Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008904.1 Hibiscus syriacus cultivar Beakdansim tig00112184_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: 372056
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
File 1 of 3
Found at i:9336 original size:15 final size:15
Alignment explanation
Indices: 9316--9393 Score: 72
Period size: 15 Copynumber: 5.3 Consensus size: 15
9306 AATTATATAT
9316 TATAATTAATATTTA
1 TATAATTAATATTTA
*
9331 TATAATTAATATTAA
1 TATAATTAATATTTA
* *
9346 TATAAAT-ATAGTCTA
1 TATAATTAATA-TTTA
* *
9361 TAAAATTAATATTAA
1 TATAATTAATATTTA
*
9376 TATAACT-ATATTT-
1 TATAATTAATATTTA
9389 TATAA
1 TATAA
9394 ATTATATAGT
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
13 5 0.10
14 8 0.16
15 34 0.68
16 3 0.06
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (15 bp):
TATAATTAATATTTA
Found at i:9354 original size:21 final size:22
Alignment explanation
Indices: 9298--9437 Score: 73
Period size: 21 Copynumber: 6.5 Consensus size: 22
9288 ATTCACACCC
9298 TTAATATAAATTATATATTATAA
1 TTAATATAAA-TATATATTATAA
**
9321 TTAATATTTATATA-ATTA-ATA
1 TTAATATAAATATATATTATA-A
* *
9342 TTAATATAAATATAGTCTATAAAA
1 TTAATATAAATATA-TAT-TATAA
* *
9366 TTAATATTAATATA-ACTAT-A
1 TTAATATAAATATATATTATAA
* * *
9386 TT-TTATAAATTATATAGT-TAG
1 TTAATATAAA-TATATATTATAA
*
9407 TT--TATAAACTATATACTAT-A
1 TTAATATAAA-TATATATTATAA
9427 TTAATATAAAT
1 TTAATATAAAT
9438 TACAGTTAAG
Statistics
Matches: 90, Mismatches: 16, Indels: 24
0.69 0.12 0.18
Matches are distributed among these distances:
19 5 0.06
20 24 0.27
21 25 0.28
22 10 0.11
23 9 0.10
24 16 0.18
25 1 0.01
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (22 bp):
TTAATATAAATATATATTATAA
Found at i:9368 original size:30 final size:30
Alignment explanation
Indices: 9329--9394 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
9319 AATTAATATT
*
9329 TATATAATTAATATTAATATAAATATAGTC
1 TATAAAATTAATATTAATATAAATATAGTC
* * *
9359 TATAAAATTAATATTAATATAACTATATTT
1 TATAAAATTAATATTAATATAAATATAGTC
9389 TATAAA
1 TATAAA
9395 TTATATAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (30 bp):
TATAAAATTAATATTAATATAAATATAGTC
Found at i:9486 original size:21 final size:21
Alignment explanation
Indices: 9462--9514 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
9452 TTAACATTAA
* *
9462 TATAAACTATAGTTTATAAAT
1 TATAAACTATAGATTATAAAG
9483 TATATAA-TATAGATTATAAAG
1 TATA-AACTATAGATTATAAAG
9504 TATAAACTATA
1 TATAAACTATA
9515 TAGTACACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 2 0.07
21 24 0.86
22 2 0.07
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.40
Consensus pattern (21 bp):
TATAAACTATAGATTATAAAG
Found at i:9584 original size:20 final size:20
Alignment explanation
Indices: 9561--9655 Score: 56
Period size: 20 Copynumber: 4.6 Consensus size: 20
9551 GGTTACATAT
9561 ATAGTTTATATAACATATAA
1 ATAGTTTATATAACATATAA
9581 ATAGATTGTATAT-ACATACT--
1 ATAG-TT-TATATAACATA-TAA
*
9601 ATAGGTTATATATATATATATATA
1 ATA-GTT-TATATA-ACATATA-A
* *
9625 TATAG-TTATAT-ATATATAC
1 -ATAGTTTATATAACATATAA
9644 ATAGTTTATATA
1 ATAGTTTATATA
9656 TATATGTACT
Statistics
Matches: 60, Mismatches: 3, Indels: 24
0.69 0.03 0.28
Matches are distributed among these distances:
18 4 0.07
19 6 0.10
20 21 0.35
21 9 0.15
22 15 0.25
23 1 0.02
24 1 0.02
25 3 0.05
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (20 bp):
ATAGTTTATATAACATATAA
Found at i:9612 original size:2 final size:2
Alignment explanation
Indices: 9607--9660 Score: 65
Period size: 2 Copynumber: 26.5 Consensus size: 2
9597 TACTATAGGT
* *
9607 TA TA TA TA TA TA TA TA TA TA TA GT- TA TA TA TA TA TA CA TA GTT
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA
9650 TA TA TA TA TA T
1 TA TA TA TA TA T
9661 GTACTATAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
1 1 0.02
2 42 0.93
3 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9616 original size:24 final size:24
Alignment explanation
Indices: 9589--9646 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
9579 AAATAGATTG
*
9589 TATATACATACTATA-GGTTATATA
1 TATATACATA-TATATAGTTATATA
*
9613 TATATATATATATATAGTTATATA
1 TATATACATATATATAGTTATATA
9637 TATATACATA
1 TATATACATA
9647 GTTTATATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 4 0.13
24 26 0.87
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (24 bp):
TATATACATATATATAGTTATATA
Found at i:9626 original size:65 final size:64
Alignment explanation
Indices: 9557--9681 Score: 153
Period size: 65 Copynumber: 1.9 Consensus size: 64
9547 TATAGGTTAC
* * *
9557 ATATATAGTTTATATAACATATAAATAGATTGTATATACA-TACTATAGGTTATATATATATATA
1 ATATATAG-TTATAT-ACATATAAATAGATTATATATACAGTACTATAAGTTACATATATATATA
9621 T
64 T
* * * *
9622 ATATATAGTTATATATATATACATAGTTTATATATATATGTACTATAAGTTACATATATA
1 ATATATAGTTATATACATATAAATAGATTATATATACA-GTACTATAAGTTACATATATA
9682 GTTTACATGT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
63 19 0.37
64 6 0.12
65 26 0.51
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (64 bp):
ATATATAGTTATATACATATAAATAGATTATATATACAGTACTATAAGTTACATATATATATAT
Found at i:9683 original size:35 final size:36
Alignment explanation
Indices: 9644--9717 Score: 96
Period size: 37 Copynumber: 2.1 Consensus size: 36
9634 ATATATATAC
* *
9644 ATAGTTT-ATATATATATGTACTATAAGTTACATAT
1 ATAGTTTAATATATACATATACTATAAGTTACATAT
* *
9679 ATAGTTTACATGTATACATATACTATATGTTACATAT
1 ATAGTTTA-ATATATACATATACTATAAGTTACATAT
9716 AT
1 AT
9718 TAACTATTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 7 0.21
37 26 0.79
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (36 bp):
ATAGTTTAATATATACATATACTATAAGTTACATAT
Found at i:9844 original size:14 final size:14
Alignment explanation
Indices: 9827--9865 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
9817 TAGTTTAGGG
9827 TTTAAGGTTTAAGA
1 TTTAAGGTTTAAGA
* *
9841 TTTATGGTTTAATA
1 TTTAAGGTTTAAGA
*
9855 TTTAGGGTTTA
1 TTTAAGGTTTA
9866 TGGTTTCTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (14 bp):
TTTAAGGTTTAAGA
Found at i:9849 original size:21 final size:21
Alignment explanation
Indices: 9820--9871 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
9810 ATATATATAG
* *
9820 TTTAGGGTTTAAGGTTTAAGA
1 TTTATGGTTTAAGATTTAAGA
* * *
9841 TTTATGGTTTAATATTTAGGG
1 TTTATGGTTTAAGATTTAAGA
9862 TTTATGGTTT
1 TTTATGGTTT
9872 CTATAAACTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (21 bp):
TTTATGGTTTAAGATTTAAGA
Found at i:9924 original size:22 final size:23
Alignment explanation
Indices: 9898--9957 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 23
9888 TTATTACTTT
9898 ATATAGTTTATATATA-TATATCA
1 ATATAGTTTATATATACTATA-CA
9921 TATATAGTTTATATATACTATAC-
1 -ATATAGTTTATATATACTATACA
**
9944 ATATTTTTTATATA
1 ATATAGTTTATATA
9958 CATGTAGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 12 0.36
24 17 0.52
25 4 0.12
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (23 bp):
ATATAGTTTATATATACTATACA
Found at i:9924 original size:24 final size:24
Alignment explanation
Indices: 9897--9947 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 24
9887 TTTATTACTT
9897 TATATAGTTTATATATA-TATATCA
1 TATATAGTTTATATATACTATA-CA
9921 TATATAGTTTATATATACTATACA
1 TATATAGTTTATATATACTATACA
9945 TAT
1 TAT
9948 TTTTTATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (24 bp):
TATATAGTTTATATATACTATACA
Found at i:10112 original size:2 final size:2
Alignment explanation
Indices: 10105--10417 Score: 81
Period size: 2 Copynumber: 165.0 Consensus size: 2
10095 TTCTATAAAC
*
10105 TA TA TA TA TA -A TA TA -A TA TA GA T- TA CT- TA TA T- TA GT- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA
* * * *
10143 TA CA TA CA TA TA TA TA CTA TA T- TA -A TA TA AA T- TA TA T- TT
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
10182 TA TA AA CTA TA TA T- TT TA TA TA GTT TA -A 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
* * *
10224 TA TA TA TA CTA TA T- TA -A TA TA AA T- TA TA GTT TA TA AA CTA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA
* ** * * * *
10264 TA TA CT- TT TA TA GC T- TA TA CA TA TA TA GTT TA TA TA AA CA -A
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * * ** *
10305 AA TT TA TG TA TA TA TA GC T- TA TA -A TA -A T- TA TA TA GTT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* *
10344 TA -A TA TA AA TA TA T- TA TA TA TA AA CT- TA TA T- TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
10382 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10418 ATGAGAAAAT
Statistics
Matches: 226, Mismatches: 44, Indels: 82
0.64 0.12 0.23
Matches are distributed among these distances:
1 29 0.13
2 184 0.81
3 13 0.06
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:10288 original size:73 final size:73
Alignment explanation
Indices: 10141--10299 Score: 230
Period size: 73 Copynumber: 2.2 Consensus size: 73
10131 TTATATTAGT
* * * * *
10141 TATACATACATATATATACTATATTAATATAAATTATATTTTATAAACTATATATTTTATATAGT
1 TATATATATATATATATACTATATTAATATAAATTATAGTTTATAAACTATATACTTTATATAGC
*
10206 TTAATATA
66 TTAACATA
10214 TATATATATATATATATACTATATTAATATAAATTATAGTTTATAAACTATATACTTT-TATAGC
1 TATATATATATATATATACTATATTAATATAAATTATAGTTTATAAACTATATACTTTATATAGC
10278 TTATACATA
66 TTA-ACATA
*
10287 TATAGTTTATATA
1 TATA-TATATATA
10300 AACAAAATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
72 8 0.10
73 62 0.81
74 7 0.09
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.48
Consensus pattern (73 bp):
TATATATATATATATATACTATATTAATATAAATTATAGTTTATAAACTATATACTTTATATAGC
TTAACATA
Found at i:10635 original size:21 final size:21
Alignment explanation
Indices: 10605--10768 Score: 137
Period size: 21 Copynumber: 8.0 Consensus size: 21
10595 GATTTACATA
* *
10605 TTCGCATTGCGATATTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
10626 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
10647 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
10668 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
10687 TTCGCGTTGCGATTTA-TCACAAA
1 TTCGCGTTGCGA--TAGTC-CAAG
10710 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
10729 TTCGCATTGC-ATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
10751 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
10769 AATCACAACG
Statistics
Matches: 115, Mismatches: 17, Indels: 24
0.74 0.11 0.15
Matches are distributed among these distances:
19 30 0.26
20 8 0.07
21 59 0.51
22 11 0.10
23 7 0.06
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:10657 original size:42 final size:40
Alignment explanation
Indices: 10605--10768 Score: 213
Period size: 42 Copynumber: 4.0 Consensus size: 40
