Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 35 of 163
Found at i:11492479 original size:46 final size:46
Alignment explanation
Indices: 11492426--11492516 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
11492416 TAGGGCTTAA
* * *
11492426 TATTCATGTATTCTCGAGTCTGCAACATATGCAGGAGCTCGGAACC
1 TATTCATGTATTCTAGAGTCCGCAACATATGCAAGAGCTCGGAACC
* *
11492472 TATTCATGTATTCTAGAGTCCGCTACATATGCAAGAGCTTGGAAC
1 TATTCATGTATTCTAGAGTCCGCAACATATGCAAGAGCTCGGAAC
11492517 TTGGGCAAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (46 bp):
TATTCATGTATTCTAGAGTCCGCAACATATGCAAGAGCTCGGAACC
Found at i:11495122 original size:24 final size:25
Alignment explanation
Indices: 11495091--11495144 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
11495081 TAAAAACTAA
*
11495091 AAATAATTAAAT-TATATGATA-TTT
1 AAATAATTAAATGTA-ATGATACATT
*
11495115 AAATAATTTAATGTAATGATACATT
1 AAATAATTAAATGTAATGATACATT
11495140 AAATA
1 AAATA
11495145 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.41
Consensus pattern (25 bp):
AAATAATTAAATGTAATGATACATT
Found at i:11495889 original size:30 final size:30
Alignment explanation
Indices: 11495833--11495921 Score: 96
Period size: 30 Copynumber: 3.1 Consensus size: 30
11495823 TAAATTTATT
** *
11495833 AAATTTAATTAGTAAATTAT-TTTAATTTA
1 AAATTTAACAAGTAATTTATATTTAATTTA
*
11495862 AAATTTCACAAGTAATTTATATTTAATTTA
1 AAATTTAACAAGTAATTTATATTTAATTTA
* *
11495892 AGATTTAACAAATAATTTA-A-TT-ATTTA
1 AAATTTAACAAGTAATTTATATTTAATTTA
11495919 AAA
1 AAA
11495922 GTTATTTAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
27 7 0.14
28 2 0.04
29 17 0.33
30 25 0.49
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (30 bp):
AAATTTAACAAGTAATTTATATTTAATTTA
Found at i:11495953 original size:18 final size:18
Alignment explanation
Indices: 11495906--11495954 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
11495896 TTAACAAATA
*
11495906 ATTTAATTATTTAAAAGTT
1 ATTTAATT-TTTAAAAGAT
11495925 ATTTAAATTTTTAAATA-AT
1 ATTT-AATTTTTAAA-AGAT
11495944 ATTTAATTTTT
1 ATTTAATTTTT
11495955 TATTTTTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 7 0.26
19 15 0.56
20 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
ATTTAATTTTTAAAAGAT
Found at i:11497011 original size:12 final size:13
Alignment explanation
Indices: 11496990--11497018 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
11496980 GATTTACAGC
11496990 TTTTATTTTTTAT
1 TTTTATTTTTTAT
11497003 TTTTA-TTTTTAT
1 TTTTATTTTTTAT
11497015 TTTT
1 TTTT
11497019 TACAAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:11498128 original size:98 final size:98
Alignment explanation
Indices: 11498013--11498207 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
11498003 AAAAATCATG
*
11498013 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
11498078 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* *
11498111 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
11498176 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
11498208 TTTATTGTAT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:11500381 original size:2 final size:2
Alignment explanation
Indices: 11500374--11500402 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
11500364 GTGAGGGGAA
11500374 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11500403 TAAATAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:11507524 original size:3 final size:3
Alignment explanation
Indices: 11507504--11507573 Score: 95
Period size: 3 Copynumber: 23.3 Consensus size: 3
11507494 TATACATTTC
* * *
11507504 ATT ATT ATC ATC ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
11507552 ATT ATT ATT ATC ATC ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT A
11507574 GTGTTTAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:11509551 original size:16 final size:16
Alignment explanation
Indices: 11509524--11509563 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
11509514 GAGAATTCTA
11509524 ATATGATATATATGTGT
1 ATATG-TATATATGTGT
11509541 ATATGTATATATGTGT
1 ATATGTATATATGTGT
11509557 ATGATGT
1 AT-ATGT
11509564 TGATCTGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (16 bp):
ATATGTATATATGTGT
Found at i:11510737 original size:63 final size:63
Alignment explanation
Indices: 11510670--11510860 Score: 382
Period size: 63 Copynumber: 3.0 Consensus size: 63
11510660 ATGAGCGCTT
11510670 TATTTACCTATAGTTAGTGTAAAAACAACAATGGCAGTGAGATTACATATTGTAGCGATACTG
1 TATTTACCTATAGTTAGTGTAAAAACAACAATGGCAGTGAGATTACATATTGTAGCGATACTG
11510733 TATTTACCTATAGTTAGTGTAAAAACAACAATGGCAGTGAGATTACATATTGTAGCGATACTG
1 TATTTACCTATAGTTAGTGTAAAAACAACAATGGCAGTGAGATTACATATTGTAGCGATACTG
11510796 TATTTACCTATAGTTAGTGTAAAAACAACAATGGCAGTGAGATTACATATTGTAGCGATACTG
1 TATTTACCTATAGTTAGTGTAAAAACAACAATGGCAGTGAGATTACATATTGTAGCGATACTG
11510859 TA
1 TA
11510861 GCGTGAGACA
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 128 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (63 bp):
TATTTACCTATAGTTAGTGTAAAAACAACAATGGCAGTGAGATTACATATTGTAGCGATACTG
Found at i:11513302 original size:28 final size:28
Alignment explanation
Indices: 11513226--11513309 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
11513216 AGCTATATGT
*
11513226 CCCCTATTTTTTAGATTTTACAGTTTTG
1 CCCCTATTTTTTAGATTTTATAGTTTTG
11513254 CCCCTATTTTTTAGATTTTATAGTTTTG
1 CCCCTATTTTTTAGATTTTATAGTTTTG
* * *
11513282 CCCTTATTTTTTATATTTTATAATTTTG
1 CCCCTATTTTTTAGATTTTATAGTTTTG
11513310 TCCAAAATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.19, C:0.14, G:0.08, T:0.58
Consensus pattern (28 bp):
CCCCTATTTTTTAGATTTTATAGTTTTG
Found at i:11513320 original size:28 final size:28
Alignment explanation
Indices: 11513233--11513320 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 28
11513223 TGTCCCCTAT
* * ** *
11513233 TTTTTAGATTTTACAGTTTTGCCCCTAT
1 TTTTTAGATTTTATAATTTTGCCCAAAA
* ** *
11513261 TTTTTAGATTTTATAGTTTTGCCCTTAT
1 TTTTTAGATTTTATAATTTTGCCCAAAA
* *
11513289 TTTTTATATTTTATAATTTTGTCCAAAA
1 TTTTTAGATTTTATAATTTTGCCCAAAA
11513317 TTTT
1 TTTT
11513321 ATGTTTTGTT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.22, C:0.11, G:0.08, T:0.59
Consensus pattern (28 bp):
TTTTTAGATTTTATAATTTTGCCCAAAA
Found at i:11515452 original size:67 final size:68
Alignment explanation
Indices: 11515372--11515596 Score: 198
Period size: 67 Copynumber: 3.2 Consensus size: 68
11515362 AAAAATCGTA
11515372 AAAAAAT-TATAAAATTAATAAAAACTTATTTAAAATTAAAGAACGGATTAGAATTCTTAAAACT
1 AAAAAATATATAAAATTAATAAAAACTTATTTAAAATTAAAGAACGGATTAGAATTCTTAAAACT
11515436 AAT
66 AAT
** * * * *
11515439 AAAAAATAT-TAAAAAAAATATAAACTTA-TGAAAAGTATAAA-ATC--ATTCATAAATAT-TGT
1 AAAAAATATATAAAATTAATAAAAACTTATTTAAAA-T-TAAAGAACGGATT-A-GAAT-TCT-T
11515498 AAAACTATAAAAATCGT
60 AAAAC--T---AA---T
11515515 AAAAAA-ATTATAAAATTAATAAAAACTTATTTAAAATTAAAGAACGGATTAGAATTCTTAAAAC
1 AAAAAATA-TATAAAATTAATAAAAACTTATTTAAAATTAAAGAACGGATTAGAATTCTTAAAAC
11515579 TAAT
65 TAAT
11515583 AAAAAATAT-TAAAA
1 AAAAAATATATAAAA
11515597 AAATATTAAA
Statistics
Matches: 123, Mismatches: 12, Indels: 46
0.68 0.07 0.25
Matches are distributed among these distances:
65 3 0.02
66 6 0.05
67 35 0.28
68 20 0.16
69 1 0.01
70 1 0.01
71 2 0.02
73 2 0.02
74 1 0.01
75 1 0.01
76 19 0.15
77 23 0.19
78 6 0.05
79 3 0.02
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.30
Consensus pattern (68 bp):
AAAAAATATATAAAATTAATAAAAACTTATTTAAAATTAAAGAACGGATTAGAATTCTTAAAACT
AAT
Found at i:11515503 original size:144 final size:144
Alignment explanation
Indices: 11515312--11515599 Score: 549
Period size: 144 Copynumber: 2.0 Consensus size: 144
11515302 GTTAAAATTG
*
11515312 ATATAAACTTATGAAAATTATAAAAGAATTCATAAATATTGTAAAACTATAAAAATCGTAAAAAA
1 ATATAAACTTATGAAAAGTATAAAAGAATTCATAAATATTGTAAAACTATAAAAATCGTAAAAAA
11515377 ATTATAAAATTAATAAAAACTTATTTAAAATTAAAGAACGGATTAGAATTCTTAAAACTAATAAA
66 ATTATAAAATTAATAAAAACTTATTTAAAATTAAAGAACGGATTAGAATTCTTAAAACTAATAAA
11515442 AAATATTAAAAAAA
131 AAATATTAAAAAAA
**
11515456 ATATAAACTTATGAAAAGTATAAAATCATTCATAAATATTGTAAAACTATAAAAATCGTAAAAAA
1 ATATAAACTTATGAAAAGTATAAAAGAATTCATAAATATTGTAAAACTATAAAAATCGTAAAAAA
11515521 ATTATAAAATTAATAAAAACTTATTTAAAATTAAAGAACGGATTAGAATTCTTAAAACTAATAAA
66 ATTATAAAATTAATAAAAACTTATTTAAAATTAAAGAACGGATTAGAATTCTTAAAACTAATAAA
11515586 AAATATTAAAAAAA
131 AAATATTAAAAAAA
11515600 TATTAAAAAC
Statistics
Matches: 141, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
144 141 1.00
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.30
Consensus pattern (144 bp):
ATATAAACTTATGAAAAGTATAAAAGAATTCATAAATATTGTAAAACTATAAAAATCGTAAAAAA
ATTATAAAATTAATAAAAACTTATTTAAAATTAAAGAACGGATTAGAATTCTTAAAACTAATAAA
AAATATTAAAAAAA
Found at i:11515615 original size:13 final size:11
Alignment explanation
Indices: 11515583--11515608 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11515573 TAAAACTAAT
11515583 AAAAAATATTA
1 AAAAAATATTA
11515594 AAAAAATATTA
1 AAAAAATATTA
11515605 AAAA
1 AAAA
11515609 CAGATATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAAATATTA
Found at i:11517384 original size:23 final size:23
Alignment explanation
Indices: 11517354--11517397 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11517344 TCCTCTTTTC
11517354 TTTTTGTTCATTCTTCCTTCTCT
1 TTTTTGTTCATTCTTCCTTCTCT
* *
11517377 TTTTTGTTCATTTTTCTTTCT
1 TTTTTGTTCATTCTTCCTTCT
11517398 ATCATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.05, C:0.20, G:0.05, T:0.70
Consensus pattern (23 bp):
TTTTTGTTCATTCTTCCTTCTCT
Found at i:11518014 original size:61 final size:62
Alignment explanation
Indices: 11517942--11518080 Score: 147
Period size: 62 Copynumber: 2.2 Consensus size: 62
11517932 CATGTGGGTC
* * * * * * *
11517942 ACACGACCGTGTGTCAAGCCATGTTACTCATTGTTTT-GAAGTTAGAGTCA-ATGGGCCAGGG
1 ACACGAGCGTGTGTCAAGCCATGTAACTCACTATTTTAG-AGTTAAAGTCACAAGGGCCAGAG
* * * *
11518003 ACACGGGCGTGTGTCCAGGCCGTGTAACTCACTATTTTAGATTTAAAGTCACAAGGGCCAGAG
1 ACACGAGCGTGTGT-CAAGCCATGTAACTCACTATTTTAGAGTTAAAGTCACAAGGGCCAGAG
11518066 ACACGAGCGTGTGTC
1 ACACGAGCGTGTGTC
11518081 CAGGCCGTGT
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
61 12 0.19
62 28 0.44
63 23 0.37
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (62 bp):
ACACGAGCGTGTGTCAAGCCATGTAACTCACTATTTTAGAGTTAAAGTCACAAGGGCCAGAG
Found at i:11525685 original size:127 final size:127
Alignment explanation
Indices: 11525455--11525811 Score: 413
Period size: 127 Copynumber: 2.8 Consensus size: 127
11525445 TTGTAAATGT
* * *
11525455 TGGTATATACCAAAATAT-TTGAGGATGTGCTA-TTAGATAA--TTAGCATTTTGTTAAAAATAT
1 TGGTATATACCAAAATATCTT-AGGATATG-TACTTAGA-AATTTTAGAATTTCGTTAAAAATAT
* * * * * *
11525516 TGGTATAGGCTTGTA-AATC-TGGATTTTGGTATGCCAAAAATTTCTAACGAGGTTTCTTAAAAA
63 TGGTAAAGGCTTGGATAA-CAT-GATTTTGGTATACC-AAAATTTCTAACGAGATTCCATAAAAA
*
11525579 TTG
125 TTA
* * *
11525582 TGGTATATACCAAAATATCTTAGGATATGTACTTAGAAATTTTGGAATTTCATTATAAATATTGG
1 TGGTATATACCAAAATATCTTAGGATATGTACTTAGAAATTTTAGAATTTCGTTAAAAATATTGG
*
11525647 TAAAGGCTTGGATAACATGATTTTGGTATACCAAAATTTTTAACGAGATTCCATAAAAATTA
66 TAAAGGCTTGGATAACATGATTTTGGTATACCAAAATTTCTAACGAGATTCCATAAAAATTA
* * * * *
11525709 TGGTATATACCAAAATATCTTAAGATATGCACTTA-AAATTTTTAGTATTTCGTTAGAAATCTTG
1 TGGTATATACCAAAATATCTTAGGATATGTACTTAGAAA-TTTTAGAATTTCGTTAAAAATATTG
* *
11525773 GTAAAGTCTTGGATAACATGATTTTGGTATACTAAAATT
65 GTAAAGGCTTGGATAACATGATTTTGGTATACCAAAATT
11525812 GGTTATAAAA
Statistics
Matches: 200, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
126 7 0.04
127 145 0.73
128 45 0.22
129 3 0.01
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (127 bp):
