Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 65 of 100
Found at i:11850752 original size:30 final size:30
Alignment explanation
Indices: 11850716--11850778 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
11850706 CACTTCTAGT
*
11850716 GATGGATTGTTGGACCTTAGCTGGAGCTCG
1 GATGGATTGTTGGACCTTAGCTGGAACTCG
* *
11850746 GATGGATTTTTGGACCTTATCTGGAACTCG
1 GATGGATTGTTGGACCTTAGCTGGAACTCG
11850776 GAT
1 GAT
11850779 AGATGACAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.19, C:0.16, G:0.32, T:0.33
Consensus pattern (30 bp):
GATGGATTGTTGGACCTTAGCTGGAACTCG
Found at i:11850824 original size:33 final size:32
Alignment explanation
Indices: 11850782--11851005 Score: 191
Period size: 33 Copynumber: 6.6 Consensus size: 32
11850772 CTCGGATAGA
*
11850782 TGACAGCTCGGATGGATTTTACCTGGACCTCTT
1 TGACAGCTCGGATGGATTTGA-CTGGACCTCTT
* *
11850815 TGACAGCTCGGATGGAATTCGACTGGACCTATT
1 TGACAGCTCGGATGG-ATTTGACTGGACCTCTT
*
11850848 TGACAGCTCGGATAGAATTTGACTGGACCTCTT
1 TGACAGCTCGGAT-GGATTTGACTGGACCTCTT
*
11850881 TGACAGCTCGGATGGAATTTGATTGGACCTCAGCTT
1 TGACAGCTCGGATGG-ATTTGACTGGACCT---CTT
* * * * **
11850917 GGGA-AACTCGGAGGGGTTTTTCCTGGACCTCTT
1 -TGACAGCTCGGA-TGGATTTGACTGGACCTCTT
* *
11850950 TAACAGCTCGGAGGGATTTTGACTGGACCTCATCT
1 TGACAGCTCGGATGGA-TTTGACTGGACCTC-T-T
11850985 TGGACAGCTCGGA-GAGATTTG
1 T-GACAGCTCGGATG-GATTTG
11851006 CCCGGGACCA
Statistics
Matches: 155, Mismatches: 22, Indels: 26
0.76 0.11 0.13
Matches are distributed among these distances:
32 5 0.03
33 101 0.65
34 6 0.04
35 7 0.05
36 32 0.21
37 4 0.03
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (32 bp):
TGACAGCTCGGATGGATTTGACTGGACCTCTT
Found at i:11850996 original size:69 final size:69
Alignment explanation
Indices: 11850783--11851004 Score: 265
Period size: 69 Copynumber: 3.3 Consensus size: 69
11850773 TCGGATAGAT
* *
11850783 GACAGCTCGGATGGATTTTACCTGGACCTCTTTGACAGCTCGGATGGAATTCGACTGGACCT-AT
1 GACAGCTCGGAGGGATTTTACCTGGACCTCTTTGACAGCTCGGATGGAATTTGACTGGACCTCAT
11850847 -TT-
66 CTTG
* * * *
11850849 GACAGCTCGGATAGAATTTGA-CTGGACCTCTTTGACAGCTCGGATGGAATTTGATTGGACCTCA
1 GACAGCTCGGA-GGGATTTTACCTGGACCTCTTTGACAGCTCGGATGGAATTTGACTGGACCTCA
*
11850913 GCTTGG
65 TCTT-G
* * * * * *
11850919 GA-AACTCGGAGGGGTTTTTCCTGGACCTCTTTAACAGCTCGGAGGGATTTTGACTGGACCTCAT
1 GACAGCTCGGAGGGATTTTACCTGGACCTCTTTGACAGCTCGGATGGAATTTGACTGGACCTCAT
11850983 CTTG
66 CTTG
*
11850987 GACAGCTCGGAGAGATTT
1 GACAGCTCGGAGGGATTT
11851005 GCCCGGGACC
Statistics
Matches: 129, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
66 50 0.39
67 7 0.05
68 9 0.07
69 61 0.47
70 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (69 bp):
GACAGCTCGGAGGGATTTTACCTGGACCTCTTTGACAGCTCGGATGGAATTTGACTGGACCTCAT
CTTG
Found at i:11852570 original size:30 final size:30
Alignment explanation
Indices: 11852507--11852570 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
11852497 AACCGATGAC
* *
11852507 TTAATTGAGTGAAAATAAATATATAACATT
1 TTAATTGAGTGAAAATAAATATATAAAAAT
*
11852537 TTAATTTGA-TGAAAATAAATATTTAAAAAT
1 TTAA-TTGAGTGAAAATAAATATATAAAAAT
11852567 TTAA
1 TTAA
11852571 GATTTGATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 26 0.87
31 4 0.13
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.39
Consensus pattern (30 bp):
TTAATTGAGTGAAAATAAATATATAAAAAT
Found at i:11853365 original size:20 final size:20
Alignment explanation
Indices: 11853308--11853365 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
11853298 TGTTTAGAAA
* *
11853308 TTTTAT-GAAAACTTAAAAT
1 TTTTATAGAAATCTAAAAAT
* * *
11853327 TTTTTTAAAAATCTCAAAAT
1 TTTTATAGAAATCTAAAAAT
11853347 TTTTATAGAAATCTAAAAA
1 TTTTATAGAAATCTAAAAA
11853366 ACCTCTAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 5 0.16
20 26 0.84
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.41
Consensus pattern (20 bp):
TTTTATAGAAATCTAAAAAT
Found at i:11853419 original size:17 final size:17
Alignment explanation
Indices: 11853381--11853425 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
11853371 TAAAAAGTTT
11853381 TTAAAAATAAAATTTTA
1 TTAAAAATAAAATTTTA
* *
11853398 ATAAAAATAAAATTTTC
1 TTAAAAATAAAATTTTA
*
11853415 TTAAAATTAAA
1 TTAAAAATAAA
11853426 CAAATAACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAATAAAATTTTA
Found at i:11853496 original size:21 final size:20
Alignment explanation
Indices: 11853442--11853487 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
11853432 ACAAAACTTT
*
11853442 AAAAAGTTGAAAATATTAAA
1 AAAAAATTGAAAATATTAAA
*
11853462 AAAAAATCTAAAAAT-TTAAA
1 AAAAAAT-TGAAAATATTAAA
11853482 AAAAAA
1 AAAAAA
11853488 ATTGCAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (20 bp):
AAAAAATTGAAAATATTAAA
Found at i:11853608 original size:20 final size:20
Alignment explanation
Indices: 11853553--11853597 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
11853543 ATTTTAAATA
* **
11853553 TTTTATAAATTTTGAAGATT
1 TTTTAAAAATTTTTTAGATT
11853573 TTTTAAAAATTTTTTAGATT
1 TTTTAAAAATTTTTTAGATT
11853593 TTTTA
1 TTTTA
11853598 TTAGTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTTAAAAATTTTTTAGATT
Found at i:11853633 original size:9 final size:9
Alignment explanation
Indices: 11853621--11853677 Score: 50
Period size: 8 Copynumber: 6.6 Consensus size: 9
11853611 TTTAAATTTT
11853621 TTTTTAGAA
1 TTTTTAGAA
11853630 -TTTTAGAA
1 TTTTTAGAA
*
11853638 TTTTTA-TA
1 TTTTTAGAA
11853646 TTTTTAGAA
1 TTTTTAGAA
*
11853655 TATTCTAG-A
1 T-TTTTAGAA
11853664 TTTTT-GAAA
1 TTTTTAG-AA
11853673 TTTTT
1 TTTTT
11853678 TCTAATTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
7 1 0.03
8 18 0.46
9 15 0.38
10 5 0.13
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.60
Consensus pattern (9 bp):
TTTTTAGAA
Found at i:11853633 original size:26 final size:26
Alignment explanation
Indices: 11853584--11853634 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
11853574 TTTAAAAATT
* **
11853584 TTTTAGATTTTTTATTAGTTTTTTAC
1 TTTTAAATTTTTTATTAGAATTTTAC
*
11853610 TTTTAAATTTTTTTTTAGAATTTTA
1 TTTTAAATTTTTTATTAGAATTTTA
11853635 GAATTTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.69
Consensus pattern (26 bp):
TTTTAAATTTTTTATTAGAATTTTAC
Found at i:11853641 original size:17 final size:17
Alignment explanation
Indices: 11853621--11853677 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
11853611 TTTAAATTTT
11853621 TTTTTAGAATTTTAGAA
1 TTTTTAGAATTTTAGAA
* *
11853638 TTTTTATATTTTTAGAA
1 TTTTTAGAATTTTAGAA
* *
11853655 TATTCTAG-ATTTTTGAAA
1 T-TTTTAGAATTTTAG-AA
11853673 TTTTT
1 TTTTT
11853678 TCTAATTTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
17 24 0.77
18 7 0.23
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.60
Consensus pattern (17 bp):
TTTTTAGAATTTTAGAA
Found at i:11853712 original size:23 final size:22
Alignment explanation
Indices: 11853683--11853731 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
11853673 TTTTTTCTAA
*
11853683 TTTTTTAAAATTTTAAGAATTT
1 TTTTTTAAAAATTTAAGAATTT
*
11853705 CTTTTTTAAAAATTTCAGAATTT
1 -TTTTTTAAAAATTTAAGAATTT
11853728 TTTT
1 TTTT
11853732 AAAAAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (22 bp):
TTTTTTAAAAATTTAAGAATTT
Found at i:11853794 original size:10 final size:10
Alignment explanation
Indices: 11853781--11853811 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
11853771 TTATTTTCAA
*
11853781 TTTTTAAGTT
1 TTTTTAAATT
11853791 TTTTTAAATT
1 TTTTTAAATT
11853801 TTTTTAAATT
1 TTTTTAAATT
11853811 T
1 T
11853812 GAAGAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (10 bp):
TTTTTAAATT
Found at i:11853997 original size:10 final size:11
Alignment explanation
Indices: 11853984--11854021 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
11853974 ATATTTTAGT
11853984 TTTTCT-AAAA
1 TTTTCTGAAAA
*
11853994 TTTTTTGAAAA
1 TTTTCTGAAAA
*
11854005 TTTTTTGAAAA
1 TTTTCTGAAAA
11854016 TTTTCT
1 TTTTCT
11854022 TCTAACGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 5 0.20
11 20 0.80
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (11 bp):
TTTTCTGAAAA
Found at i:11853998 original size:12 final size:11
Alignment explanation
Indices: 11853990--11854019 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
11853980 TAGTTTTTCT
11853990 AAAATTTTTTG
1 AAAATTTTTTG
11854001 AAAATTTTTTG
1 AAAATTTTTTG
11854012 AAAATTTT
1 AAAATTTT
11854020 CTTCTAACGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (11 bp):
AAAATTTTTTG
Found at i:11855211 original size:18 final size:18
Alignment explanation
Indices: 11855188--11855223 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11855178 TTGTACTTAT
*
11855188 TTATATTTTATTCATATA
1 TTATATGTTATTCATATA
*
11855206 TTATATGTTATTGATATA
1 TTATATGTTATTCATATA
11855224 ACTTTTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (18 bp):
TTATATGTTATTCATATA
Found at i:11855372 original size:13 final size:13
Alignment explanation
Indices: 11855354--11855379 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11855344 GTAGGTCTAC
11855354 ATACACAATAACA
1 ATACACAATAACA
11855367 ATACACAATAACA
1 ATACACAATAACA
11855380 TTGCTTGCAA
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:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (13 bp):
ATACACAATAACA
Found at i:11856375 original size:15 final size:15
Alignment explanation
Indices: 11856355--11856387 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
11856345 ATAAATATGA
11856355 TATTAATATTTAAAT
1 TATTAATATTTAAAT
11856370 TATTAATATTTAAAT
1 TATTAATATTTAAAT
11856385 TAT
1 TAT
11856388 ATAAGTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTAATATTTAAAT
Found at i:11858558 original size:304 final size:301
Alignment explanation
Indices: 11857997--11858845 Score: 1229
Period size: 304 Copynumber: 2.8 Consensus size: 301
11857987 GGAAAGAATG
*
11857997 ATTTTTTTTTGTAGGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCG
1 ATTTATTTTTG-AGG-AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTT--
* **
11858062 ATTT-TCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTT-TGA
62 ATTTCT-AAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTTTGAAATTTATTT
* *
11858125 TTTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGGAAATTTATTTT
124 TTTTTTAAGGAAAATTGATACTTTCAAATTTTCCCCAAAAATATTTTTTTTTGGAAATTTATTTT
*
11858189 TCTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATCTTTTTGAAAATTTATTTCTA
189 TCTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTATTTCTA
*
11858254 AGGAAAATTGATACTTTCAACTTTTTCCTAAAAATATT-TTTTTTTGAA
254 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAAT-TTATTTTTTTGAA
11858302 ATTTATTTTTGAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTT
1 ATTTATTTTTGAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTT
11858367 CTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATACTTTTTTTTGGAAATTTATTTTTCTT
66 CTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTT-GAAATTTATTTTT-TT
* *
11858432 TTAAGGAAAATTGATACTTTCAAATTTTTCCTAAAAATATTTTTTTTTGGAAATTTATTTTTCTT
128 TTAAGGAAAATTGATACTTTCAAATTTTCCCCAAAAATATTTTTTTTTGGAAATTTATTTTTCTT
11858497 TTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTATTTCTAAGGA
193 TTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTATTTCTAAGGA
* *
11858562 AAATTGATATTTTCAACTTTTCCCTAAAAATTTATTTTTTTTAA
258 AAATTGATACTTTCAACTTTTCCCTAAAAATTTATTTTTTTGAA
*
11858606 ATTTATTTCTGAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTT
1 ATTTATTTTTGAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTT
* *
11858671 CTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAGATATTTTTTTTGAATTTTAATGAAATTT
66 CTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAA-ATATTTTTTTTGAAATTT-AT----TTT
* *
11858736 TATTTATGAGGAAAATTGATACTTTCAAGACTTTTCCCCAAAAA-ATATTTTTTT-GAAATTTA-
125 T-TTT-TAAGGAAAATTGATACTTTCAA-A-TTTTCCCCAAAAATATTTTTTTTTGGAAATTTAT
* * *
11858798 -TTTC--TAAAGG--AATTGATACTTTAAACTTTT-CTTAAAAATATATTTTTT
186 TTTTCTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTTT
11858846 TATTTTTATT
Statistics
Matches: 504, Mismatches: 24, Indels: 34
0.90 0.04 0.06
Matches are distributed among these distances:
300 8 0.02
301 47 0.09
302 14 0.03
303 117 0.23
304 239 0.47
305 18 0.04
307 4 0.01
308 7 0.01
309 29 0.06
310 10 0.02
311 11 0.02
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (301 bp):
ATTTATTTTTGAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTT
CTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTTTTTTTA
AGGAAAATTGATACTTTCAAATTTTCCCCAAAAATATTTTTTTTTGGAAATTTATTTTTCTTTTA
AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTATTTCTAAGGAAAA
TTGATACTTTCAACTTTTCCCTAAAAATTTATTTTTTTGAA
Found at i:11858751 original size:70 final size:70
Alignment explanation
Indices: 11858660--11858797 Score: 190
Period size: 70 Copynumber: 2.0 Consensus size: 70
11858650 ATATTTTTTG
* * * *
11858660 GAAATTTATTTCTAAGAAAAATTGATACTTTC-A-ACTTTTCCCTAAAAGATATTTTTTTTGAAT
