCATCATTCCATGCCTTCATTTTTATATTCC
Found at i:647737 original size:21 final size:21
Alignment explanation
Indices: 647708--647844 Score: 73
Period size: 21 Copynumber: 7.5 Consensus size: 21
647698 CATGCCCATC
*
647708 ATTCGATGCCTCCATTTTTAT
1 ATTCCATGCCTCCATTTTTAT
*
647729 ATTCCATGCCT--A----T-C
1 ATTCCATGCCTCCATTTTTAT
*
647743 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTCCATTTTTAT
*
647764 ATTCCATGCCT--A----T-C
1 ATTCCATGCCTCCATTTTTAT
*
647778 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTCCATTTTTAT
*
647799 ATTCCATG-C-CCA----T-C
1 ATTCCATGCCTCCATTTTTAT
647813 ATTCCATGCCTCCATTTTTAT
1 ATTCCATGCCTCCATTTTTAT
647834 ATTCCATGCCT
1 ATTCCATGCCT
647845 ATCATCCCAT
Statistics
Matches: 87, Mismatches: 8, Indels: 42
0.64 0.06 0.31
Matches are distributed among these distances:
14 30 0.34
15 4 0.05
16 5 0.06
19 4 0.05
20 4 0.05
21 40 0.46
ACGTcount: A:0.20, C:0.30, G:0.07, T:0.44
Consensus pattern (21 bp):
ATTCCATGCCTCCATTTTTAT
Found at i:647877 original size:21 final size:21
Alignment explanation
Indices: 647851--647948 Score: 80
Period size: 21 Copynumber: 5.3 Consensus size: 21
647841 GCCTATCATC
647851 CCATGCCTTCATCTTTATATT
1 CCATGCCTTCATCTTTATATT
647872 CCATGCC--CATC-----ATT
1 CCATGCCTTCATCTTTATATT
*
647886 CCATGCCTTCATTTTTATATT
1 CCATGCCTTCATCTTTATATT
647907 CCATGCC--CATC-----ATT
1 CCATGCCTTCATCTTTATATT
*
647921 CCATGCCTTCATTTTTATATT
1 CCATGCCTTCATCTTTATATT
647942 CCATGCC
1 CCATGCC
647949 CATCATTCCA
Statistics
Matches: 60, Mismatches: 3, Indels: 28
0.66 0.03 0.31
Matches are distributed among these distances:
14 20 0.33
16 6 0.10
19 7 0.12
21 27 0.45
ACGTcount: A:0.19, C:0.33, G:0.06, T:0.42
Consensus pattern (21 bp):
CCATGCCTTCATCTTTATATT
Found at i:649172 original size:16 final size:16
Alignment explanation
Indices: 649139--649180 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
649129 AAATTTATGT
*
649139 AATAAAAG-AATTTCA
1 AATAAAAGCAATTTAA
649154 AATAAAAGCAATTTAA
1 AATAAAAGCAATTTAA
649170 AATAACAAGCA
1 AATAA-AAGCA
649181 TCACTATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 8 0.33
16 11 0.46
17 5 0.21
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.21
Consensus pattern (16 bp):
AATAAAAGCAATTTAA
Found at i:650443 original size:20 final size:20
Alignment explanation
Indices: 650418--650475 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
650408 ATACATGTTC
650418 ATTGTATCGATACATGAAGA
1 ATTGTATCGATACATGAAGA
*
650438 ATTGTATTGATACATGAAGA
1 ATTGTATCGATACATGAAGA
650458 ATTGTATCGATACATGAA
1 ATTGTATCGATACATGAA
650476 ACTGGTAGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.33
Consensus pattern (20 bp):
ATTGTATCGATACATGAAGA
Found at i:652413 original size:21 final size:21
Alignment explanation
Indices: 652356--652419 Score: 78
Period size: 19 Copynumber: 3.1 Consensus size: 21
652346 TTGGAAACAA
* *
652356 AAAAGGGGAGAGATATTTTTTT
1 AAAA-GGGAGAAATATTTTATT
*
652378 TAAAGGGA-AAA-ATTTTATT
1 AAAAGGGAGAAATATTTTATT
652397 AAAAGGGAGAAATATTTTATT
1 AAAAGGGAGAAATATTTTATT
652418 AA
1 AA
652420 GGAAGAGTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 14 0.39
20 5 0.14
21 14 0.39
22 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.34
Consensus pattern (21 bp):
AAAAGGGAGAAATATTTTATT
Found at i:652421 original size:19 final size:20
Alignment explanation
Indices: 652361--652419 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
652351 AACAAAAAAG
* *
652361 GGGAGAGATATTTTTTTTAAA
1 GGGAGAAATA-TTTTATTAAA
652382 GGGA-AAA-ATTTTATTAAAA
1 GGGAGAAATATTTTATT-AAA
652401 GGGAGAAATATTTTATTAA
1 GGGAGAAATATTTTATTAA
652420 GGAAGAGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 6 0.18
19 8 0.24
20 7 0.21
21 12 0.36
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.37
Consensus pattern (20 bp):
GGGAGAAATATTTTATTAAA
Found at i:653051 original size:20 final size:19
Alignment explanation
Indices: 653028--653079 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
653018 AAGCCCAGAA
*
653028 GTATCGATACATGTTGCTTT
1 GTATCGATACATGTT-CATT
653048 GTATCGATACATGTTCATT
1 GTATCGATACATGTTCATT
653067 GTATCGATACATG
1 GTATCGATACATG
653080 AAGAATTGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.40
Consensus pattern (19 bp):
GTATCGATACATGTTCATT
Found at i:653070 original size:19 final size:20
Alignment explanation
Indices: 653028--653095 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
653018 AAGCCCAGAA
*
653028 GTATCGATACATGTTGCTTT
1 GTATCGATACATGTTGCATT
653048 GTATCGATACATGTT-CATT
1 GTATCGATACATGTTGCATT
** *
653067 GTATCGATACATGAAGAATT
1 GTATCGATACATGTTGCATT
653087 GTATCGATA
1 GTATCGATA
653096 GATAAAACTG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.37
20 27 0.63
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (20 bp):
GTATCGATACATGTTGCATT
Found at i:653089 original size:20 final size:19
Alignment explanation
Indices: 653046--653095 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
653036 ACATGTTGCT
***
653046 TTGTATCGATACATGTTCA
1 TTGTATCGATACATGAGAA
653065 TTGTATCGATACATGAAGAA
1 TTGTATCGATACATG-AGAA
653085 TTGTATCGATA
1 TTGTATCGATA
653096 GATAAAACTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:656623 original size:28 final size:27