TGGTATATACCAAAATATCTTAGGATATGTACTTAGAAATTTTAGAATTTCGTTAAAAATATTGG
TAAAGGCTTGGATAACATGATTTTGGTATACCAAAATTTCTAACGAGATTCCATAAAAATTA
Found at i:11533537 original size:23 final size:23
Alignment explanation
Indices: 11533507--11533555 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
11533497 GAAATGTGTT
11533507 TATTTTTCTGTTTTATGGTAGAA
1 TATTTTTCTGTTTTATGGTAGAA
11533530 TATTTTTCTGTTTTATGGTAGAA
1 TATTTTTCTGTTTTATGGTAGAA
11533553 TAT
1 TAT
11533556 GAAGCTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.22, C:0.04, G:0.16, T:0.57
Consensus pattern (23 bp):
TATTTTTCTGTTTTATGGTAGAA
Found at i:11534181 original size:33 final size:33
Alignment explanation
Indices: 11534139--11534266 Score: 121
Period size: 33 Copynumber: 3.6 Consensus size: 33
11534129 TCCTCCAAAG
11534139 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
* * *
11534172 GGTTGCTAAGTGCTGATCCCACCGTATCTTAATTGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CC-TA--TTCA-T-TG---GT
* * *
11534214 GGTTGCTAAGTGCTAATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
11534247 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
11534267 ATCGTATCTT
Statistics
Matches: 76, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
33 39 0.51
34 2 0.03
35 2 0.03
36 2 0.03
37 4 0.05
38 3 0.04
39 2 0.03
40 1 0.01
41 2 0.03
42 19 0.25
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
Found at i:11534227 original size:75 final size:75
Alignment explanation
Indices: 11534138--11534310 Score: 274
Period size: 75 Copynumber: 2.3 Consensus size: 75
11534128 TTCCTCCAAA
* *
11534138 GGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTA
1 GGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTA
*
11534203 ATTGTGAAAG
66 AATGTGAAAG
* * *
11534213 GGGTTGCTAAGTGCTAATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCATCGTATCTTA
1 GGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTA
*
11534278 AATGTGAAGG
66 AATGTGAAAG
*
11534288 GGGTTGCTAAGTGATGATTCCCC
1 GGGTTGCTAAGTGCTGATTCCCC
11534311 CGATGGGTTG
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 89 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.34
Consensus pattern (75 bp):
GGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTA
AATGTGAAAG
Found at i:11534319 original size:102 final size:102
Alignment explanation
Indices: 11534213--11534412 Score: 319
Period size: 102 Copynumber: 2.0 Consensus size: 102
11534203 ATTGTGAAAG
* * * *
11534213 GGGTTGCTAAGTGCTAATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCATCGTATCTTA
1 GGGTTGCTAAGTGCTAATTCCCCGAATCATTGGTGGTTGCTAAGTGCTAATCCCACCGTATCTTA
*
11534278 AATGTGAAGGGGGTTGCTAAGTGATGATTCCCCCGAT
66 AATGTGAAAGGGGTTGCTAAGTGATGATTCCCCCGAT
* * *
11534315 GGGTTGCTAAGTGTTGATTCCCTGAATCATTGGTGGTTGCTAAGTGCTAATCCCACCGTATCTTA
1 GGGTTGCTAAGTGCTAATTCCCCGAATCATTGGTGGTTGCTAAGTGCTAATCCCACCGTATCTTA
*
11534380 AATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
66 AATGTGAAAGGGGTTGCTAAGTGATGATTCCCC
11534413 GAATCACTGG
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 89 1.00
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.33
Consensus pattern (102 bp):
GGGTTGCTAAGTGCTAATTCCCCGAATCATTGGTGGTTGCTAAGTGCTAATCCCACCGTATCTTA
AATGTGAAAGGGGTTGCTAAGTGATGATTCCCCCGAT
Found at i:11534403 original size:177 final size:177
Alignment explanation
Indices: 11534107--11534444 Score: 552
Period size: 177 Copynumber: 1.9 Consensus size: 177
11534097 ATTGAATATA
* * *
11534107 AAGGGGGTTGCTAAGTGTTGATTCCTCCAAAGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
1 AAGGGGGTTGCTAAGTGATGATTCCCCCAAAGGGTTGCTAAGTGCTGATTCCCCTAATCATTGGT
* *
11534172 GGTTGCTAAGTGCTGATCCCACCGTATCTTAATTGTGAAAGGGGTTGCTAAGTGCTAATTCCCCG
66 GGTTGCTAAGTGCTAATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTAATTCCCCG
* * *
11534237 ACTCATTGGTGGTTGCTAAGTGCTGATTCCATCGTATCTTAAATGTG
131 AATCACTGGTGGTTGCTAAGTGCTGAATCCATCGTATCTTAAATGTG
* * *
11534284 AAGGGGGTTGCTAAGTGATGATTCCCCCGATGGGTTGCTAAGTGTTGATT-CCCTGAATCATTGG
1 AAGGGGGTTGCTAAGTGATGATTCCCCCAAAGGGTTGCTAAGTGCTGATTCCCCT-AATCATTGG
*
11534348 TGGTTGCTAAGTGCTAATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
65 TGGTTGCTAAGTGCTAATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTAATTCCCC
11534413 GAATCACTGGTGGTTGCTAAGTGCTGAATCCA
130 GAATCACTGGTGGTTGCTAAGTGCTGAATCCA
11534445 CTGATAACAG
Statistics
Matches: 148, Mismatches: 12, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
176 4 0.03
177 144 0.97
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (177 bp):
AAGGGGGTTGCTAAGTGATGATTCCCCCAAAGGGTTGCTAAGTGCTGATTCCCCTAATCATTGGT
GGTTGCTAAGTGCTAATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTAATTCCCCG
AATCACTGGTGGTTGCTAAGTGCTGAATCCATCGTATCTTAAATGTG
Found at i:11541634 original size:9 final size:9
Alignment explanation
Indices: 11541620--11541656 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
11541610 TATAGTTTGA
11541620 TATTCGAAT
1 TATTCGAAT
11541629 TATTCGAAT
1 TATTCGAAT
*
11541638 TATTCGAGT
1 TATTCGAAT
*
11541647 TATTCAAAT
1 TATTCGAAT
11541656 T
1 T
11541657 CGAAAGCTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:11541919 original size:14 final size:15
Alignment explanation
Indices: 11541891--11541920 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11541881 CTTTCTATAA
11541891 AAAATAAAAATAAAC
1 AAAATAAAAATAAAC
11541906 AAAATAAAAA-AAAC
1 AAAATAAAAATAAAC
11541920 A
1 A
11541921 TTTAATTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAATAAAAATAAAC
Found at i:11542041 original size:19 final size:20
Alignment explanation
Indices: 11542019--11542069 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
11542009 TATTAATATG
11542019 AATTAATTTAAAAT-AT-AGA
1 AATTAATTTAAAATAATGA-A
**
11542038 AATTAAAAT-AAATAATGAA
1 AATTAATTTAAAATAATGAA
11542057 AATTAATTTAAAA
1 AATTAATTTAAAA
11542070 AAACAAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
18 4 0.16
19 17 0.68
20 4 0.16
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
AATTAATTTAAAATAATGAA
Found at i:11545863 original size:28 final size:27
Alignment explanation
Indices: 11545827--11545892 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 27
11545817 GTCACCAAAA
*
11545827 AAATAATTAAAATTTATTATTTTAA-ATTT
1 AAAT-ATTAAAATTT-TT-TTATAACATTT
*
11545856 AAATATTAATATTTTTTTATAACCATTT
1 AAATATTAAAATTTTTTTATAA-CATTT
11545884 AAATATTAA
1 AAATATTAA
11545893 TATTAATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 5 0.15
27 2 0.06
28 22 0.67
29 4 0.12
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (27 bp):
AAATATTAAAATTTTTTTATAACATTT
Found at i:11545868 original size:21 final size:20
Alignment explanation
Indices: 11545831--11545870 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
11545821 CCAAAAAAAT
*
11545831 AATTAAAATTTATTATTTTA
1 AATTAAAATTTAATATTTTA
*
11545851 AATTTAAATATTAATATTTT
1 AATTAAAAT-TTAATATTTT
11545871 TTTATAACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AATTAAAATTTAATATTTTA
Found at i:11547466 original size:27 final size:27
Alignment explanation
Indices: 11547436--11547554 Score: 220
Period size: 27 Copynumber: 4.4 Consensus size: 27
11547426 TGCCTAACTA
* *
11547436 ATGGGCGGCACCGATGGTACCATTCCC
1 ATGGGCGGCACCGATGGTGCCCTTCCC
11547463 ATGGGCGGCACCGATGGTGCCCTTCCC
1 ATGGGCGGCACCGATGGTGCCCTTCCC
11547490 ATGGGCGGCACCGATGGTGCCCTTCCC
1 ATGGGCGGCACCGATGGTGCCCTTCCC
11547517 ATGGGCGGCACCGATGGTGCCCTTCCC
1 ATGGGCGGCACCGATGGTGCCCTTCCC
11547544 ATGGGCGGCAC
1 ATGGGCGGCAC
11547555 TAGTCTTGTT
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.13, C:0.35, G:0.34, T:0.18
Consensus pattern (27 bp):
ATGGGCGGCACCGATGGTGCCCTTCCC
Found at i:11547641 original size:10 final size:10
Alignment explanation
Indices: 11547626--11547662 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
11547616 AGTTGCTGCG
11547626 GAAAAAGAGA
1 GAAAAAGAGA
11547636 GAAAAAGAGA
1 GAAAAAGAGA
*
11547646 GAAAGAGAAGA
1 GAAAAAG-AGA
11547657 GAAAAA
1 GAAAAA
11547663 AATGGTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAAGAGA
Found at i:11547957 original size:16 final size:17
Alignment explanation
Indices: 11547916--11547962 Score: 60
Period size: 16 Copynumber: 2.7 Consensus size: 17
11547906 AGTAAAAAAC
*
11547916 TAGTATTATTATTATGGT
1 TAGTATTATT-TTATAGT
11547934 TAGTTATTATTTT-TAGT
1 TAG-TATTATTTTATAGT
11547951 TAGTATTATTTT
1 TAGTATTATTTT
11547963 GAGTATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 9 0.33
17 6 0.22
18 5 0.19
19 7 0.26
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.62
Consensus pattern (17 bp):
TAGTATTATTTTATAGT
Found at i:11547988 original size:9 final size:9
Alignment explanation
Indices: 11547974--11547999 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
11547964 AGTATAAAAT
11547974 TATTATTAA
1 TATTATTAA
11547983 TATTATTAA
1 TATTATTAA
11547992 TATTATTA
1 TATTATTA
11548000 TGGTTTTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TATTATTAA
Found at i:11553754 original size:284 final size:287
Alignment explanation
Indices: 11553150--11553818 Score: 1139
Period size: 284 Copynumber: 2.3 Consensus size: 287
11553140 TGCATGTTGA
* * *
11553150 AAAAATAGTTAGTAAAACACTCTTACTTCAGTCATTTCTTCGTATTCTTTTCTCCGCATTTTATT
1 AAAAA-AGTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATT
*
11553215 ACTTAAAAAAATATCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTTTAAATTA
65 ACTTTAAAAAATATCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTTTAAATTA
*
11553280 ATTTAGTGTAAAAAAACGCTTATTCCTGCCGTTTGCTCGTATTATTTTCCCGAATTTTATTACTT
130 ATTTAGTGTAAAAAAACGCTTATTCCTGCCATTTGCTCGTATTATTTTCCCGAATTTTATTACTT
11553345 TCAATAAAAAAATATTATTATCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAA
195 TCAATAAAAAAATATTATTATCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAA
11553410 TATTTGTATTAATTATTTCTGAATTTTT
260 TATTTGTATTAATTATTTCTGAATTTTT
* * *
11553438 AAAAAAGTTAGTAAAACACTCTTACTTCGGCCATTTCTTCTTATTTTTTTCTCTGCGTTTTATTA
1 AAAAAAGTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
*
11553503 CTTTAAAAAATATCATAATTTCTAATTTTATTAATTTATTAATTTAGTGTG-TTTTTTAAATTAA
66 CTTTAAAAAATATCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTTTAAATTAA
*
11553567 TTTAGTGTAAAAAAATGCTTATTCCTGCCATTTGCTCGTATTATTTTCCCGAATTTTATTACTTT
131 TTTAGTGTAAAAAAACGCTTATTCCTGCCATTTGCTCGTATTATTTTCCCGAATTTTATTACTTT
*
11553632 CAATAAAAAAATTATT-TT-T-GTATTTTATTATTTTATATTATTTCGGTACATTTTGTTTGAAA
196 CAATAAAAAAA-TATTATTATCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAA
11553694 TATTTGTATTAATTATTTCTGAATTTTT
260 TATTTGTATTAATTATTTCTGAATTTTT
* * * * *
11553722 AAAAAATTTTGTAAAACACTCTTACCTCGGCCATTTCTTCGTATTTTTTTCTCCGTATTTTATTT
1 AAAAAAGTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
*
11553787 CTTTAAAAAATTTCATAATTTCTAATTTTATA
66 CTTTAAAAAATATCATAATTTCTAATTTTATA
11553819 TTTTTACTTT
Statistics
Matches: 359, Mismatches: 21, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
284 157 0.44
285 1 0.00
286 89 0.25
287 107 0.30
288 5 0.01
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.50
Consensus pattern (287 bp):
AAAAAAGTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
CTTTAAAAAATATCATAATTTCTAATTTTATAAATTTATTAATTTAGTGTGTTTTTTTAAATTAA
TTTAGTGTAAAAAAACGCTTATTCCTGCCATTTGCTCGTATTATTTTCCCGAATTTTATTACTTT
CAATAAAAAAATATTATTATCGTATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAAT
ATTTGTATTAATTATTTCTGAATTTTT
Found at i:11553778 original size:14 final size:15
Alignment explanation
Indices: 11553754--11553788 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
11553744 TACCTCGGCC
*
11553754 ATTTCTTCGTATTTT