1 GAAATTTATTTATAAGAAAAATTGATACTTTCAAGACTTTTCCCCAAAAAATA-TTTTTTTGAAA
11858723 TTTAAT
65 TTTAAT
* *
11858729 GAAATTTTATTTATGAGGAAAATTGATACTTTCAAGACTTTTCCCCAAAAAATATTTTTTTGAAA
1 GAAA-TTTATTTATAAGAAAAATTGATACTTTCAAGACTTTTCCCCAAAAAATATTTTTTTGAAA
11858794 TTTA
65 TTTA
11858798 TTTCTAAAGG
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
69 4 0.07
70 25 0.42
71 15 0.25
72 16 0.27
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.44
Consensus pattern (70 bp):
GAAATTTATTTATAAGAAAAATTGATACTTTCAAGACTTTTCCCCAAAAAATATTTTTTTGAAAT
TTAAT
Found at i:11858775 original size:129 final size:126
Alignment explanation
Indices: 11858607--11858846 Score: 367
Period size: 127 Copynumber: 1.9 Consensus size: 126
11858597 TTTTTTTAAA
*
11858607 TTTATTTCTGAGGAAAATTGATACTTTCAACTTTTCCCC-AAAAATATTTTTTGGAAATTTATTT
1 TTTATTTATGAGGAAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTTGGAAATTTATTT
*
11858671 CTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAGATAT-TTTTTTTGAATTTTAATGAAAT
66 CTAA-AAAAATTGATACTTTAAACTTTT-CCTAAAA-ATATATTTTTTTGAATTTTAATGAAAT
*
11858734 TTTATTTATGAGGAAAATTGATACTTTCAAGACTTTTCCCCAAAAAATATTTTTTTGAAATTTAT
1 TTTATTTATGAGGAAAATTGATACTTTC-A-ACTTTTCCCCAAAAAATATTTTTTGGAAATTTAT
** *
11858799 TTCTAAAGGAATTGATACTTTAAACTTTTCTTAAAAATATATTTTTTT
64 TTCTAAAAAAATTGATACTTTAAACTTTTCCTAAAAATATATTTTTTT
11858847 ATTTTTATTT
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
127 31 0.30
128 14 0.14
129 30 0.29
130 28 0.27
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (126 bp):
TTTATTTATGAGGAAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTTGGAAATTTATTT
CTAAAAAAATTGATACTTTAAACTTTTCCTAAAAATATATTTTTTTGAATTTTAATGAAAT
Found at i:11859297 original size:19 final size:20
Alignment explanation
Indices: 11859253--11859298 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
11859243 GAACATCGGT
*
11859253 GCCGGATTCTGGAAAATGTC
1 GCCGGAATCTGGAAAATGTC
* *
11859273 GTCGGAATCTGG-AAATTTC
1 GCCGGAATCTGGAAAATGTC
11859292 GCCGGAA
1 GCCGGAA
11859299 GTTGGCCGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (20 bp):
GCCGGAATCTGGAAAATGTC
Found at i:11859421 original size:31 final size:31
Alignment explanation
Indices: 11859353--11859411 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
11859343 TGGGTAGGTC
*
11859353 GCCGGAAACTTCAATGTTCACCGAAATTGTT
1 GCCGGAAAATTCAATGTTCACCGAAATTGTT
*
11859384 GCCGGAAAATTCAAAT-TTCGCCGAAATT
1 GCCGGAAAATTC-AATGTTCACCGAAATT
11859412 TTCGTCGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 22 0.88
32 3 0.12
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (31 bp):
GCCGGAAAATTCAATGTTCACCGAAATTGTT
Found at i:11859468 original size:27 final size:24
Alignment explanation
Indices: 11859430--11859484 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
11859420 AATCTGGAAA
*
11859430 TTTCCCAGAAATTTCCAGAAAAATTT
1 TTTCCCAAAAATTT-C-GAAAAATTT
*
11859456 TTTCGCCAAAAATTTCTAAAAATTT
1 TTTC-CCAAAAATTTCGAAAAATTT
11859481 TTTC
1 TTTC
11859485 TCACTCCCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 12 0.46
26 5 0.19
27 9 0.35
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.40
Consensus pattern (24 bp):
TTTCCCAAAAATTTCGAAAAATTT
Found at i:11859879 original size:3 final size:3
Alignment explanation
Indices: 11859871--11859927 Score: 89
Period size: 3 Copynumber: 18.7 Consensus size: 3
11859861 TATATAAAAG
11859871 AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11859917 -AT AAT ATAT AA
1 AAT AAT A-AT AA
11859928 CTATATACAT
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11860070 original size:35 final size:35
Alignment explanation
Indices: 11860024--11860100 Score: 127
Period size: 35 Copynumber: 2.2 Consensus size: 35
11860014 AAAATTCAAT
* *
11860024 TGGGCTTTACCCATTTGGGCCAGGCCCAAATGATC
1 TGGGCCTTACCCATTTGGGCCAAGCCCAAATGATC
*
11860059 TGGGCCTTACCCATTTGGGCCAAGCCCAATTGATC
1 TGGGCCTTACCCATTTGGGCCAAGCCCAAATGATC
11860094 TGGGCCT
1 TGGGCCT
11860101 AGACCCAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.18, C:0.30, G:0.26, T:0.26
Consensus pattern (35 bp):
TGGGCCTTACCCATTTGGGCCAAGCCCAAATGATC
Found at i:11860249 original size:13 final size:13
Alignment explanation
Indices: 11860231--11860265 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
11860221 TATATATATA
11860231 TTTTTTTTGTGTT
1 TTTTTTTTGTGTT
*
11860244 TTTTTTTTTTGTT
1 TTTTTTTTGTGTT
11860257 TTTTGTTTT
1 TTTT-TTTT
11860266 TTTTTTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (13 bp):
TTTTTTTTGTGTT
Found at i:11860249 original size:15 final size:14
Alignment explanation
Indices: 11860231--11860268 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
11860221 TATATATATA
11860231 TTTTTTTTGTGTTTT
1 TTTTTTTTGT-TTTT
11860246 TTTTTTTTGTTTTT
1 TTTTTTTTGTTTTT
11860260 TGTTTTTTT
1 T-TTTTTTT
11860269 TTTATCAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (14 bp):
TTTTTTTTGTTTTT
Found at i:11860371 original size:41 final size:41
Alignment explanation
Indices: 11860278--11860860 Score: 817
Period size: 41 Copynumber: 14.0 Consensus size: 41
11860268 TTTTATCAAA
* * * *
11860278 GCTCCTCTAAATAGAGGCTCAACGACTTTGAGAAACATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-GTAAATT
* *
11860321 GCTCCTCTAAACAGAGGCACCATGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
11860362 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAA-AGTAAATT
*
11860405 GCTCCTCTAAACAGAGGCACCATGACTTTGGAAAGAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAA-AGTAAATT
11860448 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
11860490 GCTCCTCTAAACAGAGGCA--ACGAAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG--ACTTTGAAAAGTAAATT
*
11860531 GCTCTTCTAAACAGAGGCACCACGACTTTGGAAAGAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAA-AGTAAATT
11860574 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
11860616 GCTCCTCTAAACAGAGGCA--ACGGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCAC-G-ACTTTGAAAAGTAAATT
11860657 GCTCCTCTAAACAGAGGCA--ACGAAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG--ACTTTGAAAAGTAAATT
* *
11860698 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
*
11860740 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
11860781 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
11860821 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTG-AAAAGTAAAT
11860861 ACTCCTAGAC
Statistics
Matches: 508, Mismatches: 16, Indels: 34
0.91 0.03 0.06
Matches are distributed among these distances:
39 3 0.01
40 51 0.10
41 184 0.36
42 114 0.22
43 156 0.31
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.22
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:11860561 original size:126 final size:123
Alignment explanation
Indices: 11860278--11860860 Score: 835
Period size: 126 Copynumber: 4.7 Consensus size: 123
11860268 TTTTATCAAA
* *
11860278 GCTCCTCTAAATAGAGGCTCAACGACTTTGAGAAACA-TAAATTGCTCCTCTAAACAGAGGCACC
1 GCTCCTCTAAACAGAGGCAC-ACGACTTTG-GAAA-AGTAAATTGCTCCTCTAAACAGAGGCACC
* *
11860342 ATGACTTT-GAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGAGTAAATT
63 ACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-CACGACTTT-GAAA-AGTAAATT
*
11860405 GCTCCTCTAAACAGAGGCACCATGACTTTGGAAAGAGTAAATTGCTCCTCTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCA-CACGACTTTGGAAA-AGTAAATTGCTCCTCTAAACAGAGGCACCA
11860470 CGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-ACGAAACTTTGAAAAGTAAATT
64 CGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACACG--ACTTTGAAAAGTAAATT
*
11860531 GCTCTTCTAAACAGAGGCACCACGACTTTGGAAAGAGTAAATTGCTCCTCTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCA-CACGACTTTGGAAA-AGTAAATTGCTCCTCTAAACAGAGGCACCA
11860596 CGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-ACGGAACTTTGAAAAGTAAATT
64 CGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACAC-G-ACTTTGAAAAGTAAATT
*
11860657 GCTCCTCTAAACAGAGGCA-ACGAAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGTACCA
1 GCTCCTCTAAACAGAGGCACACG--ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
* *
11860720 CGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
64 CGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-CACGACTTTGAAAAGTAAATT
11860781 GCTCCTCTAAACAGAGGCA-ACGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
1 GCTCCTCTAAACAGAGGCACACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
11860842 GAACTTTGAAAAAGTAAAT
65 G-ACTTTGGAAAAGTAAAT
11860861 ACTCCTAGAC
Statistics
Matches: 430, Mismatches: 15, Indels: 27
0.91 0.03 0.06
Matches are distributed among these distances:
121 3 0.01
122 15 0.03
123 36 0.08
124 108 0.25
125 5 0.01
126 163 0.38
127 64 0.15
128 36 0.08
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.22
Consensus pattern (123 bp):
GCTCCTCTAAACAGAGGCACACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACACGACTTTGAAAAGTAAATT
Found at i:11861888 original size:7 final size:7
Alignment explanation
Indices: 11861863--11861934 Score: 51
Period size: 8 Copynumber: 10.1 Consensus size: 7
11861853 CCTTGAGTCC
11861863 TCTTTTT
1 TCTTTTT
**
11861870 TCACTTT
1 TCTTTTT
11861877 T-TTTTT
1 TCTTTTT
11861883 TC-TTTT
1 TCTTTTT
11861889 T-TTTTT
1 TCTTTTT
11861895 TCATTTTT
1 TC-TTTTT
*
11861903 TCATTTT
1 TCTTTTT
11861910 TCATTTTT
1 TC-TTTTT
*
11861918 CCATTTTT
1 TC-TTTTT
11861926 TCATTTTT
1 TC-TTTTT
11861934 T
1 T
11861935 TCAAGCATAG
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
6 14 0.27
7 12 0.23
8 26 0.50
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (7 bp):
TCTTTTT
Found at i:11861932 original size:6 final size:7
Alignment explanation
Indices: 11861866--11861933 Score: 63
Period size: 7 Copynumber: 9.7 Consensus size: 7
11861856 TGAGTCCTCT
11861866 TTTTTCA
1 TTTTTCA
11861873 CTTTTT--
1 -TTTTTCA
11861879 TTTTTC-
1 TTTTTCA
*
11861885 TTTTT-T
1 TTTTTCA
11861891 TTTTTCA
1 TTTTTCA
11861898 TTTTTTCA
1 -TTTTTCA
11861906 TTTTTCA
1 TTTTTCA
11861913 TTTTTCCA
1 TTTTT-CA
11861921 TTTTTTCA
1 -TTTTTCA
11861929 TTTTT
1 TTTTT
11861934 TTCAAGCATA
Statistics
Matches: 53, Mismatches: 1, Indels: 13
0.79 0.01 0.19
Matches are distributed among these distances:
5 5 0.09
6 10 0.19
7 17 0.32
8 16 0.30
9 5 0.09
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTCA
Found at i:11862975 original size:179 final size:181
Alignment explanation
Indices: 11862673--11863032 Score: 532
Period size: 179 Copynumber: 2.0 Consensus size: 181
11862663 TTTTTTGTAG
*
11862673 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTCGATTTTCAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTCGAAATTTC-ATTTTCAAGGAAAA
* *
11862738 TTGATACTTACAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAAGGAAAATTGATA
65 TTGATACTTACAACTTTTCCCCAAAAACACTTTTTTTGAAAATTTATTTCTAAGGAAAATTGATA
*
11862803 CTTTCAACTTTTCCC-CAAAA-ATATTTTTTTTT-GAAATTTTGATTTTTAA
130 CTTTCAACTTTTCCCTAAAAATATATTTTTTTTTGGAAATTTTGATTTTTAA
*
11862852 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCGAAATTT-A-TTTCTGAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTCGAAATTTCATTTTC-AAGGAA
* * * ** *
11862915 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTAAATTTATTTCTGAGGAAAATTGA
63 AATTGATACTTACAACTTTTCCCCAAAAACACTTTTTTTGAAAATTTATTTCTAAGGAAAATTGA
* *
11862980 TACTTTCAACTTTTCCCTAAAAATATATTTTTTTTTGGAATTTTTTATTTTTA
128 TACTTTCAACTTTTCCCTAAAAATATATTTTTTTTTGGAAATTTTGATTTTTA
11863033 TTTAAATAAA
Statistics
Matches: 162, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
178 4 0.02
179 115 0.71
180 4 0.02
181 25 0.15
182 14 0.09
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (181 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTCGAAATTTCATTTTCAAGGAAAAT
TGATACTTACAACTTTTCCCCAAAAACACTTTTTTTGAAAATTTATTTCTAAGGAAAATTGATAC
TTTCAACTTTTCCCTAAAAATATATTTTTTTTTGGAAATTTTGATTTTTAA
Found at i:11863013 original size:59 final size:58
Alignment explanation
Indices: 11862673--11863014 Score: 447
Period size: 59 Copynumber: 5.8 Consensus size: 58
11862663 TTTTTTGTAG
**
11862673 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTAAATTT--ATTTCT-AA
* ** **
11862732 GGAAAATTGATACTTACAACTTTT-CCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAA-TATTTTTTTTTAAATTTATTTCTAA
* *
11862791 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTT-AAA-TTT-ATTTCTAA
* *
11862852 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT-TAAATTTATTTCTAA
* *
11862911 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTTAAATTTATTTCTAA
11862970 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTTTTT
11863015 TGGAATTTTT
Statistics
Matches: 254, Mismatches: 18, Indels: 22
0.86 0.06 0.07
Matches are distributed among these distances:
58 11 0.04
59 161 0.63
60 17 0.07
61 65 0.26
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.45
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTAAATTTATTTCTAA
Found at i:11863014 original size:120 final size:118
