Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold20
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: 3599867
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 51021 characters in sequence are not A, C, G, or T
File 22 of 25
Found at i:3144968 original size:53 final size:54
Alignment explanation
Indices: 3144906--3145033 Score: 127
Period size: 53 Copynumber: 2.4 Consensus size: 54
3144896 AATATTCATA
* * *
3144906 AATTGATAATAATATAAATTTATAT-ATTATTATTGAATTAAATAATATTATTT
1 AATTAATAATAATATAAATTTATATAATAATTATTGAATAAAATAATATTATTT
* * * ** * * *
3144959 TATTAATAAT-TTTTAAAAATAAATAATAATTTTTTAATAAAATAATATTATTT
1 AATTAATAATAATATAAATTTATATAATAATTATTGAATAAAATAATATTATTT
*
3145012 AATTTAT-ATAATATAAATTTAT
1 AATTAATAATAATATAAATTTAT
3145034 CCAAAAATTT
Statistics
Matches: 55, Mismatches: 18, Indels: 4
0.71 0.23 0.05
Matches are distributed among these distances:
52 11 0.20
53 44 0.80
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (54 bp):
AATTAATAATAATATAAATTTATATAATAATTATTGAATAAAATAATATTATTT
Found at i:3145000 original size:23 final size:20
Alignment explanation
Indices: 3144962--3145005 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
3144952 ATTATTTTAT
3144962 TAATAATTTTTAAAAATAAA
1 TAATAATTTTTAAAAATAAA
* *
3144982 TAATAATTTTTTAATA-AAA
1 TAATAATTTTTAAAAATAAA
3145001 TAATA
1 TAATA
3145006 TTATTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TAATAATTTTTAAAAATAAA
Found at i:3145638 original size:28 final size:30
Alignment explanation
Indices: 3145575--3145638 Score: 69
Period size: 32 Copynumber: 2.1 Consensus size: 30
3145565 AAAAATATAG
* * *
3145575 AAATGAGGTTGCTTGATAAATAAAAGAAGTAG
1 AAATGAGATTGCTGGATAAAT-AAAGAAG-AA
3145607 AAATGAGATTGCTGGATAAAT-AAGAA-AA
1 AAATGAGATTGCTGGATAAATAAAGAAGAA
3145635 AAAT
1 AAAT
3145639 TATAAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 5 0.17
30 5 0.17
32 19 0.66
ACGTcount: A:0.52, C:0.03, G:0.22, T:0.23
Consensus pattern (30 bp):
AAATGAGATTGCTGGATAAATAAAGAAGAA
Found at i:3146378 original size:38 final size:39
Alignment explanation
Indices: 3146335--3146413 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 39
3146325 CATATTTATT
3146335 AATAGTGATTAAAGTTGTATTGAATAATAATAAAT-AAA
1 AATAGTGATTAAAGTTGTATTGAATAATAATAAATGAAA
3146373 AATAGTGATTAAAGTTGTATTGAATAATAATAAATGAAA
1 AATAGTGATTAAAGTTGTATTGAATAATAATAAATGAAA
3146412 AA
1 AA
3146414 AATGGAGAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 35 0.88
39 5 0.12
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (39 bp):
AATAGTGATTAAAGTTGTATTGAATAATAATAAATGAAA
Found at i:3147520 original size:32 final size:32
Alignment explanation
Indices: 3147498--3147566 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 32
3147488 TAATTATTTA
3147498 ATAATTTTATTTATTTATTTTTTAATATAAAT
1 ATAATTTTATTTATTTATTTTTTAATATAAAT
* *
3147530 ATAATTTTA---A-TTATTATTTAAAATAAAT
1 ATAATTTTATTTATTTATTTTTTAATATAAAT
3147558 ATAATTTTA
1 ATAATTTTA
3147567 ATAATTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 25 0.71
29 1 0.03
32 9 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (32 bp):
ATAATTTTATTTATTTATTTTTTAATATAAAT
Found at i:3147539 original size:17 final size:17
Alignment explanation
Indices: 3147517--3147569 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
3147507 TTTATTTATT
3147517 TTTTAATATAAATATAA
1 TTTTAATATAAATATAA
3147534 TTTTAAT-T--AT-T-A
1 TTTTAATATAAATATAA
*
3147546 -TTTAAAATAAATATAA
1 TTTTAATATAAATATAA
3147562 TTTTAATA
1 TTTTAATA
3147570 ATTATTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
11 5 0.18
12 2 0.07
13 1 0.04
14 4 0.14
15 1 0.04
16 2 0.07
17 13 0.46
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTTAATATAAATATAA
Found at i:3147544 original size:28 final size:28
Alignment explanation
Indices: 3147507--3147582 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
3147497 AATAATTTTA
* *
3147507 TTTATTTATTTTTTAATATAAATATAAT
1 TTTAATTATTATTTAATATAAATATAAT
*
3147535 TTTAATTATTATTTAAAATAAATATAAT
1 TTTAATTATTATTTAATATAAATATAAT
* *
3147563 TTTAATAATTATTTATTATA
1 TTTAATTATTATTTAATATA
3147583 TATTTTTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
TTTAATTATTATTTAATATAAATATAAT
Found at i:3147696 original size:3 final size:3
Alignment explanation
Indices: 3147683--3147747 Score: 57
Period size: 3 Copynumber: 22.7 Consensus size: 3
3147673 TTTTAATTAC
* * *
3147683 ATT ATT A-T ATT ATT -TA ATT -TT ATT ATA ATA ATT AATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT
*
3147725 ATT ATT ATT ATT ATT TTT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
3147748 CACCAAAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
2 7 0.14
3 41 0.80
4 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:3147698 original size:21 final size:21
Alignment explanation
Indices: 3147656--3147736 Score: 60
Period size: 18 Copynumber: 3.8 Consensus size: 21
3147646 AAATCTAAAC
3147656 ACATATATTATCATTCATTTTAATT
1 ACAT-TATTAT-ATT-ATTT-AATT
3147681 ACATTATTATATTATTTAATT
1 ACATTATTATATTATTTAATT
* *
3147702 ---TTATTATAATAATTAATT
1 ACATTATTATATTATTTAATT
**
3147720 TTATTATTATTATTATT
1 ACATTATTA-TATTATT
3147737 ATTTTTATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
18 16 0.33
21 10 0.21
22 9 0.19
23 3 0.06
24 6 0.12
25 4 0.08
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (21 bp):
ACATTATTATATTATTTAATT
Found at i:3147707 original size:18 final size:18
Alignment explanation
Indices: 3147684--3147747 Score: 74
Period size: 18 Copynumber: 3.4 Consensus size: 18
3147674 TTTAATTACA
3147684 TTATTATATTATTTAATT
1 TTATTATATTATTTAATT
* *
3147702 TTATTATAATAATTAATT
1 TTATTATATTATTTAATT
*
3147720 TTATTATTATTATTATTATTT
1 TTATTA-TATTA-T-TTAATT
3147741 TTATTAT
1 TTATTAT
3147748 CACCAAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
18 22 0.58
19 4 0.11
20 1 0.03
21 11 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATTATATTATTTAATT
Found at i:3147737 original size:21 final size:20
Alignment explanation
Indices: 3147683--3147747 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 20
3147673 TTTTAATTAC
3147683 ATTATTATATTATTTAATTTT
1 ATTATTATATTA-TTAATTTT
*
3147704 ATTA-TA-ATAATTAATTTT
1 ATTATTATATTATTAATTTT
*
3147722 ATTATTATTATTATTATTTTT
1 ATTATTA-TATTATTAATTTT
3147743 ATTAT
1 ATTAT
3147748 CACCAAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
18 12 0.32
19 5 0.13
20 2 0.05
21 19 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTATTATATTATTAATTTT
Found at i:3148301 original size:16 final size:16
Alignment explanation
Indices: 3148257--3148313 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 16
3148247 TAAAATAAAT
*
3148257 ATATAAAATATTA-T-
1 ATATTAAATATTATTA
*
3148271 ATTTTAAAT-TT-TTA
1 ATATTAAATATTATTA
3148285 ATATTAAATATTATTA
1 ATATTAAATATTATTA
3148301 ATATATAAA-ATTA
1 ATAT-TAAATATTA
3148314 ATTTATCAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
13 3 0.09
14 15 0.43
15 2 0.06
16 11 0.31
17 4 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATTAAATATTATTA
Found at i:3149040 original size:11 final size:11
Alignment explanation
Indices: 3149021--3149063 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
3149011 GCATTGCATT
*
3149021 AAATGTTAAAA
1 AAATATTAAAA
*
3149032 AAATTTTAAAA
1 AAATATTAAAA
*
3149043 AGATAATTAAAA
1 AAAT-ATTAAAA
3149055 AAATATTAA
1 AAATATTAA
3149064 TCATTTCTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (11 bp):
AAATATTAAAA
Found at i:3149282 original size:28 final size:26
Alignment explanation
Indices: 3149210--3149284 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 26
3149200 TTTTTATTAA
*
3149210 TTAAGTAATATATTAAATATACATAATTT
1 TTAA-TAATATA-T-AATATAAATAATTT
3149239 TTAA-AA-A-ATAAT-TAAATAATTT
1 TTAATAATATATAATATAAATAATTT
3149261 TTAATTAATATATATATATAAATA
1 TTAA-TAATATATA-ATATAAATA
3149285 TCAATTAAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
22 13 0.33
23 3 0.08
24 3 0.08
25 2 0.05
26 4 0.10
27 4 0.10
28 6 0.15
29 4 0.10
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (26 bp):
TTAATAATATATAATATAAATAATTT
Found at i:3150233 original size:29 final size:29
Alignment explanation
Indices: 3150173--3150254 Score: 76
Period size: 30 Copynumber: 2.8 Consensus size: 29
3150163 ATTTAATTAA
* * *
3150173 TAATAATTTATTATATTTTTACA-AATATTT
1 TAAT-ATTTATTATATTTATA-ATAAAAATT
3150203 TAATATTTATTATATTTATAATAAAAATT
1 TAATATTTATTATATTTATAATAAAAATT
* * *
3150232 TAAATATTAAATATTTTTATAAT
1 T-AATATTTATTATATTTATAAT
3150255 TTTAAATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
28 1 0.02
29 21 0.48
30 22 0.50
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (29 bp):
TAATATTTATTATATTTATAATAAAAATT
Found at i:3153020 original size:18 final size:17
Alignment explanation
Indices: 3152997--3153046 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
3152987 TAATCAAAAT
3152997 AAAAATAAAAAATATAA
1 AAAAATAAAAAATATAA
*
3153014 CAAAAAT-TAAAAT-TAA
1 -AAAAATAAAAAATATAA
3153030 AAAAATATATAAAATAT
1 AAAAATA-A-AAAATAT
3153047 GTGATTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
15 6 0.23
16 3 0.12
17 5 0.19
18 11 0.42
19 1 0.04
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAATAAAAAATATAA
Found at i:3156348 original size:13 final size:15
Alignment explanation
Indices: 3156317--3156351 Score: 56
Period size: 13 Copynumber: 2.5 Consensus size: 15
3156307 TAGGGATGAG
3156317 ATTTAAATTTTTAAT
1 ATTTAAATTTTTAAT
3156332 ATTTAAA-TTTT-AT
1 ATTTAAATTTTTAAT
3156345 ATTTAAA
1 ATTTAAA
3156352 AGCACACTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 9 0.45
14 4 0.20
15 7 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTAAATTTTTAAT
Found at i:3157003 original size:21 final size:21
Alignment explanation
Indices: 3156964--3157004 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3156954 TAAATATTTT
* * *
3156964 ATTTTTAAATTAGTGTAAAAA
1 ATTTTTAAAATACTATAAAAA
3156985 ATTTTTAAAATACTATAAAA
1 ATTTTTAAAATACTATAAAA
3157005 GTATATTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.41
Consensus pattern (21 bp):
ATTTTTAAAATACTATAAAAA
Found at i:3157553 original size:22 final size:22
Alignment explanation
Indices: 3157526--3157580 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
3157516 AAATTATTAA
* *
3157526 AAATATTTTTATATTTATATTT
1 AAATATTTTTATAATTAAATTT
*
3157548 ATATATTTTTATAATTAAATTT