1 ATTTCTCCGTATTTT
11553769 -TTTCTCCGTATTTT
1 ATTTCTCCGTATTTT
11553783 ATTTCT
1 ATTTCT
11553789 TTAAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.11, C:0.17, G:0.06, T:0.66
Consensus pattern (15 bp):
ATTTCTCCGTATTTT
Found at i:11554274 original size:14 final size:14
Alignment explanation
Indices: 11554255--11554293 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
11554245 TCTCCTTTCC
11554255 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
*
11554269 TTTTCTTTCTTTCT
1 TTTTCTTTCCTTCT
11554283 TTCTTCTTTCC
1 TT-TTCTTTCC
11554294 CTCTCATTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:11554277 original size:18 final size:19
Alignment explanation
Indices: 11554223--11554292 Score: 63
Period size: 18 Copynumber: 3.6 Consensus size: 19
11554213 CTCCCCTCTT
*
11554223 CTTCTTCTTT-TTTTTTTCC
1 CTTCTTCTTTCTTTCTTT-C
*
11554242 TCTTCTCCTTTCCTTTTCTTTC
1 -CTTCTTCTTT-C-TTTCTTTC
11554264 CTTCTT-TTTCTTTCTTTC
1 CTTCTTCTTTCTTTCTTTC
*
11554282 TTTCTTCTTTC
1 CTTCTTCTTTC
11554293 CCTCTCATTC
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
18 13 0.31
19 5 0.12
20 12 0.29
21 5 0.12
22 1 0.02
23 6 0.14
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
CTTCTTCTTTCTTTCTTTC
Found at i:11554431 original size:14 final size:14
Alignment explanation
Indices: 11554412--11554438 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11554402 CCTGCACCTT
11554412 TTTTTATTTTTTTA
1 TTTTTATTTTTTTA
11554426 TTTTTATTTTTTT
1 TTTTTATTTTTTT
11554439 GTATTATTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Found at i:11568528 original size:6 final size:6
Alignment explanation
Indices: 11568517--11568543 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
11568507 TAAAACATAG
11568517 TAATTA TAATTA TAATTA TAATTA TAA
1 TAATTA TAATTA TAATTA TAATTA TAA
11568544 AAAAGACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TAATTA
Found at i:11572250 original size:3 final size:3
Alignment explanation
Indices: 11572242--11572336 Score: 91
Period size: 3 Copynumber: 31.7 Consensus size: 3
11572232 TAAAACAATT
* *
11572242 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * ** * * *
11572290 TAA TGA TGA TGA TGA TGG TAT TAA TAA TAA TAA CAA TAA TAA AAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
11572337 TTAAAATTAA
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:11574093 original size:24 final size:26
Alignment explanation
Indices: 11574042--11574100 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
11574032 GCAATTTAAA
*
11574042 TTTTTTTCTTTTATGTTCTTTTAACT
1 TTTTTTTCTTTTATGTTCTATTAACT
* *
11574068 TTTTTTTCTTTT-TTTTC-ATTATCT
1 TTTTTTTCTTTTATGTTCTATTAACT
*
11574092 TTTGTTTCT
1 TTTTTTTCT
11574101 CCCTCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 13 0.45
25 4 0.14
26 12 0.41
ACGTcount: A:0.08, C:0.12, G:0.03, T:0.76
Consensus pattern (26 bp):
TTTTTTTCTTTTATGTTCTATTAACT
Found at i:11575294 original size:24 final size:26
Alignment explanation
Indices: 11575243--11575301 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
11575233 GCAATTTAAA
*
11575243 TTTTTTTCTTTTATGTTCTTTTAACT
1 TTTTTTTCTTTTATGTTCTATTAACT
* *
11575269 TTTTTTTCTTTT-TTTTC-ATTATCT
1 TTTTTTTCTTTTATGTTCTATTAACT
*
11575293 TTTGTTTCT
1 TTTTTTTCT
11575302 CCCTCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 13 0.45
25 4 0.14
26 12 0.41
ACGTcount: A:0.08, C:0.12, G:0.03, T:0.76
Consensus pattern (26 bp):
TTTTTTTCTTTTATGTTCTATTAACT
Found at i:11577505 original size:20 final size:18
Alignment explanation
Indices: 11577466--11577509 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
11577456 TTATACAAGG
*
11577466 TGTGTATCCTAACTCTTA
1 TGTGTATCCTAACCCTTA
11577484 TGTGTATCCTAACCCTTA
1 TGTGTATCCTAACCCTTA
*
11577502 TATGTATC
1 TGTGTATC
11577510 TTTTTTCCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (18 bp):
TGTGTATCCTAACCCTTA
Found at i:11577983 original size:59 final size:58
Alignment explanation
Indices: 11577886--11578065 Score: 281
Period size: 59 Copynumber: 3.1 Consensus size: 58
11577876 ATTGATTTAT
* *
11577886 TTTTGAATATTTTTGTACAAATTAATTTTAGATTGTTTCATTTAATAAAATAGAAGTTG
1 TTTTGAATATTTTTGTACAAATT-ATTTTATATTGTTTCATTTAATAAAATAGAAGTTC
*
11577945 TTGTT-AATATTTTTGTACAAATTATTTTAATATTGTTTCATTTAATAAAATAAAAGTTC
1 TT-TTGAATATTTTTGTACAAATTATTTT-ATATTGTTTCATTTAATAAAATAGAAGTTC
*
11578004 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAATTAGAAGTTC
1 TTTTGAATATTTTTGTACAAATTA-TTTTATATTGTTTCATTTAATAAAATAGAAGTTC
11578063 TTT
1 TTT
11578066 CGATGTGGAC
Statistics
Matches: 112, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
58 7 0.06
59 99 0.88
60 6 0.05
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.52
Consensus pattern (58 bp):
TTTTGAATATTTTTGTACAAATTATTTTATATTGTTTCATTTAATAAAATAGAAGTTC
Found at i:11578391 original size:38 final size:38
Alignment explanation
Indices: 11578335--11578414 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
11578325 CGACATAGCT
11578335 CATGGGATCCAAAAGAAGATTCTGACAAGCTTCAATTA
1 CATGGGATCCAAAAGAAGATTCTGACAAGCTTCAATTA
*
11578373 CATGGGATCCAAACGAAGATTCTGACAAGCTTCAATTA
1 CATGGGATCCAAAAGAAGATTCTGACAAGCTTCAATTA
11578411 CATG
1 CATG
11578415 AGCGCATGGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.24
Consensus pattern (38 bp):
CATGGGATCCAAAAGAAGATTCTGACAAGCTTCAATTA
Found at i:11579092 original size:16 final size:16
Alignment explanation
Indices: 11579071--11579107 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
11579061 CTCGTAGTAG
*
11579071 TTAGACAAAATGTACC
1 TTAGACAAAACGTACC
11579087 TTAGACAAAACGTACC
1 TTAGACAAAACGTACC
11579103 TTAGA
1 TTAGA
11579108 TAATACCGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (16 bp):
TTAGACAAAACGTACC
Found at i:11581579 original size:29 final size:28
Alignment explanation
Indices: 11581547--11581634 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 28
11581537 AAACAAAATC
*
11581547 CATCTCGTCAAAATAATTTTTTCAGAACA
1 CATCT-GTCAAAATTATTTTTTCAGAACA
* * *
11581576 CATCATGTTAAATTTATTTTTTCAGAACC
1 CATC-TGTCAAAATTATTTTTTCAGAACA
*
11581605 CATCTTGTCAAAATTATTTTTCCCAGAACA
1 CATC-TGTCAAAATTATTTTT-TCAGAACA
11581635 ATGCTTAGCA
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
29 41 0.85
30 7 0.15
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (28 bp):
CATCTGTCAAAATTATTTTTTCAGAACA
Found at i:11581633 original size:30 final size:29
Alignment explanation
Indices: 11581546--11581625 Score: 106
Period size: 29 Copynumber: 2.8 Consensus size: 29
11581536 AAAACAAAAT
* *
11581546 CCATCTCGTCAAAATAATTTTTTCAGAAC
1 CCATCTTGTCAAAATTATTTTTTCAGAAC
* * * *
11581575 ACATCATGTTAAATTTATTTTTTCAGAAC
1 CCATCTTGTCAAAATTATTTTTTCAGAAC
11581604 CCATCTTGTCAAAATTATTTTT
1 CCATCTTGTCAAAATTATTTTT
11581626 CCCAGAACAA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.42
Consensus pattern (29 bp):
CCATCTTGTCAAAATTATTTTTTCAGAAC
Found at i:11585899 original size:14 final size:15
Alignment explanation
Indices: 11585872--11585900 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11585862 TCCTAAAGAC
11585872 ATAAAATACTCTTAA
1 ATAAAATACTCTTAA
11585887 ATAAAAT-CTCTTAA
1 ATAAAATACTCTTAA
11585901 TACTTCTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAAAATACTCTTAA
Found at i:11597220 original size:39 final size:39
Alignment explanation
Indices: 11597177--11597335 Score: 192
Period size: 39 Copynumber: 4.1 Consensus size: 39
11597167 TAGAAATACT
* *
11597177 GTGATTATTTGGGCTAAGCGCCTAACAGGCTTTGTGCCG
1 GTGATTATTCGGGCTAAGTGCCTAACAGGCTTTGTGCCG
* * *
11597216 GTGATTATTCGGGTTAAGTGCCTAACAGGTTTTGTGCTG
1 GTGATTATTCGGGCTAAGTGCCTAACAGGCTTTGTGCCG
* *
11597255 GTGATTATTCGGGCTAAGTGCCTAGCAGGCTTTGTGCCA
1 GTGATTATTCGGGCTAAGTGCCTAACAGGCTTTGTGCCG
* * ** * * *
11597294 ATGATTATTTGGGCTTTGTGCCTAACATGCTGTGTGTCG
1 GTGATTATTCGGGCTAAGTGCCTAACAGGCTTTGTGCCG
11597333 GTG
1 GTG
11597336 TATTGGAAGT
Statistics
Matches: 100, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 100 1.00
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.35
Consensus pattern (39 bp):
GTGATTATTCGGGCTAAGTGCCTAACAGGCTTTGTGCCG
Found at i:11600490 original size:34 final size:35
Alignment explanation
Indices: 11600446--11600512 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
11600436 CAGTAAAATG
* *
11600446 TTTTCCGTAAAATAATTT-CTGGTAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
* *
11600480 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTT
11600513 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
Found at i:11600571 original size:32 final size:31
Alignment explanation
Indices: 11600493--11600577 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 31
11600483 TCTGTAAAAT
* *
11600493 GATTTACTGGAAAATATTTTCTGGTGTTTGGTA
1 GATTT-CT-GAAAATATTTTCTGCTGTTTGGCA
* * *
11600526 AATCTGTGTAAAATATTTTCTGCTGTTTGGCA
1 GATTTCTG-AAAATATTTTCTGCTGTTTGGCA
11600558 GATTTCCTGAAAATATTTTC
1 GATTT-CTGAAAATATTTTC
11600578 CAGAAAAGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
31 1 0.02
32 36 0.86
33 5 0.12
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.45
Consensus pattern (31 bp):
GATTTCTGAAAATATTTTCTGCTGTTTGGCA
Found at i:11600611 original size:10 final size:10
Alignment explanation
Indices: 11600608--11600640 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
11600598 ATATTAATAT
*
11600608 ATATTTATTA
1 ATATATATTA
11600618 ATATATATTA
1 ATATATATTA
11600628 ATATATATTA
1 ATATATATTA
11600638 ATA
1 ATA
11600641 AATTGTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
ATATATATTA
Found at i:11600618 original size:14 final size:14
Alignment explanation
Indices: 11600599--11600626 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11600589 TTTTCACATA
11600599 TATTAATATATATT
1 TATTAATATATATT
11600613 TATTAATATATATT
1 TATTAATATATATT
11600627 AATATATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTAATATATATT
Found at i:11603236 original size:25 final size:25
Alignment explanation
Indices: 11603197--11603248 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
11603187 AAAATGTCTG
11603197 CTGCTTAGAAGAGAATGGAAAATGT
1 CTGCTTAGAAGAGAATGGAAAATGT
11603222 CTGCTTAG-AGAAGAATGGAAAATGT
1 CTGCTTAGAAG-AGAATGGAAAATGT
11603247 CT
1 CT
11603249 TACCAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.25
Consensus pattern (25 bp):
CTGCTTAGAAGAGAATGGAAAATGT
Found at i:11607496 original size:9 final size:9
Alignment explanation
Indices: 11607482--11607532 Score: 75
Period size: 9 Copynumber: 5.4 Consensus size: 9
11607472 TATGTGATTC
11607482 AATTCGGGT
1 AATTCGGGT
11607491 AATTCGGGT
1 AATTCGGGT
11607500 AATTTTCGGGT
1 AA--TTCGGGT
*
11607511 AATTCGGTT
1 AATTCGGGT
11607520 AATTCGGGT
1 AATTCGGGT
11607529 AATT
1 AATT
11607533 TTTAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
9 29 0.76
11 9 0.24
ACGTcount: A:0.24, C:0.10, G:0.27, T:0.39
Consensus pattern (9 bp):
AATTCGGGT
Found at i:11607509 original size:20 final size:18
Alignment explanation
Indices: 11607482--11607532 Score: 75
Period size: 20 Copynumber: 2.7 Consensus size: 18
11607472 TATGTGATTC
11607482 AATTCGGGTAATTCGGGT
1 AATTCGGGTAATTCGGGT
*
11607500 AATTTTCGGGTAATTCGGTT
1 AA--TTCGGGTAATTCGGGT
11607520 AATTCGGGTAATT
1 AATTCGGGTAATT
11607533 TTTAACCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 13 0.43
20 17 0.57
ACGTcount: A:0.24, C:0.10, G:0.27, T:0.39
Consensus pattern (18 bp):
AATTCGGGTAATTCGGGT
Found at i:11608774 original size:16 final size:18
Alignment explanation
Indices: 11608748--11608780 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11608738 TTTAATTAAC