Alignment explanation
Indices: 656571--656634 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
656561 CTAAGTGATG
* *
656571 AATTAAAATTTCATATGTGATAAATTC
1 AATTAAAATTTAATATGTGAAAAATTC
*
656598 AATTAAGAATTTAATCATGT-AAAAATTTT
1 AATTAA-AATTTAAT-ATGTGAAAAA-TTC
656627 AATTAAAA
1 AATTAAAA
656635 ATTCATAAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 6 0.19
28 13 0.42
29 12 0.39
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (27 bp):
AATTAAAATTTAATATGTGAAAAATTC
Found at i:670731 original size:52 final size:52
Alignment explanation
Indices: 670646--670770 Score: 207
Period size: 52 Copynumber: 2.4 Consensus size: 52
670636 ATATGAAAAG
*
670646 TTGCTTGCATGTATCGATACATTTAAAAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAAAAGTGTATCGATACATCTGGGCAAAT
*
670698 TTGCCTGCATGTATCGATACATTTTATAA-TGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTTAAAAGTGTATCGATACATCTGGGCAAAT
*
670750 TTTCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
670771 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
52 63 0.91
53 6 0.09
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAAAAGTGTATCGATACATCTGGGCAAAT
Found at i:670783 original size:52 final size:52
Alignment explanation
Indices: 670646--670790 Score: 188
Period size: 52 Copynumber: 2.8 Consensus size: 52
670636 ATATGAAAAG
*
670646 TTGCTTGCATGTATCGATACATTTAA-A-AGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA--TAAGATAGTGTATCGATACATCTGGGCAAAT
*** *
670698 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAAT
*
670750 TTTCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
670791 ATGTATCGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
50 1 0.01
51 3 0.04
52 77 0.95
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAAT
Found at i:670797 original size:13 final size:13
Alignment explanation
Indices: 670779--670803 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
670769 CAAAGATCAG
670779 TGTATCGATACAA
1 TGTATCGATACAA
670792 TGTATCGATACA
1 TGTATCGATACA
670804 TTTAAGTGAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:670885 original size:13 final size:13
Alignment explanation
Indices: 670867--670891 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
670857 AAAAAAAATA
670867 TGTATCGATACAT
1 TGTATCGATACAT
670880 TGTATCGATACA
1 TGTATCGATACA
670892 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:671534 original size:32 final size:31
Alignment explanation
Indices: 671479--671539 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
671469 ATATTGCTTA
671479 GTATTGATACATTTCTTCATATCGATACATT
1 GTATTGATACATTTCTTCATATCGATACATT
* **
671510 GTATTGATATATGTTCTTTGTATCGATACA
1 GTATTGATACAT-TTCTTCATATCGATACA
671540 CTATAAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 11 0.42
32 15 0.58
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (31 bp):
GTATTGATACATTTCTTCATATCGATACATT
Found at i:671609 original size:20 final size:20
Alignment explanation
Indices: 671584--671622 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
671574 GTTACCCTAA
671584 GTAAATTGTATC-GATACATG
1 GTAAATTGTA-CGGATACATG
671604 GTAAATTGTACGGATACAT
1 GTAAATTGTACGGATACAT
671623 TAAGTCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (20 bp):
GTAAATTGTACGGATACATG
Found at i:673563 original size:20 final size:20
Alignment explanation
Indices: 673538--673612 Score: 109
Period size: 20 Copynumber: 3.8 Consensus size: 20
673528 ATCAATACAC
*
673538 ATTGTATCGATCCATGGACA
1 ATTGTATCGATACATGGACA
673558 ATTGTATCGATACAT-GATC-
1 ATTGTATCGATACATGGA-CA
*
673577 ATTATATCGATACATGGACA
1 ATTGTATCGATACATGGACA
673597 ATTGTATCGATACATG
1 ATTGTATCGATACATG
673613 AAATTAGCAG
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
19 17 0.35
20 32 0.65
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:673593 original size:39 final size:39
Alignment explanation
Indices: 673537--673613 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
673527 TATCAATACA
* *
673537 CATTGTATCGATCCATGGACAATTGTATCGATACATGAT
1 CATTATATCGATACATGGACAATTGTATCGATACATGAT
673576 CATTATATCGATACATGGACAATTGTATCGATACATGA
1 CATTATATCGATACATGGACAATTGTATCGATACATGA
673614 AATTAGCAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (39 bp):
CATTATATCGATACATGGACAATTGTATCGATACATGAT
Found at i:673678 original size:13 final size:13
Alignment explanation
Indices: 673657--673686 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
673647 TGATACATGG
*
673657 TACATTGTATTGA
1 TACAATGTATTGA
673670 TACAATGTATTGA
1 TACAATGTATTGA
673683 TACA
1 TACA
673687 TGATGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (13 bp):
TACAATGTATTGA
Found at i:673684 original size:33 final size:33
Alignment explanation
Indices: 673642--673706 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
673632 TACCACTGTT
* *
673642 TGTATTGATACATGGT-ACATTGTATTGATACAA
1 TGTATTGATACATGATGA-ATTGTATCGATACAA
673675 TGTATTGATACATGATGAATTGTATCGATACA
1 TGTATTGATACATGATGAATTGTATCGATACA
673707 TTGCTTCCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.38
Consensus pattern (33 bp):
TGTATTGATACATGATGAATTGTATCGATACAA
Found at i:680342 original size:20 final size:20
Alignment explanation
