Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 8 of 325
Found at i:2681181 original size:29 final size:29
Alignment explanation
Indices: 2681118--2681182 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
2681108 ATCATTTTTT
* * *
2681118 TATATTATATAAATATAATTATTTATGTA
1 TATAATATATAAATATAAATATCTATGTA
2681147 TATAATATATAAATATAAA-ATACTAT-TA
1 TATAATATATAAATATAAATAT-CTATGTA
2681175 TATTAATA
1 TA-TAATA
2681183 ATTATGTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 6 0.19
29 25 0.81
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (29 bp):
TATAATATATAAATATAAATATCTATGTA
Found at i:2681192 original size:12 final size:13
Alignment explanation
Indices: 2681171--2681229 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 13
2681161 ATAAAATACT
2681171 ATTATATTAAT-A
1 ATTATATTAATAA
*
2681183 ATTATGTTAATAA
1 ATTATATTAATAA
**
2681196 ATTATAAAAACTAA
1 ATTATATTAA-TAA
*
2681210 ATTAAATTAA-AA
1 ATTATATTAATAA
2681222 ATTTATAT
1 A-TTATAT
2681230 ATATAATTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
12 13 0.36
13 13 0.36
14 10 0.28
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (13 bp):
ATTATATTAATAA
Found at i:2693322 original size:30 final size:30
Alignment explanation
Indices: 2693263--2693323 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
2693253 AATAAGCCTC
**
2693263 AATTACTTGCAGAACACCAAATGGCGATTA
1 AATTACTTGCAGAACACCAAATGAAGATTA
2693293 AATTACTTGCAGAACACCAAATGAAGATTA
1 AATTACTTGCAGAACACCAAATGAAGATTA
2693323 A
1 A
2693324 TGTTAAGACG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.23
Consensus pattern (30 bp):
AATTACTTGCAGAACACCAAATGAAGATTA
Found at i:2696366 original size:15 final size:16
Alignment explanation
Indices: 2696338--2696368 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
2696328 TATATCTGAT
2696338 ATTTGTACTTTGATGC
1 ATTTGTACTTTGATGC
2696354 ATTTGTA-TTTGATGC
1 ATTTGTACTTTGATGC
2696369 CTATTTGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (16 bp):
ATTTGTACTTTGATGC
Found at i:2702712 original size:43 final size:43
Alignment explanation
Indices: 2702651--2702740 Score: 171
Period size: 43 Copynumber: 2.1 Consensus size: 43
2702641 GCATGCTTGC
2702651 ATTCCATGATTGAAAGAAATTAGTAGAATATACATTGGAAGAT
1 ATTCCATGATTGAAAGAAATTAGTAGAATATACATTGGAAGAT
*
2702694 ATTCCATGATTGAAAGAAATTAGTAGAATATATATTGGAAGAT
1 ATTCCATGATTGAAAGAAATTAGTAGAATATACATTGGAAGAT
2702737 ATTC
1 ATTC
2702741 AGGATTTTTG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (43 bp):
ATTCCATGATTGAAAGAAATTAGTAGAATATACATTGGAAGAT
Found at i:2706621 original size:20 final size:18
Alignment explanation
Indices: 2706578--2706622 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
2706568 TTTAATTGTG
* *
2706578 AATATTTTTAAATTTTTT
1 AATATTTTTAAAATTTTA
2706596 AATATTTTTATAAATTTTA
1 AATATTTTTA-AAATTTTA
2706615 AATTATTT
1 AA-TATTT
2706623 GTTGATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 10 0.43
19 8 0.35
20 5 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
AATATTTTTAAAATTTTA
Found at i:2712018 original size:16 final size:18
Alignment explanation
Indices: 2711986--2712020 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
2711976 TAATTAACCC
2711986 CTCAATTAAACTAATTTT
1 CTCAATTAAACTAATTTT
2712004 CTCAATT-AA-TAATTTT
1 CTCAATTAAACTAATTTT
2712020 C
1 C
2712021 CTAGACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 2 0.12
18 7 0.41
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (18 bp):
CTCAATTAAACTAATTTT
Found at i:2714058 original size:23 final size:23
Alignment explanation
Indices: 2714010--2714060 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
2714000 TCATGCATGT
* *
2714010 AAGTGATAGCGGCATTATGGTAC
1 AAGTGATAGCGGCACTACGGTAC
* *
2714033 AAGTGATAGCGGTACTACGGTGC
1 AAGTGATAGCGGCACTACGGTAC
2714056 AAGTG
1 AAGTG
2714061 TTGTGGCACT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (23 bp):
AAGTGATAGCGGCACTACGGTAC
Found at i:2716746 original size:15 final size:15
Alignment explanation
Indices: 2716715--2716775 Score: 61
Period size: 15 Copynumber: 3.9 Consensus size: 15
2716705 TAGTAAAAAT
2716715 ATAATTTCATAATTTTA
1 ATAATTT-AT-ATTTTA
*
2716732 ATAGTTTATATTTT-
1 ATAATTTATATTTTA
2716746 ATAATTTATCATTTTA
1 ATAATTTAT-ATTTTA
* *
2716762 TTAATTTCTATTTT
1 ATAATTTATATTTT
2716776 TATATTTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
14 8 0.21
15 15 0.39
16 9 0.24
17 6 0.16
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (15 bp):
ATAATTTATATTTTA
Found at i:2716779 original size:31 final size:31
Alignment explanation
Indices: 2716714--2716775 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
2716704 ATAGTAAAAA
*
2716714 TATAATTTCATAATTTTAATAGTTTATATTT
1 TATAATTTCATAATTTTAATAATTTATATTT
* * *
2716745 TATAATTT-ATCATTTTATTAATTTCTATTT
1 TATAATTTCATAATTTTAATAATTTATATTT
2716775 T
1 T
2716776 TATATTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (31 bp):
TATAATTTCATAATTTTAATAATTTATATTT
Found at i:2716789 original size:22 final size:24
Alignment explanation
Indices: 2716750--2716798 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 24
2716740 TATTTTATAA
*
2716750 TTTATCATTTTATTAATT-TCTATT
1 TTTATCATTTTATAAATTAT-TATT
2716774 TTTAT-ATTTT-TAAATTATTATT
1 TTTATCATTTTATAAATTATTATT
2716796 TTT
1 TTT
2716799 TTAAAAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 12 0.52
23 6 0.26
24 5 0.22
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTATCATTTTATAAATTATTATT
Found at i:2717843 original size:30 final size:30
Alignment explanation
Indices: 2717809--2717871 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
2717799 ACTTATTTTA
2717809 TTGTTAATTTTGTTATTATTTTA-AAGACAT
1 TTGTTAATTTTGTTATTATTTTAGAAG-CAT
2717839 TTGTTAATTTTGTTATTATTTTAGAAGCAT
1 TTGTTAATTTTGTTATTATTTTAGAAGCAT
2717869 TTG
1 TTG
2717872 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 29 0.91
31 3 0.09
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAAGCAT
Found at i:2718024 original size:12 final size:12
Alignment explanation
Indices: 2717994--2718026 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
2717984 TATATATTTT
2717994 AAAATT-ATATA
1 AAAATTAATATA
2718005 AAAA-TAATATA
1 AAAATTAATATA
2718016 AAAATTAATAT
1 AAAATTAATAT
2718027 GATCGGGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:2721010 original size:19 final size:20
Alignment explanation
Indices: 2720973--2721010 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
2720963 TTAAGTTAAA
*
2720973 TTTTATAATTTATCCTTTAT
1 TTTTATAATTTATACTTTAT
*
2720993 TTTTAT-ATTTATATTTTA
1 TTTTATAATTTATACTTTA
2721011 AGTAATTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATAATTTATACTTTAT
Found at i:2721279 original size:22 final size:21
Alignment explanation
Indices: 2721255--2721297 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
2721245 AATGAAAAAT
2721255 AAAGAAAAATAAAAAGAAAGTTA
1 AAAG-AAAATAAAAA-AAAGTTA
*
2721278 AAAGAACATAAAAAAAAGTT
1 AAAGAAAATAAAAAAAAGTT
2721298 TAAATTACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 9 0.47
23 4 0.21
ACGTcount: A:0.72, C:0.02, G:0.12, T:0.14
Consensus pattern (21 bp):
AAAGAAAATAAAAAAAAGTTA
Found at i:2721483 original size:29 final size:29
Alignment explanation
Indices: 2721443--2721510 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
2721433 TGCAAAAACG
*
2721443 TAAGTGACTAAAATATAACATTTTAAATA
1 TAAGTGACTAAAACATAACATTTTAAATA
2721472 TAAGTGACTAAAACATAACATTTTAAATA
1 TAAGTGACTAAAACATAACATTTTAAATA
*
2721501 AAAGTGACTA
1 TAAGTGACTA
2721511 TTTTAATTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (29 bp):
TAAGTGACTAAAACATAACATTTTAAATA
Found at i:2722534 original size:48 final size:48
Alignment explanation
Indices: 2722451--2722550 Score: 148
Period size: 48 Copynumber: 2.1 Consensus size: 48
2722441 ATCGATACAT
* * * *
2722451 CACCAACTCAACATATTTTTATTTCCCTACTAATTTTGTGAAAAGAGA
1 CACCAACTCAACATATCTTTATTTCCCTACCAATTTCGTGAAAAAAGA
2722499 CACCTAACT-AACATATCTTTATTTCCCTACCAATTTCGTGAAAAAAGA
1 CACC-AACTCAACATATCTTTATTTCCCTACCAATTTCGTGAAAAAAGA
2722547 CACC
1 CACC
2722551 CAATTAACGA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
48 43 0.91
49 4 0.09
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (48 bp):
CACCAACTCAACATATCTTTATTTCCCTACCAATTTCGTGAAAAAAGA
Found at i:2722827 original size:21 final size:21
Alignment explanation
Indices: 2722801--2722847 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
2722791 ATTTAAAATC
2722801 ATTTTTAA-AAATATTTATATT
1 ATTTTTAATAAATATTTA-ATT
*
2722822 ATTTTTAATTTAATATTTAATT
1 ATTTTTAA-TAAATATTTAATT
2722844 ATTT
1 ATTT
2722848 ATATATTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 8 0.35
22 7 0.30
23 8 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTTAATAAATATTTAATT
Found at i:2722855 original size:23 final size:23
Alignment explanation
Indices: 2722810--2722855 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
2722800 CATTTTTAAA
*
2722810 AATATTTATATTATTTTTAATTT
1 AATATTTATATTATTTATAATTT
2722833 AATATTTA-ATTATTTATATATTT
1 AATATTTATATTATTTATA-ATTT