1 AAATATTTTTATAATTAAATTT
3157570 AAATAATTTTT
1 AAAT-ATTTTT
3157581 TTTATTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
AAATATTTTTATAATTAAATTT
Found at i:3160545 original size:27 final size:28
Alignment explanation
Indices: 3160507--3160583 Score: 77
Period size: 30 Copynumber: 2.7 Consensus size: 28
3160497 TGGAGATGGA
*
3160507 GGAGGTAACTTATACACATA-TGGAGGT
1 GGAGGTGACTTATACACATAGTGGAGGT
*
3160534 GGAGGTGACTTATGA-ACATATGGTGGAGTT
1 GGAGGTGACTTAT-ACACATA--GTGGAGGT
* *
3160564 GGTGGTGACTTGTACACATA
1 GGAGGTGACTTATACACATA
3160584 AAAAGGAGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
27 17 0.41
28 1 0.02
29 1 0.02
30 22 0.54
ACGTcount: A:0.29, C:0.10, G:0.32, T:0.29
Consensus pattern (28 bp):
GGAGGTGACTTATACACATAGTGGAGGT
Found at i:3160672 original size:27 final size:27
Alignment explanation
Indices: 3160620--3160681 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
3160610 ACATACATAG
* *
3160620 GAGATGGTGGTGACTTATAAATATATA
1 GAGATGGAGGTGACTGATAAATATATA
* *
3160647 GAGGTGGAGGTGACTGAT-AATAATATG
1 GAGATGGAGGTGACTGATAAAT-ATATA
3160674 GAGATGGA
1 GAGATGGA
3160682 TTTTTATGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 3 0.10
27 26 0.90
ACGTcount: A:0.35, C:0.03, G:0.34, T:0.27
Consensus pattern (27 bp):
GAGATGGAGGTGACTGATAAATATATA
Found at i:3163073 original size:21 final size:21
Alignment explanation
Indices: 3163005--3163080 Score: 57
Period size: 21 Copynumber: 3.6 Consensus size: 21
3162995 TTGATTTTTG
*
3163005 AAATCGTATTGATACATTGT-T
1 AAAT-GTATTGATACATTATAT
* * *
3163026 TAATGTATAGATACCTTA-AGT
1 AAATGTATTGATACATTATA-T
**
3163047 TTATGTATTGATACATTATAT
1 AAATGTATTGATACATTATAT
*
3163068 AAATGTATCGATA
1 AAATGTATTGATA
3163081 TCTTGATGCA
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
20 11 0.26
21 30 0.71
22 1 0.02
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (21 bp):
AAATGTATTGATACATTATAT
Found at i:3169705 original size:52 final size:52
Alignment explanation
Indices: 3169557--3169685 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
3169547 CGAAATATGA
*
3169557 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
3169609 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
3169661 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
3169686 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:3169712 original size:13 final size:13
Alignment explanation
Indices: 3169694--3169718 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3169684 CAAAGATCAG
3169694 TGTATCGATACAA
1 TGTATCGATACAA
3169707 TGTATCGATACA
1 TGTATCGATACA
3169719 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3169781 original size:13 final size:13
Alignment explanation
Indices: 3169763--3169814 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
3169753 AACTTCGTAG
3169763 CGATACATTGTAT
1 CGATACATTGTAT
3169776 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
3169795 CGATACATTGTAT
1 CGATACATTGTAT
3169808 CGATACA
1 CGATACA
3169815 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:3169795 original size:19 final size:19
Alignment explanation
Indices: 3169771--3169835 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
3169761 AGCGATACAT
3169771 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
3169790 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
3169803 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
3169822 TGTATCGATACAAA
1 TGTATCGATACAAA
3169836 TCGTTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:3169799 original size:32 final size:32
Alignment explanation
Indices: 3169763--3169833 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
3169753 AACTTCGTAG
3169763 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
3169795 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
3169827 CGATACA
1 CGATACA
3169834 AATCGTTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:3172265 original size:23 final size:23
Alignment explanation
Indices: 3172217--3172266 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
3172207 ATTTTCCATT
*
3172217 TTTATCATAACTTGTTTACATGA
1 TTTATCATAACTTGTTTACATCA
*
3172240 TTTATCATAATTTGTTTA-AGTCA
1 TTTATCATAACTTGTTTACA-TCA
3172263 TTTA
1 TTTA
3172267 GCATTTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (23 bp):
TTTATCATAACTTGTTTACATCA
Found at i:3175046 original size:15 final size:16
Alignment explanation
Indices: 3175016--3175049 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
3175006 TGAAATTTTA
3175016 TGGATTTTTTAATCATT
1 TGGATTTTTT-ATCATT
3175033 TGGATTTTTT-TCATT
1 TGGATTTTTTATCATT
3175048 TG
1 TG
3175050 AAATTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
17 10 0.59
ACGTcount: A:0.18, C:0.06, G:0.15, T:0.62
Consensus pattern (16 bp):
TGGATTTTTTATCATT
Found at i:3175085 original size:10 final size:10
Alignment explanation
Indices: 3175070--3175099 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
3175060 CGTTTGAATC
3175070 ATTTGAAATT
1 ATTTGAAATT
3175080 ATTTGAAATT
1 ATTTGAAATT
*
3175090 ATTGGAAATT
1 ATTTGAAATT
3175100 TTATGGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (10 bp):
ATTTGAAATT
Found at i:3175322 original size:21 final size:19
Alignment explanation
Indices: 3175239--3175322 Score: 75
Period size: 18 Copynumber: 4.3 Consensus size: 19
3175229 ATACTTTCAA
*
3175239 ATTTTTTTA-AATTTTATG
1 ATTTTTTTATAATTTTTTG
3175257 -TTTTTTTATAATTTTTTG
1 ATTTTTTTATAATTTTTTG
* *
3175275 A-ATTTTTATATTTTAGTTTTG
1 ATTTTTTTATA-ATT--TTTTG
3175296 AATTTTTTTATAATTTTTTAG
1 -ATTTTTTTATAATTTTTT-G
3175317 ATTTTT
1 ATTTTT
3175323 CTAAGTTTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
17 8 0.15
18 16 0.30
19 2 0.04
20 10 0.19
21 6 0.11
22 3 0.06
23 8 0.15
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (19 bp):
ATTTTTTTATAATTTTTTG
Found at i:3177020 original size:31 final size:30
Alignment explanation
Indices: 3176985--3177053 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 30
3176975 TTACTGTCAT
* * *
3176985 ATTTATGAGTAATTATATTAATATTCATTAA
1 ATTTATAAATAATTATATCAA-ATTCATTAA
* *
3177016 ATTTATAAATAATTATGTCAAATTTATTAA
1 ATTTATAAATAATTATATCAAATTCATTAA
3177046 ATTTATAA
1 ATTTATAA
3177054 TCAATATCCA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 16 0.48
31 17 0.52
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (30 bp):
ATTTATAAATAATTATATCAAATTCATTAA
Found at i:3178891 original size:21 final size:22
Alignment explanation
Indices: 3178862--3178908 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
3178852 CTAACATTCT
3178862 CACCAAATA-CATCACCTAACA
1 CACCAAATAGCATCACCTAACA
* *
3178883 CACCTAATATGCTTCACCTAACA
1 CACCAAATA-GCATCACCTAACA
3178906 CAC
1 CAC
3178909 TTAACAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 8 0.36
23 14 0.64
ACGTcount: A:0.40, C:0.38, G:0.02, T:0.19
Consensus pattern (22 bp):
CACCAAATAGCATCACCTAACA
Found at i:3183670 original size:34 final size:34
Alignment explanation
Indices: 3183632--3183714 Score: 148
Period size: 34 Copynumber: 2.4 Consensus size: 34
3183622 CTAACATATT
* *
3183632 ACCTAACATACCTAACATTCTCACCATATACATC
1 ACCTAACACACCTAACATTCTCACCAAATACATC
3183666 ACCTAACACACCTAACATTCTCACCAAATACATC
1 ACCTAACACACCTAACATTCTCACCAAATACATC
3183700 ACCTAACACACCTAA
1 ACCTAACACACCTAA
3183715 TATGCTTCAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (34 bp):
ACCTAACACACCTAACATTCTCACCAAATACATC
Found at i:3184286 original size:48 final size:48
Alignment explanation
Indices: 3184234--3184971 Score: 268
Period size: 48 Copynumber: 15.1 Consensus size: 48
3184224 TGAGGGAGAT
**
3184234 GGAGGAGGTGGAGAAGGAGATGGTGGAGGTGGGGACTTGTAGTTATAA
1 GGAGGAGGTGGAGAAGGAGATGGTGGAGGTGGGGACTTGTAGACATAA
* * * **
3184282 GGAGGAAGAGAAGAAGGAGATGG-GGAGGTGGTGGTGGATACTTGTAGACATGG
1 GGAGGAGGTGGAGAAGGAGATGGTGGA---GGTGG-GG--ACTTGTAGACATAA
* * * ** **
3184335 GGTGGAGGTAGTGACA-GAGATGGAAGAGGTGGGGACTTGTAGATGTAA
1 GGAGGAGGTGGAGA-AGGAGATGGTGGAGGTGGGGACTTGTAGACATAA
* *
3184383 GGAGGAGG-GG-G--TGAG--GGT---GGTGGGGACTTGTAGACATAT
1 GGAGGAGGTGGAGAAGGAGATGGTGGAGGTGGGGACTTGTAGACATAA
* * * ** * * *
3184422 GGTGTAGGTGGTGATTGAGA---TAGAGGTGGGGATTTGTAAACATAA
1 GGAGGAGGTGGAGAAGGAGATGGTGGAGGTGGGGACTTGTAGACATAA
* * *
3184467 GGAGGAGGAGAAGGAGGTGAAAGAGATGATGGAGGTGGGGACTTGTAGACATAA
1 GGAGGA-G-G-TGGA---GAAGGAGATGGTGGAGGTGGGGACTTGTAGACATAA
* * * * * *
3184521 GGAGGAGGT-GA-AA-CAAAAGGAGGTGGTGGGGACTTGTAAACATAA
1 GGAGGAGGTGGAGAAGGAGATGGTGGAGGTGGGGACTTGTAGACATAA
* * ** * *
3184566 GGA-G-GTTGGAGTGATGGAGATGGAAGAGTTGGGGACTTGTAGACAGAA
1 GGAGGAGGTGGA--GAAGGAGATGGTGGAGGTGGGGACTTGTAGACATAA
* * * * *
3184614 AGAGAAGCG-GGCA-AGGGAGATGATGGAGGTGGGGACTTGTAGATATAA
1 GGAGGAG-GTGG-AGAAGGAGATGGTGGAGGTGGGGACTTGTAGACATAA
* * * * * *
3184662 GGAGGAGGGGATGGAGATAGAGGTGGTGGTGGTGGTGGTGGGAATTTGTATATATAA
1 GGAGGA--GG-TGGAG--A-AGGAGATGGTGGAGGT-G-GGG-ACTTGTAGACATAA
* * * * *
3184719 GGAGGAGGAGGCGATGGAGATGGAT-GTGGTGGGGACTTGTAAACATAA
1 GGAGGAGGTGGAGAAGGAGATGG-TGGAGGTGGGGACTTGTAGACATAA
* *
3184767 GGAGGAGGGGGTG-AGGAAGATGGTGGAGGTGGGGACTTGTAGACATAA
1 GGAGGAGGTGGAGAAGG-AGATGGTGGAGGTGGGGACTTGTAGACATAA
* * *
3184815 GGAAGAGGAGGTGAAGAA-GATGGAAGTGGTGGTGGTGGGGACTTGTAGAAAT-A
1 -G--GAGGAGGTGGAGAAGGA--G-A-TGGTGGAGGTGGGGACTTGTAGACATAA
* * * * * * * *
3184868 GGTTGGAGGTGGTGATA-GAGATTGAGGAGTTGGGAACTTATAGATATAA
1 GG-AGGAGGTGGAGA-AGGAGATGGTGGAGGTGGGGACTTGTAGACATAA
* * * * * ** *
3184917 GGAGGAGGGGGTGAAGGAGAAGGTGGTGGAGGAAACTTATAGACATAA
1 GGAGGAGGTGGAGAAGGAGATGGTGGAGGTGGGGACTTGTAGACATAA
*
3184965 GGTGGAG
1 GGAGGAG
3184972 ATTTGTAAAC
Statistics
Matches: 515, Mismatches: 114, Indels: 122
0.69 0.15 0.16
Matches are distributed among these distances:
39 24 0.05
40 2 0.00
41 1 0.00
42 3 0.01
43 6 0.01
44 6 0.01
45 50 0.10
46 4 0.01
47 10 0.02
48 205 0.40
49 9 0.02
50 18 0.03
51 46 0.09
52 9 0.02
53 29 0.06
54 69 0.13
55 3 0.01
56 3 0.01
57 18 0.03
ACGTcount: A:0.30, C:0.04, G:0.46, T:0.20
Consensus pattern (48 bp):
GGAGGAGGTGGAGAAGGAGATGGTGGAGGTGGGGACTTGTAGACATAA
Found at i:3184740 original size:153 final size:153
Alignment explanation
Indices: 3184542--3184852 Score: 367
Period size: 153 Copynumber: 2.0 Consensus size: 153
3184532 AACAAAAGGA
* * * *
3184542 GGTGGTGGGGACTTGTAAACATAAGGAGGTTGGAGTGATGGAGATGGAAGAGTTGGGGACTTGTA
1 GGTGGTGGGAACTTGTAAACATAAGGAGGTAGGAGCGATGGAGATGGAAGAGGTGGGGACTTGTA
* * * *
3184607 GACAGAAAGAGAAGCGGGCAAGGGAGATGATGGAGGTGGGGACTTGTAGATATAAGGAGGAGG-G