Indices: 680294--680350 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
680284 GTCAAAACCC
*
680294 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
680314 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* * *
680334 TGCATTGTATCGTTACA
1 TGAAATGTATCGATACA
680351 TTGTATCGAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:680377 original size:20 final size:21
Alignment explanation
Indices: 680352--680404 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
680342 ATCGTTACAT
**
680352 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
*
680372 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
680393 TGTATCGATACA
1 TGTATCGATACA
680405 AGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:680474 original size:13 final size:13
Alignment explanation
Indices: 680456--680481 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
680446 ACACACAGTA
680456 TGTATCGATACAT
1 TGTATCGATACAT
680469 TGTATCGATACAT
1 TGTATCGATACAT
680482 CATAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:680497 original size:33 final size:32
Alignment explanation
Indices: 680436--680503 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
680426 GTAGCCAAAC
**
680436 TTGTATCGATACACACAGTATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
680468 TTGTATCGATACATCATAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
680501 TTG
1 TTG
680504 GCTTGTAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:686679 original size:13 final size:13
Alignment explanation
Indices: 686661--686699 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
686651 ACAGCATTCT
686661 TTGTATCGATACA
1 TTGTATCGATACA
686674 TTGTATCGATACA
1 TTGTATCGATACA
*
686687 CTGTATCGATACA
1 TTGTATCGATACA
686700 AGGGGATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:686874 original size:22 final size:21
Alignment explanation
Indices: 686831--686871 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
686821 CAAAATTCTT
686831 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAATACATC
686853 GTTTTTCA-TCAAAAT-CATC
1 GTTTTTCACTCAAAATACATC
686872 ATCAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (21 bp):
GTTTTTCACTCAAAATACATC
Found at i:687174 original size:20 final size:21
Alignment explanation
Indices: 687134--687185 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
687124 CTCCTAGGCA
**
687134 GCACCCACCAGGTCGTGACC-G
1 GCACCC-CCAGGTCGCAACCGG
687155 GCACCCCCAGGTCGCAACCGG
1 GCACCCCCAGGTCGCAACCGG
687176 GCAGCCCCCA
1 GCA-CCCCCA
687186 CACTAGCTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 11 0.41
21 10 0.37
22 6 0.22
ACGTcount: A:0.19, C:0.48, G:0.27, T:0.06
Consensus pattern (21 bp):
GCACCCCCAGGTCGCAACCGG
Found at i:689151 original size:20 final size:20
Alignment explanation
Indices: 689120--689176 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
689110 GTCAAAACCC
*
689120 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
689140 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* *
689160 TGCATTGTATCGATACA
1 TGAAATGTATCGATACA
689177 TGACCAAATG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:689188 original size:20 final size:21
Alignment explanation
Indices: 689165--689217 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
689155 CAGATTGCAT
**
689165 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
*
689185 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
689206 TGTATCGATACA
1 TGTATCGATACA
689218 AGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:690077 original size:20 final size:20
Alignment explanation
Indices: 690039--690083 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 20
690029 TCCTTGAGCT
690039 TTCATTTTTCACTTCAAAATAC
1 TTCATTTTTCAC-TCAAAAT-C
690061 TTCATTTTTCA-TCAAAATC
1 TTCATTTTTCACTCAAAATC
690080 TTCA
1 TTCA
690084 ACAAAAACGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.22
20 7 0.30
22 11 0.48
ACGTcount: A:0.31, C:0.22, G:0.00, T:0.47
Consensus pattern (20 bp):
TTCATTTTTCACTCAAAATC
Found at i:692395 original size:20 final size:20
Alignment explanation
Indices: 692370--692421 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
692360 AACCCTTGAA
692370 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
692390 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
692410 TGTATCGATACA
1 TGTATCGATACA
692422 CTGTATCGAT
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:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTATGCTT
Found at i:692428 original size:13 final size:13
Alignment explanation
Indices: 692410--692434 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
692400 CATTATGCTT
692410 TGTATCGATACAC
1 TGTATCGATACAC
692423 TGTATCGATACA
1 TGTATCGATACA
692435 TGATCATTGT
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:692432 original size:33 final size:32
Alignment explanation
Indices: 692390--692453 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
692380 CATTATGCTT
* *
692390 TGTATCGATACATTATGCTTTGTATCGATACAC
1 TGTATCGATACATGAT-CATTGTATCGATACAC
692423 TGTATCGATACATGATCATTGTATCGATACA
1 TGTATCGATACATGATCATTGTATCGATACA
692454 TGGACAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATGATCATTGTATCGATACAC
Found at i:692465 original size:20 final size:20
