Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008442.1 Hibiscus syriacus cultivar Beakdansim tig00111244_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 816021
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:517690 original size:113 final size:113
Alignment explanation
Indices: 517486--518258 Score: 1134
Period size: 113 Copynumber: 6.8 Consensus size: 113
517476 CAAAGATTTG
* *
517486 AATCCGTCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * **
517551 AAGAAGAACAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTA
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTACTTA
* * * *
517599 AATTCATCATTTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * * *
517664 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTACTTA
*
517712 AATCCGTCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* **
517777 AAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTA
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTACTTA
* * * *
517825 AATTCATCATTTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * *
517890 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTACTTA
* *
517938 AATCCGTCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* **
518003 AAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTA
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTACTTA
* * * *
518051 AATTCATCATTTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * * * *
518116 AGAAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACATTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTACTTA
* * * *
518164 AATCCATCATTTGGTGAATCATCTTTTCCAGATAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
518229 AGAAAG-AGAAAGTTCATAATGAGAAGAACT
66 AGGAAGAAG-AAGTTCATAATGAGAAGAACT
518259 CATCTGAAGA
Statistics
Matches: 587, Mismatches: 72, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
112 2 0.00
113 585 1.00
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (113 bp):
AATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTACTTA
Found at i:517877 original size:226 final size:226
Alignment explanation
Indices: 517483--518258 Score: 1421
Period size: 226 Copynumber: 3.4 Consensus size: 226
517473 TAGCAAAGAT
517483 TTGAATCCGTCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TTGAATCCGTCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
517548 AGAAAGAAGAACAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGA
66 AGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGA
*
517613 TGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATT
131 TGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
517678 CATAATGAGAAGAATTTGTTCAACCTTTTAC
196 CATAATGAGAAGAATTTGTTCAACCTTTTAC
*
517709 TTGAATCCGTCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TTGAATCCGTCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
517774 AGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGA
66 AGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGA
517839 TGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
131 TGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
517904 CATAATGAGAAGAATTTGTTCAACCTTTTAC
196 CATAATGAGAAGAATTTGTTCAACCTTTTAC
517935 TTGAATCCGTCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TTGAATCCGTCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
518000 AGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGA
66 AGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGA
*
518065 TGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTT
131 TGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
*
518130 CATAATGAGAAGAATTTGTTCAACATTTTAC
196 CATAATGAGAAGAATTTGTTCAACCTTTTAC
* * * * * *
518161 CTGAATCCATCATTTGGTGAATCATCTTTTCCAGATAAAGTTCATAATGAGAAGAACTCATCTGA
1 TTGAATCCGTCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
518226 AG-AAGAA-AGAGAAAGTTCATAATGAGAAGAACT
66 AGAAAGAAGA-AG-AAGTTCATAATGAGAAGAACT
518259 CATCTGAAGA
Statistics
Matches: 536, Mismatches: 12, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
224 1 0.00
225 7 0.01
226 528 0.99
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (226 bp):
TTGAATCCGTCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGA
TGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
CATAATGAGAAGAATTTGTTCAACCTTTTAC
Found at i:518242 original size:40 final size:40
Alignment explanation
Indices: 518197--518275 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
518187 TTTTCCAGAT
518197 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAG
1 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAG
*
518237 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
1 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGA
518276 AGAAGAAGGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.49, C:0.10, G:0.23, T:0.18
Consensus pattern (40 bp):
AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAG
Found at i:518280 original size:13 final size:13
Alignment explanation
Indices: 518264--518293 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
518254 GAACTCATCT
518264 GAAGAAGGAAGAA
1 GAAGAAGGAAGAA
518277 GAAGAAGGAAGAA
1 GAAGAAGGAAGAA
518290 GAAG
1 GAAG
518294 TTCATAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (13 bp):
GAAGAAGGAAGAA
Found at i:518382 original size:166 final size:166
Alignment explanation
Indices: 518111--518428 Score: 528
Period size: 166 Copynumber: 1.9 Consensus size: 166
518101 GAACTCATCT
518111 GAAGAAGAAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACATTTTACCTGAATCCATCATTT
1 GAAGAAGAAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACATTTTACCTGAATCCATCATTT
* * * *
518176 GGTGAATCATCTTTTCCAGATAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAGAAAG
66 GATGAATCAACATTGCCAGATAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAGAAAG
518241 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
131 TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
* * * * *
518277 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCATTT
1 GAAGAAGAAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACATTTTACCTGAATCCATCATTT
* * *
518342 GATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAAG
66 GATGAATCAACATTGCCAGATAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAGAAAG
518407 TTCATAATGAGAAGAACTCATC
131 TTCATAATGAGAAGAACTCATC
518429 AAGAGCTTAT
Statistics
Matches: 140, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
166 140 1.00
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (166 bp):
GAAGAAGAAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACATTTTACCTGAATCCATCATTT
GATGAATCAACATTGCCAGATAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAGAAAG
TTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
Found at i:518679 original size:3 final size:3
Alignment explanation
Indices: 518673--518761 Score: 133
Period size: 3 Copynumber: 29.7 Consensus size: 3
518663 TTTTTATCCA
* ** *
518673 TAT TAT TAT TAT TAA TAT TAT TAT TAT CCT TAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
518721 TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
518762 ATTTATATTA
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:518772 original size:10 final size:10
Alignment explanation
Indices: 518672--518783 Score: 53
Period size: 9 Copynumber: 11.7 Consensus size: 10
518662 TTTTTTATCC
*
518672 ATATTATTAT
1 ATATTAATAT
518682 -TATTAATAT
1 ATATTAATAT
518691 -TATT-AT-T
1 ATATTAATAT
* *
518698 ATCCTTATTAT
1 AT-ATTAATAT
518709 -TATTAATAT
1 ATATTAATAT
*
518718 -TATTATTAT
1 ATATTAATAT
*
518727 CATTATTATTAT
1 -A-TATTAATAT
*
518739 -TATTATTAT
1 ATATTAATAT
*
518748 -TATTATTAT
1 ATATTAATAT
*
518757 -TATTAATTT
1 ATATTAATAT
518766 ATATTAAATAT
1 ATATT-AATAT
518777 ATATTAA
1 ATATTAA
518784 ATACATAATA
Statistics
Matches: 84, Mismatches: 9, Indels: 18
0.76 0.08 0.16
Matches are distributed among these distances:
7 1 0.01
8 3 0.04
9 53 0.63
10 8 0.10
11 10 0.12
12 9 0.11
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (10 bp):
ATATTAATAT
Found at i:522033 original size:26 final size:28
Alignment explanation
Indices: 522003--522065 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 28
521993 GAAAATTTTA
522003 AGCTCA-C-GAGTTTTCGAGTCGAGTCG
1 AGCTCATCAGAGTTTTCGAGTCGAGTCG
522029 AGCTCCATTTCAGAGTTTTCGAGTCGAGTCG
1 AGCT-CA--TCAGAGTTTTCGAGTCGAGTCG
522060 AGCTCA
1 AGCTCA
522066 GCAATACTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
26 4 0.12
27 2 0.06
30 3 0.09
31 23 0.72
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.29
Consensus pattern (28 bp):
AGCTCATCAGAGTTTTCGAGTCGAGTCG
Found at i:526819 original size:36 final size:36
Alignment explanation
Indices: 526779--526881 Score: 161
Period size: 36 Copynumber: 2.9 Consensus size: 36
526769 ACGATGCTGG
* * *
526779 ACATTGATATACGATTGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTATCAAAGCTGATATGATA
* *
526815 ACATTGATGCACGAATATATCAAAGCTGATATGATA
1 ACATTGATACACGAATGTATCAAAGCTGATATGATA
526851 ACATTGATACACGAATGTATCAAAGCTGATA
1 ACATTGATACACGAATGTATCAAAGCTGATA
526882 ATGGTTAAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.28
Consensus pattern (36 bp):
ACATTGATACACGAATGTATCAAAGCTGATATGATA
Found at i:530678 original size:36 final size:36
Alignment explanation
Indices: 530632--530770 Score: 215
Period size: 36 Copynumber: 3.9 Consensus size: 36
530622 ATTTATCCAT
* *
530632 TATCAGCTTTGATACATTCGTGTATCAATGTTTTCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
* *
530668 TATCAACTTTGGTACATTCATGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
*
530704 TATCAGCTTTGGTACCTTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
* *
530740 TATCATCTTTGGTACATTTGTGTATCAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
530771 CCAATACCGT
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 93 1.00
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.44
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:533878 original size:12 final size:12
Alignment explanation
Indices: 533861--533889 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
533851 AGGTTGAGGT
533861 GAATTCTAAAAA
1 GAATTCTAAAAA
533873 GAATTCTAAAAA
1 GAATTCTAAAAA
533885 GAATT
1 GAATT
533890 TTTATATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.28
Consensus pattern (12 bp):
GAATTCTAAAAA
Found at i:539458 original size:36 final size:36
Alignment explanation
Indices: 539418--539556 Score: 217
Period size: 36 Copynumber: 3.9 Consensus size: 36
539408 ACTGTGCTGG
539418 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
539454 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* *
539490 GCATTGATAC-CTGAATGTATCAAAGCTGATATGATA
1 ACATTGATACAC-GAATGTACCAAAGCTGATATGATA
* * *
539526 ACATTGATACATGAATGTATCAAAGATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATA
539557 ATGTATAAAT
Statistics
Matches: 96, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
35 1 0.01
36 95 0.99
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.27
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATATGATA
Found at i:540215 original size:23 final size:22
Alignment explanation
Indices: 540169--540216 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
540159 TACAACCACT
540169 AAACTCAATAAATTTGTAATTC
1 AAACTCAATAAATTTGTAATTC
*