2722856 TCTTTTTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
AATATTTATATTATTTATAATTT
Found at i:2723344 original size:23 final size:22
Alignment explanation
Indices: 2723318--2723367 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
2723308 GAACATAAAG
2723318 TAAA-AAAATAATTAGTAAAAAAT
1 TAAATAAAA-AATTAG-AAAAAAT
*
2723341 TAAATATAAAATTAG-AAAAA-
1 TAAATAAAAAATTAGAAAAAAT
2723361 TAAATAA
1 TAAATAA
2723368 TAACTGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 6 0.25
21 5 0.21
23 10 0.42
24 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (22 bp):
TAAATAAAAAATTAGAAAAAAT
Found at i:2730937 original size:15 final size:15
Alignment explanation
Indices: 2730917--2730947 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2730907 AATCAACCAG
2730917 CTTTTAGTTGAAAAA
1 CTTTTAGTTGAAAAA
2730932 CTTTTAGTTGAAAAA
1 CTTTTAGTTGAAAAA
2730947 C
1 C
2730948 ATGCTGCGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (15 bp):
CTTTTAGTTGAAAAA
Found at i:2737880 original size:18 final size:18
Alignment explanation
Indices: 2737832--2737886 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
2737822 TTTATATATG
*
2737832 ATATTA-ATAATTATAAA
1 ATATTATATGATTATAAA
* *
2737849 ATATTATCTTATTATAAA
1 ATATTATATGATTATAAA
2737867 ATAATT-TATGATTATGAAA
1 AT-ATTATATGATTAT-AAA
2737886 A
1 A
2737887 AGAAATGATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 6 0.19
18 18 0.58
19 7 0.23
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (18 bp):
ATATTATATGATTATAAA
Found at i:2738050 original size:17 final size:16
Alignment explanation
Indices: 2738028--2738082 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 16
2738018 AAACACAAAA
2738028 AAAAAATCAACTTTTTT
1 AAAAAATCAA-TTTTTT
2738045 AAAAAATCAATATATTTTT
1 AAAAAATC-A-AT-TTTTT
*
2738064 TAAAAAT-AATTTTTT
1 AAAAAATCAATTTTTT
2738079 AAAA
1 AAAA
2738083 GTTATATTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
15 8 0.24
16 2 0.06
17 9 0.27
18 2 0.06
19 12 0.36
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAAAATCAATTTTTT
Found at i:2738082 original size:13 final size:15
Alignment explanation
Indices: 2738053--2738082 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2738043 TTAAAAAATC
2738053 AATATATTTTTTAAA
1 AATATATTTTTTAAA
2738068 AATA-ATTTTTTAAA
1 AATATATTTTTTAAA
2738082 A
1 A
2738083 GTTATATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATATATTTTTTAAA
Found at i:2741699 original size:18 final size:18
Alignment explanation
Indices: 2741676--2741710 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2741666 AAGCCTTGTT
*
2741676 TATTTTATTTAATTTTTA
1 TATTTTAATTAATTTTTA
*
2741694 TATTTTAATTACTTTTT
1 TATTTTAATTAATTTTT
2741711 CCCCAGGTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTTTAATTAATTTTTA
Found at i:2746001 original size:21 final size:21
Alignment explanation
Indices: 2745975--2746015 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2745965 AGACGAGCAA
* *
2745975 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
2745996 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
2746016 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:2757037 original size:36 final size:36
Alignment explanation
Indices: 2756949--2757037 Score: 108
Period size: 36 Copynumber: 2.5 Consensus size: 36
2756939 GGTCCTATAT
* * * * *
2756949 ATGGGGAAAGGCTTACGTGAGGTCCTGCTCCCATAC
1 ATGGGGGAAGGCTTATGGGAGGTCCTACTCCCACAC
*
2756985 ATGGGAGG-AGGTTTATGGGAGGTCCTACTCCCACAC
1 ATGGG-GGAAGGCTTATGGGAGGTCCTACTCCCACAC
2757021 ATGGGGGAAGGCTTATG
1 ATGGGGGAAGGCTTATG
2757038 AGAAGTGATA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
35 2 0.05
36 41 0.93
37 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.35, T:0.22
Consensus pattern (36 bp):
ATGGGGGAAGGCTTATGGGAGGTCCTACTCCCACAC
Found at i:2757081 original size:50 final size:45
Alignment explanation
Indices: 2757008--2757098 Score: 128
Period size: 50 Copynumber: 1.9 Consensus size: 45
2756998 TATGGGAGGT
2757008 CCTACTCCCACACATGGGGGAAGGCTTATGAGAAGTGATAATAATGAC
1 CCTACTCCCACACATGGGGGAAGGCTTAT-AGAAG-G-TAATAATGAC
*
2757056 CCTACTCCCAAACATATGGGGGAAGGCTTATAGAAGGTAATAA
1 CCTACTCCC--ACACATGGGGGAAGGCTTATAGAAGGTAATAA
2757099 AGGTTATGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
47 6 0.15
48 10 0.25
49 5 0.12
50 19 0.47
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (45 bp):
CCTACTCCCACACATGGGGGAAGGCTTATAGAAGGTAATAATGAC
Found at i:2757303 original size:50 final size:50
Alignment explanation
Indices: 2757244--2757344 Score: 114
Period size: 50 Copynumber: 2.0 Consensus size: 50
2757234 TATGGTAACG
* * * *
2757244 ATGATCCTACA-CTCAAACGCATGGGGGGAGGCTTACGAAAAGTGGTAATA
1 ATGACCCTACACCT-AAACGCATGGGGCGAGACTTACGAAAAGTGATAATA
* * * *
2757294 ATGACCCTACTCCTAGATGCATGGGGCGAGACTTATGAAAAGTGATAATA
1 ATGACCCTACACCTAAACGCATGGGGCGAGACTTACGAAAAGTGATAATA
2757344 A
1 A
2757345 AGGCCATGCT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 40 0.95
51 2 0.05
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.22
Consensus pattern (50 bp):
ATGACCCTACACCTAAACGCATGGGGCGAGACTTACGAAAAGTGATAATA
Found at i:2758557 original size:48 final size:48
Alignment explanation
Indices: 2758496--2758615 Score: 240
Period size: 48 Copynumber: 2.5 Consensus size: 48
2758486 ATTACAAACA
2758496 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
1 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
2758544 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
1 TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
2758592 TCAATTATTTACCCTATTAACAAA
1 TCAATTATTTACCCTATTAACAAA
2758616 GCTCGGACTA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (48 bp):
TCAATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATT
Found at i:2760228 original size:5 final size:5
Alignment explanation
Indices: 2760210--2760240 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
2760200 TCTCTTTTAT
2760210 ATATA ATAATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA
2760241 CTTAATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:2762191 original size:46 final size:47
Alignment explanation
Indices: 2762099--2762200 Score: 118
Period size: 46 Copynumber: 2.1 Consensus size: 47
2762089 TAGTAAAACT
* *
2762099 ATGGTCTTGCACATAGTCATATATCACACACTGAAGCCATAGCCCAGCC
1 ATGGTCTT-CACATAGTCACATAT-ACACACTGAAGCCATAGCCCAGAC
* * *
2762148 ATGGTCTT-ACATAGATCACATAT-CACACTGATGCCATATCCCAGAT
1 ATGGTCTTCACATAG-TCACATATACACACTGAAGCCATAGCCCAGAC
2762194 ATGGTCT
1 ATGGTCT
2762201 ATATTGAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
46 26 0.55
47 6 0.13
48 7 0.15
49 8 0.17
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (47 bp):
ATGGTCTTCACATAGTCACATATACACACTGAAGCCATAGCCCAGAC
Found at i:2763265 original size:25 final size:25
Alignment explanation
Indices: 2763232--2763316 Score: 100
Period size: 25 Copynumber: 3.4 Consensus size: 25
2763222 ATAAACGTGC
* *
2763232 TAATTAGAGAGCACTGATGTACTAA
1 TAATCAGAGAGCACTGACGTACTAA
* *
2763257 -ATATCAGAGAGCACTGGCGTGCTAA
1 TA-ATCAGAGAGCACTGACGTACTAA
* *
2763282 TAATCAGAGAGCACTGGCGTGCTAA
1 TAATCAGAGAGCACTGACGTACTAA
2763307 TAATCAGAGA
1 TAATCAGAGA
2763317 ACATGCTGAG
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
24 1 0.02
25 52 0.96
26 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.22
Consensus pattern (25 bp):
TAATCAGAGAGCACTGACGTACTAA
Found at i:2764135 original size:25 final size:23
Alignment explanation
Indices: 2764107--2764152 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
2764097 AACTCAACTG
2764107 ATTTCTTATAAAAGTTTTCACTTAA
1 ATTTCTTATAAAA-TTTT-ACTTAA
* *
2764132 ATTTTTTTTAAAATTTTACTT
1 ATTTCTTATAAAATTTTACTT
2764153 GTGAACAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 4 0.21
25 11 0.58
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.57
Consensus pattern (23 bp):
ATTTCTTATAAAATTTTACTTAA
Found at i:2804856 original size:29 final size:30
Alignment explanation
Indices: 2804797--2804854 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
2804787 TCCGAGCCTT
*
2804797 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
2804827 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
2804855 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:2805084 original size:13 final size:13
Alignment explanation
Indices: 2805066--2805097 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2805056 TTTCCAGCAA
2805066 TTATGAATTTATT
1 TTATGAATTTATT
2805079 TTATGAATTTATT
1 TTATGAATTTATT
*
2805092 TGATGA
1 TTATGA
2805098 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:2805305 original size:50 final size:50
Alignment explanation
Indices: 2805192--2805433 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
2805182 ATTTGGGTAA
* * *
2805192 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
2805248 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
2805298 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
2805348 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
