Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009247.1 Hibiscus syriacus cultivar Beakdansim tig00112888_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: 1479039
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 8
Found at i:746905 original size:21 final size:21
Alignment explanation
Indices: 746864--747014 Score: 71
Period size: 21 Copynumber: 7.0 Consensus size: 21
746854 AAATATGTAC
746864 ACTTATATATATATA-TGTATAT
1 ACTTATA-ATATATACT-TATAT
*
746886 ACTTATAATGTATACTTATAT
1 ACTTATAATATATACTTATAT
** *
746907 ACACATATTATATACTTATA-
1 ACTTATAATATATACTTATAT
* * *
746927 A-GTATAATGTATGCTTATATT
1 ACTTATAATATATACTTATA-T
*
746948 A-TATATGTATATATA-TTATAT
1 ACT-TAT-AATATATACTTATAT
** *
746969 AAATATAAAATATA-TTATAT
1 ACTTATAATATATACTTATAT
*
746989 ATTATATAAATATATATCTATATAT
1 ACT-TAT-AATATATA-CT-TATAT
747014 A
1 A
747015 AATATAAACT
Statistics
Matches: 98, Mismatches: 20, Indels: 19
0.72 0.15 0.14
Matches are distributed among these distances:
19 13 0.13
20 14 0.14
21 36 0.37
22 23 0.23
23 5 0.05
24 1 0.01
25 6 0.06
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.46
Consensus pattern (21 bp):
ACTTATAATATATACTTATAT
Found at i:746960 original size:2 final size:2
Alignment explanation
Indices: 746942--747769 Score: 252
Period size: 2 Copynumber: 404.5 Consensus size: 2
746932 AATGTATGCT
* * *
746942 TA TA T- TA TA TA TG TA TA TA TA T- TA TA TA AA TA TA -A AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
746981 TA T- TA TA TA T- TA TA TA AA TA TA TA TC TA TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
747021 AA CTA TA GTA TA TA GTT TA TA TA TA AA GTA TA TA TA TA TA TA TA
1 TA -TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
747065 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
747107 TA TA TA TA TA TA GT- TCA TA TG TA AA CTA TA GTA TA TA TA GTT TA
1 TA TA TA TA TA TA -TA T-A TA TA TA TA -TA TA -TA TA TA TA -TA TA
* * * * *
747151 TA TA TA TA GTT TA CA TA TA GTA TA TA TGG TT TA TA TA TA GTT TA
1 TA TA TA TA -TA TA TA TA TA -TA TA TA T-A TA TA TA TA TA -TA TA
* * * * *
747195 TA T- TA -A TA AA CTA TA TA -A TT TA TA CA TA CTC TA TA TA -A TT
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * * *
747235 TA TA T- TA TA GTA TA TA AA TA TA -A AA TA TA CA -A TT TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
747275 TA GT- TCA TA TA TA GTT TA TA TA TA -A TT TA TA TA GTT TA T- TA
1 TA -TA T-A TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * * * * *
747316 GTT TA TA TG TA TA GT- TCA TA TG TA AA CTA TA TA -A TT TA TT TA
1 -TA TA TA TA TA TA -TA T-A TA TA TA TA -TA TA TA TA TA TA TA TA
* * * *
747358 GTT TA TA TA TA GTA TA TA TGG TT TA TA TA TA GTT TA TA TA CTA CTA
1 -TA TA TA TA TA -TA TA TA T-A TA TA TA TA TA -TA TA TA TA -TA -TA
* * * *
747404 TG TA TA AA CTA TA TA GTT TA TA TA TA AA CTA TA TA TA -A T- TA
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA
* ** * * *
747445 TA TA AA T- TA -A CCC TA AA CCA TA TA TA CTA TA TA TA TA TA AA
1 TA TA TA TA TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA
* * *
747486 CTA TA TA GTT TA TA CA TA GTA -A TA TA TA -A GTA TA AA CTA TA TA
1 -TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA -TA TA TA
* * * * * *
747529 GTT TA TA TA TG TT TA TA T- TA -A TA AA CTA TA TA -A TT TA TA CA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* *
747570 T- TG TA TA TA TA -A TC TA TA -A T- TA TA TA TA GTA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * * *
747609 AA TA TA AA CTA TA TA GTT TA TA TA TA AA T- TA TA TA T- TA TA TA
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
747651 TA TA TA AA CTA TA TA GTT TA TA TA TA TA TA TA GTA TA TA TA GTT
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA -TA
* * *
747695 TA TA TT TA T- TA T- TA T- TA TA TA CTA TA TA TA AA CTA TA TA TGC
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA T-A
* * *
747737 TA TT TA TA TA AA CTA TA TA GTT TA TA TA TA TA T
1 TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA T
747770 TATGTAAAAT
Statistics
Matches: 599, Mismatches: 137, Indels: 180
0.65 0.15 0.20
Matches are distributed among these distances:
1 36 0.06
2 496 0.83
3 67 0.11
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (2 bp):
TA
Found at i:747154 original size:11 final size:11
Alignment explanation
Indices: 747138--747397 Score: 131
Period size: 11 Copynumber: 24.5 Consensus size: 11
747128 TAAACTATAG
747138 TATATATAGTTT
1 TATATATAG-TT
747150 ATATATATAGTT
1 -TATATATAGTT
*
747162 TACATATAG--
1 TATATATAGTT
*
747171 TATATATGGTT
1 TATATATAGTT
747182 TATATATAGTT
1 TATATATAGTT
* *
747193 TATAT-TAATA
1 TATATATAGTT
* *
747203 AACTATATAATT
1 TA-TATATAGTT
* * *
747215 TATACATACTC
1 TATATATAGTT
747226 TATATA-A-TT
1 TATATATAGTT
*
747235 TATATTATAGTA
1 TATA-TATAGTT
* *
747247 TATAAATA-TAA
1 TATATATAGT-T
* * *
747258 AATATACAATT
1 TATATATAGTT
747269 TATATATAGTT
1 TATATATAGTT
*
747280 CATATATAGTT
1 TATATATAGTT
*
747291 TATATATA-AT
1 TATATATAGTT
747301 T-TATATAG-T
1 TATATATAGTT
747310 T-TAT-TAGTT
1 TATATATAGTT
747319 TATATGTATAGTT
1 TATA--TATAGTT
* * ***
747332 CATATGTAAAC
1 TATATATAGTT
747343 TATATA-A-TT
1 TATATATAGTT
747352 TAT-T-TAGTT
1 TATATATAGTT
747361 TATATATAG--
1 TATATATAGTT
*
747370 TATATATGGTT
1 TATATATAGTT
747381 TATATATAGTT
1 TATATATAGTT
747392 TATATA
1 TATATA
747398 CTACTATGTA
Statistics
Matches: 189, Mismatches: 37, Indels: 44
0.70 0.14 0.16
Matches are distributed among these distances:
8 5 0.03
9 41 0.22
10 14 0.07
11 98 0.52
12 14 0.07
13 17 0.09
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.49
Consensus pattern (11 bp):
TATATATAGTT
Found at i:747549 original size:95 final size:95
Alignment explanation
Indices: 747457--747633 Score: 232
Period size: 95 Copynumber: 1.8 Consensus size: 95
747447 TAAATTAACC
* *
747457 CTAAACCATATATAC-TATATATATATAAACTATATAGTTTATACATAGTA-ATATATAAGTATA
1 CTAAACAATATATACAT-TATATATATAAACTATA-A--TTATACATAGTATATATATAAATATA
747520 AACTATATAGTTTATATATGTTTATATTAATAAA
62 AACTATATAGTTTATATATGTTTATATTAATAAA
* * * * * *
747554 CTATATAATTTATACATTGTATATATAATCTATAATTATATATAGTATATATATAAATATAAACT
1 CTAAACAATATATACATTATATATATAAACTATAATTATACATAGTATATATATAAATATAAACT
747619 ATATAGTTTATATAT
66 ATATAGTTTATATAT
747634 AAATTATATA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
94 11 0.16
95 31 0.44
96 1 0.01
97 26 0.37
98 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.44
Consensus pattern (95 bp):
CTAAACAATATATACATTATATATATAAACTATAATTATACATAGTATATATATAAATATAAACT
ATATAGTTTATATATGTTTATATTAATAAA
Found at i:747587 original size:11 final size:11
Alignment explanation
Indices: 747573--747734 Score: 70
Period size: 11 Copynumber: 14.5 Consensus size: 11
747563 TTATACATTG
*
747573 TATATATAATC
1 TATATATAATA
*
747584 TATA-ATTATA
1 TATATATAATA
747594 TATAGTATATATA
1 TATA-TATA-ATA
*
747607 TAAATATAA-A
1 TATATATAATA
*
747617 CTATATAGT-TTA
1 -TATATA-TAATA
747629 TATATA-AAT-
1 TATATATAATA
*
747638 TATATATTATA
1 TATATATAATA
747649 TATATATAA-A
1 TATATATAATA
*
747659 CTATATAGT-TTA
1 -TATATA-TAATA
747671 TATATATATATA
1 TATATATA-ATA
* *
747683 GTATATATAGTT
1 -TATATATAATA
* *
747695 TATATTTATTA
1 TATATATAATA
*
747706 TTATTATATACTA
1 -TA-TATATAATA
747719 TATATA-AACTA
1 TATATATAA-TA
747730 TATAT
1 TATAT
747735 GCTATTTATA
Statistics
Matches: 114, Mismatches: 19, Indels: 36
0.67 0.11 0.21
Matches are distributed among these distances:
9 6 0.05
10 15 0.13
11 55 0.48
12 17 0.15
13 21 0.18
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (11 bp):
TATATATAATA
Found at i:747811 original size:90 final size:90
Alignment explanation
Indices: 747590--747961 Score: 266
Period size: 90 Copynumber: 4.1 Consensus size: 90
747580 AATCTATAAT
* ** * *
747590 TATATATAGTATATATA---TAAATATA-AACTA-TATAGTTTATATATAAATTATATATTATAT
1 TATATATAGTATATATAGTTTAAATATATTACTATTATAAATTATATATAAACTATATATGATAT
747650 ATATATAAACTATATAGTTTATATA
66 ATATATAAACTATATAGTTTATATA
* * * * * *
747675 TATATATAGTATATATAGTTTATATTTATTATTATTATATACTATATATAAACTATATATGCTAT
1 TATATATAGTATATATAGTTTAAATATATTACTATTATAAATTATATATAAACTATATATGATAT
*
747740 TTATATAAACTATATAGTTTATATA
66 ATATATAAACTATATAGTTTATATA
** *
747765 TATAT-TATGTA-A-A-A-TTATAAATCATATATACTATGTATAAATTATATAGTTTATTA-ATA
1 TATATATA-GTATATATAGTT-TAAAT-ATAT-TACTAT-TATAAATTATATA-TAAACTATATA
* *
747824 T-AAACTATATATAAACCATATAGTTTATACT-
60 TGATA-TATATATAAACTATATAGTTTATA-TA
* * ** *
747855 TATATATTACTATGTATAGTTTATACTTATATATTACTATGTATAGTTTATATATAAATTATATA
1 TATATA-TAGTATATATAGTTTA-A---ATATATTACTAT-TATAAATTATATATAAACTATATA
* * *
747920 TGAATTATATATTATATTATTATATAGTTTTTATA
60 TG-A-TATATA-TATA-AACTATATAGTTTATATA
747955 TATATAT
1 TATATAT
747962 TAATATATTA
Statistics
Matches: 223, Mismatches: 34, Indels: 46
0.74 0.11 0.15
Matches are distributed among these distances:
85 17 0.08
86 2 0.01
87 5 0.02
88 10 0.04
89 12 0.05
90 98 0.44
91 7 0.03
92 2 0.01
93 1 0.00
94 3 0.01
95 8 0.04
96 22 0.10
97 4 0.02
98 7 0.03
99 7 0.03
100 18 0.08
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (90 bp):
TATATATAGTATATATAGTTTAAATATATTACTATTATAAATTATATATAAACTATATATGATAT
ATATATAAACTATATAGTTTATATA
Found at i:747831 original size:33 final size:33
Alignment explanation
Indices: 747788--747851 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
747778 ATTATAAATC
* * **
747788 ATATATACTATGTATAAATTATATAGTTTATTA
1 ATATAAACTATATATAAACCATATAGTTTATTA
747821 ATATAAACTATATATAAACCATATAGTTTAT
1 ATATAAACTATATATAAACCATATAGTTTAT
747852 ACTTATATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (33 bp):
ATATAAACTATATATAAACCATATAGTTTATTA
Found at i:747872 original size:27 final size:27
Alignment explanation
Indices: 747842--747906 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
747832 ATATAAACCA
747842 TATAGTTTATACTTATATATTACTATG
1 TATAGTTTATACTTATATATTACTATG
747869 TATAGTTTATACTTATATATTACTATG
1 TATAGTTTATACTTATATATTACTATG
747896 TATAGTTTATA
1 TATAGTTTATA
747907 TATAAATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.52
Consensus pattern (27 bp):
TATAGTTTATACTTATATATTACTATG
Found at i:748544 original size:21 final size:21
Alignment explanation
Indices: 748489--748554 Score: 100
Period size: 20 Copynumber: 3.2 Consensus size: 21
748479 GTTGTGGCCG
748489 TTTCTAGCCG-TTGGGGATGA
1 TTTCTAGCCGTTTGGGGATGA
*
748509 TTTCTAG-CATTTGGGGATGA
1 TTTCTAGCCGTTTGGGGATGA
*
748529 TTTCTAGCCGTTTGGGGATGT
1 TTTCTAGCCGTTTGGGGATGA
748550 TTTCT
1 TTTCT
748555 CTGCAAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 1 0.02
20 24 0.59
21 16 0.39
ACGTcount: A:0.14, C:0.14, G:0.30, T:0.42
Consensus pattern (21 bp):
TTTCTAGCCGTTTGGGGATGA
Found at i:749924 original size:2 final size:2
Alignment explanation
Indices: 749917--749942 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