11608748 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
11608765 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
11608781 CCAAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:11609096 original size:51 final size:52
Alignment explanation
Indices: 11609007--11609109 Score: 154
Period size: 51 Copynumber: 2.0 Consensus size: 52
11608997 CTGTGGATAG
* ** *
11609007 TGATTTGTGTGATCTATTTTTTGTTACTTTATTGTTTTTATTTATTTCCATT
1 TGATTTGTGTGATATATTTTTTGTTACTTTATCATTTTTATTCATTTCCATT
*
11609059 TGATTTGTGTGATATA-TTTTTGTTACTTTATCATTTTTATTCATTTTCATT
1 TGATTTGTGTGATATATTTTTTGTTACTTTATCATTTTTATTCATTTCCATT
11609110 CATTGGCTCT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 31 0.67
52 15 0.33
ACGTcount: A:0.17, C:0.08, G:0.11, T:0.64
Consensus pattern (52 bp):
TGATTTGTGTGATATATTTTTTGTTACTTTATCATTTTTATTCATTTCCATT
Found at i:11610668 original size:15 final size:16
Alignment explanation
Indices: 11610648--11610677 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11610638 CCTATTTCTA
11610648 TTTCTTTT-TTGTCCG
1 TTTCTTTTCTTGTCCG
11610663 TTTCTTTTCTTGTCC
1 TTTCTTTTCTTGTCC
11610678 TATTTGGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.23, G:0.10, T:0.67
Consensus pattern (16 bp):
TTTCTTTTCTTGTCCG
Found at i:11621819 original size:3 final size:3
Alignment explanation
Indices: 11621807--11621848 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
11621797 TTACCCCAAC
*
11621807 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
11621849 TTTTGAAGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:11625601 original size:62 final size:56
Alignment explanation
Indices: 11625499--11625616 Score: 173
Period size: 62 Copynumber: 2.0 Consensus size: 56
11625489 AATACTGAAA
11625499 TACAAAAAAAAGAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAG
1 TACAAAAAAAAGAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAG
*
11625555 TACAAAAAAAAGGAAAAAAAATTTTTTTTTGGGGTGTTGGCCTGTCAATGGCCGGCACCCAG
1 TACAAAAAAAA-G-AAAAAAA---TTTTTT-GGGTGCTGGCCTGTCAATGGCCGGCACCCAG
11625617 CACAGTAAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
56 11 0.20
57 1 0.02
58 7 0.13
61 6 0.11
62 30 0.55
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (56 bp):
TACAAAAAAAAGAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAG
Found at i:11626047 original size:105 final size:104
Alignment explanation
Indices: 11625678--11626144 Score: 670
Period size: 104 Copynumber: 4.4 Consensus size: 104
11625668 GTGGTGCTGA
* * *
11625678 CCATTGTCAGGCCATCA--CAAAATTTTTTTTTTACTTTTTTCGTATACTGATACCTGATATTGA
1 CCATTGACAGGCCAGCACCCAAAATTTTTTTTTTACTTTTTTCGTATACTGATACCTGATACTGA
*
11625741 CACTAAAAAAAGTAAATTTTTTTTACTGTGCTGGGTGCCGG
66 CACGAAAAAAA-TAAA-TTTTTTTACTGTGCTGGGTGCCGG
* * * * *
11625782 CCATTGACAGGCCAGCACCAAAAAAATATTTTTATTACTTTTTTCGTATATTGATACTTGATACT
1 CCATTGACAGGCCAGCACC--CAAAATTTTTTTTTTACTTTTTTCGTATACTGATACCTGATACT
* * * *
11625847 GACATGAAAAAAGTAATTTTTTTTACTATGCTGGGTGCCGG
64 GACACGAAAAAAATAAATTTTTTTACTGTGCTGGGTGCCGG
* * *
11625888 CCATTGACAGGCTAGCACCTAAAA-TTTTTTTTTCCTTTTTTTCGTATACTGATACCTGATACTG
1 CCATTGACAGGCCAGCACCCAAAATTTTTTTTTTAC-TTTTTTCGTATACTGATACCTGATACTG
11625952 ACACGAAAAAAATAAATTTTTTTACTGTGCTGGGTGCCGG
65 ACACGAAAAAAATAAATTTTTTTACTGTGCTGGGTGCCGG
*
11625992 CTATTGACAGGCCAGCACCCAAAATTTTTTTTATTACTTTTTTCGTATACTGATACCTGATACTG
1 CCATTGACAGGCCAGCACCCAAAATTTTTTTT-TTACTTTTTTCGTATACTGATACCTGATACTG
11626057 ACACGAAAAAAATAAATTTTTTTACTGTGCTGGGTGCCGG
65 ACACGAAAAAAATAAATTTTTTTACTGTGCTGGGTGCCGG
* *
11626097 CTATTGACAGGCCAGCACCCAAAATTTTTTTTTTTCCTTTTTTTCGTA
1 CCATTGACAGGCCAGCACCCAAAA-TTTTTTTTTTAC-TTTTTTCGTA
11626145 CTGGGTGCCG
Statistics
Matches: 325, Mismatches: 29, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
103 8 0.02
104 102 0.31
105 102 0.31
106 62 0.19
107 3 0.01
108 48 0.15
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (104 bp):
CCATTGACAGGCCAGCACCCAAAATTTTTTTTTTACTTTTTTCGTATACTGATACCTGATACTGA
CACGAAAAAAATAAATTTTTTTACTGTGCTGGGTGCCGG
Found at i:11626090 original size:209 final size:213
Alignment explanation
Indices: 11625678--11626144 Score: 714
Period size: 209 Copynumber: 2.2 Consensus size: 213
11625668 GTGGTGCTGA
* * * *
11625678 CCATTGTCAGGCCATCA--CAAAATTTTTTTTTTAC-TTTTTTCGTATACTGATACCTGATATTG
1 CCATTGACAGGCCAGCACCCAAAATTTTTTTTTTCCTTTTTTTCGTATACTGATACCTGATACTG
*
11625740 ACACTAAAAAAAGTAAATTTTTTTTACTGTGCTGGGTGCCGGCCATTGACAGGCCAGCACCAAAA
66 ACACGAAAAAAAGTAAATTTTTTTTACTGTGCTGGGTGCCGGCCATTGACAGGCCAGCACCAAAA
* * * * *
11625805 AAATATTTTTATTACTTTTTTCGTATATTGATACTTGATACTGACATGAAAAAAGTAATTTTTTT
131 AAATATTTTTATTACTTTTTTCGTATACTGATACCTGATACTGACACGAAAAAAATAAATTTTTT
11625870 TACTATGCTGGGTGCCGG
196 TACTATGCTGGGTGCCGG
* *
11625888 CCATTGACAGGCTAGCACCTAAAA-TTTTTTTTTCCTTTTTTTCGTATACTGATACCTGATACTG
1 CCATTGACAGGCCAGCACCCAAAATTTTTTTTTTCCTTTTTTTCGTATACTGATACCTGATACTG
* *
11625952 ACACGAAAAAAA-TAAA-TTTTTTTACTGTGCTGGGTGCCGGCTATTGACAGGCCAGCACC-CAA
66 ACACGAAAAAAAGTAAATTTTTTTTACTGTGCTGGGTGCCGGCCATTGACAGGCCAGCACCAAAA
* *
11626014 AATTTTTTTTATTACTTTTTTCGTATACTGATACCTGATACTGACACGAAAAAAATAAATTTTTT
131 AAATATTTTTATTACTTTTTTCGTATACTGATACCTGATACTGACACGAAAAAAATAAATTTTTT
*
11626079 TACTGTGCTGGGTGCCGG
196 TACTATGCTGGGTGCCGG
*
11626097 CTATTGACAGGCCAGCACCCAAAATTTTTTTTTTTCCTTTTTTTCGTA
1 CCATTGACAGGCCAGCACCCAAAA-TTTTTTTTTTCCTTTTTTTCGTA
11626145 CTGGGTGCCG
Statistics
Matches: 232, Mismatches: 20, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
209 98 0.42
210 56 0.24
211 36 0.16
212 42 0.18
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (213 bp):
CCATTGACAGGCCAGCACCCAAAATTTTTTTTTTCCTTTTTTTCGTATACTGATACCTGATACTG
ACACGAAAAAAAGTAAATTTTTTTTACTGTGCTGGGTGCCGGCCATTGACAGGCCAGCACCAAAA
AAATATTTTTATTACTTTTTTCGTATACTGATACCTGATACTGACACGAAAAAAATAAATTTTTT
TACTATGCTGGGTGCCGG
Found at i:11626184 original size:105 final size:104
Alignment explanation
Indices: 11625695--11626147 Score: 527
Period size: 105 Copynumber: 4.3 Consensus size: 104
11625685 CAGGCCATCA
* * * * *
11625695 CAAAATTTTTTTT-TTACTTTTTTCGTATACTGATACCTGATATTGACACTAAAAAAAGTAAATT
1 CAAAATTTTTTTTATTACTTTTTTCG-ATACTGATACCGGACACTGACACGAAAAAAA-CAAA-T
*
11625759 TTTTTTACTGTGCTGGGTGCCGGCCATTGACAGGCCAGCACC
63 TTTTTTACTGTGCTGGGTGCCGGCTATTGACAGGCCAGCACC
* * * * ** * * ** *
11625801 AAAAAAATATTTTTATTACTTTTTTCGTATATTGATACTTGATACTGACATGAAAAAAGTAATTT
1 -CAAAATTTTTTTTATTACTTTTTTCG-ATACTGATACCGGACACTGACACGAAAAAAACAAATT
* * *
11625866 TTTTTACTATGCTGGGTGCCGGCCATTGACAGGCTAGCACC
64 TTTTTACTGTGCTGGGTGCCGGCTATTGACAGGCCAGCACC
* * * * *
11625907 TAAAA-TTTTTTT-TTCCTTTTTTTCGTATACTGATACCTGATACTGACACGAAAAAAATAAATT
1 CAAAATTTTTTTTATTAC-TTTTTTCG-ATACTGATACCGGACACTGACACGAAAAAAACAAATT
11625970 TTTTTACTGTGCTGGGTGCCGGCTATTGACAGGCCAGCACC
64 TTTTTACTGTGCTGGGTGCCGGCTATTGACAGGCCAGCACC
* * *
11626011 CAAAATTTTTTTTATTACTTTTTTCGTATACTGATACCTGATACTGACACGAAAAAAATAAATTT
1 CAAAATTTTTTTTATTACTTTTTTCG-ATACTGATACCGGACACTGACACGAAAAAAACAAATTT
11626076 TTTTACTGTGCTGGGTGCCGGCTATTGACAGGCCAGCACC
65 TTTTACTGTGCTGGGTGCCGGCTATTGACAGGCCAGCACC
* *
11626116 CAAAATTTTTTTTTTTCCTTTTTTTCG-TACTG
1 CAAAATTTTTTTTATTAC-TTTTTTCGATACTG
11626148 GGTGCCGGCC
Statistics
Matches: 314, Mismatches: 27, Indels: 13
0.89 0.08 0.04
Matches are distributed among these distances:
103 3 0.01
104 94 0.30
105 114 0.36
106 52 0.17
107 13 0.04
108 38 0.12
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (104 bp):
CAAAATTTTTTTTATTACTTTTTTCGATACTGATACCGGACACTGACACGAAAAAAACAAATTTT
TTTACTGTGCTGGGTGCCGGCTATTGACAGGCCAGCACC
Found at i:11626198 original size:59 final size:59
Alignment explanation
Indices: 11626086--11626197 Score: 183
Period size: 59 Copynumber: 1.9 Consensus size: 59
11626076 TTTTACTGTG
*
11626086 CTGGGTGCCGGCTATTGACAGGCCAGCACCCAAAATTTTTTTTTTTCCTTTTTTTCGTA
1 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTTCCTTTTTTTCGTA
* *
11626145 CTGGGTGCCGGCCATTGATAGGCCAGCACCC-AAA-TTTTTTTTTTCTTTTTTTT
1 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTTCCTTTTTTT
11626198 TGTATATTAG
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
57 18 0.36
58 3 0.06
59 29 0.58
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (59 bp):
CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTTCCTTTTTTTCGTA
Found at i:11627281 original size:19 final size:19
Alignment explanation
Indices: 11627207--11627278 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
11627197 AATCTTCAAA
*
11627207 GATATGCAATTTTAGATAT
1 GATATGCAATCTTAGATAT
*
11627226 GACATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
11627245 GATATATGCAATATTGGATAT
1 G--ATATGCAATCTTAGATAT
11627266 GATATGCAATCTT
1 GATATGCAATCTT
11627279 GGAAGATATG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 29 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:11631590 original size:25 final size:25
Alignment explanation
Indices: 11631562--11631610 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
11631552 CATTTATTTT
11631562 TGAGCCAA-TATTATTTCATTCTTTG
1 TGAG-CAATTATTATTTCATTCTTTG
* *
11631587 TGAGTAATTATTCTTTCATTCTTT
1 TGAGCAATTATTATTTCATTCTTT
11631611 TCGATTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.53
Consensus pattern (25 bp):
TGAGCAATTATTATTTCATTCTTTG
Found at i:11633923 original size:88 final size:88
Alignment explanation
Indices: 11633763--11634418 Score: 960
Period size: 88 Copynumber: 7.5 Consensus size: 88
11633753 GAAATCACAA
* * * * * * * *
11633763 AGCCTTGCCTTCCTGGTTTGCAGCGGAGCAGGTTGAAAATAACAGATCTTGCCCTCCTGTA-CTG
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATC-G
11633827 AC-GACGAAGCAGATCGAAGATACC
65 ACAG-CGAAGCAGATCGAAGATACC
*
11633851 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
*
11633916 CATCGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* * * *
11633939 AGCCTTGCCTCTCTGGGTTGTAGTGGAGCAGGTTGAAAATAGCAAATCTTGCCTTCTTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
11634004 CAGCGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* *
11634027 AGCCTTGCCTCTCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
* *
11634092 CAGCGTAGCTGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* *
11634115 AGCCTTGTCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTTCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
*
11634180 CAGTGAAGCAGATCGAA-ATACC
66 CAGCGAAGCAGATCGAAGATACC
* * * * ** *
11634202 AGCCTTGCCTCCCTAGGTTATAGTGGAGCAGGTTGAAGATAACAGATCTTGTCTTCCTATATTGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
11634267 CAGCGAAGCAGATCGAAGATACC
66 CAGCGAAGCAGATCGAAGATACC
* * *
11634290 AGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGTCTTCCTGTA-CTG
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATC-G
* *
11634354 ACAGTGAAGCAGATCGAAAATACC
65 ACAGCGAAGCAGATCGAAGATACC
11634378 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATA
11634419 ACTGGTGGCG
Statistics
Matches: 516, Mismatches: 48, Indels: 8
0.90 0.08 0.01
Matches are distributed among these distances:
87 77 0.15
88 438 0.85
89 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (88 bp):
AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
CAGCGAAGCAGATCGAAGATACC
Found at i:11634407 original size:351 final size:352
Alignment explanation
Indices: 11633763--11634418 Score: 987
Period size: 351 Copynumber: 1.9 Consensus size: 352
11633753 GAAATCACAA
* * *
11633763 AGCCTTGCCTTCCTGGTTTGCAGCGGAGCAGGTTGAAAATAACAGATCTTGCCCTCCTGTACTGA
1 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAACAGATCTTGCCCTCCTGCACTGA
* * *
11633828 CGACGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTAAAGATAG
66 CGACGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTATAGTGGAGCAGGTTAAAGATAA
* * * *
11633893 CAGATCTTGCCTTCCTGCATCGACATCGAAGCAGATCGAAGATACCAGCCTTGCCTCTCTGGGTT
131 CAGATCTTGCCTTCCTACATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTC
* *
11633958 GTAGTGGAGCAGGTTGAAAATAGCAAATCTTGCCTTCTTGCATCGACAGCGAAGCAGATCGAAGA
196 GTAGTGGAGCAGGTTGAAAATAGCAAATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAAA
*
11634023 TACCAGCCTTGCCTCTCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACA
261 TACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACA
11634088 TCGACAGCGTAGCTGATCGAAGATACC
326 TCGACAGCGTAGCTGATCGAAGATACC
* * * * * * *
11634115 AGCCTTGTCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTTCTGCA-TCG
1 AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAACAGATCTTGCCCTCCTGCACT-G
* *
11634179 AC-AGTGAAGCAGATCGAA-ATACCAGCCTTGCCTCCCTAGGTTATAGTGGAGCAGGTTGAAGAT
65 ACGA-CGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTATAGTGGAGCAGGTTAAAGAT
* * *
11634242 AACAGATCTTGTCTTCCTATATTGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGG
129 AACAGATCTTGCCTTCCTACATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGG
* * * * *
11634307 TCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGTCTTCCTGTA-CTGACAGTGAAGCAGATCGA
194 TCGTAGTGGAGCAGGTTGAAAATAGCAAATCTTGCCTTCCTGCATC-GACAGCGAAGCAGATCGA
11634371 AAATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATA
258 AAATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATA
11634419 ACTGGTGGCG
Statistics
Matches: 271, Mismatches: 30, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
350 1 0.00
351 203 0.75
352 67 0.25
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (352 bp):
AGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAACAGATCTTGCCCTCCTGCACTGA
CGACGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTATAGTGGAGCAGGTTAAAGATAA
CAGATCTTGCCTTCCTACATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTC
GTAGTGGAGCAGGTTGAAAATAGCAAATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAAA
TACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACA
TCGACAGCGTAGCTGATCGAAGATACC
Found at i:11634503 original size:44 final size:44
Alignment explanation
Indices: 11634445--11634901 Score: 666
Period size: 44 Copynumber: 10.4 Consensus size: 44
11634435 ATCGAAGGAA
*
11634445 ATAGCAGATTTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAG
1 ATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAG
*
11634489 ATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAT
1 ATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAG
*
11634533 ATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAT
1 ATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAG
*
11634577 ATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAT
1 ATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAG
*
11634621 ATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAT
1 ATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAG
11634665 ATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAG
1 ATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAG
*
11634709 ATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAG
** *** * * *
11634753 ATAATAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAG
* * * *
11634798 AAAGTAGATCTTGTCTTCATATATTGGC--GAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAG
* * * * * *
11634840 AAAACAGATCTTGTCTTCATTTATCGGCATGAAATAGATCAAAG
1 ATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAG
*
11634884 GTAGCAGATCTTGTCTTC
1 ATAGCAGATCTTGTCTTC
11634902 CCATTCTGGT
Statistics
Matches: 384, Mismatches: 26, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
42 38 0.10
44 308 0.80
45 38 0.10
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (44 bp):
ATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAG
Found at i:11635320 original size:19 final size:19
Alignment explanation
Indices: 11635274--11635329 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
11635264 AATCTTCAAG
*
11635274 GATATGCAATCTTAGATAT
1 GATATGCAATCTTGGATAT
11635293 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTGGATAT
11635314 GATATGCAATCTTGGA
1 GATATGCAATCTTGGA
11635330 ATATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 16 0.47
21 18 0.53
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTGGATAT
Found at i:11644298 original size:22 final size:23
Alignment explanation
Indices: 11644267--11644318 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
11644257 GAACATAATC
*
11644267 AAGATAGAAAAAAGA-TT-ATGG
1 AAGATGGAAAAAAGATTTGATGG
11644288 AGAGATGG-AAAAAGATTTGATGG
1 A-AGATGGAAAAAAGATTTGATGG
11644311 AAGATGGA
1 AAGATGGA
11644319 GAAAGGCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 8 0.31
22 13 0.50
23 5 0.19
ACGTcount: A:0.50, C:0.00, G:0.31, T:0.19
Consensus pattern (23 bp):
AAGATGGAAAAAAGATTTGATGG
Found at i:11644301 original size:21 final size:22
Alignment explanation
Indices: 11644275--11644323 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
11644265 TCAAGATAGA
11644275 AAAAAGA-TT-ATGGAGAGATGG
1 AAAAAGATTTGATGGA-AGATGG
11644296 AAAAAGATTTGATGGAAGATGG
1 AAAAAGATTTGATGGAAGATGG
*
11644318 AGAAAG
1 AAAAAG
11644324 GCAATGTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 7 0.28
22 13 0.52
23 5 0.20
ACGTcount: A:0.49, C:0.00, G:0.33, T:0.18
Consensus pattern (22 bp):
AAAAAGATTTGATGGAAGATGG
Found at i:11645358 original size:30 final size:27
Alignment explanation
Indices: 11645318--11645385 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 27
11645308 CTTCTCTTTT
*
11645318 ATTTTATTTTATTCTTATTTTTAGAATAGA
1 ATTTTATTTTATTC-T-CTTTTAGAATA-A
*
11645348 ATTTTCTTTTATTCTCTTTTAGAATAA
1 ATTTTATTTTATTCTCTTTTAGAATAA
11645375 ATTTTTATTTT
1 A-TTTTATTTT
11645386 TTTCATTTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 2 0.06
28 18 0.53
29 1 0.03
30 13 0.38
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.63
Consensus pattern (27 bp):
ATTTTATTTTATTCTCTTTTAGAATAA
Found at i:11646939 original size:9 final size:9
Alignment explanation
Indices: 11646915--11646951 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
11646905 TGAGTTTTCA
*
11646915 AATTCAAAT
1 AATTCGAAT
*
11646924 AACTCGAAT
1 AATTCGAAT
11646933 AATTCGAAT
1 AATTCGAAT
11646942 AATTCGAAT
1 AATTCGAAT
11646951 A
1 A
11646952 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:11647342 original size:17 final size:17
Alignment explanation
Indices: 11647303--11647348 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
11647293 ACTCCCCCTA
11647303 TTTACTTTCCCTC-AAACT
1 TTTA-TTTCCC-CAAAACT
11647321 TTTA-TTCCCCAAAACTT
1 TTTATTTCCCCAAAAC-T
11647338 TTTATTTCCCC
1 TTTATTTCCCC
11647349 CCTAAACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.04
16 9 0.36
17 5 0.20
18 10 0.40
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTATTTCCCCAAAACT
Found at i:11654847 original size:29 final size:31
Alignment explanation
Indices: 11654815--11654876 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 31
11654805 TTGATTTAAT
* *
11654815 GTGCAATTTGATACACG-AGCTTTAATT-TG
1 GTGCAATTTGACACACGAAACTTTAATTGTG
*
11654844 GTGCAATTTTACACACGAAACTTTAATTGTG
1 GTGCAATTTGACACACGAAACTTTAATTGTG
11654875 GT
1 GT
11654877 TCAAATGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 15 0.54
30 9 0.32
31 4 0.14
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (31 bp):
GTGCAATTTGACACACGAAACTTTAATTGTG
Found at i:11655196 original size:356 final size:356
Alignment explanation
Indices: 11654543--11655254 Score: 1424
Period size: 356 Copynumber: 2.0 Consensus size: 356
11654533 CTCCACTCAC
11654543 TCTCGAAACCATTACTTTCTGCTTTTTTTTTCTTATAGTTTTTATTTTTAAACTATAATTAATAT
1 TCTCGAAACCATTACTTTCTGCTTTTTTTTTCTTATAGTTTTTATTTTTAAACTATAATTAATAT
11654608 TACCCTGAAAAATTGTCTATTAAATTAAACTATAAAACTATTTCTTTGAATCAATGTTGAAAACC
66 TACCCTGAAAAATTGTCTATTAAATTAAACTATAAAACTATTTCTTTGAATCAATGTTGAAAACC
11654673 CTAGATTTAGAATTTAAAAAATCCTACAATTTCATATTTATTTGTTTAGCTTTTTCCGTGTGTAG
131 CTAGATTTAGAATTTAAAAAATCCTACAATTTCATATTTATTTGTTTAGCTTTTTCCGTGTGTAG
11654738 CATTGAACATGAGTGCAAAATTTTTAATGTTAAAAATTAGGAAAAATCTCAAAATTATATATGAA
196 CATTGAACATGAGTGCAAAATTTTTAATGTTAAAAATTAGGAAAAATCTCAAAATTATATATGAA
11654803 TTTTGATTTAATGTGCAATTTGATACACGAGCTTTAATTTGGTGCAATTTTACACACGAAACTTT
261 TTTTGATTTAATGTGCAATTTGATACACGAGCTTTAATTTGGTGCAATTTTACACACGAAACTTT
11654868 AATTGTGGTTCAAATGTATACATAAAACTTT
326 AATTGTGGTTCAAATGTATACATAAAACTTT
11654899 TCTCGAAACCATTACTTTCTGCTTTTTTTTTCTTATAGTTTTTATTTTTAAACTATAATTAATAT
1 TCTCGAAACCATTACTTTCTGCTTTTTTTTTCTTATAGTTTTTATTTTTAAACTATAATTAATAT
11654964 TACCCTGAAAAATTGTCTATTAAATTAAACTATAAAACTATTTCTTTGAATCAATGTTGAAAACC
66 TACCCTGAAAAATTGTCTATTAAATTAAACTATAAAACTATTTCTTTGAATCAATGTTGAAAACC
11655029 CTAGATTTAGAATTTAAAAAATCCTACAATTTCATATTTATTTGTTTAGCTTTTTCCGTGTGTAG
131 CTAGATTTAGAATTTAAAAAATCCTACAATTTCATATTTATTTGTTTAGCTTTTTCCGTGTGTAG
11655094 CATTGAACATGAGTGCAAAATTTTTAATGTTAAAAATTAGGAAAAATCTCAAAATTATATATGAA
196 CATTGAACATGAGTGCAAAATTTTTAATGTTAAAAATTAGGAAAAATCTCAAAATTATATATGAA
11655159 TTTTGATTTAATGTGCAATTTGATACACGAGCTTTAATTTGGTGCAATTTTACACACGAAACTTT
261 TTTTGATTTAATGTGCAATTTGATACACGAGCTTTAATTTGGTGCAATTTTACACACGAAACTTT
11655224 AATTGTGGTTCAAATGTATACATAAAACTTT
326 AATTGTGGTTCAAATGTATACATAAAACTTT
11655255 AATTTTGATT
Statistics
Matches: 356, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
356 356 1.00
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (356 bp):
TCTCGAAACCATTACTTTCTGCTTTTTTTTTCTTATAGTTTTTATTTTTAAACTATAATTAATAT
TACCCTGAAAAATTGTCTATTAAATTAAACTATAAAACTATTTCTTTGAATCAATGTTGAAAACC
CTAGATTTAGAATTTAAAAAATCCTACAATTTCATATTTATTTGTTTAGCTTTTTCCGTGTGTAG
CATTGAACATGAGTGCAAAATTTTTAATGTTAAAAATTAGGAAAAATCTCAAAATTATATATGAA
TTTTGATTTAATGTGCAATTTGATACACGAGCTTTAATTTGGTGCAATTTTACACACGAAACTTT
AATTGTGGTTCAAATGTATACATAAAACTTT
Found at i:11655203 original size:29 final size:31
Alignment explanation
Indices: 11655171--11655232 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 31
11655161 TTGATTTAAT
* *
11655171 GTGCAATTTGATACACG-AGCTTTAATT-TG
1 GTGCAATTTGACACACGAAACTTTAATTGTG
*
11655200 GTGCAATTTTACACACGAAACTTTAATTGTG
1 GTGCAATTTGACACACGAAACTTTAATTGTG
11655231 GT
1 GT
11655233 TCAAATGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 15 0.54
30 9 0.32
31 4 0.14
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (31 bp):
GTGCAATTTGACACACGAAACTTTAATTGTG
Found at i:11661602 original size:25 final size:25
Alignment explanation
Indices: 11661574--11661650 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
11661564 CTATTTTGAC
11661574 CAATTTATTTCATATCTATATTTCT
1 CAATTTATTTCATATCTATATTTCT
**
11661599 CAATAGATTT-AT-TCTAT-TTTAAC-
1 CAATTTATTTCATATCTATATTT--CT
* *
11661622 CAATTTATTCCATATTTATATTTCT
1 CAATTTATTTCATATCTATATTTCT
11661647 CAAT
1 CAAT
11661651 AGATTTATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
22 3 0.08
23 12 0.30
24 6 0.15
25 16 0.40
26 3 0.08
ACGTcount: A:0.31, C:0.16, G:0.01, T:0.52
Consensus pattern (25 bp):
CAATTTATTTCATATCTATATTTCT
Found at i:11661636 original size:48 final size:48
Alignment explanation
Indices: 11661562--11661660 Score: 171
Period size: 48 Copynumber: 2.1 Consensus size: 48
11661552 AGTTGCGTCT
* *
11661562 TTCTATTTTGACCAATTTATTTCATATCTATATTTCTCAATAGATTTA
1 TTCTATTTTAACCAATTTATTCCATATCTATATTTCTCAATAGATTTA
*
11661610 TTCTATTTTAACCAATTTATTCCATATTTATATTTCTCAATAGATTTA
1 TTCTATTTTAACCAATTTATTCCATATCTATATTTCTCAATAGATTTA
11661658 TTC
1 TTC
11661661 AAGATCCTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.29, C:0.15, G:0.03, T:0.53