2805398 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
2805434 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:2805381 original size:100 final size:103
Alignment explanation
Indices: 2805192--2805441 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
2805182 ATTTGGGTAA
2805192 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
2805257 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
2805298 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
2805360 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
2805398 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
2805442 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:2810555 original size:29 final size:30
Alignment explanation
Indices: 2810496--2810553 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
2810486 TCCGAGCCTT
*
2810496 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
2810526 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
2810554 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:2810783 original size:13 final size:13
Alignment explanation
Indices: 2810765--2810796 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2810755 TTTCCAGCAA
2810765 TTATGAATTTATT
1 TTATGAATTTATT
2810778 TTATGAATTTATT
1 TTATGAATTTATT
*
2810791 TGATGA
1 TTATGA
2810797 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:2811003 original size:48 final size:48
Alignment explanation
Indices: 2810948--2811130 Score: 233
Period size: 48 Copynumber: 3.7 Consensus size: 48
2810938 AAGATCATGA
*
2810948 GAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGAC
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGAC
* * *
2810996 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGA--C
* * *
2811046 GAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCAC
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GAC
*
2811094 GAGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 GAG---GTCCCATGTAAGACCATGTCTGGGACATGGC
2811131 TTTGGCATGT
Statistics
Matches: 116, Mismatches: 13, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
48 47 0.41
49 1 0.01
50 40 0.34
51 28 0.24
ACGTcount: A:0.25, C:0.26, G:0.31, T:0.19
Consensus pattern (48 bp):
GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGAC
Found at i:2811071 original size:50 final size:51
Alignment explanation
Indices: 2810891--2811137 Score: 281
Period size: 50 Copynumber: 4.8 Consensus size: 51
2810881 ATTTGGGTAA
*
2810891 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC----GATCATG
* *
2810947 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCG---A-G
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCATG
* *
2810994 ACGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA-GATG
1 A-GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCATG
* * * *
2811045 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCATG
** *
2811095 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
2811138 TGTTATTATC
Statistics
Matches: 167, Mismatches: 18, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
47 2 0.01
48 42 0.25
49 1 0.01
50 44 0.26
51 37 0.22
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCATG
Found at i:2811078 original size:98 final size:102
Alignment explanation
Indices: 2810895--2811138 Score: 345
Period size: 98 Copynumber: 2.4 Consensus size: 102
2810885 GGGTAAAGAG
*
2810895 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCCCTGT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCCCTAT
*
2810960 AAGACCATGTCTGGGACATGGCATGGGCACCGA-GACGAG-
63 AAGACCATGTCTGGGACATGGCATGGGCACC-ATCACGAGA
* * *
2810999 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTATAAG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTATAAG
2811061 ACCATGTCTGGGACATGGCATGGGCACCATCACGAGAA
66 ACCATGTCTGGGACATGGCATGGGCACCATCACGAG-A
*
2811099 CATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 -ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
2811139 GTTATTATCA
Statistics
Matches: 128, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
97 1 0.01
98 51 0.40
99 2 0.02
101 36 0.28
103 2 0.02
104 36 0.28
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.21
Consensus pattern (102 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTATAAG
ACCATGTCTGGGACATGGCATGGGCACCATCACGAGA
Found at i:2815128 original size:29 final size:30
Alignment explanation
Indices: 2815069--2815126 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
2815059 TCCGAGCCTT
*
2815069 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
2815099 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
2815127 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:2815356 original size:13 final size:13
Alignment explanation
Indices: 2815338--2815369 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2815328 TTTCCAGCAA
2815338 TTATGAATTTATT
1 TTATGAATTTATT
2815351 TTATGAATTTATT
1 TTATGAATTTATT
*
2815364 TGATGA
1 TTATGA
2815370 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:2815577 original size:50 final size:50
Alignment explanation
Indices: 2815464--2815705 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
2815454 ATTTGGGTAA
* * *
2815464 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
2815520 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
2815570 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
2815620 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
2815670 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
2815706 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:2815653 original size:100 final size:103
Alignment explanation
Indices: 2815464--2815713 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
2815454 ATTTGGGTAA
2815464 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
2815529 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
2815570 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
2815632 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
2815670 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
2815714 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:2817901 original size:16 final size:16
Alignment explanation
Indices: 2817867--2817904 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
2817857 AAAAGTTAAC
**
2817867 AAAATATATGATAGTA
1 AAAATATATGATACAA
2817883 AAAATATATGATACAA
1 AAAATATATGATACAA
2817899 AAAATA
1 AAAATA
2817905 CCTGACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (16 bp):
AAAATATATGATACAA
Found at i:2819654 original size:15 final size:15
Alignment explanation
Indices: 2819634--2819669 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
2819624 TTTATATATT
2819634 TTTTGTATTTT-TTTG
1 TTTTGT-TTTTGTTTG
2819649 TTTTGTTTTTGTTTG
1 TTTTGTTTTTGTTTG
2819664 TTTTGT
1 TTTTGT
2819670 GTTTACACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.03, C:0.00, G:0.17, T:0.81
Consensus pattern (15 bp):
TTTTGTTTTTGTTTG
Found at i:2819657 original size:11 final size:11
Alignment explanation
Indices: 2819633--2819673 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
2819623 CTTTATATAT
*
2819633 TTTTTGTATT-
1 TTTTTGTTTTG
2819643 TTTTTGTTTTG
1 TTTTTGTTTTG
2819654 TTTTTG-TTTG
1 TTTTTGTTTTG
2819664 TTTTGTGTTT
1 TTTT-TGTTT
2819674 ACACGGGCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 17 0.63
11 8 0.30
12 2 0.07
ACGTcount: A:0.02, C:0.00, G:0.17, T:0.80
Consensus pattern (11 bp):
TTTTTGTTTTG
Found at i:2819951 original size:44 final size:44
Alignment explanation
Indices: 2819888--2820905 Score: 1331
Period size: 44 Copynumber: 23.1 Consensus size: 44
2819878 CAGGAACACC
* * * * * *
2819888 AATCTGTTATTTTCGATCTGTTTTCTGCCAATACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* * * *
2819932 AATCTG-TCATCTTCAATCTGCTCTCTGTCAACACAGAGACGCCA
1 AATCTGCT-ATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* *
2819976 AATCTGCTATCTTCGATCTGCCCTCTGCCAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* *
2820020 AATCTG-TCATCTTCGATCTGCTCTCCGACAATACAGAGACACCA
1 AATCTGCT-ATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* * * *
2820064 AATCTACTATCTTCGATCTGCTCTCTGACGATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* * *
2820108 AATCTACTATATTCGATCTGCTCTCCGCCAATACAGAGACACCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* * * * *
2820152 AATCTGCTATCTTTGATCTGCCCTCTGACAATACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* * * *
2820196 AATCTGCTATCTTCGATCTGAC-CTCTGACGATATAGAGACGCCA
1 AATCTGCTATCTTCGATCTG-CTCTCCGCCAATACAGAGACGCCA
* * *
2820240 AATCTACTATCTTCTATCTGCTCTCCGCCAATATAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
2820284 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
*
2820328 AATCTGCTATCTTCGATCTGCTCTCCGCCAACACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* * *
2820372 AATCTGCTATCTTCGATCTCCTTTCCGCCAACACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
2820416 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* ****
2820460 AATCTGCTATCTTCGATCTGCCCTCCAATGATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