66 AACAGAAAGAGAAGCGGGCAAGGAAGATGATGGAGGTGGGGACTTGTAGACATAAGGAAGAGGAG
* **
3184671 GATGGAGATAGA-GGTGGTGGTGGT
131 G-TGAAGA-AGATGGAAGTGGTGGT
* * * * *
3184695 GGTGGTGGGAATTTGTATATATAAGGAGG-AGGAGGCGATGGAGATGGATGTGGTGGGGACTTGT
1 GGTGGTGGGAACTTGTAAACATAAGGAGGTAGGA-GCGATGGAGATGGAAGAGGTGGGGACTTGT
* * * * ** *
3184759 AAACATAAGGAGGAGGGGGTGAGGAAGATGGTGGAGGTGGGGACTTGTAGACATAAGGAAGAGGA
65 AAACAGAAAGAGAAGCGGGCAAGGAAGATGATGGAGGTGGGGACTTGTAGACATAAGGAAGAGGA
3184824 GGTGAAGAAGATGGAAGTGGTGGT
130 GGTGAAGAAGATGGAAGTGGTGGT
3184848 GGTGG
1 GGTGG
3184853 GGACTTGTAG
Statistics
Matches: 132, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
152 6 0.05
153 124 0.94
154 2 0.02
ACGTcount: A:0.29, C:0.04, G:0.48, T:0.20
Consensus pattern (153 bp):
GGTGGTGGGAACTTGTAAACATAAGGAGGTAGGAGCGATGGAGATGGAAGAGGTGGGGACTTGTA
AACAGAAAGAGAAGCGGGCAAGGAAGATGATGGAGGTGGGGACTTGTAGACATAAGGAAGAGGAG
GTGAAGAAGATGGAAGTGGTGGT
Found at i:3184876 original size:102 final size:102
Alignment explanation
Indices: 3184744--3184932 Score: 231
Period size: 102 Copynumber: 1.9 Consensus size: 102
3184734 GGAGATGGAT
* * *
3184744 GTGGTGGGGACTTGTAAACATAAGGAGGAGGGGGTGAG-GAAGATGGTGGAGGTGGGGACTTGTA
1 GTGGTGGGGACTTGTAAACATAAGGAGGAGGGGGTGAGAG-AGATGGAGGAGGTGGGAACTTATA
3184808 GACATAAGGAAGAGGAGGTGAAGAAGATGGAAGTGGTG
65 GACATAAGGAAGAGGAGGTGAAGAAGATGGAAGTGGTG
* * * * *
3184846 GTGGTGGGGACTTGTAGAA-AT-AGGTTGGAGGTGGTGATAGAGATTGAGGAGTTGGGAACTTAT
1 GTGGTGGGGACTTGTA-AACATAAGG-AGGAGGGGGTGAGAGAGATGGAGGAGGTGGGAACTTAT
* * *
3184909 AGATATAAGGAGGAGGGGGTGAAG
64 AGACATAAGGAAGAGGAGGTGAAG
3184933 GAGAAGGTGG
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
101 3 0.04
102 67 0.92
103 3 0.04
ACGTcount: A:0.30, C:0.03, G:0.47, T:0.21
Consensus pattern (102 bp):
GTGGTGGGGACTTGTAAACATAAGGAGGAGGGGGTGAGAGAGATGGAGGAGGTGGGAACTTATAG
ACATAAGGAAGAGGAGGTGAAGAAGATGGAAGTGGTG
Found at i:3184942 original size:150 final size:152
Alignment explanation
Indices: 3184637--3184966 Score: 346
Period size: 150 Copynumber: 2.2 Consensus size: 152
3184627 AGGGAGATGA
* * * **
3184637 TGGAGGTGGGGACTTGTAGATATAAGGAGGAGGGGATGGAGATAGAGGTGGTGGTGGTGGTGGTG
1 TGGAGGTGGGGACTTGTAGACATAAGGAAGAGGGGATGAAGATAGA-GTGGAAGTGGTGGTGGTG
* * * * * * * *
3184702 GGAATTTGTATATATAAGGAGGAGGAGGCGATGGAGATGGATGTGGTGGGGACTTGTAAACATAA
65 GGAACTTGTAGAAATAAGGAGGAGGAGGCGATAGAGATGGAGGAGGTGGGAACTTATAAACATAA
*
3184767 GGAGGAGGGGGTGAGGAAGATGG
130 GGAGGAGGGGGTGAGGAAGAAGG
3184790 TGGAGGTGGGGACTTGTAGACATAAGGAAGAGGAGG-TGAAGA-AGA-TGGAAGTGGTGGTGGTG
1 TGGAGGTGGGGACTTGTAGACATAAGGAAGAGG-GGATGAAGATAGAGTGGAAGTGGTGGTGGTG
* * * * * * * *
3184852 GGGACTTGTAGAAAT-AGGTTGGAGGTGGTGATAGAGATTGAGGAGTTGGGAACTTATAGATATA
65 GGAACTTGTAGAAATAAGG-AGGAGGAGGCGATAGAGATGGAGGAGGTGGGAACTTATAAACATA
3184916 AGGAGGAGGGGGTGAAGG-AGAAGG
129 AGGAGGAGGGGGTG-AGGAAGAAGG
* * ** *
3184940 TGGTGGAGGAAACTTATAGACATAAGG
1 TGGAGGTGGGGACTTGTAGACATAAGG
3184967 TGGAGATTTG
Statistics
Matches: 147, Mismatches: 27, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
149 3 0.02
150 100 0.68
151 3 0.02
152 3 0.02
153 36 0.24
154 2 0.01
ACGTcount: A:0.29, C:0.03, G:0.46, T:0.21
Consensus pattern (152 bp):
TGGAGGTGGGGACTTGTAGACATAAGGAAGAGGGGATGAAGATAGAGTGGAAGTGGTGGTGGTGG
GAACTTGTAGAAATAAGGAGGAGGAGGCGATAGAGATGGAGGAGGTGGGAACTTATAAACATAAG
GAGGAGGGGGTGAGGAAGAAGG
Found at i:3185041 original size:3 final size:3
Alignment explanation
Indices: 3185033--3185058 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3185023 TGTAGATATC
3185033 AGG AGG AGG AGG AGG AGG AGG AGG AG
1 AGG AGG AGG AGG AGG AGG AGG AGG AG
3185059 ATGATGATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:3186220 original size:20 final size:19
Alignment explanation
Indices: 3186197--3186253 Score: 51
Period size: 20 Copynumber: 2.7 Consensus size: 19
3186187 TAAATATATA
3186197 AAAATTAAATTTTTTTATGT
1 AAAATT-AATTTTTTTATGT
* *
3186217 AAAAGGTAATTATTTTATGT
1 AAAA-TTAATTTTTTTATGT
3186237 AGATAATTTAATTTTTT
1 A-A-AA-TTAATTTTTT
3186254 GACATATAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 17 0.59
21 2 0.07
22 10 0.34
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.53
Consensus pattern (19 bp):
AAAATTAATTTTTTTATGT
Found at i:3186383 original size:59 final size:60
Alignment explanation
Indices: 3186267--3186393 Score: 177
Period size: 60 Copynumber: 2.1 Consensus size: 60
3186257 ATATAGATTG
* * * *
3186267 TTTT-AAATAATCATCATGAATTATACATTTAATTATTTTATATTTAATTTTAATTTAAA
1 TTTTAAAATAATCATAATGAATCACACATTTAATTATTTTAGATTTAATTTTAATTTAAA
* *
3186326 TTTTAAAATAATTATAATGAATCACATATTTAATTATTTTAGATTT-ATTTTAATTTAAA
1 TTTTAAAATAATCATAATGAATCACACATTTAATTATTTTAGATTTAATTTTAATTTAAA
*
3186385 ATTTAAAAT
1 TTTTAAAAT
3186394 TTAAATATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 25 0.42
60 35 0.58
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (60 bp):
TTTTAAAATAATCATAATGAATCACACATTTAATTATTTTAGATTTAATTTTAATTTAAA
Found at i:3188981 original size:13 final size:13
Alignment explanation
Indices: 3188963--3188988 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3188953 CAATTTTTTG
3188963 TGTATCGATACAT
1 TGTATCGATACAT
3188976 TGTATCGATACAT
1 TGTATCGATACAT
3188989 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3189003 original size:32 final size:33
Alignment explanation
Indices: 3188943--3189006 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
3188933 TACAAGCCAA
** *
3188943 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
3188976 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
3189007 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:3193361 original size:17 final size:17
Alignment explanation
Indices: 3193331--3193395 Score: 58
Period size: 19 Copynumber: 3.5 Consensus size: 17
3193321 AAACAAAAGC
3193331 ACAAAAAATGAAAGAAAAA
1 ACAAAAAA--AAAGAAAAA
*
3193350 ACAAAAAAAAAGCAAAA
1 ACAAAAAAAAAGAAAAA
* *
3193367 GCAAAATAAAAAAGAGAACA
1 AC-AAA-AAAAAAGA-AAAA
3193387 ACAAAAAAA
1 ACAAAAAAA
3193396 TGAGGACATG
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 9 0.24
18 7 0.18
19 18 0.47
20 4 0.11
ACGTcount: A:0.78, C:0.09, G:0.09, T:0.03
Consensus pattern (17 bp):
ACAAAAAAAAAGAAAAA
Found at i:3193394 original size:38 final size:36
Alignment explanation
Indices: 3193319--3193395 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 36
3193309 TGAAAAAGTC
3193319 AAAAACAAAAGCACAAAAAATGAAAGAAAAAACAAAA
1 AAAAACAAAAGCACAAAAAA-GAAAGAAAAAACAAAA
*
3193356 AAAAAGCAAAAGCA-AAATAAA-AAAGAGAACAACAAAA
1 AAAAA-CAAAAGCACAAA-AAAGAAAGA-AAAAACAAAA
3193393 AAA
1 AAA
3193396 TGAGGACATG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
36 5 0.14
37 20 0.56
38 11 0.31
ACGTcount: A:0.78, C:0.10, G:0.09, T:0.03
Consensus pattern (36 bp):
AAAAACAAAAGCACAAAAAAGAAAGAAAAAACAAAA
Found at i:3194951 original size:27 final size:27
Alignment explanation
Indices: 3194759--3195698 Score: 556
Period size: 27 Copynumber: 34.0 Consensus size: 27
3194749 CTGCAGCAGC
* *
3194759 CTTTTTAAGTCCACAACTTCATGGCACT
1 CTTTTTAAGTCCACAACTCCGTGGCA-T
* * *
3194787 CTTTTAAAGTCCACAAGTCCGTGGCACC
1 CTTTTTAAGTCCACAACTCCGTGGCA-T
* **
3194815 CTTTTAAAGTCCATGACTCCGTGGCAT
1 CTTTTTAAGTCCACAACTCCGTGGCAT
* *
3194842 CCTTTTAAAGTCCACAACTCTGTGGCAT
1 -CTTTTTAAGTCCACAACTCCGTGGCAT
* *
3194870 CCTTTTAAAGTCCACAACTCTGTGGCAT
1 -CTTTTTAAGTCCACAACTCCGTGGCAT
* *
3194898 CCTTTT--GTCCACAACTCTGTGGCAT
1 CTTTTTAAGTCCACAACTCCGTGGCAT
* * *
3194923 CTTTTTAAGTCAACAACTCCGTCGTAT
1 CTTTTTAAGTCCACAACTCCGTGGCAT
3194950 CTTTTTAAAGTCCACAACTCCGTGGCAT
1 CTTTTT-AAGTCCACAACTCCGTGGCAT
*
3194978 CTTTTTAAGTCCACAACTCGGTGGCAT
1 CTTTTTAAGTCCACAACTCCGTGGCAT
* * * * *
3195005 CCTTTAAAGTCCACAACTCTGTGACAC
1 CTTTTTAAGTCCACAACTCCGTGGCAT
* * * *
3195032 CCTTTAAAGTCCACAACTCCGTGACAC
1 CTTTTTAAGTCCACAACTCCGTGGCAT
* * * *
3195059 CCTTTAAAATCCACAAC-CTCGTGGCAC
1 CTTTTTAAGTCCACAACTC-CGTGGCAT
* * **
3195086 CCTTTTAAGCCCACAACTTTGTGGCAT
1 CTTTTTAAGTCCACAACTCCGTGGCAT
** *
3195113 CCATTTAAGTCCACAACTCCATGGCAT
1 CTTTTTAAGTCCACAACTCCGTGGCAT
* *
3195140 CCTTTTAAGTCCACAACTCTGTGGCAT
1 CTTTTTAAGTCCACAACTCCGTGGCAT
* * * * **
3195167 CCTACCTTTCCAAAGCCCATAAGTCAATGGCAT
1 -CT---TTT--TAAGTCCACAACTCCGTGGCAT
** * ** *
3195200 CCCTTTTTAAACCCACAAGTTAGTGGCACC
1 --CTTTTTAAGTCCACAACTCCGTGGCA-T
*** * * * * *
3195230 CTTCCAAAGCCCACAAGTCAGTAGCACC
1 CTTTTTAAGTCCACAACTCCGTGGCA-T
** * *
3195258 CATTTCAAAG-CCTACAAGTCAGTGGCAT
1 C-TTTTTAAGTCC-ACAACTCCGTGGCAT
* * ** * *
3195286 CCTTTTTAAGCCCACAAGTTAGGGGCACCC
1 -CTTTTTAAGTCCACAACTCCGTGGCA--T
** * * *
3195316 CTTTTTAAACCCCCAACTCCATGGCAC
1 CTTTTTAAGTCCACAACTCCGTGGCAT
* * *
3195343 CCTTTAAAGTCCACAACTCCGTGGCAC
1 CTTTTTAAGTCCACAACTCCGTGGCAT
* *
3195370 CTTTTAAAGTCCACAACTCCGTGGCAC
1 CTTTTTAAGTCCACAACTCCGTGGCAT
* * *
3195397 CCTTTTAAGTCCACAATTCCGTGGCAC
1 CTTTTTAAGTCCACAACTCCGTGGCAT
* * * * *
3195424 CCTTTTAGGTCCATAACTCCATGGCAC
1 CTTTTTAAGTCCACAACTCCGTGGCAT
* * *
3195451 CTTTTAAAAGTCTACAACTCCGTGGCAC
1 CTTTT-TAAGTCCACAACTCCGTGGCAT
*
3195479 CCTTTTAAGTCCACAACTCCGTGGCACT
1 CTTTTTAAGTCCACAACTCCGTGGCA-T
* * * *
3195507 CTTTTAAAGTCCACTACTCCATGGCAC
1 CTTTTTAAGTCCACAACTCCGTGGCAT
* *
3195534 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CTTTTTAAGTCCACAACTCCGTGGCAT
* *
3195561 CTATTTAAGTCCACAACTCCGTGGCAC
1 CTTTTTAAGTCCACAACTCCGTGGCAT
* * * * *
3195588 CCTTTTAAGTCTATAACTCTGTGGCAC
1 CTTTTTAAGTCCACAACTCCGTGGCAT
* * * **
3195615 CCTTTAAAGTCTACAGGTCCGTGGCAT
1 CTTTTTAAGTCCACAACTCCGTGGCAT
* * * * *
3195642 CATTTCAAATCCCACAAGTCAGTGGCAT
1 CTTTTTAAGT-CCACAACTCCGTGGCAT
** * *
3195670 CCTTTCAAAGCCCACAAGTCCGTGGCAT
1 -CTTTTTAAGTCCACAACTCCGTGGCAT
3195698 C
1 C
3195699 ATTTCAAAGC
Statistics
Matches: 751, Mismatches: 137, Indels: 49
0.80 0.15 0.05
Matches are distributed among these distances:
25 24 0.03
26 1 0.00
27 399 0.53
28 239 0.32
29 63 0.08
31 6 0.01
33 16 0.02
34 3 0.00
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (27 bp):
CTTTTTAAGTCCACAACTCCGTGGCAT
Found at i:3195042 original size:54 final size:54
Alignment explanation
Indices: 3194736--3195696 Score: 768
Period size: 54 Copynumber: 17.4 Consensus size: 54
3194726 TAACTTCTTC
* ** * * * *
3194736 AAAGTCCACAACTCTGCAGCAGCCTTTTTAAGTCCACAACTTCATGGCACTCTTTT
1 AAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCA-TCCTTT
* **
3194792 AAAGTCCACAAGTCCGTGGCACCCTTTTAAAGTCCATGACTCCGTGGCATCCTTTT