Alignment explanation
Indices: 692423--692475 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
692413 ATCGATACAC
692423 TGTATCGATACAT-GATCAT
1 TGTATCGATACATGGATCAT
692442 TGTATCGATACATGGA-CAAT
1 TGTATCGATACATGGATC-AT
692462 TGTATCGATACATG
1 TGTATCGATACATG
692476 AAACTAGCAG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATGGATCAT
Found at i:692465 original size:52 final size:52
Alignment explanation
Indices: 692370--692473 Score: 131
Period size: 52 Copynumber: 2.0 Consensus size: 52
692360 AACCCTTGAA
* * * *
692370 TGTATCGATACATTATGCTTTGTATCGATACATTATGCTTTGTATCGATACAC
1 TGTATCGATACATGATGCATTGTATCGATACATGA-GCATTGTATCGATACAC
692423 TGTATCGATACATGAT-CATTGTATCGATACATG-GACAATTGTATCGATACA
1 TGTATCGATACATGATGCATTGTATCGATACATGAG-C-ATTGTATCGATACA
692474 TGAAACTAGC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
50 1 0.02
51 1 0.02
52 28 0.62
53 15 0.33
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (52 bp):
TGTATCGATACATGATGCATTGTATCGATACATGAGCATTGTATCGATACAC
Found at i:692541 original size:13 final size:13
Alignment explanation
Indices: 692520--692549 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
692510 CGCTACATGG
*
692520 TACATTGTATCGA
1 TACAATGTATCGA
692533 TACAATGTATCGA
1 TACAATGTATCGA
692546 TACA
1 TACA
692550 TGATGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:692550 original size:33 final size:33
Alignment explanation
Indices: 692505--692569 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
692495 TACCACTATT
* * *
692505 TGTATCGCTACATGGT-ACATTGTATCGATACAA
1 TGTATCGATACATGATGA-ATTGTATCAATACAA
692538 TGTATCGATACATGATGAATTGTATCAATACA
1 TGTATCGATACATGATGAATTGTATCAATACA
692570 TTGCTTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGATGAATTGTATCAATACAA
Found at i:697289 original size:22 final size:21
Alignment explanation
Indices: 697264--697306 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
697254 TTGGTAGAAG
* *
697264 GGGTTTCTTCTTTCTTTTTAGA
1 GGGTATCTTCTTT-TTTGTAGA
*
697286 GGGTATGTTCTTTTTTGTAGA
1 GGGTATCTTCTTTTTTGTAGA
697307 TGAGGATTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.09, G:0.23, T:0.56
Consensus pattern (21 bp):
GGGTATCTTCTTTTTTGTAGA
Found at i:702744 original size:147 final size:146
Alignment explanation
Indices: 702582--703024 Score: 637
Period size: 147 Copynumber: 3.1 Consensus size: 146
702572 AAAGTGCCTA
* *
702582 GAGATCCTAAGATTTAAAGTGATAAAGACAAACCTACCCCTAACTTAAACCATCGGCATAGAAGT
1 GAGATCCTAAGATTTAAAGTGATAAAGACAAACCTACCCCTAACTTATACCATCGGCATAGAAGC
* ** * *
702647 GGATCCGGTAAGCCTATAGGTTTAGGTTTCTAAAACAAGGCTAAAGTTCCCCTATGGTTTACCAT
66 GGA-CCAGTAATTCTATAGGTTTAGGTTTCTGAAACAAGGCTAAAGTTCCCCTAAGGTTTACCAT
702712 CGACCTAAAAGTGCTCG
130 CGACCTAAAAGTGCTCG
* * * * *
702729 GAGATCCTAAGATTTAAAGAGATAAAGACAAACCTACCCCTAACTTATGCCATCGACATATATGC
1 GAGATCCTAAGATTTAAAGTGATAAAGACAAACCTACCCCTAACTTATACCATCGGCATAGAAGC
* *
702794 AGACCCAGTAATTCTATAGGTTTAGGTTTCTGAAACAAGGCTAAAGTTTCCCTAAGGTTTACCAT
66 GGA-CCAGTAATTCTATAGGTTTAGGTTTCTGAAACAAGGCTAAAGTTCCCCTAAGGTTTACCAT
*
702859 CGACCTAAAAGTGCCCG
130 CGACCTAAAAGTGCTCG
* *
702876 AAGATCCTAAGATTTAAAGTGATAAAGACAAAGCTA---C---CTTATACCATCGGCATAGAAGC
1 GAGATCCTAAGATTTAAAGTGATAAAGACAAACCTACCCCTAACTTATACCATCGGCATAGAAGC
702935 GGACTCAGTAATTCTATAGGTTTAGGTTTCTGAAACAAGGCTAAAGTTCCCCTAAGGTTTACCAT
66 GGAC-CAGTAATTCTATAGGTTTAGGTTTCTGAAACAAGGCTAAAGTTCCCCTAAGGTTTACCAT
* *
703000 TGACCTAAAAATGCTCG
130 CGACCTAAAAGTGCTCG
*
703017 GTGATCCT
1 GAGATCCT
703025 GAGGGGTGTG
Statistics
Matches: 265, Mismatches: 30, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
140 1 0.00
141 99 0.37
144 1 0.00
147 164 0.62
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (146 bp):
GAGATCCTAAGATTTAAAGTGATAAAGACAAACCTACCCCTAACTTATACCATCGGCATAGAAGC
GGACCAGTAATTCTATAGGTTTAGGTTTCTGAAACAAGGCTAAAGTTCCCCTAAGGTTTACCATC
GACCTAAAAGTGCTCG
Found at i:703572 original size:150 final size:150
Alignment explanation
Indices: 703300--703588 Score: 392
Period size: 150 Copynumber: 1.9 Consensus size: 150
703290 TTTCACATAT
* * * *
703300 TTAATTTAATTTTTCTCAAAAAGTAGCATTTCGTACCTTGATGGAAACCTACCATGATACGAAAA
1 TTAATTTAATTTTTCTCAAAAAG-AGCATTTCGTACCTTAATGGAAACCGACAAAGATACGAAAA
*
703365 ATTTTGAAATCTTTTAATACCCCTACGGATACCCATAGGAATATAAAAGATTAAAAAACGATTAA
65 ATTTTGAAATCTTTTAATACCCCTACGGATACCCATAGGAATATAAAAGATTAAAAAACAATTAA
703430 TATTTATTTTAGTGAGGAGAG
130 TATTTATTTTAGTGAGGAGAG
* *
703451 TTAATTTAATTATTTCT-AAAAA-ATCATTTCGTACCTTAATGGATACTCGA-AAAGATAC-AAA
1 TTAATTTAATT-TTTCTCAAAAAGAGCATTTCGTACCTTAATGGAAAC-CGACAAAGATACGAAA
*
703512 AAGTTTTTGAAAATCTTTT-ATACCCCTACGGATACCCATAGGAATATAAAAGACTT-AAAAATA
64 AA--TTTTG-AAATCTTTTAATACCCCTACGGATACCCATAGGAATATAAAAGA-TTAAAAAACA
*
703575 ATTGATATTTATTT
125 ATTAATATTTATTT
703589 ATGTTTGGAA
Statistics
Matches: 123, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
148 5 0.04
149 27 0.22
150 59 0.48
151 27 0.22
152 5 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (150 bp):
TTAATTTAATTTTTCTCAAAAAGAGCATTTCGTACCTTAATGGAAACCGACAAAGATACGAAAAA
TTTTGAAATCTTTTAATACCCCTACGGATACCCATAGGAATATAAAAGATTAAAAAACAATTAAT
ATTTATTTTAGTGAGGAGAG
Found at i:703701 original size:129 final size:130
Alignment explanation