Alignment explanation
Indices: 11862673--11863013 Score: 494
Period size: 120 Copynumber: 2.9 Consensus size: 118
11862663 TTTTTTGTAG
* *
11862673 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTCGATTTTCAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTT-GATTTT-AAGGAA
* ***
11862736 AATTGATACTTACAACTTTT-CCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAA
64 AATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTGAAAATTTATTTCTAA
11862791 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTTAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAA-TTTGA-TTTTAAGGAA
*
11862856 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCG-AAATTTATTTCTGA
64 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT-GAAAATTTATTTCTAA
* *
11862911 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTAAATTT-ATTTCTGAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTGATTT-TAAGGAAA
11862975 ATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTT
65 ATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTTTT
11863014 TTGGAATTTT
Statistics
Matches: 206, Mismatches: 9, Indels: 15
0.90 0.04 0.07
Matches are distributed among these distances:
117 3 0.01
118 73 0.35
119 10 0.05
120 109 0.53
121 11 0.05
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.45
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTGATTTTAAGGAAAA
TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTATTTCTAA
Found at i:11863068 original size:20 final size:20
Alignment explanation
Indices: 11863036--11863073 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11863026 ATTTTTATTT
*
11863036 AAATAAAATAAAATAATAAA
1 AAATAAAATAAAAGAATAAA
11863056 AAAT-AAATAAAAAGAATA
1 AAATAAAAT-AAAAGAATA
11863074 TTACATAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (20 bp):
AAATAAAATAAAAGAATAAA
Found at i:11863124 original size:16 final size:15
Alignment explanation
Indices: 11863105--11863155 Score: 61
Period size: 16 Copynumber: 3.5 Consensus size: 15
11863095 AATAAAAATT
*
11863105 AAAATAAACAAAGAA
1 AAAAAAAACAAAGAA
*
11863120 AAAAAAATTCAAAGAA
1 AAAAAAA-ACAAAGAA
11863136 AAAAAAAA-AAA-AA
1 AAAAAAAACAAAGAA
11863149 AAAAAAA
1 AAAAAAA
11863156 CCTGGAGCGG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 9 0.28
14 3 0.09
15 6 0.19
16 14 0.44
ACGTcount: A:0.86, C:0.04, G:0.04, T:0.06
Consensus pattern (15 bp):
AAAAAAAACAAAGAA
Found at i:11863126 original size:25 final size:24
Alignment explanation
Indices: 11863098--11863150 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
11863088 TCTAATAAAT
* * *
11863098 AAAAATTAAAATAAACAAAGAAAA
1 AAAAATTAAAAGAAAAAAAAAAAA
*
11863122 AAAAATTCAAAGAAAAAAAAAAAA
1 AAAAATTAAAAGAAAAAAAAAAAA
11863146 AAAAA
1 AAAAA
11863151 AAAAACCTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.83, C:0.04, G:0.04, T:0.09
Consensus pattern (24 bp):
AAAAATTAAAAGAAAAAAAAAAAA
Found at i:11864446 original size:1 final size:1
Alignment explanation
Indices: 11864442--11864534 Score: 69
Period size: 1 Copynumber: 93.0 Consensus size: 1
11864432 TTATTTTTGA
* * * ** ** ** * *
11864442 TTTTTTTTATTTTTGTTTTTATTTTTTTGATTTTTTTTGATTTTTTTGATTTTTTTTGTTTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
11864507 TTTTTTGTTTTTTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
11864535 GCCGAAGCTC
Statistics
Matches: 69, Mismatches: 23, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.05, C:0.00, G:0.09, T:0.86
Consensus pattern (1 bp):
T
Found at i:11864453 original size:9 final size:9
Alignment explanation
Indices: 11864435--11864534 Score: 80
Period size: 9 Copynumber: 10.7 Consensus size: 9
11864425 AACATTTTTA
*
11864435 TTTTTGATT
1 TTTTTTATT
11864444 TTTTTTATTTT
1 TTTTTTA--TT
11864455 TGTTTTTATT
1 T-TTTTTATT
*
11864465 TTTTTGATT
1 TTTTTTATT
11864474 TTTTTTGATT
1 TTTTTT-ATT
*
11864484 TTTTTGATT
1 TTTTTTATT
*
11864493 TTTTTTGTT
1 TTTTTTATT
11864502 TTTGTTT-TT
1 TTT-TTTATT
11864511 TTGTTTT-TT
1 TT-TTTTATT
11864520 TTTGTTT-TT
1 TTT-TTTATT
11864529 TTTTTT
1 TTTTTT
11864535 GCCGAAGCTC
Statistics
Matches: 78, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
8 4 0.05
9 50 0.64
10 15 0.19
11 3 0.04
12 6 0.08
ACGTcount: A:0.06, C:0.00, G:0.09, T:0.85
Consensus pattern (9 bp):
TTTTTTATT
Found at i:11864709 original size:41 final size:41
Alignment explanation
Indices: 11864541--11865049 Score: 784
Period size: 41 Copynumber: 12.5 Consensus size: 41
11864531 TTTTGCCGAA
* * *
11864541 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
*
11864582 GCTCCTCTAAACAGAGGCA--ACGGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCAC-GACTTTGAAAAGTAAATT
*
11864622 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
* * *
11864664 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAATTTAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
11864705 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
*
11864747 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
11864788 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
*
11864828 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
11864869 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
*
11864909 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
11864950 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
11864990 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
11865031 GCTCCTCTAAACAGAGGCA
1 GCTCCTCTAAACAGAGGCA
11865050 ACGAACTTGG
Statistics
Matches: 436, Mismatches: 17, Indels: 30
0.90 0.04 0.06
Matches are distributed among these distances:
39 15 0.03
40 138 0.32
41 196 0.45
42 87 0.20
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:11864863 original size:81 final size:81
Alignment explanation
Indices: 11864541--11865068 Score: 818
Period size: 81 Copynumber: 6.5 Consensus size: 81
11864531 TTTTGCCGAA
*
11864541 GCTCCTCTAAACAGAGACTCAACG-ACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCA--A
1 GCTCCTCTAAACAGAG--GCAACGAAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
*
11864602 CGGACTTTGGAAAGTAAATT
63 C-GACTTTGAAAAGTAAATT
* *
11864622 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
* *
11864686 CGACTTTGAAAATTTAATT
63 CGACTTTGAAAAGTAAATT
* *
11864705 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
11864769 CGACTTTGAAAAGTAAATT
63 CGACTTTGAAAAGTAAATT
*
11864788 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
11864853 CTTTGAAAAGTAAATT
66 CTTTGAAAAGTAAATT
*
11864869 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
11864934 CTTTGAAAAGTAAATT
66 CTTTGAAAAGTAAATT
11864950 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
11865015 CTTTGAAAAGTAAATT
66 CTTTGAAAAGTAAATT
*
11865031 GCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAGTAAAT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAAT
11865069 ACTCCTAGAC
Statistics
Matches: 425, Mismatches: 15, Indels: 15
0.93 0.03 0.03
Matches are distributed among these distances:
79 2 0.00
80 15 0.04
81 259 0.61
82 32 0.08
83 115 0.27
84 2 0.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (81 bp):
GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
CTTTGAAAAGTAAATT
Found at i:11866388 original size:1 final size:1
Alignment explanation
Indices: 11866347--11866372 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
11866337 ATTTTTTCTC
11866347 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
11866373 CATCATCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:11870335 original size:57 final size:58
Alignment explanation
Indices: 11870177--11870522 Score: 293
Period size: 57 Copynumber: 5.9 Consensus size: 58
11870167 TTTTTTGTAG
* * * *
11870177 GGAAAATTGATACTTTC-ACTTTT-CCCTAAAAAAGTATTTTTTGAAATATTCCGATTTTCAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCCAAAATACT-TTTTTTGAAA-ATT---A-TTTCTAA
* * *
11870239 GGATAATTGATACTTTC-ACTTTT-CCTCAAAA-ACCCTTTTTTGAAAATTATTTCCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCCAAAATA-CTTTTTTTGAAAATTATTT-CTAA
* * *
11870296 GGAAAATTGATACTTTCAACTTTTCCCCCAAAA-ATTTTTTTTTCCGAATATTTGATTTCTGTA
1 GGAAAATTGATACTTTCAACTTTTCCCCCAAAATA-CTTTTTTT--GAA-AATT-ATTTCT-AA
*
11870359 GGAAAATTGATACTTTCAATCTTTTCCCCCAAAATA-TTTTTTTG--AATTATTT-TGA
1 GGAAAATTGATACTTTCAA-CTTTTCCCCCAAAATACTTTTTTTGAAAATTATTTCTAA
** *
11870414 GGAATAATATGATACTTTCTAACTTTTCCCTAAAAATA-TTTTTTTGAAATTTATTTCTAA
1 GGAA-AAT-TGATACTTTC-AACTTTTCCCCCAAAATACTTTTTTTGAAAATTATTTCTAA
* * *
11870474 GGAAAATTGATACTTTCAACTTTT-CCCTAAAATATTTTTTTTGGAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCCCAAAATACTTTTTTTGAAAATT
11870523 TTTTATTTTT
Statistics
Matches: 243, Mismatches: 23, Indels: 41
0.79 0.07 0.13
Matches are distributed among these distances:
55 5 0.02
56 15 0.06
57 75 0.31
58 21 0.09
59 24 0.10
60 9 0.04
61 15 0.06
62 33 0.14
63 31 0.13
64 14 0.06
65 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCCCAAAATACTTTTTTTGAAAATTATTTCTAA
Found at i:11870368 original size:120 final size:114
Alignment explanation
Indices: 11870177--11870505 Score: 344
Period size: 120 Copynumber: 2.8 Consensus size: 114
11870167 TTTTTTGTAG
* * * * *
11870177 GGAAAATTGATACTTTC-ACTTTTCCCTAAAAAAGTATTTTTTGAAATATTCCGATTTTCAAAGG
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATTTTTTTTTG-AATATT-TGA-TTTCTAAGG
* * *
11870241 ATAATTGATACTTTC-ACTTTTCCTCAAAAACCCTTTTTTGAAAATTATTTCCTAA
63 AAAATTGATACTTTCAACTTTTCCCCAAAAACACTTTTTTG--AATTATTT--TAA
* *
11870296 GGAAAATTGATACTTTCAACTTTTCCCCCAAAAATTTTTTTTTCCGAATATTTGATTTCTGTAGG
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATTTTTTTTT--GAATATTTGATTTCT-AAGG
* * * *
11870361 AAAATTGATACTTTCAATCTTTTCCCCCAAAATATTTTTTTGAATTATTTTGA
63 AAAATTGATACTTTCAA-CTTTTCCCCAAAAACACTTTTTTGAATTATTTTAA
* *
11870414 GGAATAATATGATACTTTCTAACTTTT-CCCTAAAAATATTTTTTTGAA-ATTT-ATTTCTAAGG
1 GGAA-AAT-TGATACTTTC-AACTTTTCCCCAAAAAATTTTTTTTTGAATATTTGATTTCTAAGG
*
11870476 AAAATTGATACTTTCAACTTTTCCCTAAAA
63 AAAATTGATACTTTCAACTTTTCCCCAAAA
11870506 TATTTTTTTT
Statistics
Matches: 182, Mismatches: 19, Indels: 23
0.81 0.08 0.10
Matches are distributed among these distances:
114 11 0.06
115 20 0.11
116 6 0.03
117 4 0.02
118 9 0.05
119 24 0.13
120 74 0.41
121 14 0.08
122 20 0.11
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.43
Consensus pattern (114 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATTTTTTTTTGAATATTTGATTTCTAAGGAAA
ATTGATACTTTCAACTTTTCCCCAAAAACACTTTTTTGAATTATTTTAA
Found at i:11873385 original size:305 final size:300
Alignment explanation
Indices: 11872808--11873637 Score: 1206
Period size: 305 Copynumber: 2.7 Consensus size: 300
11872798 TTTTGTAGGA
11872808 AAAATTGATACTTTGCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTT-TCAAGGAAAA
1 AAAATTGATACTTT-CAACTTTTCCCCAAAAATATTTTTTGGAAATTT--ATTTCT-AAGGAAAA
* * *
11872872 TTGATACTTTTCAACTTTTCCCCAAAATATTTTTTTTTTTGAAATTT-TGA-TTTTTCAAGGAAA
62 TTGATAC-TTTCAACTTTTCCCTAAAA-A-TATTTTTTTTGAAATTTAT-ATTTTTTTAAGGAAA
11872935 ATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTATTTTT-TCTTTTAAGG-AA
123 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTTTCT-TTTTAAGGAAA
*
11872997 ATTGATACTTTCAACTTTTCCCTAAAAATA-TCTTTTGAAAATTTATTTCTAAGGAAAATTGATA
187 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTATTTCTAAGGAAAATTGATA
* *
11873061 CTTTCAACTTTTTCCTAAAAATATT-TTTTTTTGAAAATTTATTTTTGAGG
252 CTTTCAACTTTTCCCTAAAAAT-TTATTTTTTT-AAAATTTATTTCTGAGG
11873111 -AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATTGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATTGA
11873175 TACTTTCAACTTTTCCCTAAAAATACTTTTTTTTGGAAATTTAT-TTTCTTTTAAGGAAAATTGA
66 TACTTTCAACTTTTCCCTAAAAATA-TTTTTTTT-GAAATTTATATTT-TTTTAAGGAAAATTGA
* * *
11873239 TACTTTCAAAATTTTTCCTAAAAATATTTTTTTTTGGAAATTTATTTTTCTTTTTAAGGAAAATT
128 TACTTTC-AACTTTTCCCCAAAAATA--TTTTTTTGGAAATTTATTTTTCTTTTTAAGGAAAATT
*
11873304 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTATTTCTAAGGAAAATTGATATTT
190 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTT
*
11873369 TCAACTTTTCCCTAAAAATTTATTTTTTTTAAATTTATTTCTGAGG
255 TCAACTTTTCCCTAAAAATTTATTTTTTTAAAATTTATTTCTGAGG
*
11873415 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGAAAAATTGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATTGA
* *
11873480 TACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAATTTTATGAAATTTATTTATGAGGAAAATT
66 TACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTAT---ATTT-TTT-TAAGGAAAATT
11873545 GATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTA--TTTC----TAAGGAAAATTG
126 GATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTTTCTTTTTAAGGAAAATTG
*
11873604 ATACTTTCAACTTTTCCTTAAAAATATATTTTTT
191 ATACTTTCAACTTTTCCCTAAAAATAT-TTTTTT
11873638 TGGAATTTTT
Statistics
Matches: 487, Mismatches: 19, Indels: 45
0.88 0.03 0.08
Matches are distributed among these distances:
296 1 0.00
297 9 0.02
298 27 0.06
299 80 0.16
300 22 0.05
301 33 0.07
302 13 0.03