10595 GATTTACATA
* *
10605 TTCGCATTGCGATATTCCAAGTTCGCGTTGCGATAGTCGAAG
1 TTCGCATTGCGATATTCCAAATT--CGTTGCGATAGTCCAAG
* *
10647 TTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCCAAG
1 TTCGCATTGCGATATTCCAAATTCGTTGCGATAGTCCAAG
* *
10687 TTCGCGTTGCGATTTATCACAAATTCGTTGCGATAGTCCAAG
1 TTCGCATTGCGATAT-TC-CAAATTCGTTGCGATAGTCCAAG
10729 TTCGCATTGC-ATTTATTCCAAATTCGTTGCGATAGTCCAA
1 TTCGCATTGCGA--TATTCCAAATTCGTTGCGATAGTCCAA
10769 AATCACAACG
Statistics
Matches: 112, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
40 31 0.28
41 25 0.22
42 54 0.48
43 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (40 bp):
TTCGCATTGCGATATTCCAAATTCGTTGCGATAGTCCAAG
Found at i:10727 original size:61 final size:60
Alignment explanation
Indices: 10611--10732 Score: 140
Period size: 61 Copynumber: 2.0 Consensus size: 60
10601 CATATTCGCA
* * * **
10611 TTGCGATATTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAATTC-CGTTGCGATAGTCCAAATTCG
*
10672 TTGCGATAGTCCAAGTTCGCGTTGCGATTTA-TCACAAATT-CGTTGCGATAGTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA--TAGTC-CAAATTCCGTTGCGATAGTCCAAATTCG
10733 CATTGCATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
61 44 0.85
62 2 0.04
63 6 0.12
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (60 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAATTCCGTTGCGATAGTCCAAATTCG
Found at i:11670 original size:42 final size:42
Alignment explanation
Indices: 11621--12137 Score: 735
Period size: 42 Copynumber: 12.5 Consensus size: 42
11611 TGCGATTTTG
* *
11621 GACTATCGCAACGAATTTGGAATAAATCGCAATGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
11663 GACTATCGCAATGAACTTGGAATAAATCGCAATGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
11705 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
11747 GACTATCGCAACGAACTTGGACT--ATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
11787 GACTATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
11829 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
11871 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
11913 GACTATCGCAACGAACTTGGACT--ATCGCAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
11953 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* ** *
11995 GACTATCGCAACGAACTTGGACT--ATCGCATTGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* * * ** *
12035 GACTATCGCAATGAACTTGCACT--ATCGCATTGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* * *
12075 GATTATCGCAACGAATTTGGAATAAATCGCAACGTGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
12117 GACTGTCGCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
12138 CTATCGCATT
Statistics
Matches: 433, Mismatches: 36, Indels: 12
0.90 0.07 0.02
Matches are distributed among these distances:
40 146 0.34
42 287 0.66
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
Found at i:11816 original size:82 final size:83
Alignment explanation
Indices: 11621--12137 Score: 738
Period size: 82 Copynumber: 6.3 Consensus size: 83
11611 TGCGATTTTG
* *
11621 GACTATCGCAACGAATTTGGAATAAATCGCAATGCGAACTTCGACTATCGCAATGAACTTGGAAT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
*
11686 AAATCGCAATGCGAACTTC
66 -AATCGCAACGCGAACTTC
* *
11705 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGACT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
11770 -ATCGCAACGCGAACTTC
66 AATCGCAACGCGAACTTC
*
11787 GACTATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGACTATCGCAACGAACTTGGAAT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
*
11852 AAATCGCAACGCGAACTTG
66 -AATCGCAACGCGAACTTC
*
11871 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGACT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
*
11936 -ATCGCAACGCGAACTTG
66 AATCGCAACGCGAACTTC
* *
11953 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGACT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
** *
12018 -ATCGCATTGCGAACTTG
66 AATCGCAACGCGAACTTC
* * * * ** * * *
12035 GACTATCGCAATGAACTTGCACT--ATCGCATTGCGAACTTGGATTATCGCAACGAATTTGGAAT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
*
12098 AAATCGCAACGTGAACTTC
66 -AATCGCAACGCGAACTTC
* *
12117 GACTGTCGCAACGAACTTGGA
1 GACTATCGCAACGAATTTGGA
12138 CTATCGCATT
Statistics
Matches: 399, Mismatches: 30, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
80 35 0.09
82 224 0.56
84 140 0.35
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (83 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
AATCGCAACGCGAACTTC
Found at i:11895 original size:166 final size:166
Alignment explanation
Indices: 11621--12137 Score: 790
Period size: 166 Copynumber: 3.1 Consensus size: 166
11611 TGCGATTTTG
* *
11621 GACTATCGCAACGAATTTGGAATAAATCGCAATGCGAACTTCGACTATCGCAATGAACTTGGAAT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
*
11686 AAATCGCAATGCGAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACT
66 AAATCGCAATGCGAACTTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACT
11751 ATCGCAACGAACTTGGACTATCGCAACGCGAACTTC
131 ATCGCAACGAACTTGGACTATCGCAACGCGAACTTC
*
11787 GACTATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGACTATCGCAACGAACTTGGAAT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
* *
11852 AAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
66 AAATCGCAATGCGAACTTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACT
*
11917 ATCGCAACGAACTTGGACTATCGCAACGCGAACTTG
131 ATCGCAACGAACTTGGACTATCGCAACGCGAACTTC
* *
11953 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGACT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
* * * * ** * *
12018 --ATCGCATTGCGAACTTGGACTATCGCAATGAACTTGCACT--ATCGCATTGCGAACTTGGATT
66 AAATCGCAATGCGAACTTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACT
* * *
12079 ATCGCAACGAATTTGGAATAAATCGCAACGTGAACTTC
131 ATCGCAACGAACTTGGACT--ATCGCAACGCGAACTTC
* *
12117 GACTGTCGCAACGAACTTGGA
1 GACTATCGCAACGAATTTGGA
12138 CTATCGCATT
Statistics
Matches: 323, Mismatches: 26, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
162 34 0.11
164 68 0.21
166 221 0.68
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (166 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
AAATCGCAATGCGAACTTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACT
ATCGCAACGAACTTGGACTATCGCAACGCGAACTTC
Found at i:13546 original size:16 final size:16
Alignment explanation
Indices: 13519--13554 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
13509 ATAAGGTGAG
13519 TTTAATTTTATT-TCT
1 TTTAATTTTATTATCT
13534 TTTAATATTTATTATCT
1 TTTAAT-TTTATTATCT
13551 TTTA
1 TTTA
13555 CAAACCTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 6 0.32
17 7 0.37
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTAATTTTATTATCT
Found at i:14184 original size:9 final size:9
Alignment explanation
Indices: 14170--14198 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
14160 AATTAAAAAT
14170 ATTTTTTAA
1 ATTTTTTAA
14179 ATTTTTTAA
1 ATTTTTTAA
14188 ATTTTTTAA
1 ATTTTTTAA
14197 AT
1 AT
14199 GAAATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:18559 original size:16 final size:15
Alignment explanation
Indices: 18538--18572 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
18528 AGATAATCAT
18538 TTTTTATATATATTAA
1 TTTTTATATA-ATTAA
18554 TTTTTATATAATTAA
1 TTTTTATATAATTAA
18569 TTTT
1 TTTT
18573 GGCATGACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTTATATAATTAA
Found at i:20133 original size:45 final size:44
Alignment explanation
Indices: 20084--20208 Score: 169
Period size: 45 Copynumber: 2.8 Consensus size: 44
20074 AATAAATGCT
*
20084 TGCGAACTAGATATCATGTGGTTAGGTTTTTTTTCCGAACAAGCA
1 TGCGAACTAGATATCATGCGGTTAGGTTTTTTTT-CGAACAAGCA
* *
20129 TGCGAACTAGATATCATGCAGTTAGGTTATTTTTCGAACAAGCA
1 TGCGAACTAGATATCATGCGGTTAGGTTTTTTTTCGAACAAGCA
* * *
20173 TGCAAATTAGATATCATGCGGATAGGATTTCTTTTT
1 TGCGAACTAGATATCATGCGGTTAGG-TTT-TTTTT
20209 GTGAATAACA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
44 32 0.46
45 33 0.47
46 5 0.07
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (44 bp):
TGCGAACTAGATATCATGCGGTTAGGTTTTTTTTCGAACAAGCA
Found at i:20184 original size:44 final size:45
Alignment explanation
Indices: 20088--20191 Score: 156
Period size: 44 Copynumber: 2.3 Consensus size: 45
20078 AATGCTTGCG
** * *
20088 AACTAGATATCATGTGGTTAGGTTTTTTTTCCGAACAAGCATGCG
1 AACTAGATATCATGCAGTTAGGTTATTTTTCCGAACAAGCATGCA
20133 AACTAGATATCATGCAGTTAGGTTATTTTT-CGAACAAGCATGCA
1 AACTAGATATCATGCAGTTAGGTTATTTTTCCGAACAAGCATGCA
*
20177 AATTAGATATCATGC
1 AACTAGATATCATGC
20192 GGATAGGATT
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
44 27 0.50
45 27 0.50
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (45 bp):
AACTAGATATCATGCAGTTAGGTTATTTTTCCGAACAAGCATGCA
Found at i:30519 original size:29 final size:30
Alignment explanation
Indices: 30477--30540 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
30467 GCAAGCCTTA
* * *
30477 GAAAAATTGGGGATCATTTCGTAAGTTTT-
1 GAAAAATTGGGGATAAATTCGTAAATTTTG
* *
30506 GAAAAGTTTGGGATAAATTCGTAAATTTTG
1 GAAAAATTGGGGATAAATTCGTAAATTTTG
30536 GAAAA
1 GAAAA
30541 TTGATGAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.34
Consensus pattern (30 bp):
GAAAAATTGGGGATAAATTCGTAAATTTTG
Found at i:32178 original size:49 final size:45
Alignment explanation
Indices: 32081--32201 Score: 143
Period size: 49 Copynumber: 2.6 Consensus size: 45
32071 GTAACCATAC
*
32081 AAATAAGCTTATGAGCTTACGGAATAATGGCAAGTATATTGAAAA
1 AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTGAAAA
* * * **
32126 AAATAAGCTTACGAGCTTATGGAATTTTAAATGGTAAGTATTTTGGTAA
1 AAATAAGCTTATGAGCTTATGGAA---T-AATGGCAAGTATATTGAAAA
*
32175 AAATAAGCTTATGAGCTTATGGGATAA
1 AAATAAGCTTATGAGCTTATGGAATAA
32202 AAGGTAAGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
45 24 0.38
46 1 0.02
48 1 0.02
49 38 0.59
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTGAAAA
Found at i:33968 original size:6 final size:6
Alignment explanation
Indices: 33957--34011 Score: 110
Period size: 6 Copynumber: 9.2 Consensus size: 6
33947 AAGACTTATG
33957 GGTCAT GGTCAT GGTCAT GGTCAT GGTCAT GGTCAT GGTCAT GGTCAT
1 GGTCAT GGTCAT GGTCAT GGTCAT GGTCAT GGTCAT GGTCAT GGTCAT
34005 GGTCAT G
1 GGTCAT G
34012 ATACAAGTGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.16, C:0.16, G:0.35, T:0.33
Consensus pattern (6 bp):
GGTCAT
Found at i:39129 original size:49 final size:45
Alignment explanation
Indices: 39032--39152 Score: 143
Period size: 49 Copynumber: 2.6 Consensus size: 45
39022 ATAACCATGC
*
39032 AAATAAGCTTATGAGCTTACGGAATAATGGCAAGTATATTGAAAA
1 AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTGAAAA
* * * **
39077 AAATAAGCTTACGAGCTTATGGAATTTTAAATGGTAAGTATTTTGGTAA