Consensus pattern (48 bp):
TTCTATTTTAACCAATTTATTCCATATCTATATTTCTCAATAGATTTA
Found at i:11662931 original size:15 final size:15
Alignment explanation
Indices: 11662911--11662947 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
11662901 AAATTAATAA
11662911 TTTTACTGTCATTCC
1 TTTTACTGTCATTCC
11662926 TTTTACTGTCATTCC
1 TTTTACTGTCATTCC
11662941 TTTTACT
1 TTTTACT
11662948 TTGTATACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.14, C:0.24, G:0.05, T:0.57
Consensus pattern (15 bp):
TTTTACTGTCATTCC
Found at i:11668614 original size:82 final size:88
Alignment explanation
Indices: 11668460--11668632 Score: 277
Period size: 82 Copynumber: 2.0 Consensus size: 88
11668450 TCTCTTTCAT
*
11668460 ATTAATCTAAAGTACTCAATATATTAATATATGTATATATTCAACGGTTGAATTTTTTTTATTAC
1 ATTAATCTAAAGCACTCAATATATTAATATA-GTATATATTCAACGGTTGAA-TTTTTTTATTAC
11668525 ATAAAACAAATAGTTAGAAGTTTTA
64 ATAAAACAAATAGTTAGAAGTTTTA
11668550 ATTAATCTAAAGCACTCAATATATT-A-ATA-TATATATTCAACGGTTG-A-TTTTTT-TTACAT
1 ATTAATCTAAAGCACTCAATATATTAATATAGTATATATTCAACGGTTGAATTTTTTTATTACAT
11668609 AAAACAAATAGTTAGAAGTTTTA
66 AAAACAAATAGTTAGAAGTTTTA
11668632 A
1 A
11668633 ATTTACATCA
Statistics
Matches: 82, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
82 30 0.37
83 6 0.07
85 1 0.01
86 17 0.21
88 3 0.04
89 1 0.01
90 24 0.29
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.41
Consensus pattern (88 bp):
ATTAATCTAAAGCACTCAATATATTAATATAGTATATATTCAACGGTTGAATTTTTTTATTACAT
AAAACAAATAGTTAGAAGTTTTA
Found at i:11671036 original size:30 final size:30
Alignment explanation
Indices: 11671000--11671412 Score: 171
Period size: 30 Copynumber: 13.9 Consensus size: 30
11670990 TCCATTGCCT
* *
11671000 CACCAACCTGGATATGGTGCTGCACCACCG
1 CACCAACCTGGATATGGGGCTGCACCACAG
**
11671030 CACCAA-CTCGGATATGTTGCTGCACC-CATG
1 CACCAACCT-GGATATGGGGCTGCACCACA-G
* ** * *
11671060 CACCAAGCTGGATATGGGGCAACACTACAA
1 CACCAACCTGGATATGGGGCTGCACCACAG
*
11671090 CACCAACCAGGATATGGGGCTGCACCACAG
1 CACCAACCTGGATATGGGGCTGCACCACAG
* * * *
11671120 CACCAACCAGGATATGGGACTGCATCATTA-
1 CACCAACCTGGATATGGGGCTGCACCA-CAG
** *
11671150 CACC-ACCTTGGATATGGGGCCCCACCGTC-G
1 CACCAACC-TGGATATGGGGCTGCACC-ACAG
* *
11671180 CACCAAGCC-GGATATGGAG-TCGCACCGTCA-
1 CACCAA-CCTGGATATGGGGCT-GCACC-ACAG
* * *
11671210 CACCAAGCC--GAGTTTGGAGCTGTACCATC-G
1 CACCAA-CCTGGA-TATGGGGCTGCACCA-CAG
* *
11671240 CACCAAGCTGGATATGGGGCTGCACCGCTA-
1 CACCAACCTGGATATGGGGCTGCACCAC-AG
* * * * *
11671270 CACCAACCCGGATATGTGGTTACACCGTCA-
1 CACCAACCTGGATATGGGGCTGCACC-ACAG
**
11671300 CACCAAGCC-GGATATGGGGCTGCATTATCA-
1 CACCAA-CCTGGATATGGGGCTGCACCA-CAG
** * * * **
11671330 CACCATTCAGGATATGGGGTTGCACCTCTT
1 CACCAACCTGGATATGGGGCTGCACCACAG
* *
11671360 CACCAA-CTCGGATATAGAGCTGCA-CA-A-
1 CACCAACCT-GGATATGGGGCTGCACCACAG
* *
11671387 CACCAACCTGGATATGGAGCAGCACC
1 CACCAACCTGGATATGGGGCTGCACC
11671413 GATGTACCAG
Statistics
Matches: 292, Mismatches: 63, Indels: 58
0.71 0.15 0.14
Matches are distributed among these distances:
27 19 0.07
28 3 0.01
29 14 0.05
30 242 0.83
31 12 0.04
32 2 0.01
ACGTcount: A:0.27, C:0.31, G:0.24, T:0.18
Consensus pattern (30 bp):
CACCAACCTGGATATGGGGCTGCACCACAG
Found at i:11671154 original size:90 final size:90
Alignment explanation
Indices: 11671000--11671169 Score: 213
Period size: 90 Copynumber: 1.9 Consensus size: 90
11670990 TCCATTGCCT
* * * * *
11671000 CACCAACCTGGATATGGTGCTGCACCACCGCACCAACTCGGATATGTTGCTGCACCCATGCACCA
1 CACCAACCAGGATATGGGGCTGCACCACAGCACCAACTCGGATATGTGGCTGCACCCATACACC-
*
11671065 AGC-TGGATATGGGGCAACACTACAA
65 ACCTTGGATATGGGGCAACACTACAA
*
11671090 CACCAACCAGGATATGGGGCTGCACCACAGCACCAAC-CAGGATATG-GGACTGCA-TCATTACA
1 CACCAACCAGGATATGGGGCTGCACCACAGCACCAACTC-GGATATGTGG-CTGCACCCA-TACA
11671152 CCACCTTGGATATGGGGC
63 CCACCTTGGATATGGGGC
11671170 CCCACCGTCG
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
89 6 0.09
90 63 0.91
ACGTcount: A:0.28, C:0.31, G:0.24, T:0.17
Consensus pattern (90 bp):
CACCAACCAGGATATGGGGCTGCACCACAGCACCAACTCGGATATGTGGCTGCACCCATACACCA
CCTTGGATATGGGGCAACACTACAA
Found at i:11671334 original size:90 final size:89
Alignment explanation
Indices: 11671060--11671374 Score: 253
Period size: 90 Copynumber: 3.5 Consensus size: 89
11671050 TGCACCCATG
** ** * * * *
11671060 CACCAAGCTGGATATGGGGCAACACTACAACACCAACCAGGATATGGGGCTGCACC-ACAGCACC
1 CACCAAGCTGGATATGGGGCTGCACCGCTACACCAACCCGGATAT-GGGTTGCACCGTCA-CACC
* *
11671124 AA-CCAGGATATGGGACTGCATCATTA
64 AAGCC-GGATATGGGGCTGCATCATCA
* ** * * *
11671150 CACC-ACCTTGGATATGGGGCCCCACCG-TCGCACCAAGCCGGATATGGAGTCGCACCGTCACAC
1 CACCAAGC-TGGATATGGGGCTGCACCGCT-ACACCAACCCGGATATGG-GTTGCACCGTCACAC
* * * * *
11671213 CAAGCC-GAGTTTGGAGCTGTACCATCG
63 CAAGCCGGA-TATGGGGCTGCATCATCA
*
11671240 CACCAAGCTGGATATGGGGCTGCACCGCTACACCAACCCGGATATGTGGTTACACCGTCACACCA
1 CACCAAGCTGGATATGGGGCTGCACCGCTACACCAACCCGGATATG-GGTTGCACCGTCACACCA
*
11671305 AGCCGGATATGGGGCTGCATTATCA
65 AGCCGGATATGGGGCTGCATCATCA
** * * * * *
11671330 CACCATTCAGGATATGGGGTTGCACCTCTTCACCAACTCGGATAT
1 CACCAAGCTGGATATGGGGCTGCACCGCTACACCAACCCGGATAT
11671375 AGAGCTGCAC
Statistics
Matches: 176, Mismatches: 39, Indels: 20
0.75 0.17 0.09
Matches are distributed among these distances:
89 6 0.03
90 160 0.91
91 10 0.06
ACGTcount: A:0.27, C:0.31, G:0.24, T:0.18
Consensus pattern (89 bp):
CACCAAGCTGGATATGGGGCTGCACCGCTACACCAACCCGGATATGGGTTGCACCGTCACACCAA
GCCGGATATGGGGCTGCATCATCA
Found at i:11671399 original size:27 final size:27
Alignment explanation
Indices: 11671360--11671411 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
11671350 TGCACCTCTT
*
11671360 CACCAACTCGGATATAGAGCTGCACAA
1 CACCAACTCGGATATAGAGCAGCACAA
*
11671387 CACCAAC-CTGGATATGGAGCAGCAC
1 CACCAACTC-GGATATAGAGCAGCAC
11671412 CGATGTACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 1 0.05
27 21 0.95
ACGTcount: A:0.35, C:0.31, G:0.21, T:0.13
Consensus pattern (27 bp):
CACCAACTCGGATATAGAGCAGCACAA
Found at i:11684510 original size:32 final size:33
Alignment explanation
Indices: 11684456--11684521 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 33
11684446 TTTTATATAC
11684456 TTTATAATTCATATACATACGTAT-TCATATATTT
1 TTTATAATTCATATACA-ACGTATAT-ATATATTT
* *
11684490 TTTATATTTTATATAC-ACGTATATATATATTT
1 TTTATAATTCATATACAACGTATATATATATTT
11684522 ATGTACATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 14 0.48
33 1 0.03
34 14 0.48
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.53
Consensus pattern (33 bp):
TTTATAATTCATATACAACGTATATATATATTT
Found at i:11689168 original size:41 final size:41
Alignment explanation
Indices: 11689094--11689188 Score: 129
Period size: 41 Copynumber: 2.3 Consensus size: 41
11689084 ATGATTAGTC
* * *
11689094 CTAAGTGTGC-TAATTAAATGATGAGGTTGAATAACGAGCA
1 CTAAGTGTGCGAAATTAAATAATGAGGTTAAATAACGAGCA
* * *
11689134 CTAAGTGTGTGAAATTAAATAATGATGTTAAATAACGGGCA
1 CTAAGTGTGCGAAATTAAATAATGAGGTTAAATAACGAGCA
11689175 CTAAGTGTGCGAAA
1 CTAAGTGTGCGAAA
11689189 CTGAGATCAA
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 9 0.19
41 38 0.81
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.27
Consensus pattern (41 bp):
CTAAGTGTGCGAAATTAAATAATGAGGTTAAATAACGAGCA
Found at i:11690789 original size:37 final size:38
Alignment explanation
Indices: 11690698--11690791 Score: 127
Period size: 37 Copynumber: 2.4 Consensus size: 38
11690688 CTATATGATT
* * *
11690698 AGCACTAAGTATGCGAATTAAATGATGAGGTTGAATAGTG
1 AGCACTAAGTGTGCGAATTAAATGAT--GGTTAAATAATG
11690738 AGCACTAAGTGTGCGAATTAAATGAT-GTTAAATAATG
1 AGCACTAAGTGTGCGAATTAAATGATGGTTAAATAATG
*
11690775 GGCACTAAGTGTGCGAA
1 AGCACTAAGTGTGCGAA
11690792 ACCGAGGTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
37 25 0.50
40 25 0.50
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (38 bp):
AGCACTAAGTGTGCGAATTAAATGATGGTTAAATAATG
Found at i:11690936 original size:45 final size:46
Alignment explanation
Indices: 11690884--11690974 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 46
11690874 TGTACTGATC
11690884 CGATGAATGATAAATGTGACACATATGTATATGTT-GTATAATTAT
1 CGATGAATGATAAATGTGACACATATGTATATGTTGGTATAATTAT
11690929 CGATGAATGATAAATGTGACACATATGTATATGTTGGTATAATTAT
1 CGATGAATGATAAATGTGACACATATGTATATGTTGGTATAATTAT
11690975 ATAATATTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 35 0.78
46 10 0.22
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (46 bp):
CGATGAATGATAAATGTGACACATATGTATATGTTGGTATAATTAT
Found at i:11692102 original size:108 final size:107
Alignment explanation
Indices: 11691969--11692186 Score: 400
Period size: 108 Copynumber: 2.0 Consensus size: 107
11691959 TAATACATAA
11691969 GTAAATAAATATATATATATAGGATCGGTCTTGGTATGTTATGCATGGAATTGTTTGAGTATTGA
1 GTAAATAAATATATATATATAGGATCGGTCTTGGTATGTTATGCATGGAATTGTTTGAGTATTGA
11692034 TGAATTTGACATTGGTTAAAGCATAAGTATTTAAGCTTAATT
66 TGAATTTGACATTGGTTAAAGCATAAGTATTTAAGCTTAATT
* *
11692076 GTAATATATATATATATATATAGGATCGGTCTTGGTATGTTATGCATGGAATTTTTTGAGTATTG
1 GTAA-ATAAATATATATATATAGGATCGGTCTTGGTATGTTATGCATGGAATTGTTTGAGTATTG
*
11692141 ATGAATTTGACATTGGTTAAAGCATTAGTATTTAAGCTTAATT
65 ATGAATTTGACATTGGTTAAAGCATAAGTATTTAAGCTTAATT
11692184 GTA
1 GTA
11692187 TTCGAATAAA
Statistics
Matches: 107, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 4 0.04
108 103 0.96
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.42
Consensus pattern (107 bp):
GTAAATAAATATATATATATAGGATCGGTCTTGGTATGTTATGCATGGAATTGTTTGAGTATTGA
TGAATTTGACATTGGTTAAAGCATAAGTATTTAAGCTTAATT
Found at i:11696535 original size:88 final size:88
Alignment explanation
Indices: 11696334--11698294 Score: 2753
Period size: 88 Copynumber: 22.3 Consensus size: 88
11696324 CGGTGAAACC
* * * * *
11696334 AACCTTATCTCCCTAAGCAGTAGTAGAGTAGGTTGAAGATAGTAGATCTTGCCTTCC--TATTGG
1 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
* * *
11696397 CAGCGAAGTAAATCAAAAACACA
66 CAGCGAAGTAGATCGAAGACACA
* * * *
11696420 AACCTTATCTCCCTAAGCTGTAGTGGAGTAGGTTGAAGATAACAGATCTTGTCTTCCTGTATTGG
1 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
11696485 CAGCGAAGTAGATCGAAGACACA
66 CAGCGAAGTAGATCGAAGACACA
* * * *
11696508 AACCTCATCTCCCTGAGCAACACTGGAGTAGGTTGAATG-TGGCAGATCTTGTCTTCCTGTATTG
1 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAA-GATAGCAGATCTTGTCTTCCTGTATTG
11696572 GCAGCGAAGTAGATCGAAGACACA
65 GCAGCGAAGTAGATCGAAGACACA
* * * * * **
11696596 AACCTTATCTCTCTTAGTAGCAGTGGAGTTGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTAA
1 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
11696661 CAGCGAAGTAGATCGAAGACACA
66 CAGCGAAGTAGATCGAAGACACA
* * *
11696684 AATCTTATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGATAGCAGATCTTGTCTTCTTGTATTGG
1 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
*
11696749 CAGCGAAGTAGATTGAAGACACA
66 CAGCGAAGTAGATCGAAGACACA
* * * * *
11696772 AACCTTATCTCCCTAAGCAGTAGTGAAGTAGGTTGAAGATAGCAGATTTTGTCTTTCTGTATTGG
1 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
*
11696837 CAACGAAGTAGATCGAAGACACA
66 CAGCGAAGTAGATCGAAGACACA
* * ** *
11696860 AACTTTATCTCCCTGAGTAGCAGTGGAGTAGGTCAAAGATAGCAGATCTTTTCTTCCTGTATTGG
1 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
* * **
11696925 CAACGAAGTAGATCTAAGATGCA
66 CAGCGAAGTAGATCGAAGACACA
* * * * * * *
11696948 AACATTATCTCCTTTAGTAGCAGTGAACTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
1 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
11697013 CAGCGAAGTAGATCGAAGACACA
66 CAGCGAAGTAGATCGAAGACACA
* * * *
11697036 AACCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGACAGCAGATCTTGTCTTCTTGTATTGG