749907 ATTATGTTTC
749917 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
749943 TTGACTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:757401 original size:22 final size:21
Alignment explanation
Indices: 757373--757422 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
757363 TCTTTTCTTT
757373 TCTTTTTATTTAGTT-TAGTTTC
1 TCTTTTTATTTA-TTATA-TTTC
757395 TCTTTTTATTTATTAATATTTC
1 TCTTTTTATTTATT-ATATTTC
757417 TCTTTT
1 TCTTTT
757423 GTTTTGTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.16, C:0.10, G:0.04, T:0.70
Consensus pattern (21 bp):
TCTTTTTATTTATTATATTTC
Found at i:771558 original size:23 final size:23
Alignment explanation
Indices: 771531--771579 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
771521 ACTCAACACA
*
771531 ATTAAATTTGCCACGACATTTCC
1 ATTAAATTTGCCACGACATATCC
* *
771554 ATTAACTTTGCCATGACATATCC
1 ATTAAATTTGCCACGACATATCC
771577 ATT
1 ATT
771580 TTCTACCACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (23 bp):
ATTAAATTTGCCACGACATATCC
Found at i:788604 original size:23 final size:23
Alignment explanation
Indices: 788574--788619 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
788564 TTTGTAAATA
788574 AAATGAGAGTTGTATGGAGTCTG
1 AAATGAGAGTTGTATGGAGTCTG
788597 AAATGAGAGTTGTATGGAGTCTG
1 AAATGAGAGTTGTATGGAGTCTG
788620 TTTATCCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.04, G:0.35, T:0.30
Consensus pattern (23 bp):
AAATGAGAGTTGTATGGAGTCTG
Found at i:791889 original size:23 final size:23
Alignment explanation
Indices: 791859--791902 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
791849 AATTAACTAG
791859 AATCAATTCTCACCTACTCCATT
1 AATCAATTCTCACCTACTCCATT
791882 AATCAATTCTCACCTACTCCA
1 AATCAATTCTCACCTACTCCA
791903 AACTAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (23 bp):
AATCAATTCTCACCTACTCCATT
Found at i:798558 original size:14 final size:14
Alignment explanation
Indices: 798539--798571 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
798529 TGAGCTCATG
*
798539 GATGATTTAAGCAA
1 GATGATGTAAGCAA
798553 GATGATGTAAGCAA
1 GATGATGTAAGCAA
798567 GATGA
1 GATGA
798572 ATTCATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.42, C:0.06, G:0.27, T:0.24
Consensus pattern (14 bp):
GATGATGTAAGCAA
Found at i:799399 original size:20 final size:20
Alignment explanation
Indices: 799355--799393 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
799345 TACTATGCTG
*
799355 GAATTTAATGTTAGAGTGTT
1 GAATTTAATGTTAGAATGTT
*
799375 GAATTTGATGTTAGAATGT
1 GAATTTAATGTTAGAATGT
799394 GAAATTGAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.44
Consensus pattern (20 bp):
GAATTTAATGTTAGAATGTT
Found at i:800584 original size:17 final size:17
Alignment explanation
Indices: 800562--800594 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
800552 TTATAATGGA
800562 AAATGATTCTGATTTGT
1 AAATGATTCTGATTTGT
800579 AAATGATTCTGATTTG
1 AAATGATTCTGATTTG
800595 AATTGCTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.45
Consensus pattern (17 bp):
AAATGATTCTGATTTGT
Found at i:804755 original size:21 final size:22
Alignment explanation
Indices: 804717--804761 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
804707 CAACGAAGTG
804717 CCACATAGAATATCCCGAAGGA
1 CCACATAGAATATCCCGAAGGA
*
804739 CCACATAG-ATGTCCCGAAGGA
1 CCACATAGAATATCCCGAAGGA
804760 CC
1 CC
804762 GCGCAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.36, C:0.31, G:0.20, T:0.13
Consensus pattern (22 bp):
CCACATAGAATATCCCGAAGGA
Found at i:804807 original size:23 final size:22
Alignment explanation
Indices: 804717--804807 Score: 76
Period size: 23 Copynumber: 4.1 Consensus size: 22
804707 CAACGAAGTG
* *
804717 CCACATAGAATATCCCGAAGGA
1 CCACGTAGAATGTCCCGAAGGA
*
804739 CCACATAG-ATGTCCCGAAGGA
1 CCACGTAGAATGTCCCGAAGGA
* * * * *
804760 CCGCGCAGAAAAGTCTCAAAGGA
1 CCACGTAG-AATGTCCCGAAGGA
*
804783 CCACGTAGAATTGTCCCGAATGA
1 CCACGTAGAA-TGTCCCGAAGGA
804806 CC
1 CC
804808 GTGTAGGACC
Statistics
Matches: 53, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
21 17 0.32
22 10 0.19
23 26 0.49
ACGTcount: A:0.35, C:0.29, G:0.22, T:0.14
Consensus pattern (22 bp):
CCACGTAGAATGTCCCGAAGGA
Found at i:808480 original size:22 final size:23
Alignment explanation
Indices: 808455--808542 Score: 78
Period size: 22 Copynumber: 4.0 Consensus size: 23
808445 TAAATTGCAT
*
808455 CGAAGTG-CCATATAGAATGTCC
1 CGAAGTGACCACATAGAATGTCC
* *
808477 CGAA-TGACCATATAG-ATGTCT
1 CGAAGTGACCACATAGAATGTCC
* * *
808498 CGAAG-GGCCGCGTAGAAATGTCC
1 CGAAGTGACCACATAG-AATGTCC
808521 CGAAG-GACCACATAGAATGTCC
1 CGAAGTGACCACATAGAATGTCC
808543 TGAATGAGCG
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
21 17 0.32
22 19 0.36
23 17 0.32
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.19
Consensus pattern (23 bp):
CGAAGTGACCACATAGAATGTCC
Found at i:808536 original size:23 final size:22
Alignment explanation
Indices: 808466--808542 Score: 84
Period size: 23 Copynumber: 3.5 Consensus size: 22
808456 GAAGTGCCAT
* *
808466 ATAGAATGTCCCGAATGACCAT
1 ATAGAATGTCCCGAAGGACCAC
* * *
808488 ATAG-ATGTCTCGAAGGGCCGC
1 ATAGAATGTCCCGAAGGACCAC
*
808509 GTAGAAATGTCCCGAAGGACCAC
1 ATAG-AATGTCCCGAAGGACCAC
808532 ATAGAATGTCC
1 ATAGAATGTCC
808543 TGAATGAGCG
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
21 15 0.35
22 11 0.26
23 17 0.40
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.19
Consensus pattern (22 bp):
ATAGAATGTCCCGAAGGACCAC
Found at i:808557 original size:45 final size:44
Alignment explanation
Indices: 808470--808559 Score: 112
Period size: 44 Copynumber: 2.0 Consensus size: 44
808460 TGCCATATAG
* * *
808470 AATGTCCCGAATGACCATATAGATGTCTCGAAGGGCCGCGTAGA
1 AATGTCCCGAAGGACCACATAGATGTCTCGAAGAGCCGCGTAGA
808514 AATGTCCCGAAGGACCACATAGAATGTC-CTGAATGAG-CGCGTAGA
1 AATGTCCCGAAGGACCACATAG-ATGTCTC-GAA-GAGCCGCGTAGA
808559 A
1 A
808560 CCCTCGACTC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
44 21 0.52
45 17 0.43
46 2 0.05
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.19
Consensus pattern (44 bp):
AATGTCCCGAAGGACCACATAGATGTCTCGAAGAGCCGCGTAGA
Found at i:808558 original size:22 final size:22
Alignment explanation
Indices: 808467--808559 Score: 71
Period size: 22 Copynumber: 4.2 Consensus size: 22
808457 AAGTGCCATA
* ***
808467 TAGAATGTCCCGAATGACCATA
1 TAGAATGTCCCGAAGGACCGCG
* *
808489 TAG-ATGTCTCGAAGGGCCGCG
1 TAGAATGTCCCGAAGGACCGCG
* *
808510 TAGAAATGTCCCGAAGGACCACA
1 TAG-AATGTCCCGAAGGACCGCG
* * *
808533 TAGAATGTCCTGAATGAGCGCG
1 TAGAATGTCCCGAAGGACCGCG
808555 TAGAA
1 TAGAA
808560 CCCTCGACTC
Statistics
Matches: 54, Mismatches: 15, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
21 15 0.28
22 22 0.41
23 17 0.31
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.19
Consensus pattern (22 bp):
TAGAATGTCCCGAAGGACCGCG
Found at i:809276 original size:19 final size:20
Alignment explanation
Indices: 809241--809291 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
809231 CACTTTGAAT
*
809241 AGTATCGGTACTCAAGGTAC
1 AGTATCGATACTCAAGGTAC
809261 AGTATCGATA-TCAAGGTAC
1 AGTATCGATACTCAAGGTAC
*
809280 AATATCGATACT
1 AGTATCGATACT
809292 TCTACTCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (20 bp):
AGTATCGATACTCAAGGTAC
Found at i:810299 original size:2 final size:2
Alignment explanation
Indices: 810292--810326 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
810282 TGAATGATGT
810292 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
810327 CATAAAAGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:812770 original size:30 final size:30
Alignment explanation
Indices: 812711--812771 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 30
812701 ATATACAAGC
* *
812711 TTTAGAAAGTTATTTGGACCAATTTATAAT
1 TTTAGAAAGTTATTAGGACCAATTGATAAT
812741 TTTATGAAAGTTA-TAGGACC-ATTCGATAAT
1 TTTA-GAAAGTTATTAGGACCAATT-GATAAT
812771 T
1 T
812772 ATGGAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 3 0.11
30 16 0.59
31 8 0.30
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (30 bp):
TTTAGAAAGTTATTAGGACCAATTGATAAT
Found at i:813230 original size:46 final size:45
Alignment explanation
Indices: 813178--813281 Score: 122
Period size: 45 Copynumber: 2.3 Consensus size: 45
813168 ACATACTATG
*
813178 CATCGATTCACTCAAAG-T-TTTATGAAAACATCGAATGCATTTGATA
1 CATCGATACACTC-AAGCTATTT-TG-AAACATCGAATGCATTTGATA
* * *
813224 CATCGATACACTCAGGCTATTTTGAAACATCGAATGCATTTTATG
1 CATCGATACACTCAAGCTATTTTGAAACATCGAATGCATTTGATA
*
813269 CATCGATGCACTC
1 CATCGATACACTC
813282 TTAGTGCACC
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
45 33 0.65
46 15 0.29
47 3 0.06
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (45 bp):
CATCGATACACTCAAGCTATTTTGAAACATCGAATGCATTTGATA
Found at i:813537 original size:11 final size:11
Alignment explanation
Indices: 813521--813556 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
813511 ACAAGAAACA
813521 AGAATCAAGAG
1 AGAATCAAGAG
813532 AGAATCAAGAG
1 AGAATCAAGAG
813543 AGAATCAA-AG
1 AGAATCAAGAG
813553 AGAA
1 AGAA
813557 AGCATCAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.58, C:0.08, G:0.25, T:0.08
Consensus pattern (11 bp):
AGAATCAAGAG
Found at i:821870 original size:65 final size:64
Alignment explanation
Indices: 821794--821973 Score: 208
Period size: 65 Copynumber: 2.8 Consensus size: 64
821784 GAATAAATTG
821794 AACATCGAATGCATTTCATGCATCGATGCACATATTATGCATCGATGCACTCAGAG-T-TTTATG
1 AACATCGAATGCATTTCATGCATCGATGCACATATTATGCATCGATGCACTCAG-GCTATTT-TG
821857 AA
64 -A
* ***
821859 AACA-CAGAATGCATTTGATGCATCGATGCACCA-GCCATGCATCGATGCACTCAGGCTATTTTG
1 AACATC-GAATGCATTTCATGCATCGATGCA-CATATTATGCATCGATGCACTCAGGCTATTTTG
821922 A
64 A
* * *
821923 AACATCGAATGCATTTTATGCATCGATGCAC-TCTTAGTGCACCGATGCACT
1 AACATCGAATGCATTTCATGCATCGATGCACATATTA-TGCATCGATGCACT
821974 AAGTGTCCAA
Statistics
Matches: 99, Mismatches: 9, Indels: 15
0.80 0.07 0.12
Matches are distributed among these distances:
63 2 0.02
64 43 0.43
65 49 0.49
66 5 0.05
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACATATTATGCATCGATGCACTCAGGCTATTTTGA
Found at i:822724 original size:33 final size:33
Alignment explanation
Indices: 822661--822726 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
822651 ACTAAATAAT
* *
822661 TTTGTTACAATTTGTTATTGTGAAAGAATATTA
1 TTTGTCACAATTTGTTATTGTCAAAGAATATTA
* *
822694 TTTGTCACAATTTTTTATTTTCACAA-AATATTA
1 TTTGTCACAATTTGTTATTGTCA-AAGAATATTA
822727 GGGCAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.33, C:0.08, G:0.09, T:0.50
Consensus pattern (33 bp):
TTTGTCACAATTTGTTATTGTCAAAGAATATTA
Found at i:826283 original size:15 final size:16
Alignment explanation
Indices: 826255--826284 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
826245 TCTTCTGTCA
826255 TAGTTACTAAAATTTT
1 TAGTTACTAAAATTTT
826271 TAGTTAC-AAAATTT
1 TAGTTACTAAAATTT