540191 AAACTCAACTCAATATT-TAATTC
1 AAACTCAA-TAAAT-TTGTAATTC
540214 AAA
1 AAA
540217 ATTCATCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 8 0.35
23 13 0.57
24 2 0.09
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (22 bp):
AAACTCAATAAATTTGTAATTC
Found at i:544097 original size:36 final size:36
Alignment explanation
Indices: 544057--544195 Score: 224
Period size: 36 Copynumber: 3.9 Consensus size: 36
544047 ACTGTGTTGG
* *
544057 ACATTGATAGATGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
544093 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
*
544129 ACATTGATACACGAATGTATCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* * *
544165 ACATTAATACATGAATGTATCAAAGCTGATA
1 ACATTGATACACGAATGTACCAAAGCTGATA
544196 ATGGATAAAT
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 98 1.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATATGATA
Found at i:551465 original size:23 final size:22
Alignment explanation
Indices: 551439--551587 Score: 114
Period size: 23 Copynumber: 6.7 Consensus size: 22
551429 TATAATTATC
551439 CCGAA-TGACCACATAGGTTTGCA
1 CCGAAGTG-CCACATA-GTTTGCA
*
551462 CCGAAGTGTCACATAAGTTTGCA
1 CCGAAGTGCCACAT-AGTTTGCA
*
551485 TCGAAGTGCCACATA-TTTGTC-
1 CCGAAGTGCCACATAGTTTG-CA
* *
551506 CC-AAATGACCATATAGGTTTGCA
1 CCGAAGTG-CCACATA-GTTTGCA
*
551529 TCGAAGTGCCACATAAGTTTGCA
1 CCGAAGTGCCACAT-AGTTTGCA
*
551552 GCGAAGTGCCACATA-TTTGTC-
1 CCGAAGTGCCACATAGTTTG-CA
551573 CCGAAG-GACCACATA
1 CCGAAGTG-CCACATA
551588 ATTATCCCGA
Statistics
Matches: 104, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
20 5 0.05
21 27 0.26
22 5 0.05
23 59 0.57
24 8 0.08
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (22 bp):
CCGAAGTGCCACATAGTTTGCA
Found at i:551522 original size:67 final size:67
Alignment explanation
Indices: 551437--551587 Score: 248
Period size: 67 Copynumber: 2.3 Consensus size: 67
551427 CATATAATTA
* *
551437 TCCCGAATGACCACATAGGTTTGCACCGAAGTGTCACATAAGTTTGCATCGAAGTGCCACATATT
1 TCCCGAATGACCACATAGGTTTGCACCGAAGTGCCACATAAGTTTGCAGCGAAGTGCCACATATT
551502 TG
66 TG
* * *
551504 TCCCAAATGACCATATAGGTTTGCATCGAAGTGCCACATAAGTTTGCAGCGAAGTGCCACATATT
1 TCCCGAATGACCACATAGGTTTGCACCGAAGTGCCACATAAGTTTGCAGCGAAGTGCCACATATT
551569 TG
66 TG
*
551571 TCCCGAAGGACCACATA
1 TCCCGAATGACCACATA
551588 ATTATCCCGA
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 76 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (67 bp):
TCCCGAATGACCACATAGGTTTGCACCGAAGTGCCACATAAGTTTGCAGCGAAGTGCCACATATT
TG
Found at i:551577 original size:21 final size:22
Alignment explanation
Indices: 551486--551608 Score: 82
Period size: 21 Copynumber: 5.7 Consensus size: 22
551476 AAGTTTGCAT
551486 CGAAGTG-CCACATATTTGTCC
1 CGAAGTGACCACATATTTGTCC
* * *
551507 C-AAATGACCATATAGGTTTG-CAT
1 CGAAGTGACCACATA--TTTGTC-C
*
551530 CGAAGTG-CCACATAAGTTTG-CAG
1 CGAAGTGACCACAT-A-TTTGTC-C
551553 CGAAGTG-CCACATATTTGTCC
1 CGAAGTGACCACATATTTGTCC
* *
551574 CGAAG-GACCACATAATTATCC
1 CGAAGTGACCACATATTTGTCC
551595 CGAA-TGACCACATA
1 CGAAGTGACCACATA
551609 ACCCTTGACT
Statistics
Matches: 84, Mismatches: 9, Indels: 18
0.76 0.08 0.16
Matches are distributed among these distances:
20 5 0.06
21 41 0.49
22 3 0.04
23 30 0.36
24 5 0.06
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (22 bp):
CGAAGTGACCACATATTTGTCC
Found at i:551800 original size:21 final size:21
Alignment explanation
Indices: 551740--551791 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
551730 CATAGAGTCT
* ***
551740 GTTCACATTCACTGATTTGGA
1 GTTCACATTTACTGATTCAAA
551761 GTTCACATTTACTGATTCAAA
1 GTTCACATTTACTGATTCAAA
551782 GTTCACATTT
1 GTTCACATTT
551792 CCATATTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (21 bp):
GTTCACATTTACTGATTCAAA
Found at i:552267 original size:53 final size:54
Alignment explanation
Indices: 552187--552313 Score: 186
Period size: 53 Copynumber: 2.4 Consensus size: 54
552177 ACTTCTCTTT
** *
552187 AAGGGTATTAATACCTCCTCATGGTACCGATACTGAA-ATAACATTCGATG-TTC
1 AAGGGTATCGATACCTCCTCAAGGTACCGATACT-AATATAACATTCGATGTTTC
*
552240 AAGGGTATCGATACCTCCTCAAGGTACCGATACTAATATGACATTCGATGTTTC
1 AAGGGTATCGATACCTCCTCAAGGTACCGATACTAATATAACATTCGATGTTTC
552294 AAGGGTATCGATACCATCCT
1 AAGGGTATCGATACC-TCCT
552314 TCAGATATCG
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
52 2 0.03
53 43 0.64
54 18 0.27
55 4 0.06
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (54 bp):
AAGGGTATCGATACCTCCTCAAGGTACCGATACTAATATAACATTCGATGTTTC
Found at i:552324 original size:20 final size:20
Alignment explanation
Indices: 552298--552379 Score: 69
Period size: 20 Copynumber: 4.0 Consensus size: 20
552288 TGTTTCAAGG
*
552298 GTATCGATACCATCCTT-CA
1 GTATCGATACCACCCTTACA
*
552317 GATATCGATACTACCCTTACA
1 G-TATCGATACCACCCTTACA
*
552338 GTATCGATACC-CCTCTCAACAA
1 GTATCGATACCACC-CT-TAC-A
* *
552360 GTATCGATACAACCTTTACA
1 GTATCGATACCACCCTTACA
552380 AAATACTCAT
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
19 3 0.06
20 26 0.52
21 7 0.14
22 12 0.24
23 2 0.04
ACGTcount: A:0.32, C:0.30, G:0.10, T:0.28
Consensus pattern (20 bp):
GTATCGATACCACCCTTACA
Found at i:553478 original size:25 final size:25
Alignment explanation
Indices: 553444--553494 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
553434 CCTTCCTGCA
553444 AGAAGACACAATGTGGGGCATCTCG
1 AGAAGACACAATGTGGGGCATCTCG
553469 AGAAGACACAATGTGGGGCATCTCG
1 AGAAGACACAATGTGGGGCATCTCG
553494 A
1 A
553495 CTCAACTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.31, T:0.16
Consensus pattern (25 bp):
AGAAGACACAATGTGGGGCATCTCG
Found at i:553915 original size:16 final size:15
Alignment explanation
Indices: 553894--554011 Score: 75
Period size: 16 Copynumber: 7.7 Consensus size: 15
553884 AGATCAAATC
553894 AAAACAAAGAGAGAAA
1 AAAACAAAGAGA-AAA
*
553910 AAAACAAAGAAAAAA
1 AAAACAAAGAGAAAA
* *
553925 GAAAACAATGATCAAAGA
1 -AAAACAAAGA-GAAA-A
**
553943 AGAAATGAA-AG-AAA
1 A-AAACAAAGAGAAAA
553957 AAAACAAAGAGAAAA
1 AAAACAAAGAGAAAA
553972 GAAAA-AAA-AGAAAA
1 -AAAACAAAGAGAAAA
* *
553986 AAAGAGAAAAAG-AAA
1 AAA-ACAAAGAGAAAA
554001 AAAACAAAGAG
1 AAAACAAAGAG
554012 CAAAGAGAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
13 8 0.10
14 17 0.21
15 20 0.25
16 26 0.32
17 5 0.06
18 5 0.06
ACGTcount: A:0.76, C:0.05, G:0.16, T:0.03
Consensus pattern (15 bp):
AAAACAAAGAGAAAA
Found at i:553929 original size:19 final size:19
Alignment explanation
Indices: 553905--554032 Score: 72
Period size: 19 Copynumber: 6.8 Consensus size: 19
553895 AAACAAAGAG
553905 AGAAAAAAACAAAGAAAAA
1 AGAAAAAAACAAAGAAAAA
* **
553924 AG---AAAACAATGATCAA
1 AGAAAAAAACAAAGAAAAA
* **
553940 AGAAGAAATGAAAGAAAAA
1 AGAAAAAAACAAAGAAAAA
*
553959 A-ACAAAGAGA-AAAGAAAAA
1 AGA-AAA-AAACAAAGAAAAA
*
553978 A-AAGAAAA-AAAGAGAAAA
1 AGAAAAAAACAAAGA-AAAA
*
553996 AGAAAAAAACAAAGAGCAAAG
1 AGAAAAAAACAAAGA--AAAA
554017 AGAAAAGAAACAAAGA
1 AGAAAA-AAACAAAGA
554033 GATCAAAGCA
Statistics
Matches: 83, Mismatches: 16, Indels: 17
0.72 0.14 0.15
Matches are distributed among these distances:
16 13 0.16
17 7 0.08
18 8 0.10
19 31 0.37
20 6 0.07
21 9 0.11
22 9 0.11
ACGTcount: A:0.76, C:0.05, G:0.16, T:0.02
Consensus pattern (19 bp):
AGAAAAAAACAAAGAAAAA
Found at i:553985 original size:8 final size:8
Alignment explanation
Indices: 553938--554004 Score: 57
Period size: 8 Copynumber: 8.4 Consensus size: 8
553928 AACAATGATC
*
553938 AAAGAAGA
1 AAAGAAAA
*
553946 AATGAAAGA
1 AAAGAAA-A
*
553955 AAA-AAAC
1 AAAGAAAA
*
553962 AAAG-AGA
1 AAAGAAAA
553969 AAAGAAAAA
1 AAAG-AAAA
553978 AAAGAAAA
1 AAAGAAAA
*
553986 AAAGAGAA
1 AAAGAAAA
553994 AAAGAAAA
1 AAAGAAAA
554002 AAA
1 AAA
554005 CAAAGAGCAA
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
7 8 0.17
8 29 0.63
9 9 0.20
ACGTcount: A:0.81, C:0.01, G:0.16, T:0.01
Consensus pattern (8 bp):
AAAGAAAA
Found at i:554017 original size:44 final size:45
Alignment explanation
Indices: 553900--554034 Score: 143
Period size: 47 Copynumber: 3.0 Consensus size: 45
553890 AATCAAAACA
* * * * *
553900 AAGAGAGAAAAAAACAAAGAAAAAAGAAAACAATGATCAAAGAAGA-
1 AAGAAAGAAAAAAACAAAGAGAAAAGAAAAAAAAGA--AAAAAAGAG
553946 AATGAAAGAAAAAAACAAAGAGAAAAGAAAAAAAAGAAAAAAAGAG
1 AA-GAAAGAAAAAAACAAAGAGAAAAGAAAAAAAAGAAAAAAAGAG
* * *
553992 AA-AAAGAAAAAAACAAAGAGCAAAG--AGAAAAGAAACAAAGAG
1 AAGAAAGAAAAAAACAAAGAGAAAAGAAAAAAAAGAAAAAAAGAG
554034 A
1 A
554035 TCAAAGCAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
42 16 0.20
44 22 0.28
45 7 0.09
46 4 0.05
47 30 0.38
ACGTcount: A:0.75, C:0.05, G:0.18, T:0.02
Consensus pattern (45 bp):
AAGAAAGAAAAAAACAAAGAGAAAAGAAAAAAAAGAAAAAAAGAG
Found at i:554050 original size:24 final size:22
Alignment explanation
Indices: 553952--554033 Score: 89
Period size: 21 Copynumber: 3.8 Consensus size: 22
553942 AAGAAATGAA
*
553952 AGAAAA-AAACAAAGAGAAAAG
1 AGAAAAGAAACAAAGAGCAAAG
* * *
553973 AAAAAAAAGAAAAAAAGAG-AAAA
1 --AGAAAAGAAACAAAGAGCAAAG
553996 AGAAAA-AAACAAAGAGCAAAG
1 AGAAAAGAAACAAAGAGCAAAG
554017 AGAAAAGAAACAAAGAG
1 AGAAAAGAAACAAAGAG
554034 ATCAAAGCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
20 9 0.18
21 14 0.28
22 10 0.20
23 8 0.16
24 9 0.18
ACGTcount: A:0.77, C:0.05, G:0.18, T:0.00
Consensus pattern (22 bp):
AGAAAAGAAACAAAGAGCAAAG
Found at i:555159 original size:32 final size:32
Alignment explanation
Indices: 555123--555194 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
555113 GTTGAGGCAA
555123 TCAACATCGAATATTAGGGCATCTTTGGAGAT
1 TCAACATCGAATATTAGGGCATCTTTGGAGAT
* * *
555155 TCAACATCGAATGTTGGGGCATCTTTGGGGAT
1 TCAACATCGAATATTAGGGCATCTTTGGAGAT
*
555187 TTAACATC
1 TCAACATC
555195 TTGATGCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.32
Consensus pattern (32 bp):
TCAACATCGAATATTAGGGCATCTTTGGAGAT
Found at i:555477 original size:65 final size:63
Alignment explanation
Indices: 555264--555483 Score: 203
Period size: 65 Copynumber: 3.4 Consensus size: 63
555254 TATCAGTATC
* * * * *
555264 CTTTGAGT-TGTTTCTCTTGAAA-AAAATTTTCTCTCTCGAGACAGTTTCCTTTAAAAAAAAT
1 CTTTGAGTCTATTTCCCTTGAAACAAAATTTTGTCTCTCGAGACAGTTTCTTTTGAAAAAAAT
* * ** * *
555325 CTTTGAGTCTATTTCTCTGGAAACAATTTTTTGTCTCTCTTGAGACAATTTCTTTCGAGAAAAAA
1 CTTTGAGTCTATTTCCCTTGAAACAAAATTTTGTCTCTC--GAGACAGTTTCTTTTGA-AAAAAA
555390 T
63 T
* * * * * * *
555391 ATTTGAGTTTGTTTTCTTTGAAA-AAAATTTTGTCTCTCGAGACAGTCTCTTTTGAAAACACCTA
1 CTTTGAGTCTATTTCCCTTGAAACAAAATTTTGTCTCTCGAGACAGTTTCTTTTGAAAA-A--AA
555455 T
63 T
555456 CTTTGAGTCTATTTCCCTTGAAACAAAA
1 CTTTGAGTCTATTTCCCTTGAAACAAAA
555484 CACCTATCTT
Statistics
Matches: 123, Mismatches: 27, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
61 8 0.07
62 15 0.12
63 27 0.22
65 46 0.37
66 27 0.22
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (63 bp):
CTTTGAGTCTATTTCCCTTGAAACAAAATTTTGTCTCTCGAGACAGTTTCTTTTGAAAAAAAT
Found at i:555504 original size:128 final size:127
Alignment explanation
Indices: 555265--555497 Score: 274
Period size: 128 Copynumber: 1.8 Consensus size: 127
555255 ATCAGTATCC
*
555265 TTTGAGTTGTTTCTCTTGAAAAAAATTTTCTCTCTCGAGACAGTTTCCTTTAAAAAAAATCTTTG
1 TTTGAGTTGTTTCTCTTGAAAAAAATTTTCTCTCTCGAGACAGTCTCCTTTAAAAAAAATCTTTG
* ****** *
555330 AGTCTATTTCTCTGGAAACAATTTTTTGTCTCTCTTGAGACAATTTCTTTCGAGAAAAAATA
66 AGTCTATTTCCCTGGAAACAATAACACCTATCTCTTGAGACAATTTCTTTCGAGAAAAAATA
* * **
555392 TTTGAGTTTGTTT-TCTTTGAAAAAAATTTTGTCTCTCGAGACAGTCTCTTTTGAAAACACCTAT