Indices: 703468--703706 Score: 360
Period size: 129 Copynumber: 1.8 Consensus size: 130
703458 AATTATTTCT
* * *
703468 AAAAAATCATTTCGTACCTTAATGGATACTCGAAAAGATACAAAAAGTTTTTGAAAATCTTTTAT
1 AAAAAATCATTTCGTACCTTAATGGATACCCAAAAAGATACAAAAAGTTTTTGAAAATATTTTAT
703533 ACCCCTACGGATACCCATAGGAATATAAAAGACTT-AAAAATAATTGATATTTATTTATGTTTGG
66 ACCCCTACGGATACCCATAGGAATATAAAAGACTTAAAAAATAATTGATATTTATTTATGTTTGG
* * *
703597 AAAAAATCATTTCGTACCTTTATGGATACCCAAAAAGATACGAAATGTTTTTCG-AAATATTTTA
1 AAAAAATCATTTCGTACCTTAATGGATACCCAAAAAGATACAAAAAGTTTTT-GAAAATATTTTA
*
703661 TACCCCTACGGATACCCATAGGAGT-TATAAAGA-TTAAAAAAATAAT
65 TACCCCTACGGATACCCATAGGAATATA-AAAGACTT-AAAAAATAAT
703707 ATTTGTTTAA
Statistics
Matches: 99, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
128 4 0.04
129 85 0.86
130 10 0.10
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (130 bp):
AAAAAATCATTTCGTACCTTAATGGATACCCAAAAAGATACAAAAAGTTTTTGAAAATATTTTAT
ACCCCTACGGATACCCATAGGAATATAAAAGACTTAAAAAATAATTGATATTTATTTATGTTTGG
Found at i:704539 original size:28 final size:28
Alignment explanation
Indices: 704485--704545 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
704475 ACTAGCCTAG
*
704485 TTTTTTTT-TTTTTTCTATATTTGCTTC
1 TTTTTTTTCTTTTTTCTATATCTGCTTC
* *
704512 TATTTTTTTCTTTTTTCTTTCTCT-CTTC
1 T-TTTTTTTCTTTTTTCTATATCTGCTTC
704540 TTTTTT
1 TTTTTT
704546 GCTGAACTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 6 0.21
28 12 0.41
29 11 0.38
ACGTcount: A:0.05, C:0.15, G:0.02, T:0.79
Consensus pattern (28 bp):
TTTTTTTTCTTTTTTCTATATCTGCTTC
Found at i:705576 original size:327 final size:324
Alignment explanation
Indices: 705109--705864 Score: 848
Period size: 327 Copynumber: 2.3 Consensus size: 324
705099 TATACTAAAT
* * * * * * *
705109 AAAATCCCCCCCGAAAATAATTATGGAGCAGAAAACTCGGTTTTTTGAAGAAAGGGGATTTTAAG
1 AAAATCCCCCTCGAAAA-AATTATGGAGCAGAAAACTCCG-TATTTCAA-AAAAGGGATTTCAGG
* * * *
705174 AAAAAATTCAAAATTCATGGAAATGAAGGAATTTTTAAAAAAATGAAATAATATGAAATAAATGA
63 AAAAAATTAAAAATTCATGAAAATGAAAGAATTTTTAAAAAAATGAAATAATATGAAATAAATAA
* * *
705239 TAATATTTGATG-ACTTTTAAAAATTAAAAATCAAGAAAAAT-TCTCTCGAAAAAATT-ACGGAG
128 AAATATTTGATGAAC-TTTAAAAATTAAAAAACAAGAAAAATCCCT-TC-AAAAAATTCACGGAG
* * * *
705301 TAGAAAACTTCGTATTTCAAAAAAATGGAGATTTT-AGGAAAAAAGACAAAAACTCATAAAAATG
190 TAGAAAACTTCATATTTC-AAAAAA--CA-ATTTTAAGGAAAAAAGACAAAAACTAATAAAAATA
* * * * *
705365 AATGAATTTTTGAAAACTGAATTAATAT-A-AAATAAATGATAATATTTTATGACTTTTAAAAAT
251 AAAGAATTTTTG-AAACTG-ATT-ATATGAGAAATAAATAACAATATTTGATGAATTTTAAAAAT
*
705428 TAAAAATCAAGA
313 TAAAAACCAAGA
* *
705440 AAAATCCCCCTC-AAAAAGTTATGGAGTAGAAAACTCCGTATTTCAAAAAAGGGATTTCAGGGAA
1 AAAATCCCCCTCGAAAAAATTATGGAGCAGAAAACTCCGTATTTCAAAAAAGGGATTTCA-GGAA
* * * * * *
705504 AAAAATAAAAACTCATGAAAATGAATGAATTTTT-GAAAACTGAATTAATATGAAATAAATAAAA
65 AAAATTAAAAATTCATGAAAATGAAAGAATTTTTAAAAAAATGAAATAATATGAAATAAATAAAA
705568 ATATTTGATGAACTTTAAAAATTAAAAAACAAGAAAAATCCCTTCAAAAAATTCACGGAGTAGAA
130 ATATTTGATGAACTTTAAAAATTAAAAAACAAGAAAAATCCCTTCAAAAAATTCACGGAGTAGAA
*** *
705633 AACTTCATATTTCAAAAAACAATTTTAAGGAAAAAATTTAAAAACTAATGAAAATAAAAGAATTT
195 AACTTCATATTTCAAAAAACAATTTTAAGGAAAAAAGACAAAAACTAATAAAAATAAAAGAATTT
* *
705698 TTGAAACTGATTTTATGAGAATTAAATAACAATATTTGATGAATTTTAAAAATTAAAAACCAAGA
260 TTGAAACTGATTATATGAGAAATAAATAACAATATTTGATGAATTTTAAAAATTAAAAACCAAGA
* * * * * * * *
705763 AAAAT-CCCTTCGAAAAAATTTACGAAGGAAAAAACTCCGTATTTTAGAAAAATGGAAACTTCAA
1 AAAATCCCCCTCGAAAAAA-TTATGGAGCAGAAAACTCCGTATTTCA-AAAAA-GG-GATTTC-A
705827 GG-AAAAATTCAAAAATTCATGAAAATGAAAGAATTTTT
61 GGAAAAAATT-AAAAATTCATGAAAATGAAAGAATTTTT
705865 CAACACTAAT
Statistics
Matches: 362, Mismatches: 49, Indels: 32
0.82 0.11 0.07
Matches are distributed among these distances:
321 3 0.01
322 9 0.02
323 61 0.17
324 57 0.16
325 5 0.01
326 22 0.06
327 128 0.35
328 43 0.12
329 19 0.05
330 4 0.01
331 11 0.03
ACGTcount: A:0.51, C:0.09, G:0.12, T:0.28
Consensus pattern (324 bp):
AAAATCCCCCTCGAAAAAATTATGGAGCAGAAAACTCCGTATTTCAAAAAAGGGATTTCAGGAAA
AAATTAAAAATTCATGAAAATGAAAGAATTTTTAAAAAAATGAAATAATATGAAATAAATAAAAA
TATTTGATGAACTTTAAAAATTAAAAAACAAGAAAAATCCCTTCAAAAAATTCACGGAGTAGAAA
ACTTCATATTTCAAAAAACAATTTTAAGGAAAAAAGACAAAAACTAATAAAAATAAAAGAATTTT
TGAAACTGATTATATGAGAAATAAATAACAATATTTGATGAATTTTAAAAATTAAAAACCAAGA
Found at i:705587 original size:162 final size:161
Alignment explanation
Indices: 705109--705864 Score: 772
Period size: 162 Copynumber: 4.6 Consensus size: 161
705099 TATACTAAAT
* * * * * * * *
705109 AAAATCCCCCCCGAAAATAATTATGGAGCAGAAAACTCGGTTTTTTGAAGAAAGGGGATTTTAAG
1 AAAAT-CCCCTCGAAAA-AATTACGGAGTAGAAAACTCCG-TATTTCAA-AAAAGGGATTTTAGG
* * * * * * * *
705174 AAAAAATTCAAAATTCATGGAAATGAAGGAATTTTTAAAAAAATGAAATAATATGAAATAAATGA
62 AAAAAATTAAAAACTCATGAAAATGAAAGAATTTTT-GAAAACTGAATTAATATGAAATAAATAA
705239 TAATATTTGATGACTTTTAAAAATTAAAAATCAAGA
126 TAATATTTGATGACTTTTAAAAATTAAAAATCAAGA
* * *
705275 AAAATTCTCTCGAAAAAATTACGGAGTAGAAAACTTCGTATTTCAAAAAAATGGAGATTTTAGGA
1 AAAATCCCCTCGAAAAAATTACGGAGTAGAAAACTCCGTATTTC-AAAAAA-GG-GATTTTAGGA
** * * * *
705340 AAAAAGACAAAAACTCATAAAAATGAATGAATTTTTGAAAACTGAATTAATATAAAATAAATGAT
63 AAAAA-TTAAAAACTCATGAAAATGAAAGAATTTTTGAAAACTGAATTAATATGAAATAAATAAT
*
705405 AATATTTTATGACTTTTAAAAATTAAAAATCAAGA
127 AATATTTGATGACTTTTAAAAATTAAAAATCAAGA