1 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
* *
11697101 CAGCAAAGTATATCGAAGACACA
66 CAGCGAAGTAGATCGAAGACACA
* * * **
11697124 AACCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATAGCAGATTTTGTCTTTTTGTATTGG
1 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
*
11697189 TAGCGAAGTAGATCGAAGACACA
66 CAGCGAAGTAGATCGAAGACACA
* * * **
11697212 AACCTTATCTCCCTCAGCAGTAGTGGAGTAGGTTGAAGATAACAGATCTTGTCTTATTGTATTGG
1 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
*
11697277 CAGCGAAGTAGATCGAAGACACG
66 CAGCGAAGTAGATCGAAGACACA
* * *
11697300 AACCTTATCTCCCTTAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTGTATTGG
1 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
11697365 CAGCGAAGTAGATCGAAGACACA
66 CAGCGAAGTAGATCGAAGACACA
* * ** *
11697388 AACCTTATCTTCCTAAGCAATAGTGGAGTATGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
1 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
* *
11697453 CCGCAAAGTAGATCGAAGACACA
66 CAGCGAAGTAGATCGAAGACACA
* * *
11697476 AACCTTATCTCCCTGAGCAGCACTGGAGTAGGTTGAAGATAACAGATCTTGTCTTCCTGTATTAG
1 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
11697541 CAGCGAAGTAGATCGAAGACACA
66 CAGCGAAGTAGATCGAAGACACA
* * *
11697564 AACCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATAGCAGAGT-TTGTCTTTCTGTATTG
1 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGA-TCTTGTCTTCCTGTATTG
*
11697628 GCAGCGAAGTAGATCGAAGACAAA
65 GCAGCGAAGTAGATCGAAGACACA
* *
11697652 AACATTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTTTCTTCCTGTATTGG
1 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
* * *
11697717 CAACGAAGTAGATCTAAGACGCA
66 CAGCGAAGTAGATCGAAGACACA
* * * * * * * * * *
11697740 AACATTATCTCCTTTAGTAGTAATGAACTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGG
1 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
*
11697805 CAGCAAAGTAGATCGAAGACACA
66 CAGCGAAGTAGATCGAAGACACA
* * *
11697828 AACCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTTCTGTATTGG
1 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
* *
11697893 CAGTGAAGTAGATTGAAGACACA
66 CAGCGAAGTAGATCGAAGACACA
11697916 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
1 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
11697981 CAGCGAAGTAGATCGAAGACACA
66 CAGCGAAGTAGATCGAAGACACA
* * * * * * *
11698004 AACCTTATCTCTCTTAACCGCAGTGGAGTAGGTTGAAAATAGCAGATCTTATCTTCTTGTATTGG
1 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
11698069 CAGCGAAGTAGATCGAAGACACA
66 CAGCGAAGTAGATCGAAGACACA
* * * *
11698092 AACCTTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAAATAGCAGATCTTATCTTCTTGTATTGG
1 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
11698157 CAGCGAAGTAGATCGAAGACACA
66 CAGCGAAGTAGATCGAAGACACA
* * * *
11698180 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGTAGATCTTGCCTTCCTGTATTAG
1 AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
11698245 CAGCGAAGTAGATCGAAGACACA
66 CAGCGAAGTAGATCGAAGACACA
* * * *
11698268 ATCC-TATCTCCTTAAGCTGCAGTGGAG
1 AACCTTATCTCCCTGAGCAGCAGTGGAG
11698295 CGGATTAAAA
Statistics
Matches: 1676, Mismatches: 193, Indels: 11
0.89 0.10 0.01
Matches are distributed among these distances:
86 52 0.03
87 21 0.01
88 1601 0.96
89 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (88 bp):
AACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
CAGCGAAGTAGATCGAAGACACA
Found at i:11698057 original size:44 final size:43
Alignment explanation
Indices: 11697849--11698229 Score: 167
Period size: 44 Copynumber: 8.7 Consensus size: 43
11697839 CCTAAGCAGT
* *
11697849 AGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTTCTGTATTGGC
1 AGTGGAGTAGGTTGAAGATAGCAGATCTTATC-TTCT-TATCGGC
* * * * * * * * *
11697894 AGTGAAGTAGATTGAAGACA-CAAACCTTATCTCCCTGAGCAGC
1 AGTGGAGTAGGTTGAAGATAGCAGATCTTATCT-TCTTATCGGC
* *
11697937 AGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGGC
1 AGTGGAGTAGGTTGAAGATAGCAGATCTTATCTT-CT-TATCGGC
* * * * * * * * *
11697982 AGCGAAGTAGATCGAAGACA-CAAACCTTATCTCTCTTAACCGC
1 AGTGGAGTAGGTTGAAGATAGCAGATCTTATCT-TCTTATCGGC
* *
11698025 AGTGGAGTAGGTTGAAAATAGCAGATCTTATCTTCTTGTATTGGC
1 AGTGGAGTAGGTTGAAGATAGCAGATCTTATCTTC-T-TATCGGC
* * * * * * * * * * **
11698070 AGCGAAGTAGATCGAAGACA-CAAACCTTATCTCCCTGAGCAAC
1 AGTGGAGTAGGTTGAAGATAGCAGATCTTATCT-TCTTATCGGC
* *
11698113 AGTGGAGTAGGTTGAAAATAGCAGATCTTATCTTCTTGTATTGGC
1 AGTGGAGTAGGTTGAAGATAGCAGATCTTATCTTC-T-TATCGGC
* * * * * * * * * * *
11698158 AGCGAAGTAGATCGAAGACA-CAAACCTTATCTCCCTGAGCAGC
1 AGTGGAGTAGGTTGAAGATAGCAGATCTTATCT-TCTTATCGGC
* *
11698201 AGTGGAGTAGGTTGAAAATAGTAGATCTT
1 AGTGGAGTAGGTTGAAGATAGCAGATCTT
11698230 GCCTTCCTGT
Statistics
Matches: 228, Mismatches: 94, Indels: 29
0.65 0.27 0.08
Matches are distributed among these distances:
43 75 0.33
44 81 0.36
45 72 0.32
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (43 bp):
AGTGGAGTAGGTTGAAGATAGCAGATCTTATCTTCTTATCGGC
Found at i:11700628 original size:72 final size:72
Alignment explanation
Indices: 11700489--11700630 Score: 214
Period size: 73 Copynumber: 2.0 Consensus size: 72
11700479 TCTTTTCAAA
* * *
11700489 CTCAAGTATTAAACGATCTCGGGATCAAGAAGAGATCATGTCCTAACTTACTGGGCATGATCCCC
1 CTCAAGTATTAAACGATCTCGGAATCAAGAAAAGATCATATCCTAACTTACTGGGCATGATCCCC
11700554 TTTTTTT
66 TTTTTTT
* * *
11700561 CTCAAGTTTTAAACGATCTCAGGAATTAAGAAAAGATCGTATCCTAACTTACTGGGCATGAT-CC
1 CTCAAGTATTAAACGATCTC-GGAATCAAGAAAAGATCATATCCTAACTTACTGGGCATGATCCC
11700625 CTTTTT
65 CTTTTT
11700631 CAAATCCGAG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 27 0.43
73 36 0.57
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (72 bp):
CTCAAGTATTAAACGATCTCGGAATCAAGAAAAGATCATATCCTAACTTACTGGGCATGATCCCC
TTTTTTT
Found at i:11701577 original size:26 final size:26
Alignment explanation
Indices: 11701548--11701712 Score: 112
Period size: 26 Copynumber: 6.6 Consensus size: 26
11701538 TCCTCTCTCA
11701548 AGCCATATAA-CAGGAAGCTCACAAAG
1 AGCCAT-TAATCAGGAAGCTCACAAAG
11701574 AGCCATTAATCAGGAAGCTCACAAAG
1 AGCCATTAATCAGGAAGCTCACAAAG
* * * ***
11701600 AGCC--T-CTCAGAAAGCTTA-TTCG
1 AGCCATTAATCAGGAAGCTCACAAAG
* * *
11701622 GGCTATATAA-CAGGAAGCTCA-TAAG
1 AGCCAT-TAATCAGGAAGCTCACAAAG
* *
11701647 AGTCA-TAATCAGGAAGTTCACAAAG
1 AGCCATTAATCAGGAAGCTCACAAAG
* ** *
11701672 AACTTTTAATCAGGAAGCTCACGAAG
1 AGCCATTAATCAGGAAGCTCACAAAG
*
11701698 AGCCTTTAATCAGGA
1 AGCCATTAATCAGGA
11701713 TCTCCGGATA
Statistics
Matches: 105, Mismatches: 26, Indels: 16
0.71 0.18 0.11
Matches are distributed among these distances:
22 3 0.03
23 13 0.12
24 11 0.10
25 21 0.20
26 57 0.54
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (26 bp):
AGCCATTAATCAGGAAGCTCACAAAG
Found at i:11704416 original size:182 final size:182
Alignment explanation
Indices: 11704109--11704477 Score: 578
Period size: 182 Copynumber: 2.0 Consensus size: 182
11704099 ACTTAAATTT
*
11704109 TCAAATCAAAATATCAAAATTTAACCATTTATATGCTTTCGTAAAGACTTTATAGATATATATAT
1 TCAAATCAAAATATCAAAATTTAACCATTTATATGCTTTCGTAAAGACTTTATAAATATATATAT
*
11704174 ATATATATATTGTAAATAAAGTAAATTAATCCATTAAATTAAAGTCGTGTTGTTCTGGCCATCCT
66 ATATATATATTGTAAATAAAGCAAATTAATCCATTAAATTAAAGTCGTGTTGTTCTGGCCATCCT
* *
11704239 CGATCAAGTCATCATGAACAAGAGACAAGACATAATCAAATGATTTTATATA
131 CAACCAAGTCATCATGAACAAGAGACAAGACATAATCAAATGATTTTATATA
* *
11704291 TCAAATCAAAATATCAAAATTTAACCATTTATATGTTTTCTTAAAGACTTTATAAATATATATAT
1 TCAAATCAAAATATCAAAATTTAACCATTTATATGCTTTCGTAAAGACTTTATAAATATATATAT
* * * * *
11704356 GT-TTTTTTTTGGTAAATAAAGCAAATTAATCCATTACATTAAAGTCGTGTTGTTCTGGCCATCC
66 ATATATATATT-GTAAATAAAGCAAATTAATCCATTAAATTAAAGTCGTGTTGTTCTGGCCATCC
* * * * *
11704420 TCAACCAAGTCATCGTGTACAAGAGACAAGGCATGATCAAATGGTTTTATATA
130 TCAACCAAGTCATCATGAACAAGAGACAAGACATAATCAAATGATTTTATATA
11704473 TCAAA
1 TCAAA
11704478 ATTTAACCAT
Statistics
Matches: 170, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
181 5 0.03
182 165 0.97
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.36
Consensus pattern (182 bp):
TCAAATCAAAATATCAAAATTTAACCATTTATATGCTTTCGTAAAGACTTTATAAATATATATAT
ATATATATATTGTAAATAAAGCAAATTAATCCATTAAATTAAAGTCGTGTTGTTCTGGCCATCCT
CAACCAAGTCATCATGAACAAGAGACAAGACATAATCAAATGATTTTATATA
Found at i:11715992 original size:26 final size:26
Alignment explanation
Indices: 11715889--11715995 Score: 142
Period size: 26 Copynumber: 4.1 Consensus size: 26
11715879 TAAGAAATCT
11715889 TTGCGGACTCATACTTGATAATAGTCC
1 TTGCGGACTCATACTTGA-AATAGTCC
** * **
11715916 TTTTGGACTCATGCTTGAAATAGTAT
1 TTGCGGACTCATACTTGAAATAGTCC
* *
11715942 TTGCAGACTCATACATGAAATAGTCC
1 TTGCGGACTCATACTTGAAATAGTCC
11715968 TTGCGGACTCATACTTGAAATAGTCC
1 TTGCGGACTCATACTTGAAATAGTCC
11715994 TT
1 TT
11715996 ATAGACTATT
Statistics
Matches: 66, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
26 51 0.77
27 15 0.23
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (26 bp):
TTGCGGACTCATACTTGAAATAGTCC
Found at i:11721738 original size:21 final size:22
Alignment explanation
Indices: 11721712--11721753 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11721702 ATCTGAAGGA
*
11721712 ATTAAGATG-CAATTGTTTATG
1 ATTAAGATGACAATTATTTATG
11721733 ATTAAGATGACAATTATTTAT
1 ATTAAGATGACAATTATTTAT
11721754 TCTTGTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (22 bp):
ATTAAGATGACAATTATTTATG
Found at i:11739077 original size:35 final size:33
Alignment explanation
Indices: 11739007--11739076 Score: 95
Period size: 36 Copynumber: 2.0 Consensus size: 33
11738997 TACCTAATTT
11739007 AATCATGAATTATTAAAAATAAAAATATTTAAA
1 AATCATGAATTATTAAAAATAAAAATATTTAAA
* *
11739040 AATCAATGATTTATATAAATATAAAAAATATTTAAA
1 AATC-ATGAATTAT-TAAAAAT-AAAAATATTTAAA
11739076 A
1 A
11739077 TATTAATTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
33 4 0.12
34 8 0.25
35 6 0.19
36 14 0.44
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (33 bp):
AATCATGAATTATTAAAAATAAAAATATTTAAA
Found at i:11742953 original size:114 final size:114
Alignment explanation
Indices: 11742597--11743732 Score: 2130
Period size: 114 Copynumber: 9.9 Consensus size: 114
11742587 TCATATATAC
* * *
11742597 ATATTCAAACTTCATTTATGCATATATATAACATTCATACTTTAACTAATTTCAATTCATATATT
1 ATATTCGAACTTCATTTATGCATATATATAACATTCATAC-TTAACTAATTTCAATTTATATACT
*
11742662 TTTAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
65 TTCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
* *
11742712 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTTAACTAATTTCAATTCATATATT
1 ATATTCGAACTTCATTTATGCATATATATAACATTCATAC-TTAACTAATTTCAATTTATATACT
*
11742777 TTTAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
65 TTCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
11742827 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
1 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
11742892 TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
66 TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
11742941 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
1 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
11743006 TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
66 TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
11743055 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
1 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
11743120 TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
66 TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
11743169 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
1 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
11743234 TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
66 TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