1 TTTGAG-TTGTTTCTC-TTGAAAAAAATTTTCTCTCTCGAGACAGTCTCCTTT-AAAA-A-AAAT
*
555456 CTTTGAGTCTATTTCCCTTGAAACAA-AACACCTATCT-TTGAG
61 CTTTGAGTCTATTTCCCTGGAAACAATAACACCTATCTCTTGAG
555498 TCATTTCCCT
Statistics
Matches: 87, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
127 8 0.09
128 39 0.45
129 9 0.10
130 5 0.06
131 26 0.30
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (127 bp):
TTTGAGTTGTTTCTCTTGAAAAAAATTTTCTCTCTCGAGACAGTCTCCTTTAAAAAAAATCTTTG
AGTCTATTTCCCTGGAAACAATAACACCTATCTCTTGAGACAATTTCTTTCGAGAAAAAATA
Found at i:555509 original size:34 final size:35
Alignment explanation
Indices: 555445--555513 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
555435 GTCTCTTTTG
555445 AAAACACCTATCTTTGAGTCTATTTCCCTTGAAAC
1 AAAACACCTATCTTTGAGTCTATTTCCCTTGAAAC
555480 AAAACACCTATCTTTGAGTC-ATTTCCCTTGAAAC
1 AAAACACCTATCTTTGAGTCTATTTCCCTTGAAAC
555514 GAATTTTGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 14 0.41
35 20 0.59
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACACCTATCTTTGAGTCTATTTCCCTTGAAAC
Found at i:555893 original size:134 final size:129
Alignment explanation
Indices: 555602--555940 Score: 369
Period size: 134 Copynumber: 2.6 Consensus size: 129
555592 GATGGTCAGC
* * * * * *
555602 CATCCTCATCGCATAGGAATCGTGTCATCCCCCTACCAGACCTCCTCATCATGTAGGAGTAGTGT
1 CATCCTCATCACGTAGGAGTCGTGTCAT-CCCCGACCAGACCT-CTCATCACGTAGGAGTCGTGT
* * **
555667 CACCCCT-GATAACCACCTGTCCTCATCACGTAGGAACCGTGTTATCATTCCTAAAGATGACCTG
64 CACCCCTAAATAACCACCTGTCCTCATCACATAGGAACCGTGTTATCATTCCTAAAGATGACCAA
*
555731 C
129 A
*
555732 CATCCTCATCACGTAGGAGCCGTGTCATCCTCCGACCAGACCTCATCATCACGTAGGAGTCGTGT
1 CATCCTCATCACGTAGGAGTCGTGTCATCC-CCGACCAGACCTC-TCATCACGTAGGAGTCGTGT
* * *
555797 CACCCCTAAATAACCAGTCT-TCCTCATCGCATAGGAACTGTGTTATCACCATTCCTAAAGATGA
64 CACCCCTAAATAACCA-CCTGTCCTCATCACATAGGAACCGTGTTAT---CATTCCTAAAGATGA
555861 CCAAA
125 CCAAA
* * * * *
555866 -ACTCTTCATCACGTATGAGTCGTGTCATCCCCTGACTAGATCTTCTCATCACGTAAGAGTCGTG
1 CA-TCCTCATCACGTAGGAGTCGTGTCATCCCC-GACCAGA-CCTCTCATCACGTAGGAGTCGTG
*
555930 TCACCCTTAAA
63 TCACCCCTAAA
555941 CGACCAGACC
Statistics
Matches: 177, Mismatches: 22, Indels: 16
0.82 0.10 0.07
Matches are distributed among these distances:
129 3 0.02
130 60 0.34
131 30 0.17
132 2 0.01
133 3 0.02
134 76 0.43
135 3 0.02
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (129 bp):
CATCCTCATCACGTAGGAGTCGTGTCATCCCCGACCAGACCTCTCATCACGTAGGAGTCGTGTCA
CCCCTAAATAACCACCTGTCCTCATCACATAGGAACCGTGTTATCATTCCTAAAGATGACCAAA
Found at i:556123 original size:3 final size:3
Alignment explanation
Indices: 556115--556155 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
556105 AAATATTAAT
556115 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
556156 TATGTTTACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:557564 original size:30 final size:30
Alignment explanation
Indices: 557541--557642 Score: 132
Period size: 30 Copynumber: 3.4 Consensus size: 30
557531 TTACTGGTTA
*
557541 AGTCCTTTAACTTTCTATTTTTACTATTTT
1 AGTCCTTTAAATTTCTATTTTTACTATTTT
* *
557571 AGTCCTTTAAGTTTCTATTTTTTCTATTTT
1 AGTCCTTTAAATTTCTATTTTTACTATTTT
* * *
557601 AGTCATCTAAATTTCTATTTTTACAATTTT
1 AGTCCTTTAAATTTCTATTTTTACTATTTT
* *
557631 GGTCCCTTAAAT
1 AGTCCTTTAAAT
557643 GTTCAAATAT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.23, C:0.16, G:0.06, T:0.56
Consensus pattern (30 bp):
AGTCCTTTAAATTTCTATTTTTACTATTTT
Found at i:559344 original size:60 final size:60
Alignment explanation
Indices: 559232--559365 Score: 150
Period size: 60 Copynumber: 2.3 Consensus size: 60
559222 TAGTCAGGTA
** **
559232 ATCATTTTGTAACTTTTAATACTCGAGGGACTCAGTAAAGTAACTTCATATAGTTGGAAG
1 ATCATTTTGTAACTTTTAATACTCGAGGGACTCAACAAAACAACTTCATATAGTTGGAAG
* * *
559292 ATCATTTTGTAACTTTTAATAGTCG-GTGGACTCAACAAAACAA-TATCCTATAGTTGGATG
1 ATCATTTTGTAACTTTTAATACTCGAG-GGACTCAACAAAACAACT-TCATATAGTTGGAAG
*
559352 -TCATTGTGT-ACTTT
1 ATCATTTTGTAACTTT
559366 ACTCTGAATT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
58 5 0.08
59 10 0.16
60 49 0.77
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (60 bp):
ATCATTTTGTAACTTTTAATACTCGAGGGACTCAACAAAACAACTTCATATAGTTGGAAG
Found at i:562591 original size:20 final size:20
Alignment explanation
Indices: 562554--562598 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
562544 AGTCTATCCG
* *
562554 TTGACTTTGACCCGTTGATT
1 TTGACTTTGACCCATTGACT
562574 TTGACTGTTGA-CCATTGACT
1 TTGACT-TTGACCCATTGACT
562594 TTGAC
1 TTGAC
562599 CCAAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.42
Consensus pattern (20 bp):
TTGACTTTGACCCATTGACT
Found at i:567246 original size:64 final size:64
Alignment explanation
Indices: 567174--567315 Score: 275
Period size: 64 Copynumber: 2.2 Consensus size: 64
567164 CCCTTGACGG
567174 GTGCATCGATGCACTACCCATGCATCGGTGCATAAATCCTATTCGATGTTTGTATTTTAAGCAA
1 GTGCATCGATGCACTACCCATGCATCGGTGCATAAATCCTATTCGATGTTTGTATTTTAAGCAA
*
567238 GTGCATCGATGCACTACCCATGCATCGGTGCATAAATCCTATTCGATGTTTGTATTTTAAGCAG
1 GTGCATCGATGCACTACCCATGCATCGGTGCATAAATCCTATTCGATGTTTGTATTTTAAGCAA
567302 GTGCATCGATGCAC
1 GTGCATCGATGCAC
567316 CTTCAACAAA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 77 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCACTACCCATGCATCGGTGCATAAATCCTATTCGATGTTTGTATTTTAAGCAA
Found at i:571474 original size:265 final size:267
Alignment explanation
Indices: 570966--571488 Score: 725
Period size: 265 Copynumber: 2.0 Consensus size: 267
570956 AATCAAAATT
* ** * * * *
570966 ACGTTTATTTATTATTATATTGATTTTTTATACTTTGAACTCTCATATTAGAGGTTCATCTCGAA
1 ACGTTTATTTATTATCATATTGACCTTCTATACTTTGAAATCTCATATTACAGGTCCATCTCGAA
* * *
571031 AGATGTGTATGCCTTGTGTTTCTTTTTAGAATGAGATCCATAAAAATATTTTATAATAATAATTA
66 AGATGTGCATGCCTTGTGTTACTTTTTAGAATCAGATCCATAAAAATATTTTATAATAATAATTA
* *
571096 ATTTGTCAAATTTAAAATTATAAGAGATCTACGAGGTATTTTTACCAAAATTCATCATATAAAAC
131 ATTTCTCAAATTTAAAATTATAAGAGATCTACGAGGTATTTTTACCAAAATTCATCACATAAAAC
* * *
571161 AATTAAAAATACTGTCAAAATCTTCATTTACAACTTTATATGCAACTTTCCTAATAATCAAATTA
196 AATTAAAAATACTATCAAAAACTTCATTTACAACTTTATATACAACTTTCCTAATAATCAAATTA
571226 TAAGATG
261 TAAGATG
* * *
571233 ACGTTTATTTATTATCATGTTGACCTTCTATGCTTTGAAATCTCATATTACAGGTCCGTCTCGAA
1 ACGTTTATTTATTATCATATTGACCTTCTATACTTTGAAATCTCATATTACAGGTCCATCTCGAA
* *
571298 AGATGTGCATGCAC-T-T-TTACTTTTTAGAATCAGGTCCATAATAATATTTTATAATAAGT-AT
66 AGATGTGCATGC-CTTGTGTTACTTTTTAGAATCAGATCCATAAAAATATTTTATAATAA-TAAT
* * *
571359 TAATTTCTCAAATTTGAAATTATGAGATG-TCTACGAGGTCTTTTTACCAAAATTCATCACATAA
129 TAATTTCTCAAATTTAAAATTATAAGA-GATCTACGAGGTATTTTTACCAAAATTCATCACATAA
* * * *
571423 AACAATTAAAAATACTAT-AAAAACTTCGTTTACAATTTTTTTATACAACTTTCCTAATAATTAA
193 AACAATTAAAAATACTATCAAAAACTTCATTTACAA-CTTTATATACAACTTTCCTAATAATCAA
571487 AT
257 AT
571489 GGAAAGTTTG
Statistics
Matches: 225, Mismatches: 27, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
264 15 0.07
265 139 0.62
266 3 0.01
267 67 0.30
268 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (267 bp):
ACGTTTATTTATTATCATATTGACCTTCTATACTTTGAAATCTCATATTACAGGTCCATCTCGAA
AGATGTGCATGCCTTGTGTTACTTTTTAGAATCAGATCCATAAAAATATTTTATAATAATAATTA
ATTTCTCAAATTTAAAATTATAAGAGATCTACGAGGTATTTTTACCAAAATTCATCACATAAAAC
AATTAAAAATACTATCAAAAACTTCATTTACAACTTTATATACAACTTTCCTAATAATCAAATTA
TAAGATG
Found at i:572930 original size:20 final size:20
Alignment explanation
Indices: 572891--572927 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
572881 ATTTTTAAAA
*
572891 TATTAAAATAATTTATTTAT
1 TATTAAAATAATTAATTTAT
572911 TATTAAAAT-ATTAATTT
1 TATTAAAATAATTAATTT
572928 TATAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATTAAAATAATTAATTTAT
Found at i:572970 original size:31 final size:29
Alignment explanation
Indices: 572906--572982 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
572896 AAATAATTTA
*
572906 TTTATT-ATTAAAATATTAATTTTATAAT
1 TTTATTAATAAAAATATTAATTTTATAAT
572934 TTTATTAATAAAAATATTAATATTGGTAT-AT
1 TTTATTAATAAAAATATTAAT-TT--TATAAT
572965 TTTATTGAAATAAAAATA
1 TTTATT--AATAAAAATA
572983 GTATAAATTA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
28 6 0.14
29 13 0.31
30 2 0.05
31 8 0.19
32 3 0.07
33 10 0.24
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (29 bp):
TTTATTAATAAAAATATTAATTTTATAAT
Found at i:573076 original size:23 final size:23
Alignment explanation
Indices: 573027--573077 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
573017 GTGTTATATT
**
573027 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
573050 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
573073 ATATT
1 ATATT
573078 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:573131 original size:19 final size:19
Alignment explanation
Indices: 573065--573144 Score: 69
Period size: 19 Copynumber: 4.3 Consensus size: 19
573055 TTAAATATCT
573065 TTATTAA-AATATTATTAGA
1 TTATTAATAATATTATTA-A
* *
573084 TTATT-ATATTAATATTAA
1 TTATTAATAATATTATTAA
* *
573102 ATATATAATAATATTATTCA
1 TTAT-TAATAATATTATTAA
*
573122 TTATTAATAAT-TTAATAA
1 TTATTAATAATATTATTAA
573140 -TATTA
1 TTATTA
573145 TTTATATGAA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
17 5 0.10
18 10 0.20
19 21 0.43
20 13 0.27
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (19 bp):
TTATTAATAATATTATTAA
Found at i:573246 original size:21 final size:23
Alignment explanation
Indices: 573217--573267 Score: 70
Period size: 21 Copynumber: 2.3 Consensus size: 23
573207 TATATTATAT
*
573217 TATTATAAATA-TTAATAAAT-A
1 TATTTTAAATATTTAATAAATAA
573238 TATTTTAAATATTTTAATAAATAA
1 TATTTTAAATA-TTTAATAAATAA
573262 TATTTT
1 TATTTT
573268 GATTAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 10 0.38
23 9 0.35
24 7 0.27
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TATTTTAAATATTTAATAAATAA
Found at i:573301 original size:23 final size:23
Alignment explanation
Indices: 573201--573301 Score: 68
Period size: 22 Copynumber: 4.3 Consensus size: 23
573191 ATAAAAATAA
* *
573201 AAATATTATATTATATTA-TTAT
1 AAATATTATATTAAAATATTTAT
573223 AAATATTA-A-TAAATATATTT-T
1 AAATATTATATTAAA-ATATTTAT
* *
573244 AAATATTTTAATAAATAATATTTTGATT
1 AAATATTAT-ATTAA-AATA-TTT-A-T
573272 AAA-ATTATATTAAAATATTTAT
1 AAATATTATATTAAAATATTTAT
*
573294 TAATATTA
1 AAATATTA
573302 AATTCATAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 21
0.69 0.08 0.24
Matches are distributed among these distances:
20 3 0.05
21 11 0.18
22 13 0.21
23 6 0.10
24 8 0.13
25 8 0.13
26 4 0.07
27 4 0.07
28 4 0.07
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.50
Consensus pattern (23 bp):
AAATATTATATTAAAATATTTAT
Found at i:574181 original size:20 final size:20
Alignment explanation
Indices: 574137--574183 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
574127 TATTCCCTGA
*
574137 TAATCTTTTATTCCCACTAG
1 TAATCTTTTATTCCAACTAG
* *
574157 CAATCTTTTATTCCAACTGG
1 TAATCTTTTATTCCAACTAG
574177 TAATCTT
1 TAATCTT
574184 ACATTTCGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.45
Consensus pattern (20 bp):
TAATCTTTTATTCCAACTAG
Found at i:575122 original size:30 final size:30
Alignment explanation
Indices: 575088--575146 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
575078 TTACTAAAAA
575088 AACAAT-AACATAAATTCAACCGTTGATTTC
1 AACAATGAA-ATAAATTCAACCGTTGATTTC
*
575118 AACAATGAAATAATTTCAACCGTTGATTT
1 AACAATGAAATAAATTCAACCGTTGATTT