826285 GTCACAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (16 bp):
TAGTTACTAAAATTTT
Found at i:827920 original size:25 final size:25
Alignment explanation
Indices: 827892--827942 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
827882 ATGTAGTTGA
*
827892 AATGTTGCTATGTATGTGATGTCGT
1 AATGATGCTATGTATGTGATGTCGT
827917 AATGATGCTATGTATGTGATGTCGT
1 AATGATGCTATGTATGTGATGTCGT
827942 A
1 A
827943 CAAATTACGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.27, T:0.41
Consensus pattern (25 bp):
AATGATGCTATGTATGTGATGTCGT
Found at i:828397 original size:17 final size:18
Alignment explanation
Indices: 828372--828405 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
828362 TGATGAATGG
*
828372 AAAATGATTCTGATTTGT
1 AAAATGATTCTAATTTGT
828390 AAAA-GATTCTAATTTG
1 AAAATGATTCTAATTTG
828406 CATTACTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.41
Consensus pattern (18 bp):
AAAATGATTCTAATTTGT
Found at i:828764 original size:43 final size:43
Alignment explanation
Indices: 828742--828985 Score: 267
Period size: 43 Copynumber: 5.7 Consensus size: 43
828732 TAACGATATA
* * * * *
828742 TAGCGGCGTTTGTCTAATAAACGACGCAATAGGTGTTGATATT
1 TAGCGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAGATT
*
828785 TAGCGGCGTTTTTTCAACAAACGCCGCAATAGGTGTTGAGATT
1 TAGCGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAGATT
* * *
828828 TAGCGGAGTTTTTCCCATAAACGCCGCAATAGGTGTTGAGATT
1 TAGCGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAGATT
* * *
828871 TAGCGGCGTTTTTCCCACAAACGTCGCAATAGGTCTTGAGATT
1 TAGCGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAGATT
* * * * * * *
828914 TAGCGGCATTTTTCCCACAAACACCGCAAAAGAT-CTG-GTATA
1 TAGCGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAG-ATT
**
828956 TAGCGGCGTTTTTTAGAACAAACGCCGCAA
1 TAGCGGCG-TTTTTCCAACAAACGCCGCAA
828986 AAGATCATAT
Statistics
Matches: 173, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
41 1 0.01
42 11 0.06
43 161 0.93
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (43 bp):
TAGCGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAGATT
Found at i:828926 original size:86 final size:86
Alignment explanation
Indices: 828717--828942 Score: 283
Period size: 86 Copynumber: 2.6 Consensus size: 86
828707 TGGTAACAAA
** * * * * ** * *
828717 AAACGTCGCAATAGGTAACGATATATAGCGGCGTTTGTCTAATAAACGACGCAATAGGTGTTGAT
1 AAACGTCGCAATAGGTATTGAGATTTAGCGGCATTTTTCCCATAAACGCCGCAATAGGTGTTGAG
*
828782 ATTTAGCGGCGTTTTTTCAAC
66 ATTTAGCGGCGTTTTTCCAAC
* *
828803 AAACGCCGCAATAGGTGTTGAGATTTAGCGG-AGTTTTTCCCATAAACGCCGCAATAGGTGTTGA
1 AAACGTCGCAATAGGTATTGAGATTTAGCGGCA-TTTTTCCCATAAACGCCGCAATAGGTGTTGA
*
828867 GATTTAGCGGCGTTTTTCCCAC
65 GATTTAGCGGCGTTTTTCCAAC
* * *
828889 AAACGTCGCAATAGGTCTTGAGATTTAGCGGCATTTTTCCCACAAACACCGCAA
1 AAACGTCGCAATAGGTATTGAGATTTAGCGGCATTTTTCCCATAAACGCCGCAA
828943 AAGATCTGGT
Statistics
Matches: 120, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
86 119 0.99
87 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (86 bp):
AAACGTCGCAATAGGTATTGAGATTTAGCGGCATTTTTCCCATAAACGCCGCAATAGGTGTTGAG
ATTTAGCGGCGTTTTTCCAAC
Found at i:828986 original size:43 final size:43
Alignment explanation
Indices: 828930--829026 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 43
828920 CATTTTTCCC
* * * *
828930 ACAAACACCGCAAAAGATC-TGGTATATAGCGGCGTTTTTTAGA-
1 ACAAACGCCGCAAAAGATCAT-ATATATAGCGACG-TTTTAAGAT
*
828973 ACAAACGCCGCAAAAGATCATATCTATAGCGACGTTTTAAGAT
1 ACAAACGCCGCAAAAGATCATATATATAGCGACGTTTTAAGAT
829016 ACAAACGCCGC
1 ACAAACGCCGC
829027 TAATTACCTC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 7 0.15
43 39 0.83
44 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.22
Consensus pattern (43 bp):
ACAAACGCCGCAAAAGATCATATATATAGCGACGTTTTAAGAT
Found at i:829164 original size:21 final size:21
Alignment explanation
Indices: 829138--829196 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
829128 ATTTTCCAAT
*
829138 AAACTTGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
* *
829159 AAACTTAAAATCCATAACAAG
1 AAACTTGAAATCCATAACAAC
**
829180 AAAAATGAAATCCATAA
1 AAACTTGAAATCCATAA
829197 TAATAAATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.56, C:0.20, G:0.05, T:0.19
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:830107 original size:36 final size:36
Alignment explanation
Indices: 830057--830145 Score: 135
Period size: 36 Copynumber: 2.5 Consensus size: 36
830047 CATAAGTGAG
* * *
830057 GAATG-TAACTAAATTCCACTTGAACATCATCAGTA
1 GAATGTTAATTAAATTCCACTTGAACAGCAGCAGTA
830092 GAATGTTAATTAAATTCCACTTGAACAGCAGCAGTA
1 GAATGTTAATTAAATTCCACTTGAACAGCAGCAGTA
*
830128 GAATGTTGATTAAATTCC
1 GAATGTTAATTAAATTCC
830146 CAACCGTTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 5 0.10
36 44 0.90
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (36 bp):
GAATGTTAATTAAATTCCACTTGAACAGCAGCAGTA
Found at i:834284 original size:4 final size:4
Alignment explanation
Indices: 834277--834311 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
834267 AAAGAAACCC
*
834277 CTCA CTCA CTCA CTCA CTCA CTCA CTCG CTCA CTC
1 CTCA CTCA CTCA CTCA CTCA CTCA CTCA CTCA CTC
834312 TCTCTACTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.20, C:0.51, G:0.03, T:0.26
Consensus pattern (4 bp):
CTCA
Found at i:834771 original size:41 final size:41
Alignment explanation
Indices: 834704--835088 Score: 488
Period size: 41 Copynumber: 9.4 Consensus size: 41
834694 TTTAAAAAAC
* *
834704 AAACGCCACTAAAGTACAAGTC--TAGCGGCGTTTTTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
*
834743 AAACGCCACTAATGTACGAGTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* * *
834784 AAACACCACTAATGTACGAGTCTATAGCGGTGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* * *
834825 AAACGCCACTAAAGTACAAGCCTATAGCGGCGTTTGTAAACA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATA-A
* *
834867 CAAACGCCACAAAATTACGAGTCTATAGCGGCGTTTGTATAA
1 -AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* * *
834909 AAACGCCACTAAAGTACTACTCTATCGCGGCGTTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCG-TTTGTATAA
* *
834951 AAACACCGCTAAAGT-CGAGTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
*** * * * * *
834991 AAACGATGCTAAAGTACTACTCTATTGTGGCGTTTTATATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCG-TTTGTATAA
835033 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
*
835074 AAACGCCGCTAAAGT
1 AAACGCCACTAAAGT
835089 TACCATTTTG
Statistics
Matches: 296, Mismatches: 43, Indels: 12
0.84 0.12 0.03
Matches are distributed among these distances:
39 20 0.07
40 21 0.07
41 163 0.55
42 57 0.19
43 35 0.12
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (41 bp):
AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
Found at i:835005 original size:166 final size:165
Alignment explanation
Indices: 834687--835088 Score: 533
Period size: 166 Copynumber: 2.4 Consensus size: 165
834677 CTTTAAACTT
* * * *
834687 GCGGCATTTTAAAAAACAAACGCCACTAAAGTACAAGTC--TAGCGGCGTTTTTATAAAAACGCC
1 GCGGCGTTTT-AAACACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCC
* * * *
834750 ACTAATGTACGAGTCTATAGCGGCGTTTGTATAAAAACACCACTAATGTACGAGTCTATAGCGGT
65 ACTAAAGTACGACTCTATAGCGGCGTTTGTATAAAAACACCACTAAAGTACGAGTCTATAGCGGC
*
834815 GTTTGTATAAAAACGCCACTAAAGTACAAGC-CTATA
130 GTTTGTATAAAAACGACACTAAAGTACAA-CTCTATA
* *
834851 GCGGCGTTTGTAAACACAAACGCCACAAAATTACGAGTCTATAGCGGCGTTTGTATAAAAACGCC
1 GCGGCGTTT-TAAACACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCC
* * *
834916 ACTAAAGTACTACTCTATCGCGGCGTTTTGTATAAAAACACCGCTAAAGT-CGAGTCTATAGCGG
65 ACTAAAGTACGACTCTATAGCGGCG-TTTGTATAAAAACACCACTAAAGTACGAGTCTATAGCGG
** * *
834980 CGTTTGTATAAAAACGATGCTAAAGTACTACTCTATT
129 CGTTTGTATAAAAACGACACTAAAGTACAACTCTATA
* * * * *
835017 GTGGCGTTTTATATAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCG
1 GCGGCGTTTTAAACACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCA
835082 CTAAAGT
66 CTAAAGT
835089 TACCATTTTG
Statistics
Matches: 208, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
164 32 0.15
165 59 0.28
166 95 0.46
167 22 0.11
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (165 bp):
GCGGCGTTTTAAACACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCA
CTAAAGTACGACTCTATAGCGGCGTTTGTATAAAAACACCACTAAAGTACGAGTCTATAGCGGCG
TTTGTATAAAAACGACACTAAAGTACAACTCTATA
Found at i:836491 original size:22 final size:22
Alignment explanation
Indices: 836463--836507 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
836453 CCTACAACCG
836463 AGAATAATATATGTTCTACCTT
1 AGAATAATATATGTTCTACCTT
836485 AGAATAATATATGTTCTACCTT
1 AGAATAATATATGTTCTACCTT
836507 A
1 A
836508 AGTTTCCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (22 bp):
AGAATAATATATGTTCTACCTT
Found at i:837823 original size:18 final size:18
Alignment explanation
Indices: 837800--837836 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
837790 AAAAGGAAAG
837800 AGTTGTATGGATAGAGAT
1 AGTTGTATGGATAGAGAT
837818 AGTTGTATGGATAGAGAT
1 AGTTGTATGGATAGAGAT
837836 A
1 A
837837 ATTGGATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (18 bp):
AGTTGTATGGATAGAGAT
Found at i:843751 original size:22 final size:24
Alignment explanation
Indices: 843721--843765 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
843711 CACTAAAAAA
843721 AGATCGAAAACATGCCA-AAAGGT
1 AGATCGAAAACATGCCATAAAGGT
*
843744 AGAT-GAAAGCATGCCATAAAGG
1 AGATCGAAAACATGCCATAAAGG
843766 AAGAGTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.47, C:0.16, G:0.24, T:0.13
Consensus pattern (24 bp):
AGATCGAAAACATGCCATAAAGGT
Found at i:847761 original size:16 final size:16
Alignment explanation
Indices: 847740--847775 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
847730 TATTTTTACA
847740 TAAACCAAAA-TATTAT
1 TAAACCAAAATTA-TAT
847756 TAAACCAAAATTATAT
1 TAAACCAAAATTATAT
847772 TAAA
1 TAAA
847776 TATATAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.89
17 2 0.11
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31
Consensus pattern (16 bp):
TAAACCAAAATTATAT
Found at i:849707 original size:279 final size:279
Alignment explanation
Indices: 849207--850326 Score: 2201
Period size: 279 Copynumber: 4.0 Consensus size: 279
849197 GTTGCATTTT
849207 ATAATTACATTCACTTTCGGGAAGACGAGGGCACCCACTTCCCAATATTTCTTCACCTTAACCGC
1 ATAATTACATTCACTTTCGGGAAGACGAGGGCACCCACTTCCCAATATTTCTTCACCTTAACCGC
*
849272 CTGATAATAAAAAAAAAACTGTTACTGTAACCCCTTAACCCGAACTAGAATAATTAAGTCGAATC
66 CTGATAATAAAAAAAAAAGTGTTACTGTAACCCCTTAACCCGAACTAGAATAATTAAGTCGAATC
849337 TAAAGAATACAATTAAAATCTATTTTCCTCGAAGAAAATGTGTTTGATTCAAACTTAAAAATAAT
131 TAAAGAATACAATTAAAATCTATTTTCCTCGAAGAAAATGTGTTTGATTCAAACTTAAAAATAAT
849402 ATTTATAATAAAGTATCAATTCTCAAGTTAAATAATTCTTAATTTATTAAAGTAAAATATTTGGG
196 ATTTATAATAAAGTATCAATTCTCAAGTTAAATAATTCTTAATTTATTAAAGTAAAATATTTGGG
849467 AAAAAATTTAATATAAATA
261 AAAAAATTTAATATAAATA