303 40 0.08
304 58 0.12
305 164 0.34
307 21 0.04
308 19 0.04
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.47
Consensus pattern (300 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATTGA
TACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATATTTTTTTAAGGAAAATTGATAC
TTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTTTCTTTTTAAGGAAAATTGATACT
TTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTATTTCTAAGGAAAATTGATACTTTCAACT
TTTCCCTAAAAATTTATTTTTTTAAAATTTATTTCTGAGG
Found at i:11873571 original size:241 final size:240
Alignment explanation
Indices: 11872808--11873638 Score: 1041
Period size: 241 Copynumber: 3.4 Consensus size: 240
11872798 TTTTGTAGGA
*
11872808 AAAATTGATACTTTGCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTCGATTT-TCAAGGAAA
1 AAAATTGATACTTT-CAACTTTTCCCCAAAAATATTTTTTTGAAAATTT--ATTTCT-AAGGAAA
*
11872871 ATTGATACTTTTCAACTTTTCCCCAAAATATTT-TTTTTTTTGAAATTTTGATTTTTCAAGGAAA
62 ATTGATAC-TTTCAACTTTTCCCCAAAA-ATTTATTTTTTTT-AAA-TTT-ATTTCT-AAGGAAA
*
11872935 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTTCTTTTAAGGAAATT
121 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTA--TTTTC--TTAAGAAAATT
* *
11873000 GATACTTTCAACTTTTCCCTAAAAATA--TCTTTTG-----A-AAATTTATTTCTAAGG
182 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAATTTATAAATTTATTTATAAGG
* * * *
11873051 AAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTTGAAAATTTATTTTTGAGG-AAAT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTGAAAATTTATTTCTAAGGAAAAT
**
11873115 TGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTGGAAATTTATTTCTAAGGAAAATTGATAC
64 TGATACTTTCAACTTTTCCCCAAAAATTTATTTTTTTTAAATTTATTTCTAAGGAAAATTGATAC
*
11873178 TTTCAACTTTTCCCTAAAAATACTTTTTTTTGGAAATTTATTTTCTTTTAAGGAAAATTGATACT
129 TTTCAACTTTTCCCCAAAAATA---TTTTTTGGAAATTTATTTTC--TTAA-GAAAATTGATACT
* * * * *
11873243 TTCAAAATTTTTCCTAAAAATATTTTTTTTTGGAAATTTAT--TTTTCTTTTTAAGG
188 TTC-AACTTTTCCCTAAAAATA-TTTTTTTT-G-AATTTATAAATTTATTTATAAGG
*
11873298 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTATTTCTAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTCTAAGGAAAATTG
* * *
11873363 ATATTTTCAACTTTTCCCTAAAAATTTATTTTTTTTAAATTTATTTCTGAGGAAAATTGATACTT
66 ATACTTTCAACTTTTCCCCAAAAATTTATTTTTTTTAAATTTATTTCTAAGGAAAATTGATACTT
11873428 TCAACTTTTCCCCAAAAATATTTTTTGGAAATTTA-TTTC-TAAGAAAAATTGATACTTTCAACT
131 TCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTCTTAAG-AAAATTGATACTTTCAACT
*
11873491 TTTCCCTAAAAATATTTTTTTTGAATTTTATGAAATTTATTTATGAGG
195 TTTCCCTAAAAATATTTTTTTTGAA-TTTAT-AAATTTATTTATAAGG
*
11873539 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTCTAAGGAAAATTG
** *
11873604 ATACTTTCAACTTTTCCTTAAAAATATATTTTTTT
66 ATACTTTCAACTTTTCCCCAAAAATTTATTTTTTT
11873639 GGAATTTTTT
Statistics
Matches: 524, Mismatches: 35, Indels: 60
0.85 0.06 0.10
Matches are distributed among these distances:
235 36 0.07
236 16 0.03
237 20 0.04
238 41 0.08
239 14 0.03
240 18 0.03
241 147 0.28
242 28 0.05
243 21 0.04
244 5 0.01
245 51 0.10
246 28 0.05
247 43 0.08
248 56 0.11
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.47
Consensus pattern (240 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTCTAAGGAAAATTG
ATACTTTCAACTTTTCCCCAAAAATTTATTTTTTTTAAATTTATTTCTAAGGAAAATTGATACTT
TCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTCTTAAGAAAATTGATACTTTCAACTT
TTCCCTAAAAATATTTTTTTTGAATTTATAAATTTATTTATAAGG
Found at i:11873586 original size:68 final size:67
Alignment explanation
Indices: 11873455--11873646 Score: 222
Period size: 67 Copynumber: 3.0 Consensus size: 67
11873445 ATATTTTTTG
* * *
11873455 GAAATTTATTTCTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAATTTT
1 GAAATTTATTTATAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAATTTT
11873520 AT
66 AT
* *
11873522 GAAATTTATTTATGAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT-G------
1 GAAATTTATTTATAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAATTTT
11873580 --
66 AT
* * **
11873580 GAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTTTTGGAATT
1 GAAATTTATTTATAAGAAAAATTGATACTTTCAACTTTTCC-CCAAAA-ATATTTTTTTGGAATT
11873645 TT
64 TT
11873647 TTATTTTTAT
Statistics
Matches: 108, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
58 39 0.36
59 4 0.04
60 10 0.09
61 1 0.01
66 1 0.01
67 53 0.49
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.46
Consensus pattern (67 bp):
GAAATTTATTTATAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAATTTT
AT
Found at i:11874683 original size:3 final size:3
Alignment explanation
Indices: 11874675--11874731 Score: 89
Period size: 3 Copynumber: 18.7 Consensus size: 3
11874665 ATATATAAAG
11874675 AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11874721 -AT AAT ATAT AA
1 AAT AAT A-AT AA
11874732 CTATATACAT
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11874873 original size:34 final size:35
Alignment explanation
Indices: 11874829--11874904 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
11874819 AAAATTCAAT
* *
11874829 TGGGCTTTACCCATTT-GGCCAGGCCCAAATGATC
1 TGGGCCTTACCCATTTGGGCCAAGCCCAAATGATC
*
11874863 TGGGCCTTACCCATTTGGGCCAAGCCCAATTGATC
1 TGGGCCTTACCCATTTGGGCCAAGCCCAAATGATC
11874898 TGGGCCT
1 TGGGCCT
11874905 AGACCCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
34 15 0.39
35 23 0.61
ACGTcount: A:0.18, C:0.30, G:0.25, T:0.26
Consensus pattern (35 bp):
TGGGCCTTACCCATTTGGGCCAAGCCCAAATGATC
Found at i:11875051 original size:13 final size:13
Alignment explanation
Indices: 11875033--11875067 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
11875023 TATATATATA
11875033 TTTTTTTTGTGTT
1 TTTTTTTTGTGTT
*
11875046 TTTTTTTTTTGTT
1 TTTTTTTTGTGTT
11875059 TTTTGTTTT
1 TTTT-TTTT
11875068 TTTTTATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (13 bp):
TTTTTTTTGTGTT
Found at i:11875051 original size:15 final size:14
Alignment explanation
Indices: 11875033--11875070 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
11875023 TATATATATA
11875033 TTTTTTTTGTGTTTT
1 TTTTTTTTGT-TTTT
11875048 TTTTTTTTGTTTTT
1 TTTTTTTTGTTTTT
11875062 TGTTTTTTT
1 T-TTTTTTT
11875071 TTATCAAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (14 bp):
TTTTTTTTGTTTTT
Found at i:11875219 original size:83 final size:84
Alignment explanation
Indices: 11875079--11875657 Score: 816
Period size: 83 Copynumber: 7.0 Consensus size: 84
11875069 TTTTATCAAA
* * *
11875079 GCTCCTCTAAATAGAGGCTCAACGACTTTGAGAAACA-TAAATTGCTCCTCTAAACAGAGGCACC
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAA-AGTAAATTGCTCCTCTAAACAGAGGCACC
*
11875143 ATGACTTTGGAAAA-TAAATT
64 ACGACTTTGGAAAAGTAAATT
11875163 GCTCCTCT-AACAGAGGCACCACGACTTTGGAAAGAGTAAATTGCTCCTCTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAA-AGTAAATTGCTCCTCTAAACAGAGGCACCA
*
11875227 TGACTTTGGAAAGAGTAAATT
65 CGACTTTGGAAA-AGTAAATT
*
11875248 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGC-ACCA
**
11875313 AAACTTT-GAAAAGTAAATT
65 CGACTTTGGAAAAGTAAATT
*
11875332 GCTCTTCTAAACAGAGGCACCACGACTTTGGAAAGAGTAAATTGCTCCT-TAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAA-AGTAAATTGCTCCTCTAAACAGAGGCACCA
11875396 CGACTTTGGAAAAGTAAATT
65 CGACTTTGGAAAAGTAAATT
11875416 G-TCCTCTAAACAGAGGCA--ACGGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCA--
1 GCTCCTCTAAACAGAGGCACCAC-G-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACC
11875475 ACGAAACTTT-GAAAAGTAAATT
64 ACG--ACTTTGGAAAAGTAAATT
* *
11875497 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
11875562 GACTTTGG-AAAGTAAATT
66 GACTTTGGAAAAGTAAATT
11875580 GCTCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCA--A
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
*
11875640 CGAACTTTGAAAAAGTAA
65 CG-ACTTTGGAAAAGTAA
11875658 TACTCCTAGA
Statistics
Matches: 456, Mismatches: 17, Indels: 47
0.88 0.03 0.09
Matches are distributed among these distances:
79 3 0.01
80 9 0.02
81 69 0.15
82 53 0.12
83 151 0.33
84 77 0.17
85 61 0.13
86 33 0.07
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (84 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
GACTTTGGAAAAGTAAATT
Found at i:11875299 original size:42 final size:42
Alignment explanation
Indices: 11875079--11875657 Score: 816
Period size: 41 Copynumber: 13.9 Consensus size: 42
11875069 TTTTATCAAA
* * *
11875079 GCTCCTCTAAATAGAGGCTCAACGACTTTGAGAAACA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAA-AGTAAATT
*
11875122 GCTCCTCTAAACAGAGGCACCATGACTTTGGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
11875163 GCTCCTCT-AACAGAGGCACCACGACTTTGGAAAGAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAA-AGTAAATT
*
11875205 GCTCCTCTAAACAGAGGCACCATGACTTTGGAAAGAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAA-AGTAAATT
11875248 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
* **
11875290 GCTCCTCTAAACAGAGGCAACGAAAACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGC-ACCACGACTTTGGAAAAGTAAATT
*
11875332 GCTCTTCTAAACAGAGGCACCACGACTTTGGAAAGAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAA-AGTAAATT
11875375 GCTCCT-TAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
11875416 G-TCCTCTAAACAGAGGCA--ACGGAACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCAC-G-ACTTTGGAAAAGTAAATT
11875456 GCTCCTCTAAACAGAGGCA--ACGAAACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG--ACTTTGGAAAAGTAAATT
* *
11875497 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
11875539 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
11875580 GCTCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAGTAAATT
*
11875620 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAAGTAA
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAGTAA
11875658 TACTCCTAGA
Statistics
Matches: 499, Mismatches: 20, Indels: 36
0.90 0.04 0.06
Matches are distributed among these distances:
39 6 0.01
40 86 0.17
41 146 0.29
42 145 0.29
43 116 0.23
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
Found at i:11876687 original size:8 final size:8
Alignment explanation
Indices: 11876677--11876733 Score: 70
Period size: 8 Copynumber: 7.8 Consensus size: 8
11876667 TTTTTCACTT
11876677 TTTTTTC-
1 TTTTTTCA
11876684 TTTTTT--
1 TTTTTTCA
11876690 TT-TTTCA
1 TTTTTTCA
11876697 TTTTTTCA
1 TTTTTTCA
11876705 -TTTTTCA
1 TTTTTTCA
*
11876712 TTTTTCCA
1 TTTTTTCA
11876720 TTTTTTCA
1 TTTTTTCA
11876728 TTTTTT
1 TTTTTT
11876734 TCAAGCATAG
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
5 3 0.07
6 2 0.05
7 15 0.34
8 24 0.55
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTCA
Found at i:11876700 original size:6 final size:7
Alignment explanation
Indices: 11876678--11876732 Score: 60
Period size: 7 Copynumber: 7.7 Consensus size: 7
11876668 TTTTCACTTT
11876678 TTTTTC-
1 TTTTTCA
*
11876684 TTTTT-T
1 TTTTTCA
11876690 TTTTTCA
1 TTTTTCA
11876697 TTTTTTCA
1 -TTTTTCA
11876705 TTTTTCA
1 TTTTTCA
11876712 TTTTTCCA
1 TTTTT-CA
11876720 TTTTTTCA
1 -TTTTTCA
11876728 TTTTT
1 TTTTT
11876733 TTCAAGCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
6 10 0.23
7 17 0.40
8 11 0.26
9 5 0.12
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTCA
Found at i:11876702 original size:15 final size:15
Alignment explanation
Indices: 11876684--11876734 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
11876674 CTTTTTTTTC
11876684 TTTTTTTTTTTCATT
1 TTTTTTTTTTTCATT
**
11876699 TTTTCATTTTTCATT
1 TTTTTTTTTTTCATT
**
11876714 TTTCCATTTTTTCATT
1 TTT-TTTTTTTTCATT
11876730 TTTTT
1 TTTTT
11876735 CAAGCATAGT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTTTTTTCATT
Found at i:11877699 original size:119 final size:119
Alignment explanation
Indices: 11877472--11877811 Score: 503
Period size: 119 Copynumber: 2.9 Consensus size: 119
11877462 TTTTTTGTAG
* * *
11877472 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTCGATTTTCAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTT-AAGGAA
* ***
11877535 AATTGATACTTACAACTTTT-CCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAA
65 AATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTGAAAATTTATTTCTAA
11877590 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTAAGGAAA
*
11877655 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCG-AAATTTATTTCTGA
66 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT-GAAAATTTATTTCTAA
* *
11877709 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTAAA-TTT-ATTTCTGAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTT-TAAGGAA
11877772 AATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTT
65 AATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTTTT
11877812 TGGAATTTTT
Statistics
Matches: 206, Mismatches: 10, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
117 4 0.02
118 75 0.36
119 104 0.50
120 23 0.11
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.45