** * *
2820504 AATCTATTATATTCGATCTGCTCTCCGCCACTACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* *
2820548 AATCTACTATCTTCGATCTGCTATCCGCCAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* *
2820592 AATCTGCTATCTTCGATCTGCTCTCCTCTAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
** * * * *
2820636 AATCTATTATATTCGATCTGCTCTCCGCCACTACAGATATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* * * * *
2820680 AATCTGTTATCTTCGATCTACCCTCTGACAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* ** * *
2820724 AATCTGCTATCTTCGATCTGCCCTCCAACGATACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
*
2820768 AGTCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* *
2820812 AATCTGCTATCTTCGATTTGCTCTCCGCCACTACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* * * *
2820856 AATCTGCTATCTTCGATTTGCTCTCTGCTACTACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
2820900 AATCTG
1 AATCTG
2820906 TCTGGTCTTC
Statistics
Matches: 862, Mismatches: 106, Indels: 12
0.88 0.11 0.01
Matches are distributed among these distances:
43 3 0.00
44 856 0.99
45 3 0.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (44 bp):
AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
Found at i:2821341 original size:131 final size:131
Alignment explanation
Indices: 2821090--2821334 Score: 346
Period size: 131 Copynumber: 1.9 Consensus size: 131
2821080 AAGATAAGAC
* * * * * *
2821090 CTACAATCTTTAGCCTACTTCACTACAACTTTATAGAGCTAGGACTTGCTTAAATATGCTTCGCT
1 CTACAATCCTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATATACTTCACT
* * * * * * *
2821155 GCATCTTCAGGAAGCCAAGATTTATCGTCTTTGATTTGCCTCACTGCAACTTCAGGAAGACGAGG
66 GCAACATCAGGAAGCCAAGATTCACCGTCTTCGATCTGCCCCACTGCAACTTCAGGAAGACGAGG
2821220 T
131 T
*
2821221 CTACAATCCTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTACTTCACT
1 CTACAATCCTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATATACTTCACT
* *
2821286 GCAACATCAGGAAGCCTAGATTCGCCGTCTTCGATCTGCCCCACTGCAA
66 GCAACATCAGGAAGCCAAGATTCACCGTCTTCGATCTGCCCCACTGCAA
2821335 TCTCAGGGAA
Statistics
Matches: 98, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
131 98 1.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (131 bp):
CTACAATCCTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATATACTTCACT
GCAACATCAGGAAGCCAAGATTCACCGTCTTCGATCTGCCCCACTGCAACTTCAGGAAGACGAGG
T
Found at i:2823601 original size:46 final size:46
Alignment explanation
Indices: 2823534--2823708 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
2823524 TGTAACCCGC
2823534 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
2823580 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
2823630 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
2823673 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
2823709 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 62 0.58
47 25 0.23
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:2823654 original size:93 final size:93
Alignment explanation
Indices: 2823542--2823712 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
2823532 GCCCATAAGT
** *
2823542 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
2823607 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
2823635 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
2823700 CGAGTTCGGATGC
66 CGAGCTCGGATGC
2823713 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:2825840 original size:15 final size:15
Alignment explanation
Indices: 2825820--2825855 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
2825810 CTTTATATAT
2825820 TTTTGTATTTT-TTTG
1 TTTTGT-TTTTGTTTG
2825835 TTTTGTTTTTGTTTG
1 TTTTGTTTTTGTTTG
2825850 TTTTGT
1 TTTTGT
2825856 GTTTACATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.03, C:0.00, G:0.17, T:0.81
Consensus pattern (15 bp):
TTTTGTTTTTGTTTG
Found at i:2825843 original size:11 final size:11
Alignment explanation
Indices: 2825819--2825859 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
2825809 GCTTTATATA
*
2825819 TTTTTGTATT-
1 TTTTTGTTTTG
2825829 TTTTTGTTTTG
1 TTTTTGTTTTG
2825840 TTTTTG-TTTG
1 TTTTTGTTTTG
2825850 TTTTGTGTTT
1 TTTT-TGTTT
2825860 ACATGGGCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 17 0.63
11 8 0.30
12 2 0.07
ACGTcount: A:0.02, C:0.00, G:0.17, T:0.80
Consensus pattern (11 bp):
TTTTTGTTTTG
Found at i:2828729 original size:41 final size:41
Alignment explanation
Indices: 2828485--2828723 Score: 290
Period size: 41 Copynumber: 5.8 Consensus size: 41
2828475 TTAAACAGAT
** * * *
2828485 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAAT--GTA
* * *
2828527 -CATCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCA-TTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
2828567 TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
2828608 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
2828649 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-AAT-TA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
2828688 CTTCACCGGCATTAAGCCTGCTAGACGTAACGTCTG
1 --TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
2828724 TATTACATTC
Statistics
Matches: 179, Mismatches: 12, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
39 2 0.01
40 8 0.04
41 165 0.92
42 4 0.02
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
Found at i:2835888 original size:41 final size:41
Alignment explanation
Indices: 2835644--2835882 Score: 299
Period size: 41 Copynumber: 5.8 Consensus size: 41
2835634 TTAAACAGAT
** * * *
2835644 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAAT--GTA
* *
2835686 -CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCA-TTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
2835726 TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
2835767 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
2835808 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-AAT-TA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
2835847 CTTCACCGGCATTAAGCCTGCTAGACGTAACGTCTG
1 --TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
2835883 TATTACATTC
Statistics
Matches: 181, Mismatches: 10, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 2 0.01
40 8 0.04
41 167 0.92
42 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
Found at i:2843054 original size:41 final size:41
Alignment explanation
Indices: 2842810--2843048 Score: 299
Period size: 41 Copynumber: 5.8 Consensus size: 41
2842800 TTAAACAGAT
** * * *
2842810 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAAT--GTA
* *
2842852 -CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCA-TTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
2842892 TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
2842933 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
2842974 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-AAT-TA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
2843013 CTTCACCGGCATTAAGCCTGCTAGACGTAACGTCTG
1 --TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
2843049 TATTACATTC
Statistics
Matches: 181, Mismatches: 10, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 2 0.01
40 8 0.04
41 167 0.92
42 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
Found at i:2846471 original size:5 final size:5
Alignment explanation
Indices: 2846441--2846549 Score: 66
Period size: 6 Copynumber: 20.8 Consensus size: 5
2846431 TGAATCCTCC
*
2846441 TTTT- TTTTA -TTTA TTCTTA TTTTTA TTTTA -TTTA TTTTA TTTTA TTTTTCT
1 TTTTA TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTTA TTTTA TTTTA -TTTT-A
* *
2846492 TTTTC TTTTGA TTTTTA TTTCTA TTTTCA TTTTCA TTTCAA TTTTA --TTA
1 TTTTA TTTT-A -TTTTA TTT-TA TTTT-A TTTT-A TTT-TA TTTTA TTTTA
2846541 TTTTA TTTT
1 TTTTA TTTT
2846550 GAAAGACATA
Statistics
Matches: 86, Mismatches: 5, Indels: 27
0.73 0.04 0.23
Matches are distributed among these distances:
3 3 0.03
4 12 0.14
5 31 0.36
6 34 0.40
7 6 0.07
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:2846480 original size:14 final size:14
Alignment explanation
Indices: 2846461--2846487 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2846451 TTATTCTTAT
2846461 TTTTATTTTATTTA
1 TTTTATTTTATTTA
2846475 TTTTATTTTATTT
1 TTTTATTTTATTT
2846488 TTCTTTTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTATTTTATTTA
Found at i:2846518 original size:18 final size:17
Alignment explanation
Indices: 2846450--2846539 Score: 78
Period size: 18 Copynumber: 5.4 Consensus size: 17
2846440 CTTTTTTTTA
* *
2846450 TTTATTCTTATTTTTAT
1 TTTATTTTTATTTCTAT
2846467 TTTA--TTTATTT-TAT
1 TTTATTTTTATTTCTAT
* * *
2846481 TTTATTTTTCTTTTTCT
1 TTTATTTTTATTTCTAT
2846498 TTTGATTTTTATTTCTAT
1 TTT-ATTTTTATTTCTAT
* *
2846516 TTTCATTTTCATTTCAAT
1 TTT-ATTTTTATTTCTAT
2846534 TTTATT
1 TTTATT
2846540 ATTTTATTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
14 7 0.12
15 6 0.10
16 6 0.10
17 12 0.20
18 29 0.48
ACGTcount: A:0.17, C:0.08, G:0.01, T:0.74
Consensus pattern (17 bp):