849486 ATAATTACATTCACTTTCGGGAAGACGAGGGCACCCACTTCCCAATATTTCTTCACCTTAACCGC
1 ATAATTACATTCACTTTCGGGAAGACGAGGGCACCCACTTCCCAATATTTCTTCACCTTAACCGC
849551 CTGATAATAAAAAAAAAAGTGTTACTGTAACCCCTTAACCCGAACTAGAATAATTAAGTCGAATC
66 CTGATAATAAAAAAAAAAGTGTTACTGTAACCCCTTAACCCGAACTAGAATAATTAAGTCGAATC
849616 TAAAGAATACAATTAAAATCTATTTTCCTCGAAGAAAATGTGTTTGATTCAAACTTAAAAATAAT
131 TAAAGAATACAATTAAAATCTATTTTCCTCGAAGAAAATGTGTTTGATTCAAACTTAAAAATAAT
849681 ATTTATAATAAAGTATCAATTCTCAAGTTAAATAATTCTTAATTTATTAAAGTAAAATATTTGGG
196 ATTTATAATAAAGTATCAATTCTCAAGTTAAATAATTCTTAATTTATTAAAGTAAAATATTTGGG
849746 AAAAAATTTAATAT--A-A
261 AAAAAATTTAATATAAATA
849762 ATAATTACATTCACTTTCGGGAAGACGAGGGCACCCACTTCCCAATATTTCTTCACCTTAACCGC
1 ATAATTACATTCACTTTCGGGAAGACGAGGGCACCCACTTCCCAATATTTCTTCACCTTAACCGC
*
849827 CTGATAATAAAAAAAAAAGTGTTACTGTAATCCCTTAACCCGAACTAGAATAATTAAGTCGAATC
66 CTGATAATAAAAAAAAAAGTGTTACTGTAACCCCTTAACCCGAACTAGAATAATTAAGTCGAATC
849892 TAAAGAATACAATTAAAATCTATTTTCCTCGAAGAAAATGTGTTTGATTCAAACTTAAAAATAAT
131 TAAAGAATACAATTAAAATCTATTTTCCTCGAAGAAAATGTGTTTGATTCAAACTTAAAAATAAT
849957 ATTTATAATAAAGTATCAATTCTCAAGTTAAATAATTCTTAATTTATTAAAGTAAAATATTTGGG
196 ATTTATAATAAAGTATCAATTCTCAAGTTAAATAATTCTTAATTTATTAAAGTAAAATATTTGGG
850022 AAAAAATTTAATATAAATA
261 AAAAAATTTAATATAAATA
850041 ATAATTACATTCACTTTCGGGAAGACGAGGGCACCCACTTCCCAATATTTCTTCACCTTAACCGC
1 ATAATTACATTCACTTTCGGGAAGACGAGGGCACCCACTTCCCAATATTTCTTCACCTTAACCGC
850106 CTGATAATAAAAAAAAAAGTGTTACTGTAACCCCTTAACCCGAACTAGAATAATTAAGTCGAATC
66 CTGATAATAAAAAAAAAAGTGTTACTGTAACCCCTTAACCCGAACTAGAATAATTAAGTCGAATC
850171 TAAAGAATACAATTAAAATCTATTTTCCTCGAAGAAAATGTGTTTGATTCAAACTTAAAAATAAT
131 TAAAGAATACAATTAAAATCTATTTTCCTCGAAGAAAATGTGTTTGATTCAAACTTAAAAATAAT
850236 ATTTATAATAAAGTATCAATTCTCAAGTTAAATAATTCTTAATTTATTAAAGTAAAATATTTGGG
196 ATTTATAATAAAGTATCAATTCTCAAGTTAAATAATTCTTAATTTATTAAAGTAAAATATTTGGG
850301 AAAAAATTTAATATAAATA
261 AAAAAATTTAATATAAATA
850320 ATAATTA
1 ATAATTA
850327 TTTCCAAATC
Statistics
Matches: 835, Mismatches: 3, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
276 274 0.33
277 1 0.00
278 1 0.00
279 559 0.67
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.32
Consensus pattern (279 bp):
ATAATTACATTCACTTTCGGGAAGACGAGGGCACCCACTTCCCAATATTTCTTCACCTTAACCGC
CTGATAATAAAAAAAAAAGTGTTACTGTAACCCCTTAACCCGAACTAGAATAATTAAGTCGAATC
TAAAGAATACAATTAAAATCTATTTTCCTCGAAGAAAATGTGTTTGATTCAAACTTAAAAATAAT
ATTTATAATAAAGTATCAATTCTCAAGTTAAATAATTCTTAATTTATTAAAGTAAAATATTTGGG
AAAAAATTTAATATAAATA
Found at i:850257 original size:555 final size:555
Alignment explanation
Indices: 849207--850321 Score: 2212
Period size: 555 Copynumber: 2.0 Consensus size: 555
849197 GTTGCATTTT
849207 ATAATTACATTCACTTTCGGGAAGACGAGGGCACCCACTTCCCAATATTTCTTCACCTTAACCGC
1 ATAATTACATTCACTTTCGGGAAGACGAGGGCACCCACTTCCCAATATTTCTTCACCTTAACCGC
849272 CTGATAATAAAAAAAAAACTGTTACTGTAACCCCTTAACCCGAACTAGAATAATTAAGTCGAATC
66 CTGATAATAAAAAAAAAACTGTTACTGTAACCCCTTAACCCGAACTAGAATAATTAAGTCGAATC
849337 TAAAGAATACAATTAAAATCTATTTTCCTCGAAGAAAATGTGTTTGATTCAAACTTAAAAATAAT
131 TAAAGAATACAATTAAAATCTATTTTCCTCGAAGAAAATGTGTTTGATTCAAACTTAAAAATAAT
849402 ATTTATAATAAAGTATCAATTCTCAAGTTAAATAATTCTTAATTTATTAAAGTAAAATATTTGGG
196 ATTTATAATAAAGTATCAATTCTCAAGTTAAATAATTCTTAATTTATTAAAGTAAAATATTTGGG
849467 AAAAAATTTAATATAAATAATAATTACATTCACTTTCGGGAAGACGAGGGCACCCACTTCCCAAT
261 AAAAAATTTAATATAAATAATAATTACATTCACTTTCGGGAAGACGAGGGCACCCACTTCCCAAT
849532 ATTTCTTCACCTTAACCGCCTGATAATAAAAAAAAAAGTGTTACTGTAACCCCTTAACCCGAACT
326 ATTTCTTCACCTTAACCGCCTGATAATAAAAAAAAAAGTGTTACTGTAACCCCTTAACCCGAACT
849597 AGAATAATTAAGTCGAATCTAAAGAATACAATTAAAATCTATTTTCCTCGAAGAAAATGTGTTTG
391 AGAATAATTAAGTCGAATCTAAAGAATACAATTAAAATCTATTTTCCTCGAAGAAAATGTGTTTG
849662 ATTCAAACTTAAAAATAATATTTATAATAAAGTATCAATTCTCAAGTTAAATAATTCTTAATTTA
456 ATTCAAACTTAAAAATAATATTTATAATAAAGTATCAATTCTCAAGTTAAATAATTCTTAATTTA
849727 TTAAAGTAAAATATTTGGGAAAAAATTTAATATAA
521 TTAAAGTAAAATATTTGGGAAAAAATTTAATATAA
849762 ATAATTACATTCACTTTCGGGAAGACGAGGGCACCCACTTCCCAATATTTCTTCACCTTAACCGC
1 ATAATTACATTCACTTTCGGGAAGACGAGGGCACCCACTTCCCAATATTTCTTCACCTTAACCGC
* *
849827 CTGATAATAAAAAAAAAAGTGTTACTGTAATCCCTTAACCCGAACTAGAATAATTAAGTCGAATC
66 CTGATAATAAAAAAAAAACTGTTACTGTAACCCCTTAACCCGAACTAGAATAATTAAGTCGAATC
849892 TAAAGAATACAATTAAAATCTATTTTCCTCGAAGAAAATGTGTTTGATTCAAACTTAAAAATAAT
131 TAAAGAATACAATTAAAATCTATTTTCCTCGAAGAAAATGTGTTTGATTCAAACTTAAAAATAAT
849957 ATTTATAATAAAGTATCAATTCTCAAGTTAAATAATTCTTAATTTATTAAAGTAAAATATTTGGG
196 ATTTATAATAAAGTATCAATTCTCAAGTTAAATAATTCTTAATTTATTAAAGTAAAATATTTGGG
850022 AAAAAATTTAATATAAATAATAATTACATTCACTTTCGGGAAGACGAGGGCACCCACTTCCCAAT
261 AAAAAATTTAATATAAATAATAATTACATTCACTTTCGGGAAGACGAGGGCACCCACTTCCCAAT
850087 ATTTCTTCACCTTAACCGCCTGATAATAAAAAAAAAAGTGTTACTGTAACCCCTTAACCCGAACT
326 ATTTCTTCACCTTAACCGCCTGATAATAAAAAAAAAAGTGTTACTGTAACCCCTTAACCCGAACT
850152 AGAATAATTAAGTCGAATCTAAAGAATACAATTAAAATCTATTTTCCTCGAAGAAAATGTGTTTG
391 AGAATAATTAAGTCGAATCTAAAGAATACAATTAAAATCTATTTTCCTCGAAGAAAATGTGTTTG
850217 ATTCAAACTTAAAAATAATATTTATAATAAAGTATCAATTCTCAAGTTAAATAATTCTTAATTTA
456 ATTCAAACTTAAAAATAATATTTATAATAAAGTATCAATTCTCAAGTTAAATAATTCTTAATTTA
850282 TTAAAGTAAAATATTTGGGAAAAAATTTAATATAA
521 TTAAAGTAAAATATTTGGGAAAAAATTTAATATAA
850317 ATAAT
1 ATAAT
850322 AATTATTTCC
Statistics
Matches: 558, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
555 558 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.32
Consensus pattern (555 bp):
ATAATTACATTCACTTTCGGGAAGACGAGGGCACCCACTTCCCAATATTTCTTCACCTTAACCGC
CTGATAATAAAAAAAAAACTGTTACTGTAACCCCTTAACCCGAACTAGAATAATTAAGTCGAATC
TAAAGAATACAATTAAAATCTATTTTCCTCGAAGAAAATGTGTTTGATTCAAACTTAAAAATAAT
ATTTATAATAAAGTATCAATTCTCAAGTTAAATAATTCTTAATTTATTAAAGTAAAATATTTGGG
AAAAAATTTAATATAAATAATAATTACATTCACTTTCGGGAAGACGAGGGCACCCACTTCCCAAT
ATTTCTTCACCTTAACCGCCTGATAATAAAAAAAAAAGTGTTACTGTAACCCCTTAACCCGAACT
AGAATAATTAAGTCGAATCTAAAGAATACAATTAAAATCTATTTTCCTCGAAGAAAATGTGTTTG
ATTCAAACTTAAAAATAATATTTATAATAAAGTATCAATTCTCAAGTTAAATAATTCTTAATTTA
TTAAAGTAAAATATTTGGGAAAAAATTTAATATAA
Found at i:857534 original size:21 final size:21
Alignment explanation
Indices: 857489--857538 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
857479 TTATTGTGCT
* *
857489 AGTTACAATAGTAATTACGAT
1 AGTTACAAGAGTAATTACGAG
**
857510 AGTTACAAGAGTAATTATTAG
1 AGTTACAAGAGTAATTACGAG
857531 AGTTACAA
1 AGTTACAA
857539 AGGGTTGGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (21 bp):
AGTTACAAGAGTAATTACGAG
Found at i:859611 original size:19 final size:19
Alignment explanation
Indices: 859587--859624 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
859577 ATAGGAAAAT
859587 TGAACTATTAGAACTTATA
1 TGAACTATTAGAACTTATA
*
859606 TGAACTGTTAGAACTTATA
1 TGAACTATTAGAACTTATA
859625 CATATTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (19 bp):
TGAACTATTAGAACTTATA
Found at i:860981 original size:21 final size:21
Alignment explanation
Indices: 860957--861019 Score: 117
Period size: 21 Copynumber: 3.0 Consensus size: 21
860947 AATCAGATTG
*
860957 CCCAGTGGGTACCGATTCCCC
1 CCCAGGGGGTACCGATTCCCC
860978 CCCAGGGGGTACCGATTCCCC
1 CCCAGGGGGTACCGATTCCCC
860999 CCCAGGGGGTACCGATTCCCC
1 CCCAGGGGGTACCGATTCCCC
861020 TTATCTAACG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.14, C:0.43, G:0.27, T:0.16
Consensus pattern (21 bp):
CCCAGGGGGTACCGATTCCCC
Found at i:863815 original size:21 final size:21
Alignment explanation
Indices: 863789--863851 Score: 117
Period size: 21 Copynumber: 3.0 Consensus size: 21
863779 AATCAGATTG
*
863789 CCCAGGGGGTACAGATTCCCC
1 CCCAGGGGGTACCGATTCCCC
863810 CCCAGGGGGTACCGATTCCCC
1 CCCAGGGGGTACCGATTCCCC
863831 CCCAGGGGGTACCGATTCCCC
1 CCCAGGGGGTACCGATTCCCC
863852 TCTGCCTAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.16, C:0.41, G:0.29, T:0.14
Consensus pattern (21 bp):
CCCAGGGGGTACCGATTCCCC
Found at i:869851 original size:29 final size:29
Alignment explanation
Indices: 869816--869878 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
869806 TTTATATTTC
*
869816 TTATAAAATTACTATACAAAA-TAATATAT
1 TTATAAAA-TAATATACAAAACTAATATAT
**
869845 TTATAAAATAATATGTAAAACTAATATAT
1 TTATAAAATAATATACAAAACTAATATAT
869874 TTATA
1 TTATA
869879 TTGCAGAGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.40
Consensus pattern (29 bp):
TTATAAAATAATATACAAAACTAATATAT
Found at i:869854 original size:16 final size:16
Alignment explanation
Indices: 869833--869878 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 16
869823 ATTACTATAC
869833 AAAATAATATATTTAT
1 AAAATAATATATTTAT
*
869849 AAAAT-A-ATATGTA-
1 AAAATAATATATTTAT
*
869862 AAACTAATATATTTAT
1 AAAATAATATATTTAT
869878 A
1 A
869879 TTGCAGAGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
13 4 0.17
14 7 0.29
15 7 0.29
16 6 0.25
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (16 bp):
AAAATAATATATTTAT
Found at i:871435 original size:18 final size:18
Alignment explanation
Indices: 871408--871443 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
871398 CCGATAATCC
871408 GATTTCAATTTGTTTCTT
1 GATTTCAATTTGTTTCTT
*
871426 GATTTTAATTTGTTTCTT
1 GATTTCAATTTGTTTCTT
871444 TGACTATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.08, G:0.11, T:0.64
Consensus pattern (18 bp):
GATTTCAATTTGTTTCTT
Found at i:872693 original size:2 final size:2
Alignment explanation
Indices: 872686--872716 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
872676 AGAGTATTTA
872686 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
872717 CTACCAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:873694 original size:21 final size:21
Alignment explanation
Indices: 873668--873722 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
873658 TCTCCGCATT
873668 TCTCGGCTTTAAAGCATTTCC
1 TCTCGGCTTTAAAGCATTTCC
**
873689 TCTCGGCTTTAAAGTGTTTCC
1 TCTCGGCTTTAAAGCATTTCC
*
873710 TCTCGGCTGTAAA
1 TCTCGGCTTTAAA
873723 TAAAACACTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.38
Consensus pattern (21 bp):
TCTCGGCTTTAAAGCATTTCC
Found at i:873787 original size:29 final size:30
Alignment explanation
Indices: 873753--873822 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 30
873743 AAATTCGCAC
873753 AACAATCCTCTCAA-CCGAAAACATCAAAT
1 AACAATCCTCTCAACCCGAAAACATCAAAT
* * *
873782 AACAATCCTCTCAACCCGTAAATATCACAT
1 AACAATCCTCTCAACCCGAAAACATCAAAT
*
873812 GACAATCCTCT
1 AACAATCCTCT
873823 TATCTTTGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 14 0.39
30 22 0.61
ACGTcount: A:0.41, C:0.33, G:0.04, T:0.21
Consensus pattern (30 bp):
AACAATCCTCTCAACCCGAAAACATCAAAT
Found at i:873881 original size:12 final size:12
Alignment explanation
Indices: 873864--873888 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
873854 CATTGCAAGG
873864 TATTTTTTATAA
1 TATTTTTTATAA
873876 TATTTTTTATAA
1 TATTTTTTATAA
873888 T
1 T
873889 TATATATGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTTTTTATAA
Found at i:877429 original size:14 final size:14
Alignment explanation
Indices: 877410--877443 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
877400 TTAAATGGTA
877410 AATAAAAAAAGTAC
1 AATAAAAAAAGTAC
* *
877424 AATAAAGAAAGTCC
1 AATAAAAAAAGTAC
877438 AATAAA
1 AATAAA
877444 CAAGTAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.68, C:0.09, G:0.09, T:0.15
Consensus pattern (14 bp):
AATAAAAAAAGTAC
Found at i:878771 original size:16 final size:17
Alignment explanation
Indices: 878738--878771 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
878728 AAATCATCTT
878738 TTAAAAGAAAACATCAG
1 TTAAAAGAAAACATCAG
*
878755 TTAAAAGATAA-ATCAG
1 TTAAAAGAAAACATCAG
878771 T
1 T
878772 CTGCGTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
TTAAAAGAAAACATCAG
Found at i:880669 original size:6 final size:6
Alignment explanation
Indices: 880658--880771 Score: 119
Period size: 6 Copynumber: 19.7 Consensus size: 6
880648 ATTATTTATT
* * * *
880658 TAATAA TAATAA TAA-AA TAA-AA TATTAA TATTAA TATTAA TATTAA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
* * * * *
880704 TATTAA TATTAA TATTAA TATTAA TATTAA TAATAA TAATAA TAATAA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
880752 T-ATAA TAATAA -AATAA TAAT
1 TAATAA TAATAA TAATAA TAAT
880772 TAAAAACTGT
Statistics
Matches: 103, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
5 19 0.18
6 84 0.82
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (6 bp):
TAATAA
Found at i:881162 original size:125 final size:125
Alignment explanation
Indices: 880892--881313 Score: 523
Period size: 122 Copynumber: 3.4 Consensus size: 125
880882 TCTCTTGATT
* * ** *** *
880892 AAGACAAAAATGTTGAACAAGTTCTTCTTATTATGGTTTTGTTCTTCCTCTTCAGATGAGTTCTT
1 AAGA-AAAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTT
** * * * * *
880957 CTTATTACGAAC-ACTTTCTGGAAAT-GTTGATGCTGCTCTATATCCTTCTGCGATAGAGTC
65 CAGATTATGAACTACTGTCTGGAAATGGCT-ATGTTGCTCTATCTCCTTCTGCGATAGAGTC
*
881017 AAGTAAAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTC
1 AAGAAAAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTC
* * *
881082 AGATTATGAACTCCTGTCTGGAAATGGCTCTGTTGCTCTATCTCCTTCTGCGATAAAGTC
66 AGATTATGAACTACTGTCTGGAAATGGCTATGTTGCTCTATCTCCTTCTGCGATAGAGTC
* * * * *
881142 AAGAAAAAAGATTGATTAAGTTCTTCTGACTATGAA---CTTCTTCCTCTTCAGATGAGCTCTTC
1 AAGAAAAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTC
* *
881204 AGATTATGAACTTCTGTCTGGAAATGGCTATGTTGCTCTATCTTCTTCTGCGATAGAGTC
66 AGATTATGAACTACTGTCTGGAAATGGCTATGTTGCTCTATCTCCTTCTGCGATAGAGTC
* * *
881264 AA-ACAAAAGGTTGAATAAATTCTTTAGATTATGAACTTCTTCTTCCTCTT
1 AAGAAAAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTT
881314 TAAACAAGTT
Statistics
Matches: 256, Mismatches: 36, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
121 26 0.10
122 83 0.32
124 73 0.29
125 72 0.28
126 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.38
Consensus pattern (125 bp):
AAGAAAAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTC
AGATTATGAACTACTGTCTGGAAATGGCTATGTTGCTCTATCTCCTTCTGCGATAGAGTC
Found at i:882069 original size:176 final size:176
Alignment explanation
Indices: 881622--882351 Score: 1038
Period size: 176 Copynumber: 4.1 Consensus size: 176
881612 CAGAGGATTT
* *
881622 AAAATGAAGAAACCCCCAAAGGCTTAGTTTCTTA-ATTGTCAAGGAACCCCTTTGTTAGGCTTAG
1 AAAATCAAGAAA-CCCCGAAGGCTTAGTTTCTTAGA-TGTCAAGGAACCCCTTTGTTAGGCTTAG
* * *
881686 CTTCCTTTAACAACTCTTTTGAGATAATTA-AATAACCCCCGAAGGCCTGGTTACTAAAATCTCA
64 CTTCCTTTAACAACTCTTTTGAGATAATTAGTA-AACCCCCGAAGGCTTGGTTTCTAAAATCTCA
** * * *
881750 TTTGAAAACATCCTATACTGAAGGTCTTATGGATAGCCCGGATGACTTA
128 TTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTA
*** * * *
881799 AAAATCAAGAAACCTCCGAATATTTAGTTT-TTCAGCTGTCAATGAACACCTTTGTTAGGCTTAG
1 AAAATCAAGAAACC-CCGAAGGCTTAGTTTCTT-AGATGTCAAGGAACCCCTTTGTTAGGCTTAG
* * *
881863 CTTCCTTTAATATCTCTTTTGAGATAATTAGTAAACCCCCGAAGGATTGGTTTCTAAAATCTCAT
64 CTTCCTTTAACAACTCTTTTGAGATAATTAGTAAACCCCCGAAGGCTTGGTTTCTAAAATCTCAT
* * *
881928 TTGAAAACATCATGCACTGAAGGTCTTATAGATGGCCCGAAGGGCTT-
129 TTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTA
* *
881975 ACAATCAAGAAACCCCAGAAGGCTTAGTTTCTTAGATGTCAAGAAACCCCTTTGTTAGGCTTAGC
1 AAAATCAAGAAACCCC-GAAGGCTTAGTTTCTTAGATGTCAAGGAACCCCTTTGTTAGGCTTAGC
* * *
882040 TTCCTTTAACAACTCTTTTGAGATAATTAGGAAACCCCCGAAGGCTTAGTTTCTAAAATTTCATT
65 TTCCTTTAACAACTCTTTTGAGATAATTAGTAAACCCCCGAAGGCTTGGTTTCTAAAATCTCATT
* *
882105 TGAAAACATCCTGCACTCAAGGTCTTATGGATGACCCGAAGGACTT-
130 TGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTA
* * * *
882151 ACAATCAAGAAACCCCCGAAGGCTTAGTTTTTTAGTTGTCAAGGAACCCCTTTATTAGGCTTAGC
1 AAAATCAAGAAA-CCCCGAAGGCTTAGTTTCTTAGATGTCAAGGAACCCCTTTGTTAGGCTTAGC
*
882216 TTCCTTTAACAACTCTTTTGAGATAATTATTAAACCCCCGAAGGCTTGGTTTCTAAAATCTCATT
65 TTCCTTTAACAACTCTTTTGAGATAATTAGTAAACCCCCGAAGGCTTGGTTTCTAAAATCTCATT
*
882281 TGAAAACATCCTGCATTGAAGGTCTTATGGATGGCCCGAAGGACTTA
130 TGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTA
*
882328 AAAATCAAGAAACACCGAAGGCTT
1 AAAATCAAGAAACCCCGAAGGCTT
882352 TTAACTCGAA
Statistics
Matches: 491, Mismatches: 54, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
175 2 0.00
176 326 0.66
177 162 0.33
178 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (176 bp):
AAAATCAAGAAACCCCGAAGGCTTAGTTTCTTAGATGTCAAGGAACCCCTTTGTTAGGCTTAGCT
TCCTTTAACAACTCTTTTGAGATAATTAGTAAACCCCCGAAGGCTTGGTTTCTAAAATCTCATTT
GAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTA
Found at i:884001 original size:52 final size:51
Alignment explanation
Indices: 883915--884098 Score: 244
Period size: 52 Copynumber: 3.6 Consensus size: 51
883905 TATCCCAACC
* * * * *
883915 TTTTCATGCTGGTGTGACCCTTCAAGATGCCCCACATGGATTACTTCTGTCT
1 TTTTCATGCTGATGTGAGCCTTCAAGATGACCCACATAGATTACTTCTAT-T
* * *
883967 TTTTCCTGCTGATGTGAGCCTTTAATATGACCCACATAGATTACTTCTATTT
1 TTTTCATGCTGATGTGAGCCTTCAAGATGACCCACATAGATTACTTCTA-TT
* *
884019 TTTTCATGCTGATGTGAGCCTTCAAGAT-ACCCCATATAGATTACTTCTATA
1 TTTTCATGCTGATGTGAGCCTTCAAGATGA-CCCACATAGATTACTTCTATT
884070 TTTTCATGCTGATGTGAGCCTTCAAGATG
1 TTTTCATGCTGATGTGAGCCTTCAAGATG
884099 CCCCGCATGG
Statistics
Matches: 116, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
51 30 0.26
52 85 0.73
53 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (51 bp):
TTTTCATGCTGATGTGAGCCTTCAAGATGACCCACATAGATTACTTCTATT
Found at i:885515 original size:23 final size:22
Alignment explanation
Indices: 885489--885557 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 22
885479 TCTTGATTCA
885489 ATTTCTTTTTTTTTTTCTTTTTC
1 ATTT-TTTTTTTTTTTCTTTTTC
**
885512 ATTTTTTTCATTTTTCATTTTTC
1 ATTTTTTTTTTTTTTC-TTTTTC
885535 ATTTTTTCTTTTTTTTTCTTTTT
1 A-TTTTT-TTTTTTTTTCTTTTT
885558 TTATGATGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
22 10 0.26
23 11 0.28
24 10 0.26
25 8 0.21
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (22 bp):
ATTTTTTTTTTTTTTCTTTTTC
Found at i:885518 original size:9 final size:8
Alignment explanation
Indices: 885506--885548 Score: 56
Period size: 7 Copynumber: 5.6 Consensus size: 8
885496 TTTTTTTTTC
885506 TTTTTCATT
1 TTTTTCA-T
885515 TTTTTCA-
1 TTTTTCAT
885522 TTTTTCA-
1 TTTTTCAT
885529 TTTTTCAT
1 TTTTTCAT
885537 TTTTTC-T
1 TTTTTCAT
885544 TTTTT
1 TTTTT
885549 TTTCTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 20 0.61
8 6 0.18
9 7 0.21
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTCAT
Found at i:885518 original size:16 final size:16
Alignment explanation
Indices: 885497--885557 Score: 72
Period size: 15 Copynumber: 3.9 Consensus size: 16
885487 CAATTTCTTT
885497 TTTTTTTTCTTTTTCA
1 TTTTTTTTCTTTTTCA
885513 -TTTTTTTCATTTTTCA
1 TTTTTTTTC-TTTTTCA
** *
885529 TTTTTCAT-TTTTTCT
1 TTTTTTTTCTTTTTCA
885544 TTTTTTTTCTTTTT
1 TTTTTTTTCTTTTT
885558 TTATGATGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
15 20 0.54
16 12 0.32
17 5 0.14
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTTTCTTTTTCA
Found at i:885534 original size:14 final size:15
Alignment explanation
Indices: 885499--885540 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
885489 ATTTCTTTTT
885499 TTTTTTC-TTTTTCA
1 TTTTTTCATTTTTCA
885513 TTTTTTTCATTTTTCA
1 -TTTTTTCATTTTTCA
885529 -TTTTTCATTTTT
1 TTTTTTCATTTTT
885541 TCTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.46
15 7 0.27
16 7 0.27
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTCATTTTTCA
Found at i:885558 original size:7 final size:7
Alignment explanation
Indices: 885490--885548 Score: 52
Period size: 7 Copynumber: 8.4 Consensus size: 7
885480 CTTGATTCAA
885490 TTTC-TT
1 TTTCTTT
885496 TTT-TTT
1 TTTCTTT
885502 TTTC-TT
1 TTTCTTT
885508 TTTCATTTT
1 TTTC--TTT
*
885517 TTTCATT
1 TTTCTTT
*
885524 TTTCATT
1 TTTCTTT
885531 TTTCATTT
1 TTTC-TTT
885539 TTTCTTT
1 TTTCTTT
885546 TTT
1 TTT
885549 TTTCTTTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
6 14 0.31
7 19 0.42
8 6 0.13
9 6 0.13
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTCTTT
Found at i:887627 original size:20 final size:21
Alignment explanation
Indices: 887595--887633 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
887585 CATCAGACAA
887595 TATCATTTCGAA-CTCATTAT
1 TATCATTTCGAACCTCATTAT
887615 TATCA-TTCAGAACCTCATT
1 TATCATTTC-GAACCTCATT
887634 CATAGCCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 8 0.47
21 6 0.35
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (21 bp):
TATCATTTCGAACCTCATTAT
Found at i:888042 original size:14 final size:14
Alignment explanation
Indices: 888010--888036 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
888000 AGAAACGTAA
888010 AAATGCAAAGATGC
1 AAATGCAAAGATGC
888024 AAATGCAAAGATG
1 AAATGCAAAGATG
888037 TGAATGTAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.11, G:0.22, T:0.15
Consensus pattern (14 bp):
AAATGCAAAGATGC
Found at i:888140 original size:6 final size:7
Alignment explanation
Indices: 888124--888163 Score: 57
Period size: 6 Copynumber: 5.9 Consensus size: 7
888114 TAAAAGTATG
888124 AATGCAA
1 AATGCAA
888131 AATG-AA
1 AATGCAA
888137 AATGCAA
1 AATGCAA
888144 AGATGCAA
1 A-ATGCAA
888152 AATGC-A
1 AATGCAA
888158 AATGCA
1 AATGCA
888164 TGTATAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
6 12 0.40
7 11 0.37
8 7 0.23
ACGTcount: A:0.55, C:0.12, G:0.17, T:0.15
Consensus pattern (7 bp):
AATGCAA
Found at i:892556 original size:3 final size:3
Alignment explanation
Indices: 892550--892616 Score: 86
Period size: 3 Copynumber: 23.3 Consensus size: 3
892540 TATTATTTAT
* *
892550 TAA TAA TAA TAA TAA -AA TAA TAA TAT TAA TAT TAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
892596 TAA TAA TTA -AA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA T
892617 TAAAAACCAT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 5 0.09
3 50 0.91