575147 TACTCATCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.32
Consensus pattern (30 bp):
AACAATGAAATAAATTCAACCGTTGATTTC
Found at i:575332 original size:15 final size:16
Alignment explanation
Indices: 575312--575341 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
575302 TACCATTAAA
575312 ATTATTTATA-AATAT
1 ATTATTTATATAATAT
575327 ATTATTTATATAATA
1 ATTATTTATATAATA
575342 CTTATCCGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTATTTATATAATAT
Found at i:590890 original size:64 final size:63
Alignment explanation
Indices: 590822--591002 Score: 218
Period size: 64 Copynumber: 2.8 Consensus size: 63
590812 TTGGAACACT
* ***
590822 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
** * **
590886 TGATGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * *
590950 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTT
591003 CAATTAATTC
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
64 54 0.55
65 45 0.45
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:590974 original size:19 final size:19
Alignment explanation
Indices: 590950--591000 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
590940 GAAAATATTC
590950 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
590969 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
590988 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
591001 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:590976 original size:65 final size:65
Alignment explanation
Indices: 590843--591002 Score: 216
Period size: 65 Copynumber: 2.5 Consensus size: 65
590833 TGCACCAAGT
* ***
590843 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGATGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
* **
590907 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGA-TGCATCGATGCATGGAG
590971 A
65 A
* *
590972 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
591003 CAATTAATTC
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 37 0.44
65 47 0.56
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:591042 original size:65 final size:64
Alignment explanation
Indices: 590844--591051 Score: 196
Period size: 65 Copynumber: 3.2 Consensus size: 64
590834 GCACCAAGTG
* * * * *
590844 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAA-ATAGCCTGATGCATCGATGCATGGCTTG
1 TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATAT-TCATGATGCATCGATGCATGAC-TG
590908 -
64 A
* * *
590908 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGA--
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCATGA-TGCATCGATGCAT-GACT
590970 GA
63 GA
* *
590972 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATTGATGCATCGATGCATGTAC
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA-TGATGCATCGATGCATG-AC
591035 TGA
62 TGA
591038 TGCATCGGTGCATG
1 TGCATCGGTGCATG
591052 CCTTTGAATA
Statistics
Matches: 123, Mismatches: 9, Indels: 23
0.79 0.06 0.15
Matches are distributed among these distances:
62 3 0.02
63 9 0.07
64 43 0.35
65 63 0.51
66 5 0.04
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (64 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCATGATGCATCGATGCATGACTGA
Found at i:591242 original size:20 final size:21
Alignment explanation
Indices: 591219--591258 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
591209 GAATCGAATA
591219 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
591239 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
591259 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:592060 original size:21 final size:21
Alignment explanation
Indices: 592026--592070 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
592016 CTGGAGGAGG
*
592026 AGGAGGAGCACGAGAAGAACT
1 AGGAGCAGCACGAGAAGAACT
*
592047 AGGAGCAGCTCGAGAAGAACT
1 AGGAGCAGCACGAGAAGAACT
592068 AGG
1 AGG
592071 TCCCGGAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.16, G:0.38, T:0.07
Consensus pattern (21 bp):
AGGAGCAGCACGAGAAGAACT
Found at i:592913 original size:21 final size:21
Alignment explanation
Indices: 592889--592933 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
592879 TTGAGGATCA
*
592889 GGATTAGGTTGAGGAGGAACG
1 GGATTAGGATGAGGAGGAACG
**
592910 GGATTAGGATGTTGAGGAACG
1 GGATTAGGATGAGGAGGAACG
592931 GGA
1 GGA
592934 GGACGGTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.04, G:0.47, T:0.20
Consensus pattern (21 bp):
GGATTAGGATGAGGAGGAACG
Found at i:597550 original size:22 final size:21
Alignment explanation
Indices: 597508--597547 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
597498 GAGTTTGTTT
*
597508 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
597529 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
597548 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:598895 original size:64 final size:63
Alignment explanation
Indices: 598827--599008 Score: 211
Period size: 64 Copynumber: 2.8 Consensus size: 63
598817 TTGGAACACT
* ***
598827 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
** * **
598891 TGATGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * * *
598955 AGAGTGCATCGATGCATGGAGAGTGCATCGGTTCATGGAATGCATTCGATGTTT
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTT
599009 AATTAATTCA
Statistics
Matches: 99, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
64 55 0.56
65 44 0.44
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:598979 original size:19 final size:19
Alignment explanation
Indices: 598955--599005 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
598945 GAAAATATTC
598955 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
* *
598974 AGAGTGCATCGGTTCATGG
1 AGAGTGCATCGATGCATGG
598993 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
599006 TTTAATTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 4 0.15
18 5 0.19
19 18 0.67
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.25
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:598981 original size:65 final size:65
Alignment explanation
Indices: 598848--599008 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
598838 TGCACCAAGT
* ***
598848 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGATGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
* **
598912 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGA-TGCATCGATGCATGGAG
598976 A
65 A
* * *
598977 GTGCATCGGTTCATGGAATGCATTCGATGTTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTT
599009 AATTAATTCA
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 37 0.44
65 47 0.56
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:599247 original size:20 final size:21
Alignment explanation
Indices: 599224--599263 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
599214 GAATCGAATA
599224 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
599244 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
599264 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:599788 original size:21 final size:22
Alignment explanation
Indices: 599764--599809 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
599754 AAAAGTTAAG
*
599764 TGATTT-AAGG-TTAAGAAATGT
1 TGATTTCAAGGATT-AGAAAGGT
599785 TGATTTCAAGGATTAGAAAGGT
1 TGATTTCAAGGATTAGAAAGGT
599807 TGA
1 TGA
599810 GTTAGAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 14 0.64
23 2 0.09
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.35
Consensus pattern (22 bp):
TGATTTCAAGGATTAGAAAGGT
Found at i:601861 original size:20 final size:20
Alignment explanation
Indices: 601809--601862 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
601799 AACTTAATAT
601809 TATTATTTTTAAATTATTAAAA
1 TATTATTTTT--ATTATTAAAA
*
601831 TAATT-TATTTATTATTAAAA
1 T-ATTATTTTTATTATTAAAA
601851 TATTATTTTTAT
1 TATTATTTTTAT
601863 AATTTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 3 0.11
20 17 0.61
22 5 0.18
23 3 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTATTTTTATTATTAAAA
Found at i:601986 original size:23 final size:23
Alignment explanation
Indices: 601957--602001 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
601947 AGTGTTATAT
601957 TATATTTTAAAAATATTAATTAG
1 TATATTTTAAAAATATTAATTAG
* *
601980 TATATTTTAAATATATTTATTA
1 TATATTTTAAAAATATTAATTA
602002 AAATATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATTAG
Found at i:602007 original size:23 final size:23
Alignment explanation
Indices: 601958--602026 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
601948 GTGTTATATT
* * **
601958 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAATATATTTATTAAA
601981 ATATTTTAAATATATTTATTAAA
1 ATATTTTAAATATATTTATTAAA
*
602004 ATATTATT-ATTATATTATATTAA
1 ATATT-TTAAATATATT-TATTAA
602027 TATGAAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
23 31 0.79
24 8 0.21
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (23 bp):
ATATTTTAAATATATTTATTAAA
Found at i:602095 original size:54 final size:54
Alignment explanation
Indices: 601995--602132 Score: 140
Period size: 54 Copynumber: 2.5 Consensus size: 54
601985 TTTAAATATA
* * * *
601995 TTTATTAA-AATATTATTATTATATTATATTAATATGAAATATATAAATGATAT-TAT
1 TTTATTAATAAT-TTAATA-TATATTAT-TT-CTATGAAATATATAAATAATATAAAT
602051 TCATTATTAATAATTTAATA-ATATTATTTCTATGAAAT-TAATAAATAATATAAAT
1 T--TTATTAATAATTTAATATATATTATTTCTATGAAATAT-ATAAATAATATAAAT
*
602106 TTTATTAATAATTTATTATATATTATT
1 TTTATTAATAATTTAATATATATTATT
602133 AAAATAAAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 14
0.79 0.06 0.16
Matches are distributed among these distances:
53 17 0.24
54 26 0.37
55 5 0.07
56 8 0.11
58 12 0.17
59 3 0.04
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (54 bp):
TTTATTAATAATTTAATATATATTATTTCTATGAAATATATAAATAATATAAAT
Found at i:602214 original size:22 final size:23
Alignment explanation
Indices: 602186--602232 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
602176 TTGATTATTT
602186 TATTATAATATTAAAAAT-ATAA
1 TATTATAATATTAAAAATAATAA
* *
602208 TATTATATTATTAGAAATAATAA
1 TATTATAATATTAAAAATAATAA
602231 TA
1 TA
602233 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
TATTATAATATTAAAAATAATAA
Found at i:602236 original size:32 final size:32
Alignment explanation
Indices: 602169--602238 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
602159 ATATTATTAT
* * *
602169 AATATAATTGATTATTTTATTATAATATTAAA
1 AATATAATTGATTATATTATTAAAATAATAAA
602201 AATATAA-T-ATTATATTATTAGAAATAATAATA
1 AATATAATTGATTATATTATTA-AAATAATAA-A
602233 AATATA
1 AATATA
602239 TTTTAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 11 0.33
31 8 0.24
32 14 0.42
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (32 bp):
AATATAATTGATTATATTATTAAAATAATAAA
Found at i:602237 original size:22 final size:22
Alignment explanation
Indices: 602194--602237 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
602184 TTTATTATAA
*
602194 TATTAAAAATATAATATTATAT
1 TATTAAAAATATAATATAATAT
*
602216 TATTAGAAATAATAATA-AATAT
1 TATTAAAAAT-ATAATATAATAT
602238 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
TATTAAAAATATAATATAATAT
Found at i:623489 original size:11 final size:11
Alignment explanation
Indices: 623473--623497 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
623463 GGAGTCGCGG
623473 GAAAAGAAGAA
1 GAAAAGAAGAA
623484 GAAAAGAAGAA
1 GAAAAGAAGAA
623495 GAA
1 GAA