* * *
705440 AAAATCCCCCTC-AAAAAGTTATGGAGTAGAAAACTCCGTATTTCAAAAAAGGGATTTCAGGGAA
1 AAAAT-CCCCTCGAAAAAATTACGGAGTAGAAAACTCCGTATTTCAAAAAAGGGATTTTA-GGAA
* * *
705504 AAAAATAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATAAAAA
64 AAAATTAAAAACTCATGAAAATGAAAGAATTTTTGAAAACTGAATTAATATGAAATAAATAATAA
*
705569 TATTTGATGAAC-TTTAAAAATTAAAAAACAAGA
129 TATTTGATG-ACTTTTAAAAATTAAAAATCAAGA
* * * **
705602 AAAATCCCTTC-AAAAAATTCACGGAGTAGAAAACTTCATATTTCAAAAAA-CAATTTTAAGGAA
1 AAAATCCCCTCGAAAAAATT-ACGGAGTAGAAAACTCCGTATTTCAAAAAAGGGATTTT-AGGAA
* * *
705665 AAAATTTAAAAACTAATGAAAATAAAAGAATTTTTG-AAACTG-ATT-TTATGAGAATTAAATAA
64 AAAA-TTAAAAACTCATGAAAATGAAAGAATTTTTGAAAACTGAATTAATATGA-AA-TAAATAA
* * *
705727 CAATATTTGATGAATTTTAAAAATTAAAAACCAAGA
126 TAATATTTGATGACTTTTAAAAATTAAAAATCAAGA
* * * * * * **
705763 AAAATCCCTTCGAAAAAATTTACGAAGGAAAAAACTCCGTATTTTAGAAAAATGGAAACTTCAAG
1 AAAATCCCCTCGAAAAAA-TTACGGAGTAGAAAACTCCGTATTTCA-AAAAA-GG-GA-TTTTAG
*
705828 G-AAAAATTCAAAAATTCATGAAAATGAAAGAATTTTT
61 GAAAAAATT-AAAAACTCATGAAAATGAAAGAATTTTT
705865 CAACACTAAT
Statistics
Matches: 505, Mismatches: 64, Indels: 43
0.83 0.10 0.07
Matches are distributed among these distances:
159 5 0.01
160 6 0.01
161 79 0.16
162 175 0.35
163 26 0.05
164 30 0.06
165 145 0.29
166 37 0.07
167 2 0.00
ACGTcount: A:0.51, C:0.09, G:0.12, T:0.28
Consensus pattern (161 bp):
AAAATCCCCTCGAAAAAATTACGGAGTAGAAAACTCCGTATTTCAAAAAAGGGATTTTAGGAAAA
AATTAAAAACTCATGAAAATGAAAGAATTTTTGAAAACTGAATTAATATGAAATAAATAATAATA
TTTGATGACTTTTAAAAATTAAAAATCAAGA
Found at i:706767 original size:44 final size:44
Alignment explanation
Indices: 706711--706804 Score: 161
Period size: 44 Copynumber: 2.1 Consensus size: 44
706701 TACCGAGGAT
* *
706711 TGAGCTGACAGGTAAATAATGAAATGAAAGTTTTTTCCCGAGAC
1 TGAGCCGACAGGTAAACAATGAAATGAAAGTTTTTTCCCGAGAC
*
706755 TGAGCCGACAGGTAAACAATGAAATGAAAGTTTTTTCTCGAGAC
1 TGAGCCGACAGGTAAACAATGAAATGAAAGTTTTTTCCCGAGAC
706799 TGAGCC
1 TGAGCC
706805 AATAGGAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (44 bp):
TGAGCCGACAGGTAAACAATGAAATGAAAGTTTTTTCCCGAGAC
Found at i:707178 original size:42 final size:42
Alignment explanation
Indices: 707111--707295 Score: 169
Period size: 42 Copynumber: 4.4 Consensus size: 42
707101 AAGGCAAACA
* * * *
707111 AAAGATGGAGAAATCT-CTCGAGTCTAAGCCGATGGGTAGACG
1 AAAGATGGAGAAGTCTCCTAG-GTCTAAGCCAATGGGCAGACG
*
707153 AAAGATGGAGAAGTCTCCTAGGTCTAATCCAATGGGCAGACG
1 AAAGATGGAGAAGTCTCCTAGGTCTAAGCCAATGGGCAGACG
* * *
707195 AATA-ATGGAGAAGTCTCCTAGGTCTAAGCTAACGAGCAGACG
1 AA-AGATGGAGAAGTCTCCTAGGTCTAAGCCAATGGGCAGACG
* * * * * * *
707237 AATGATGAAGAAGTCTTCC-GGGTCTAAGTCGATGGGTAAACG
1 AAAGATGGAGAAGTC-TCCTAGGTCTAAGCCAATGGGCAGACG
**
707279 AAAGATAAAGAAGTCTC
1 AAAGATGGAGAAGTCTC
707296 TCGGATTTGA
Statistics
Matches: 118, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
41 2 0.02
42 109 0.92
43 7 0.06
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (42 bp):
AAAGATGGAGAAGTCTCCTAGGTCTAAGCCAATGGGCAGACG
Found at i:707377 original size:85 final size:86
Alignment explanation
Indices: 707288--707455 Score: 196
Period size: 85 Copynumber: 2.0 Consensus size: 86
707278 GAAAGATAAA
** * * *
707288 GAAGTCTCTCGGATTTGAGCTGAACGACAAATGATTGATGAAGGAAGTCTCTT-GGATTTGAGCC
1 GAAGTCTCTCGGACCTGAGCCGAACGACAAATGATTGATAAAGGAAATCTCTTAGGA-TTGAGCC
* *
707352 TA-GGGCAGATGATTGATAGAG
65 AACGGGCAGATGATGGATAGAG
* * * * * *
707373 GAAGTCTTTCGGGCCTGAGCCGAAGGGCAGATGATTGATAAAGGAAATCTCTTATGATTGAGCCA
1 GAAGTCTCTCGGACCTGAGCCGAACGACAAATGATTGATAAAGGAAATCTCTTAGGATTGAGCCA
707438 ACGGGCAGATGATGGATA
66 ACGGGCAGATGATGGATA
707456 AAGCAGTCTC
Statistics
Matches: 68, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
85 51 0.75
86 17 0.25
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.25
Consensus pattern (86 bp):
GAAGTCTCTCGGACCTGAGCCGAACGACAAATGATTGATAAAGGAAATCTCTTAGGATTGAGCCA
ACGGGCAGATGATGGATAGAG
Found at i:707435 original size:43 final size:41
Alignment explanation
Indices: 707282--707467 Score: 153
Period size: 43 Copynumber: 4.4 Consensus size: 41
707272 GTAAACGAAA
* * * * *
707282 GATAAA-GAAGTCTCTCGGATTTGAGCTGAACGACAAATGATT
1 GATAAAGGAAGTCTCTTGGA-TTGAGC-CAAGGGCAGATGATT
* *
707324 GATGAAGGAAGTCTCTTGGATTTGAGCCTAGGGCAGATGATT
1 GATAAAGGAAGTCTCTTGGA-TTGAGCCAAGGGCAGATGATT
* **
707366 GATAGAGGAAGTCT-TTCGGGCCTGAGCCGAAGGGCAGATGATT
1 GATAAAGGAAGTCTCTT--GGATTGAGCC-AAGGGCAGATGATT
* * *
707409 GATAAAGGAAATCTCTTATGATTGAGCCAACGGGCAGATGATG
1 GATAAAGGAAGTCTCTT-GGATTGAGCCAA-GGGCAGATGATT
*
707452 GATAAA-GCAGTCTCTT
1 GATAAAGGAAGTCTCTT
707468 AGGTCTAAGC
Statistics
Matches: 117, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
41 2 0.02
42 43 0.37
43 70 0.60
44 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.25
Consensus pattern (41 bp):
GATAAAGGAAGTCTCTTGGATTGAGCCAAGGGCAGATGATT
Found at i:707490 original size:85 final size:85
Alignment explanation
Indices: 707318--707496 Score: 193
Period size: 85 Copynumber: 2.1 Consensus size: 85
707308 TGAACGACAA
* * * * *
707318 ATGATTGATGAAGGAAGTCTCTTGGATTTGAGCCTAGGGCAGATGATTGATAGAGGAAGTCTTTC
1 ATGATTGATAAAGGAAATCTCTTGGATTTGAGCCAAGGGCAGATGATGGATAGAAGAAGTCTTTC
* *
707383 GGGCCTGAGCCGAAGGGCAG
66 AGGCCTAAGCCGAAGGGCAG
* *