1 AAATAAGCTTATGAGCTTATGGAA---T-AATGGCAAGTATATTGAAAA
*
39126 AAATAAGCTTATGAGCTTATGGGATAA
1 AAATAAGCTTATGAGCTTATGGAATAA
39153 AAGGTAAGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
45 24 0.38
46 1 0.02
48 1 0.02
49 38 0.59
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTGAAAA
Found at i:40293 original size:7 final size:7
Alignment explanation
Indices: 40283--40445 Score: 52
Period size: 7 Copynumber: 22.4 Consensus size: 7
40273 ATGAAAATGG
40283 AAAAAGAA
1 AAAAAG-A
40291 AAAAAGA
1 AAAAAGA
* *
40298 GAAAATA
1 AAAAAGA
40305 AAAAATG-
1 AAAAA-GA
**
40312 ATGAAG-
1 AAAAAGA
*
40318 AAAATGA
1 AAAAAGA
40325 AAAAGAGA
1 AAAA-AGA
40333 AAAAGAGA
1 AAAA-AGA
*
40341 AAAAGGGA
1 AAAA-AGA
*
40349 AAGGAA-A
1 AA-AAAGA
40356 AAAAAG-
1 AAAAAGA
40362 AAAAAG-
1 AAAAAGA
40368 AAAAAGA
1 AAAAAGA
*
40375 AAAATGGGA
1 AAAA--AGA
40384 AAATGGAAGA
1 AAA---AAGA
40394 AAAAATG-
1 AAAAA-GA
40401 AAAAAGA
1 AAAAAGA
40408 AAAACA-A
1 AAAA-AGA
*
40415 AAAGAGA
1 AAAAAGA
*
40422 AAAATGA
1 AAAAAGA
*
40429 AAAATGA
1 AAAAAGA
*
40436 AAAATGA
1 AAAAAGA
40443 AAA
1 AAA
40446 TAAAAGGGGG
Statistics
Matches: 121, Mismatches: 19, Indels: 31
0.71 0.11 0.18
Matches are distributed among these distances:
6 20 0.17
7 62 0.51
8 27 0.22
9 6 0.05
10 5 0.04
12 1 0.01
ACGTcount: A:0.74, C:0.01, G:0.20, T:0.06
Consensus pattern (7 bp):
AAAAAGA
Found at i:40293 original size:14 final size:13
Alignment explanation
Indices: 40276--40445 Score: 65
Period size: 14 Copynumber: 11.8 Consensus size: 13
40266 TGAAAAAATG
40276 AAAATGGAAAAAGAA
1 AAAAT-GAAAAAG-A
* *
40291 AAAAAGAGAAAATAA
1 AAAATGA-AAAA-GA
**
40306 AAAATGATGAAG-
1 AAAATGAAAAAGA
40318 AAAATGAAAAAGAGA
1 AAAATG-AAAA-AGA
* *
40333 AAAAGAGAAAAAGG
1 AAAA-TGAAAAAGA
* *
40347 GAAAGGAAAAAAAAGA
1 AAAATG-AA-AAA-GA
40363 AAAA-GAAAAAGA
1 AAAATGAAAAAGA
40375 AAAATGGGAAAATGGAAGA
1 AAAAT--GAAAA---A-GA
40394 AAAAATGAAAAAGA
1 A-AAATGAAAAAGA
**
40408 AAAACAAAAAGAGA
1 AAAATGAAAA-AGA
40422 AAAATGAAAAATGA
1 AAAATGAAAAA-GA
40436 AAAATGAAAA
1 AAAATGAAAA
40446 TAAAAGGGGG
Statistics
Matches: 118, Mismatches: 18, Indels: 39
0.67 0.10 0.22
Matches are distributed among these distances:
12 12 0.10
13 14 0.12
14 41 0.35
15 33 0.28
16 5 0.04
18 6 0.05
19 3 0.03
20 4 0.03
ACGTcount: A:0.73, C:0.01, G:0.20, T:0.06
Consensus pattern (13 bp):
AAAATGAAAAAGA
Found at i:40336 original size:8 final size:8
Alignment explanation
Indices: 40282--40372 Score: 59
Period size: 8 Copynumber: 11.6 Consensus size: 8
40272 AATGAAAATG
40282 GAAAAAGA
1 GAAAAAGA
*
40290 AAAAAAGA
1 GAAAAAGA
40298 GAAAATA-A
1 GAAAA-AGA
*
40306 -AAAATGA
1 GAAAAAGA
40313 TGAAGAAA-A
1 -GAA-AAAGA
40322 TGAAAAAGA
1 -GAAAAAGA
40331 GAAAAAGA
1 GAAAAAGA
40339 GAAAAAG-
1 GAAAAAGA
* *
40346 GGAAAGGA
1 GAAAAAGA
*
40354 -AAAAAAA
1 GAAAAAGA
40361 GAAAAAGA
1 GAAAAAGA
40369 -AAAA
1 GAAAA
40373 GAAAAATGGG
Statistics
Matches: 65, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
7 18 0.28
8 36 0.55
9 9 0.14
10 2 0.03
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (8 bp):
GAAAAAGA
Found at i:40357 original size:49 final size:47
Alignment explanation
Indices: 40258--40358 Score: 130
Period size: 49 Copynumber: 2.1 Consensus size: 47
40248 TCGCTTGAAG
* * *
40258 AAAATTGATGAAAAAATGAAAATGGAAAAAGAAAAAAAGAGAAAATA
1 AAAAATGATGAAAAAATGAAAAAGGAAAAAGAAAAAAAGAGAAAAGA
* * *
40305 AAAAATGATGAAGAAAATGAAAAAGAGAAAAAGAGAAAAAGGGAAAGGA
1 AAAAATGATGAA-AAAATGAAAAAG-GAAAAAGAAAAAAAGAGAAAAGA
40354 AAAAA
1 AAAAA
40359 AAGAAAAAGA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 11 0.24
48 11 0.24
49 24 0.52
ACGTcount: A:0.70, C:0.00, G:0.21, T:0.09
Consensus pattern (47 bp):
AAAAATGATGAAAAAATGAAAAAGGAAAAAGAAAAAAAGAGAAAAGA
Found at i:40446 original size:6 final size:7
Alignment explanation
Indices: 40355--40445 Score: 68
Period size: 7 Copynumber: 13.6 Consensus size: 7
40345 GGGAAAGGAA
*
40355 AAAAAAG
1 AAAAATG
40362 AAAAA-G
1 AAAAATG
40368 AAAAA-G
1 AAAAATG
40374 AAAAATGG
1 AAAAAT-G
*
40382 GAAAATG
1 AAAAATG
* *
40389 GAAGA--
1 AAAAATG
40394 AAAAATG
1 AAAAATG
40401 AAAAA-G
1 AAAAATG
*
40407 AAAAA-C
1 AAAAATG
*
40413 AAAAAGAG
1 AAAAA-TG
40421 AAAAATG
1 AAAAATG
40428 AAAAATG
1 AAAAATG
40435 AAAAATG
1 AAAAATG
40442 AAAA
1 AAAA
40446 TAAAAGGGGG
Statistics
Matches: 71, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
5 3 0.04
6 23 0.32
7 34 0.48
8 11 0.15
ACGTcount: A:0.75, C:0.01, G:0.18, T:0.07
Consensus pattern (7 bp):
AAAAATG
Found at i:41514 original size:16 final size:17
Alignment explanation
Indices: 41477--41511 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
41467 AGGTTTCCTA
41477 AAGATAGTTGAAGATTG
1 AAGATAGTTGAAGATTG
41494 AAGATA-TTGAAGCATTG
1 AAGATAGTTGAAG-ATTG
41511 A
1 A
41512 GATGAAGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.43, C:0.03, G:0.26, T:0.29
Consensus pattern (17 bp):
AAGATAGTTGAAGATTG
Found at i:41909 original size:55 final size:55
Alignment explanation
Indices: 41820--42125 Score: 379
Period size: 55 Copynumber: 5.6 Consensus size: 55
41810 GTTGAAAATT
* * *
41820 GAGTCCTATACTCTCTGAAGGAATAGAGAACGGACCTGTTTTATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
*
41875 GAGTTCTATACTCTCTGAAGAAATAGAGAGCGGACCCGTTTGT-TGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTT-TATGAAGATTGTTC
*
41930 GAGTTCTATACTCTCTGAAGGAATGGAGAGCGGACCCGTTTTATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
* *
41985 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGAACCCATTTTATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
* * * * * * * *
42040 GAGTTCTGTACTCCCTTAA-CAGATAGGGAACGAACCCG-TTTATTGAAAATTGTTC
1 GAGTTCTATACTCTCTGAAGGA-ATAGAGAGCGGACCCGTTTTA-TGAAGATTGTTC
* *
42095 GAG-TCATATACTC-CTTGAATGAATAGGGAGC
1 GAGTTC-TATACTCTC-TGAAGGAATAGAGAGC
42126 AGATACATTT
Statistics
Matches: 223, Mismatches: 21, Indels: 14
0.86 0.08 0.05
Matches are distributed among these distances:
54 9 0.04
55 212 0.95
56 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (55 bp):
GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
Found at i:42119 original size:110 final size:109
Alignment explanation
Indices: 41820--42173 Score: 332
Period size: 110 Copynumber: 3.2 Consensus size: 109
41810 GTTGAAAATT
* * * * * *
41820 GAGTCCTATACTCTCTGAAGGAATAGAGAACGGACCTGTTT-TATGAAGATTGTTCGAGTTCTAT
1 GAGTTCTATACTCCCTGAAAGAATGGAGAACGAACCCGTTTAT-TGAAGATTGTTCGAGTTCTAT
* *
41884 ACTCTCTGAAGAAATAGAGAGCGGACCCGTTTGTTGAAGATTGTTC
65 ACTCTCTGAAG-AATAGAGAGCGAACCCATTTGTTGAAGATTGTTC
* * * *
41930 GAGTTCTATACTCTCTGAAGGAATGGAGAGCGGACCCGTTT-TATGAAGATTGTTCGAGTTCTAT
1 GAGTTCTATACTCCCTGAAAGAATGGAGAACGAACCCGTTTAT-TGAAGATTGTTCGAGTTCTAT
41994 ACTCTCTGAAGGAATAGAGAGCGAACCCATTT-TATGAAGATTGTTC
65 ACTCTCTGAA-GAATAGAGAGCGAACCCATTTGT-TGAAGATTGTTC
* * *
42040 GAGTTCTGTACTCCCTTAACAG-ATAGG-GAACGAACCCGTTTATTGAAAATTGTTCGAG-TCAT
1 GAGTTCTATACTCCCTGAA-AGAAT-GGAGAACGAACCCGTTTATTGAAGATTGTTCGAGTTC-T
* **
42102 ATACTC-CTTGAATGAATAGGGAGCAGATA--CATTTGCCGAAGATTGTTC
63 ATACTCTC-TGAA-GAATAGAGAGC-GA-ACCCATTTGTTGAAGATTGTTC
* * *
42150 AAG-TCTTATACTCCTTAAAAGAAT
1 GAGTTC-TATACTCCCTGAAAGAAT
42174 ATGGAGCAGA
Statistics
Matches: 211, Mismatches: 21, Indels: 24
0.82 0.08 0.09
Matches are distributed among these distances:
109 8 0.04
110 195 0.92
111 7 0.03
112 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (109 bp):
GAGTTCTATACTCCCTGAAAGAATGGAGAACGAACCCGTTTATTGAAGATTGTTCGAGTTCTATA
CTCTCTGAAGAATAGAGAGCGAACCCATTTGTTGAAGATTGTTC
Found at i:42145 original size:165 final size:165
Alignment explanation
Indices: 41820--42162 Score: 406
Period size: 165 Copynumber: 2.1 Consensus size: 165
41810 GTTGAAAATT
* * **
41820 GAGTCCTATACTCTCTGAAGGAATAGAGAACGGACCTGTTTTATGAAGATTGTTCGAGTTCTATA
1 GAGTTCTATACTCTCTGAAGGAATAGAGAACGAACCCATTTTATGAAGATTGTTCGAGTTCTATA
* * * * * *
41885 CTCTCTGAAGAAATAGAGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGAAG
66 CTCCCTGAACAAATAGAGAACGAACCCGTTTATTGAAAATTGTTCGAGTTCTATACTCTCTGAAG
* * * * *
41950 GAATGGAGAGCGGACCCGTTTTATGAAGATTGTTC
131 GAATGGAGAGCAGACACATTTGACGAAGATTGTTC
* *
41985 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGAACCCATTTTATGAAGATTGTTCGAGTTCTGTA
1 GAGTTCTATACTCTCTGAAGGAATAGAGAACGAACCCATTTTATGAAGATTGTTCGAGTTCTATA
* * *
42050 CTCCCTTAACAGATAGGGAACGAACCCGTTTATTGAAAATTGTTCGAG-TCATATACTC-CTTGA
66 CTCCCTGAACAAATAGAGAACGAACCCGTTTATTGAAAATTGTTCGAGTTC-TATACTCTC-TGA
* * *
42113 ATGAATAGG-GAGCAGATACATTTGCCGAAGATTGTTC
129 AGGAAT-GGAGAGCAGACACATTTGACGAAGATTGTTC
*
42150 AAG-TCTTATACTC
1 GAGTTC-TATACTC
42163 CTTAAAAGAA
Statistics
Matches: 150, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
164 5 0.03
165 143 0.95
166 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (165 bp):
GAGTTCTATACTCTCTGAAGGAATAGAGAACGAACCCATTTTATGAAGATTGTTCGAGTTCTATA
CTCCCTGAACAAATAGAGAACGAACCCGTTTATTGAAAATTGTTCGAGTTCTATACTCTCTGAAG
GAATGGAGAGCAGACACATTTGACGAAGATTGTTC
Found at i:42198 original size:55 final size:55
Alignment explanation
Indices: 41863--42200 Score: 247
Period size: 55 Copynumber: 6.1 Consensus size: 55
41853 ACCTGTTTTA
* *
41863 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGA-AATA-GAGAGCGGACCCGTTTGT
1 TGAAGATTGTTCGAGTTCTATACTC-CTTAAAAGAATAGGAGAGC-GACCCGTTTGT
* *
41918 TGAAGATTGTTCGAGTTCTATACT-CTCTGAAGGAAT-GGAGAGCGGACCCGTTT-T
1 TGAAGATTGTTCGAGTTCTATACTCCT-TAAAAGAATAGGAGAGC-GACCCGTTTGT
* * *
41972 ATGAAGATTGTTCGAGTTCTATACT-CTCTGAAGGAATA-GAGAGCGAACCCATTT-T
1 -TGAAGATTGTTCGAGTTCTATACTCCT-TAAAAGAATAGGAGAGCG-ACCCGTTTGT
* * * *
42027 ATGAAGATTGTTCGAGTTCTGTACTCCCTTAACAG-ATAGG-GAACGAACCCGTTTAT
1 -TGAAGATTGTTCGAGTTCTATACT-CCTTAAAAGAATAGGAGAGCG-ACCCGTTTGT
* * * ** * *
42083 TGAAAATTGTTCGAG-TCATATACTCCTTGAATGAATAGG-GAGCAGATACATTTGC
1 TGAAGATTGTTCGAGTTC-TATACTCCTTAAAAGAATAGGAGAGC-GACCCGTTTGT
* * *
42138 CGAAGATTGTTCAAG-TCTTATACTCCTTAAAAGAATATG-GAGCAGACCCGTTAT-T
1 TGAAGATTGTTCGAGTTC-TATACTCCTTAAAAGAATAGGAGAGC-GACCCGTT-TGT
42193 TGAAGATT
1 TGAAGATT
42201 TTTCAAGTCT
Statistics
Matches: 235, Mismatches: 34, Indels: 28
0.79 0.11 0.09
Matches are distributed among these distances:
53 2 0.01
54 11 0.05
55 213 0.91
56 7 0.03
57 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (55 bp):
TGAAGATTGTTCGAGTTCTATACTCCTTAAAAGAATAGGAGAGCGACCCGTTTGT
Found at i:45358 original size:33 final size:34
Alignment explanation
Indices: 45316--45379 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
45306 TTTAATATAA
* *
45316 TATATAATTAATCAT-AATTTATATTTATTAATCT
1 TATATAATTAAT-ATAAAATCATATTTATTAATCT
45350 TATA-AATTAATATAAAATCATATTTATTAA
1 TATATAATTAATATAAAATCATATTTATTAA
45380 CATCAGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 2 0.07