623498 GAGAGCTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (11 bp):
GAAAAGAAGAA
Found at i:625045 original size:341 final size:341
Alignment explanation
Indices: 624394--625081 Score: 1130
Period size: 341 Copynumber: 2.0 Consensus size: 341
624384 ATAAAGGGTG
624394 CTAACTTAATCAATTTCTTCATAAACGTCCAACTTTAGTATCCAAAGAAATTCTGATACAAAATT
1 CTAACTTAATCAATTTCTTCATAAACGTCCAACTTTAGTATCCAAAGAAATTCTGATACAAAATT
* *
624459 CATAGTAACTGTTTTTAATCTAGAGCGCAAGCCCTTAACACACCAATCATATACATCCTTTCCAA
66 CATAGTAACTCTTTTTAATCTAGAGCGCAAGCCCTCAACACACCAATCATATACATCCTTTCCAA
* *
624524 TCAGAATTAACTCAGTGGTAATTTACTCAACTTATCCAACCCACACTCTTACTCATACACGATAC
131 TCAGAATTAACTCAGCGATAATTTACTCAACTTATCCAACCCACACTCTTACTCATACACGATAC
*
624589 AATTCCCTTGATTCAAACTCAAAAATTCAATTTTCATTTGTCTTATAAACTTATCACCAGTGTAC
196 AATTCCCTTGATTCAAACTCAAAAATTCAATCTTCATTTGTCTTATAAACTTATCACCAGTGTAC
*
624654 TCATTCTGGAACTCTTCTAAGAACAATAACCACATCACTTGATCTTTTAACATTCTCATGATAAC
261 TCATTCTGGAACTCTTCTAAAAACAATAACCACATCACTTGATCTTTTAACATTCTCATGATAAC
*
624719 ATTTATCCACTATACT
326 ATTTACCCACTATACT
*
624735 CTAACTTAATCAATTTCTTCATAAACGTCCAACTTTAGTCTCCAAAGAAATT-TGATACAAAATT
1 CTAACTTAATCAATTTCTTCATAAACGTCCAACTTTAGTATCCAAAGAAATTCTGATACAAAATT
* * * ** *
624799 CATAGTAACTCTTTTTAATCTTGGGTGCAAGCCCTCAACACACCAATCATATGTATCTTTTCCAA
66 CATAGTAACTCTTTTTAATCTAGAGCGCAAGCCCTCAACACACCAATCATATACATCCTTTCCAA
* * *
624864 -CTAGAATTAACTCAGCGATAATTTACTCAACTTATCTAACCCATATTCTTACTCATACACGATA
131 TC-AGAATTAACTCAGCGATAATTTACTCAACTTATCCAACCCACACTCTTACTCATACACGATA
* * *
624928 CAATTCCCTTGATTCAAACTCAAAAAATTCAATCTTCTTTTTTCTTATAAA-TTGATCACCGGTG
195 CAATTCCCTTGATTCAAACTC-AAAAATTCAATCTTCATTTGTCTTATAAACTT-ATCACCAGTG
* *
624992 TACTCATTCTGGAACTCTTCTAAAAACAATAACCACATCGCTTGATGTTTTAACATTCTCATGAT
258 TACTCATTCTGGAACTCTTCTAAAAACAATAACCACATCACTTGATCTTTTAACATTCTCATGAT
625057 AACATTTACCCACTATACT
323 AACATTTACCCACTATACT
625076 CTAACT
1 CTAACT
625082 ATCCCGTGTA
Statistics
Matches: 322, Mismatches: 22, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
339 1 0.00
340 149 0.46
341 172 0.53
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.34
Consensus pattern (341 bp):
CTAACTTAATCAATTTCTTCATAAACGTCCAACTTTAGTATCCAAAGAAATTCTGATACAAAATT
CATAGTAACTCTTTTTAATCTAGAGCGCAAGCCCTCAACACACCAATCATATACATCCTTTCCAA
TCAGAATTAACTCAGCGATAATTTACTCAACTTATCCAACCCACACTCTTACTCATACACGATAC
AATTCCCTTGATTCAAACTCAAAAATTCAATCTTCATTTGTCTTATAAACTTATCACCAGTGTAC
TCATTCTGGAACTCTTCTAAAAACAATAACCACATCACTTGATCTTTTAACATTCTCATGATAAC
ATTTACCCACTATACT
Found at i:628148 original size:42 final size:41
Alignment explanation
Indices: 628101--628179 Score: 113
Period size: 42 Copynumber: 1.9 Consensus size: 41
628091 GCCATTAGTA
* * *
628101 AGTCTTTCGAGCATGATGATTAAATCTTTCGGGTCATCTGTC
1 AGTCTTTCGAGCAAGATGA-TAAATCCTTCGGGGCATCTGTC
*
628143 AGTCTTTCGAGCAAGATGATAAGTCCTTCGGGGCATC
1 AGTCTTTCGAGCAAGATGATAAATCCTTCGGGGCATC
628180 AATAAGACCT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 15 0.45
42 18 0.55
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (41 bp):
AGTCTTTCGAGCAAGATGATAAATCCTTCGGGGCATCTGTC
Found at i:628190 original size:20 final size:20
Alignment explanation
Indices: 628161--628214 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
628151 GAGCAAGATG
* *
628161 ATAAGTCCTTCGGGGCATCA
1 ATAAGACCTTCGGGCCATCA
*
628181 ATAAGACCTTCGGGCCATCC
1 ATAAGACCTTCGGGCCATCA
628201 ATAAGACCTTCGGG
1 ATAAGACCTTCGGG
628215 TAGGATGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (20 bp):
ATAAGACCTTCGGGCCATCA
Found at i:628749 original size:256 final size:254
Alignment explanation
Indices: 628193--629185 Score: 1282
Period size: 256 Copynumber: 3.9 Consensus size: 254
628183 AAGACCTTCG
* * *
628193 GGCCATCCATAAGACCTTCGGGTAGGATGTTTCCACATGATTTTTGAAAAATAAGAAAGTGATTT
1 GGCCATCTATAAGACCTTC-GGCAGGATGTTTTCACATGATTTTTGAAAAATAAGAAAGTGATTT
* * **
628258 CCAAAGTTTCTCATTTAATGTTTTAAGAAAATGAAAAATTTGAAAAGTAAGAAAGCGATTTTC-A
65 CCAAAGTTTCTCATTTAATCTTTTCAGAAAATGAAATTTTTGAAAAGTAAGAAAGCGA-TTTCAA
* *
628322 AAGTTTCTTACCTAGTAAACTATTTCCAAAATTTG-CAGTCCTTCGGGCCATCAGTAAGTCTTTC
129 AAGTTTCTTACCCAGTAAACTATTTCCAAAATTTGTAAGTCCTTCGGGCCATCAGTAAGTCTTTC
* * *
628386 GAGCGTGATGATTAAATCCTTCAGGTTATCTGTCAGTCTTTCGAGCAAAATGATAAGTCCTTT
194 GAGCGTGATG--TAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCTTT
* * * * *
628449 GGGTCATCTATAAGACATTTGGGCAGGATGTTTTCACATGATTTTCGAAAAATGAGAAAGTGATT
1 -GGCCATCTATAAGAC-CTTCGGCAGGATGTTTTCACATGATTTTTGAAAAATAAGAAAGTGATT
* *
628514 TCCAAAGTTTCTCATTTAAATCTTTTTAGAAAATGAAATTTTTGAAAAGTAAGAAAGTGATTTCA
64 TCCAAAGTTTCTCATTT-AATCTTTTCAGAAAATGAAATTTTTGAAAAGTAAGAAAGCGATTTCA
* *
628579 AAAGTTTCTTACCCAGTAAACTATTTCCAAAATTTGTAAGTCCTTCGGGTCATCAGTAAGTATTT
128 AAAGTTTCTTACCCAGTAAACTATTTCCAAAATTTGTAAGTCCTTCGGGCCATCAGTAAGTCTTT
* *
628644 CGAGCGTGATG-AAATCCTTTGGGTCATCTGCCAGAT-TTTCGAGCAAGATGATAAGTCCTTT
193 CGAGCGTGATGTAAATCCTTCGGGTCATCTGTCAG-TCTTTCGAGCAAGATGATAAGTCCTTT
* ** *
628705 GGACCATATATAAGACCGCCAGGTAGGATGTTTTCACATGATTTTTGAAAAATAAGAAAGTGATT
1 GG-CCATCTATAAGACCTTC-GGCAGGATGTTTTCACATGATTTTTGAAAAATAAGAAAGTGATT
* * *
628770 TCCAAAGTTTCTCAATTAAATCTTTTCAGAAAATGAAATTTTTGAAAAGTAAGAAAGTGATTTCC
64 TCCAAAGTTTCTC-ATTTAATCTTTTCAGAAAATGAAATTTTTGAAAAGTAAGAAAGCGATTTCA
* * ** *
628835 AAAGTTTCTTACCCGGTAAATTATTTCCAAAATTAATAAGTCCTTTGGGCCATCAGTAAGTCTTT
128 AAAGTTTCTTACCCAGTAAACTATTTCCAAAATTTGTAAGTCCTTCGGGCCATCAGTAAGTCTTT
* * *
628900 CAAGCGTGATGATTAAATCCTTCGGGTCATTTTTCAGTCTTTCGAGCAAGATGATAAGT-CTTT
193 CGAGCGTGATG--TAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCTTT
* * *
628963 CAGGCCATCTATAAGACCTTCGGACAGGATGTTTTCACATGA-TTTTGAAAAAAAATGAGAGCGA
1 --GGCCATCTATAAGACCTTCGG-CAGGATGTTTTCACATGATTTTTGAAAAATAA-GAAAGTGA
* * *
629027 TTTCCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAATTTTCTTAAAAGTAAGAAAGCGATTT
62 TTTCCAAAGTTTCTCATTTAATCTTTTCAGAAAATGAAATTTT-TGAAAAGTAAGAAAGCGATTT
* * * *
629092 CCAAAA-TTTCTTACCTAATAAACTATTTCCAAAA-TTGATAAGTCCTTGGGGCCATCAATAAGT
126 -CAAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTTG-TAAGTCCTTCGGGCCATCAGTAAGT
* *
629155 CTTTCGAGCATGATGCTTAAATCCTTTGGGT
189 CTTTCGAGCGTGATG--TAAATCCTTCGGGT
629186 TATCAGTAAG
Statistics
Matches: 646, Mismatches: 71, Indels: 36
0.86 0.09 0.05
Matches are distributed among these distances:
255 2 0.00
256 221 0.34
257 78 0.12
258 119 0.18
259 220 0.34
260 6 0.01
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (254 bp):
GGCCATCTATAAGACCTTCGGCAGGATGTTTTCACATGATTTTTGAAAAATAAGAAAGTGATTTC
CAAAGTTTCTCATTTAATCTTTTCAGAAAATGAAATTTTTGAAAAGTAAGAAAGCGATTTCAAAA
GTTTCTTACCCAGTAAACTATTTCCAAAATTTGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGA
GCGTGATGTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCTTT
Found at i:629082 original size:259 final size:256
Alignment explanation
Indices: 628193--629185 Score: 1334
Period size: 259 Copynumber: 3.9 Consensus size: 256
628183 AAGACCTTCG
* * *
628193 GGCCATCCATAAGACCTTCGGGTAGGATGTTTCCACATGATTTTTGAAAAATAAGAAAGTGATTT
1 GGCCATCTATAAGACCTTCGGGCAGGATGTTTTCACATGATTTTTGAAAAATAAGAAAGTGATTT
* * ** *
628258 CCAAAGTTTCTCATTTAATGTTTTAAGAAAATGAAAAATTTGAAAAGTAAGAAAGCGATTTTCAA
66 CCAAAGTTTCTCATTTAATCTTTTCAGAAAATGAAATTTTTGAAAAGTAAGAAAGCGATTTCCAA
* *
628323 AGTTTCTTACCTAGTAAACTATTTCCAAAATT-TGCAGTCCTTCGGGCCATCAGTAAGTCTTTCG
131 AGTTTCTTACCCAGTAAACTATTTCCAAAATTAT-AAGTCCTTCGGGCCATCAGTAAGTCTTTCG
* * *
628387 AGCGTGATGATTAAATCCTTCAGGTTATCTGTCAGTCTTTCGAGCAAAATGATAAGTCCTTT
195 AGCGTGATGATTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCTTT
* * * * *
628449 GGGTCATCTATAAGACATTTGGGCAGGATGTTTTCACATGATTTTCGAAAAATGAGAAAGTGATT
1 -GGCCATCTATAAGACCTTCGGGCAGGATGTTTTCACATGATTTTTGAAAAATAAGAAAGTGATT
* * *
628514 TCCAAAGTTTCTCATTTAAATCTTTTTAGAAAATGAAATTTTTGAAAAGTAAGAAAGTGATTTCA
65 TCCAAAGTTTCTCATTT-AATCTTTTCAGAAAATGAAATTTTTGAAAAGTAAGAAAGCGATTTCC
* * *
628579 AAAGTTTCTTACCCAGTAAACTATTTCCAAAATTTGTAAGTCCTTCGGGTCATCAGTAAGTATTT
129 AAAGTTTCTTACCCAGTAAACTATTTCCAAAA-TTATAAGTCCTTCGGGCCATCAGTAAGTCTTT
* *
628644 CGAGCGTGATG---AAATCCTTTGGGTCATCTGCCAGAT-TTTCGAGCAAGATGATAAGTCCTTT
193 CGAGCGTGATGATTAAATCCTTCGGGTCATCTGTCAG-TCTTTCGAGCAAGATGATAAGTCCTTT
* ** * *
628705 GGACCATATATAAGACCGCCAGGTAGGATGTTTTCACATGATTTTTGAAAAATAAGAAAGTGATT
1 GG-CCATCTATAAGACCTTCGGGCAGGATGTTTTCACATGATTTTTGAAAAATAAGAAAGTGATT
* *
628770 TCCAAAGTTTCTCAATTAAATCTTTTCAGAAAATGAAATTTTTGAAAAGTAAGAAAGTGATTTCC
65 TCCAAAGTTTCTC-ATTTAATCTTTTCAGAAAATGAAATTTTTGAAAAGTAAGAAAGCGATTTCC
* * *
628835 AAAGTTTCTTACCCGGTAAATTATTTCCAAAATTAATAAGTCCTTTGGGCCATCAGTAAGTCTTT
129 AAAGTTTCTTACCCAGTAAACTATTTCCAAAATT-ATAAGTCCTTCGGGCCATCAGTAAGTCTTT
* * *
628900 CAAGCGTGATGATTAAATCCTTCGGGTCATTTTTCAGTCTTTCGAGCAAGATGATAAGT-CTTT
193 CGAGCGTGATGATTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCTTT
* * * *
628963 CAGGCCATCTATAAGACCTTCGGACAGGATGTTTTCACATGA-TTTTGAAAAAAAATGAGAGCGA
1 --GGCCATCTATAAGACCTTCGGGCAGGATGTTTTCACATGATTTTTGAAAAATAA-GAAAGTGA
* * *
629027 TTTCCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAATTTTCTTAAAAGTAAGAAAGCGATTT
63 TTTCCAAAGTTTCTCATTTAATCTTTTCAGAAAATGAAATTTT-TGAAAAGTAAGAAAGCGATTT
* * * * *
629092 CCAAAATTTCTTACCTAATAAACTATTTCCAAAATTGATAAGTCCTTGGGGCCATCAATAAGTCT
127 CCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATT-ATAAGTCCTTCGGGCCATCAGTAAGTCT
* * *
629157 TTCGAGCATGATGCTTAAATCCTTTGGGT
191 TTCGAGCGTGATGATTAAATCCTTCGGGT
629186 TATCAGTAAG
Statistics
Matches: 647, Mismatches: 74, Indels: 28
0.86 0.10 0.04
Matches are distributed among these distances:
255 4 0.01
256 219 0.34
257 77 0.12
258 113 0.17
259 231 0.36
260 3 0.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (256 bp):
GGCCATCTATAAGACCTTCGGGCAGGATGTTTTCACATGATTTTTGAAAAATAAGAAAGTGATTT
CCAAAGTTTCTCATTTAATCTTTTCAGAAAATGAAATTTTTGAAAAGTAAGAAAGCGATTTCCAA
AGTTTCTTACCCAGTAAACTATTTCCAAAATTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGA
GCGTGATGATTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCTTT
Found at i:629196 original size:42 final size:42
Alignment explanation
Indices: 629145--629231 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
629135 CCTTGGGGCC
* **
629145 ATCAATAAGTC-TTTCGAGCATGATGCTTAAATCCTTTGGGTT
1 ATCAATAAGTCGTTT-GAGCATGATGATTAAATCCTTCAGGTT
* *
629187 ATCAGTAAGTCGTTTGAGGATGATGATTAAATCCTTCAGGTT
1 ATCAATAAGTCGTTTGAGCATGATGATTAAATCCTTCAGGTT
629229 ATC
1 ATC
629232 TGTCGGTCTC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 36 0.92
43 3 0.08
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.37
Consensus pattern (42 bp):
ATCAATAAGTCGTTTGAGCATGATGATTAAATCCTTCAGGTT
Found at i:629418 original size:9 final size:10
Alignment explanation
Indices: 629375--629417 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
629365 ATAATTAATA
629375 TTTATTA-TT
1 TTTATTATTT
*
629384 ATTATTATTT
1 TTTATTATTT
629394 ATATTATTATTT
1 -T-TTATTATTT
629406 TTTATTATTT
1 TTTATTATTT
629416 TT
1 TT
629418 ACAGACATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 6 0.21
10 13 0.45
11 1 0.03
12 9 0.31
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTATTATTT
Found at i:633842 original size:13 final size:14
Alignment explanation
Indices: 633824--633853 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
633814 ATCTCATCCC
633824 TATCTTCTCAT-TT
1 TATCTTCTCATCTT
633837 TATCTTCTCATCTT
1 TATCTTCTCATCTT
633851 TAT
1 TAT