707403 ATGATTGATAAAGGAAATCTCTTATGA-TTGAGCCAACGGGCAGATGATGGATA-AAGCAGTCTC
1 ATGATTGATAAAGGAAATCTCTT-GGATTTGAGCCAA-GGGCAGATGATGGATAGAAGAAGTCT-
* * * *
707466 TT-AGGTCTAAGCTGACGGGTAG
63 TTCAGGCCTAAGCCGAAGGGCAG
707488 ATGATTGAT
1 ATGATTGAT
707497 GAGAAGTTTA
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
85 59 0.76
86 19 0.24
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.26
Consensus pattern (85 bp):
ATGATTGATAAAGGAAATCTCTTGGATTTGAGCCAAGGGCAGATGATGGATAGAAGAAGTCTTTC
AGGCCTAAGCCGAAGGGCAG
Found at i:708886 original size:51 final size:51
Alignment explanation
Indices: 708719--708887 Score: 214
Period size: 51 Copynumber: 3.3 Consensus size: 51
708709 TTTTAGGTTT
* * *
708719 TCATTCAATTTTTTTACCTGAATGCCCTTTTGGGTTTTCATCCAAGCATTG
1 TCATTCAATTTTTTTACTTGAATGCCCTTTTAGGTTTTCATCAAAGCATTG
* ** *
708770 TCATTC-ATTTTTCTTACTTGAATGCCCTTTCAGGTTTTTGTCTAAGCATTG
1 TCATTCAATTTTT-TTACTTGAATGCCCTTTTAGGTTTTCATCAAAGCATTG
* * *
708821 TCATTCATTTTTTTTACTTGAATGCCTTTTTTGGTTTTCATCAAAGCATTG
1 TCATTCAATTTTTTTACTTGAATGCCCTTTTAGGTTTTCATCAAAGCATTG
*
708872 TCATTTAATATTTTTT
1 TCATTCAAT-TTTTTT
708888 TCTACATAGT
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
50 6 0.06
51 83 0.83
52 11 0.11
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.51
Consensus pattern (51 bp):
TCATTCAATTTTTTTACTTGAATGCCCTTTTAGGTTTTCATCAAAGCATTG
Found at i:710289 original size:20 final size:20
Alignment explanation
Indices: 710264--710317 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
710254 GTTAGAAGTA
*
710264 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
710284 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
710304 ATGTATCGATACAA
1 ATGTATCGATACAA
710318 ACAGTGGTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:710370 original size:20 final size:20
Alignment explanation
Indices: 710344--710417 Score: 91
Period size: 20 Copynumber: 3.8 Consensus size: 20
710334 ACTACCAGTT
*
710344 TCATGTATCAATACAAATG-
1 TCATGTATCGATACAAATGA
710363 TCCATGTATCGATAC-AATGA
1 T-CATGTATCGATACAAATGA
710383 TCATGTATCGATACAAA-GCA
1 TCATGTATCGATACAAATG-A
*
710403 TAATGTATCGATACA
1 TCATGTATCGATACA
710418 TCTGGGTGTG
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
19 19 0.39
20 30 0.61
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.30
Consensus pattern (20 bp):
TCATGTATCGATACAAATGA
Found at i:712667 original size:34 final size:34
Alignment explanation
Indices: 712624--712704 Score: 153
Period size: 34 Copynumber: 2.4 Consensus size: 34
712614 GCCAAGGAAA
712624 TGTATCGATACATTTGTAGAATGTACCGATACAT
1 TGTATCGATACATTTGTAGAATGTACCGATACAT
*
712658 TGTATCGATACATTTGTAGAATGTACTGATACAT
1 TGTATCGATACATTTGTAGAATGTACCGATACAT
712692 TGTATCGATACAT
1 TGTATCGATACAT
712705 CTAGGAAGAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (34 bp):
TGTATCGATACATTTGTAGAATGTACCGATACAT
Found at i:715111 original size:51 final size:51
Alignment explanation
Indices: 715042--715435 Score: 257
Period size: 52 Copynumber: 7.6 Consensus size: 51
715032 TAAGTTTCTC
* * *
715042 AATTTTTCATAATCGGGGATACTTCAACCCCGGTTTTATTTCTAAAACACT
1 AATTTTCCATAATCGAGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
* * *
715093 AATTTTCCAAAATTGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACA-T
1 AATTTTCCATAATCGAGGATACTCCAACCCCGGTTTTATTTCT-AAAACACT
* * * * *
715143 CAATTTTCCTTTAATCGAGGATACTCCAACACCGATTTTATTTCCGAAAACACC
1 -AATTTTCC-ATAATCGAGGATACTCCAACCCCGGTTTTATTT-CTAAAACACT
* * * * * * *
715197 AATTTTTCACAATCGAGGATACTCCAACCCC-GTTAATCATCGGGGATACTCCAACCCCGT
1 AATTTTCCATAATCGAGGATACTCCAACCCCGGTT--TTAT------TTCT-AAAACAC-T
* * * * *
715257 TATTTT---TGA--GGGGATACTCTAACCCTCGGTTTTATTTCTAAAATACT
1 AATTTTCCATAATCGAGGATACTCCAACCC-CGGTTTTATTTCTAAAACACT
* * * *
715304 AATTTTCCACAATCGGGGATACTCCAACCCCAGTTTTATCTTC-AAAACACC
1 AATTTTCCATAATCGAGGATACTCCAACCCCGGTTTTAT-TTCTAAAACACT
** * * *
715355 AATTTTTCTTTAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAACACT
1 AA-TTTTCCATAATCGAGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
* * *
715407 AGTTTTTCACAATCGAGGATACTCCAACC
1 AATTTTCCATAATCGAGGATACTCCAACC
715436 TCGTTATTTC
Statistics
Matches: 261, Mismatches: 56, Indels: 52
0.71 0.15 0.14
Matches are distributed among these distances:
47 6 0.02
48 3 0.01
49 3 0.01
50 3 0.01
51 94 0.36
52 103 0.39
53 16 0.06
55 17 0.07
56 1 0.00
57 4 0.02
58 1 0.00
59 5 0.02
60 5 0.02
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (51 bp):
AATTTTCCATAATCGAGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
Found at i:715315 original size:107 final size:106
Alignment explanation
Indices: 715161--715548 Score: 326
Period size: 107 Copynumber: 3.7 Consensus size: 106
715151 CTTTAATCGA
* * *
715161 GGATACTCCAACACCGATTTTATTTCCGAAAACACCAATTTTTCACAATCGAGGATACTCCAACC
1 GGATACTCCAACCCCGATTTTATTTCC-AAAACACTAATTTTCCACAATCGAGGATACTCCAACC
715226 CCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTTGAGG
65 CCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTTGAGG
* * * * *
715268 GGATACTCTAACCCTCGGTTTTATTTCTAAAATACTAATTTTCCACAATCGGGGATACTCCAACC
1 GGATACTCCAACCC-CGATTTTATTTCCAAAACACTAATTTTCCACAATCGAGGATACTCCAACC
* * * * * * * *
715333 CCAGTTTTATCTTC---AAAACACCAA-----TTTTTCTTTAATCGA