TTTATTTTTATTTCTAT
Found at i:2846518 original size:29 final size:29
Alignment explanation
Indices: 2846450--2846539 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 29
2846440 CTTTTTTTTA
2846450 TTTATTCTTATTTTT-ATTTT-ATTT--AT
1 TTTATT-TTATTTTTCATTTTCATTTCAAT
* * * *
2846476 TTTATTTTATTTTTCTTTTTCTTTTGATT
1 TTTATTTTATTTTTCATTTTCATTTCAAT
2846505 TTTATTTCTA-TTTTCATTTTCATTTCAAT
1 TTTATTT-TATTTTTCATTTTCATTTCAAT
2846534 TTTATT
1 TTTATT
2846540 ATTTTATTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
25 8 0.15
26 10 0.19
27 3 0.06
29 29 0.56
30 2 0.04
ACGTcount: A:0.17, C:0.08, G:0.01, T:0.74
Consensus pattern (29 bp):
TTTATTTTATTTTTCATTTTCATTTCAAT
Found at i:2864705 original size:16 final size:17
Alignment explanation
Indices: 2864683--2864726 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
2864673 TCATTTTCTG
*
2864683 TTAAAAAAAATTAAAAA
1 TTAAAAAAAATAAAAAA
2864700 -TAAAAAAAATAAAAAA
1 TTAAAAAAAATAAAAAA
2864716 TTGAAAAAAAA
1 TT-AAAAAAAA
2864727 AGGGTTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 15 0.62
17 1 0.04
18 8 0.33
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (17 bp):
TTAAAAAAAATAAAAAA
Found at i:2865198 original size:301 final size:300
Alignment explanation
Indices: 2864831--2865405 Score: 974
Period size: 301 Copynumber: 1.9 Consensus size: 300
2864821 TTTATTTTTT
* * *
2864831 AATAAAATAAGAAATAATATATTTTAAAAAATAAAATCTGAAAATTTAAAAAATACAAATAAAAG
1 AATAAAATAAGAAATAATATATTTTAAAAAATAAAATCCGAAAATTAAAAAAATACAAACAAAAG
* *
2864896 GGCCAAAATCAGGGTTATTTACTAAATTAATAAAAAAATACTTAAATAATACATTTGAAACATTA
66 GGCCAAAATCAAGGTTATTTACTAAATTAAT-AAAAAA-ACTTAAATAATACACTTGAAACATTA
2864961 TGTACTAAAATAATAT-AAAAATAAAATACAAAAATAGTATATTTTAAAAATTAAAATCCAAAAA
129 TGTACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTTAAAAATTAAAATCCAAAAA
* *
2865025 TAAAAAAATAGGAACAAAGTGCCAAAATCAAGGTTATTTATTAAATTAATATTAAAAAACACTTA
194 TAAAAAAATACGAACAAAGTGCCAAAATCAAGATTATTTATTAAATTAATATTAAAAAACACTTA
2865090 AATAATACATTTGAAACATTATGTACTAAAATAATATAAAAA
259 AATAATACATTTGAAACATTATGTACTAAAATAATATAAAAA
* * *
2865132 AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAA-TAAAAAAATATAAACAAAA
1 AATAAAATAAG-AAATAATATATTTTAAAAAATAAAATCCGAAAATTAAAAAAATACAAACAAAA
2865196 GGGCCAAAATCAAGGTTATTTACTAAATTAATAAAAAAACTTAAATAATACACTTGAAACATTAT
65 GGGCCAAAATCAAGGTTATTTACTAAATTAATAAAAAAACTTAAATAATACACTTGAAACATTAT
** *
2865261 GTACTAAAATAATATAAAAAAATAAAATATGAAAATAGTATATTTTAAAAATTAAAATCCGAAAA
130 GTACTAAAATAATAT-AAAAAATAAAATACAAAAATAGTATATTTTAAAAATTAAAATCCAAAAA
2865326 TAAAAAAATACGAACAAAGTGCCAAAATCAAGATTATTTATTAAATTAATATTAAAAAACACTTA
194 TAAAAAAATACGAACAAAGTGCCAAAATCAAGATTATTTATTAAATTAATATTAAAAAACACTTA
*
2865391 AATAATATATTTGAA
259 AATAATACATTTGAA
2865406 TCCATTCTCG
Statistics
Matches: 257, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
299 41 0.16
300 6 0.02
301 179 0.70
302 31 0.12
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.28
Consensus pattern (300 bp):
AATAAAATAAGAAATAATATATTTTAAAAAATAAAATCCGAAAATTAAAAAAATACAAACAAAAG
GGCCAAAATCAAGGTTATTTACTAAATTAATAAAAAAACTTAAATAATACACTTGAAACATTATG
TACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTTAAAAATTAAAATCCAAAAATA
AAAAAATACGAACAAAGTGCCAAAATCAAGATTATTTATTAAATTAATATTAAAAAACACTTAAA
TAATACATTTGAAACATTATGTACTAAAATAATATAAAAA
Found at i:2865295 original size:149 final size:152
Alignment explanation
Indices: 2864831--2865405 Score: 853
Period size: 149 Copynumber: 3.8 Consensus size: 152
2864821 TTTATTTTTT
* * * * *
2864831 AATAAAATAAG-AAATAATATATTTTAAAAAATAAAATCTGAAAATTTAAAAAATACAAATAAAA
1 AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAA-TAAAAAAATACAAA-CAAA
* *
2864895 GGGCCAAAATCAGGGTTATTTACTAAATTAATA--AAAAAATACTTAAATAATACATTTGAAACA
64 GGGCCAAAATCAAGGTTATTTACTAAATTAATATTAAAAAACACTTAAATAATACATTTGAAACA
2864958 TTATGTACTAAAATAATAT--AAA
129 TTATGTACTAAAATAATATAAAAA
* * * ** *
2864980 AATAAAATACAAAAATAGTATATTTTAAAAATTAAAATCCAAAAATAAAAAAATAGGAACAAAGT
1 AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAAAAATACAAACAAAGG
*
2865045 GCCAAAATCAAGGTTATTTATTAAATTAATATTAAAAAACACTTAAATAATACATTTGAAACATT
66 GCCAAAATCAAGGTTATTTACTAAATTAATATTAAAAAACACTTAAATAATACATTTGAAACATT
2865110 ATGTACTAAAATAATATAAAAA
131 ATGTACTAAAATAATATAAAAA
*
2865132 AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAAAAATATAAACAAAAG
1 AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAAAAATACAAAC-AAAG
*
2865197 GGCCAAAATCAAGGTTATTTACTAAATT-A-A-TAAAAAA-ACTTAAATAATACACTTGAAACAT
65 GGCCAAAATCAAGGTTATTTACTAAATTAATATTAAAAAACACTTAAATAATACATTTGAAACAT
2865258 TATGTACTAAAATAATATAAAAA
130 TATGTACTAAAATAATATAAAAA
* * * *
2865281 AATAAAATATGAAAATAGTATATTTTAAAAATTAAAATCCGAAAATAAAAAAATACGAACAAAGT
1 AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAAAAATACAAACAAAGG
* * *
2865346 GCCAAAATCAAGATTATTTATTAAATTAATATTAAAAAACACTTAAATAATATATTTGAA
66 GCCAAAATCAAGGTTATTTACTAAATTAATATTAAAAAACACTTAAATAATACATTTGAA
2865406 TCCATTCTCG
Statistics
Matches: 385, Mismatches: 31, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
148 62 0.16
149 123 0.32
150 85 0.22
151 8 0.02
152 77 0.20
153 30 0.08
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.28
Consensus pattern (152 bp):
AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAAAAATACAAACAAAGG
GCCAAAATCAAGGTTATTTACTAAATTAATATTAAAAAACACTTAAATAATACATTTGAAACATT
ATGTACTAAAATAATATAAAAA
Found at i:2876288 original size:16 final size:15
Alignment explanation
Indices: 2876252--2876302 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
2876242 ATTGGCCATC
2876252 TTATTT-TTTAATA-
1 TTATTTATTTAATAT
2876265 TTATTTTAATTTAATAT
1 TTA-TTT-ATTTAATAT
*
2876282 TTATTTATTTATTTAT
1 TTATTTATTTA-ATAT
2876298 TTATT
1 TTATT
2876303 AAAATTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
13 3 0.09
14 3 0.09
15 5 0.16
16 18 0.56
17 3 0.09
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTTATTTAATAT
Found at i:2881781 original size:52 final size:52
Alignment explanation
Indices: 2881703--2881807 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
2881693 GCTTTCTCAG
2881703 ATGAAATTGAAATATAACACTTCGTCATATTCTAAGGTCTTAGAATGTAGCT
1 ATGAAATTGAAATATAACACTTCGTCATATTCTAAGGTCTTAGAATGTAGCT
*
2881755 ATGAAATTGAAATATAACACTTCGTCATATTCTAAGGTCTTAGAATGTGGCT
1 ATGAAATTGAAATATAACACTTCGTCATATTCTAAGGTCTTAGAATGTAGCT
2881807 A
1 A
2881808 CTGATTAAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.34
Consensus pattern (52 bp):
ATGAAATTGAAATATAACACTTCGTCATATTCTAAGGTCTTAGAATGTAGCT
Found at i:2882253 original size:19 final size:18
Alignment explanation
Indices: 2882231--2882273 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
2882221 AATTACAAAA
*
2882231 AAAAATCAAAATAATTTTT
1 AAAAATCAAAAT-ATTTAT
* *
2882250 AAAATTCAACATATTTAT
1 AAAAATCAAAATATTTAT
2882268 AAAAAT
1 AAAAAT
2882274 TTTAAACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAATCAAAATATTTAT
Found at i:2882323 original size:44 final size:44
Alignment explanation
Indices: 2882275--2882361 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
2882265 TATAAAAATT
2882275 TTAAACAAATCTAAAAAATACATAAAGAAAGTTCAATTTTTAAA
1 TTAAACAAATCTAAAAAATACATAAAGAAAGTTCAATTTTTAAA
2882319 TTAAACAAATCTAAAAAATACATAAAGAAAGTTCAATTTTTAA
1 TTAAACAAATCTAAAAAATACATAAAGAAAGTTCAATTTTTAA
2882362 TTTTTTTTCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (44 bp):
TTAAACAAATCTAAAAAATACATAAAGAAAGTTCAATTTTTAAA
Found at i:2883687 original size:23 final size:23
Alignment explanation
Indices: 2883605--2883691 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
2883595 CCTTATCAGT
*
2883605 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
2883627 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
2883647 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
2883670 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
2883692 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:2886680 original size:4 final size:4
Alignment explanation
Indices: 2886671--2886703 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
2886661 TTAGGTAAAA
2886671 TATT TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT T
2886704 TTTTGAACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:2887424 original size:18 final size:18
Alignment explanation
Indices: 2887401--2887435 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2887391 TAAATTACTT
2887401 TGATAATAAATTCTAATC
1 TGATAATAAATTCTAATC
2887419 TGATAATAAATTCTAAT
1 TGATAATAAATTCTAAT
2887436 TAATTAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.40
Consensus pattern (18 bp):
TGATAATAAATTCTAATC
Found at i:2887443 original size:18 final size:18
Alignment explanation
Indices: 2887403--2887439 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2887393 AATTACTTTG
*
2887403 ATAATAAATTCTAATCTG
1 ATAATAAATTCTAATCTA
2887421 ATAATAAATTCTAAT-TA
1 ATAATAAATTCTAATCTA
2887438 AT
1 AT
2887440 TAATTGTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (18 bp):
ATAATAAATTCTAATCTA
Found at i:2889397 original size:3 final size:3