33 21 0.78
34 4 0.15
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (34 bp):
TATATAATTAATATAAAATCATATTTATTAATCT
Found at i:54918 original size:15 final size:15
Alignment explanation
Indices: 54880--54963 Score: 68
Period size: 15 Copynumber: 5.6 Consensus size: 15
54870 ATTCACACCC
54880 TTAATATAAATT-ATA
1 TTAATAT-AATTAATA
*
54895 -TATTATAATTAATA
1 TTAATATAATTAATA
*
54909 TTTATATAATTAATA
1 TTAATATAATTAATA
54924 TTAATATAA--AATA
1 TTAATATAATTAATA
* *
54937 TAGTCTATAAAATTAATA
1 T--T-AATATAATTAATA
54955 TTAATATAA
1 TTAATATAA
54964 ACTATATTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
13 9 0.17
14 8 0.15
15 26 0.48
16 6 0.11
18 5 0.09
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (15 bp):
TTAATATAATTAATA
Found at i:54926 original size:21 final size:20
Alignment explanation
Indices: 54890--54930 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
54880 TTAATATAAA
54890 TTATATATTATAATTAATAT
1 TTATATATTATAATTAATAT
54910 TTATATAATTA-ATATTAATAT
1 TTATAT-ATTATA-ATTAATAT
54931 AAAATATAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATATATTATAATTAATAT
Found at i:54953 original size:31 final size:31
Alignment explanation
Indices: 54911--54978 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
54901 AATTAATATT
*
54911 TATATAATTAATATTAATATAAAATATAGTC
1 TATAAAATTAATATTAATATAAAATATAGTC
* * *
54942 TATAAAATTAATATTAATATAAACTATATTT
1 TATAAAATTAATATTAATATAAAATATAGTC
54973 TATAAA
1 TATAAA
54979 TTATATAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (31 bp):
TATAAAATTAATATTAATATAAAATATAGTC
Found at i:54971 original size:46 final size:44
Alignment explanation
Indices: 54880--54985 Score: 108
Period size: 46 Copynumber: 2.4 Consensus size: 44
54870 ATTCACACCC
* * * *
54880 TTAATATAAATTATATATTATAATTAATATTTATATAATTAATA
1 TTAATATAAAATATATATTAAAATTAATATTAATATAACTAATA
*
54924 TTAATATAAAATATAGTCTATAAAATTAATATTAATATAAACT-ATA
1 TTAATATAAAATATA-TAT-TAAAATTAATATTAATAT-AACTAATA
* *
54970 TT-TTATAAATTATATA
1 TTAATATAAAATATATA
54986 GTTAGTTTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
44 15 0.29
45 12 0.24
46 21 0.41
47 3 0.06
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (44 bp):
TTAATATAAAATATATATTAAAATTAATATTAATATAACTAATA
Found at i:55038 original size:87 final size:88
Alignment explanation
Indices: 54921--55099 Score: 247
Period size: 87 Copynumber: 2.0 Consensus size: 88
54911 TATATAATTA
* * *
54921 ATATTAATATAAAATATAGTCTATAAAATTAATATTAATATAAACTATATTTTATAAATTATATA
1 ATATTAATATAAAATACAGTCTATAAAATTAACATTAATATAAACTATAGTTTATAAATTATATA
* * *
54986 GT-TAGTTTATAAACTATATACT
66 ATATAGATTATAAACTATAAACT
*
55008 ATATTAATATAAATTACAGT-TA-AGATAATTAACATTAATATAAACTATAGTTTATAAATTATA
1 ATATTAATATAAAATACAGTCTATA-A-AATTAACATTAATATAAACTATAGTTTATAAATTATA
*
55071 TAATATAGATTATAAAGTATAAACT
64 TAATATAGATTATAAACTATAAACT
55096 ATAT
1 ATAT
55100 AGTACACTAA
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
85 1 0.01
86 3 0.04
87 56 0.69
88 21 0.26
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (88 bp):
ATATTAATATAAAATACAGTCTATAAAATTAACATTAATATAAACTATAGTTTATAAATTATATA
ATATAGATTATAAACTATAAACT
Found at i:55070 original size:21 final size:21
Alignment explanation
Indices: 55046--55098 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
55036 TTAACATTAA
* *
55046 TATAAACTATAGTTTATAAAT
1 TATAAACTATAGATTATAAAG
55067 TATATAA-TATAGATTATAAAG
1 TATA-AACTATAGATTATAAAG
55088 TATAAACTATA
1 TATAAACTATA
55099 TAGTACACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 2 0.07
21 24 0.86
22 2 0.07
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.40
Consensus pattern (21 bp):
TATAAACTATAGATTATAAAG
Found at i:55180 original size:2 final size:2
Alignment explanation
Indices: 55173--55250 Score: 59
Period size: 2 Copynumber: 37.5 Consensus size: 2
55163 AAATAGATTG
* **
55173 TA TA TA TA CA TA TA CTA TA GG T- 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
* * *
55215 TA GTT TA TA TA TA CTA TA CA TA GTT TA TA TA TA TA T
1 TA -TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA T
55251 GTACTATAAG
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
1 1 0.02
2 53 0.88
3 6 0.10
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (2 bp):
TA
Found at i:55192 original size:24 final size:22
Alignment explanation
Indices: 55144--55258 Score: 112
Period size: 24 Copynumber: 5.2 Consensus size: 22
55134 AGGTTACATA
55144 TATAGTTTATATA-ACATATA-
1 TATAGTTTATATATACATATAC
*
55164 AATAGATTGTATATATACATATAC
1 TATAG-TT-TATATATACATATAC
* *
55188 TATAGGTTATATATATATATATATA
1 TATA-GTT-TATATATACATATA-C
55213 TATAGTTTATATATAC-TATAC
1 TATAGTTTATATATACATATAC
* *
55234 -ATAGTTTATATATATATGTAC
1 TATAGTTTATATATACATATAC
55255 TATA
1 TATA
55259 AGTTACATAT
Statistics
Matches: 78, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
20 18 0.23
21 6 0.08
22 13 0.17
23 15 0.19
24 21 0.27
25 5 0.06
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (22 bp):
TATAGTTTATATATACATATAC
Found at i:55224 original size:69 final size:67
Alignment explanation
Indices: 55141--55271 Score: 183
Period size: 67 Copynumber: 1.9 Consensus size: 67
55131 TATAGGTTAC
* *
55141 ATATATAGTTTATATA-ACATATAAATAGATTGTATATATACATATACTATAGGTTATATATATA
1 ATATATAGTTTATATATAC-TATAAATAG-TT-TATATATACATATACTATAAGTTACATATATA
55205 TATAT
63 TATAT
* * *
55210 ATATATAGTTTATATATACTATACATAGTTTATATATATATGTACTATAAGTTACATATATA
1 ATATATAGTTTATATATACTATAAATAGTTTATATATACATATACTATAAGTTACATATATA
55272 GTTTACATGT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
67 28 0.50
68 2 0.04
69 24 0.43
70 2 0.04
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (67 bp):
ATATATAGTTTATATATACTATAAATAGTTTATATATACATATACTATAAGTTACATATATATAT
AT
Found at i:55438 original size:14 final size:14
Alignment explanation
Indices: 55421--55459 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
55411 TAGTTTAGGG
55421 TTTAAGGTTTAAGA
1 TTTAAGGTTTAAGA
* *
55435 TTTATGGTTTAATA
1 TTTAAGGTTTAAGA
*
55449 TTTAGGGTTTA
1 TTTAAGGTTTA
55460 TGGTTTCTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (14 bp):
TTTAAGGTTTAAGA
Found at i:55443 original size:21 final size:21
Alignment explanation
Indices: 55414--55465 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
55404 ATATATATAG
* *
55414 TTTAGGGTTTAAGGTTTAAGA
1 TTTATGGTTTAAGATTTAAGA
* * *
55435 TTTATGGTTTAATATTTAGGG
1 TTTATGGTTTAAGATTTAAGA
55456 TTTATGGTTT
1 TTTATGGTTT
55466 CTATAAACTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (21 bp):
TTTATGGTTTAAGATTTAAGA
Found at i:55522 original size:25 final size:24
Alignment explanation
Indices: 55491--55542 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 24
55481 TTTATTACTT
55491 TATATAGTTTATATATATATATACA
1 TATATAGTTTATATATA-ATATACA
*
55516 TATATAGTTTATATATACTATACA
1 TATATAGTTTATATATAATATACA
55540 TAT
1 TAT
55543 TTTTTATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (24 bp):
TATATAGTTTATATATAATATACA
Found at i:55552 original size:20 final size:19
Alignment explanation
Indices: 55506--55555 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
55496 AGTTTATATA
*
55506 TATATATACATATATAGTT
1 TATATATACATACATAGTT
*
55525 TATATATACTATACATATTT
1 TATATATAC-ATACATAGTT
*
55545 TTTATATACAT
1 TATATATACAT
55556 GTAGTATAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (19 bp):
TATATATACATACATAGTT
Found at i:55707 original size:2 final size:2
Alignment explanation
Indices: 55700--56015 Score: 101
Period size: 2 Copynumber: 166.0 Consensus size: 2
55690 TTCTATAAAC
*
55700 TA TA TA TA TA TA -A TA TA -A TA TA GA T- TA CT- TA TA T- TA GT-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA
* * *
55738 TA TA CA TA CA TA TA TA TA CTA TA T- TA -A TA TA AA T- TA TA T-
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
55777 TT TA TA AA CTA TA TA T- TT TA TA TA GTT TA -A 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
* * *
55819 TA TA TA TA TA TA T- TA -A TA TA AA T- TA TA GTT TA TA AA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA
* ** * * * * *
55860 TA CT- TT TA TA GC T- TA TA CA TA TA TA GTT TA TA TA AA CA -A AA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * ** *
55901 TT TA TG TA TA TA TA TA GC T- TA TA -A TA -A T- TA TA TA GTT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * *
55940 TA -A TA TA AA TA TA -A TT TA TA TA TA AA CT- 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
55979 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56016 ATGAGAAAAT
Statistics
Matches: 230, Mismatches: 46, Indels: 76
0.65 0.13 0.22
Matches are distributed among these distances:
1 27 0.12
2 192 0.83
3 11 0.05
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:55882 original size:70 final size:71
Alignment explanation
Indices: 55738--55893 Score: 217
Period size: 70 Copynumber: 2.2 Consensus size: 71
55728 TTATATTAGT
* * * * *
55738 TATACATACATATATATACTATATTAATATAAATTATATTTTATAAACTATATATTTTATATAGT
1 TATATATATATATATATACTATATTAATATAAATTATAGTTTATAAACTATATACTTTATATAGC
*
55803 TTAATA
66 TTAACA
55809 TATATATATATATATATA-TATATTAATATAAATTATAGTTTATAAACTATATACTTT-TATAGC
1 TATATATATATATATATACTATATTAATATAAATTATAGTTTATAAACTATATACTTTATATAGC
55872 TTATACA
66 TTA-ACA
*
55879 TATATAGTTTATATA
1 TATATA-TATATATA
55894 AACAAAATTT
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
69 8 0.11
70 45 0.59
71 23 0.30
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (71 bp):
TATATATATATATATATACTATATTAATATAAATTATAGTTTATAAACTATATACTTTATATAGC
TTAACA
Found at i:56233 original size:21 final size:21
Alignment explanation
Indices: 56203--56367 Score: 137
Period size: 21 Copynumber: 8.0 Consensus size: 21
56193 GATTTACATA
* *
56203 TTCGCATTGCGATATTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
56224 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
56245 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
56266 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
56285 TTCGCGTTGCGATTTA-TCACAAA
1 TTCGCGTTGCGA--TAGTC-CAAG
56308 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* * * *
56327 TTCGCATTGCAATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
56350 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
56368 AATCACAACG
Statistics
Matches: 115, Mismatches: 19, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
19 30 0.26
20 2 0.02
21 65 0.57
22 2 0.02
23 16 0.14
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:56255 original size:42 final size:40
Alignment explanation
Indices: 56203--56367 Score: 213
Period size: 42 Copynumber: 4.0 Consensus size: 40
56193 GATTTACATA
* *