633854 TCAAATCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (14 bp):
TATCTTCTCATCTT
Found at i:639110 original size:21 final size:20
Alignment explanation
Indices: 639078--639116 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
639068 TCCTAACTTG
*
639078 CAACCCCTAACCCCAAATAA
1 CAACCCCAAACCCCAAATAA
*
639098 CAACACCCAAACCCTAAAT
1 CAAC-CCCAAACCCCAAAT
639117 CACATCATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.46, C:0.44, G:0.00, T:0.10
Consensus pattern (20 bp):
CAACCCCAAACCCCAAATAA
Found at i:639204 original size:60 final size:61
Alignment explanation
Indices: 639090--639293 Score: 212
Period size: 60 Copynumber: 3.3 Consensus size: 61
639080 ACCCCTAACC
* * * *
639090 CCAAATAACAACACCCAAACCCTAAATCACATCATCTAAAACCGAATTGTAACCAATAAAAT
1 CCAAATTACAACACCCAAA-CCTAAATCACATCATCTAACACCAAATTGAAACCAATAAAAT
** * * * *
639152 CCAAATTGTAACACCCAAA-CTAAGTCGCATCATCTAACACTAAATTGAAACCAATAAAGT
1 CCAAATTACAACACCCAAACCTAAATCACATCATCTAACACCAAATTGAAACCAATAAAAT
* * ** * *
639212 CCAAATTACAATACCCAAACCCTAAATCACATCATCTAAACACCAAATTGCAACTGATATAGT
1 CCAAATTACAACACCCAAA-CCTAAATCACATCATCT-AACACCAAATTGAAACCAATAAAAT
* *
639275 CCAAATCACAACATCCAAA
1 CCAAATTACAACACCCAAA
639294 TCCCAAATTG
Statistics
Matches: 116, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
60 50 0.43
62 30 0.26
63 36 0.31
ACGTcount: A:0.47, C:0.28, G:0.05, T:0.20
Consensus pattern (61 bp):
CCAAATTACAACACCCAAACCTAAATCACATCATCTAACACCAAATTGAAACCAATAAAAT
Found at i:642182 original size:12 final size:12
Alignment explanation
Indices: 642161--642189 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
642151 AAAAATGACA
642161 TTAT-GAATAAG
1 TTATGGAATAAG
642172 TTATGGAATAAG
1 TTATGGAATAAG
642184 TTATGG
1 TTATGG
642190 TGTCGTTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (12 bp):
TTATGGAATAAG
Found at i:643046 original size:71 final size:68
Alignment explanation
Indices: 642922--643115 Score: 286
Period size: 65 Copynumber: 2.8 Consensus size: 68
642912 AGAAAAAGAA
* *
642922 GACTTGTTGACTAGAAAATATTTCTATTTTTATCTTAAAATACATTCAATTTTAAACGACGTGCA
1 GACTTGTTGACTAGAAAATATTTCT-TTTTTATCTTAGAATACATTAAATTTTAAACGACGTGCA
*
642987 ACCT
65 AACT
*
642991 AAGGACTTGTTGACTAGAAAATATTTCTCTTTTATCTTAGAATACATTAAATTTTAAACGACGTG
1 ---GACTTGTTGACTAGAAAATATTTCTTTTTTATCTTAGAATACATTAAATTTTAAACGACGTG
643056 CAAACT
63 CAAACT
*
643062 ---TTGTTGACTAGAAAATATTTCTTTTTTATCTTAGAATACAATAAATTTTAAACG
1 GACTTGTTGACTAGAAAATATTTCTTTTTTATCTTAGAATACATTAAATTTTAAACG
643116 CGTAATTGCT
Statistics
Matches: 116, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
65 52 0.45
71 39 0.34
72 25 0.22
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (68 bp):
GACTTGTTGACTAGAAAATATTTCTTTTTTATCTTAGAATACATTAAATTTTAAACGACGTGCAA
ACT
Found at i:644903 original size:20 final size:19
Alignment explanation
Indices: 644874--644911 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
644864 ATTTGATAAT
644874 TTAAAATTTTATAATAAATG
1 TTAAAATTTTA-AATAAATG
*
644894 TTAAATTTTTAAATAAAT
1 TTAAAATTTTAAATAAAT
644912 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
TTAAAATTTTAAATAAATG
Found at i:648861 original size:134 final size:134
Alignment explanation
Indices: 648116--649538 Score: 1589
Period size: 135 Copynumber: 10.6 Consensus size: 134
648106 CTGAAAAAAC
* * * * *
648116 TTGATTCACTTTGTTGTTCTTCAGGGAAAATTGAATCAAACTTGATTTG-TTCGA-TGCTCTTCA
1 TTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTC-ACTGCTCTTCA
* * **
648179 GGAAGACCAAATCTG-AAGAAGAAGAATATGCTCTACTACTCTTTAGGGGAGACCAGACTCGAGA
65 GGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCTTTAGGGGAGGTCAGACTCGAGA
648243 AAATT
130 AAATT
* * * *
648248 TTGATTTACTTCGCTGCTCTTCAAGGAAAATTGAATCGAA-TGTGATTTGTTTCACTGCTCTTCA
1 TTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAACT-TGATTTGCTTCACTGCTCTTCA
* ** *
648312 GGAAGACCAAATCTGAAAAAAGAAAGAATCT-CATCTTCTACTCTTTAAGGGAGGTCAGACTCGA
65 GGAAGACCAAATCTGAAAGAAG-AAGAATCTGC-TCCACTACTCTTTAGGGGAGGTCAGACTCGA
* *
648376 AAAAAAT
128 GAAAATT
* * *
648383 TTGATTCACTTCGCTGCTCTTAAAGGAAGATTGAATCGAA-TGTGATTTGCTTCACTGTTCTTCA
1 TTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAACT-TGATTTGCTTCACTGCTCTTCA
* * * * * ** * **
648447 AGAATA-CAAATATGAAGAAGAATAAGAATATGCTCTGCTACTCTTTAGGTGAGACCAGACTCGA
65 GGAAGACCAAATCTG-A-AAGAAGAAGAATCTGCTCCACTACTCTTTAGGGGAGGTCAGACTCGA
648511 GAAAATT
128 GAAAATT
* * * *
648518 TTGATTTACTTCGCTGCTCTTCAGGGAAAATTGAATCGAA-TGTGATTTGTTTCACTACTCTTCA
1 TTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAACT-TGATTTGCTTCACTGCTCTTCA
* * ** *
648582 GGAAGACCAAATCTGAAAGAAGAAATAATCTCCTCTTCTACTCTTTAAGGGAGGTCAGACTCGAG
65 GGAAGACCAAATCTGAAAGAAG-AAGAATCTGCTCCACTACTCTTTAGGGGAGGTCAGACTCGAG
648647 AAAATT
129 AAAATT
* * *
648653 TTGATTCAC-TCGCTGCTC-TAAAGGAAGATTGAATCGAA-TGTGATTTGCTTCACTGTTCTTCA
1 TTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAACT-TGATTTGCTTCACTGCTCTTCA
* * * * *
648715 AGAAGAGCAAATCTGAAAAAAGAAGAATATGCTCCGCTACTCTTTAGGGGAGGTCAGACTCGAGA
65 GGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCTTTAGGGGAGGTCAGACTCGAGA
*
648780 AAACT
130 AAATT
*
648785 TTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATC-ACACTTGATTTGCTTCATTGCTCTTCA
1 TTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATCGA-ACTTGATTTGCTTCACTGCTCTTCA
* * * *
648849 GGAAGACCAAATCTGAAAGAATAAGAATATGTTCTACTACTCTTTAGGGGAGGTCAGACTCGAGA
65 GGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCTTTAGGGGAGGTCAGACTCGAGA
**
648914 AAACA
130 AAATT
* * * * *
648919 TTGATTCACTTCGCTGCTCGTCAGGGAAGATTAAATCGAACTTGATTTACTTCACTACTCTTTAG
1 TTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCACTGCTCTTCAG
* * * *
648984 GAAGACCAAATCTGAAAGAAAAAGAATCTACTCCGCTACTCTTTAGGGGAGGTCAAACTCGAGAA
66 GAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCTTTAGGGGAGGTCAGACTCGAG-A
*
649049 AAACT
130 AAATT
* ** * * * *
649054 TTGATCCACTTCTTTGCTCTTCAGGGAAGATTGAATCGGGA-TCGATTTGTTTCGCTGCTCTTCA
1 TTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATC-GAACTTGATTTGCTTCACTGCTCTTCA
* * * * *
649118 GGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTATTCTTAAGGAGAGATCAGACTCTAGA
65 GGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCTTTAGGGGAGGTCAGACTCGAGA
649183 AAATTT
130 AAA-TT
* * *
649189 TTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAACATGATTTGCTTCACTGCTCTTTAG
1 TTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCACTGCTCTTCAG
* * * * * * * *
649254 GATGACCAAATTTGAAAGAATAAAAATTTGTTCCACTACTTTTTATGGGAGGTCAGACTCGAGAA
66 GAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCTTTAGGGGAGGTCAGACTCGAGAA
649319 AATTT
131 AA-TT
* * * ** * * * * *
649324 TTAATCCACTTTGCTTATCTTTAGGGAAGATTGAATCGAACATGATTTGTTTCTCTACTCTTCAG
1 TTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCACTGCTCTTCAG
* * *
649389 GAAGACCAAATCTGAAAGAAGAAAAATCTGCTTCACTACTCTTTAAGGGAGGTCAGACTCGAGAA
66 GAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCTTTAGGGGAGGTCAGACTCGAGAA
649454 AATT
131 AATT
* * * * * * *
649458 TTGATCCACTTCGTTGCTCTT-AGGGAATACTGATTCGAACATGATTTGCTTCGCTG-TACTTCA
1 TTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCACTGCT-CTTCA
* *
649521 GGAAGACAAAATATGAAA
65 GGAAGACCAAATCTGAAA
649539 ATCAAACATT
Statistics
Matches: 1103, Mismatches: 167, Indels: 41
0.84 0.13 0.03
Matches are distributed among these distances:
131 1 0.00
132 93 0.08
133 144 0.13
134 262 0.24
135 589 0.53
136 14 0.01
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (134 bp):
TTGATTCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCACTGCTCTTCAG
GAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTCTTTAGGGGAGGTCAGACTCGAGAA
AATT
Found at i:650255 original size:45 final size:45
Alignment explanation
Indices: 650197--650344 Score: 201
Period size: 45 Copynumber: 3.3 Consensus size: 45
650187 GAATGACATC
*
650197 ACTAAAAGGTTGACTCCTCTCCCCGAGAAAGTCAAGAATAACACT
1 ACTAAAAGGTTGACTCCTCTTCCCGAGAAAGTCAAGAATAACACT
* *
650242 ACTAAAAGATTGACTCCTCTTCCTGAGAAAGT-AAGGAATAACA-T
1 ACTAAAAGGTTGACTCCTCTTCCCGAGAAAGTCAA-GAATAACACT
* ** *
650286 CACTAAAAGGTTGACTTCTCTTAACGAGAAAGTCAAGAACAACACT
1 -ACTAAAAGGTTGACTCCTCTTCCCGAGAAAGTCAAGAATAACACT
650332 ACTAAAAGGTTGA
1 ACTAAAAGGTTGA
650345 ATTTTCTTTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
44 3 0.03
45 84 0.93
46 3 0.03
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (45 bp):
ACTAAAAGGTTGACTCCTCTTCCCGAGAAAGTCAAGAATAACACT
Found at i:650359 original size:90 final size:90
Alignment explanation
Indices: 650187--650363 Score: 246
Period size: 90 Copynumber: 2.0 Consensus size: 90
650177 CTCTCGTTGA
* ** *
650187 GAATGACATCACTAAAAGGTTGACTCCTCTCCCCGAGAAAGTCAAGAATAACACTACTAAAAGAT
1 GAATAACATCACTAAAAGGTTGACTCCTCTCAACGAGAAAGTCAAGAACAACACTACTAAAAGAT
* *
650252 TGACTCCTCTTCCTGAGAAAGTAAG
66 TGAATCCTCTTCATGAGAAAGTAAG
* * *
650277 GAATAACATCACTAAAAGGTTGACTTCTCTTAACGAGAAAGTCAAGAACAACACTACTAAAAGGT
1 GAATAACATCACTAAAAGGTTGACTCCTCTCAACGAGAAAGTCAAGAACAACACTACTAAAAGAT
** *
650342 TGAATTTTCTTTATGAGAAAGT
66 TGAATCCTCTTCATGAGAAAGT
650364 CAAATAGGAC
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
90 75 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (90 bp):
GAATAACATCACTAAAAGGTTGACTCCTCTCAACGAGAAAGTCAAGAACAACACTACTAAAAGAT
TGAATCCTCTTCATGAGAAAGTAAG
Found at i:650360 original size:45 final size:45
Alignment explanation
Indices: 650197--650366 Score: 182
Period size: 45 Copynumber: 3.8 Consensus size: 45
650187 GAATGACATC
* ****
650197 ACTAAAAGGTTGACTCCTCTCCCCGAGAAAGTCAAGAATAACACT
1 ACTAAAAGGTTGACTTCTCTTAATGAGAAAGTCAAGAATAACACT
* * **
650242 ACTAAAAGATTGACTCCTCTTCCTGAGAAAGT-AAGGAATAACA-T
1 ACTAAAAGGTTGACTTCTCTTAATGAGAAAGTCAA-GAATAACACT
* *
650286 CACTAAAAGGTTGACTTCTCTTAACGAGAAAGTCAAGAACAACACT
1 -ACTAAAAGGTTGACTTCTCTTAATGAGAAAGTCAAGAATAACACT
* * *
650332 ACTAAAAGGTTGAATTTTCTTTATGAGAAAGTCAA
1 ACTAAAAGGTTGACTTCTCTTAATGAGAAAGTCAA
650367 ATAGGACAAC
Statistics
Matches: 108, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
44 3 0.03
45 102 0.94
46 3 0.03
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (45 bp):
ACTAAAAGGTTGACTTCTCTTAATGAGAAAGTCAAGAATAACACT
Found at i:650380 original size:90 final size:90
Alignment explanation
Indices: 650186--650394 Score: 244
Period size: 90 Copynumber: 2.3 Consensus size: 90
650176 CCTCTCGTTG
** *
650186 AGAAT-GACATCACTAAAAGGTTGACTCCTCTCCCCGAGAAAGTCAAGAATAACACTACTAAAAG
1 AGAATAGACATCACTAAAAGGTTGACTCCTCTCAACGAGAAAGTCAAGAACAACACTACTAAAAG
* *
650250 ATTGACTCCTCTTCCTGAGAAAGTA
66 ATTGAATCCTCTTCATGAGAAAGTA
* *
650275 AGGAATA-ACATCACTAAAAGGTTGACTTCTCTTAACGAGAAAGTCAAGAACAACACTACTAAAA
1 A-GAATAGACATCACTAAAAGGTTGACTCCTCTCAACGAGAAAGTCAAGAACAACACTACTAAAA
* ** * *
650339 GGTTGAATTTTCTTTATGAGAAAGTC
65 GATTGAATCCTCTTCATGAGAAAGTA
* **
650365 A-AATAGGACAACACTAAAATATTGACTCCT
1 AGAATA-GACATCACTAAAAGGTTGACTCCT
650395 TTTCATGAGA
Statistics
Matches: 100, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
88 4 0.04
89 1 0.01
90 95 0.95
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (90 bp):
AGAATAGACATCACTAAAAGGTTGACTCCTCTCAACGAGAAAGTCAAGAACAACACTACTAAAAG
ATTGAATCCTCTTCATGAGAAAGTA
Found at i:650381 original size:135 final size:135
Alignment explanation
Indices: 650242--650501 Score: 301
Period size: 135 Copynumber: 1.9 Consensus size: 135
650232 GAATAACACT
* * *