Consensus pattern (119 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTAAGGAAA
ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTATTTCTAA
Found at i:11877773 original size:178 final size:178
Alignment explanation
Indices: 11877472--11877820 Score: 533
Period size: 178 Copynumber: 2.0 Consensus size: 178
11877462 TTTTTTGTAG
*
11877472 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTCGATTTTCAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTCGAAATTTC-ATTTTCAAGGAAAA
* *
11877537 TTGATACTTACAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAAGGAAAATTGATA
65 TTGATACTTACAACTTTTCCCCAAAAACACTTTTTTTGAAAATTTATTTCTAAGGAAAATTGATA
11877602 CTTTCAACTTTTCCCCAAAAATAT-TTTTTTTTGAAATTTTGATTTTAA
130 CTTTCAACTTTTCCCCAAAAATATATTTTTTTTGAAATTTTGATTTTAA
*
11877650 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCGAAATTT-A-TTTCTGAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTCGAAATTTCATTTTC-AAGGAA
* * * ** *
11877713 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTAAATTTATTTCTGAGGAAAATTGA
63 AATTGATACTTACAACTTTTCCCCAAAAACACTTTTTTTGAAAATTTATTTCTAAGGAAAATTGA
* *
11877778 TACTTTCAACTTTTCCCTAAAAATATATTTTTTTTGGAATTTT
128 TACTTTCAACTTTTCCCCAAAAATATATTTTTTTTGAAATTTT
11877821 TTATTTTTAT
Statistics
Matches: 155, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
177 4 0.03
178 123 0.79
179 15 0.10
180 13 0.08
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.45
Consensus pattern (178 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTCGAAATTTCATTTTCAAGGAAAAT
TGATACTTACAACTTTTCCCCAAAAACACTTTTTTTGAAAATTTATTTCTAAGGAAAATTGATAC
TTTCAACTTTTCCCCAAAAATATATTTTTTTTGAAATTTTGATTTTAA
Found at i:11877811 original size:59 final size:58
Alignment explanation
Indices: 11877472--11877812 Score: 447
Period size: 59 Copynumber: 5.8 Consensus size: 58
11877462 TTTTTTGTAG
**
11877472 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTAAATTT--ATTTCT-AA
* ** **
11877531 GGAAAATTGATACTTACAACTTTT-CCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAA-TATTTTTTTTTAAATTTATTTCTAA
*
11877590 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTT-TAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTT-AAA-TTT-ATTTCTAA
* *
11877650 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT-TAAATTTATTTCTAA
* *
11877709 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTTAAATTTATTTCTAA
11877768 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTTTTT
11877813 GGAATTTTTT
Statistics
Matches: 254, Mismatches: 16, Indels: 24
0.86 0.05 0.08
Matches are distributed among these distances:
58 15 0.06
59 160 0.63
60 62 0.24
61 17 0.07
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.45
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTAAATTTATTTCTAA
Found at i:11877921 original size:23 final size:23
Alignment explanation
Indices: 11877894--11877944 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
11877884 TCTAATAAAT
* * *
11877894 AAAAATTAAAATAAACAAAGAAA
1 AAAAATTAAAAGAAAAAAAAAAA
*
11877917 AAAAATTCAAAGAAAAAAAAAAA
1 AAAAATTAAAAGAAAAAAAAAAA
11877940 AAAAA
1 AAAAA
11877945 AAACCTGGAG
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:0.82, C:0.04, G:0.04, T:0.10
Consensus pattern (23 bp):
AAAAATTAAAAGAAAAAAAAAAA
Found at i:11878315 original size:19 final size:20
Alignment explanation
Indices: 11878272--11878316 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
11878262 AACACCGGTG
* *
11878272 CCGGATTCTGGAAATTTTCG
1 CCGGAATCTGGAAATTTTCA
*
11878292 TCGGAATCTGGAAA-TTTCA
1 CCGGAATCTGGAAATTTTCA
11878311 CCGGAA
1 CCGGAA
11878317 GTTGGCCGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (20 bp):
CCGGAATCTGGAAATTTTCA
Found at i:11879230 original size:12 final size:10
Alignment explanation
Indices: 11879215--11879317 Score: 61
Period size: 10 Copynumber: 10.0 Consensus size: 10
11879205 TCAACTCAAC
11879215 ATTTTTATTTT
1 ATTTTT-TTTT
11879226 GA-TTTTTTTT
1 -ATTTTTTTTT
11879236 ATTTTTGTTTT
1 ATTTTT-TTTT
*
11879247 -TATTTTTTTG
1 AT-TTTTTTTT
*
11879257 A-TTTTTTTG
1 ATTTTTTTTT
11879266 ATTTTTTGATTT
1 ATTTTTT--TTT
*
11879278 TTTTTGTTTTT
1 ATTTT-TTTTT
* *
11879289 GTTTTTTTGT
1 ATTTTTTTTT
11879299 -TTTTTTTTT
1 ATTTTTTTTT
*
11879308 GTTTTTTTTT
1 ATTTTTTTTT
11879318 TTTGCCGAAG
Statistics
Matches: 76, Mismatches: 6, Indels: 20
0.75 0.06 0.20
Matches are distributed among these distances:
9 18 0.24
10 30 0.39
11 19 0.25
12 7 0.09
13 2 0.03
ACGTcount: A:0.08, C:0.00, G:0.09, T:0.83
Consensus pattern (10 bp):
ATTTTTTTTT
Found at i:11879232 original size:1 final size:1
Alignment explanation
Indices: 11879228--11879320 Score: 69
Period size: 1 Copynumber: 93.0 Consensus size: 1
11879218 TTTATTTTGA
* * * ** ** ** * *
11879228 TTTTTTTTATTTTTGTTTTTATTTTTTTGATTTTTTTGATTTTTTGATTTTTTTTGTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
11879293 TTTTGTTTTTTTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
11879321 GCCGAAGCTC
Statistics
Matches: 69, Mismatches: 23, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.05, C:0.00, G:0.09, T:0.86
Consensus pattern (1 bp):
T
Found at i:11879239 original size:9 final size:9
Alignment explanation
Indices: 11879217--11879320 Score: 72
Period size: 9 Copynumber: 11.4 Consensus size: 9
11879207 AACTCAACAT
11879217 TTTTATTTTGA
1 TTTT-TTTT-A
11879228 TTTTTTTTA
1 TTTTTTTTA
11879237 TTTTTGTTTTTA
1 --TTT-TTTTTA
*
11879249 TTTTTTTGA
1 TTTTTTTTA
*
11879258 TTTTTTTGA
1 TTTTTTTTA
*
11879267 -TTTTTTGA
1 TTTTTTTTA
*
11879275 TTTTTTTTG
1 TTTTTTTTA
*
11879284 TTTTTGTT-
1 TTTTTTTTA
*
11879292 TTTTTGTT-
1 TTTTTTTTA
*
11879300 TTTTTTTTG
1 TTTTTTTTA
11879309 TTTTTTTT-
1 TTTTTTTTA
11879317 TTTT
1 TTTT
11879321 GCCGAAGCTC
Statistics
Matches: 83, Mismatches: 5, Indels: 13
0.82 0.05 0.13
Matches are distributed among these distances:
8 27 0.33
9 36 0.43
10 7 0.08
11 7 0.08
12 6 0.07
ACGTcount: A:0.07, C:0.00, G:0.09, T:0.85
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:11879240 original size:8 final size:8
Alignment explanation
Indices: 11879216--11879319 Score: 72
Period size: 8 Copynumber: 12.6 Consensus size: 8
11879206 CAACTCAACA
11879216 TTTTTATT
1 TTTTTATT
11879224 TTGATTT-TT
1 TT--TTTATT
*
11879233 TTTATTTTT
1 TTT-TTATT
11879242 GTTTTTATT
1 -TTTTTATT
11879251 TTTTTGATT
1 TTTTT-ATT
11879260 TTTTTGATT
1 TTTTT-ATT
*
11879269 TTTTGATT
1 TTTTTATT
*
11879277 TTTTT-TG
1 TTTTTATT
*
11879284 TTTTTGTT
1 TTTTTATT
*
11879292 TTTTTGTT
1 TTTTTATT
11879300 TTTTT-TT
1 TTTTTATT
11879307 TGTTTT-TT
1 T-TTTTATT
11879315 TTTTT
1 TTTTT
11879320 TGCCGAAGCT
Statistics
Matches: 83, Mismatches: 5, Indels: 17
0.79 0.05 0.16
Matches are distributed among these distances:
7 14 0.17
8 37 0.45
9 26 0.31
10 6 0.07
ACGTcount: A:0.07, C:0.00, G:0.09, T:0.85
Consensus pattern (8 bp):
TTTTTATT
Found at i:11879447 original size:41 final size:41
Alignment explanation
Indices: 11879327--11879834 Score: 784
Period size: 41 Copynumber: 12.5 Consensus size: 41
11879317 TTTTGCCGAA
* * *
11879327 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
*
11879368 GCTCCTCTAAACAGAGGCA--ACGGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCAC-GACTTTGAAAAGTAAATT
11879408 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
* * *
11879449 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAATTTAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
11879490 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
*
11879532 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
11879573 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
*
11879613 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
11879654 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
*
11879694 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
11879735 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
11879775 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
11879816 GCTCCTCTAAACAGAGGCA
1 GCTCCTCTAAACAGAGGCA
11879835 ACGAACTTGG
Statistics
Matches: 436, Mismatches: 15, Indels: 32
0.90 0.03 0.07
Matches are distributed among these distances:
39 15 0.03
40 143 0.33
41 225 0.52
42 53 0.12
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:11879462 original size:81 final size:80
Alignment explanation
Indices: 11879327--11879853 Score: 780
Period size: 81 Copynumber: 6.5 Consensus size: 80
11879317 TTTTGCCGAA
*
11879327 GCTCCTCTAAACAGAGACTCAACG-ACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCA-AC
1 GCTCCTCTAAACAGAG--GCAACGAAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACAC
*
11879389 GGACTTTGGAAAGTAAATT
63 -GACTTTGAAAAGTAAATT
*
11879408 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAA-TAAATTGCTCCTCTCAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCA-CA
* *
11879471 CGACTTTGAAAATTTAATT
62 CGACTTTGAAAAGTAAATT
* *
11879490 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCA-CA
11879554 CGACTTTGAAAAGTAAATT
62 CGACTTTGAAAAGTAAATT
*
11879573 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-CACGA
11879638 CTTTGAAAAGTAAATT
65 CTTTGAAAAGTAAATT
*
11879654 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-CACGA
11879719 CTTTGAAAAGTAAATT
65 CTTTGAAAAGTAAATT
11879735 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA-CACGA
11879800 CTTTGAAAAGTAAATT
65 CTTTGAAAAGTAAATT
*
11879816 GCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAGTAAAT
1 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAAT
11879854 ACTCCTAGAC
Statistics
Matches: 424, Mismatches: 14, Indels: 17
0.93 0.03 0.04
Matches are distributed among these distances:
79 2 0.00
80 15 0.04
81 283 0.67
82 58 0.14
83 66 0.16
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (80 bp):
GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACACGAC
TTTGAAAAGTAAATT
Found at i:11881181 original size:15 final size:16
Alignment explanation
Indices: 11881152--11881181 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11881142 TTCTTTTTTT
11881152 TTTTTTTTTCATCATC
1 TTTTTTTTTCATCATC
11881168 TTTTTTTTTC-TCAT
1 TTTTTTTTTCATCAT
11881182 TCTTCACCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTTTTTCATCATC
Found at i:11881185 original size:16 final size:16
Alignment explanation
Indices: 11881121--11881185 Score: 60
Period size: 18 Copynumber: 4.0 Consensus size: 16
11881111 CATTTTCTCA
*
11881121 TTTTTTTCTCTTTCTT
1 TTTTTTTCTCATTCTT
* * *
11881137 TCTTTTTCT-TTTTTT
1 TTTTTTTCTCATTCTT
*
11881152 TTTTTTTTTCATCATCTT
1 TTTTTTTCTCAT--TCTT
11881170 TTTTTTTCTCATTCTT
1 TTTTTTTCTCATTCTT
11881186 CACCTATTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
15 12 0.31
16 13 0.33
18 14 0.36
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTTCTCATTCTT
Found at i:11885060 original size:59 final size:58
Alignment explanation
Indices: 11884997--11885337 Score: 413
Period size: 59 Copynumber: 5.7 Consensus size: 58
11884987 TTTTTTGTAG
*
11884997 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAA-TTT-ATTTTCAA
* * *** *
11885056 GGAAAATTGATTACTTACAAACTTTT-CCTCAAAACCCTTTTTTTGAAAATTA-TTTCTAA
1 GGAAAATTGA-TACTTTC-AACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTTC-AA
* *
11885115 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGAAA-TTT-ATTTTCAA
* *
11885176 AGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCGAAATTTATTTCTGAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT-GAAATTTATTT-TCAA
* *
11885236 -GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTA-TTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGAAATTTATTTTC-AA
11885294 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTTTT
11885338 TTGGAATTTT
Statistics
Matches: 246, Mismatches: 21, Indels: 30
0.83 0.07 0.10
Matches are distributed among these distances:
57 8 0.03
58 20 0.08
59 119 0.48
60 39 0.16
61 57 0.23
62 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTTCAA
Found at i:11885245 original size:120 final size:119
Alignment explanation
Indices: 11884997--11885337 Score: 487
Period size: 120 Copynumber: 2.9 Consensus size: 119
11884987 TTTTTTGTAG
* * *
11884997 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTTGATTTTCAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTTAAGGAA
* * ***
11885060 AATTGATTACTTACAAACTTTT-CCTCAAAACCCTTTTTTTGAAAATTATTTCTAA
66 AATTGA-TACTTTC-AACTTTTCCCTAAAAATATTTTTTTTGAAAATTATTTCTAA
*
11885115 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTTAAAGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTTAAGGAA
*
11885180 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCGAAATTTATTTCTGAA
66 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT-GAAAATTATTTCT-AA
* *
11885236 -GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAA-TTT-ATTTCTGAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTTAAGGAA
11885298 AATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTT
66 AATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTTTT
11885338 TTGGAATTTT
Statistics
Matches: 204, Mismatches: 13, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
118 82 0.40
119 30 0.15
120 90 0.44
121 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (119 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTTTAAGGAA
AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTATTTCTAA
Found at i:11885299 original size:179 final size:182
Alignment explanation
Indices: 11884998--11885356 Score: 509
Period size: 179 Copynumber: 2.0 Consensus size: 182
11884988 TTTTTGTAGG
*
11884998 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTTGATTTTCAAGGAAAAT
1 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTCGAAATTTTGATTTTCAAGGAAAAT
* *
11885063 TGATTACTTACAAACTTTTCCTCAAAACCCTTTTTTTGAAAATTATTTCTAAGGAAAATTGATAC
66 TGATTACTTACAAACTTTTCCCCAAAAACCTTTTTTTGAAAATTATTTCTAAGGAAAATTGATAC
*
11885128 TTTCAACTTTTCCC-CAAAA-ATATTTTTTTTT-GAAATTTTGATTTTTAAA
131 TTTCAACTTTTCCCTAAAAATATATTTTTTTTTGGAAATTTTGATTTTTAAA
*
11885177 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCGAAA-TTT-ATTTCTGAA-GAA
1 GAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTCGAAATTTTGATTT-TCAAGGAA
* ** * *
11885239 AATTGA-TACTTTC-AACTTTTCCCCAAAAATATTTTTTTTTGAAATTTATTTCTGAGGAAAATT
63 AATTGATTACTTACAAACTTTTCCCC-AAAA-ACCTTTTTTTGAAAATTATTTCTAAGGAAAATT
* *
11885302 GATACTTTCAACTTTTCCCTAAAAATATATTTTTTTTTGGAATTTTTTATTTTTA
126 GATACTTTCAACTTTTCCCTAAAAATATATTTTTTTTTGGAAATTTTGATTTTTA
11885357 TTTAAAGAAA
Statistics
Matches: 160, Mismatches: 12, Indels: 13
0.86 0.06 0.07
Matches are distributed among these distances:
177 10 0.06
178 10 0.06
179 94 0.59
180 10 0.06
181 22 0.14
182 14 0.09
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (182 bp):
GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTCGAAATTTTGATTTTCAAGGAAAAT
TGATTACTTACAAACTTTTCCCCAAAAACCTTTTTTTGAAAATTATTTCTAAGGAAAATTGATAC
TTTCAACTTTTCCCTAAAAATATATTTTTTTTTGGAAATTTTGATTTTTAAA
Found at i:11885484 original size:5 final size:5
Alignment explanation
Indices: 11885476--11885513 Score: 58
Period size: 5 Copynumber: 7.2 Consensus size: 5
11885466 AAACCTGGAG
11885476 CGGCT CGGCT CGGGGCT CGGCT CGGCT CGGCT CGGCT C
1 CGGCT CGGCT C--GGCT CGGCT CGGCT CGGCT CGGCT C
11885514 AAGGCAGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 26 0.84
7 5 0.16
ACGTcount: A:0.00, C:0.39, G:0.42, T:0.18
Consensus pattern (5 bp):
CGGCT
Found at i:11885820 original size:20 final size:20
Alignment explanation
Indices: 11885795--11885832 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11885785 GAACACCGGT
*
11885795 GCCGGATTCTGGAAATTTTC
1 GCCGGAATCTGGAAATTTTC
11885815 GCCGGAATCTGGAAATTT
1 GCCGGAATCTGGAAATTT
11885833 CACCGGAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (20 bp):
GCCGGAATCTGGAAATTTTC
Found at i:11885838 original size:19 final size:20
Alignment explanation
Indices: 11885796--11885840 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
11885786 AACACCGGTG
* *
11885796 CCGGATTCTGGAAATTTTCG
1 CCGGAATCTGGAAATTTTCA
11885816 CCGGAATCTGGAAA-TTTCA
1 CCGGAATCTGGAAATTTTCA
11885835 CCGGAA
1 CCGGAA
11885841 GTTGGCCGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (20 bp):
CCGGAATCTGGAAATTTTCA
Found at i:11885939 original size:31 final size:31
Alignment explanation
Indices: 11885896--11885963 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
11885886 GGGCAGGGCA
* ** *
11885896 CCGGAAACTTCAATGTTGGCCGGAATTTTCG
1 CCGGAAAATTCAAACTTCGCCGGAATTTTCG
*
11885927 CCGGAAAATTCAAACTTCGTCGGAATTTTCG
1 CCGGAAAATTCAAACTTCGCCGGAATTTTCG
11885958 CCGGAA
1 CCGGAA
11885964 TCTGGAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (31 bp):
CCGGAAAATTCAAACTTCGCCGGAATTTTCG
Found at i:11886634 original size:20 final size:21
Alignment explanation
Indices: 11886611--11886651 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
11886601 GGCCTTACCT
*
11886611 ATTTGGGTCAGG-CCCAATTG
1 ATTTGGGCCAGGACCCAATTG
*
11886631 ATTTGGGCCCGGACCCAATTG
1 ATTTGGGCCAGGACCCAATTG
11886652 GGTGTCTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (21 bp):
ATTTGGGCCAGGACCCAATTG
Found at i:11893635 original size:60 final size:57
Alignment explanation
Indices: 11893379--11893795 Score: 545
Period size: 60 Copynumber: 7.1 Consensus size: 57
11893369 GAATGATTTT
* *
11893379 TTTTTTTTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAA
1 TTTTTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAA
*
11893435 TTTCGATTTTCAAGGAAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTTTTGAAAA
1 TTT---TTTTCAAGGAAAATTGATACTTTCAAC-TTTTCCCTAAAAATA-TTTTTTTGGAAA
* *
11893496 TTTATTTCTAAGGAAAATTGATACTTTCAATTTTTCCCTAAAAATA-TTTTTTGGAAA
1 TTTTTTTC-AAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAA
*
11893553 TTTATTCTT-AAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTTGAAA
1 TTT-TT-TTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA---TTTTTTTGGAAA
* * *
11893614 TTTTTTTCCAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTGGAAA
1 TTTTTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAA
**
11893671 TTGATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTATTTTGGAAA
1 TTTTTTTC-AAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTT-TTTTGGAAA
* * *
11893731 TTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTAGAAT
1 TTTTTTTC-AAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAA
11893789 TTTTTTT
1 TTTTTTT
11893796 ATTTTTATTT
Statistics
Matches: 322, Mismatches: 21, Indels: 34
0.85 0.06 0.09
Matches are distributed among these distances:
56 3 0.01
57 65 0.20
58 60 0.19
59 70 0.22
60 98 0.30
61 26 0.08
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.46
Consensus pattern (57 bp):
TTTTTTTCAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAA
Found at i:11893783 original size:118 final size:116
Alignment explanation
Indices: 11893386--11893782 Score: 613
Period size: 118 Copynumber: 3.4 Consensus size: 116
11893376 TTTTTTTTTT
11893386 TAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTT-TCAAGG
1 TAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAA-TT-GATTTCT-AAGG
*
11893450 AAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTTTTGAAAATTTATTTC
63 AAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTC
* * *
11893504 TAAGGAAAATTGATACTTTCAATTTTTCCCTAAAAATATTTTTTGGAAATTTA-TTCTTAAGGAA
1 TAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTGATTTC-TAAGGAA
* *
11893568 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTTGAAATTTTTTTC
65 AATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTTTGGAAATTTATTTC
*
11893622 -CAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTGGAAATTGATTTCTAAGGAA
1 TAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTGATTTCTAAGGAA
11893686 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTATTTTGGAAATTTATTTC
65 AATTGATACTTTCAACTTTTCCCTAAAAATATTTT-TTTTGGAAATTTATTTC
*
11893739 TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
1 TAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
11893783 TAGAATTTTT
Statistics
Matches: 256, Mismatches: 14, Indels: 19
0.89 0.05 0.07
Matches are distributed among these distances:
115 9 0.04
116 34 0.13
117 58 0.23
118 152 0.59
119 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.44
Consensus pattern (116 bp):
TAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTGATTTCTAAGGAAA
ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTC
Found at i:11893795 original size:175 final size:173
Alignment explanation
Indices: 11893385--11893795 Score: 612
Period size: 175 Copynumber: 2.3 Consensus size: 173
11893375 TTTTTTTTTT
* * *
11893385 TTAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTCGATTTTCAAG
1 TTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTAG-AATTT--TTTTTCAAG
* * *
11893449 GAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTGAAAATTTATTTCTAAGGAAAAT
63 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATCTTTTTTGAAAATTGATTTCTAAGGAAAAT
*
11893514 TGATACTTTCAATTTTTCCCTAAAAATATTTTTTGGAAATTTATTC
128 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTC
* * *
11893560 TTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTTGAAATTTTTTTCCAG
1 TTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATA---TTTTTTTAGAATTTTTTTTCAAG
*
11893625 GAAAATTGATACTTTCAACTTTTCCCCAAAAATA-CTTTTTTGGAAATTGATTTCTAAGGAAAAT
63 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATCTTTTTTGAAAATTGATTTCTAAGGAAAAT
11893689 TGATACTTTCAACTTTTCCCTAAAAATATTTTATTTTGGAAATTTATT-
128 TGATACTTTCAACTTTTCCCTAAAAATA--TT-TTTTGGAAATTTATTC
11893737 TCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTAGAATTTTTTTT
1 T-TAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTAGAATTTTTTTT
11893796 ATTTTTATTT
Statistics
Matches: 216, Mismatches: 12, Indels: 16
0.89 0.05 0.07
Matches are distributed among these distances:
175 109 0.50
176 40 0.19
177 3 0.01
178 57 0.26
179 7 0.03
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (173 bp):
TTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTAGAATTTTTTTTCAAGGAA
AATTGATACTTTCAACTTTTCCCCAAAAATATCTTTTTTGAAAATTGATTTCTAAGGAAAATTGA
TACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTC
Found at i:11894336 original size:20 final size:20
Alignment explanation
Indices: 11894297--11894339 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
11894287 GGAAGTCAGT
*
11894297 CGGTTTCTGGGAATATTCGC
1 CGGTTTCTGGGAATACTCGC
* *
11894317 CGGTTTCTGGGATTCCTCGC
1 CGGTTTCTGGGAATACTCGC
11894337 CGG
1 CGG
11894340 AAACTGGGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.09, C:0.26, G:0.33, T:0.33
Consensus pattern (20 bp):
CGGTTTCTGGGAATACTCGC
Found at i:11895829 original size:15 final size:15
Alignment explanation
Indices: 11895809--11895855 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
11895799 TTGTAAGTGT
11895809 AATGAATGAGAATGC
1 AATGAATGAGAATGC
*
11895824 AATGAATGAGAATGT
1 AATGAATGAGAATGC
11895839 AATGAATGAGAAATGC
1 AATGAATGAG-AATGC
11895855 A
1 A
11895856 TGTATGCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 24 0.83
16 5 0.17
ACGTcount: A:0.49, C:0.04, G:0.26, T:0.21
Consensus pattern (15 bp):
AATGAATGAGAATGC
Found at i:11899216 original size:58 final size:58
Alignment explanation
Indices: 11899025--11899543 Score: 664
Period size: 58 Copynumber: 8.8 Consensus size: 58
11899015 TTTTTTGTAG
11899025 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAATTTA--TTTC---TAA
* * * *
11899089 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTATTTTTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTGGAAATTTATTTCTAA
11899149 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAA
*
11899207 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT-GAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAA
* ** *
11899264 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTTAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTTGGAAATTTATTTCTAA
11899323 GGAAAATTG--A---T--AC--TTCCCCAAAAATA-TTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAA
*
11899371 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTCTTTTGAAATTTATGAAATTTATTTCT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTT-TTTTG--------GAAATTTATTTCT
*
11899436 GA
57 AA
11899438 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAA
* *
11899496 GGAAAATTGATACTTTAAACTTTTCCCTAAAAATATATTTTTTTGGAA
1 GGAAAATTGATACTTTCAACTTTTCCC-CAAAA-ATATTTTTTTGGAA
11899544 TTTTTTATTT
Statistics
Matches: 410, Mismatches: 21, Indels: 52
0.85 0.04 0.11
Matches are distributed among these distances:
48 28 0.07
50 13 0.03
52 2 0.00
53 1 0.00
54 1 0.00
55 2 0.00
57 64 0.16
58 109 0.27
59 31 0.08
60 50 0.12
63 3 0.01
64 34 0.08
65 16 0.04
66 5 0.01
67 51 0.12
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.45
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAA
Found at i:11899239 original size:27 final size:27
Alignment explanation
Indices: 11899209--11899297 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
11899199 ATTTCTAAGG
11899209 AAAATTGATACTTTCAACTTTTCCCTA
1 AAAATTGATACTTTCAACTTTTCCCTA
** * * **
11899236 AAAA-T-ATTTTTTTGAAATTTATTTCTAA
1 AAAATTGA-TACTTTCAACTTT-TCCCT-A
11899264 GGAAAATTGATACTTTCAACTTTTCCCTA
1 --AAAATTGATACTTTCAACTTTTCCCTA
11899293 AAAAT
1 AAAAT
11899298 ATATTTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
25 1 0.02
26 10 0.23
27 12 0.28
28 1 0.02
29 1 0.02
30 7 0.16
31 10 0.23
32 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.06, T:0.43
Consensus pattern (27 bp):
AAAATTGATACTTTCAACTTTTCCCTA
Found at i:11899360 original size:107 final size:113
Alignment explanation
Indices: 11899025--11899539 Score: 557
Period size: 115 Copynumber: 4.4 Consensus size: 113
11899015 TTTTTTGTAG
* * *
11899025 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTTT-GGAAATTTATTTTTCTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTATGAAATTTA--TTTC---TG