Alignment explanation
Indices: 2889389--2889426 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
2889379 ATTCAGATTA
*
2889389 CAC CAC CAC CAC CGC C-C GCAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC -CAC CAC CAC CAC CAC CAC CA
2889427 GTCACTTCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
2 1 0.03
3 30 0.94
4 1 0.03
ACGTcount: A:0.29, C:0.66, G:0.05, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:2891629 original size:17 final size:17
Alignment explanation
Indices: 2891597--2891630 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2891587 TCTTCTTCTC
* *
2891597 CCTTTAATTTTGGGATT
1 CCTTTAATTATAGGATT
2891614 CCTTTAATTATAGGATT
1 CCTTTAATTATAGGATT
2891631 TTATGCAAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.50
Consensus pattern (17 bp):
CCTTTAATTATAGGATT
Found at i:2893908 original size:18 final size:19
Alignment explanation
Indices: 2893885--2893923 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2893875 TACAAATACA
*
2893885 AACATT-ACATAATTATTT
1 AACATTCACATAATGATTT
*
2893903 AACATTCACATCATGATTT
1 AACATTCACATAATGATTT
2893922 AA
1 AA
2893924 TCATATCGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (19 bp):
AACATTCACATAATGATTT
Found at i:2894615 original size:22 final size:22
Alignment explanation
Indices: 2894590--2894642 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
2894580 GAGAGTACGG
* *
2894590 ATGTGCTAAACAGATAGCAC-A
1 ATGTGCTAAACAAAGAGCACTA
2894611 TATGTGCTAAACAAAGAGCACTA
1 -ATGTGCTAAACAAAGAGCACTA
2894634 ATGTGCTAA
1 ATGTGCTAA
2894643 TAATCAGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.23
Consensus pattern (22 bp):
ATGTGCTAAACAAAGAGCACTA
Found at i:2895599 original size:5 final size:5
Alignment explanation
Indices: 2895589--2895621 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
2895579 TTGTTTGTTT
*
2895589 TATAA TATAA TATAA TATAA AATAA TAT-A TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATA
2895622 CACTTAATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:2904069 original size:48 final size:52
Alignment explanation
Indices: 2903949--2904139 Score: 151
Period size: 48 Copynumber: 3.7 Consensus size: 52
2903939 ATTAGGGTTT
* * * * * *
2903949 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAACTGGTAAGGTTTC-TAAGGC
1 AAGGCTACCATGTAAGACCATGTCAAGACATGGC-A-TTGTGA-G-CTCATAAGGC
** *
2904004 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATT-T-A-CT-ATAAGGC
1 AAGGCTACCATGTAAGACCATGTCAAGACATGGCATTGTGAGCTCATAAGGC
* * * *
2904052 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGCTACCATGTAAGACCATGTCAAGACATGGCATT-GTGAGCTCATAAGGC
* *
2904105 AAGGCTACCATGTAAGACAATGTCAAGATATGGCA
1 AAGGCTACCATGTAAGACCATGTCAAGACATGGCA
2904140 ATGGTAAGTT
Statistics
Matches: 111, Mismatches: 17, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
48 34 0.31
49 4 0.04
50 1 0.01
51 2 0.02
52 6 0.05
53 33 0.30
54 1 0.01
55 30 0.27
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (52 bp):
AAGGCTACCATGTAAGACCATGTCAAGACATGGCATTGTGAGCTCATAAGGC
Found at i:2904121 original size:53 final size:53
Alignment explanation
Indices: 2903949--2904196 Score: 205
Period size: 49 Copynumber: 4.8 Consensus size: 53
2903939 ATTAGGGTTT
* *
2903949 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAACTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-G-TTCATAAGGC
* * * *
2904004 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATT--T-A-CT-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * *
2904052 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * * * *
2904105 AAGGCTACCATGTAAGACAATGTCAAGATATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCAT-AAGGC
* * * *
2904154 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
2904197 GTACCCGCGT
Statistics
Matches: 159, Mismatches: 25, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
48 34 0.21
49 41 0.26
50 1 0.01
51 3 0.02
52 8 0.05
53 40 0.25
54 2 0.01
55 30 0.19
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:2904157 original size:101 final size:101
Alignment explanation
Indices: 2903949--2904198 Score: 276
Period size: 101 Copynumber: 2.4 Consensus size: 101
2903939 ATTAGGGTTT
*
2903949 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAACTGGTAAGGTTTCTAAGGCAAGGAAATCA
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAA-TGGTAAGGTTTCTAAGGCAAGGAAACCA
*
2904014 TGTAAGACCATGTCAAGACATGGCATTTACTATAAGGCA
65 TGTAAGACAATGTCAAGACATGGCA--TACTATAAGGCA
* * * **
2904053 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGA-G-TTCATAAGGCAAGGCTACCA
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGGTTTC-TAAGGCAAGGAAACCA
* * *
2904115 TGTAAGACAATGTCAAGATATGGCA-A-TGGTAAGTTTCAA
65 TGTAAGACAATGTCAAGACATGGCATACT-ATAAG--GC-A
* * *
2904154 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGGT
2904199 ACCCGCGTAT
Statistics
Matches: 122, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
97 1 0.01
98 5 0.04
100 4 0.03
101 42 0.34
102 36 0.30
103 30 0.25
104 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (101 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGGTTTCTAAGGCAAGGAAACCAT
GTAAGACAATGTCAAGACATGGCATACTATAAGGCA
Found at i:2904410 original size:16 final size:16
Alignment explanation
Indices: 2904389--2904419 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2904379 ATAAATTTGA
2904389 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
2904405 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
2904420 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:2908558 original size:21 final size:21
Alignment explanation
Indices: 2908532--2908572 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
2908522 TTTCTCTTTC
2908532 AAATTTTATTTTTTTAATTAT
1 AAATTTTATTTTTTTAATTAT
2908553 AAATTTTATTTTTTTAATTA
1 AAATTTTATTTTTTTAATTA
2908573 CAAGAGGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
AAATTTTATTTTTTTAATTAT
Found at i:2909738 original size:15 final size:15
Alignment explanation
Indices: 2909718--2909774 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
2909708 CGATGAATTT
2909718 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
2909733 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
2909748 ATTGAATTTATATTG
1 ATTGAATTTATATTG
2909763 ATTGAA-TTATAT
1 ATTGAATTTATAT
2909775 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:2910177 original size:23 final size:23
Alignment explanation
Indices: 2910147--2910233 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
2910137 GCTTTATCGA
* *
2910147 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
2910170 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
* *
2910191 TCAGGCACCTCGTGTGTTGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
2910213 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
2910234 ACTGATCAGA
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
21 33 0.62
22 2 0.04
23 18 0.34
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.39
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:2912788 original size:6 final size:6
Alignment explanation
Indices: 2912749--2912776 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
2912739 TTTATTTTAT
2912749 TTAATA TTAATA TTAATA TTAATA TTAA
1 TTAATA TTAATA TTAATA TTAATA TTAA
2912777 ATTTATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TTAATA
Found at i:2913531 original size:16 final size:16
Alignment explanation
Indices: 2913510--2913542 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2913500 CATGTGGTAA
*
2913510 AAAAATTATAAAAAAT
1 AAAAATTAGAAAAAAT
2913526 AAAAATTAGAAAAAAT
1 AAAAATTAGAAAAAAT
2913542 A
1 A
2913543 TTTAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAAATTAGAAAAAAT
Found at i:2913584 original size:11 final size:10
Alignment explanation
Indices: 2913566--2913612 Score: 58
Period size: 11 Copynumber: 4.5 Consensus size: 10
2913556 AAAAATTAGG
2913566 AAAAAAATAT
1 AAAAAAATAT
2913576 AAAAGAAATAT
1 AAAA-AAATAT
* *
2913587 AAAAAATTGT
1 AAAAAAATAT
2913597 AAAAAATATAT
1 AAAAAA-ATAT
2913608 AAAAA
1 AAAAA
2913613 GACATCAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
10 14 0.45
11 17 0.55
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.21
Consensus pattern (10 bp):
AAAAAAATAT
Found at i:2913592 original size:21 final size:21
Alignment explanation
Indices: 2913566--2913612 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
2913556 AAAAATTAGG
2913566 AAAAAAATATAAAAGAA-ATAT
1 AAAAAAATATAAAA-AATATAT
* *
2913587 AAAAAATTGTAAAAAATATAT
1 AAAAAAATATAAAAAATATAT
2913608 AAAAA
1 AAAAA
2913613 GACATCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.21
Consensus pattern (21 bp):
AAAAAAATATAAAAAATATAT
Found at i:2913980 original size:6 final size:7
Alignment explanation
Indices: 2913955--2913990 Score: 54
Period size: 7 Copynumber: 4.9 Consensus size: 7
2913945 TTTTTACAAC
2913955 TTTTATTA
1 TTTT-TTA
2913963 TTTTTTA
1 TTTTTTA
2913970 TTTTTTA
1 TTTTTTA
2913977 TTTTTTA
1 TTTTTTA
2913984 TATTTTT
1 T-TTTTT