650242 ACTAAAAGATTGACTCCTCTTCCTGAGAAAG-TAAGGAATAACATCACTAAAAGGTTGACT-TCT
1 ACTAAAAGATTGACTCCTCTTCATGAGAAAGTTAAGGAA-AACAACACTAAAAGATTGACTCT-T
* * * *
650305 CTTAACGAGAAAGTCAAGAACAACACTACTAAAAGGTTGAA-TTTTCTTTATGAGAAAGTCAAAT
64 CTTAACGAGAAAGTAAAGAACAACAATACTAAAAGATTGAATTTTTC-TCATGAGAAAGTCAAAT
650369 AGGACAAC
128 AGGACAAC
* * * * ** *
650377 ACTAAAATATTGACTCCTTTTCATGAGATAGTTGAGGAAGGCAACACTAAAATATTGACTCTTCT
1 ACTAAAAGATTGACTCCTCTTCATGAGAAAGTTAAGGAAAACAACACTAAAAGATTGACTCTTCT
* ** * *
650442 TCACGAGAAAGTAAAGAATGACAATACTGAAAGATTGACTTTTTCTCATGAGAAAGTCAA
66 TAACGAGAAAGTAAAGAACAACAATACTAAAAGATTGAATTTTTCTCATGAGAAAGTCAA
650502 TAATATTATT
Statistics
Matches: 103, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
135 91 0.88
136 12 0.12
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (135 bp):
ACTAAAAGATTGACTCCTCTTCATGAGAAAGTTAAGGAAAACAACACTAAAAGATTGACTCTTCT
TAACGAGAAAGTAAAGAACAACAATACTAAAAGATTGAATTTTTCTCATGAGAAAGTCAAATAGG
ACAAC
Found at i:650403 original size:45 final size:43
Alignment explanation
Indices: 650354--650501 Score: 136
Period size: 45 Copynumber: 3.3 Consensus size: 43
650344 AATTTTCTTT
650354 ATGAGAAAGTCAAATAGGACAACACTAAAATATTGACTCCTTTTC
1 ATGAGAAAGTCAAA-AGGACAACACTAAAATATTGACT-CTTTTC
* * *
650399 ATGAGATAGTTGAGGAAGG-CAACACTAAAATATTGACTCTTCTTC
1 ATGAGAAAG-TCA-AAAGGACAACACTAAAATATTGACTCTT-TTC
* * * * * * *
650444 ACGAGAAAGTAAAGAATGACAATACTGAAAGATTGACTTTTTCTC
1 ATGAGAAAGTCAA-AAGGACAACACTAAAATATTGACTCTTT-TC
650489 ATGAGAAAGTCAA
1 ATGAGAAAGTCAA
650502 TAATATTATT
Statistics
Matches: 83, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
44 9 0.11
45 68 0.82
46 5 0.06
47 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGAGAAAGTCAAAAGGACAACACTAAAATATTGACTCTTTTC
Found at i:658716 original size:18 final size:18
Alignment explanation
Indices: 658692--658731 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
658682 TTTTTTCTCC
658692 CTCTCTCTTATTGTCGATTT
1 CTCTCT-TTA-TGTCGATTT
*
658712 CTCTCTTTATGTTGATTT
1 CTCTCTTTATGTCGATTT
658730 CT
1 CT
658732 TTATTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 3 0.16
20 6 0.32
ACGTcount: A:0.10, C:0.23, G:0.10, T:0.57
Consensus pattern (18 bp):
CTCTCTTTATGTCGATTT
Found at i:665298 original size:22 final size:22
Alignment explanation
Indices: 665262--665306 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
665252 AGACGCTTGG
*
665262 CTTTGTACGCAATAACTCCAAA
1 CTTTGTACGCAATAACCCCAAA
* *
665284 CTTTGTGCGCTATAACCCCAAA
1 CTTTGTACGCAATAACCCCAAA
665306 C
1 C
665307 ATAGAGGGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.11, T:0.27
Consensus pattern (22 bp):
CTTTGTACGCAATAACCCCAAA
Found at i:675095 original size:21 final size:21
Alignment explanation
Indices: 675071--675123 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
675061 GAGCTGCTGC
675071 TGTTGCATGTGCATGCACTGG
1 TGTTGCATGTGCATGCACTGG
675092 TGTTGCATGTGCATGCACTGG
1 TGTTGCATGTGCATGCACTGG
675113 TGTTGCATGTG
1 TGTTGCATGTG
675124 GGAGCTCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.13, C:0.17, G:0.34, T:0.36
Consensus pattern (21 bp):
TGTTGCATGTGCATGCACTGG
Found at i:677172 original size:21 final size:20
Alignment explanation
Indices: 677139--677177 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
677129 TAATTATTAA
677139 AATATTTAAAATATATTTATT
1 AATATTTAAAATA-ATTTATT
**
677160 AATATTTCTAATAATTTA
1 AATATTTAAAATAATTTA
677178 ACATTATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
AATATTTAAAATAATTTATT
Found at i:677216 original size:32 final size:32
Alignment explanation
Indices: 677150--677219 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
677140 ATATTTAAAA
* **
677150 TATATTTATTAATATTTCTAATAATTTAACAT
1 TATATTTATTAATATTTATAATAAAATAACAT
677182 TATATTT-TTAATA-TTATAATAAAATAATCAAT
1 TATATTTATTAATATTTATAATAAAATAA-C-AT
677214 TATATT
1 TATATT
677220 AGAATAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 11 0.33
31 7 0.21
32 15 0.45
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (32 bp):
TATATTTATTAATATTTATAATAAAATAACAT
Found at i:677238 original size:23 final size:22
Alignment explanation
Indices: 677192--677268 Score: 72
Period size: 23 Copynumber: 3.5 Consensus size: 22
677182 TATATTTTTA
*
677192 ATATTATAATAAAATAATCAATT
1 ATATTATAATAATATAAT-AATT
*
677215 ATATTAGAATAATATAATATATT
1 ATATTATAATAATATAATA-ATT
677238 AT-TT-TAATAATAT-ATAA-T
1 ATATTATAATAATATAATAATT
*
677256 AAATTATTAATAA
1 ATATTA-TAATAA
677269 AATTTATATT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
18 2 0.04
19 3 0.07
20 3 0.07
21 14 0.30
22 3 0.07
23 21 0.46
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (22 bp):
ATATTATAATAATATAATAATT
Found at i:678577 original size:24 final size:25
Alignment explanation
Indices: 678519--678578 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 25
678509 TTTTTACCAT
678519 TAAATCATTATTAGTAATAATTATTA
1 TAAATCATTATTAGTAATAATTA-TA
* *
678545 TAATTTCATTATTAGTAATCATTA-A
1 TAA-ATCATTATTAGTAATAATTATA
678570 TAAATCATT
1 TAAATCATT
678579 TGTATCAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 5 0.17
25 4 0.13
26 3 0.10
27 18 0.60
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (25 bp):
TAAATCATTATTAGTAATAATTATA
Found at i:678778 original size:24 final size:23
Alignment explanation
Indices: 678751--678860 Score: 102
Period size: 24 Copynumber: 4.7 Consensus size: 23
678741 ATAAAGATAA
678751 AATTATTATTTAAT-ATTATTAAAT
1 AATTATTA-TTAATCATTATT-AAT
678775 AATTATTA--AATCATTATTAAT
1 AATTATTATTAATCATTATTAAT
* *
678796 AATAATTATTAAATCATTATTAGT
1 AATTATTATT-AATCATTATTAAT
678820 AATTATTA-TAATTTCATTATTAAT
1 AATTATTATTAA--TCATTATTAAT
* *
678844 AATCATTACTAAATCAT
1 AATTATTA-TTAATCAT
678861 ATCATAACTA
Statistics
Matches: 72, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
21 13 0.18
22 8 0.11
23 1 0.01
24 48 0.67
26 2 0.03
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.48
Consensus pattern (23 bp):
AATTATTATTAATCATTATTAAT
Found at i:678870 original size:16 final size:16
Alignment explanation
Indices: 678845--678876 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
678835 ATTATTAATA
*
678845 ATCATTACTAAATCAT
1 ATCATAACTAAATCAT
678861 ATCATAACTAAATCAT
1 ATCATAACTAAATCAT
678877 TAAAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (16 bp):
ATCATAACTAAATCAT
Found at i:679385 original size:23 final size:23
Alignment explanation
Indices: 679359--679427 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 23
679349 TTATTCATAT
*
679359 ATTATTCTTGTTTAAATTAATAG
1 ATTATTCTTGTTTAAATTAATAA
* * *
679382 ATTA--ATTG-TT-AATTCATAT
1 ATTATTCTTGTTTAAATTAATAA
679401 ATTATTCTTGTTTAAATTAATAA
1 ATTATTCTTGTTTAAATTAATAA
679424 ATTA
1 ATTA
679428 ATAGATTAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
19 11 0.31
20 2 0.06
21 6 0.17
22 2 0.06
23 15 0.42
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (23 bp):
ATTATTCTTGTTTAAATTAATAA
Found at i:679387 original size:42 final size:43
Alignment explanation
Indices: 679341--679438 Score: 148
Period size: 42 Copynumber: 2.3 Consensus size: 43
679331 TTATTGGTTT
* *
679341 TTAATAT-TTTATTCATATATTATTCTTGTTTAAATTAATAGA
1 TTAATATGTTAATTCATATATTATTCTTGTTTAAATTAATAAA
679383 TTAAT-TGTTAATTCATATATTATTCTTGTTTAAATTAATAAA
1 TTAATATGTTAATTCATATATTATTCTTGTTTAAATTAATAAA
679425 TTAATA-GATTAATT
1 TTAATATG-TTAATT
679439 GTTTAAATGA
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
41 1 0.02
42 44 0.86
43 6 0.12
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (43 bp):
TTAATATGTTAATTCATATATTATTCTTGTTTAAATTAATAAA
Found at i:679531 original size:14 final size:14
Alignment explanation
Indices: 679512--679725 Score: 77
Period size: 14 Copynumber: 15.9 Consensus size: 14
679502 TTAAGAAATC
679512 ATTAAATCATTATT
1 ATTAAATCATTATT
*
679526 ATTAAATCATCT-GT
1 ATTAAATCAT-TATT
*
679540 ACT-AA--ATTA-T
1 ATTAAATCATTATT
679550 -T-AAATCATTATT
1 ATTAAATCATTATT
* *
679562 AATAAATCACATCATT
1 ATTAAAT--CATTATT
*
679578 ACCCTTAAATCACTATT
1 A---TTAAATCATTATT
*
679595 -TATAAATCTAATCATT
1 AT-TAAATC--ATTATT
* **
679611 ATTAAATAATTAAA
1 ATTAAATCATTATT
679625 ATTCAAATCATTATT
1 ATT-AAATCATTATT
*
679640 AGT-AATCATTATT
1 ATTAAATCATTATT
*
679653 ATCAAATC---ATT
1 ATTAAATCATTATT
*
679664 ATTAAATCATTAGT
1 ATTAAATCATTATT
*
679678 ATCAAATC------
1 ATTAAATCATTATT
679686 ATTAAATCATTATT
1 ATTAAATCATTATT
*
679700 ATTAAATCATTAGT
1 ATTAAATCATTATT
*
679714 AGTAAATCATTA
1 ATTAAATCATTA
679726 AATCATTATT
Statistics
Matches: 146, Mismatches: 26, Indels: 56
0.64 0.11 0.25
Matches are distributed among these distances:
8 7 0.05
9 2 0.01
10 2 0.01
11 16 0.11
12 1 0.01
13 14 0.10
14 66 0.45
15 11 0.08
16 16 0.11
17 6 0.04
19 5 0.03
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.41
Consensus pattern (14 bp):
ATTAAATCATTATT
Found at i:679586 original size:33 final size:33
Alignment explanation
Indices: 679549--679611 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
679539 TACTAAATTA
*
679549 TTAAATCATTATTAATAAATC-ACATCATTACCC
1 TTAAATCACTATTAATAAATCTA-ATCATTACCC
*
679582 TTAAATCACTATTTATAAATCTAATCATTA
1 TTAAATCACTATTAATAAATCTAATCATTA
679612 TTAAATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (33 bp):
TTAAATCACTATTAATAAATCTAATCATTACCC
Found at i:679680 original size:25 final size:25
Alignment explanation
Indices: 679604--679725 Score: 124
Period size: 22 Copynumber: 4.8 Consensus size: 25
679594 TTATAAATCT
* **
679604 AATCATTATTAAATAATTAAAATTCA
1 AATCATTATTAAATCATTATTA-TCA
679630 AATCATTATTAGTAATCATTATTATCA
1 AATCATTATTA--AATCATTATTATCA
*
679657 AATCATTATTAAATCATTAGTATCA
1 AATCATTATTAAATCATTATTATCA
*
679682 AATC---ATTAAATCATTATTATTA
1 AATCATTATTAAATCATTATTATCA
679704 AATCATTAGTAGTAAATCATTA
1 AATCATTA-T--TAAATCATTA
679726 AATCATTATT
Statistics
Matches: 82, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
22 20 0.24
25 18 0.22
26 12 0.15
27 14 0.17
28 18 0.22
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (25 bp):
AATCATTATTAAATCATTATTATCA
Found at i:679708 original size:36 final size:36
Alignment explanation
Indices: 679507--679745 Score: 155
Period size: 36 Copynumber: 6.8 Consensus size: 36
679497 CGCATTTAAG
*
679507 AAATCATTAAATCATTATTATTAAATCATCT-GTACT
1 AAATCATTAAATCATTATTATTAAATCAT-TAGTAGT
* * *
679543 AAATTATTAAATCATTATTAATAAATCA-CA-TCA-T
1 AAATCATTAAATCATTATTATTAAATCATTAGT-AGT
* * * *
679577 -TACCCTTAAATCACTATT-TATAAATC--TA--A-T
1 AAATCATTAAATCATTATTAT-TAAATCATTAGTAGT
* * * ** *
679607 -CATTATTAAATAATTAAAATTCAAATCATTATTAGT
1 AAATCATTAAATCATTATTATT-AAATCATTAGTAGT
* *
679643 -AATCATTATTATCAAATCATTATTAAATCATTAGTA-T
1 AAATCATTA-AATC--ATTATTATTAAATCATTAGTAGT
679680 CAAATCATTAAATCATTATTATTAAATCATTAGTAGT
1 -AAATCATTAAATCATTATTATTAAATCATTAGTAGT
*
679717 AAATCATTAAATCATTATTAATAAATCAT
1 AAATCATTAAATCATTATTATTAAATCAT
679746 ATCATTACAC
Statistics
Matches: 158, Mismatches: 29, Indels: 32
0.72 0.13 0.15
Matches are distributed among these distances:
30 13 0.08
31 6 0.04
32 1 0.01
33 21 0.13
34 2 0.01
35 2 0.01
36 81 0.51
37 4 0.03
38 14 0.09
39 14 0.09
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (36 bp):
AAATCATTAAATCATTATTATTAAATCATTAGTAGT
Found at i:679725 original size:22 final size:22
Alignment explanation
Indices: 679700--679745 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