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:892570 original size:14 final size:14
Alignment explanation
Indices: 892551--892621 Score: 83
Period size: 14 Copynumber: 5.1 Consensus size: 14
892541 ATTATTTATT
892551 AATAATAATAATAA
1 AATAATAATAATAA
*
892565 AATAATAAT-AT-T
1 AATAATAATAATAA
* *
892577 AATATTAATAATAT
1 AATAATAATAATAA
*
892591 AATAATAATAATTA
1 AATAATAATAATAA
892605 AATAATAATAATTAA
1 AATAATAATAA-TAA
892620 AA
1 AA
892622 ACCATAAACA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
12 8 0.17
13 4 0.08
14 32 0.67
15 4 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AATAATAATAATAA
Found at i:894806 original size:21 final size:21
Alignment explanation
Indices: 894709--894807 Score: 96
Period size: 21 Copynumber: 4.8 Consensus size: 21
894699 CTAAAACATG
*
894709 AACCTTAAA-CCTAAA-TGTA
1 AACCTTAAACCCTAAACTATA
894728 AA-CTTAAAACCCTAAACTATA
1 AACCTT-AAACCCTAAACTATA
* * *
894749 AACCTTAAATCTTAAACCATA
1 AACCTTAAACCCTAAACTATA
* ***
894770 AACTTTAAATAATAAACTATA
1 AACCTTAAACCCTAAACTATA
894791 AACCTTAAACCCTAAAC
1 AACCTTAAACCCTAAAC
894808 CCTAAACATG
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
18 3 0.05
19 5 0.08
20 6 0.09
21 47 0.73
22 3 0.05
ACGTcount: A:0.51, C:0.22, G:0.01, T:0.26
Consensus pattern (21 bp):
AACCTTAAACCCTAAACTATA
Found at i:894813 original size:21 final size:21
Alignment explanation
Indices: 894698--894814 Score: 87
Period size: 21 Copynumber: 5.7 Consensus size: 21
894688 AGGCCTAAGG
* *
894698 CCTAAAACATGAACCTTAAA-
1 CCTAAACCATAAACCTTAAAC
**
894718 CCTAAA-TGTAAA-CTTAAAAC
1 CCTAAACCATAAACCTT-AAAC
* *
894738 CCTAAACTATAAACCTTAAAT
1 CCTAAACCATAAACCTTAAAC
* * *
894759 CTTAAACCATAAACTTTAAAT
1 CCTAAACCATAAACCTTAAAC
** *
894780 AATAAACTATAAACCTTAAAC
1 CCTAAACCATAAACCTTAAAC
*
894801 CCTAAACCCTAAAC
1 CCTAAACCATAAAC
894815 ATGAACTTTA
Statistics
Matches: 76, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
18 3 0.04
19 6 0.08
20 12 0.16
21 52 0.68
22 3 0.04
ACGTcount: A:0.50, C:0.24, G:0.02, T:0.25
Consensus pattern (21 bp):
CCTAAACCATAAACCTTAAAC
Found at i:894836 original size:35 final size:35
Alignment explanation
Indices: 894734--894876 Score: 139
Period size: 35 Copynumber: 4.1 Consensus size: 35
894724 TGTAAACTTA
* *
894734 AAACCCTAAACTATAAACCTTAAAT-CTTAAACCAT
1 AAACCCTAAAC-ATAAACTTTAAATCCTTAAACCCT
** * *
894769 AAACTTTAAATAATAAACTATAAA-CCTTAAACCCT
1 AAACCCTAAA-CATAAACTTTAAATCCTTAAACCCT
* *
894804 AAACCCTAAACATGAACTTTAAATCCTAAAACCCT
1 AAACCCTAAACATAAACTTTAAATCCTTAAACCCT
* * *
894839 AAACCCTAAACCCTAAACTATAAAT-ATTAAACCCT
1 AAACCCTAAA-CATAAACTTTAAATCCTTAAACCCT
894874 AAA
1 AAA
894877 TAGTGATTAA
Statistics
Matches: 87, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
34 10 0.11
35 66 0.76
36 11 0.13
ACGTcount: A:0.50, C:0.25, G:0.01, T:0.24
Consensus pattern (35 bp):
AAACCCTAAACATAAACTTTAAATCCTTAAACCCT
Found at i:894862 original size:14 final size:14
Alignment explanation
Indices: 894734--894862 Score: 84
Period size: 14 Copynumber: 9.2 Consensus size: 14
894724 TGTAAACTTA
894734 AAACCCTAAACTAT
1 AAACCCTAAACTAT
*
894748 AAACCTTAAATCT-T
1 AAACCCTAAA-CTAT
* *
894762 AAACCATAAACTTT
1 AAACCCTAAACTAT
***
894776 AAATAATAAACTAT
1 AAACCCTAAACTAT
* **
894790 AAACCTTAAACCCT
1 AAACCCTAAACTAT
894804 AAACCCTAAAC-AT
1 AAACCCTAAACTAT
* **
894817 GAACTTTAAATCCTA-
1 AAACCCTAAA--CTAT
**
894832 AAACCCTAAACCCT
1 AAACCCTAAACTAT
894846 AAACCCTAAACTAT
1 AAACCCTAAACTAT
894860 AAA
1 AAA
894863 TATTAAACCC
Statistics
Matches: 87, Mismatches: 22, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
13 11 0.13
14 65 0.75
15 10 0.11
16 1 0.01
ACGTcount: A:0.50, C:0.26, G:0.01, T:0.24
Consensus pattern (14 bp):
AAACCCTAAACTAT
Found at i:894876 original size:7 final size:7
Alignment explanation
Indices: 894643--894856 Score: 76
Period size: 7 Copynumber: 30.7 Consensus size: 7
894633 TCATTTTCAT
894643 TAAACCC
1 TAAACCC
894650 TAAACCC
1 TAAACCC
*
894657 TAAACCT
1 TAAACCC
* *
894664 TAAATCA
1 TAAACCC
894671 TAAAACCC
1 T-AAACCC
894679 TAAACCC
1 TAAACCC
**
894686 TAAGGCC
1 TAAACCC
**
894693 TAAGGCC
1 TAAACCC
* *
894700 TAAAACA
1 TAAACCC
* *
894707 TGAACCT
1 TAAACCC
894714 TAAA-CC
1 TAAACCC
**
894720 TAAA-TG
1 TAAACCC
*
894726 TAAA-CT
1 TAAACCC
894732 TAAAACCC
1 T-AAACCC
**
894740 TAAACTA
1 TAAACCC
*
894747 TAAACCT
1 TAAACCC
* *
894754 TAAATCT
1 TAAACCC
*
894761 TAAACCA
1 TAAACCC
**
894768 TAAACTT
1 TAAACCC
***
894775 TAAATAA
1 TAAACCC
**
894782 TAAACTA
1 TAAACCC
*
894789 TAAACCT
1 TAAACCC
894796 TAAACCC
1 TAAACCC
894803 TAAACCC
1 TAAACCC
*
894810 TAAA-CA
1 TAAACCC
* **
894816 TGAACTT
1 TAAACCC
*
894823 TAAATCC
1 TAAACCC
894830 TAAAACCC
1 T-AAACCC
894838 TAAACCC
1 TAAACCC
894845 TAAACCC
1 TAAACCC
894852 TAAAC
1 TAAAC
894857 TATAAATATT
Statistics
Matches: 156, Mismatches: 46, Indels: 10
0.74 0.22 0.05
Matches are distributed among these distances:
6 14 0.09
7 129 0.83
8 13 0.08
ACGTcount: A:0.47, C:0.27, G:0.03, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:895619 original size:3 final size:3
Alignment explanation
Indices: 895611--895685 Score: 141
Period size: 3 Copynumber: 25.0 Consensus size: 3
895601 TGTATTTTCC
895611 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
895659 TAT TAA TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
895686 CAAAATGTGA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:896999 original size:11 final size:11
Alignment explanation
Indices: 896983--897115 Score: 113
Period size: 11 Copynumber: 11.6 Consensus size: 11
896973 GAGTTCGAGT
*
896983 TCGAGCTTGAA
1 TCGAGCTTAAA
*
896994 TCGAGCTCAAA
1 TCGAGCTTAAA
*
897005 TTCGAGCTTGAA
1 -TCGAGCTTAAA
*
897017 TCGAGCTCAAA
1 TCGAGCTTAAA
*
897028 TTCGAGCTTGAA
1 -TCGAGCTTAAA
*
897040 TCGAGCTCAAA
1 TCGAGCTTAAA
*
897051 TTCGAGCTTGAA
1 -TCGAGCTTAAA
897063 TCGAGCTTAAAA
1 TCGAGCTT-AAA
* *
897075 TTGAGCTTCAA
1 TCGAGCTTAAA
* *
897086 TTGAGCTCAAAA
1 TCGAGCT-TAAA
*
897098 TCGAGCTTCAA
1 TCGAGCTTAAA
897109 TCGAGCT
1 TCGAGCT
897116 CGAGTCTCGA
Statistics
Matches: 97, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
11 53 0.55
12 44 0.45
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (11 bp):
TCGAGCTTAAA
Found at i:897008 original size:23 final size:23
Alignment explanation
Indices: 896982--897139 Score: 219
Period size: 23 Copynumber: 6.8 Consensus size: 23
896972 CGAGTTCGAG
896982 TTCGAGCTTGAATCGAGCTCAAA
1 TTCGAGCTTGAATCGAGCTCAAA
897005 TTCGAGCTTGAATCGAGCTCAAA
1 TTCGAGCTTGAATCGAGCTCAAA
897028 TTCGAGCTTGAATCGAGCTCAAA
1 TTCGAGCTTGAATCGAGCTCAAA
*
897051 TTCGAGCTTGAATCGAGCTTAAAA
1 TTCGAGCTTGAATCGAGC-TCAAA
* *
897075 TT-GAGCTTCAATTGAGCTCAAA
1 TTCGAGCTTGAATCGAGCTCAAA
* * * *
897097 ATCGAGCTTCAATCGAGCTCGAG
1 TTCGAGCTTGAATCGAGCTCAAA
*
897120 TCTCGAGCTTCAATCGAGCT
1 T-TCGAGCTTGAATCGAGCT
897140 ACTGAATTTT
Statistics
Matches: 123, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
22 5 0.04
23 94 0.76
24 24 0.20
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
TTCGAGCTTGAATCGAGCTCAAA
Found at i:897138 original size:11 final size:11
Alignment explanation
Indices: 896983--897139 Score: 99
Period size: 11 Copynumber: 13.6 Consensus size: 11
896973 GAGTTCGAGT
*
896983 TCGAGCTTGAA
1 TCGAGCTTCAA
896994 TCGAGC-TCAAA
1 TCGAGCTTC-AA
*
897005 TTCGAGCTTGAA
1 -TCGAGCTTCAA
897017 TCGAGC-TCAAA
1 TCGAGCTTC-AA
*
897028 TTCGAGCTTGAA
1 -TCGAGCTTCAA
897040 TCGAGC-TCAAA
1 TCGAGCTTC-AA
*
897051 TTCGAGCTTGAA
1 -TCGAGCTTCAA
*
897063 TCGAGCTTAAAA
1 TCGAGCTT-CAA
*
897075 TTGAGCTTCAA
1 TCGAGCTTCAA
*
897086 TTGAGC-TCAAAA
1 TCGAGCTTC--AA
897098 TCGAGCTTCAA
1 TCGAGCTTCAA
*
897109 TCGAGC-TCGAGTC
1 TCGAGCTTC-A--A
897122 TCGAGCTTCAA
1 TCGAGCTTCAA
897133 TCGAGCT
1 TCGAGCT
897140 ACTGAATTTT
Statistics
Matches: 117, Mismatches: 12, Indels: 34
0.72 0.07 0.21
Matches are distributed among these distances:
10 7 0.06
11 56 0.48
12 40 0.34
13 12 0.10
14 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (11 bp):
TCGAGCTTCAA
Found at i:897564 original size:13 final size:13
Alignment explanation
Indices: 897546--897571 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
897536 ATAAACTAAT
897546 AATAAATAAATTA
1 AATAAATAAATTA
897559 AATAAATAAATTA
1 AATAAATAAATTA
897572 TTACTAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATAAATAAATTA
Found at i:897725 original size:29 final size:31
Alignment explanation
Indices: 897692--897753 Score: 110
Period size: 29 Copynumber: 2.1 Consensus size: 31
897682 GCAAAAAAAT
897692 TAATTAAATAAAATACTAA-AAAAT-TTAAA
1 TAATTAAATAAAATACTAACAAAATATTAAA
897721 TAATTAAATAAAATACTAACAAAATATTAAA
1 TAATTAAATAAAATACTAACAAAATATTAAA
897752 TA
1 TA
897754 GAATAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 19 0.61
30 5 0.16
31 7 0.23
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.31
Consensus pattern (31 bp):
TAATTAAATAAAATACTAACAAAATATTAAA
Found at i:897729 original size:24 final size:25
Alignment explanation
Indices: 897684--897763 Score: 79
Period size: 29 Copynumber: 2.9 Consensus size: 25
897674 TTATAACTGC
*
897684 AAAAAAATTAATTAAATAAAATACT
1 AAAAAAATTAAATAAATAAAATACT
*
897709 AAAAAATTTAAATAATTAAATAAAATACT
1 AAAAAAATT--A-AA-TAAATAAAATACT
897738 AACAAAATATTAAATAGAATAAAATA
1 AA-AAAA-ATTAAATA-AATAAAATA
897764 TACCTTATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
25 8 0.18
27 3 0.07
28 12 0.27
29 16 0.36
30 4 0.09
31 2 0.04
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.28
Consensus pattern (25 bp):
AAAAAAATTAAATAAATAAAATACT
Found at i:898077 original size:51 final size:51
Alignment explanation
Indices: 898016--898120 Score: 149
Period size: 51 Copynumber: 2.1 Consensus size: 51
898006 CCCATGCACA
* *
898016 GCGCCTTA-CCCAGCGTGATGCCACATCAGCGTAAGGCACGGTGCGTGGGCC
1 GCGCCATACCCCA-CGTGATGCCACATCAGCGTAAGGCACGGTGCATGGGCC
* * *
898067 GCGCCATACCCCACGTGGTGCCACATCAGCGTAAGGCGCGGTGTATGGGCC
1 GCGCCATACCCCACGTGATGCCACATCAGCGTAAGGCACGGTGCATGGGCC
898118 GCG
1 GCG
898121 TCTTTCTGCA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
51 44 0.92
52 4 0.08
ACGTcount: A:0.17, C:0.33, G:0.34, T:0.15
Consensus pattern (51 bp):
GCGCCATACCCCACGTGATGCCACATCAGCGTAAGGCACGGTGCATGGGCC
Found at i:898443 original size:60 final size:60
Alignment explanation
Indices: 898373--898498 Score: 148
Period size: 60 Copynumber: 2.1 Consensus size: 60
898363 CCTTTATTTC
* * * **
898373 AAATTGGTCCTTAAA-CTTTAAAATATTTTAATTTTATCCATAAACTATG-GTTATCATTCT
1 AAATTAGTCCTCAAATCTTTAAAA-ATTTTAATTTTATCCACAAACTATGACAT-TCATTCT
* * *
898433 AAATTAGTCCTCAAATTTTTGAAAATTTTAATTTTATCCCCAAACTATGACATTCATTCT
1 AAATTAGTCCTCAAATCTTTAAAAATTTTAATTTTATCCACAAACTATGACATTCATTCT
898493 AAATTA
1 AAATTA
898499 ATGCCCCTAC
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
60 49 0.88
61 7 0.12
ACGTcount: A:0.37, C:0.15, G:0.06, T:0.43
Consensus pattern (60 bp):
AAATTAGTCCTCAAATCTTTAAAAATTTTAATTTTATCCACAAACTATGACATTCATTCT