* * * *
11899088 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTATTTTTGA
61 AGGAAAATTGA-A--TT-AAC-TTTCCCCAAAAATA---TTTTTTGGAAATTTATTTCTAA
* * *
11899149 GGAAAATTGATACTTTCAACTTTTCCC-CAAAA-ATATTTTTTT-GGAAATTTATTTCTAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTATGAAATTTATTTCTGAGGAA
* *
11899211 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTCTAA
66 AATTGA-A--TT-AAC-TTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
11899264 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTT-T-AAATTTATTTCTGAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTATGAAATTTATTTCTGAGGAA
11899327 AATTG-A-T-AC-TTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
66 AATTGAATTAACTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
*
11899371 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTCTTTTGAAATTTATGAAATTTATTTCT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TATTTT----TTTATGAAATTTATTTCT
11899436 GAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAA
60 GAGGAAAATTGA-A--TT-AAC-TTTCCCCAAAAATA-TTTTTTGGAAATTTATTTCTAA
*
11899496 GGAAAATTGATACTTTAAACTTTTCCCTAAAAATATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTT
11899540 GGAATTTTTT
Statistics
Matches: 359, Mismatches: 11, Indels: 47
0.86 0.03 0.11
Matches are distributed among these distances:
107 68 0.19
109 7 0.02
111 1 0.00
113 3 0.01
114 2 0.01
115 70 0.19
116 26 0.07
117 11 0.03
118 38 0.11
119 3 0.01
120 1 0.00
121 4 0.01
122 4 0.01
123 25 0.07
124 40 0.11
125 56 0.16
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.45
Consensus pattern (113 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTATGAAATTTATTTCTGAGGAA
AATTGAATTAACTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
Found at i:11899361 original size:48 final size:49
Alignment explanation
Indices: 11899293--11899385 Score: 152
Period size: 48 Copynumber: 1.9 Consensus size: 49
11899283 CTTTTCCCTA
** *
11899293 AAAATATATTTTTTTTAAATTTATTTCTGAGGAAAATTGATACTTCCCC
1 AAAATATATTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTCCCC
11899342 AAAA-ATATTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTT
1 AAAATATATTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTT
11899386 TCAACTTTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
48 37 0.90
49 4 0.10
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.44
Consensus pattern (49 bp):
AAAATATATTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTCCCC
Found at i:11899464 original size:67 final size:63
Alignment explanation
Indices: 11899356--11899538 Score: 259
Period size: 67 Copynumber: 2.9 Consensus size: 63
11899346 ATATTTTTTG
11899356 GAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTCTTTTGAAATTT
1 GAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTT-TTTTG-AA-TT
11899421 AT
63 -T
* *
11899423 GAAATTTATTTCTGAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTG-----
1 GAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAATTT
*
11899481 GAAATTTATTTCTAAGGAAAATTGATACTTTAAACTTTTCCCTAAAAATATATTTTTT
1 GAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTTT
11899539 TGGAATTTTT
Statistics
Matches: 110, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
58 48 0.44
59 6 0.05
66 5 0.05
67 51 0.46
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (63 bp):
GAAATTTATTTCTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAATTT
Found at i:11900096 original size:31 final size:31
Alignment explanation
Indices: 11900058--11900119 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
11900048 TGGGCAGGTC
* *
11900058 GCCGGAAACTTC-AATGTTCGTCGGAATTATT
1 GCCGGAAAATTCAAAT-TTCGCCGGAATTATT
11900089 GCCGGAAAATTCAAATTTCGCCGGAATTATT
1 GCCGGAAAATTCAAATTTCGCCGGAATTATT
11900120 CGTCGTCGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 25 0.89
32 3 0.11
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (31 bp):
GCCGGAAAATTCAAATTTCGCCGGAATTATT
Found at i:11900606 original size:3 final size:3
Alignment explanation
Indices: 11900589--11900643 Score: 55
Period size: 3 Copynumber: 19.3 Consensus size: 3
11900579 CAAAATATAT
* *
11900589 ATA ATA AAA AAA ATA ATA ATA ATA ATA A-A A-A ATA ATA ATA A-A AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11900633 ATA ATA TATA A
1 ATA ATA -ATA A
11900644 CTATAGACAT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 8 0.17
3 35 0.76
4 3 0.07
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:11900620 original size:19 final size:19
Alignment explanation
Indices: 11900580--11900633 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
11900570 AAGATAAACC
11900580 AAAAT-ATATATAATAA-AA
1 AAAATAATA-ATAATAATAA
11900598 AAAATAATAATAATAATAA
1 AAAATAATAATAATAATAA
11900617 AAAATAATAATAA-AATA
1 AAAATAATAATAATAATA
11900634 TAATATATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.47
19 18 0.53
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAATAATAATAATAATAA
Found at i:11900624 original size:13 final size:13
Alignment explanation
Indices: 11900606--11900643 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
11900596 AAAAAATAAT
11900606 AATAATAATAAAA
1 AATAATAATAAAA
11900619 AATAATAATAAAA
1 AATAATAATAAAA
*
11900632 TATAATATATAA
1 AATAATA-ATAA
11900644 CTATAGACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATAATAAAA
Found at i:11900783 original size:34 final size:35
Alignment explanation
Indices: 11900739--11900814 Score: 136
Period size: 34 Copynumber: 2.2 Consensus size: 35
11900729 AATATTCAAT
*
11900739 TGGGCTTTACCCATTTGGGCC-AGCCCAATTGATC
1 TGGGCCTTACCCATTTGGGCCAAGCCCAATTGATC
11900773 TGGGCCTTACCCATTTGGGCCAAGCCCAATTGATC
1 TGGGCCTTACCCATTTGGGCCAAGCCCAATTGATC
11900808 TGGGCCT
1 TGGGCCT
11900815 GGACCCAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
34 20 0.50
35 20 0.50
ACGTcount: A:0.17, C:0.30, G:0.25, T:0.28
Consensus pattern (35 bp):
TGGGCCTTACCCATTTGGGCCAAGCCCAATTGATC
Found at i:11900813 original size:20 final size:19
Alignment explanation
Indices: 11900754--11900813 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 19
11900744 TTTACCCATT
11900754 TGGGCCAGCCCAATTGATC
1 TGGGCCAGCCCAATTGATC
11900773 TGGGCCTTA-CCC-A-T--T-
1 TGGGCC--AGCCCAATTGATC
11900788 TGGGCCAAGCCCAATTGATC
1 TGGGCC-AGCCCAATTGATC
11900808 TGGGCC
1 TGGGCC
11900814 TGGACCCAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 15
0.67 0.02 0.31
Matches are distributed among these distances:
14 1 0.03
15 9 0.28
16 2 0.06
17 1 0.03
18 1 0.03
19 8 0.25
20 9 0.28
21 1 0.03
ACGTcount: A:0.18, C:0.32, G:0.27, T:0.23
Consensus pattern (19 bp):
TGGGCCAGCCCAATTGATC
Found at i:11904782 original size:30 final size:29
Alignment explanation
Indices: 11904716--11904783 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
11904706 ACTTTTGCTG
* *
11904716 GATTCAATGTTTGGATTTAGATTTTTGTT
1 GATTCGATGTTTGGATTCAGATTTTTGTT
*
11904745 GCGTTCGATGTTTGGA-TCAGGATTTTTGTT
1 G-ATTCGATGTTTGGATTCA-GATTTTTGTT
11904775 AGATTCGAT
1 -GATTCGAT
11904784 CCTTGAATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
29 3 0.09
30 28 0.88
31 1 0.03
ACGTcount: A:0.19, C:0.07, G:0.25, T:0.49
Consensus pattern (29 bp):
GATTCGATGTTTGGATTCAGATTTTTGTT
Found at i:11905028 original size:30 final size:30
Alignment explanation
Indices: 11904964--11905035 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
11904954 GATCGGGATA
* * **
11904964 TTCTTTGGATTTTATCTCTAAATTTGGATT
1 TTCTTTGGATTTTATCTATAAATTCGGACC
*
11904994 TTCTTTGGATTTTATCTATGAATTCGGACC
1 TTCTTTGGATTTTATCTATAAATTCGGACC
11905024 TTCTTT-GATTTT
1 TTCTTTGGATTTT
11905036 CATTTTTAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 6 0.16
30 31 0.84
ACGTcount: A:0.18, C:0.12, G:0.14, T:0.56
Consensus pattern (30 bp):
TTCTTTGGATTTTATCTATAAATTCGGACC
Found at i:11905126 original size:10 final size:9
Alignment explanation
Indices: 11905111--11905139 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
11905101 CGAGTTCGTG
11905111 TTTTTTTCT
1 TTTTTTTCT
11905120 TTTTTTTCT
1 TTTTTTTCT
11905129 TTTTTTT-T
1 TTTTTTTCT
11905137 TTT
1 TTT
11905140 AAGAGGAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.20
9 16 0.80
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:11905717 original size:42 final size:42
Alignment explanation
Indices: 11905653--11905783 Score: 217
Period size: 42 Copynumber: 3.1 Consensus size: 42
11905643 AGATTTATTA
11905653 TGGAGGGATTTTGCCTCGAGCTGAGCAAAGAGGGATGTTGGC
1 TGGAGGGATTTTGCCTCGAGCTGAGCAAAGAGGGATGTTGGC
* * * *
11905695 TGGAGGGATTTTGCCTCCAGCTGAGCAGACATGGATGTTGGC
1 TGGAGGGATTTTGCCTCGAGCTGAGCAAAGAGGGATGTTGGC
*
11905737 TGGAGGGATTTTGCCTCGAGCTTAGCAAAGAGGGATGTTGGC
1 TGGAGGGATTTTGCCTCGAGCTGAGCAAAGAGGGATGTTGGC
11905779 TGGAG
1 TGGAG
11905784 CTCAGCGTGG
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 80 1.00
ACGTcount: A:0.21, C:0.15, G:0.39, T:0.25
Consensus pattern (42 bp):
TGGAGGGATTTTGCCTCGAGCTGAGCAAAGAGGGATGTTGGC
Found at i:11906452 original size:16 final size:16
Alignment explanation
Indices: 11906433--11906582 Score: 53
Period size: 16 Copynumber: 10.1 Consensus size: 16
11906423 TCTTTTGTAT
11906433 TTTATGTATT-TTATTA
1 TTTAT-TATTATTATTA
11906449 TTTATTATTATTATTA
1 TTTATTATTATTATTA
* *
11906465 TTGT-GTATTAATA-TA
1 TT-TATTATTATTATTA
*
11906480 TATA-T-TTATT-TT-
1 TTTATTATTATTATTA
* *
11906492 TTT-TT-TCTGTTAATA
1 TTTATTAT-TATTATTA
11906507 TTTA-TATGTATT-TTA
1 TTTATTAT-TATTATTA
*
11906522 TTTA-TATAATTA-TA
1 TTTATTATTATTATTA
*
11906536 TTTGTTATTATTA-T-
1 TTTATTATTATTATTA
* *
11906550 GTTATCATTATTATTA
1 TTTATTATTATTATTA
*
11906566 TATT-TTATTATCATTA
1 T-TTATTATTATTATTA
11906582 T
1 T
11906583 CATTTTTTTC
Statistics
Matches: 100, Mismatches: 19, Indels: 30
0.67 0.13 0.20
Matches are distributed among these distances:
12 4 0.04
13 8 0.08
14 21 0.21
15 29 0.29
16 35 0.35
17 3 0.03
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:11907584 original size:10 final size:10
Alignment explanation
Indices: 11907550--11907688 Score: 74
Period size: 10 Copynumber: 13.8 Consensus size: 10
11907540 TTTTTGAAAT
11907550 TTTTTATTTA
1 TTTTTATTTA
*
11907560 TTTGT-TTTA
1 TTTTTATTTA
*
11907569 TCTTTATTTA
1 TTTTTATTTA
11907579 TTTTTATTTA
1 TTTTTATTTA
*
11907589 TTAGATTAAATTTA
1 TT---TT-TATTTA
* *
11907603 TTTAATATTTT
1 TTT-TTATTTA
11907614 TTCTTTATCTTA
1 TT-TTTAT-TTA
11907626 TTTTTA-TT-
1 TTTTTATTTA
*
11907634 TTTGT-TTTA
1 TTTTTATTTA
* *
11907643 CTTTTCTTTA
1 TTTTTATTTA
*
11907653 ATTTT-TTTA
1 TTTTTATTTA
11907662 TTTTTATTTA
1 TTTTTATTTA
* *
11907672 TTTTCACTT-
1 TTTTTATTTA
11907681 TTTTTATT
1 TTTTTATT
11907689 ATTCTATTTT
Statistics
Matches: 98, Mismatches: 19, Indels: 25
0.69 0.13 0.18
Matches are distributed among these distances:
8 6 0.06
9 26 0.27
10 38 0.39
11 14 0.14
12 5 0.05
13 2 0.02
14 7 0.07
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.73
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:11907642 original size:22 final size:21
Alignment explanation
Indices: 11907608--11907675 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 21
11907598 ATTTATTTAA
11907608 TATTTTTTCTTTATCTTATT-TT
1 TATTTTTTCTTTA-CTT-TTCTT
11907630 TATTTTTGT-TTTACTTTTCTT
1 TATTTTT-TCTTTACTTTTCTT
* * *
11907651 TA-ATTTT-TTTATTTTTATT
1 TATTTTTTCTTTACTTTTCTT
11907670 TATTTT
1 TATTTT
11907676 CACTTTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 13 0.33
20 7 0.18
21 7 0.18
22 11 0.28
23 1 0.03
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (21 bp):
TATTTTTTCTTTACTTTTCTT
Found at i:11907666 original size:19 final size:18
Alignment explanation
Indices: 11907627--11907675 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
11907617 TTTATCTTAT
*
11907627 TTTTATTT-TTGTTTTAC
1 TTTTATTTATTTTTTTAC
* *
11907644 TTTTCTTTAATTTTTTTAT
1 TTTTATTT-ATTTTTTTAC
11907663 TTTTATTTATTTT
1 TTTTATTTATTTT
11907676 CACTTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 7 0.27
18 5 0.19
19 14 0.54
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTATTTATTTTTTTAC
Found at i:11907673 original size:46 final size:47
Alignment explanation
Indices: 11907551--11907675 Score: 141
Period size: 46 Copynumber: 2.7 Consensus size: 47
11907541 TTTTGAAATT
11907551 TTTTATTT-ATTTGTTTTATCTTTATTTATTTTTATTTATTAGATTAA
1 TTTTATTTAATTT-TTTTATCTTTATTTATTTTTATTTATTAGATTAA
* * * *
11907598 ATTTATTTAATATTTTT-TCTTTATCTTATTTTTATTT-TT-GTTTTAC
1 TTTTATTTAATTTTTTTATCTTTAT-TTATTTTTATTTATTAG-ATTAA
* *
11907644 TTTTCTTTAATTTTTTTATTTTTATTTATTTT
1 TTTTATTTAATTTTTTTATCTTTATTTATTTT
11907676 CACTTTTTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
45 1 0.02
46 33 0.50
47 29 0.44
48 3 0.05
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (47 bp):
TTTTATTTAATTTTTTTATCTTTATTTATTTTTATTTATTAGATTAA
Found at i:11907696 original size:23 final size:23
Alignment explanation
Indices: 11907656--11907699 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