2913991 TACCACATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 18 0.67
8 9 0.33
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTA
Found at i:2915287 original size:14 final size:13
Alignment explanation
Indices: 2915242--2915285 Score: 56
Period size: 11 Copynumber: 3.5 Consensus size: 13
2915232 TTATATTAAT
2915242 AATATTAAAAATA
1 AATATTAAAAATA
2915255 AA-A-TAAAAATA
1 AATATTAAAAATA
*
2915266 ATATTTTAAAAATA
1 A-ATATTAAAAATA
2915280 AATATT
1 AATATT
2915286 TATTTTTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 9 0.35
12 2 0.08
13 6 0.23
14 9 0.35
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AATATTAAAAATA
Found at i:2924585 original size:15 final size:15
Alignment explanation
Indices: 2924553--2924594 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
2924543 TTTTCCATAT
* *
2924553 TTAATTTCTCAACAC
1 TTAATTTTTCAGCAC
*
2924568 TTATTTTTTCAGCAC
1 TTAATTTTTCAGCAC
2924583 TTAATTTTTCAG
1 TTAATTTTTCAG
2924595 TTTATCAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.19, G:0.05, T:0.50
Consensus pattern (15 bp):
TTAATTTTTCAGCAC
Found at i:2926960 original size:18 final size:18
Alignment explanation
Indices: 2926937--2926974 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
2926927 TATCTGAAAC
2926937 TTAATTTTGAATATGATA
1 TTAATTTTGAATATGATA
2926955 TTAATTTTGAATATGATA
1 TTAATTTTGAATATGATA
2926973 TT
1 TT
2926975 CCTATTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (18 bp):
TTAATTTTGAATATGATA
Found at i:2943970 original size:14 final size:12
Alignment explanation
Indices: 2943942--2944002 Score: 52
Period size: 14 Copynumber: 4.8 Consensus size: 12
2943932 AATATACATA
2943942 AATTTTATATTT
1 AATTTTATATTT
2943954 AATTTATATATTTT
1 AATTT-TATA-TTT
*
2943968 AATTTCTA-ATAT
1 AATTT-TATATTT
*
2943980 AATTTTATCTTT
1 AATTTTATATTT
2943992 ATAGTTTTATA
1 A-A-TTTTATA
2944003 ATGTTATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
11 2 0.05
12 15 0.38
13 6 0.15
14 16 0.41
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (12 bp):
AATTTTATATTT
Found at i:2943972 original size:26 final size:26
Alignment explanation
Indices: 2943942--2944002 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
2943932 AATATACATA
*
2943942 AATTTTATATTTAATTTATATATTT-T
1 AATTTTATATATAATTT-TATATTTAT
*
2943968 AATTTCTA-ATATAATTTTATCTTTAT
1 AATTT-TATATATAATTTTATATTTAT
*
2943994 AGTTTTATA
1 AATTTTATA
2944003 ATGTTATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
25 8 0.28
26 19 0.66
27 2 0.07
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (26 bp):
AATTTTATATATAATTTTATATTTAT
Found at i:2950810 original size:39 final size:38
Alignment explanation
Indices: 2950740--2950874 Score: 103
Period size: 39 Copynumber: 3.4 Consensus size: 38
2950730 ACCAATATGG
* * *
2950740 CACCCAGTGCCTCATCGGATAGTTCGTAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGTAATAGTTGA
* *
2950779 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGTAATAGTTGA
* * * * *
2950817 TACCCAGTACCTCATCGAATCTATCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGTAATAGT--TGA
*
2950858 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
2950875 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGTAATAGTTGA
Found at i:3003528 original size:23 final size:23
Alignment explanation
Indices: 3003500--3003544 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
3003490 ACATTATAGT
3003500 TTTTCTTTTCATATTTATATCAG
1 TTTTCTTTTCATATTTATATCAG
3003523 TTTTCTTTTCATATTTATATCA
1 TTTTCTTTTCATATTTATATCA
3003545 ATATTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.13, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTTCTTTTCATATTTATATCAG
Found at i:3005006 original size:20 final size:20
Alignment explanation
Indices: 3004983--3005020 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3004973 TAAATTTTCA
3004983 ATTTAATTATT-AAATTTAGT
1 ATTT-ATTATTAAAATTTAGT
*
3005003 ATTTTTTATTAAAATTTA
1 ATTTATTATTAAAATTTA
3005021 TCAACTTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
ATTTATTATTAAAATTTAGT
Found at i:3010444 original size:42 final size:42
Alignment explanation
Indices: 3010381--3010463 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
3010371 GCCTGAACCG
*
3010381 TGAAGGGTGGGTAAAAGCTAAGAAGCTCCTAAAATGGCCAAA
1 TGAAGGGTGGGTAAAAGCTAAGAAGCTCCCAAAATGGCCAAA
3010423 TGAAGGGTGGGTAGAAA-CTAAGAAGCTCCCAAAATGGCCAA
1 TGAAGGGTGGGTA-AAAGCTAAGAAGCTCCCAAAATGGCCAA
3010464 GTAAACCAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 36 0.92
43 3 0.08
ACGTcount: A:0.40, C:0.16, G:0.29, T:0.16
Consensus pattern (42 bp):
TGAAGGGTGGGTAAAAGCTAAGAAGCTCCCAAAATGGCCAAA
Found at i:3016105 original size:52 final size:52
Alignment explanation
Indices: 3016007--3016158 Score: 153
Period size: 52 Copynumber: 2.9 Consensus size: 52
3015997 CAGAAAAGAT
** * * *
3016007 GTGATATGTGCACCCGCATAAGACCATAGCTGGGCTATGGTATCGGTGCAAC
1 GTGATATGTGTTCCCGTATAAGACCATAACTGGGCTATGGCATCGGTGCAAC
* * ** *
3016059 GTGATATGTGTTCCCGTATAAGACCATAATTGGGCTATGGCGTCGGTGTGAT
1 GTGATATGTGTTCCCGTATAAGACCATAACTGGGCTATGGCATCGGTGCAAC
* * **
3016111 GTGATAATGTGATT-TCGTATAAGACCATATCTGGAATATGGCATCGGT
1 GTGAT-ATGTG-TTCCCGTATAAGACCATAACTGGGCTATGGCATCGGT
3016159 ATTATATGTG
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
52 47 0.57
53 33 0.40
54 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (52 bp):
GTGATATGTGTTCCCGTATAAGACCATAACTGGGCTATGGCATCGGTGCAAC
Found at i:3019944 original size:18 final size:18
Alignment explanation
Indices: 3019923--3019973 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
3019913 TAAAAGTCAG
*
3019923 TTATTCAGTAACGATAAA
1 TTATTCAGTAACAATAAA
* *
3019941 TTATTCAGTAATAATCAA
1 TTATTCAGTAACAATAAA
*
3019959 TTATTTAGTAACAAT
1 TTATTCAGTAACAAT
3019974 TTTTTTACGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (18 bp):
TTATTCAGTAACAATAAA
Found at i:3020209 original size:45 final size:47
Alignment explanation
Indices: 3020119--3020224 Score: 128
Period size: 45 Copynumber: 2.3 Consensus size: 47
3020109 CGGTAACAGT
* *
3020119 AACAGTAACAGTAGTGGTACACAGAGTACCTCATTGGAAAAAATTCAG
1 AACAGTAACAGTAGAGGTA-ACAGAGTACCTCATTAGAAAAAATTCAG
** *
3020167 AACAGTAACAGTA-AGGT-ACAGAGTACCT-ATTCAGAACGAATTCGG
1 AACAGTAACAGTAGAGGTAACAGAGTACCTCATT-AGAAAAAATTCAG
3020212 AACAGTAACAGTA
1 AACAGTAACAGTA
3020225 TAGTGTCTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
44 3 0.06
45 33 0.63
47 3 0.06
48 13 0.25
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.20
Consensus pattern (47 bp):
AACAGTAACAGTAGAGGTAACAGAGTACCTCATTAGAAAAAATTCAG
Found at i:3021274 original size:13 final size:13
Alignment explanation
Indices: 3021256--3021285 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3021246 TTTCTTTTCT
3021256 TTTCTTTTTCTCC
1 TTTCTTTTTCTCC
*
3021269 TTTCTTTTTTTCC
1 TTTCTTTTTCTCC
3021282 TTTC
1 TTTC
3021286 CCGTTTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTCTTTTTCTCC
Found at i:3021713 original size:13 final size:13
Alignment explanation
Indices: 3021659--3021717 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
3021649 AATATCAATT
3021659 TAATAA-AAATAA
1 TAATAATAAATAA
*
3021671 TATTAATAAAT-A
1 TAATAATAAATAA
*
3021683 TAA-AATATAAAACCA
1 TAATAATA-AATA--A
3021698 TAATAATAAATAA
1 TAATAATAAATAA
3021711 TAATAAT
1 TAATAAT
3021718 TTAATATACA
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
11 4 0.11
12 10 0.27
13 12 0.32
15 7 0.19
16 4 0.11
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (13 bp):
TAATAATAAATAA
Found at i:3026563 original size:21 final size:21
Alignment explanation
Indices: 3026537--3026603 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
3026527 CCTGATCAGT
* *
3026537 ATACGACACATAAAGTGTCTG
1 ATACGACACATAAGGTGCCTG
**
3026558 ATACGACACACGAGGTGCCTG
1 ATACGACACATAAGGTGCCTG
3026579 AAATACGACACATAAGGTGCCTG
1 --ATACGACACATAAGGTGCCTG
3026602 AT
1 AT
3026604 CGATAAAGCC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
21 19 0.50
23 19 0.50
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (21 bp):
ATACGACACATAAGGTGCCTG
Found at i:3026584 original size:23 final size:23
Alignment explanation
Indices: 3026537--3026602 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
3026527 CCTGATCAGT
* * *
3026537 ATACGACACATAAAGTGTCTG--
1 ATACGACACACAAGGTGCCTGAA
*
3026558 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAGGTGCCTGAA
*
3026581 ATACGACACATAAGGTGCCTGA
1 ATACGACACACAAGGTGCCTGA
3026603 TCGATAAAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
21 17 0.46
23 20 0.54
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (23 bp):
ATACGACACACAAGGTGCCTGAA
Found at i:3027000 original size:15 final size:15
Alignment explanation
Indices: 3026975--3027028 Score: 90
Period size: 15 Copynumber: 3.5 Consensus size: 15
3026965 TCATATATAT
3026975 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
3026991 TATAAATTCAATCAA
1 TATAAATTCAATCAA
*
3027006 TATAATTTCAATCAA
1 TATAAATTCAATCAA
3027021 TATAAATT
1 TATAAATT
3027029 TAATAAATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