679690 AATCATTATT
*
679700 ATTAAATCATTAGTAGTAAATC
1 ATTAAATCATTAGTAATAAATC
*
679722 ATTAAATCATTATTAATAAATC
1 ATTAAATCATTAGTAATAAATC
679744 AT
1 AT
679746 ATCATTACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (22 bp):
ATTAAATCATTAGTAATAAATC
Found at i:679857 original size:2 final size:2
Alignment explanation
Indices: 679850--679887 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
679840 ACTTTAAGTA
679850 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
679888 TCGAATAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:684893 original size:131 final size:131
Alignment explanation
Indices: 684659--685026 Score: 380
Period size: 131 Copynumber: 2.8 Consensus size: 131
684649 TAATTTTAAG
* * * * * * * *
684659 AGTGAAGACGATACTATCTAATTATTTCCAATTGAGAATAAATAATCTTTCGTGCATTAAAACAA
1 AGTGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTATCATGCATTAAAGCAA
* * * * *
684724 TCATTTATTACCCCAATTGAAATAAAGAGATATTACTATTTCGTCTTA-AAATTCAATATCGATT
66 TCATTTATTACCCCAATCGAAATAAAGAGATATCACTATTCCATCTTACAAA-TCAATATCAATT
684788 CA
130 CA
* * * *
684790 AGTGAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAA
1 AGTGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTATCATGCATTAAAGCAA
* ** * * *
684855 TCATTTATTGCTTCAATCGAAATGAAGAGGTATCACTATTCCATCTTACAAATCAATATTAATTC
66 TCATTTATTACCCCAATCGAAATAAAGAGATATCACTATTCCATCTTACAAATCAATATCAATTC
*
684920 G
131 A
* * * * * * *
684921 AGAGAAAACGACAATATCAAATTAATTCCAATCGAGAATAAATGACATATCATGCTTTAAAGCAG
1 AGTGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTATCATGCATTAAAGCAA
* * * * *
684986 TCATTTTTTACTCCGACCGAAATGAAA-AGATATTACTATTC
66 TCATTTATTACCCCAATCGAAAT-AAAGAGATATCACTATTC
685027 TCAATGTCGA
Statistics
Matches: 194, Mismatches: 41, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
131 189 0.97
132 5 0.03
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (131 bp):
AGTGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTATCATGCATTAAAGCAA
TCATTTATTACCCCAATCGAAATAAAGAGATATCACTATTCCATCTTACAAATCAATATCAATTC
A
Found at i:687045 original size:3 final size:3
Alignment explanation
Indices: 687039--687129 Score: 173
Period size: 3 Copynumber: 30.3 Consensus size: 3
687029 TAAAATCTGA
687039 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
687087 AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
687130 CAAATATTAA
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 86 1.00
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:687465 original size:77 final size:78
Alignment explanation
Indices: 687356--687513 Score: 194
Period size: 77 Copynumber: 2.0 Consensus size: 78
687346 TGTCTTGTAG
* ** * * * *
687356 TTTAGGAATTTATATTTTATTAAAATATAATATTATA-TTTTTGAAAGAATTGTTATACTTTAAT
1 TTTACGAATTTATATTCGATTAAAATACAATATTATAGTTCTAG-AAGAATTGTTATACCTTAAT
687420 TTCAAAATATATTA
65 TTCAAAATATATTA
* *
687434 TTTACGAATTTAT-TTCGATTAAAATACAATATTATAGTTCTAGTAGGATTGTTATACCTTAATT
1 TTTACGAATTTATATTCGATTAAAATACAATATTATAGTTCTAGAAGAATTGTTATACCTTAATT
**
687498 TTGAAATATATTA
66 TCAAAATATATTA
687511 TTT
1 TTT
687514 TCAATTTTTC
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
77 52 0.76
78 16 0.24
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (78 bp):
TTTACGAATTTATATTCGATTAAAATACAATATTATAGTTCTAGAAGAATTGTTATACCTTAATT
TCAAAATATATTA
Found at i:688120 original size:18 final size:17
Alignment explanation
Indices: 688087--688130 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
688077 AAATTATTAT
688087 ATTAAAAACTAATAAAA
1 ATTAAAAACTAATAAAA
*
688104 ATTAAAACACTATTAAAA
1 ATTAAAA-ACTAATAAAA
688122 AGTTAAAAA
1 A-TTAAAAA
688131 TATACCCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 7 0.29
18 11 0.46
19 6 0.25
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (17 bp):
ATTAAAAACTAATAAAA
Found at i:689150 original size:59 final size:59
Alignment explanation
Indices: 689073--689191 Score: 186
Period size: 59 Copynumber: 2.0 Consensus size: 59
689063 TAGGAATTAT
*
689073 CTCTTACTTTTAAGAATTATCTTTTCATGATTTTTAAGGATTTAGAAAGCTATAAATAC
1 CTCTTACTTTTAAGAATTATCTTTTCATGATTTTTAAGGATTTAAAAAGCTATAAATAC
* * *
689132 CTCTTACTTTT-GGAAATTATCTTTTCATTATTTTTAGGGATTTAAAAAGCTATAAATAC
1 CTCTTACTTTTAAG-AATTATCTTTTCATGATTTTTAAGGATTTAAAAAGCTATAAATAC
689191 C
1 C
689192 ACTCAGGTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
58 1 0.02
59 54 0.98
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.45
Consensus pattern (59 bp):
CTCTTACTTTTAAGAATTATCTTTTCATGATTTTTAAGGATTTAAAAAGCTATAAATAC
Found at i:690000 original size:28 final size:27
Alignment explanation
Indices: 689956--690010 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
689946 AATCTCATCA
*
689956 CTATCTTTTTCATCTTTATCCAAATCT
1 CTATCTTTCTCATCTTTATCCAAATCT
*
689983 CTATCTCTTCTCATCTTTATCCATATCT
1 CTATCT-TTCTCATCTTTATCCAAATCT
690011 AAAATTAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.20, C:0.29, G:0.00, T:0.51
Consensus pattern (27 bp):
CTATCTTTCTCATCTTTATCCAAATCT
Found at i:693756 original size:24 final size:24
Alignment explanation
Indices: 693724--693769 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
693714 CCAACACAGC
*
693724 AAGCCCAACACTAAGCCCAAATAG
1 AAGCCCAACACCAAGCCCAAATAG
693748 AAGCCCAACACCAAGCCCAAAT
1 AAGCCCAACACCAAGCCCAAAT
693770 CCAGCCCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.37, G:0.11, T:0.07
Consensus pattern (24 bp):
AAGCCCAACACCAAGCCCAAATAG
Found at i:697825 original size:24 final size:26
Alignment explanation
Indices: 697780--697831 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 26
697770 CGTTCATTTA
*
697780 CGTTCGATTATATGTTCGTTTATGTT
1 CGTTCGATTATATGTTCATTTATGTT
697806 CGTTC-ATT-TATGTTCATTTATGTT
1 CGTTCGATTATATGTTCATTTATGTT
697830 CG
1 CG
697832 AACAGAGGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 17 0.68
25 3 0.12
26 5 0.20
ACGTcount: A:0.15, C:0.13, G:0.17, T:0.54
Consensus pattern (26 bp):
CGTTCGATTATATGTTCATTTATGTT
Found at i:698107 original size:10 final size:10
Alignment explanation
Indices: 698085--698134 Score: 57
Period size: 10 Copynumber: 4.8 Consensus size: 10
698075 TTTTTGTGTG
*
698085 TGTTTGTTT-
1 TGTTCGTTTA
698094 TGTTCGTTTA
1 TGTTCGTTTA
698104 TGTTCGTTTA
1 TGTTCGTTTA
698114 TTGTGTTCGTTTA
1 ---TGTTCGTTTA
698127 TGTTCGTT
1 TGTTCGTT
698135 CGTTAATGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
9 8 0.22
10 18 0.50
13 10 0.28
ACGTcount: A:0.06, C:0.08, G:0.22, T:0.64
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:698112 original size:23 final size:23
Alignment explanation
Indices: 698086--698151 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
698076 TTTTGTGTGT
*
698086 GTTTGTTTTGTTCGTTTATGTTC
1 GTTTGTTATGTTCGTTTATGTTC
* *
698109 GTTTATTGTGTTCGTTTATGTTC
1 GTTTGTTATGTTCGTTTATGTTC
*
698132 GTTCGTTAATGTTCGTTTAT
1 GTTTGTT-ATGTTCGTTTAT
698152 TTATTAAATG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 26 0.70
24 11 0.30
ACGTcount: A:0.09, C:0.09, G:0.21, T:0.61
Consensus pattern (23 bp):
GTTTGTTATGTTCGTTTATGTTC
Found at i:698137 original size:14 final size:14
Alignment explanation
Indices: 698105--698148 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
698095 GTTCGTTTAT
698105 GTTCGTTTAT-TGT-
1 GTTCGTTTATGT-TC
698118 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
*
698132 GTTCGTTAATGTTC
1 GTTCGTTTATGTTC
698146 GTT
1 GTT
698149 TATTTATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 11 0.39
14 17 0.61
ACGTcount: A:0.09, C:0.11, G:0.23, T:0.57
Consensus pattern (14 bp):
GTTCGTTTATGTTC
Found at i:703324 original size:186 final size:186
Alignment explanation
Indices: 703010--703389 Score: 751
Period size: 186 Copynumber: 2.0 Consensus size: 186
703000 CTTATAAATC
703010 CCTTTTGAGGAGAGACGATATTTCTTAGGTTATTAATTAAAGTACTTGAAATCTGCTTTTCTTAG
1 CCTTTTGAGGAGAGACGATATTTCTTAGGTTATTAATTAAAGTACTTGAAATCTGCTTTTCTTAG
703075 GTTATTGTTTCGTGTTTTTAAGGGAAAGTGTATCTGGGATAATTACAACCCCTAATTGTAGGAAT
66 GTTATTGTTTCGTGTTTTTAAGGGAAAGTGTATCTGGGATAATTACAACCCCTAATTGTAGGAAT
703140 CATGGTTTGCTTCCTCATCATGAATCTGAAACTGTTATACTATGTGTTCTTTCGTA
131 CATGGTTTGCTTCCTCATCATGAATCTGAAACTGTTATACTATGTGTTCTTTCGTA
703196 CCTTTTGAGGAGAGACGATATTTCTTAGGTTATTAATTAAAGTACTTGAAATCTGCTTTTCTTAG
1 CCTTTTGAGGAGAGACGATATTTCTTAGGTTATTAATTAAAGTACTTGAAATCTGCTTTTCTTAG
*
703261 GTTATTGTTTCGTGTTTTTAAGGGAAAGTGTCTCTGGGATAATTACAACCCCTAATTGTAGGAAT
66 GTTATTGTTTCGTGTTTTTAAGGGAAAGTGTATCTGGGATAATTACAACCCCTAATTGTAGGAAT
703326 CATGGTTTGCTTCCTCATCATGAATCTGAAACTGTTATACTATGTGTTCTTTCGTA
131 CATGGTTTGCTTCCTCATCATGAATCTGAAACTGTTATACTATGTGTTCTTTCGTA
703382 CCTTTTGA
1 CCTTTTGA
703390 ATTACATTAT
Statistics
Matches: 193, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
186 193 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.41
Consensus pattern (186 bp):
CCTTTTGAGGAGAGACGATATTTCTTAGGTTATTAATTAAAGTACTTGAAATCTGCTTTTCTTAG
GTTATTGTTTCGTGTTTTTAAGGGAAAGTGTATCTGGGATAATTACAACCCCTAATTGTAGGAAT
CATGGTTTGCTTCCTCATCATGAATCTGAAACTGTTATACTATGTGTTCTTTCGTA
Found at i:706388 original size:33 final size:33
Alignment explanation
Indices: 706324--706422 Score: 130
Period size: 33 Copynumber: 3.1 Consensus size: 33
706314 AAACATGAAA
*
706324 AATAAGTTGGTCACCTACCAA-A-GAATTTTCC
1 AATAAGTTGGTCACCAACCAAGATGAATTTTCC
* *
706355 ATTAAGTTGGCCACCAACCAAGATGAATTTTCC
1 AATAAGTTGGTCACCAACCAAGATGAATTTTCC
* * *
706388 AAAAAGTTGGTCACCAACAAAGATGAAATTTCC
1 AATAAGTTGGTCACCAACCAAGATGAATTTTCC
706421 AA
1 AA
706423 CTTGCCAACT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
31 18 0.31
32 1 0.02
33 39 0.67
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.25
Consensus pattern (33 bp):
AATAAGTTGGTCACCAACCAAGATGAATTTTCC
Found at i:711106 original size:31 final size:30
Alignment explanation
Indices: 711061--711147 Score: 93
Period size: 33 Copynumber: 2.8 Consensus size: 30
711051 AAACATGAAA
*
711061 AATAAGTTGACCACCTACCAAAGAATTTTCC
1 AATAAGTTGGCCACC-ACCAAAGAATTTTCC
* *
711092 ATTAAGTTGGCCACCAACCAAGATAAATTTTCC
1 AATAAGTTGGCCACC-ACCAA-A-GAATTTTCC
* *
711125 AAAAAGTTGGCCACCAACAAAGA
1 AATAAGTTGGCCACCACCAAAGA
711148 TGAAATTTCC
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
30 1 0.02
31 19 0.41
32 5 0.11
33 21 0.46
ACGTcount: A:0.41, C:0.24, G:0.13, T:0.22
Consensus pattern (30 bp):
AATAAGTTGGCCACCACCAAAGAATTTTCC
Found at i:711132 original size:33 final size:34
Alignment explanation
Indices: 711084--711159 Score: 111
Period size: 33 Copynumber: 2.3 Consensus size: 34
711074 CCTACCAAAG
** *
711084 AATTTTCCATTAAGTTGGCCACCAACCAAGAT-A
1 AATTTTCCAAAAAGTTGGCCACCAACAAAGATGA
711117 AATTTTCCAAAAAGTTGGCCACCAACAAAGATGA
1 AATTTTCCAAAAAGTTGGCCACCAACAAAGATGA
711151 AA-TTTCCAA
1 AATTTTCCAA
711160 CTTGCCAACT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
33 36 0.92
34 3 0.08
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.25
Consensus pattern (34 bp):
AATTTTCCAAAAAGTTGGCCACCAACAAAGATGA
Found at i:712614 original size:22 final size:22
Alignment explanation
Indices: 712584--712629 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
712574 AGTCGAGGGT
*
712584 TTCATAGGTCCTTCGGGACAAA
1 TTCACAGGTCCTTCGGGACAAA
712606 TTCACAGGTCCTTCGGGACAAA
1 TTCACAGGTCCTTCGGGACAAA
712628 TT
1 TT
712630 TCATATGCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (22 bp):
TTCACAGGTCCTTCGGGACAAA
Done.