1 AAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCATCC-TTT
* * *
3194848 AAAGTCCACAACTCTGTGGCATCCTTTTAAAGTCCACAACTCTGTGGCATCCTTT
1 AAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCATCCTTT
* * * * * * * *
3194903 --TGTCCACAACTCTGTGGCATCTTTTTAAGTCAACAACTCCGTCGTATCTTTTT
1 AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATC-CTTT
* * *
3194956 AAAGTCCACAACTCCGTGGCATCTTTTTAAGTCCACAACTCGGTGGCATCCTTT
1 AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTT
* * * * *
3195010 AAAGTCCACAACTCTGTGACACCCTTTAAAGTCCACAACTCCGTGACACCCTTT
1 AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTT
* * **
3195064 AAAATCCACAAC-CTCGTGGCACCCTTTTAAGCCCACAACTTTGTGGCATCCATTT
1 AAAGTCCACAACTC-CGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCC-TTT
* * *
3195119 -AAGTCCACAACTCCATGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTACCTTT
1 AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA---T-CCTTT
* * * ** ** * ** * *
3195176 CCAAAGCCCATAAGTCAATGGCATCCCTTTTTAAACCCACAAGTTAGTGGCACCCTTCC
1 --AAAGTCCACAACTCCGTGGCA-CCC-TTTTAAGTCCACAACTCCGTGGCATCCTT-T
* * * * * * *
3195235 AAAGCCCACAAGTCAGTAGCACCCATTTCAAAG-CCTACAAGTCAGTGGCATCCTTTT
1 AAAGTCCACAACTCCGTGGCACCC-TTT-TAAGTCC-ACAACTCCGTGGCATCC-TTT
* * * ** * ** * * *
3195292 TAAGCCCACAAGTTAGGGGCACCCCTTTTTAAACCCCCAACTCCATGGCACCCTTT
1 AAAGTCCACAACTCCGTGGCA-CCC-TTTTAAGTCCACAACTCCGTGGCATCCTTT
*
3195348 AAAGTCCACAACTCCGTGGCA-CCTTTTAAAGTCCACAACTCCGTGGCACCCTTT
1 AAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCATCCTTT
* * * * *
3195402 TAAGTCCACAATTCCGTGGCACCCTTTTAGGTCCATAACTCCATGGCA-CCTTTT
1 AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCC-TTT
* *
3195456 AAAAGTCTACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTCTTTT
1 -AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-TCCTTT
* *
3195512 AAAGTCCACTACTCCATGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCTATT
1 AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCT-TT
* * * * *
3195566 TAAGTCCACAACTCCGTGGCACCCTTTTAAGTCTATAACTCTGTGGCACCCTTT
1 AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTT
* ** * * * * * *
3195620 AAAGTCTACAGGTCCGTGGCATCATTTCAAATCCCACAAGTCAGTGGCATCCTTT
1 AAAGTCCACAACTCCGTGGCACCCTTTTAAGT-CCACAACTCCGTGGCATCCTTT
* *
3195675 CAAAGCCCACAAGTCCGTGGCA
1 -AAAGTCCACAACTCCGTGGCA
3195697 TCATTTCAAA
Statistics
Matches: 739, Mismatches: 133, Indels: 66
0.79 0.14 0.07
Matches are distributed among these distances:
52 18 0.02
53 36 0.05
54 262 0.35
55 170 0.23
56 129 0.17
57 71 0.10
58 16 0.02
60 16 0.02
61 2 0.00
62 19 0.03
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.28
Consensus pattern (54 bp):
AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTT
Found at i:3195219 original size:29 final size:28
Alignment explanation
Indices: 3195182--3196030 Score: 206
Period size: 28 Copynumber: 30.2 Consensus size: 28
3195172 CTTTCCAAAG
* *
3195182 CCCATAAGTCAATGGCATCCCTTTTTAAA
1 CCCACAAGTCAGTGGCA-CCCTTTTTAAA
* **
3195211 CCCACAAGTTAGTGGCACCC-TTCCAAA
1 CCCACAAGTCAGTGGCACCCTTTTTAAA
* * *
3195238 GCCCACAAGTCAGTAGCACCCATTTCAAA
1 -CCCACAAGTCAGTGGCACCCTTTTTAAA
* * *
3195267 GCCTACAAGTCAGTGGCATCCTTTTTAAG
1 -CCCACAAGTCAGTGGCACCCTTTTTAAA
* *
3195296 CCCACAAGTTAGGGGCACCCCTTTTTAAA
1 CCCACAAGTCAGTGGCA-CCCTTTTTAAA
* *
3195325 CCCCCAACTCCA-TGGCACCC--TTTAAA
1 CCCACAAGT-CAGTGGCACCCTTTTTAAA
* * *
3195351 GTCCACAACTCCGTGGCA-CC-TTTTAAA
1 -CCCACAAGTCAGTGGCACCCTTTTTAAA
* * * *
3195378 GTCCACAACTCCGTGGCACCC-TTTTAAG
1 -CCCACAAGTCAGTGGCACCCTTTTTAAA
* * * **
3195406 TCCACAATTCCGTGGCACCC-TTTTAGG
1 CCCACAAGTCAGTGGCACCCTTTTTAAA
* * * *
3195433 TCCATAACTCCA-TGGCA-CCTTTTAAAA
1 CCCACAAGT-CAGTGGCACCCTTTTTAAA
* * * * *
3195460 GTCTACAACTCCGTGGCACCC-TTTTAAG
1 -CCCACAAGTCAGTGGCACCCTTTTTAAA
* * * *
3195488 TCCACAACTCCGTGGCACTC-TTTTAAA
1 CCCACAAGTCAGTGGCACCCTTTTTAAA
* * * *
3195515 GTCCACTACTCCA-TGGCACCC-TTTTAAG
1 -CCCACAAGT-CAGTGGCACCCTTTTTAAA
* * * * *
3195543 TCCACAACTCCGTGGCA-CCTATTTAAG
1 CCCACAAGTCAGTGGCACCCTTTTTAAA
* * * *
3195570 TCCACAACTCCGTGGCACCC-TTTTAAG
1 CCCACAAGTCAGTGGCACCCTTTTTAAA
* * * * *
3195597 TCTATAACTCTGTGGCACCC--TTTAAA
1 CCCACAAGTCAGTGGCACCCTTTTTAAA
* * * * * * *
3195623 GTCTACAGGTCCGTGGCA-TCATTTCAAA
1 -CCCACAAGTCAGTGGCACCCTTTTTAAA
* *
3195651 TCCCACAAGTCAGTGGCATCC-TTTCAAA
1 -CCCACAAGTCAGTGGCACCCTTTTTAAA
* * * *
3195679 GCCCACAAGTCCGTGGCA-TCATTTCAAA
1 -CCCACAAGTCAGTGGCACCCTTTTTAAA
* * * *
3195707 GCCCAGAAGTCAGTGGCA-TCATTTCAAA
1 -CCCACAAGTCAGTGGCACCCTTTTTAAA
* *
3195735 GCCCACAAGTCAGTGGCA-CCATTTCAAA
1 -CCCACAAGTCAGTGGCACCCTTTTTAAA
* * * * *
3195763 GCCCATAAGTCAATGGCA-TCATTTCAAA
1 -CCCACAAGTCAGTGGCACCCTTTTTAAA
* * *
3195791 GCCCACAAGTTAGTGGCA-CCATTTCAAA
1 -CCCACAAGTCAGTGGCACCCTTTTTAAA
* ** * *
3195819 GCCCATAAGTCAGTGGC-GTCATTTCAAA
1 -CCCACAAGTCAGTGGCACCCTTTTTAAA
* ** * *
3195847 GCCCATAAGTCAGTGGC-TTCATTTCAAA
1 -CCCACAAGTCAGTGGCACCCTTTTTAAA
* * **
3195875 GCCCATAAGTCAGTGGCATCCTTTCAAAA
1 -CCCACAAGTCAGTGGCACCCTTTTTAAA
* * * *
3195904 CCCACAAGTCCGTGGCA-TCATTTCAAA
1 CCCACAAGTCAGTGGCACCCTTTTTAAA
* * * *
3195931 GCCCACAAGTCGGTGGCAACTCATTTCAAA
1 -CCCACAAGTCAGTGGC-ACCCTTTTTAAA
** * *
3195961 GCCCACACAAGTTGGTGGCAACCCATTTCAAA
1 --CC-CACAAGTCAGTGGC-ACCCTTTTTAAA
* *
3195993 GCCCACACAAGTCGGTGGCAACCCTTTTCAAA
1 --CC-CACAAGTCAGTGGC-ACCCTTTTTAAA
3196025 CCCACA
1 CCCACA
3196031 CAAATCGGTA
Statistics
Matches: 689, Mismatches: 101, Indels: 60
0.81 0.12 0.07
Matches are distributed among these distances:
26 20 0.03
27 186 0.27
28 334 0.48
29 79 0.11
30 13 0.02
31 2 0.00
32 55 0.08
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.24
Consensus pattern (28 bp):
CCCACAAGTCAGTGGCACCCTTTTTAAA
Found at i:3195249 original size:57 final size:56
Alignment explanation
Indices: 3195174--3195967 Score: 287
Period size: 56 Copynumber: 14.2 Consensus size: 56
3195164 CATCCTACCT
* * *
3195174 TTCCAAAGCCCATAAGTCAATGGCATCCCTTTTTAAACCCACAAGTTAGTGGCACCC
1 TTCCAAAGCCCACAAGTCAGTGGCA-CCCTTTTTAAACCCACAAGTCAGTGGCACCC
* * * * *
3195231 TTCCAAAGCCCACAAGTCAGTAGCACCCATTTCAAAGCCTACAAGTCAGTGGCATCC
1 TTCCAAAGCCCACAAGTCAGTGGCACCCTTTTTAAA-CCCACAAGTCAGTGGCACCC
*** * * * *
3195288 TTTTTAAGCCCACAAGTTAGGGGCACCCCTTTTTAAACCCCCAACTCCA-TGGCACCC
1 TTCCAAAGCCCACAAGTCAGTGGCA-CCCTTTTTAAACCCACAAGT-CAGTGGCACCC
* * * * * * *
3195345 TT-TAAAGTCCACAACTCCGTGGCA-CC-TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTCCAAAGCCCACAAGTCAGTGGCACCCTTTTTAAA-CCCACAAGTCAGTGGCACCC
** * * * *** * * *
3195399 TT-TTAAGTCCACAATTCCGTGGCACCC-TTTTAGGTCCATAACTCCA-TGGCACCT
1 TTCCAAAGCCCACAAGTCAGTGGCACCCTTTTTAAACCCACAAGT-CAGTGGCACCC
** * * * * ** * * *
3195453 TTTAAAAGTCTACAACTCCGTGGCACCC-TTTTAAGTCCACAACTCCGTGGCACTC
1 TTCCAAAGCCCACAAGTCAGTGGCACCCTTTTTAAACCCACAAGTCAGTGGCACCC
** * * * ** * *
3195508 TTTTAAAGTCCACTACTCCA-TGGCACCC-TTTTAAGTCCACAACTCCGTGGCA-CC
1 TTCCAAAGCCCACAAGT-CAGTGGCACCCTTTTTAAACCCACAAGTCAGTGGCACCC
** * * * ** * * * *
3195562 TAT-TTAAGTCCACAACTCCGTGGCACCC-TTTTAAGTCTATAACTCTGTGGCACCC
1 T-TCCAAAGCCCACAAGTCAGTGGCACCCTTTTTAAACCCACAAGTCAGTGGCACCC
* * * * * * * * *
3195617 TT-TAAAGTCTACAGGTCCGTGGCA-TCATTTCAAATCCCACAAGTCAGTGGCATCC
1 TTCCAAAGCCCACAAGTCAGTGGCACCCTTTTTAAA-CCCACAAGTCAGTGGCACCC
* * * * * * * *
3195672 TTTCAAAGCCCACAAGTCCGTGGCA-TCATTTCAAAGCCCAGAAGTCAGTGGCATCA
1 TTCCAAAGCCCACAAGTCAGTGGCACCCTTTTTAAA-CCCACAAGTCAGTGGCACCC
* * * * * * *
3195728 TTTCAAAGCCCACAAGTCAGTGGCA-CCATTTCAAAGCCCATAAGTCAATGGCATCA
1 TTCCAAAGCCCACAAGTCAGTGGCACCCTTTTTAAA-CCCACAAGTCAGTGGCACCC
* * * * * ** *
3195784 TTTCAAAGCCCACAAGTTAGTGGCA-CCATTTCAAAGCCCATAAGTCAGTGGCGTCA
1 TTCCAAAGCCCACAAGTCAGTGGCACCCTTTTTAAA-CCCACAAGTCAGTGGCACCC
* * ** * * * *
3195840 TTTCAAAGCCCATAAGTCAGTGGC-TTCATTTCAAAGCCCATAAGTCAGTGGCATCC
1 TTCCAAAGCCCACAAGTCAGTGGCACCCTTTTTAAA-CCCACAAGTCAGTGGCACCC
* * * * * * * *
3195896 TTTCAAAACCCACAAGTCCGTGGCA-TCATTTCAAAGCCCACAAGTCGGTGGCAACTCA
1 TTCCAAAGCCCACAAGTCAGTGGCACCCTTTTTAAA-CCCACAAGTCAGTGGC-AC-CC
*
3195954 TTTCAAAGCCCACA
1 TTCCAAAGCCCACA
3195968 CAAGTTGGTG
Statistics
Matches: 621, Mismatches: 96, Indels: 39
0.82 0.13 0.05
Matches are distributed among these distances:
53 10 0.02
54 124 0.20
55 115 0.19
56 273 0.44
57 74 0.12
58 25 0.04
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (56 bp):
TTCCAAAGCCCACAAGTCAGTGGCACCCTTTTTAAACCCACAAGTCAGTGGCACCC
Found at i:3195675 original size:28 final size:28
Alignment explanation
Indices: 3195635--3195999 Score: 487
Period size: 28 Copynumber: 12.8 Consensus size: 28
3195625 CTACAGGTCC
*
3195635 GTGGCATCATTTCAAATCCCACAAGTCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* *
3195663 GTGGCATCCTTTCAAAGCCCACAAGTCC
1 GTGGCATCATTTCAAAGCCCACAAGTCA
*
3195691 GTGGCATCATTTCAAAGCCCAGAAGTCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
3195719 GTGGCATCATTTCAAAGCCCACAAGTCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* *
3195747 GTGGCACCATTTCAAAGCCCATAAGTCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* *
3195775 ATGGCATCATTTCAAAGCCCACAAGTTA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* *
3195803 GTGGCACCATTTCAAAGCCCATAAGTCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* *
3195831 GTGGCGTCATTTCAAAGCCCATAAGTCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* *
3195859 GTGGCTTCATTTCAAAGCCCATAAGTCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* * *
3195887 GTGGCATCCTTTCAAAACCCACAAGTCC
1 GTGGCATCATTTCAAAGCCCACAAGTCA
*
3195915 GTGGCATCATTTCAAAGCCCACAAGTCG
1 GTGGCATCATTTCAAAGCCCACAAGTCA
**
3195943 GTGGCAACTCATTTCAAAGCCCACACAAGTTG
1 GTGGC-A-TCATTTCAAAG-CC-CACAAGTCA
*
3195975 GTGGCAACCCATTTCAAAGCCCACA
1 GTGGC-A-TCATTTCAAAGCCCACA
3196000 CAAGTCGGTG
Statistics
Matches: 303, Mismatches: 30, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
28 257 0.85
29 1 0.00
30 15 0.05
31 4 0.01
32 26 0.09
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (28 bp):
GTGGCATCATTTCAAAGCCCACAAGTCA
Found at i:3196032 original size:31 final size:32
Alignment explanation
Indices: 3195924--3196181 Score: 226
Period size: 32 Copynumber: 8.2 Consensus size: 32
3195914 CGTGGCATCA
* *
3195924 TTTCAAAG-CC-CACAAGTCGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
* *
3195954 TTTCAAAGCCCACACAAGTTGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
3195986 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
*
3196018 TTTCAAA-CCCACACAAATCGGTAGG-AA-CCT