Found at i:898535 original size:60 final size:60
Alignment explanation
Indices: 898426--898539 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 60
898416 ACTATGGTTA
* * * **
898426 TCATTCTAAATTAGTCCTCAAATTTTTGAAAATTTTAATTTTATCCCCAAACTATGACAT
1 TCATTCTAAATTAATCCCCAAATTTTTGAAAATTTCAATTCCATCCCCAAACTATGACAT
* * *
898486 TCATTCTAAATTAATGCCCCTACTTTTTGAACATTTCAATTCCAT-CCCAAACTA
1 TCATTCTAAATTAAT-CCCCAAATTTTTGAAAATTTCAATTCCATCCCCAAACTA
898540 CATGTATATA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
60 23 0.51
61 22 0.49
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.39
Consensus pattern (60 bp):
TCATTCTAAATTAATCCCCAAATTTTTGAAAATTTCAATTCCATCCCCAAACTATGACAT
Found at i:898786 original size:60 final size:60
Alignment explanation
Indices: 898660--898814 Score: 145
Period size: 60 Copynumber: 2.6 Consensus size: 60
898650 TATTTGGATG
* * ** *
898660 AATTTAGGGATGAAATTGGAATATTCCAAAGTTTAGGGACTAATTTAGAAAAAGGTTCAT
1 AATTTAGGGATTAAATTAGAATATTTAAAAGTTTAAGGACTAATTTAGAAAAAGGTTCAT
* * * * * ** *
898720 AGTTTAGGGATTAAATTTGAATGTTTAAAAGTTTAAGGATTGATTTAGAATGAGAG-TCTT
1 AATTTAGGGATTAAATTAGAATATTTAAAAGTTTAAGGACTAATTTAGAAAAAG-GTTCAT
*
898780 AATTTAGGG-TTGAAATTAAAATATTTAAAA-TTTAA
1 AATTTAGGGATT-AAATTAGAATATTTAAAAGTTTAA
898815 AGAACCAATT
Statistics
Matches: 77, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
59 7 0.09
60 69 0.90
61 1 0.01
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.37
Consensus pattern (60 bp):
AATTTAGGGATTAAATTAGAATATTTAAAAGTTTAAGGACTAATTTAGAAAAAGGTTCAT
Found at i:899744 original size:17 final size:17
Alignment explanation
Indices: 899722--899756 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
899712 TATCTCAATA
899722 TTTTATTAA-TATTATTT
1 TTTTATTAAGTATT-TTT
899739 TTTTATTAAGTATTTTT
1 TTTTATTAAGTATTTTT
899756 T
1 T
899757 ACTATATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTATTAAGTATTTTT
Found at i:900048 original size:18 final size:18
Alignment explanation
Indices: 900025--900075 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
900015 TCCAAGTAAT
900025 TATTTATTTTATTAATTA
1 TATTTATTTTATTAATTA
* *
900043 TATTTAAATTT-TTATTTA
1 TATTT-ATTTTATTAATTA
* *
900061 TGTTTATTTAATTAA
1 TATTTATTTTATTAA
900076 GGGTGAGTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
17 3 0.12
18 18 0.72
19 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TATTTATTTTATTAATTA
Found at i:900245 original size:7 final size:7
Alignment explanation
Indices: 900233--900257 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
900223 TAAAAAAATA
900233 ATTTTAT
1 ATTTTAT
900240 ATTTTAT
1 ATTTTAT
900247 ATTTTAT
1 ATTTTAT
900254 ATTT
1 ATTT
900258 GTGACTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTTAT
Found at i:908312 original size:41 final size:41
Alignment explanation
Indices: 908269--908598 Score: 297
Period size: 41 Copynumber: 8.0 Consensus size: 41
908259 TTTTTTGAAC
* * ** *
908269 AAACACCGCAAAAGACTCTTACTTTAGTGGTGTTTGTATACAA
1 AAACGCCGCTAAAGACTCAGACTTTAGTGGCGTTTGTAT--AA
* * *
908312 ACGAACGCTGCTAAAGACTCAGACTTTTGTGGTGTTTGTATAA
1 A--AACGCCGCTAAAGACTCAGACTTTAGTGGCGTTTGTATAA
* * *
908355 AAATGCAGCTAAAGACTCAGACTTTCGTGGCGTTTGTATAA
1 AAACGCCGCTAAAGACTCAGACTTTAGTGGCGTTTGTATAA
* * *
908396 AAATGCAGCTAAAGACTCAGACTTTCGTGGCGTTTGTATAA
1 AAACGCCGCTAAAGACTCAGACTTTAGTGGCGTTTGTATAA
* * * * *
908437 AAATGCAGCTAAAGACTCAGACTTTCGTGGCATTTATATAA
1 AAACGCCGCTAAAGACTCAGACTTTAGTGGCGTTTGTATAA
* * *
908478 AAACGCCGCTAAAGACAC-GTA-TTGCAGTGGCGTTTTTATAA
1 AAACGCCGCTAAAGACTCAG-ACTT-TAGTGGCGTTTGTATAA
* ** * * * * * *
908519 AAACGTCAATATATACTCATACTTTAGTGGCATTTTTATAC
1 AAACGCCGCTAAAGACTCAGACTTTAGTGGCGTTTGTATAA
908560 AAACGCCGCTAAAGACTC-GTACTTTAGTGGCGTTTGTAT
1 AAACGCCGCTAAAGACTCAG-ACTTTAGTGGCGTTTGTAT
908599 TTACAAAAGC
Statistics
Matches: 243, Mismatches: 37, Indels: 16
0.82 0.12 0.05
Matches are distributed among these distances:
40 3 0.01
41 202 0.83
42 2 0.01
43 4 0.02
45 32 0.13
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (41 bp):
AAACGCCGCTAAAGACTCAGACTTTAGTGGCGTTTGTATAA
Found at i:908329 original size:45 final size:41
Alignment explanation
Indices: 908321--908598 Score: 303
Period size: 41 Copynumber: 6.8 Consensus size: 41
908311 AACGAACGCT
* *
908321 GCTAAAGACTCAGACTTTTGTGGTGTTTGTATAAAAATGCA
1 GCTAAAGACTCAGACTTTCGTGGCGTTTGTATAAAAATGCA
908362 GCTAAAGACTCAGACTTTCGTGGCGTTTGTATAAAAATGCA
1 GCTAAAGACTCAGACTTTCGTGGCGTTTGTATAAAAATGCA
908403 GCTAAAGACTCAGACTTTCGTGGCGTTTGTATAAAAATGCA
1 GCTAAAGACTCAGACTTTCGTGGCGTTTGTATAAAAATGCA
* * * *
908444 GCTAAAGACTCAGACTTTCGTGGCATTTATATAAAAACGCC
1 GCTAAAGACTCAGACTTTCGTGGCGTTTGTATAAAAATGCA
* * * *
908485 GCTAAAGACAC-GTA-TTGCAGTGGCGTTTTTATAAAAACGTCA
1 GCTAAAGACTCAG-ACTTTC-GTGGCGTTTGTATAAAAATG-CA
* * * * * * * * * *
908527 -ATATATACTCATACTTTAGTGGCATTTTTATACAAACGCC
1 GCTAAAGACTCAGACTTTCGTGGCGTTTGTATAAAAATGCA
*
908567 GCTAAAGACTC-GTACTTTAGTGGCGTTTGTAT
1 GCTAAAGACTCAG-ACTTTCGTGGCGTTTGTAT
908599 TTACAAAAGC
Statistics
Matches: 203, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
40 5 0.02
41 195 0.96
42 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (41 bp):
GCTAAAGACTCAGACTTTCGTGGCGTTTGTATAAAAATGCA
Found at i:909633 original size:27 final size:27
Alignment explanation
Indices: 909603--909661 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
909593 GTAATTTATC
* *
909603 TTAA-ATTTAATGATTAATTGGTGTAGT
1 TTAATATTTAATGAAT-AGTGGTGTAGT
* *
909630 TTAATTTTTTATGAATAGTGGTGTAGT
1 TTAATATTTAATGAATAGTGGTGTAGT
909657 TTAAT
1 TTAAT
909662 CTTAAAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.51
Consensus pattern (27 bp):
TTAATATTTAATGAATAGTGGTGTAGT
Found at i:911258 original size:18 final size:18
Alignment explanation
Indices: 911237--911283 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
911227 CGATGGCGAA
*
911237 GATGAAGATGAAGATGAT
1 GATGAAGATGAAGATGAG
*
911255 GATGGAA-ATGGAGATGAG
1 GAT-GAAGATGAAGATGAG
*
911273 GATGGAGATGA
1 GATGAAGATGA
911284 CAAAGAAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
17 2 0.09
18 18 0.78
19 3 0.13
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.19
Consensus pattern (18 bp):
GATGAAGATGAAGATGAG
Found at i:913555 original size:13 final size:13
Alignment explanation
Indices: 913539--913573 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
913529 TCAATGCGCA
913539 TCATAAATGAGTG
1 TCATAAATGAGTG
*
913552 TCATAAATGTGTG
1 TCATAAATGAGTG
913565 TCATAAATG
1 TCATAAATG
913574 CACGTCATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (13 bp):
TCATAAATGAGTG
Found at i:915324 original size:29 final size:29
Alignment explanation
Indices: 915282--915345 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
915272 ATTGAACCAA
* *
915282 AATTTATTTTAAAATTATTAACCGAACTG
1 AATTAATTTTAAAATTATTAACCGAACCG
* *
915311 AATTAATTTTAAAATTATTAAGCTAACCG
1 AATTAATTTTAAAATTATTAACCGAACCG
915340 AATTAA
1 AATTAA
915346 CCGAATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (29 bp):
AATTAATTTTAAAATTATTAACCGAACCG
Found at i:915484 original size:107 final size:111
Alignment explanation
Indices: 915311--915565 Score: 347
Period size: 107 Copynumber: 2.3 Consensus size: 111
915301 AACCGAACTG
* * * *
915311 AATTAATTTTAAAATTATTAAGCTAACCGAATTAACCGAATTTTTATTGAAAATTATTAATTGAA
1 AATTAATTTGAAAATTATTAATCGAACCGAATTAACCGAATGTTTATT--AAATTATTAATTGAA
** * * *
915376 TTAATTGAAGCAAAAATTCGGTTAAATCGGTTCGGTTAATCAAACCAA
64 TTAATCAAAGAAAAAATTCGGTTAAATCGGCTCGGTTAATAAAACCAA
*
915424 AATTAATTTGAAAATTATTAATCGAACCAAATTAACC-AA-GTTT-TT-AATTATTAATTGAATT
1 AATTAATTTGAAAATTATTAATCGAACCGAATTAACCGAATGTTTATTAAATTATTAATTGAATT
* *
915485 AATCAAAGAAAAAATTTGGTTAATTCGGCTCGGTTAATAAAACCAA
66 AATCAAAGAAAAAATTCGGTTAAATCGGCTCGGTTAATAAAACCAA
*
915531 AATTTATTTGAAAATTATTAATCGAACCGAATTAA
1 AATTAATTTGAAAATTATTAATCGAACCGAATTAA
915566 TTTGAAAATT
Statistics
Matches: 128, Mismatches: 14, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
107 88 0.69
110 2 0.02
111 3 0.02
112 2 0.02
113 33 0.26
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (111 bp):
AATTAATTTGAAAATTATTAATCGAACCGAATTAACCGAATGTTTATTAAATTATTAATTGAATT
AATCAAAGAAAAAATTCGGTTAAATCGGCTCGGTTAATAAAACCAA
Found at i:915552 original size:30 final size:29
Alignment explanation
Indices: 915518--915594 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
915508 TTCGGCTCGG
*
915518 TTAATAAAACCAAAATTTATTTGAAAATTA
1 TTAATAAAACC-AAATTAATTTGAAAATTA
** *
915548 TTAATCGAACCGAATTAATTTGAAAATTA
1 TTAATAAAACCAAATTAATTTGAAAATTA
** *
915577 TTAACCAAACCGAATTAA
1 TTAATAAAACCAAATTAA
915595 CCGATTTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 32 0.78
30 9 0.22
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.32
Consensus pattern (29 bp):
TTAATAAAACCAAATTAATTTGAAAATTA
Found at i:915568 original size:29 final size:29
Alignment explanation
Indices: 915531--915594 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
915521 ATAAAACCAA
* * *
915531 AATTTATTTGAAAATTATTAATCGAACCG
1 AATTAATTTGAAAATTATTAACCAAACCG
915560 AATTAATTTGAAAATTATTAACCAAACCG
1 AATTAATTTGAAAATTATTAACCAAACCG
915589 AATTAA
1 AATTAA
915595 CCGATTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (29 bp):
AATTAATTTGAAAATTATTAACCAAACCG
Found at i:915593 original size:136 final size:136
Alignment explanation
Indices: 915418--915740 Score: 486
Period size: 136 Copynumber: 2.4 Consensus size: 136
915408 CGGTTAATCA
* * *
915418 AACCAAAATTAATTTGAAAATTATTAATCGAACCAAATTAACCAAGTTTTTAATTATTAAT-TGA
1 AACC-AAATTAATTTGAAAATTATTAACCGAACCGAATTAACCAATTTTTTAATTATTAATAT-A
* **
915482 ATTAATCAAAGAAAAAATTTGGTTAATTCGGCTCGGTTAATAAAACCAAAATTTATTTGAAAATT
64 ATTAATCAAAGAAAAAAATCAGTTAATTCGGCTCGGTTAATAAAACCAAAATTTATTTGAAAATT
*
915547 ATTAATCG
129 ATTAACCG
* * *
915555 AACCGAATTAATTTGAAAATTATTAACCAAACCGAATTAACCGATTTTTTAATTATTAATATAAT
1 AACCAAATTAATTTGAAAATTATTAACCGAACCGAATTAACCAATTTTTTAATTATTAATATAAT
* * * **
915620 TAATCGAAGAAAAAAATCAGTTAATTTGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTAT
66 TAATCAAAGAAAAAAATCAGTTAATTCGGCTCGGTTAATAAAACCAAAATTTATTTGAAAATTAT
915685 TAACCG
131 TAACCG
915691 AACCAAATTAATTTGAAAATTATTAACCGAACCGAATTAACCAATTTTTT
1 AACCAAATTAATTTGAAAATTATTAACCGAACCGAATTAACCAATTTTTT
915741 CTTTAACCAT
Statistics
Matches: 167, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
136 162 0.97
137 5 0.03
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (136 bp):
AACCAAATTAATTTGAAAATTATTAACCGAACCGAATTAACCAATTTTTTAATTATTAATATAAT
TAATCAAAGAAAAAAATCAGTTAATTCGGCTCGGTTAATAAAACCAAAATTTATTTGAAAATTAT
TAACCG
Found at i:915698 original size:29 final size:29
Alignment explanation
Indices: 915654--915730 Score: 118
Period size: 29 Copynumber: 2.6 Consensus size: 29
915644 TTTGGTTCGG
* *
915654 TTAATCGAACCAAAATTTATTTGAAAATTA
1 TTAACCGAACC-AAATTAATTTGAAAATTA
915684 TTAACCGAACCAAATTAATTTGAAAATTA