56203 TTCGCATTGCGATATTCCAAGTTCGCGTTGCGATAGTCGAAG
1 TTCGCATTGCGATATTCCAAATT--CGTTGCGATAGTCCAAG
* *
56245 TTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCCAAG
1 TTCGCATTGCGATATTCCAAATTCGTTGCGATAGTCCAAG
* *
56285 TTCGCGTTGCGATTTATCACAAATTCGTTGCGATAGTCCAAG
1 TTCGCATTGCGATAT-TC-CAAATTCGTTGCGATAGTCCAAG
*
56327 TTCGCATTGCAATTTATTCCAAATTCGTTGCGATAGTCCAA
1 TTCGCATTGCGA--TATTCCAAATTCGTTGCGATAGTCCAA
56368 AATCACAACG
Statistics
Matches: 112, Mismatches: 7, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
40 31 0.28
41 2 0.02
42 75 0.67
43 2 0.02
44 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (40 bp):
TTCGCATTGCGATATTCCAAATTCGTTGCGATAGTCCAAG
Found at i:56325 original size:61 final size:60
Alignment explanation
Indices: 56209--56330 Score: 140
Period size: 61 Copynumber: 2.0 Consensus size: 60
56199 CATATTCGCA
* * * **
56209 TTGCGATATTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAATTC-CGTTGCGATAGTCCAAATTCG
*
56270 TTGCGATAGTCCAAGTTCGCGTTGCGATTTA-TCACAAATT-CGTTGCGATAGTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA--TAGTC-CAAATTCCGTTGCGATAGTCCAAATTCG
56331 CATTGCAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
61 44 0.85
62 2 0.04
63 6 0.12
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (60 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAATTCCGTTGCGATAGTCCAAATTCG
Found at i:57277 original size:42 final size:42
Alignment explanation
Indices: 57228--57744 Score: 735
Period size: 42 Copynumber: 12.5 Consensus size: 42
57218 TGCGATTTTG
* *
57228 GACTATCGCAACGAATTTGGAATAAATCGCAATGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
57270 GACTATCGCAATGAACTTGGAATAAATCGCAATGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
57312 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
57354 GACTATCGCAACGAACTTGGACT--ATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
57394 GACTATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
57436 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
57478 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
57520 GACTATCGCAACGAACTTGGACT--ATCGCAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
57560 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* ** *
57602 GACTATCGCAACGAACTTGGACT--ATCGCATTGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* * * ** *
57642 GACTATCGCAATGAACTTGCACT--ATCGCATTGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* * *
57682 GATTATCGCAACGAATTTGGAATAAATCGCAACGTGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
57724 GACTGTCGCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
57745 CTATCGCATT
Statistics
Matches: 433, Mismatches: 36, Indels: 12
0.90 0.07 0.02
Matches are distributed among these distances:
40 146 0.34
42 287 0.66
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
Found at i:57423 original size:82 final size:83
Alignment explanation
Indices: 57228--57744 Score: 738
Period size: 82 Copynumber: 6.3 Consensus size: 83
57218 TGCGATTTTG
* *
57228 GACTATCGCAACGAATTTGGAATAAATCGCAATGCGAACTTCGACTATCGCAATGAACTTGGAAT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
*
57293 AAATCGCAATGCGAACTTC
66 -AATCGCAACGCGAACTTC
* *
57312 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGACT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
57377 -ATCGCAACGCGAACTTC
66 AATCGCAACGCGAACTTC
*
57394 GACTATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGACTATCGCAACGAACTTGGAAT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
*
57459 AAATCGCAACGCGAACTTG
66 -AATCGCAACGCGAACTTC
*
57478 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGACT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
*
57543 -ATCGCAACGCGAACTTG
66 AATCGCAACGCGAACTTC
* *
57560 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGACT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
** *
57625 -ATCGCATTGCGAACTTG
66 AATCGCAACGCGAACTTC
* * * * ** * * *
57642 GACTATCGCAATGAACTTGCACT--ATCGCATTGCGAACTTGGATTATCGCAACGAATTTGGAAT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
*
57705 AAATCGCAACGTGAACTTC
66 -AATCGCAACGCGAACTTC
* *
57724 GACTGTCGCAACGAACTTGGA
1 GACTATCGCAACGAATTTGGA
57745 CTATCGCATT
Statistics
Matches: 399, Mismatches: 30, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
80 35 0.09
82 224 0.56
84 140 0.35
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (83 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
AATCGCAACGCGAACTTC
Found at i:57502 original size:166 final size:166
Alignment explanation
Indices: 57228--57744 Score: 790
Period size: 166 Copynumber: 3.1 Consensus size: 166
57218 TGCGATTTTG
* *
57228 GACTATCGCAACGAATTTGGAATAAATCGCAATGCGAACTTCGACTATCGCAATGAACTTGGAAT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
*
57293 AAATCGCAATGCGAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACT
66 AAATCGCAATGCGAACTTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACT
57358 ATCGCAACGAACTTGGACTATCGCAACGCGAACTTC
131 ATCGCAACGAACTTGGACTATCGCAACGCGAACTTC
*
57394 GACTATCGCAACGAATTTGGAATAAATCGCAACGCAAACTTCGACTATCGCAACGAACTTGGAAT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
* *
57459 AAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
66 AAATCGCAATGCGAACTTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACT
*
57524 ATCGCAACGAACTTGGACTATCGCAACGCGAACTTG
131 ATCGCAACGAACTTGGACTATCGCAACGCGAACTTC
* *
57560 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGACT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
* * * * ** * *
57625 --ATCGCATTGCGAACTTGGACTATCGCAATGAACTTGCACT--ATCGCATTGCGAACTTGGATT
66 AAATCGCAATGCGAACTTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACT
* * *
57686 ATCGCAACGAATTTGGAATAAATCGCAACGTGAACTTC
131 ATCGCAACGAACTTGGACT--ATCGCAACGCGAACTTC
* *
57724 GACTGTCGCAACGAACTTGGA
1 GACTATCGCAACGAATTTGGA
57745 CTATCGCATT
Statistics
Matches: 323, Mismatches: 26, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
162 34 0.11
164 68 0.21
166 221 0.68
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (166 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
AAATCGCAATGCGAACTTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACT
ATCGCAACGAACTTGGACTATCGCAACGCGAACTTC
Found at i:59800 original size:10 final size:10
Alignment explanation
Indices: 59785--59816 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
59775 AATTAAAAAT
59785 ATTTTTTTAA
1 ATTTTTTTAA
59795 ATTTTTTTAA
1 ATTTTTTTAA
59805 ATTTTTTTAA
1 ATTTTTTTAA
59815 AT
1 AT
59817 GAAATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
ATTTTTTTAA
Found at i:64175 original size:16 final size:15
Alignment explanation
Indices: 64154--64189 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
64144 TTAGATAATC
64154 ATTTTTATATATATTA
1 ATTTTTATATA-ATTA
64170 ATTTTTATATAATTA
1 ATTTTTATATAATTA
64185 ATTTT
1 ATTTT
64190 GGCATGACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTTTATATAATTA
Found at i:65752 original size:44 final size:44
Alignment explanation
Indices: 65701--65807 Score: 153
Period size: 44 Copynumber: 2.4 Consensus size: 44
65691 AATAAATGCT
**
65701 TGCGAACTAGATATCATGTGGTTAGGTT-TTTTTCCGAACAAGCA
1 TGCGAACTAGATATCATGCAGTTAGGTTATTTTT-CGAACAAGCA
*
65745 TGTGAACTAGATATCATGCAGTTAGGTTATTTTTCGAACAAGCA
1 TGCGAACTAGATATCATGCAGTTAGGTTATTTTTCGAACAAGCA
* *
65789 TGCAAATTAGATATCATGC
1 TGCGAACTAGATATCATGC
65808 GGATAGGATT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 51 0.91
45 5 0.09
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.34
Consensus pattern (44 bp):
TGCGAACTAGATATCATGCAGTTAGGTTATTTTTCGAACAAGCA
Found at i:76133 original size:29 final size:30
Alignment explanation
Indices: 76091--76154 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
76081 GCAAGCCTTA
* * *
76091 GAAAAATTGGGGATCATTTCGTAAGTTTT-
1 GAAAAATTGGGGATAAATTCGTAAATTTTG
* *
76120 GAAAAGTTTGGGATAAATTCGTAAATTTTG
1 GAAAAATTGGGGATAAATTCGTAAATTTTG
76150 GAAAA
1 GAAAA
76155 TTGATGAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.34
Consensus pattern (30 bp):
GAAAAATTGGGGATAAATTCGTAAATTTTG
Found at i:77790 original size:49 final size:45
Alignment explanation
Indices: 77693--77813 Score: 143
Period size: 49 Copynumber: 2.6 Consensus size: 45
77683 GTAACCATAC
*
77693 AAATAAGCTTATGAGCTTACGGAATAATGGCAAGTATATTGAAAA
1 AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTGAAAA
* * * **
77738 AAATAAGCTTACGAGCTTATGGAATTTTAAATGGTAAGTATTTTGGTAA
1 AAATAAGCTTATGAGCTTATGGAA---T-AATGGCAAGTATATTGAAAA
*
77787 AAATAAGCTTATGAGCTTATGGGATAA
1 AAATAAGCTTATGAGCTTATGGAATAA
77814 AAGGTAAGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
45 24 0.38
46 1 0.02
48 1 0.02
49 38 0.59
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTGAAAA
Found at i:79579 original size:6 final size:6
Alignment explanation
Indices: 79568--79622 Score: 110
Period size: 6 Copynumber: 9.2 Consensus size: 6
79558 AAGACTTATG
79568 GGTCAT GGTCAT GGTCAT GGTCAT GGTCAT GGTCAT GGTCAT GGTCAT
1 GGTCAT GGTCAT GGTCAT GGTCAT GGTCAT GGTCAT GGTCAT GGTCAT
79616 GGTCAT G
1 GGTCAT G
79623 ATACAAGTGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.16, C:0.16, G:0.35, T:0.33
Consensus pattern (6 bp):
GGTCAT
Found at i:84749 original size:49 final size:46
Alignment explanation
Indices: 84638--84759 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 46
84628 ATAACCATGC
*
84638 AAATAAGCTTATGAGCTTACGGAATAATGGCAAGTATATTGAAAAA
1 AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTGAAAAA
* * * **
84684 AAATAAGCTTACGAGCTTATGGAATTTTAAATGGTAAGTATTTTG-GTAA
1 AAATAAGCTTATGAGCTTATGGAA---T-AATGGCAAGTATATTGAAAAA
*
84733 AAATAAGCTTATGAGCTTATGGGATAA
1 AAATAAGCTTATGAGCTTATGGAATAA
84760 AAGGTAAGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
45 2 0.03
46 23 0.36
49 25 0.39
50 14 0.22
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.31
Consensus pattern (46 bp):
AAATAAGCTTATGAGCTTATGGAATAATGGCAAGTATATTGAAAAA
Found at i:85941 original size:8 final size:8
Alignment explanation
Indices: 85887--85977 Score: 59
Period size: 8 Copynumber: 11.6 Consensus size: 8
85877 AATGAAAATG
85887 GAAAAAGA
1 GAAAAAGA
*
85895 AAAAAAGA
1 GAAAAAGA
85903 GAAAATA-A
1 GAAAA-AGA
*
85911 -AAAATGA
1 GAAAAAGA
85918 TGAAGAAA-A
1 -GAA-AAAGA
85927 TGAAAAAGA
1 -GAAAAAGA
85936 GAAAAAGA
1 GAAAAAGA
85944 GAAAAAG-
1 GAAAAAGA
* *
85951 GGAAAGGA
1 GAAAAAGA
*
85959 -AAAAAAA
1 GAAAAAGA
85966 GAAAAAGA
1 GAAAAAGA
85974 -AAAA
1 GAAAA
85978 GAAAAATGGG
Statistics
Matches: 65, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
7 18 0.28
8 36 0.55
9 9 0.14
10 2 0.03
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (8 bp):