1 TTTCAAAGCCCACACAAGTCGGT-GGCAACCCT
* *
3196048 CTCTCAAAGCCCGCACAAGTCGGTGTG-AACCCT
1 -TTTCAAAGCCCACACAAGTCGGTG-GCAACCCT
* * **
3196081 TTT-AAAGCCCACACAAGTTGGTGGCATCGTT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
* ** *
3196112 TTTCAAAAGTCCACAC-TTTCGGTGGCAACACT
1 TTTC-AAAGCCCACACAAGTCGGTGGCAACCCT
* * * * * * *
3196144 TTTTAAAACCCACGCAAGCCAGTGGAAACCTT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
3196176 TTTCAA
1 TTTCAA
3196182 GTCACCACTT
Statistics
Matches: 184, Mismatches: 33, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
30 12 0.07
31 57 0.31
32 102 0.55
33 13 0.07
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (32 bp):
TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
Found at i:3196118 original size:63 final size:62
Alignment explanation
Indices: 3195923--3196106 Score: 223
Period size: 63 Copynumber: 2.9 Consensus size: 62
3195913 CCGTGGCATC
* * *
3195923 ATTTCAAAG-CCCACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTTGGTGGCAACCC
1 ATTTCAAAGCCCCACAAGTCGGTGGCAAC-CCTTTTAAAGCCCACACAAGTTGGTGGCAACCT
* *
3195985 ATTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTTCAAA-CCCACACAAATCGGTAGG-AACCT
1 ATTTCAAAGCCC-CACAAGTCGGTGGCAACCCTTTT-AAAGCCCACACAAGTTGGT-GGCAACCT
* *
3196048 CTCTCAAAGCCCGCACAAGTCGGTGTG-AACCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 ATTTCAAAGCCC-CACAAGTCGGTG-GCAACCCTTTTAAAGCCCACACAAGTTGGTGGCA
3196107 TCGTTTTTCA
Statistics
Matches: 105, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
62 14 0.13
63 68 0.65
64 23 0.22
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (62 bp):
ATTTCAAAGCCCCACAAGTCGGTGGCAACCCTTTTAAAGCCCACACAAGTTGGTGGCAACCT
Found at i:3196642 original size:17 final size:17
Alignment explanation
Indices: 3196610--3196642 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3196600 GACTTATTTG
*
3196610 AAAAAATACAAAAAAAT
1 AAAAAATAAAAAAAAAT
3196627 AAAAAATAAAAAAAAA
1 AAAAAATAAAAAAAAA
3196643 AGAAAGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.88, C:0.03, G:0.00, T:0.09
Consensus pattern (17 bp):
AAAAAATAAAAAAAAAT
Found at i:3201750 original size:24 final size:25
Alignment explanation
Indices: 3201723--3201786 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
3201713 TTATCGATTC
3201723 AAATTTATTATTTA-TTTTATAATA
1 AAATTTATTATTTATTTTTATAATA
* *
3201747 AAATATTA-AATTTATTTTTATATTA
1 AAAT-TTATTATTTATTTTTATAATA
3201772 AATATTTATATATTT
1 AA-ATTTAT-TATTT
3201787 TACTATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 9 0.28
25 17 0.53
26 2 0.06
27 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
AAATTTATTATTTATTTTTATAATA
Found at i:3201773 original size:25 final size:23
Alignment explanation
Indices: 3201732--3201777 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
3201722 CAAATTTATT
3201732 ATTTATTTTATAATAAAATATTAA
1 ATTTATTTTATAAT-AAATATTAA
*
3201756 ATTTATTTTTATATTAAATATT
1 ATTTA-TTTTATAATAAATATT
3201778 TATATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTTATTTTATAATAAATATTAA
Found at i:3205420 original size:866 final size:862
Alignment explanation
Indices: 3203708--3205434 Score: 3054
Period size: 866 Copynumber: 2.0 Consensus size: 862
3203698 TGTTCTCGAA
3203708 TGACTCAAGGGTATTAACAGTTTGCTGGCTCCATGACTAATGCCCCTTGTTGAACACATAACAAA
1 TGACTCAAGGGTATTAACAGTTTGCTGGCTCCATGACTAATGCCCCTTGTTGAACACATAACAAA
3203773 AACCAATTGTCCCACGATGAGGAACCATGATGAAATGAATGCATGCATCAGACAAAAACGAACGT
66 AACCAATTGTCCCACGATGAGGAACCATGATG-AATGAATGCATGCATCAGACAAAAACGAACGT
*
3203838 GGTTAGTGACTACACAAAAATACTAGGAATGAAGAGTAGGAAAAAAATGAACATCAATCAAAAAA
130 GGTTAGTGACTACACAAAAATAATAGGAATGAAGAGTAGGAAAAAAATGAACATCAATCAAAAAA
3203903 AGAGTGGCCTCTCCTAGGCATTACGATACCTAGGGCCAAGCATAATGACATGTCCAAATGAAAGA
195 AGAGTGGCCTCTCCTAGGCATTACGATACCTAGGGCCAAG-ATAATGACATGTCCAAATGAAAGA
3203968 GAAACCCTTTAACAAGGTATTCCCTCAGGGATGCAAAAGTGACTGATTTGGTGACAATATTCATG
259 GAAACCCTTTAACAAGGTATTCCCTCAGGGATGCAAAAGTGACTGATTTGGTGACAATATTCATG
3204033 TATTATCAAGATATCGATTCCACATCGGGGCTCGACTTTAATGGCTGAGGATTCGTTCATGACAT
324 TATTATCAAGATATCGATTCCACATCGGGGCTCGACTTTAATGGCTGAGGATTCGTTCATGACAT
3204098 AGGGCATTACCGTAATGTCATTTCCTTGCCATCACTCGTTTATTGAAAAAATTTTACAGTCAATC
389 AGGGCATTACCGTAATGTCATTTCCTTGCCATCACTCGTTTATTGAAAAAATTTTACAGTCAATC
3204163 GGACAGCATAACAGATTATCCAAAAATGGAATAAAGATAAAAATAGATGGCAATGTCGTTCATAA
454 GGACAGCATAACAGATTATCCAAAAATGGAATAAAGATAAAAATAGATGGCAATGTCGTTCATAA
3204228 TCACCATATGTCCCATGATAAATGAGAGTAAAGGTTAGAAGTGTTTCTCGAGTGAACCTACTCGG
519 TCACCATATGTCCCATGATAAATGAGAGTAAAGGTTAGAAGTGTTTCTCGAGTGAACCTACTCGG
*
3204293 GTTATTCTAGCAGTATTCCGGTATGGTTTGACATGTTTTAGCCCGTAAAGTTTACTATAGGAGGT
584 GTTATTCTAGCAGTATTCCGGTATGGTTTGACATGGTTTAGCCCGTAAAGTTTACTATAGGAGGT
3204358 TCAAGATGACACCTAAATAGGTATCCGAATCGTTCCTCCGTCCAGTAAGGGCAGTCGAGGCACCC
649 TCAAGATGACACCTAAATAGGTATCCGAATCGTTCCTCCGTCCAGTAAGGGCAGTCGAGGCACCC
*
3204423 GATTCTGGGCCCATCGCGGGTTTGATAAATCGAGTTCGATCCGGTGGATTTTTTCCTATGCAAAT
714 GATTCTGGGCCCATCGCGGGTTTGATAAATCGAGTTCGATCCGGTGGATGTTTTCCTATGCAAAT
3204488 GCGGAGGGTTACTCACGAGAGCATAGGTAATTACATCCTAGAAGTTATTGCTATGCCTATGCGGA
779 GCGGAGGGTTACTCACGAGAGCATAGGTAATTACATCCTAGAAGTTATTGCTATGCCTATGCGGA
3204553 GGGTTACGACCGAAGGCCAC
844 GGGTTACG-CCGAAGGCCAC
3204573 TGACTCAAGGGTATTAA-AGTTTG-T-GCTCCATGACTAAT-CCCCTTGTTGAACAC-TAACCAA
1 TGACTCAAGGGTATTAACAGTTTGCTGGCTCCATGACTAATGCCCCTTGTTGAACACATAA-CAA
*
3204633 AAACCAATTGTCCCACGATGATGATGACCATGATG-ATGAATGCATGCATCAGACAAAAACGAAC
65 AAACCAATTGTCCCACGATGAGGA--ACCATGATGAATGAATGCATGCATCAGACAAAAACGAAC
*
3204697 GTGGTTAGTGACTACAC-AAAATAATAGGAATGAATAGTAGGAAAAAAA-GAACATCAATCAAAA
128 GTGGTTAGTGACTACACAAAAATAATAGGAATGAAGAGTAGGAAAAAAATGAACATCAATCAAAA
*
3204760 AAAGAGTGGCCTCTCCTAGGCATTACGAT-CCTAGGGCCCTAG-TAATGACATGTCCAAATGAAA
193 AAAGAGTGGCCTCTCCTAGGCATTACGATACCTAGGG-CCAAGATAATGACATGTCCAAATGAAA
3204823 GAGAAACCCTTTAACAAGGTATTCACCTCAAGGGATGCAAAAGTGACTGATTTGGTGACAATA-T
257 GAGAAACCCTTTAACAAGGTATTC-CCTC-AGGGATGCAAAAGTGACTGATTTGGTGACAATATT
3204887 CATGTATTATCAAGATATCGATTCCACATCGGGGCTCGACTTTAATGGCAT-AGGATTCGTTCAT
320 CATGTATTATCAAGATATCGATTCCACATCGGGGCTCGACTTTAATGGC-TGAGGATTCGTTCAT
*
3204951 GACATAGGGCATTACCGTAATGTCCTTTCCTTGCCATCACTCGTTTATTGAAAAAAATTTTACAG
384 GACATAGGGCATTACCGTAATGTCATTTCCTTGCCATCACTCGTTTATTG-AAAAAATTTTACAG
3205016 TCAATCGGACAGC-TAACAGATTATCCAAAAATGTGATATAAATGATAAAAATAGATGGCAATGT
448 TCAATCGGACAGCATAACAGATTATCCAAAAATG-GA-ATAAA-GATAAAAATAGATGGCAATG-
*
3205080 TCGTTCATTATCATCCATATGTCCCATGATAAATGAGAGTAAAGGTTAGAAGTGTTTCCTCGAGT
509 TCGTTCATAATCA-CCATATGTCCCATGATAAATGAGAGTAAAGGTTAGAAGTGTTT-CTCGAGT
3205145 GAACCTAATCTCCGGGTTATTCTAGCAGTATTCCGGTATGGTTTGACATGGTTTAGCCCGTAAAG
572 GAACCT-A-CT-CGGGTTATTCTAGCAGTATTCCGGTATGGTTTGACATGGTTTAGCCCGTAAAG
*
3205210 TTTACTATATGAGGTTCAAGATGACA-CTAAATAGGTATCCGAATCGTTCCTCCGTCCAGTAAGG
634 TTTACTATAGGAGGTTCAAGATGACACCTAAATAGGTATCCGAATCGTTCCTCCGTCCAGTAAGG
3205274 G-AGTCGAGGCACCTCGATTCTGGGCCCATCGCGGGTTTGATAAATCGAGTTCGATCCGGTGGAT
699 GCAGTCGAGGCACC-CGATTCTGGGCCCATCGCGGGTTTGATAAATCGAGTTCGATCCGGTGGAT
*
3205338 GTTTTCCTATGCAAATGCGGAGGGTTACTCACGAGAGCCTAGGTAATTTACATCCTAGAAGTTAT
763 GTTTTCCTATGCAAATGCGGAGGGTTACTCACGAGAGCATAGGTAA-TTACATCCTAGAAGTTAT
3205403 TGCTATGCCTA-GCGGAGGGTTACGCCGAAGGC
827 TGCTATGCCTATGCGGAGGGTTACGCCGAAGGC
3205435 NNNNNNNNNN
Statistics
Matches: 833, Mismatches: 10, Indels: 38
0.95 0.01 0.04
Matches are distributed among these distances:
857 45 0.05
858 143 0.17
859 111 0.13
860 37 0.04
861 107 0.13
862 26 0.03
863 53 0.06
864 19 0.02
865 38 0.05
866 148 0.18
867 106 0.13
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (862 bp):
TGACTCAAGGGTATTAACAGTTTGCTGGCTCCATGACTAATGCCCCTTGTTGAACACATAACAAA
AACCAATTGTCCCACGATGAGGAACCATGATGAATGAATGCATGCATCAGACAAAAACGAACGTG
GTTAGTGACTACACAAAAATAATAGGAATGAAGAGTAGGAAAAAAATGAACATCAATCAAAAAAA
GAGTGGCCTCTCCTAGGCATTACGATACCTAGGGCCAAGATAATGACATGTCCAAATGAAAGAGA
AACCCTTTAACAAGGTATTCCCTCAGGGATGCAAAAGTGACTGATTTGGTGACAATATTCATGTA
TTATCAAGATATCGATTCCACATCGGGGCTCGACTTTAATGGCTGAGGATTCGTTCATGACATAG
GGCATTACCGTAATGTCATTTCCTTGCCATCACTCGTTTATTGAAAAAATTTTACAGTCAATCGG
ACAGCATAACAGATTATCCAAAAATGGAATAAAGATAAAAATAGATGGCAATGTCGTTCATAATC
ACCATATGTCCCATGATAAATGAGAGTAAAGGTTAGAAGTGTTTCTCGAGTGAACCTACTCGGGT
TATTCTAGCAGTATTCCGGTATGGTTTGACATGGTTTAGCCCGTAAAGTTTACTATAGGAGGTTC
AAGATGACACCTAAATAGGTATCCGAATCGTTCCTCCGTCCAGTAAGGGCAGTCGAGGCACCCGA
TTCTGGGCCCATCGCGGGTTTGATAAATCGAGTTCGATCCGGTGGATGTTTTCCTATGCAAATGC
GGAGGGTTACTCACGAGAGCATAGGTAATTACATCCTAGAAGTTATTGCTATGCCTATGCGGAGG
GTTACGCCGAAGGCCAC
Found at i:3259769 original size:19 final size:20
Alignment explanation
Indices: 3259732--3259772 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
3259722 TTTTAACTAG
3259732 ATGTATCGATATATTATTCA
1 ATGTATCGATATATTATTCA
*
3259752 ATGTATCGATA-CTTATTCA
1 ATGTATCGATATATTATTCA
3259771 AT
1 AT
3259773 ATCGATTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (20 bp):
ATGTATCGATATATTATTCA
Found at i:3262477 original size:6 final size:6
Alignment explanation
Indices: 3262466--3262505 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
3262456 ATGGGCATTA
3262466 TTGCTG TTGCTG -TGCTG TTTGCTG TTGCTG TTGCTG TTGC
1 TTGCTG TTGCTG TTGCTG -TTGCTG TTGCTG TTGCTG TTGC
3262506 GATTTTGCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.16
6 22 0.69
7 5 0.16
ACGTcount: A:0.00, C:0.17, G:0.33, T:0.50
Consensus pattern (6 bp):
TTGCTG
Found at i:3262614 original size:51 final size:55
Alignment explanation
Indices: 3262559--3262660 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 55
3262549 GAGGTAATTG
3262559 TTGCTATTGCTATT-G-CGATTGTT-GTG-T-TGTTGTTGTTGCTGATTGTTTCTA
1 TTGCTATTGCTATTGGCCGATTGTTAGTGTTCTGTTGTTG-TGCTGATTGTTTCTA
*
3262610 TTGCTATTGCTATTGGCCGATTGTTATTGTTCTGTTGTTGTGCTGATTGTT
1 TTGCTATTGCTATTGGCCGATTGTTAGTGTTCTGTTGTTGTGCTGATTGTT
3262661 GTCTGCTATT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
51 14 0.31
52 1 0.02
53 8 0.18
54 2 0.04
55 12 0.27
56 8 0.18
ACGTcount: A:0.10, C:0.11, G:0.25, T:0.54
Consensus pattern (55 bp):
TTGCTATTGCTATTGGCCGATTGTTAGTGTTCTGTTGTTGTGCTGATTGTTTCTA
Found at i:3262634 original size:45 final size:43
Alignment explanation
Indices: 3262555--3262649 Score: 104
Period size: 45 Copynumber: 2.2 Consensus size: 43
3262545 TAGTGAGGTA
* *
3262555 ATTGTTGCTATTGCTATTGCGATTGTTGTGTTGTTGTTGTTGCTG
1 ATTGTTGCTATTGCTATTGCGATTG-TGCGTTGTTATTGTT-CTG
* *