11743283 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
1 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
11743348 TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
66 TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
11743397 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
1 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
11743462 TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
66 TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
11743511 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
1 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
*
11743576 TCAATTATAGCTCATCAAATATACAATAGATATACGTATATATTTACAT
66 TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
* * *
11743625 ATATTCGAACTTCATTTATGCATATATATAATATTCATACTTAACTAATTTCAA-TCATATATTT
1 ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATA-CT
*
11743689 TTTAATTATAGCTCATCAAATATACAATAGATATACATATATAT
65 TTCAATTATAGCTCATCAAATATACAATAGATATACATATATAT
11743733 ATATATGCTG
Statistics
Matches: 1010, Mismatches: 10, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
113 6 0.01
114 850 0.84
115 154 0.15
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.42
Consensus pattern (114 bp):
ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTAATTTCAATTTATATACTT
TCAATTATAGCTCATCAAATATACAATAGATATACATATATATTTACAT
Found at i:11744732 original size:13 final size:13
Alignment explanation
Indices: 11744714--11744738 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11744704 CAATCAAATG
11744714 CACACAAAATAAA
1 CACACAAAATAAA
11744727 CACACAAAATAA
1 CACACAAAATAA
11744739 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:11747258 original size:24 final size:24
Alignment explanation
Indices: 11747231--11747348 Score: 101
Period size: 24 Copynumber: 4.9 Consensus size: 24
11747221 GCAGAAACAA
*
11747231 CTTCAATGGCTGAAAAAGAAACGC
1 CTTCAATGGCTGAAAAAGAAACGT
* * *
11747255 CTTCAATGACTGAAAAACAAGCGT
1 CTTCAATGGCTGAAAAAGAAACGT
* **** *** *
11747279 CATCAGCAACTGGGGAAGAAACAT
1 CTTCAATGGCTGAAAAAGAAACGT
11747303 CTTCAATGGCTGAAAAAGAAACGT
1 CTTCAATGGCTGAAAAAGAAACGT
*
11747327 CTTCAATGGCTGCAGAAAGAAA
1 CTTCAATGGCTG-AAAAAGAAA
11747349 GTCATCAGCA
Statistics
Matches: 69, Mismatches: 24, Indels: 1
0.73 0.26 0.01
Matches are distributed among these distances:
24 61 0.88
25 8 0.12
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.18
Consensus pattern (24 bp):
CTTCAATGGCTGAAAAAGAAACGT
Found at i:11747309 original size:72 final size:72
Alignment explanation
Indices: 11747206--11747373 Score: 223
Period size: 72 Copynumber: 2.3 Consensus size: 72
11747196 AAAAGGAGAC
* *
11747206 TCATCAGCAACAGGGGCAGAAACAACTTCAATGGCTGAAAAAGAAACGCCTTCAATGACTG-AAA
1 TCATCAGCAACTGGGGAAGAAACAACTTCAATGGCTGAAAAAGAAACGCCTTCAATGACTGCAAA
*
11747270 AACAAGCG
66 AACAA-AG
* * * *
11747278 TCATCAGCAACTGGGGAAGAAACATCTTCAATGGCTGAAAAAGAAACGTCTTCAATGGCTGCAGA
1 TCATCAGCAACTGGGGAAGAAACAACTTCAATGGCTGAAAAAGAAACGCCTTCAATGACTGCAAA
*
11747343 AAGAAAG
66 AACAAAG
*
11747350 TCATCAGC-AGTAGGGGAAGAAACA
1 TCATCAGCAACT-GGGGAAGAAACA
11747374 GATTTAGAGA
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
71 2 0.02
72 77 0.91
73 6 0.07
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (72 bp):
TCATCAGCAACTGGGGAAGAAACAACTTCAATGGCTGAAAAAGAAACGCCTTCAATGACTGCAAA
AACAAAG
Found at i:11758115 original size:5 final size:6
Alignment explanation
Indices: 11758100--11758135 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
11758090 ATTTAGTCAT
* *
11758100 TTTTTA TTTTTA TTTTTA TTTTTA GTTTAA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
11758136 CATTCTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:11762462 original size:3 final size:3
Alignment explanation
Indices: 11762454--11762493 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
11762444 GCAAAGAACC
11762454 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11762494 GAGTGAGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11768752 original size:13 final size:14
Alignment explanation
Indices: 11768734--11768764 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
11768724 CTGTTGAGTT
11768734 TTTAGTAAA-TTAG
1 TTTAGTAAATTTAG
11768747 TTTAGTAAATTTAG
1 TTTAGTAAATTTAG
11768761 TTTA
1 TTTA
11768765 AAACACATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (14 bp):
TTTAGTAAATTTAG
Found at i:11769484 original size:22 final size:22
Alignment explanation
Indices: 11769458--11769500 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11769448 GATTGAAACA
*
11769458 TTGAATTTATTCATTTAATCTC
1 TTGAATTTATTCATTAAATCTC
*
11769480 TTGAATTTATTTATTAAATCT
1 TTGAATTTATTCATTAAATCT
11769501 GTTAGAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.56
Consensus pattern (22 bp):
TTGAATTTATTCATTAAATCTC
Found at i:11770723 original size:20 final size:20
Alignment explanation
Indices: 11770698--11770735 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11770688 ACCTTACCTT
* *
11770698 CTAATTTTCATTTTTATATG
1 CTAATTTTAATTTATATATG
11770718 CTAATTTTAATTTATATA
1 CTAATTTTAATTTATATA
11770736 ATTTAACATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.58
Consensus pattern (20 bp):
CTAATTTTAATTTATATATG
Found at i:11771550 original size:2 final size:2
Alignment explanation
Indices: 11771543--11771567 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11771533 TTTTAACACC
11771543 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11771568 NNNNNNNNNN
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11773095 original size:2 final size:2
Alignment explanation
Indices: 11773088--11773119 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11773078 NNNNNNNNNN
11773088 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11773120 GTATGGATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11778239 original size:23 final size:23
Alignment explanation
Indices: 11778193--11778258 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
11778183 AAAACGTATG
*
11778193 AATAAACAAATATTATAAAACAAAT
1 AATAAAC-AA-ATTAAAAAACAAAT
* *
11778218 AATAAATAATTTAAAAAACAAAT
1 AATAAACAAATTAAAAAACAAAT
11778241 AATAAACAAATTAAAAAA
1 AATAAACAAATTAAAAAA
11778259 TAGAAAAAGG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
23 28 0.78
24 2 0.06
25 6 0.17
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (23 bp):
AATAAACAAATTAAAAAACAAAT
Found at i:11778575 original size:14 final size:14
Alignment explanation
Indices: 11778556--11778585 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11778546 TTATATAATT
*
11778556 AATTAATTTTTTAA
1 AATTAATTTTATAA
11778570 AATTAATTTTATAA
1 AATTAATTTTATAA
11778584 AA
1 AA
11778586 AAAGCCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATTAATTTTATAA
Found at i:11779013 original size:29 final size:30
Alignment explanation
Indices: 11778964--11779023 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
11778954 CGGAAAATGA
*
11778964 CCCATTCGGGTAAATAATAAAAAAAATCGG
1 CCCATTCGGGTAAATAATAAAAAAAAACGG
*
11778994 CCCATTTC-GGTAAAT-TTAAAAAAAAACGG
1 CCCA-TTCGGGTAAATAATAAAAAAAAACGG
11779023 C
1 C
11779024 TTTTTTTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 13 0.48
30 11 0.41
31 3 0.11
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (30 bp):
CCCATTCGGGTAAATAATAAAAAAAAACGG
Found at i:11779928 original size:19 final size:20
Alignment explanation
Indices: 11779879--11779928 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
11779869 TAATAAATCA
*
11779879 TTAATA-TAATAATTATTAT
1 TTAATACTAATAATAATTAT
*
11779898 TTATTATTCTAATAA-AATTAT
1 TTA--ATACTAATAATAATTAT
11779919 TTAATACTAA
1 TTAATACTAA
11779929 ATTATGTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
19 9 0.36
21 10 0.40
22 6 0.24
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAATACTAATAATAATTAT
Found at i:11779980 original size:14 final size:15
Alignment explanation
Indices: 11779956--11779985 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
11779946 ACGTGGTTGA
11779956 AAAACATAAATATGT
1 AAAACATAAATATGT
11779971 AAAA-ATAAATATGT
1 AAAACATAAATATGT
11779985 A
1 A
11779986 GTGAATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (15 bp):
AAAACATAAATATGT
Found at i:11780216 original size:20 final size:19
Alignment explanation
Indices: 11780162--11780216 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
11780152 ACAATTTATT
* *
11780162 TTAATAATAAACTTTAACA
1 TTAATAATAATCTTAAACA
*
11780181 TTAATAATAATTTTAAACA
1 TTAATAATAATCTTAAACA
*
11780200 TTAAGTAATACTCTTAA
1 TTAA-TAATAATCTTAA
11780217 TATTTTATTG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 20 0.67
20 10 0.33
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (19 bp):
TTAATAATAATCTTAAACA
Found at i:11782832 original size:44 final size:44
Alignment explanation
Indices: 11782774--11782899 Score: 130
Period size: 44 Copynumber: 2.9 Consensus size: 44
11782764 AGAATTGTTG
* *
11782774 CTTCGATCTACTCCACTGCAACTTTAGGGAAATAAGATCTATAA
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAAATAAGATCTATAA
* * * * *
11782818 CTTCAATCTGCTCCACTGCAACTTCAAGGG-TATAAGCTTTGTAA
1 CTTCAATCTGCTCCACTGCAACTT-TAGGGAAATAAGATCTATAA
* * *
11782862 CTCCAACCTGCTCCACTGCAA-TTTCAGGGAGATAAGAT
1 CTTCAATCTGCTCCACTGCAACTTT-AGGGAAATAAGAT
11782900 TGATATGATC
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
43 6 0.09
44 57 0.85
45 4 0.06
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTTAGGGAAATAAGATCTATAA
Found at i:11782928 original size:40 final size:40
Alignment explanation
Indices: 11782869--11783030 Score: 117
Period size: 40 Copynumber: 3.8 Consensus size: 40
11782859 TAACTCCAAC
* * *
11782869 CTGCTCCACTGCAATTTCAGGGAGATAAGATTGATATGAT
1 CTGCTCCACTACAACTTCAGAGAGATAAGATTGATATGAT
* *
11782909 CTGCTCTACTACAACTTCAGAGAGATAAGATCTGTAATTTATAACT
1 CTGCTCCACTACAACTTCAGAGAGATAAGAT-TG--A--TATGA-T
* * *
11782955 TTAGCCTATTCCACTACAAATTCAGGGAGATAAGATTGATATGAT
1 CT-G-C---TCCACTACAACTTCAGAGAGATAAGATTGATATGAT
* ** *
11783000 CTGCTCTACTGTAACTTTAGAGAGATAAGAT
1 CTGCTCCACTACAACTTCAGAGAGATAAGAT
11783031 CTGTAATTTA
Statistics
Matches: 94, Mismatches: 17, Indels: 22
0.71 0.13 0.17
Matches are distributed among these distances:
40 48 0.51
41 2 0.02
43 2 0.02
44 1 0.01
45 6 0.06
46 6 0.06
47 1 0.01
48 2 0.02
50 2 0.02
51 24 0.26
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (40 bp):
CTGCTCCACTACAACTTCAGAGAGATAAGATTGATATGAT
Found at i:11783016 original size:91 final size:91
Alignment explanation
Indices: 11782873--11783123 Score: 313
Period size: 91 Copynumber: 2.7 Consensus size: 91
11782863 TCCAACCTGC
* **
11782873 TCCACTGCAATTTCAGGGAGATAAGATTGATATGATCTGCTCTACTACAACTTCAGAGAGATAAG
1 TCCACTGCAAATTCAGGGAGATAAGATTGATATGATCTGCTCTACTGTAACTTCAGAGAGATAAG
*
11782938 ATCTGTAATTTATAACTTTAGCCTAT
66 ATCTGTAATTTATAACTTTAACCTAT
* *
11782964 TCCACTACAAATTCAGGGAGATAAGATTGATATGATCTGCTCTACTGTAACTTTAGAGAGATAAG
1 TCCACTGCAAATTCAGGGAGATAAGATTGATATGATCTGCTCTACTGTAACTTCAGAGAGATAAG
** * *
11783029 ATCTGTAATTTATAGTTTTAATCTGT
66 ATCTGTAATTTATAACTTTAACCTAT
* * * * * *
11783055 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGTAACTTCAGGGAG
1 TCCACTGCAAATTCAGGGAGATAAGATT-G--AT-ATGA-TCTGCTCTACTGTAACTTCAGAGAG
11783120 ATAA
61 ATAA
11783124 TACTTGTAAC
Statistics
Matches: 137, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
91 106 0.77
92 1 0.01
94 2 0.01
95 2 0.01
96 26 0.19
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (91 bp):
TCCACTGCAAATTCAGGGAGATAAGATTGATATGATCTGCTCTACTGTAACTTCAGAGAGATAAG
ATCTGTAATTTATAACTTTAACCTAT
Done.