11907646 TTCTTTAATT
*
11907656 TTTTTATTTTTATTTATTTTCAC
1 TTTTTATTATTATTTATTTTCAC
11907679 TTTTT-TTATTATTCTATTTTC
1 TTTTTATTATTATT-TATTTTC
11907700 TTTAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTTATTATTATTTATTTTCAC
Found at i:11907855 original size:60 final size:60
Alignment explanation
Indices: 11907707--11908005 Score: 349
Period size: 60 Copynumber: 4.9 Consensus size: 60
11907697 TTCTTTAAAG
* * *
11907707 AAAAATCAAAATTTTCAAAAAAATATTTTT-AGGGAAAGTTGAAAGTATCAATTTTTCTT
1 AAAAATCAAAATTTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
* * *
11907766 AAAAAT-AAATTTTCAAAAAAAGAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAATCAAAATTTC-CAAAAA-AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
*
11907827 GAAAATCAAAATTTCCAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAATCAAAATTTCCAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTT
** *
11907887 AAAAAT--AAATTTAAAAAAAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 AAAAATCAAAATTT-----CCAAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
11907950 T
60 T
* * * *
11907951 GAAAATCGAAATTTTC-AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAATCAAAATTTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
11908006 TCCTACACAA
Statistics
Matches: 207, Mismatches: 19, Indels: 28
0.81 0.07 0.11
Matches are distributed among these distances:
58 12 0.06
59 43 0.21
60 55 0.27
61 37 0.18
62 7 0.03
63 7 0.03
64 39 0.19
65 1 0.00
66 6 0.03
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (60 bp):
AAAAATCAAAATTTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
Found at i:11908007 original size:124 final size:122
Alignment explanation
Indices: 11907708--11908009 Score: 495
Period size: 124 Copynumber: 2.5 Consensus size: 122
11907698 TCTTTAAAGA
11907708 AAAATCAAAATTTTCAAAAAAATATTTTTAGGG-AAAGTTGAAAGTATCAATTTTT-CTTAAAAA
1 AAAATCAAAATTTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCCTTAAAAA
** *
11907771 TAAATTTTCAAAAAAAGAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
66 TAAATTTAAAAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
*
11907828 AAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAA-TTTTCCTTAAAAA
1 AAAATCAAAATTTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCCTTAAAAA
11907892 TAAATTTAAAAAAAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
66 TAAATTT--AAAAAAAAAAAA-GATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* *
11907952 AAAATCGAAATTTTC-AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCCT
1 AAAATCAAAATTTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCCT
11908010 ACACAAAAAA
Statistics
Matches: 169, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
120 36 0.21
121 32 0.19
123 43 0.25
124 58 0.34
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.34
Consensus pattern (122 bp):
AAAATCAAAATTTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCCTTAAAAA
TAAATTTAAAAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:11911890 original size:7 final size:7
Alignment explanation
Indices: 11911880--11911916 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
11911870 ATGAAAAATG
11911880 AGAAAAA
1 AGAAAAA
11911887 AGAAAAA
1 AGAAAAA
11911894 AGAAAAA
1 AGAAAAA
*
11911901 GAAAAAAA
1 -AGAAAAA
11911909 AGAAAAA
1 AGAAAAA
11911916 A
1 A
11911917 AAAGGGGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 21 0.78
8 6 0.22
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AGAAAAA
Found at i:11911893 original size:8 final size:8
Alignment explanation
Indices: 11911882--11911971 Score: 51
Period size: 8 Copynumber: 11.0 Consensus size: 8
11911872 GAAAAATGAG
11911882 AAAAAAG-
1 AAAAAAGA
11911889 AAAAAAGA
1 AAAAAAGA
11911897 AAAAGAA-A
1 AAAA-AAGA
*
11911905 AAAAAGAAA
1 AAAAA-AGA
11911914 AAAAAAGGGGA
1 AAAAAA---GA
*
11911925 AAAAATG-
1 AAAAAAGA
* *
11911932 AGAAAATA
1 AAAAAAGA
*
11911940 AAAAAATA
1 AAAAAAGA
*
11911948 AAAAAATA
1 AAAAAAGA
*
11911956 AAAAAATA
1 AAAAAAGA
11911964 AAAAAAGA
1 AAAAAAGA
11911972 GATTCAAATT
Statistics
Matches: 68, Mismatches: 7, Indels: 15
0.76 0.08 0.17
Matches are distributed among these distances:
7 12 0.18
8 42 0.62
9 8 0.12
11 6 0.09
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (8 bp):
AAAAAAGA
Found at i:11911894 original size:9 final size:9
Alignment explanation
Indices: 11911880--11911918 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
11911870 ATGAAAAATG
11911880 AGAAAAAAGA
1 AGAAAAAA-A
*
11911890 AAAAAGAAAA
1 AGAAA-AAAA
11911900 AGAAAAAAA
1 AGAAAAAAA
11911909 AGAAAAAAA
1 AGAAAAAAA
11911918 A
1 A
11911919 AGGGGAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 14 0.54
10 9 0.35
11 3 0.12
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (9 bp):
AGAAAAAAA
Found at i:11911901 original size:13 final size:13
Alignment explanation
Indices: 11911883--11911920 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
11911873 AAAAATGAGA
11911883 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
11911896 AAAAAGAAAAAA-
1 AAAAAGAAAAAAG
11911908 AAGAAA-AAAAAAG
1 AA-AAAGAAAAAAG
11911921 GGGAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 8 0.35
13 15 0.65
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:11911919 original size:14 final size:14
Alignment explanation
Indices: 11911880--11911919 Score: 62
Period size: 15 Copynumber: 2.8 Consensus size: 14
11911870 ATGAAAAATG
*
11911880 AGAAAAAAGAAAAA
1 AGAAAAAAAAAAAA
11911894 AGAAAAAGAAAAAAA
1 AGAAAAA-AAAAAAA
11911909 AGAAAAAAAAA
1 AGAAAAAAAAA
11911920 GGGGAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAAAAAA
Found at i:11911945 original size:16 final size:16
Alignment explanation
Indices: 11911924--11911969 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
11911914 AAAAAAGGGG
* *
11911924 AAAAAATGAGAAAATA
1 AAAAAATAAAAAAATA
11911940 AAAAAATAAAAAAATA
1 AAAAAATAAAAAAATA
11911956 AAAAAATAAAAAAA
1 AAAAAATAAAAAAA
11911970 GAGATTCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.85, C:0.00, G:0.04, T:0.11
Consensus pattern (16 bp):
AAAAAATAAAAAAATA
Found at i:11911951 original size:24 final size:24
Alignment explanation
Indices: 11911924--11911969 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
11911914 AAAAAAGGGG
* *
11911924 AAAAAATGAGAAAATAAAAAAATA
1 AAAAAATAAAAAAATAAAAAAATA
11911948 AAAAAATAAAAAAATAAAAAAA
1 AAAAAATAAAAAAATAAAAAAA
11911970 GAGATTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.04, T:0.11
Consensus pattern (24 bp):
AAAAAATAAAAAAATAAAAAAATA
Found at i:11911951 original size:43 final size:41
Alignment explanation
Indices: 11911881--11911961 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 41
11911871 TGAAAAATGA
11911881 GAAAAAAGAAAAAAGAAAAAGAAAAAAAAGAAAAAAAAAGGG
1 GAAAAAAGAAAAAAGAAAAAGAAAAAAAA-AAAAAAAAAGGG
* * *
11911923 GAAAAAATGAGAAAATAAAAA-AATAAAAAAATAAAAAAA
1 GAAAAAA-GAAAAAAGAAAAAGAA-AAAAAAAAAAAAAAA
11911962 TAAAAAAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 17 0.50
43 17 0.50
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (41 bp):
GAAAAAAGAAAAAAGAAAAAGAAAAAAAAAAAAAAAAAGGG
Found at i:11913237 original size:42 final size:42
Alignment explanation
Indices: 11913161--11913626 Score: 676
Period size: 41 Copynumber: 11.1 Consensus size: 42
11913151 ATGATTGTCA
* * *
11913161 AGGAGCAATTTAC-TTTCCAAAGTCGTGGTACCTCTATATAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
11913202 AGGAGCAATTTACTTTTCCAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
11913244 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
11913286 AGGAGCAATTTACTTTT-CAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * *
11913327 ATGAGCAATTTACTTTT-CAAAGTCGTGGTACCTCTATTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
11913368 AGGAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
11913409 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTG---CCTCTGTTTAG
* * * *
11913454 AGGAGCAATTTA-TTTTTCAAAGTTGTGGTGCTTTTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
11913495 AGGAGCAATTTACTTTCCCAAAGTCGTGGTACCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
11913537 AGGAGCAATTTACTTTT-CAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* **
11913578 AGGAGCAATTTA-TGTTTCTCAAAGTCGTTGAACCTCTGTTTAG
1 AGGAGCAATTTACT-TTTC-CAAAGTCGTGGTGCCTCTGTTTAG
11913621 AGGAGC
1 AGGAGC
11913627 TTTGGTAAAA
Statistics
Matches: 385, Mismatches: 30, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
40 4 0.01
41 178 0.46
42 138 0.36
43 26 0.07
44 16 0.04
45 23 0.06
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (42 bp):
AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:11913316 original size:83 final size:83
Alignment explanation
Indices: 11913161--11913626 Score: 713
Period size: 83 Copynumber: 5.6 Consensus size: 83
11913151 ATGATTGTCA
* *
11913161 AGGAGCAATTTAC-TTTCCAAAGTCGTGGTACCTCTATATAGAGGAGCAATTTACTTTTCCAAAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAG
11913225 TCATGGTGCCTCTGTTTAG
65 TCATGGTGCCTCTGTTTAG
*
11913244 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
11913309 CATGGTGCCTCTGTTTAG
66 CATGGTGCCTCTGTTTAG
* * *
11913327 ATGAGCAATTTACTTTT-CAAAGTCGTGGTACCTCTATTTAGAGGAGCAATTTACTTTCCAAAGT
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
*
11913391 CGTGGTGCCTCTGTTTAG
66 CATGGTGCCTCTGTTTAG
* *
11913409 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCCTCTGTTTAGAGGAGCAATTTATTTTTCAA
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGT---ACCTCTGTTTAGAGGAGCAATTTACTTTTCAA
** * *
11913474 AGTTGTGGTGCTTTTGTTTAG
63 AGTCATGGTGCCTCTGTTTAG
*
11913495 AGGAGCAATTTACTTTCCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
11913560 CATGGTGCCTCTGTTTAG
66 CATGGTGCCTCTGTTTAG
* *
11913578 AGGAGCAATTTA-TGTTTCTCAAAGTCGTTGAACCTCTGTTTAGAGGAGC
1 AGGAGCAATTTACT-TTTC-CAAAGTCGTGGTACCTCTGTTTAGAGGAGC
11913627 TTTGGTAAAA
Statistics
Matches: 350, Mismatches: 26, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
82 78 0.22
83 127 0.36
84 70 0.20
86 75 0.21
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (83 bp):
AGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
CATGGTGCCTCTGTTTAG
Found at i:11913639 original size:1 final size:1
Alignment explanation
Indices: 11913633--11913722 Score: 72
Period size: 1 Copynumber: 90.0 Consensus size: 1
11913623 GAGCTTTGGT
* * * * * * * * *
11913633 AAAAAAAAACAAAAAAACAAAAAAACAAAAAAAAAACAAAAACAAAAAAAAAGAACAAAAAACAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
11913698 AAAAAACACAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
11913723 TGACAATGTT
Statistics
Matches: 65, Mismatches: 24, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 65 1.00
ACGTcount: A:0.87, C:0.12, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:11913648 original size:8 final size:8
Alignment explanation
Indices: 11913635--11913721 Score: 108
Period size: 8 Copynumber: 10.9 Consensus size: 8
11913625 GCTTTGGTAA
11913635 AAAAAAAC
1 AAAAAAAC
11913643 AAAAAAAC
1 AAAAAAAC
11913651 AAAAAAAC
1 AAAAAAAC
11913659 AAAAAAA-
1 AAAAAAAC
11913666 AAACAAAA-
1 AAA-AAAAC
*
11913674 ACAAAAA-
1 AAAAAAAC
*
11913681 AAAAGAAC
1 AAAAAAAC
11913689 AAAAAACAC
1 AAAAAA-AC
11913698 AAAAAACAC
1 AAAAAA-AC
11913707 AAAAAAAC
1 AAAAAAAC
11913715 AAAAAAA
1 AAAAAAA
11913722 ATGACAATGT
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
7 12 0.17
8 43 0.60
9 17 0.24
ACGTcount: A:0.86, C:0.13, G:0.01, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:11913648 original size:9 final size:9
Alignment explanation
Indices: 11913634--11913722 Score: 103
Period size: 9 Copynumber: 9.9 Consensus size: 9
11913624 AGCTTTGGTA
11913634 AAAAAAAAC
1 AAAAAAAAC
11913643 -AAAAAAAC
1 AAAAAAAAC
11913651 -AAAAAAAC
1 AAAAAAAAC
11913659 AAAAAAAA-
1 AAAAAAAAC
*
11913667 AACAAAAAC
1 AAAAAAAAC
*
11913676 AAAAAAAAAG
1 -AAAAAAAAC
11913686 AACAAAAAAC
1 AA-AAAAAAC
*
11913696 ACAAAAAAC
1 AAAAAAAAC
11913705 ACAAAAAAAC
1 A-AAAAAAAC
11913715 AAAAAAAA
1 AAAAAAAA
11913723 TGACAATGTT
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
8 23 0.33
9 24 0.35
10 22 0.32
ACGTcount: A:0.87, C:0.12, G:0.01, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:11913657 original size:19 final size:19
Alignment explanation
Indices: 11913633--11913722 Score: 114
Period size: 19 Copynumber: 4.8 Consensus size: 19
11913623 GAGCTTTGGT
*
11913633 AAAAAAA-AACAAAAAAAC
1 AAAAAAACAAAAAAAAAAC
11913651 AAAAAAACAAAAAAAAAAC
1 AAAAAAACAAAAAAAAAAC
*
11913670 AAAAACAA-AAAAAAAGAAC
1 AAAAA-AACAAAAAAAAAAC
* *
11913689 -AAAAAACACAAAAAACAC
1 AAAAAAACAAAAAAAAAAC
11913707 AAAAAAACAAAAAAAA
1 AAAAAAACAAAAAAAA
11913723 TGACAATGTT
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
17 2 0.03
18 19 0.31
19 39 0.63
20 2 0.03
ACGTcount: A:0.87, C:0.12, G:0.01, T:0.00
Consensus pattern (19 bp):
AAAAAAACAAAAAAAAAAC
Done.