3262600 ATTGTTTCTATTGCTATTGCTATTG-GCCGATTGTTATTGTTCTG
1 ATTGTTGCTATTGCTATTGCGATTGTG-CG-TTGTTATTGTTCTG
3262644 -TTGTTG
1 ATTGTTG
3262650 TGCTGATTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
43 6 0.14
44 4 0.09
45 33 0.77
ACGTcount: A:0.11, C:0.11, G:0.25, T:0.54
Consensus pattern (43 bp):
ATTGTTGCTATTGCTATTGCGATTGTGCGTTGTTATTGTTCTG
Found at i:3262670 original size:59 final size:52
Alignment explanation
Indices: 3262559--3262679 Score: 138
Period size: 51 Copynumber: 2.2 Consensus size: 52
3262549 GAGGTAATTG
3262559 TTGCTATTGCTATTGCGATTGTTGTGTTGTTGTTGTTGCTGATTGTTTCTA-
1 TTGCTATTGCTATTGCGATTGTTGTGTTGTTGTTGTTGCTGATTGTTTCTAT
*
3262610 TTGCTATTGCTATTGGCCGATTGTTATTGTTCTGTTGTTG-TGCTGATTGTTGTCTGCTAT
1 TTGCTATTGCTATT-G-CGATTGTT-GTG-T-TGTTGTTGTTGCTGATTG-T-T-T-CTAT
3262670 TTGCTATTGC
1 TTGCTATTGC
3262680 CCAATTCTCC
Statistics
Matches: 59, Mismatches: 1, Indels: 11
0.83 0.01 0.15
Matches are distributed among these distances:
51 14 0.24
52 1 0.02
53 8 0.14
54 2 0.03
55 10 0.17
56 9 0.15
57 1 0.02
58 1 0.02
59 3 0.05
60 10 0.17
ACGTcount: A:0.10, C:0.12, G:0.25, T:0.53
Consensus pattern (52 bp):
TTGCTATTGCTATTGCGATTGTTGTGTTGTTGTTGTTGCTGATTGTTTCTAT
Found at i:3267409 original size:18 final size:19
Alignment explanation
Indices: 3267372--3267409 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
3267362 AAGAGAAAAA
*
3267372 AAAATGGAAATTGATATTG
1 AAAATAGAAATTGATATTG
3267391 AAAATAGAAATTG-TATTG
1 AAAATAGAAATTGATATTG
3267409 A
1 A
3267410 TGATTGTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (19 bp):
AAAATAGAAATTGATATTG
Found at i:3267717 original size:13 final size:13
Alignment explanation
Indices: 3267694--3267727 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
3267684 GATTTTTTAC
3267694 TTTACTTTGTATTA
1 TTTA-TTTGTATTA
*
3267708 TTTATTTGTATTT
1 TTTATTTGTATTA
3267721 TTTATTT
1 TTTATTT
3267728 TAAAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.18, C:0.03, G:0.06, T:0.74
Consensus pattern (13 bp):
TTTATTTGTATTA
Found at i:3271808 original size:20 final size:20
Alignment explanation
Indices: 3271783--3271836 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
3271773 TTTTAACTAG
*
3271783 ATGTATCGATATATTATTCA
1 ATGTATCGATACATTATTCA
3271803 ATGTATCGATACATTATTCA
1 ATGTATCGATACATTATTCA
3271823 ATGTATCGATACAT
1 ATGTATCGATACAT
3271837 CTAGGTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTATTCA
Found at i:3271882 original size:20 final size:19
Alignment explanation
Indices: 3271853--3271927 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
3271843 AAAAAGACAT
3271853 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
3271872 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
3271893 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
3271913 AATGTATCGATACAT
1 AATGTATCGATACAT
3271928 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:3271910 original size:40 final size:39
Alignment explanation
Indices: 3271850--3271927 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
3271840 GGTAAAAAGA
*
3271850 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
3271889 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
3271928 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:3273552 original size:23 final size:23
Alignment explanation
Indices: 3273514--3273571 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
3273504 GTGATAAAAT
*
3273514 ATGTAATAGAAATAAAAAAATATA
1 ATGTGATA-AAATAAAAAAATATA
* *
3273538 ATGTGATAAAATAAATAAATTTA
1 ATGTGATAAAATAAAAAAATATA
* *
3273561 ATATGACAAAA
1 ATGTGATAAAA
3273572 CACATAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 22 0.76
24 7 0.24
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.28
Consensus pattern (23 bp):
ATGTGATAAAATAAAAAAATATA
Found at i:3273665 original size:39 final size:39
Alignment explanation
Indices: 3273607--3273681 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
3273597 GCAGAAAGAG
*
3273607 CCAAATTAAATCAAGAAGATTTGACATCACATCAAAAAA
1 CCAAATTAAATCAAAAAGATTTGACATCACATCAAAAAA
3273646 CCAAATTAAATCAAAAAGATTTGACATCACATCAAA
1 CCAAATTAAATCAAAAAGATTTGACATCACATCAAA
3273682 TTTTTTGTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.53, C:0.19, G:0.07, T:0.21
Consensus pattern (39 bp):
CCAAATTAAATCAAAAAGATTTGACATCACATCAAAAAA
Found at i:3273681 original size:21 final size:21
Alignment explanation
Indices: 3273616--3273681 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
3273606 GCCAAATTAA
*
3273616 ATCAAGAAGATTTGACATCAC
1 ATCAAAAAGATTTGACATCAC
** * * *
3273637 ATCAAAAA-A--CCAAATTAA
1 ATCAAAAAGATTTGACATCAC
3273655 ATCAAAAAGATTTGACATCAC
1 ATCAAAAAGATTTGACATCAC
3273676 ATCAAA
1 ATCAAA
3273682 TTTTTTGTGA
Statistics
Matches: 31, Mismatches: 11, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
18 12 0.39
19 1 0.03
20 1 0.03
21 17 0.55
ACGTcount: A:0.53, C:0.18, G:0.08, T:0.21
Consensus pattern (21 bp):
ATCAAAAAGATTTGACATCAC
Found at i:3274437 original size:6 final size:6
Alignment explanation
Indices: 3274426--3274465 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
3274416 TGGGCAATTA
3274426 TTGCTG TTGCTG TTGCTG TTGCTG TTGCTG TTGCTG TTGC
1 TTGCTG TTGCTG TTGCTG TTGCTG TTGCTG TTGCTG TTGC
3274466 CGATTGTTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.00, C:0.17, G:0.33, T:0.50
Consensus pattern (6 bp):
TTGCTG
Found at i:3274592 original size:53 final size:54
Alignment explanation
Indices: 3274528--3274653 Score: 209
Period size: 56 Copynumber: 2.3 Consensus size: 54
3274518 TGAGTAATTG
* *
3274528 TTGCTATTGCTATTGCCGATTG-TTGTTGTTGTTGTTGTTGCTGATTGTTTCTA
1 TTGCTATTGCTATTGCCGATTGTTTGTTATTGTTGTTGTTGCTGATTGTTGCTA
3274581 TTGCTATTGCTATTGCCGATTGTTATTGTTATTGTTGTTGTTGCTGATTGTTGCTA
1 TTGCTATTGCTATTGCCGATTG-T-TTGTTATTGTTGTTGTTGCTGATTGTTGCTA
3274637 TTGCTATTGCTATTGCC
1 TTGCTATTGCTATTGCC
3274654 AATCTACTTT
Statistics
Matches: 68, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
53 22 0.32
56 46 0.68
ACGTcount: A:0.11, C:0.13, G:0.23, T:0.53
Consensus pattern (54 bp):
TTGCTATTGCTATTGCCGATTGTTTGTTATTGTTGTTGTTGCTGATTGTTGCTA
Found at i:3274638 original size:25 final size:25
Alignment explanation
Indices: 3274540--3274639 Score: 74
Period size: 28 Copynumber: 3.8 Consensus size: 25
3274530 GCTATTGCTA
* *
3274540 TTGCCGATTGTTGTTGTTGTTGTTG
1 TTGCCGATTGTTGCTATTGTTGTTG
* * * *
3274565 TTGCTGATTGTTTCTATTGCTATTGCTA
1 TTGCCGATTGTTGCTATTG---TTGTTG
*
3274593 TTGCCGATTGTTATTGTTATTGTTGTTG
1 TTGCCGATTG---TTGCTATTGTTGTTG
*
3274621 TTGCTGATTGTTGCTATTG
1 TTGCCGATTGTTGCTATTG
3274640 CTATTGCTAT
Statistics
Matches: 56, Mismatches: 13, Indels: 12
0.69 0.16 0.15
Matches are distributed among these distances:
25 23 0.41
28 26 0.46
31 7 0.12
ACGTcount: A:0.10, C:0.10, G:0.25, T:0.55
Consensus pattern (25 bp):
TTGCCGATTGTTGCTATTGTTGTTG
Found at i:3274759 original size:22 final size:22
Alignment explanation
Indices: 3274734--3274786 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
3274724 ATGAGTAATT
3274734 GTTGCTGTTGCTGTTAGGTATA
1 GTTGCTGTTGCTGTTAGGTATA
** *
3274756 GTTGCTACTGCTGTTAGGTTTA
1 GTTGCTGTTGCTGTTAGGTATA
3274778 GTTGCTGTT
1 GTTGCTGTT
3274787 AGGAGATGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.11, C:0.11, G:0.30, T:0.47
Consensus pattern (22 bp):
GTTGCTGTTGCTGTTAGGTATA
Found at i:3274864 original size:22 final size:22
Alignment explanation
Indices: 3274839--3274881 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
3274829 TTTTTTTGCT
3274839 TTATTTTTTTAATTGAGTTTTG
1 TTATTTTTTTAATTGAGTTTTG
3274861 TTATTTTTTTAATTGAGTTTT
1 TTATTTTTTTAATTGAGTTTT
3274882 AATTAGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.70
Consensus pattern (22 bp):
TTATTTTTTTAATTGAGTTTTG
Found at i:3274928 original size:11 final size:11
Alignment explanation
Indices: 3274912--3274936 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3274902 TTGTATAGAT
3274912 TTTTAATTGGG
1 TTTTAATTGGG
3274923 TTTTAATTGGG
1 TTTTAATTGGG
3274934 TTT
1 TTT
3274937 GAGTTTAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (11 bp):
TTTTAATTGGG
Found at i:3275008 original size:51 final size:51
Alignment explanation
Indices: 3274895--3275009 Score: 115
Period size: 51 Copynumber: 2.3 Consensus size: 51
3274885 TAGGTTTGGA
* * * *
3274895 TTTAAAATTGTATAGATTTTTAATTGGGTTTTAATTGGGTTTGAGTTTAAG
1 TTTAAAATTATATAGATTTTTAATTGGGTATTAAATGGGTTTAAGTTTAAG
* ** * * *
3274946 TGTAAGCTTATATAGATTTTTAGTT-TGTATTAAATGGGTTTAACTTTTAAG
1 TTTAAAATTATATAGATTTTTAATTGGGTATTAAATGGGTTTAA-GTTTAAG
*
3274997 TTTAAATTTATAT
1 TTTAAAATTATAT
3275010 TTTATTAAAT
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
50 14 0.28
51 36 0.72
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.51
Consensus pattern (51 bp):
TTTAAAATTATATAGATTTTTAATTGGGTATTAAATGGGTTTAAGTTTAAG
Found at i:3278551 original size:19 final size:19
Alignment explanation
Indices: 3278522--3278562 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
3278512 AACGGGTATA
3278522 TTTAAATTTTTATAAATAAT
1 TTTAAATTTTTA-AAATAAT
*
3278542 TTTAAA-TTTTAAAATGAT
1 TTTAAATTTTTAAAATAAT
3278560 TTT
1 TTT
3278563 GTACTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 5 0.25
20 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
TTTAAATTTTTAAAATAAT
Found at i:3278714 original size:23 final size:23
Alignment explanation
Indices: 3278670--3278712 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
3278660 TTTTAAATAT
*
3278670 TTTATATTTTAAAATGATTTTAG
1 TTTATATTTAAAAATGATTTTAG
3278693 TTTATATTTAAAAAT-ATTTT
1 TTTATATTTAAAAATGATTTT
3278713 TAATTCCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (23 bp):
TTTATATTTAAAAATGATTTTAG
Found at i:3278878 original size:21 final size:22
Alignment explanation
Indices: 3278845--3278887 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
3278835 ATTTTGATGT
* * *
3278845 TATATTTTTTTTTCAAA-TTAA
1 TATATTATATTTTAAAACTTAA
3278866 TATATTATATTTTAAAACTTAA
1 TATATTATATTTTAAAACTTAA
3278888 AAACTAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (22 bp):
TATATTATATTTTAAAACTTAA
Found at i:3279258 original size:18 final size:19
Alignment explanation
Indices: 3279221--3279258 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
3279211 AAGAGAAAAA
*
3279221 AAAATGGAAATTGATATTG
1 AAAATAGAAATTGATATTG
3279240 AAAATAGAAATTG-TATTG
1 AAAATAGAAATTGATATTG
3279258 A
1 A