GAAAAAGA
Found at i:85962 original size:49 final size:47
Alignment explanation
Indices: 85863--85963 Score: 130
Period size: 49 Copynumber: 2.1 Consensus size: 47
85853 TCGCTTGAAG
* * *
85863 AAAATTGATGAAAAAATGAAAATGGAAAAAGAAAAAAAGAGAAAATA
1 AAAAATGATGAAAAAATGAAAAAGGAAAAAGAAAAAAAGAGAAAAGA
* * *
85910 AAAAATGATGAAGAAAATGAAAAAGAGAAAAAGAGAAAAAGGGAAAGGA
1 AAAAATGATGAA-AAAATGAAAAAG-GAAAAAGAAAAAAAGAGAAAAGA
85959 AAAAA
1 AAAAA
85964 AAGAAAAAGA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 11 0.24
48 11 0.24
49 24 0.52
ACGTcount: A:0.70, C:0.00, G:0.21, T:0.09
Consensus pattern (47 bp):
AAAAATGATGAAAAAATGAAAAAGGAAAAAGAAAAAAAGAGAAAAGA
Found at i:85970 original size:6 final size:6
Alignment explanation
Indices: 85961--86050 Score: 56
Period size: 6 Copynumber: 13.7 Consensus size: 6
85951 GGAAAGGAAA
* * *
85961 AAAAAG AAAAAG AAAAAG AAAAATGGG AAAATGG AAGAA- AAAATG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAA---G AAAA-AG AAAAAG AAAAAG AAAAAG
*
86012 AAAAACA AAAAGAG AAAAATG AAAAATG AAAAAAG AAAA
1 AAAAA-G AAAA-AG AAAAA-G AAAAA-G -AAAAAG AAAA
86051 TAAAAGGGGG
Statistics
Matches: 67, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
5 3 0.04
6 32 0.48
7 21 0.31
8 6 0.09
9 5 0.07
ACGTcount: A:0.76, C:0.01, G:0.18, T:0.06
Consensus pattern (6 bp):
AAAAAG
Found at i:86031 original size:39 final size:37
Alignment explanation
Indices: 85956--86050 Score: 106
Period size: 39 Copynumber: 2.6 Consensus size: 37
85946 AAAAGGGAAA
* *
85956 GGAAAAAAAAGAAAAAGAAAAAGAAAAATGGGAAAAT
1 GGAAAAAAAAGAAAAAGAAAAACAAAAATGGAAAAAT
85993 GGAAGAAAAAATGAAAAAGAAAAACAAAAA-GAGAAAAAT
1 GGAA-AAAAAA-GAAAAAGAAAAACAAAAATG-GAAAAAT
**
86032 -GAAAAATGA-AAAAAGAAAA
1 GGAAAAAAAAGAAAAAGAAAA
86051 TAAAAGGGGG
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
35 10 0.20
37 8 0.16
38 10 0.20
39 23 0.45
ACGTcount: A:0.75, C:0.01, G:0.19, T:0.05
Consensus pattern (37 bp):
GGAAAAAAAAGAAAAAGAAAAACAAAAATGGAAAAAT
Found at i:86049 original size:14 final size:14
Alignment explanation
Indices: 85870--86050 Score: 74
Period size: 14 Copynumber: 12.5 Consensus size: 14
85860 AAGAAAATTG
85870 ATGAAAAAATG-AAA
1 ATGAAAAAA-GAAAA
*
85884 ATGGAAAAAGAAAAA
1 ATGAAAAAAG-AAAA
*
85899 AAGAGAAAATA-AAAA
1 ATGA-AAAA-AGAAAA
**
85914 ATG-ATGAAG-AAA
1 ATGAAAAAAGAAAA
85926 ATGAAAAAGAGAAAA
1 ATGAAAAA-AGAAAA
**
85941 A-GAGAAAAAGGGAA
1 ATGA-AAAAAGAAAA
*
85955 AGGAAAAAAAAGAAAA
1 ATG--AAAAAAGAAAA
85971 A-G-AAAAAGAAAA
1 ATGAAAAAAGAAAA
85983 ATGGGAAAATGGAAGAAAAA
1 AT--GAAAA---AAG-AAAA
86003 ATG-AAAAAGAAAA
1 ATGAAAAAAGAAAA
*
86016 A-CAAAAAGAGAAAA
1 ATGAAAAA-AGAAAA
*
86030 ATGAAAAATGAAAA
1 ATGAAAAAAGAAAA
*
86044 AAGAAAA
1 ATGAAAA
86051 TAAAAGGGGG
Statistics
Matches: 128, Mismatches: 16, Indels: 46
0.67 0.08 0.24
Matches are distributed among these distances:
12 18 0.14
13 14 0.11
14 38 0.30
15 27 0.21
16 16 0.12
17 5 0.04
18 1 0.01
19 3 0.02
20 6 0.05
ACGTcount: A:0.73, C:0.01, G:0.20, T:0.07
Consensus pattern (14 bp):
ATGAAAAAAGAAAA
Found at i:87119 original size:16 final size:17
Alignment explanation
Indices: 87082--87116 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
87072 AGGTTTCCTA
87082 AAGATAGTTGAAGATTG
1 AAGATAGTTGAAGATTG
87099 AAGATA-TTGAAGCATTG
1 AAGATAGTTGAAG-ATTG
87116 A
1 A
87117 GATGAAGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.43, C:0.03, G:0.26, T:0.29
Consensus pattern (17 bp):
AAGATAGTTGAAGATTG
Found at i:87514 original size:55 final size:55
Alignment explanation
Indices: 87425--87730 Score: 361
Period size: 55 Copynumber: 5.6 Consensus size: 55
87415 GTTGAAAATT
* * **
87425 GAGTCCTATACTCTCTGAAGGAATAGAGAACGGACATGTTTTATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
*
87480 GAGTTCTATACTCTCTGAAGAAATAGAGAGCGGACCCGTTTGT-TGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTT-TATGAAGATTGTTC
* *
87535 GAGTTCTATACTATCTGAAGGAATGGAGAGCGGACCCGTTTTATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
* *
87590 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGAACCCATTTTATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
* * * * * * * *
87645 GAGTTCTGTACTCCCTTAA-CAGATAGGGAACGAACCCG-TTTATTGAAAATTGTTC
1 GAGTTCTATACTCTCTGAAGGA-ATAGAGAGCGGACCCGTTTTA-TGAAGATTGTTC
* *
87700 GAG-TCATATACTC-CTTGAATGAATAGGGAGC
1 GAGTTC-TATACTCTC-TGAAGGAATAGAGAGC
87731 AGATACATTT
Statistics
Matches: 220, Mismatches: 24, Indels: 14
0.85 0.09 0.05
Matches are distributed among these distances:
54 9 0.04
55 209 0.95
56 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (55 bp):
GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTC
Found at i:87750 original size:165 final size:165
Alignment explanation
Indices: 87425--87767 Score: 388
Period size: 165 Copynumber: 2.1 Consensus size: 165
87415 GTTGAAAATT
* * **
87425 GAGTCCTATACTCTCTGAAGGAATAGAGAACGGACATGTTTTATGAAGATTGTTCGAGTTCTATA
1 GAGTTCTATACTCTCTGAAGGAATAGAGAACGAACACATTTTATGAAGATTGTTCGAGTTCTATA
* * * * * *
87490 CTCTCTGAAGAAATAGAGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTTCTATACTATCTGAAG
66 CTCCCTGAACAAATAGAGAACGAACCCGTTTATTGAAAATTGTTCGAGTTCTATACTATCTGAAG
* * * * *
87555 GAATGGAGAGCGGACCCGTTTTATGAAGATTGTTC
131 GAATGGAGAGCAGACACATTTGACGAAGATTGTTC
* * *
87590 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGAACCCATTTTATGAAGATTGTTCGAGTTCTGTA
1 GAGTTCTATACTCTCTGAAGGAATAGAGAACGAACACATTTTATGAAGATTGTTCGAGTTCTATA
* * * *
87655 CTCCCTTAACAGATAGGGAACGAACCCGTTTATTGAAAATTGTTCGAG-TCATATACT-CCTTGA
66 CTCCCTGAACAAATAGAGAACGAACCCGTTTATTGAAAATTGTTCGAGTTC-TATACTATC-TGA
* * *
87718 ATGAATAGG-GAGCAGATACATTTGCCGAAGATTGTTC
129 AGGAAT-GGAGAGCAGACACATTTGACGAAGATTGTTC
*
87755 AAG-TCTTATACTC
1 GAGTTC-TATACTC
87768 CTTAAAAGAA
Statistics
Matches: 148, Mismatches: 26, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
164 5 0.03
165 141 0.95
166 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (165 bp):
GAGTTCTATACTCTCTGAAGGAATAGAGAACGAACACATTTTATGAAGATTGTTCGAGTTCTATA
CTCCCTGAACAAATAGAGAACGAACCCGTTTATTGAAAATTGTTCGAGTTCTATACTATCTGAAG
GAATGGAGAGCAGACACATTTGACGAAGATTGTTC
Found at i:87803 original size:55 final size:55
Alignment explanation
Indices: 87464--87815 Score: 176
Period size: 55 Copynumber: 6.4 Consensus size: 55
87454 ACGGACATGT
* * * * *
87464 TTTA-TGAAGATTGTTCGAGT-TCTATACTCTCTGAAGA-AATAGAGAGCGGACCCG
1 TTTATTGAAGATTGTTCAAGTCT-TATACTC-CTTAAAAGAATAGGGAGCAGACCCG
* * * * * *
87518 TTTGTTGAAGATTGTTCGAGT-TCTATACT-ATCTGAAGGAAT-GGAGAGCGGACCCG
1 TTTATTGAAGATTGTTCAAGTCT-TATACTCCT-TAAAAGAATAGG-GAGCAGACCCG
* * * * *
87573 TTT-TATGAAGATTGTTCGAGT-TCTATACT-CTCTGAAGGAATAGAGAGC-GAACCCA
1 TTTAT-TGAAGATTGTTCAAGTCT-TATACTCCT-TAAAAGAATAGGGAGCAG-ACCCG
* * * *
87628 TTT-TATGAAGATTGTTCGAGT-TCTGTACTCCCTTAACAG-ATAGGGAAC-GAACCCG
1 TTTAT-TGAAGATTGTTCAAGTCT-TATACT-CCTTAAAAGAATAGGGAGCAG-ACCCG
* * * * * ** *
87683 TTTATTGAAAATTGTTCGAGTCATATACTCCTTGAATGAATAGGGAGCAGATACA
1 TTTATTGAAGATTGTTCAAGTCTTATACTCCTTAAAAGAATAGGGAGCAGACCCG
*** *
87738 TTTGCCGAAGATTGTTCAAGTCTTATACTCCTTAAAAGAATATGGAGCAGACCCG
1 TTTATTGAAGATTGTTCAAGTCTTATACTCCTTAAAAGAATAGGGAGCAGACCCG
*
87793 -TTATTTGAAGATTTTTCAAGTCT
1 TTTA-TTGAAGATTGTTCAAGTCT
87816 CGCTTATCAT
Statistics
Matches: 241, Mismatches: 43, Indels: 27
0.77 0.14 0.09
Matches are distributed among these distances:
53 1 0.00
54 15 0.06
55 217 0.90
56 6 0.02
57 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (55 bp):
TTTATTGAAGATTGTTCAAGTCTTATACTCCTTAAAAGAATAGGGAGCAGACCCG
Found at i:89462 original size:2 final size:2
Alignment explanation
Indices: 89455--89487 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
89445 AGATAATCAT
89455 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 T
89488 TTGTATAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:90968 original size:33 final size:34
Alignment explanation
Indices: 90926--90989 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
90916 TTTAATATAA
* *
90926 TATATAATTAATCAT-AATTTATATTTATTAATCT
1 TATATAATTAAT-ATAAAATCATATTTATTAATCT
90960 TATA-AATTAATATAAAATCATATTTATTAA
1 TATATAATTAATATAAAATCATATTTATTAA
90990 CATCAGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 2 0.07
33 21 0.78
34 4 0.15
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (34 bp):
TATATAATTAATATAAAATCATATTTATTAATCT
Found at i:91699 original size:55 final size:54
Alignment explanation
Indices: 91628--91970 Score: 316
Period size: 55 Copynumber: 6.2 Consensus size: 54
91618 GATTTTAATT
* *
91628 TTTTATGAAGATTGTTCGAGTTCTATACTCTCTGAAGAAATAGAGAGCGGACCCG
1 TTTT-TGAAGATTGTTCGAGTTCTATACTCTCTGAAGAAATAGAGAGCAGACCCA
* * * * *
91683 TTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATGGAGAGCGGACTCG
1 TTT-TTGAAGATTGTTCGAGTTCTATACTCTCTGAAGAAATAGAGAGCAGACCCA
* * *
91738 TTTTATGAAGATTATTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCA
1 TTTT-TGAAGATTGTTCGAGTTCTATACTCTCTGAAGAAATAGAGAGCAGACCCA
* * * * *
91793 TTTTATGAAGATTGTTCGAGTTCTGTACTCCCTGAACAGATAGGGAGCAGACCCA
1 TTTT-TGAAGATTGTTCGAGTTCTATACTCTCTGAAGAAATAGAGAGCAGACCCA
* ** * *
91848 TTTATTGAAGATTGTTCAAG-TCATATACTC-CTTGAATTAATAGGGAGCAGACACA
1 TTT-TTGAAGATTGTTCGAGTTC-TATACTCTC-TGAAGAAATAGAGAGCAGACCCA
** * * * * *
91903 TTTGCCGAAGATTGTTCAAG-TCTTATACTC-CTTAAAAGAATAGGGAGCAGACCCG
1 TTT-TTGAAGATTGTTCGAGTTC-TATACTCTCTGAAGA-AATAGAGAGCAGACCCA
91958 TTATTTGAAGATT
1 TT-TTTGAAGATT
91971 TTTCAAGTCT
Statistics
Matches: 249, Mismatches: 32, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
54 7 0.03
55 239 0.96
56 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (54 bp):
TTTTTGAAGATTGTTCGAGTTCTATACTCTCTGAAGAAATAGAGAGCAGACCCA
Found at i:91915 original size:165 final size:165
Alignment explanation
Indices: 91628--91932 Score: 375
Period size: 165 Copynumber: 1.8 Consensus size: 165
91618 GATTTTAATT
* * * * *
91628 TTTTATGAAGATTGTTCGAGTTCTATACTCTCTGAAGAAATAGAGAGCGGACCCGTTTGTTGAAG
1 TTTTATGAAGATTGTTCGAGTTCTATACTCCCTGAACAAATAGAGAGCAGACCCATTTATTGAAG
* * * * * * *
91693 ATTGTTCGAGTTCTATACTCTCTGAAGGAATGGAGAGCGGACTCGTTTTATGAAGATTATTCGAG
66 ATTGTTCAAGTTCTATACTCTCTGAAGGAATGGAGAGCAGACACATTTGACGAAGATTATTCAAG
91758 T-TCTATACTCTCTGAAGGAATAGAGAGCGGACCCA
131 TCT-TATACTCTCTGAAGGAATAGAGAGCGGACCCA
* * *
91793 TTTTATGAAGATTGTTCGAGTTCTGTACTCCCTGAACAGATAGGGAGCAGACCCATTTATTGAAG
1 TTTTATGAAGATTGTTCGAGTTCTATACTCCCTGAACAAATAGAGAGCAGACCCATTTATTGAAG
** * *
91858 ATTGTTCAAG-TCATATACTC-CTTGAATTAATAGG-GAGCAGACACATTTGCCGAAGATTGTTC
66 ATTGTTCAAGTTC-TATACTCTC-TGAAGGAAT-GGAGAGCAGACACATTTGACGAAGATTATTC
91920 AAGTCTTATACTC
128 AAGTCTTATACTC
91933 CTTAAAAGAA
Statistics
Matches: 117, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
164 3 0.03
165 111 0.95
166 3 0.03