15 32 0.89
16 4 0.11
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:3027039 original size:24 final size:27
Alignment explanation
Indices: 3026976--3027039 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 27
3026966 CATATATATT
3026976 ATATAATTCAATCAATATAAATTCAATCA
1 ATATAATTCAATCAATATAAATT--ATCA
3027005 ATATAATTTCAATCAATATAAATT-T-A
1 ATATAA-TTCAATCAATATAAATTATCA
3027031 ATA-AATTCA
1 ATATAATTCA
3027040 TCGCATACCA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
24 4 0.12
25 2 0.06
26 4 0.12
27 1 0.03
29 6 0.18
30 17 0.50
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.38
Consensus pattern (27 bp):
ATATAATTCAATCAATATAAATTATCA
Found at i:3031147 original size:41 final size:41
Alignment explanation
Indices: 3030862--3031141 Score: 390
Period size: 41 Copynumber: 6.8 Consensus size: 41
3030852 TTAAACAGAT
** * * *
3030862 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAAT--GTA
* *
3030904 -CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCA-TTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
3030944 TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
3030985 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
3031026 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
3031067 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-AAT-TA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
*
3031106 CTTCACCGGCATTAAGCCTGCTAGACTTAACGTCTG
1 --TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
3031142 TATTACATTC
Statistics
Matches: 223, Mismatches: 9, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
39 2 0.01
40 8 0.04
41 209 0.94
42 4 0.02
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
Found at i:3038811 original size:41 final size:41
Alignment explanation
Indices: 3038526--3038805 Score: 381
Period size: 41 Copynumber: 6.8 Consensus size: 41
3038516 TTAAACAGAT
** * * *
3038526 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAAT--GTA
* *
3038568 -CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCA-TTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
3038608 TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
3038649 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
3038690 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
3038731 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-AAT-TA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
3038770 CTTCACCGGCATTAAGCCTGCTAGACGTAACGTCTG
1 --TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
3038806 TATTACATTC
Statistics
Matches: 222, Mismatches: 10, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
39 2 0.01
40 8 0.04
41 208 0.94
42 4 0.02
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
Found at i:3042565 original size:11 final size:11
Alignment explanation
Indices: 3042549--3042575 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
3042539 TAGAAATTAG
3042549 TTTGTGAAACT
1 TTTGTGAAACT
3042560 TTTGTGAAACT
1 TTTGTGAAACT
3042571 TTTGT
1 TTTGT
3042576 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:3044130 original size:29 final size:28
Alignment explanation
Indices: 3044094--3044164 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
3044084 ATAAGAAAAT
*
3044094 TTATTATTAAAATTTTATGAAATTATATA
1 TTATTATTAAAATTATATGAAA-TATATA
* *
3044123 TTATTATT-AAATTATATGTAATATTTA
1 TTATTATTAAAATTATATGAAATATATA
3044150 TTATT-TT-AAATTATA
1 TTATTATTAAAATTATA
3044165 CAAATTCATA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 10 0.26
27 10 0.26
28 11 0.28
29 8 0.21
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (28 bp):
TTATTATTAAAATTATATGAAATATATA
Found at i:3044138 original size:90 final size:90
Alignment explanation
Indices: 3043983--3044198 Score: 315
Period size: 90 Copynumber: 2.4 Consensus size: 90
3043973 TTGATTTTAG
*
3043983 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATTAA-AATTTTATGAAATTATATATCATTATTAAATTAT
* *
3044048 ATTTAATATTAATTATTTTAAATTGTA
64 ATGTAATATTAATTATTTTAAATTATA
*
3044075 TAAATTCATATAAGAAAATTTATTATTAAAATTTTATGAAATTATATATTATTATTAAATTATAT
1 TAAATTCATATAAGAAAATTTATTATTAAAATTTTATGAAATTATATATCATTATTAAATTATAT
*
3044140 GTAATATTTATTATTTTAAATTATA
66 GTAATATTAATTATTTTAAATTATA
* * * * *
3044165 CAAATTCATAAAATATAATTTATTAGTTATAATT
1 TAAATTCATATAAGAAAATTTATTA-TTAAAATT
3044199 ATTTTAAATT
Statistics
Matches: 113, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
90 78 0.69
91 19 0.17
92 16 0.14
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.49
Consensus pattern (90 bp):
TAAATTCATATAAGAAAATTTATTATTAAAATTTTATGAAATTATATATCATTATTAAATTATAT
GTAATATTAATTATTTTAAATTATA
Found at i:3044158 original size:26 final size:27
Alignment explanation
Indices: 3044092--3044164 Score: 87
Period size: 26 Copynumber: 2.7 Consensus size: 27
3044082 ATATAAGAAA
* *
3044092 ATTTATTA-TTAAAATTTTATGAAATT
1 ATTTATTATTTTAAATTATATGAAATT
* *
3044118 ATATATTATTATTAAATTATATGTAA-T
1 ATTTATTATT-TTAAATTATATGAAATT
3044145 ATTTATTATTTTAAATTATA
1 ATTTATTATTTTAAATTATA
3044165 CAAATTCATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 17 0.43
27 11 0.28
28 12 0.30
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (27 bp):
ATTTATTATTTTAAATTATATGAAATT
Found at i:3044162 original size:44 final size:43
Alignment explanation
Indices: 3044023--3044164 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
3044013 GAATTTTATG
*
3044023 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATATTAATTATTTT
* ** * * *
3044067 AAATTGTATAAATTCATATAAGAAAATT-TATTATTA-AAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAATATTAATTATT-TT
*
3044113 AAATTATATATTATTATTAAATTATATGTAATATTTATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATATTAATTATTTT
3044157 AAATTATA
1 AAATTATA
3044165 CAAATTCATA
Statistics
Matches: 74, Mismatches: 14, Indels: 20
0.69 0.13 0.19
Matches are distributed among these distances:
41 6 0.08
42 4 0.05
43 6 0.08
44 22 0.30
45 6 0.08
46 14 0.19
47 7 0.09
48 3 0.04
49 6 0.08
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATATTAATTATTTT
Found at i:3044333 original size:120 final size:120
Alignment explanation
Indices: 3044205--3044494 Score: 451
Period size: 120 Copynumber: 2.4 Consensus size: 120
3044195 AATTATTTTA
* * *
3044205 AATTTTATTAAATCATATATTTTAATT-TAAATATATTTAATATTAATTAT-TTCAAGTTT-TCT
1 AATTTTATTAAATTATATATTTTAATTAT-AATATATTTAATAATAATTATATT-AA-TTTATAT
*
3044267 TTTATAGTATCATATATTATGATTTGAATAAATTCATATAAGAATAATAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAATAAATTCATATAAGAATAATAATTATTAAG
*
3044325 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAGTTATATTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATATTAATTTATATTTT
* * *
3044390 ACAGTATCATATATTATGATTTGAGTAAATTCATGTAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAATAAATTCATATAAGAATAATAATTATTAAG
*
3044445 AATTTTATTAAATTATATAATTTAATTATAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
3044495 GTTTAAATAT
Statistics
Matches: 157, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
119 3 0.02
120 151 0.96
121 3 0.02
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATATTAATTTATATTTT
ACAGTATCATATATTATGATTTGAATAAATTCATATAAGAATAATAATTATTAAG
Found at i:3044484 original size:15 final size:15
Alignment explanation
Indices: 3044450--3044491 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
3044440 TTAAGAATTT
*
3044450 TATTAAATTAT-ATA
1 TATTTAATTATAATA
3044464 -ATTTAATTATAATA
1 TATTTAATTATAATA
*
3044478 TATTTAATAATAAT
1 TATTTAATTATAAT
3044492 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 3 0.12
15 12 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:3044593 original size:155 final size:157
Alignment explanation
Indices: 3044434--3044748 Score: 571
Period size: 155 Copynumber: 2.0 Consensus size: 157
3044424 GTAAGAATAT
*
3044434 TAATTATTAAGAATTTTATTAAATTATATAATTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATAATTTAATTAAAATATATTTAATAATAATTATGTTT
*
3044499 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAAC-A
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
3044563 -AATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
*
3044589 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATAATTTAATTAAAATATATTTAATAATAATTATGTTT
3044654 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
3044719 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
3044746 TAA
1 TAA
3044749 GGGTATTCTA
Statistics
Matches: 153, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
155 125 0.82
156 1 0.01
157 27 0.18
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATAATTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:3044629 original size:18 final size:17
Alignment explanation
Indices: 3044601--3044635 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3044591 ATTATTAAGA
*
3044601 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
3044618 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
3044636 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Done.