65 CC-G-TTAATCATCGGGGATACTCCAACCCCGTTATT-TTTGA--GG
* * * *
715372 GGATACTCCAACTCCGATTTTATTTCCAAAACACTAGTTTTTCACAATCGAGGATACTCCAACCT
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTCCACAATCGAGGATACTCCAACCC
* ** **
715437 CGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGG
66 CGTTA-ATCATCGGGGATACTCCAACCCCGTTATTTTTGAGG
* ** * * * * * *
715479 GGATACTCTAACCCCGGCTTTATTTCCAAAATATTGA-TTTCTCATAATTGGGGATACTCCAACC
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTC-CACAATCGAGGATACTCCAACC
715543 CCGTTA
65 CCGTTA
715549 TTTCCGAGGG
Statistics
Matches: 214, Mismatches: 51, Indels: 32
0.72 0.17 0.11
Matches are distributed among these distances:
101 6 0.03
102 9 0.04
103 45 0.21
104 13 0.06
105 7 0.03
106 10 0.05
107 101 0.47
108 12 0.06
109 9 0.04
110 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (106 bp):
GGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTCCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTATTTTTGAGG
Found at i:715450 original size:211 final size:210
Alignment explanation
Indices: 715056--715544 Score: 732
Period size: 211 Copynumber: 2.3 Consensus size: 210
715046 TTTCATAATC
*
715056 GGGGATACT-TCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCAAAATTGGGGATACTCCAA
1 GGGGATACTCT-AACCCCGGTTTTATTTCTAAAATACTAATTTTCCAAAATTGGGGATACTCCAA
* * *
715120 CCCCGGTTTTATTTTCAAAACATCAATTTTCCTTTAATCGAGGATACTCCAACACCGATTTTATT
65 CCCCAGTTTTATCTTCAAAACACCAATTTTCCTTTAATCGAGGATACTCCAACACCGATTTTATT
715185 TCCGAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTAATCATCGGGGATACTCCA
130 TCCGAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTAATCATCGGGGATACTCCA
** **
715250 ACCCCGTTATTTTTGA
195 ACCCCGTTACCTCCGA
* *
715266 GGGGATACTCTAACCCTCGGTTTTATTTCTAAAATACTAATTTTCCACAATCGGGGATACTCCAA
1 GGGGATACTCTAACCC-CGGTTTTATTTCTAAAATACTAATTTTCCAAAATTGGGGATACTCCAA
* *
715331 CCCCAGTTTTATCTTCAAAACACCAATTTTTCTTTAATCGAGGATACTCCAACTCCGATTTTATT
65 CCCCAGTTTTATCTTCAAAACACCAATTTTCCTTTAATCGAGGATACTCCAACACCGATTTTATT
* * * *
715396 TCC-AAAACACTAGTTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCC
130 TCCGAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTA-ATCATCGGGGATACTCC
715460 AACCCCGTTACCTCCGA
194 AACCCCGTTACCTCCGA
* * * * *
715477 GGGGATACTCTAACCCCGGCTTTATTTCCAAAATATTGA-TTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCTAACCCCGGTTTTATTTCTAAAATACTAATTTTC-CAAAATTGGGGATACTCCAA
715541 CCCC
65 CCCC
715545 GTTATTTCCG
Statistics
Matches: 253, Mismatches: 22, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
209 4 0.02
210 95 0.38
211 154 0.61
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (210 bp):
GGGGATACTCTAACCCCGGTTTTATTTCTAAAATACTAATTTTCCAAAATTGGGGATACTCCAAC
CCCAGTTTTATCTTCAAAACACCAATTTTCCTTTAATCGAGGATACTCCAACACCGATTTTATTT
CCGAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAA
CCCCGTTACCTCCGA
Found at i:715628 original size:79 final size:79
Alignment explanation
Indices: 715448--715649 Score: 253
Period size: 79 Copynumber: 2.6 Consensus size: 79
715438 GTTATTTCAT
** * *
715448 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCTAACCCCGGCTTTATTTCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATAT
* * *
715513 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * *
715527 TGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGATTTTATTTCC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAAT-A
*
715591 TCGATTTTTCACAAC
65 TCGATTTCTCACAAC
* * *
715606 CGGGGATACTCCAACCCCGTTATTTTCAAGAGGATACTCCAACC
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACC
715650 TCATTATAAT
Statistics
Matches: 105, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
78 3 0.03
79 102 0.97
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATAT
CGATTTCTCACAAC
Found at i:721644 original size:19 final size:19
Alignment explanation
Indices: 721620--721678 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
721610 AGCAAATATG
721620 TCGATACATAAGTGTTGTA
1 TCGATACATAAGTGTTGTA
721639 TCGATAC--AA----TGTA
1 TCGATACATAAGTGTTGTA
721652 TCGATACATAAGTGTTGTA
1 TCGATACATAAGTGTTGTA
721671 TCGATACA
1 TCGATACA
721679 ATGTATCGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.32
15 2 0.06
17 2 0.06
19 19 0.56
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.34
Consensus pattern (19 bp):
TCGATACATAAGTGTTGTA
Found at i:721653 original size:13 final size:13
Alignment explanation
Indices: 721635--721692 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
721625 ACATAAGTGT
721635 TGTATCGATACAA
1 TGTATCGATACAA
721648 TGTATCGATACATAA
1 TGTATCGATAC--AA
721663 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
721680 TGTATCGCTACAA
1 TGTATCGATACAA
721693 AGCTACTGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:721661 original size:32 final size:32
Alignment explanation
Indices: 721620--721691 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 32
721610 AGCAAATATG
721620 TCGATACATAAGTGTTGTATCGATACAATGTA
1 TCGATACATAAGTGTTGTATCGATACAATGTA
721652 TCGATACATAAGTGTTGTATCGATACAATGTA
1 TCGATACATAAGTGTTGTATCGATACAATGTA
*
721684 TCGCTACA
1 TCGATACA
721692 AAGCTACTGC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (32 bp):
TCGATACATAAGTGTTGTATCGATACAATGTA
Done.