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.32
Consensus pattern (165 bp):
TTTTATGAAGATTGTTCGAGTTCTATACTCCCTGAACAAATAGAGAGCAGACCCATTTATTGAAG
ATTGTTCAAGTTCTATACTCTCTGAAGGAATGGAGAGCAGACACATTTGACGAAGATTATTCAAG
TCTTATACTCTCTGAAGGAATAGAGAGCGGACCCA
Found at i:91969 original size:165 final size:165
Alignment explanation
Indices: 91628--91970 Score: 374
Period size: 165 Copynumber: 2.1 Consensus size: 165
91618 GATTTTAATT
* * * * *
91628 TTTTATGAAGATTGTTCGAGTTCTATACTCTCTGAAGAAATAGAGAGCGGACCCGTTTGTTGAAG
1 TTTTATGAAGATTGTTCGAGTTCTATACTCCCTGAACAAATAGAGAGCAGACCCATTTATTGAAG
* * * * * * *
91693 ATTGTTCGAGTTCTATACTCTCTGAAGGAATGGAGAGCGGACTCGTTTTATGAAGATTATTCGAG
66 ATTGTTCAAGTTCTATACTCTCTGAAGGAATGGAGAGCAGACACATTTGACGAAGATTATTCAAG
* * *
91758 TTCTATACTCTCTGAAGGAATAGAGAGCGGACCCA
131 TTCTATACTCTCTAAAAGAATAGAGAGCAGACCCA
* * *
91793 TTTTATGAAGATTGTTCGAGTTCTGTACTCCCTGAACAGATAGGGAGCAGACCCATTTATTGAAG
1 TTTTATGAAGATTGTTCGAGTTCTATACTCCCTGAACAAATAGAGAGCAGACCCATTTATTGAAG
** * *
91858 ATTGTTCAAG-TCATATACTC-CTTGAATTAATAGG-GAGCAGACACATTTGCCGAAGATTGTTC
66 ATTGTTCAAGTTC-TATACTCTC-TGAAGGAAT-GGAGAGCAGACACATTTGACGAAGATTATTC
* *
91920 AAG-TCTTATACTC-CTTAAAAGAATAGGGAGCAGACCCG
128 AAGTTC-TATACTCTC-TAAAAGAATAGAGAGCAGACCCA
91958 TTATT-TGAAGATT
1 TT-TTATGAAGATT
91971 TTTCAAGTCT
Statistics
Matches: 148, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
164 6 0.04
165 138 0.93
166 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (165 bp):
TTTTATGAAGATTGTTCGAGTTCTATACTCCCTGAACAAATAGAGAGCAGACCCATTTATTGAAG
ATTGTTCAAGTTCTATACTCTCTGAAGGAATGGAGAGCAGACACATTTGACGAAGATTATTCAAG
TTCTATACTCTCTAAAAGAATAGAGAGCAGACCCA
Found at i:93635 original size:14 final size:16
Alignment explanation
Indices: 93601--93640 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
93591 AGATAATCAT
*
93601 TTTTTATATATATTAA
1 TTTTTGTATATATTAA
93617 TTTTTGTATA-ATTAA
1 TTTTTGTATATATTAA
*
93632 TTTTGGTAT
1 TTTTTGTAT
93641 GACATCCACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (16 bp):
TTTTTGTATATATTAA
Found at i:110113 original size:36 final size:36
Alignment explanation
Indices: 110072--110144 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
110062 ATGATATTTA
110072 AGAGGAATTTGTTCCTACAGATTTAGTAACGATATT
1 AGAGGAATTTGTTCCTACAGATTTAGTAACGATATT
* * * *
110108 AGAGGAATTTGTTCTTATAGATTTAGTAGCGGTATT
1 AGAGGAATTTGTTCCTACAGATTTAGTAACGATATT
110144 A
1 A
110145 TAGACACACA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (36 bp):
AGAGGAATTTGTTCCTACAGATTTAGTAACGATATT
Found at i:110940 original size:17 final size:16
Alignment explanation
Indices: 110918--110975 Score: 55
Period size: 17 Copynumber: 3.6 Consensus size: 16
110908 ATTTAAGAGA
110918 TTTAATATTAATATTAT
1 TTTAATA-TAATATTAT
*
110935 TTTAATAT-ATTTTAT
1 TTTAATATAATATTAT
* *
110950 ATGAATAATAATATTAT
1 TTTAAT-ATAATATTAT
*
110967 TTTATTATA
1 TTTAATATA
110976 TTATGTAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
15 10 0.31
16 6 0.19
17 16 0.50
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TTTAATATAATATTAT
Found at i:111106 original size:22 final size:23
Alignment explanation
Indices: 111063--111107 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
111053 AAATTAATGG
* **
111063 ATTAAATAATTTTTAAGGATTAA
1 ATTAAATAATATTTAAAAATTAA
111086 ATTAAATAA-ATTTAAAAATTAA
1 ATTAAATAATATTTAAAAATTAA
111108 GAGACATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (23 bp):
ATTAAATAATATTTAAAAATTAA
Found at i:111138 original size:13 final size:13
Alignment explanation
Indices: 111117--111186 Score: 52
Period size: 13 Copynumber: 5.4 Consensus size: 13
111107 AGAGACATAA
*
111117 AATAAATTATTTT
1 AATATATTATTTT
*
111130 AATATATTAATTT
1 AATATATTATTTT
**
111143 AATATATT-TAAT
1 AATATATTATTTT
* *
111155 ATTAGTAGTATTTT
1 AATA-TATTATTTT
*
111169 AATTTATTATTTT
1 AATATATTATTTT
*
111182 GATAT
1 AATAT
111187 TAATATTAAA
Statistics
Matches: 41, Mismatches: 14, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
12 4 0.10
13 33 0.80
14 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
AATATATTATTTT
Found at i:111953 original size:19 final size:21
Alignment explanation
Indices: 111921--111965 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
111911 ATCCGACCTG
111921 AAATAATATATTTATT-AA-A
1 AAATAATATATTTATTCAATA
* *
111940 AAATATTATTTTTATTCAATA
1 AAATAATATATTTATTCAATA
111961 AAATA
1 AAATA
111966 GGGATTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 14 0.64
20 2 0.09
21 6 0.27
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATAATATATTTATTCAATA
Found at i:115677 original size:19 final size:19
Alignment explanation
Indices: 115649--115702 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
115639 TTAATTAGTC
115649 TGTTTATTTATGATTT-GAA
1 TGTTTATTTATGATTTAG-A
* * *
115668 TGTTTCTTTATAATTTAGT
1 TGTTTATTTATGATTTAGA
115687 TGTTTATTTATGATTT
1 TGTTTATTTATGATTT
115703 TATTCATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 28 0.97
20 1 0.03
ACGTcount: A:0.22, C:0.02, G:0.13, T:0.63
Consensus pattern (19 bp):
TGTTTATTTATGATTTAGA
Found at i:117443 original size:3 final size:3
Alignment explanation
Indices: 117435--117514 Score: 160
Period size: 3 Copynumber: 26.7 Consensus size: 3
117425 ATTACATTGA
117435 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
117483 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
117515 ATCTAGGGAT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:117841 original size:41 final size:41
Alignment explanation
Indices: 117757--117841 Score: 93
Period size: 40 Copynumber: 2.1 Consensus size: 41
117747 TCATTTCTAA
* **
117757 TTTCAAAATTATTTCACCCTAACATTCTAAATCTCTATTTT
1 TTTCAAAATTATTTCACCCTAACATTCTAAATCTATAAATT
* *
117798 TTTC-AAATTATTTCACCTTAACATT-TAATTATTTATAAATT
1 TTTCAAAATTATTTCACCCTAACATTCTAA--ATCTATAAATT
117839 TTT
1 TTT
117842 AAGTTTTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
39 3 0.08
40 20 0.54
41 14 0.38
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (41 bp):
TTTCAAAATTATTTCACCCTAACATTCTAAATCTATAAATT
Found at i:119027 original size:20 final size:20
Alignment explanation
Indices: 118999--119048 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
118989 GGGAAAATCG
118999 CAATGCGATACTGACTATCA
1 CAATGCGATACTGACTATCA
* * *
119019 CATTGCGATACTTACTATCG
1 CAATGCGATACTGACTATCA
119039 CAATGCGATA
1 CAATGCGATA
119049 ATACAAAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (20 bp):
CAATGCGATACTGACTATCA
Found at i:119061 original size:21 final size:20
Alignment explanation
Indices: 119035--119109 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 20
119025 GATACTTACT
*
119035 ATCGCAATGCGATAATACAAA
1 ATCGCAACGCGATAATAC-AA
* * *
119056 ATCGCAACGAGATACTGAC-T
1 ATCGCAACGCGATAAT-ACAA
*
119076 TTCGCAACGCGATAATACATA
1 ATCGCAACGCGATAATACA-A
*
119097 ATCGCAATGCGAT
1 ATCGCAACGCGAT
119110 TTTCAAAGCG
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
19 2 0.05
20 13 0.32
21 24 0.59
22 2 0.05
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGATAATACAA
Found at i:119082 original size:41 final size:41
Alignment explanation
Indices: 119025--119103 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
119015 ATCACATTGC
* *
119025 GATACTTACTATCGCAATGCGATAATACAAAATCGCAACGA
1 GATACTGACTATCGCAACGCGATAATACAAAATCGCAACGA
* *
119066 GATACTGACTTTCGCAACGCGATAATACATAATCGCAA
1 GATACTGACTATCGCAACGCGATAATACAAAATCGCAA
119104 TGCGATTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.39, C:0.23, G:0.15, T:0.23
Consensus pattern (41 bp):
GATACTGACTATCGCAACGCGATAATACAAAATCGCAACGA
Found at i:119088 original size:61 final size:62
Alignment explanation
Indices: 118992--119109 Score: 150
Period size: 61 Copynumber: 1.9 Consensus size: 62
118982 GTGAATTGGG
* * ** *
118992 AAAATCGCAATGCGATACTGACTATCACATTGCGATACTTAC-T-ATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCACAACGCGATA-ATACATAATCGCAATGCGATAATAC
* *
119053 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATAATACATAATCGCAATGCGAT
1 AAAATCGCAACGAGATACTGACTATCACAACGCGATAATACATAATCGCAATGCGAT
119110 TTTCAAAGCG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
60 3 0.06
61 32 0.67
62 13 0.27
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (62 bp):
AAAATCGCAACGAGATACTGACTATCACAACGCGATAATACATAATCGCAATGCGATAATAC
Found at i:119305 original size:22 final size:22
Alignment explanation
Indices: 119277--119320 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
119267 CACTCTCTCA
119277 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
119299 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
119321 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:119608 original size:20 final size:20
Alignment explanation
Indices: 119572--119628 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
119562 AGTTTCGCGT
**
119572 TGCGATAGTCAAATTCACGC
1 TGCGATAGTCATTTTCACGC
* *
119592 TGCGATAGTCATTTTCATGT
1 TGCGATAGTCATTTTCACGC
**
119612 TGCGATTTTCATTTTCA
1 TGCGATAGTCATTTTCA
119629 GAAACTATTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (20 bp):
TGCGATAGTCATTTTCACGC
Found at i:120970 original size:18 final size:18
Alignment explanation
Indices: 120949--120989 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
120939 TCCACTTCGG
*
120949 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
120967 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
120985 GAGCC
1 GAGCC
120990 TCATCTGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.46, G:0.17, T:0.12
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:121528 original size:19 final size:20
Alignment explanation
Indices: 121474--121540 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
121464 TAATTTACTT
* *
121474 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
121494 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
121514 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
121533 TCGCAACG
1 TCGCAACG
121541 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:121548 original size:14 final size:14
Alignment explanation
Indices: 121529--121583 Score: 65
Period size: 14 Copynumber: 3.6 Consensus size: 14
121519 ATGCGAAATG
121529 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
121543 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
121559 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
121575 AAAATCGCA
1 AAAATCGCA
121584 TCGCGAAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 18 0.51
16 8 0.23
18 9 0.26
ACGTcount: A:0.49, C:0.24, G:0.16, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:121571 original size:32 final size:33
Alignment explanation