1 TTAACCGAACCAAATTAATTTGAAAATTA
*
915713 TTAACCGAACCGAATTAA
1 TTAACCGAACCAAATTAA
915731 CCAATTTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 34 0.77
30 10 0.23
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.31
Consensus pattern (29 bp):
TTAACCGAACCAAATTAATTTGAAAATTA
Found at i:915928 original size:16 final size:15
Alignment explanation
Indices: 915903--915935 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
915893 TACAATTAAT
915903 TTAAATAATAATTTG
1 TTAAATAATAATTTG
915918 TTAAATAAATAATTTG
1 TTAAAT-AATAATTTG
915934 TT
1 TT
915936 TAATTTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
TTAAATAATAATTTG
Found at i:918015 original size:2 final size:2
Alignment explanation
Indices: 917997--918038 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
917987 TTTTAAGAAA
*
917997 AT AT AT -T A- AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
918037 AT
1 AT
918039 TTTATAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:918437 original size:21 final size:21
Alignment explanation
Indices: 918409--918458 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
918399 ACTATGTAAT
918409 AATA-ATAACA-ATAATAATTA
1 AATATATAACATATAA-AATTA
918429 AATATATAAACATATAAAATTA
1 AATATAT-AACATATAAAATTA
918451 AA-ATATAA
1 AATATATAA
918459 ATAAACAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 6 0.22
21 6 0.22
22 11 0.41
23 4 0.15
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (21 bp):
AATATATAACATATAAAATTA
Found at i:918459 original size:21 final size:22
Alignment explanation
Indices: 918415--918459 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
918405 TAATAATAAT
918415 AACAATAATAATTAAATATATA
1 AACAATAATAATTAAATATATA
918437 AACATATAA-AATTAAA-ATATA
1 AACA-ATAATAATTAAATATATA
918458 AA
1 AA
918460 TAAACAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (22 bp):
AACAATAATAATTAAATATATA
Found at i:919820 original size:42 final size:41
Alignment explanation
Indices: 919731--919820 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 41
919721 CCTAAAATGT
* *
919731 AAAAAATAATAATATTAATAAATAATATAATATACTACTAA
1 AAAAAATAATAATATAAATAAATAATATAATATAATACTAA
*
919772 ATAAAAATAATAGTATAAATGAAATAATATTAATAATAATA-TAA
1 A-AAAAATAATAATATAAAT-AAATAATA-TAAT-ATAATACTAA
919816 AAAAA
1 AAAAA
919821 CAAAAAACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
41 1 0.02
42 16 0.38
43 12 0.29
44 8 0.19
45 5 0.12
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (41 bp):
AAAAAATAATAATATAAATAAATAATATAATATAATACTAA
Found at i:920325 original size:122 final size:123
Alignment explanation
Indices: 920176--920621 Score: 523
Period size: 122 Copynumber: 3.7 Consensus size: 123
920166 GAATTAAGGC
*
920176 AAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTAT
* *
920241 GAACTTTCTCTGGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTC-ATGC-A
66 GAACTTTCTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAATCGA-GCAA
* *
920298 AAGGTTGAACAAGTTCCTCTCATTATGAACTGCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTCATTA
* *
920362 TGAACTCT-TCTGGAAAAGTTGATGCTGATCTATCTCCTTCTGTGATAGAATCGAGCAAA
65 TGAACTTTCTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAATCGAGC-AA
* * * *
920421 AAAGTTGAACAAGTTCTTTTCATTATGAACTTTTTCTCTTTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTAT
* * ** *
920486 GAACTCTAC-CTGGCAATGTTGAT-C----C-A--T-C--GAGTGAT-GAATTTGAGCAA
66 GAACT-TTCTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAA-TCGAGCAA
* *
920533 AAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTG
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTCATTA
* *
920598 TGACCTCTAC-CTGGAAATGTTGAT
65 TGAACT-TTCTCTGGAAATGTTGAT
920622 CCATTGAATG
Statistics
Matches: 287, Mismatches: 28, Indels: 27
0.84 0.08 0.08
Matches are distributed among these distances:
112 37 0.13
113 58 0.20
115 1 0.00
116 1 0.00
118 1 0.00
119 1 0.00
121 43 0.15
122 67 0.23
123 66 0.23
124 12 0.04
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (123 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTAT
GAACTTTCTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAATCGAGCAA
Found at i:920479 original size:123 final size:122
Alignment explanation
Indices: 920179--920621 Score: 472
Period size: 123 Copynumber: 3.7 Consensus size: 122
920169 TTAAGGCAAG
* *
920179 GTTGAATAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCTTTCTTCAGATGAGTTCTTCTCATTATGAA
* * * * *
920244 CTTTCTCTGGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAG
66 CTCTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTGTGATAGAATCATGCAAAA
* * *
920301 GTTGAACAAGTTCCTCTCATTATGAACTGCTTCT-TCCTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCT-TTCTTCAGATGAGTTCTTCTCATTATGA
920365 ACTCT-TCTGGAAAAGTTGATGCTGATCTATCTCCTTCTGTGATAGAATCGA-GCAAAAAA
65 ACTCTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTGTGATAGAATC-ATGC--AAAA
* *
920424 GTTGAACAAGTTCTTTTCATTATGAACTTTTTCTCTTTCTTCAGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCTTTCTTCAGATGAGTTCTTCTCATTATGAA
* * ** *
920489 CTCTAC-CTGG-CAA--TG-T--TGATCCA--T-C--GAGTGAT-GAAT-TTGAGCAAAA
66 CTCT-CTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTGTGATAGAATCAT--GCAAAA
* * *
920535 GGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTGTG
1 -GTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCTTTCTTCAGATGAGTTCTTCTCATTATG
* *
920600 ACCTCTAC-CTGGAAATGTTGAT
64 AACTCT-CTCTGGAAAAGTTGAT
920622 CCATTGAATG
Statistics
Matches: 277, Mismatches: 28, Indels: 37
0.81 0.08 0.11
Matches are distributed among these distances:
111 4 0.01
112 34 0.12
113 46 0.17
114 1 0.00
115 1 0.00
116 3 0.01
117 1 0.00
118 6 0.02
120 1 0.00
121 45 0.16
122 63 0.23
123 67 0.24
124 5 0.02
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.40
Consensus pattern (122 bp):
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCTTTCTTCAGATGAGTTCTTCTCATTATGAA
CTCTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTGTGATAGAATCATGCAAAA
Found at i:920556 original size:112 final size:114
Alignment explanation
Indices: 920414--920641 Score: 343
Period size: 113 Copynumber: 2.0 Consensus size: 114
920404 TGATAGAATC
* * * *
920414 GAGCAAAAAAGTTGAACAAGTTCTTTTCATTATGAACTTTTTC-TCTTTCTTCAGATGAGTTCTT
1 GAGCAAAAAAGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
* *
920478 CTCATTATGAACTCTACCTGGCAATGTTGATCCATCGAGTGATGAATTT
66 CTCATTATGAACTCTACCTGGAAATGTTGATCCATCGAATGATGAATTT
*
920527 GAGC-AAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
1 GAGCAAAAAAGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
* * * *
920591 CTCATTGTGACCTCTACCTGGAAATGTTGATCCATTGAATGATGGATTT
66 CTCATTATGAACTCTACCTGGAAATGTTGATCCATCGAATGATGAATTT
920640 GA
1 GA
920642 ATCTTTGCTA
Statistics
Matches: 103, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
112 34 0.33
113 69 0.67
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (114 bp):
GAGCAAAAAAGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
CTCATTATGAACTCTACCTGGAAATGTTGATCCATCGAATGATGAATTT
Found at i:920874 original size:22 final size:22
Alignment explanation
Indices: 920812--920874 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
920802 AAATCCAATA
* * *
920812 AATCTTTCTTCTTTGAAAAGAG
1 AATCTATCATCTTTGAAGAGAG
* *
920834 AATATATCATCTTTAAAGAGAG
1 AATCTATCATCTTTGAAGAGAG
920856 AATCTATCATCTTTGAAGA
1 AATCTATCATCTTTGAAGA
920875 ATGTAGATGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.37
Consensus pattern (22 bp):
AATCTATCATCTTTGAAGAGAG
Found at i:921243 original size:20 final size:20
Alignment explanation
Indices: 921214--921259 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
921204 ATCGCAACAT
*
921214 TGGTTTAGCACCATAATTAC
1 TGGTTCAGCACCATAATTAC
921234 TGGTTCAGCACCATAATTAC
1 TGGTTCAGCACCATAATTAC
921254 TGGTTC
1 TGGTTC
921260 GTAAAACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (20 bp):
TGGTTCAGCACCATAATTAC
Found at i:921540 original size:22 final size:21
Alignment explanation
Indices: 921511--921563 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 21
921501 ATGTTTATAT
*
921511 AAAAGAATAAATTGAATTTCG
1 AAAAGAATAAATTGAATTTAG
921532 AAAATGAATAAATTGAATTTAG
1 AAAA-GAATAAATTGAATTTAG
921554 AAAAG-ATAAA
1 AAAAGAATAAA
921564 CTTGTAATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 5 0.17
21 5 0.17
22 20 0.67
ACGTcount: A:0.58, C:0.02, G:0.13, T:0.26
Consensus pattern (21 bp):
AAAAGAATAAATTGAATTTAG
Found at i:921934 original size:9 final size:9
Alignment explanation
Indices: 921920--921944 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
921910 AATTTCTTAT
921920 TTTTTTTCA
1 TTTTTTTCA
921929 TTTTTTTCA
1 TTTTTTTCA
921938 TTTTTTT
1 TTTTTTT
921945 AAGCATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:929298 original size:15 final size:15
Alignment explanation
Indices: 929274--929311 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
929264 AAATAATGCA
*
929274 ATGCATAATGAATGT
1 ATGCAAAATGAATGT
929289 ATGCAAAATGAATGT
1 ATGCAAAATGAATGT
929304 ATGCAAAA
1 ATGCAAAA
929312 GGTATTGATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.47, C:0.08, G:0.18, T:0.26
Consensus pattern (15 bp):
ATGCAAAATGAATGT
Found at i:929587 original size:12 final size:12
Alignment explanation
Indices: 929570--929594 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
929560 ATACCATACT
929570 ACTTCTTTCTTC
1 ACTTCTTTCTTC
929582 ACTTCTTTCTTC
1 ACTTCTTTCTTC
929594 A
1 A
929595 TAGAAATCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.12, C:0.32, G:0.00, T:0.56
Consensus pattern (12 bp):
ACTTCTTTCTTC
Found at i:932672 original size:24 final size:24
Alignment explanation
Indices: 932608--932672 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
932598 ATTTAATACT
*
932608 TGAAAATAA-AATAAAAATATTAA
1 TGAAAATAATAATATAAATATTAA
*
932631 TAAAAAATAATATATATAAATATT-A
1 T-GAAAATAATA-ATATAAATATTAA
932656 TGAAAATAATAAGTATA
1 TGAAAATAATAA-TATA
932673 TATAAAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
23 2 0.06
24 20 0.57
25 3 0.09
26 10 0.29
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.31
Consensus pattern (24 bp):
TGAAAATAATAATATAAATATTAA
Found at i:932672 original size:28 final size:27
Alignment explanation
Indices: 932622--932716 Score: 97
Period size: 28 Copynumber: 3.4 Consensus size: 27
932612 AATAAAATAA
932622 AAATATTAAT-AAAA-AATAATATATAT
1 AAATATT-ATGAAAATAATAATATATAT
932648 AAATATTATGAAAATAATAAGTATATAT
1 AAATATTATGAAAATAATAA-TATATAT
* * *
932676 AAAAATTTTGAAAATAAATAATTATAAATT
1 AAATATTATGAAAAT-AATAA-TATATA-T
932706 AAATA-TATGAA
1 AAATATTATGAA
932717 TTTTTAATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
25 2 0.03
26 11 0.19
27 5 0.09
28 20 0.34
29 15 0.26
30 5 0.09
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (27 bp):
AAATATTATGAAAATAATAATATATAT
Done.