3279259 TGATGATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (19 bp):
AAAATAGAAATTGATATTG
Found at i:3279923 original size:24 final size:24
Alignment explanation
Indices: 3279879--3279941 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
3279869 CTAGAAAAAG
3279879 AATTGTTTTTTTCTT-TCTCTT-TC
1 AATTGTTTTTTT-TTATCTCTTCTC
* *
3279902 AAGTTGTTTTTTTTTATTTCTTCTG
1 AA-TTGTTTTTTTTTATCTCTTCTC
*
3279927 AATTTTTTTTTTTTA
1 AATTGTTTTTTTTTA
3279942 AATTCTCAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 4 0.12
24 27 0.79
25 3 0.09
ACGTcount: A:0.13, C:0.10, G:0.06, T:0.71
Consensus pattern (24 bp):
AATTGTTTTTTTTTATCTCTTCTC
Found at i:3280876 original size:25 final size:25
Alignment explanation
Indices: 3280847--3280911 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 25
3280837 GAAGTGATTT
3280847 ATTTTTAATTATATAATA-TATATTA
1 ATTTTTAATTATATAATATTATA-TA
*
3280872 ATTTTGTATTTATAT-ATATTATATA
1 ATTTT-TAATTATATAATATTATATA
3280897 ATTTTT-ATTATATAA
1 ATTTTTAATTATATAA
3280912 AATAAACATG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
23 6 0.17
24 2 0.06
25 15 0.43
26 12 0.34
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATTTTTAATTATATAATATTATATA
Found at i:3281583 original size:22 final size:22
Alignment explanation
Indices: 3281558--3281645 Score: 67
Period size: 22 Copynumber: 4.1 Consensus size: 22
3281548 TTGTTTGAGT
3281558 AACACATATTTAATATTATAT-
1 AACACATATTTAATATTATATA
** * *
3281579 AA-ACATATTTTTTATTATCTT
1 AACACATATTTAATATTATATA
** *
3281600 TGCA-ATAATTTAATATTAAATA
1 AACACAT-ATTTAATATTATATA
*
3281622 AACACATATTTAAT-TTATAAA
1 AACACATATTTAATATTATATA
3281643 AAC
1 AAC
3281646 TTAATTAAAT
Statistics
Matches: 49, Mismatches: 14, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
20 15 0.31
21 12 0.24
22 20 0.41
23 2 0.04
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.43
Consensus pattern (22 bp):
AACACATATTTAATATTATATA
Found at i:3284819 original size:13 final size:13
Alignment explanation
Indices: 3284801--3284825 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3284791 GAGGTGAGAA
3284801 AAGAAGAAGAAAG
1 AAGAAGAAGAAAG
3284814 AAGAAGAAGAAA
1 AAGAAGAAGAAA
3284826 AAAAATGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
AAGAAGAAGAAAG
Found at i:3288721 original size:13 final size:13
Alignment explanation
Indices: 3288703--3288728 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3288693 TACATTGAAC
3288703 ATGTATCGATACA
1 ATGTATCGATACA
3288716 ATGTATCGATACA
1 ATGTATCGATACA
3288729 TCTGGGTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3289298 original size:19 final size:19
Alignment explanation
Indices: 3289268--3289325 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 19
3289258 AAAAAAATAT
3289268 TCTCCCCCTTAAACGATTA
1 TCTCCCCCTTAAACGATTA
* * * *
3289287 TCTCCTCTTTAAA-AAAT-
1 TCTCCCCCTTAAACGATTA
3289304 TCTCCCCCTTAAACGATTA
1 TCTCCCCCTTAAACGATTA
3289323 TCT
1 TCT
3289326 TCTCCCCTTT
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
17 11 0.38
18 4 0.14
19 14 0.48
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (19 bp):
TCTCCCCCTTAAACGATTA
Found at i:3291229 original size:13 final size:13
Alignment explanation
Indices: 3291211--3291272 Score: 64
Period size: 13 Copynumber: 5.2 Consensus size: 13
3291201 AAATAGTACC
3291211 CAATGTATCGATA
1 CAATGTATCGATA
3291224 CAATGTATCGATA
1 CAATGTATCGATA
* *
3291237 CAAGGAAT-G-T-
1 CAATGTATCGATA
3291247 ---TGTATCGATA
1 CAATGTATCGATA
3291257 CAATGTATCGATA
1 CAATGTATCGATA
3291270 CAA
1 CAA
3291273 GGAATGTTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
7 3 0.08
8 1 0.03
9 1 0.03
11 1 0.03
12 1 0.03
13 32 0.82
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:3291251 original size:33 final size:33
Alignment explanation
Indices: 3291214--3291291 Score: 156
Period size: 33 Copynumber: 2.4 Consensus size: 33
3291204 TAGTACCCAA
3291214 TGTATCGATACAATGTATCGATACAAGGAATGT
1 TGTATCGATACAATGTATCGATACAAGGAATGT
3291247 TGTATCGATACAATGTATCGATACAAGGAATGT
1 TGTATCGATACAATGTATCGATACAAGGAATGT
3291280 TGTATCGATACA
1 TGTATCGATACA
3291292 TTTGGGTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (33 bp):
TGTATCGATACAATGTATCGATACAAGGAATGT
Found at i:3291252 original size:20 final size:20
Alignment explanation
Indices: 3291227--3291291 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
3291217 ATCGATACAA
3291227 TGTATCGATACAAGGAATGT
1 TGTATCGATACAAGGAATGT
3291247 TGTATCGATAC----AA---
1 TGTATCGATACAAGGAATGT
3291260 TGTATCGATACAAGGAATGT
1 TGTATCGATACAAGGAATGT
3291280 TGTATCGATACA
1 TGTATCGATACA
3291292 TTTGGGTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
16 2 0.05
17 2 0.05
20 23 0.61
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
TGTATCGATACAAGGAATGT
Found at i:3297112 original size:21 final size:21
Alignment explanation
Indices: 3297086--3297141 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 21
3297076 CTGCCAATTT
**
3297086 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAATTTGAA
3297107 CATGTATCGATAC-A-TTGAA
1 CATGTATCGATACAATTTGAA
*
3297126 CATGTATCAATACAAT
1 CATGTATCGATACAAT
3297142 GTAACGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 15 0.50
20 2 0.07
21 13 0.43
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (21 bp):
CATGTATCGATACAATTTGAA
Found at i:3300174 original size:20 final size:20
Alignment explanation
Indices: 3300149--3300223 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
3300139 TTTTTCCCAG
3300149 ATATATCGATACATTTTTCA
1 ATATATCGATACATTTTTCA
* * *
3300169 ATATATCGATACATGTATGA
1 ATATATCGATACATTTTTCA
** *
3300189 ATGCATCGATACATTCTTCA
1 ATATATCGATACATTTTTCA
*
3300209 ATGTATCGATACATT
1 ATATATCGATACATT
3300224 ATATCTTTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (20 bp):
ATATATCGATACATTTTTCA
Found at i:3303121 original size:22 final size:22
Alignment explanation
Indices: 3303096--3303152 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
3303086 TTTCACTATT
3303096 CATCACTGTTCATATATCGATA
1 CATCACTGTTCATATATCGATA
**
3303118 CATCACTGTTCACGTATCGATA
1 CATCACTGTTCATATATCGATA
3303140 CATCACTGTTCAT
1 CATCACTGTTCAT
3303153 CATTGTACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (22 bp):
CATCACTGTTCATATATCGATA
Found at i:3303237 original size:22 final size:22
Alignment explanation
Indices: 3303209--3303251 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
3303199 ATTCATCACA
3303209 GTATCGATACATCACTGTTCAT
1 GTATCGATACATCACTGTTCAT
3303231 GTATCGATACATCACTGTTCA
1 GTATCGATACATCACTGTTCA
3303252 CACTATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (22 bp):
GTATCGATACATCACTGTTCAT
Found at i:3303286 original size:100 final size:96
Alignment explanation
Indices: 3303086--3303286 Score: 255
Period size: 100 Copynumber: 2.1 Consensus size: 96
3303076 TAAATCTCAT
*
3303086 TTTCACTATTCATCACTGTTCATATATCGATACATCACTGTTCACGTATCGATACATCACTGTTC
1 TTTCACTATTCATCACTATTCATATATCGATACATCACTGTTCACGTATCGATACATCACTGTTC
** *
3303151 ATCATTGTACATTGAGCCCAACGGCTATATT
66 ATCATTGTACATAAAGCCCAACGGCTATATA
* *
3303182 TTTCACTGTTCATCACTATTCATCACAGTATCGATACATCACTGTTCATGTATCGATACATCACT
1 TTTCACTATTCATCACTATTCAT---A-TATCGATACATCACTGTTCACGTATCGATACATCACT
*
3303247 GTTCA-CACTATTTA-ATAAAAGCCCAACGGCTATA-A
62 GTTCATCA-T-TGTACAT-AAAGCCCAACGGCTATATA
3303282 TTTCA
1 TTTCA
3303287 AATGCATGTA
Statistics
Matches: 91, Mismatches: 7, Indels: 10
0.84 0.06 0.09
Matches are distributed among these distances:
96 21 0.23
99 3 0.03
100 49 0.54
101 18 0.20
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.35
Consensus pattern (96 bp):
TTTCACTATTCATCACTATTCATATATCGATACATCACTGTTCACGTATCGATACATCACTGTTC
ATCATTGTACATAAAGCCCAACGGCTATATA
Found at i:3303755 original size:34 final size:35
Alignment explanation
Indices: 3303692--3303758 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
3303682 CTAAGTGATT
3303692 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
3303728 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
3303759 TGTTGTAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:3305446 original size:84 final size:84
Alignment explanation
Indices: 3305273--3305433 Score: 200
Period size: 84 Copynumber: 1.9 Consensus size: 84
3305263 ACTCAAAGAA
* * * * * *
3305273 GAAAATAAATCAATAAGTATAGAGAATGATTTTCTTGAAAAGAAATTAAGTGAATTAGAGAAGAA
1 GAAAATAAATCAATAAGTATAGAAAATAATTTTCTTAAAAAGAAAATAAATGAAATAGAGAAGAA
*
3305338 TATGAAAGAGTTACAAAAT
66 TAAGAAAGAGTTACAAAAT
* * *
3305357 GAAAATAAATCAATGAGTTTAGAAAATAATTCTT-TTAAAAAGAAAATAAATGAAATAGAGGAGA
1 GAAAATAAATCAATAAGTATAGAAAATAATT-TTCTTAAAAAGAAAATAAATGAAATAGAGAAGA
3305421 A-AAGAAATGAGTT
65 ATAAGAAA-GAGTT
3305434 GCAAGTGGAA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
83 5 0.08
84 58 0.89
85 2 0.03
ACGTcount: A:0.54, C:0.03, G:0.17, T:0.25
Consensus pattern (84 bp):
GAAAATAAATCAATAAGTATAGAAAATAATTTTCTTAAAAAGAAAATAAATGAAATAGAGAAGAA
TAAGAAAGAGTTACAAAAT
Found at i:3306366 original size:16 final size:16
Alignment explanation
Indices: 3306328--3306374 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
3306318 AAATTGTTGA
3306328 AAATTTGT-TTTCAATT
1 AAATTTGTGTTT-AATT
*
3306344 -GATTTGTGTTTAATT
1 AAATTTGTGTTTAATT
*
3306359 AAATTTGTGTTCAATT
1 AAATTTGTGTTTAATT
3306375 CTTTGAATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 10 0.38
16 16 0.62
ACGTcount: A:0.28, C:0.04, G:0.13, T:0.55
Consensus pattern (16 bp):
AAATTTGTGTTTAATT
Found at i:3308624 original size:22 final size:22
Alignment explanation
Indices: 3308599--3308677 Score: 122
Period size: 22 Copynumber: 3.6 Consensus size: 22
3308589 TTTCACTGTT
3308599 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
3308621 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
** *
3308643 CATCACTGTTCACATCTCGATA
1 CATCACTGTTCATGTATCGATA
*
3308665 CATCACTATTCAT
1 CATCACTGTTCAT
3308678 CACTGTACAT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.35
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:3309248 original size:34 final size:35
Alignment explanation
Indices: 3309185--3309251 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
3309175 CTAAGTGATT
3309185 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
3309221 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
3309252 TGTTATAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:3310353 original size:20 final size:20