Indices: 121513--121603 Score: 159
Period size: 32 Copynumber: 2.8 Consensus size: 33
121503 GGAAATGGCT
121513 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
121546 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
121578 ATCGC-ATCGCGAAATGAAAATCGCAA
1 ATCGCAAT-GCGAAATGAAAATCGCAA
121604 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
31 2 0.04
32 29 0.52
33 25 0.45
ACGTcount: A:0.46, C:0.22, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:121639 original size:14 final size:14
Alignment explanation
Indices: 121620--121710 Score: 65
Period size: 14 Copynumber: 5.9 Consensus size: 14
121610 TTGTGTTTCG
121620 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
121634 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
121650 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
* *
121666 CGTTGCAATTTTCATTT
1 CGTTGCGA-TTT--TGT
121683 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
121699 CGTTGCAATTTT
1 CGTTGCGATTTT
121711 CATTTCGCAT
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
14 25 0.41
15 3 0.05
16 12 0.20
17 4 0.07
18 12 0.20
19 5 0.08
ACGTcount: A:0.13, C:0.18, G:0.21, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:121658 original size:32 final size:33
Alignment explanation
Indices: 121615--121726 Score: 199
Period size: 33 Copynumber: 3.4 Consensus size: 33
121605 GCGATTTGTG
* *
121615 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCAATTTTCA
121647 TTTCGCATTGCGATTTTGTCGTTGCAATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCAATTTTCA
121680 TTTCGCATTGCGATTTTGTCGTTGCAATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCAATTTTCA
121713 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
121727 AGCTATTTCC
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 25 0.32
33 52 0.68
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCAATTTTCA
Found at i:121745 original size:20 final size:20
Alignment explanation
Indices: 121710--121766 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
121700 GTTGCAATTT
*
121710 TCATTT-CGCATTGCGATAG
1 TCATTTCCGCGTTGCGATAG
121729 -CTATTTCCGCGTTGCGATAG
1 TC-ATTTCCGCGTTGCGATAG
*
121749 TCATTTTCGCGTTGCGAT
1 TCATTTCCGCGTTGCGAT
121767 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 1 0.03
19 4 0.12
20 27 0.82
21 1 0.03
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (20 bp):
TCATTTCCGCGTTGCGATAG
Found at i:122215 original size:40 final size:42
Alignment explanation
Indices: 122135--122215 Score: 130
Period size: 40 Copynumber: 2.0 Consensus size: 42
122125 TCACCTGTCA
* *
122135 TCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTATCC
1 TCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTATCC
122177 TCCCTCAAGAGTCCCC-CC-ACCGTTCAAGAGGCCACTATC
1 TCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTATC
122216 ATCGTTGAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 19 0.51
41 2 0.05
42 16 0.43
ACGTcount: A:0.22, C:0.43, G:0.15, T:0.20
Consensus pattern (42 bp):
TCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTATCC
Found at i:123652 original size:14 final size:14
Alignment explanation
Indices: 123633--123668 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
123623 ATTGTTTAAT
123633 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
123647 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
123661 TGATTTGT
1 TGATTTGT
123669 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:123814 original size:14 final size:14
Alignment explanation
Indices: 123795--123848 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
123785 GAAACTGACT
123795 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
123809 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
*
123828 ATTGCAACGAGAAA
1 ATCGCAACGAGAAA
123842 ATCGCAA
1 ATCGCAA
123849 TGCGATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.48, C:0.19, G:0.20, T:0.13
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:123917 original size:20 final size:21
Alignment explanation
Indices: 123890--123949 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 21
123880 GTTGCGATAG
*
123890 CCATTTTCGCGTTGCGATTTT
1 CCATTTTCGCGTTGCGATTTA
* ** *
123911 TCA-TTTCGAATTGCGA-TAA
1 CCATTTTCGCGTTGCGATTTA
123930 CCATTTTCGCGTTGCGATTT
1 CCATTTTCGCGTTGCGATTT
123950 CCCCGTTGCG
Statistics
Matches: 28, Mismatches: 9, Indels: 4
0.68 0.22 0.10
Matches are distributed among these distances:
19 3 0.11
20 22 0.79
21 3 0.11
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.43
Consensus pattern (21 bp):
CCATTTTCGCGTTGCGATTTA
Found at i:123959 original size:34 final size:34
Alignment explanation
Indices: 123860--123962 Score: 98
Period size: 40 Copynumber: 2.9 Consensus size: 34
123850 GCGATTTTTA
* * * *
123860 TTTCGCATTGCGATTTTCTAGTTGCGATAGCCAT
1 TTTCGCGTTGCGATTTCCTCGTTGCGATAACCAT
*
123894 TTTCGCGTTGCGATTTTTCATTTCGAATTGCGATAACCAT
1 TTTCGCGTTGCGA--TTTC--CTCG--TTGCGATAACCAT
*
123934 TTTCGCGTTGCGATTTCCCCGTTGCGATA
1 TTTCGCGTTGCGATTTCCTCGTTGCGATA
123963 GTCAAATGAA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
34 20 0.36
36 5 0.09
38 6 0.11
40 25 0.45
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.41
Consensus pattern (34 bp):
TTTCGCGTTGCGATTTCCTCGTTGCGATAACCAT
Found at i:124252 original size:12 final size:12
Alignment explanation
Indices: 124233--124266 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
124223 CTCTCCGGCG
124233 ACATCCGTTCCT
1 ACATCCGTTCCT
*
124245 ATATCCGTTCCT
1 ACATCCGTTCCT
124257 ACATCC-TTCC
1 ACATCCGTTCC
124267 CCATCCGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:124848 original size:24 final size:24
Alignment explanation
Indices: 124821--124874 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
124811 GTATTCGAAA
*
124821 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
124845 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
124869 TTTGAT
1 TTTGAT
124875 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:125066 original size:12 final size:12
Alignment explanation
Indices: 125049--125073 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
125039 ATATAATCCT
125049 GAAGAAGAAAAA
1 GAAGAAGAAAAA
125061 GAAGAAGAAAAA
1 GAAGAAGAAAAA
125073 G
1 G
125074 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:127385 original size:19 final size:19
Alignment explanation
Indices: 127363--127493 Score: 85
Period size: 19 Copynumber: 7.7 Consensus size: 19
127353 GGAAATTACT
*
127363 ATCGCAATGTGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
127382 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
127396 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
127415 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
127429 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
127448 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
127462 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
127481 ATCGCAACGCGAA
1 ATCGCAATGCGAA
127494 TTTAATTTCG
Statistics
Matches: 83, Mismatches: 14, Indels: 30
0.65 0.11 0.24
Matches are distributed among these distances:
14 27 0.33
15 3 0.04
16 6 0.07
17 5 0.06
18 3 0.04
19 39 0.47
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:127400 original size:33 final size:33
Alignment explanation
Indices: 127363--127489 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
127353 GGAAATTACT
*
127363 ATCGCAATGTGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
127396 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
127428 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
127462 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
127490 CGAATTTAAT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
32 1 0.01
33 82 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:127470 original size:66 final size:66
Alignment explanation
Indices: 127364--127496 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
127354 GAAATTACTA
* *
127364 TCGCAATGTGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
127429 T
66 T
*
127430 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
127495 T
66 T
127496 T
1 T
127497 AATTTCGCGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:127667 original size:13 final size:14
Alignment explanation
Indices: 127651--127685 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
127641 CATCAATTAA
127651 ACAAATCA-CTTTT
1 ACAAATCACCTTTT
127664 ACAAATCACCTTTT
1 ACAAATCACCTTTT
127678 ACAAATCA
1 ACAAATCA
127686 ATTAAACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (14 bp):
ACAAATCACCTTTT
Found at i:129104 original size:21 final size:21
Alignment explanation
Indices: 129038--129104 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
129028 GTGAATCGGG
129038 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAATGGTGGGAGGGGA
* * * ** * *
129058 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAATGGTGGGAGGGGA
129080 CTCTTGAATGGTGGGAGGGGA
1 CTCTTGAATGGTGGGAGGGGA
129101 CTCT
1 CTCT
129105 CGAGGAATGA
Statistics
Matches: 31, Mismatches: 14, Indels: 2
0.66 0.30 0.04
Matches are distributed among these distances:
21 29 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.19, G:0.36, T:0.25
Consensus pattern (21 bp):
CTCTTGAATGGTGGGAGGGGA
Found at i:131282 original size:19 final size:17
Alignment explanation
Indices: 131258--131361 Score: 94
Period size: 18 Copynumber: 6.2 Consensus size: 17
131248 GAGATAATGA
131258 GAATCGCAACGCGAAAT
1 GAATCGCAACGCGAAAT
*
131275 GACTATCGCAA--CGAGA-
1 GA--ATCGCAACGCGAAAT
131291 GAATCGCAACGCGAAAT
1 GAATCGCAACGCGAAAT
* *
131308 GACTATCGCGA--CGAGA-
1 GA--ATCGCAACGCGAAAT
131324 GAATCGCAACGCGAAAT
1 GAATCGCAACGCGAAAT
131341 GAAATCGCAACGCGAAAT
1 G-AATCGCAACGCGAAAT
131359 GAA
1 GAA
131362 AATCGCAATG
Statistics
Matches: 70, Mismatches: 6, Indels: 22
0.71 0.06 0.22
Matches are distributed among these distances:
14 13 0.19
16 12 0.17
17 15 0.21
18 17 0.24
19 13 0.19
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.12
Consensus pattern (17 bp):
GAATCGCAACGCGAAAT
Found at i:131295 original size:33 final size:33
Alignment explanation
Indices: 131256--131352 Score: 169
Period size: 33 Copynumber: 3.0 Consensus size: 33
131246 ACGAGATAAT
131256 GAGAATCGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
*
131289 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
*
131322 GAGAATCGCAACGCGAAATGA-AATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
131353 CGAAATGAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 8 0.13
33 53 0.87
ACGTcount: A:0.39, C:0.24, G:0.26, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Done.