Alignment explanation
Indices: 3310328--3310404 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
3310318 GTAAAAAGAC
*
3310328 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTAA
* *
3310348 AGAATGTGTCGATACATTCAT
1 AGAATGTATCGATACATT-AA
* * *
3310369 A-CATGTATTGATACATCAA
1 AGAATGTATCGATACATTAA
*
3310388 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
3310405 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.93
21 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTAA
Found at i:3311869 original size:188 final size:187
Alignment explanation
Indices: 3311553--3311901 Score: 535
Period size: 188 Copynumber: 1.9 Consensus size: 187
3311543 TGAGCTGACG
* * * *
3311553 TTCAACAGTTTGAAGTTTTTTATGCATGTCAAAGATTTTAATTCTTTTTCCCATTTTCCTTCGTT
1 TTCAACAGTTTGAAGTTTCTTATACATATCAAAGATTTCAATTCTTTTTCCCATTTTCCTTCGTT
*
3311618 TTCTATGGTTGTTTATGTGTTGGCCTTTGAATTAAGAAAAGTTTAACTTATATTACTTTAATTTT
66 TTCTATGATTGTTTATGTGTTGGCCTTTGAATTAAGAAAAGTTTAACTTATATTACTTTAATTTT
* *
3311683 TTATTTTTCTTCAAA-TATTTATATTTAATATTTAAATTTTTATACATGAGCTAACAA
131 TTATTTTTCTT-AAAGCATTCATATTTAATATTTAAATTTTTATACATGAGCTAACAA
**
3311740 TTCAACAGTTTGAAGTTTCTTATACATATCAAAGATTTCAATTCTTTTTCCTTTTTTTCCTTCGT
1 TTCAACAGTTTGAAGTTTCTTATACATATCAAAGATTTCAATTCTTTTTCC-CATTTTCCTTCGT
*
3311805 TTT-T-TGCAATTGTTTATGTGTTGGCCTTTGATTTAA-AATAAGTTTAACTTATATTACTTTAA
65 TTTCTATG--ATTGTTTATGTGTTGGCCTTTGAATTAAGAA-AAGTTTAACTTATATTACTTTAA
3311867 TTTTTTATTTTTCTTAAAGCATTCATATTTAATAT
127 TTTTTTATTTTTCTTAAAGCATTCATATTTAATAT
3311902 CTAGATTCTA
Statistics
Matches: 147, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
186 2 0.01
187 53 0.36
188 92 0.63
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (187 bp):
TTCAACAGTTTGAAGTTTCTTATACATATCAAAGATTTCAATTCTTTTTCCCATTTTCCTTCGTT
TTCTATGATTGTTTATGTGTTGGCCTTTGAATTAAGAAAAGTTTAACTTATATTACTTTAATTTT
TTATTTTTCTTAAAGCATTCATATTTAATATTTAAATTTTTATACATGAGCTAACAA
Found at i:3312752 original size:3 final size:3
Alignment explanation
Indices: 3312744--3312796 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
3312734 AGTGATTTAT
3312744 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
3312792 ATG AT
1 ATG AT
3312797 TATTATTATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:3312801 original size:3 final size:3
Alignment explanation
Indices: 3312795--3312832 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
3312785 GATGATGATG
3312795 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
3312833 ACGAAATGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:3313024 original size:3 final size:3
Alignment explanation
Indices: 3313016--3313063 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
3313006 ATTGTTACAT
3313016 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3313064 TGATTAATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:3319257 original size:21 final size:21
Alignment explanation
Indices: 3319218--3319259 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3319208 TCATGGTATT
**
3319218 ATTAAAGTTTTTTTTAATATG
1 ATTAAAGTTTTTTGCAATATG
3319239 ATTAAAGTTTTTTGCAATATG
1 ATTAAAGTTTTTTGCAATATG
3319260 TTTTGCCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.52
Consensus pattern (21 bp):
ATTAAAGTTTTTTGCAATATG
Found at i:3323999 original size:21 final size:21
Alignment explanation
Indices: 3323976--3324015 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
3323966 TTTTTATTAA
3323976 AAAAAGTTAT-AAAAATAAAC
1 AAAAAGTTATGAAAAATAAAC
*
3323996 AAAATGTTATGAAAAATAAA
1 AAAAAGTTATGAAAAATAAA
3324016 AGTTAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.23
Consensus pattern (21 bp):
AAAAAGTTATGAAAAATAAAC
Found at i:3324004 original size:20 final size:19
Alignment explanation
Indices: 3323973--3324016 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 19
3323963 TAATTTTTAT
3323973 TAAAAAAAGTTAT-AAAAA
1 TAAAAAAAGTTATGAAAAA
3323991 TAAACAAAATGTTATGAAAAA
1 TAAA-AAAA-GTTATGAAAAA
3324012 TAAAA
1 TAAAA
3324017 GTTAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 6 0.26
21 9 0.39
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (19 bp):
TAAAAAAAGTTATGAAAAA
Found at i:3325129 original size:24 final size:24
Alignment explanation
Indices: 3325102--3325157 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
3325092 AGAAGTCTAA
3325102 GAAGAAAAACAGTAATGTTTGGGT
1 GAAGAAAAACAGTAATGTTTGGGT
3325126 GAAGAAAAACAGTAATGTTTGGGT
1 GAAGAAAAACAGTAATGTTTGGGT
*
3325150 AAAGAAAA
1 GAAGAAAA
3325158 CATCACGGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.48, C:0.04, G:0.27, T:0.21
Consensus pattern (24 bp):
GAAGAAAAACAGTAATGTTTGGGT
Found at i:3329429 original size:38 final size:38
Alignment explanation
Indices: 3329387--3329517 Score: 181
Period size: 38 Copynumber: 3.4 Consensus size: 38
3329377 TTGAATTAGT
* *
3329387 TGACGGTTAGAGAATTCAATTTGAAATTTGCTGGCGGC
1 TGACGGCTAGAGAATTCAATTTGAAATTGGCTGGCGGC
*
3329425 TGACGGCTAGAGAATTCAATTTGAAATTGGCCGGCGGC
1 TGACGGCTAGAGAATTCAATTTGAAATTGGCTGGCGGC
* * * *
3329463 TGACGACTAGAGAATTCAATTTGGAATTGGTTGGTGGC
1 TGACGGCTAGAGAATTCAATTTGAAATTGGCTGGCGGC
**
3329501 TGGTGGCTAGAGAATTC
1 TGACGGCTAGAGAATTC
3329518 TAAATTAAAC
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 82 1.00
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (38 bp):
TGACGGCTAGAGAATTCAATTTGAAATTGGCTGGCGGC
Found at i:3334100 original size:38 final size:38
Alignment explanation
Indices: 3334057--3334189 Score: 176
Period size: 38 Copynumber: 3.5 Consensus size: 38
3334047 AGTTGACGGT
*
3334057 TAGAGAATTCAATTTGAAATTGGTTGGCGGCTGATGGC
1 TAGAGAATTCAATTTGAAATTGGTCGGCGGCTGATGGC
* *
3334095 TAGAGAATTCAATTTGAAATTGGTCGGCGGCTGACGAC
1 TAGAGAATTCAATTTGAAATTGGTCGGCGGCTGATGGC
* * * * *
3334133 TAGAGAATTCAATTTGGAATTAGCCGGTGGCTGGTGGC
1 TAGAGAATTCAATTTGAAATTGGTCGGCGGCTGATGGC
*
3334171 TAGAGAATTCCAAATTGAA
1 TAGAGAATT-CAATTTGAA
3334190 CTCTCTTTGA
Statistics
Matches: 82, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
38 75 0.91
39 7 0.09
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (38 bp):
TAGAGAATTCAATTTGAAATTGGTCGGCGGCTGATGGC
Found at i:3338842 original size:21 final size:21
Alignment explanation
Indices: 3338803--3338842 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3338793 TATTACTAAA
*
3338803 ATATTTTTTATTAATATTTTT
1 ATATTTTTAATTAATATTTTT
3338824 ATATTTTATAATTAA-ATTT
1 ATATTTT-TAATTAATATTT
3338843 AAATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
ATATTTTTAATTAATATTTTT
Found at i:3341906 original size:3 final size:3
Alignment explanation
Indices: 3341898--3341926 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3341888 AGCTTTGGAG
3341898 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3341927 TTGGATTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:3342605 original size:16 final size:17
Alignment explanation
Indices: 3342580--3342617 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
3342570 AACACAACAT
3342580 AATAAAATAAT-TAAAA
1 AATAAAATAATATAAAA
* *
3342596 TATAACATAATATAAAA
1 AATAAAATAATATAAAA
3342613 AATAA
1 AATAA
3342618 TACATGAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AATAAAATAATATAAAA
Found at i:3345814 original size:25 final size:26
Alignment explanation
Indices: 3345750--3345815 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 26
3345740 TGAATTTGGA
*
3345750 TAAGTTATAATTTAAATTTTAAAATTT
1 TAAGTTATTATTT-AATTTTAAAATTT
* * *
3345777 TTATTTAAT-TTTAATTTTAAAA-TT
1 TAAGTTATTATTTAATTTTAAAATTT
3345801 TAAGTTATTATTTAA
1 TAAGTTATTATTTAA
3345816 AATTTATAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
24 8 0.26
25 15 0.48
26 3 0.10
27 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (26 bp):
TAAGTTATTATTTAATTTTAAAATTT
Found at i:3348786 original size:11 final size:12
Alignment explanation
Indices: 3348764--3348792 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
3348754 TAAAAAGAAA
3348764 AAATATAAAATT
1 AAATATAAAATT
3348776 AAATA-AAAATT
1 AAATATAAAATT
3348787 AAATAT
1 AAATAT
3348793 GTGAACTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATATAAAATT
Found at i:3356786 original size:52 final size:52
Alignment explanation
Indices: 3356716--3356836 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
3356706 GAAAATTTAT
*
3356716 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
3356768 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
3356820 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
3356837 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:3356849 original size:52 final size:51
Alignment explanation
Indices: 3356716--3356854 Score: 208
Period size: 52 Copynumber: 2.7 Consensus size: 51
3356706 GAAAATTTAT
3356716 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
3356768 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
3356820 CTGCATGTATCGATACA-AAGATCAGTGTATCGATA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATA
3356855 TAATGTATCG
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:3356952 original size:13 final size:13
Alignment explanation
Indices: 3356934--3356958 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3356924 CAAAAAAATA
3356934 TGTATCGATACAT
1 TGTATCGATACAT
3356947 TGTATCGATACA
1 TGTATCGATACA
3356959 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3356954 original size:33 final size:33
Alignment explanation
Indices: 3356912--3356978 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3356902 AGTAGCTTAA
3356912 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
3356945 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
3356978 A
1 A
3356979 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:3357827 original size:16 final size:15
Alignment explanation
Indices: 3357806--3357897 Score: 71
Period size: 16 Copynumber: 5.9 Consensus size: 15
3357796 GACCAAACTT
3357806 AAAATGACCTGAAACC
1 AAAATGACCT-AAACC
3357822 AAAATGA-CTCAAACCC
1 AAAATGACCT-AAA-CC
*
3357838 AAAATGACCTAACCC
1 AAAATGACCTAAACC
* *
3357853 AAAATAACCCAAACCC
1 AAAATGACCTAAA-CC
* *
3357869 AAAATAACTCTAACACA
1 AAAATGAC-CTAA-ACC
3357886 AAAATGA-CTAAA
1 AAAATGACCTAAA
3357898 AATTTTAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
14 1 0.02
15 21 0.33
16 28 0.44
17 12 0.19
18 1 0.02
ACGTcount: A:0.54, C:0.27, G:0.05, T:0.13
Consensus pattern (15 bp):
AAAATGACCTAAACC
Done.