Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 228 of 255
Found at i:75652119 original size:16 final size:16
Alignment explanation
Indices: 75652098--75652140 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
75652088 TGAAGTTAAG
75652098 ACTGTTAAAGAAGTTA
1 ACTGTTAAAGAAGTTA
75652114 ACTGTTAAA-AAG---
1 ACTGTTAAAGAAGTTA
75652126 -CTGTTAAAGAAGTTA
1 ACTGTTAAAGAAGTTA
75652141 GTTTGTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 9
0.72 0.00 0.28
Matches are distributed among these distances:
11 8 0.35
12 3 0.13
15 3 0.13
16 9 0.39
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (16 bp):
ACTGTTAAAGAAGTTA
Found at i:75654209 original size:12 final size:12
Alignment explanation
Indices: 75654190--75654240 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
75654180 CTGTTTTTGA
75654190 TAATTATTAATT
1 TAATTATTAATT
*
75654202 TCATTATTAATT
1 TAATTATTAATT
*
75654214 TAATTAATTTATT
1 TAATT-ATTAATT
*
75654227 TATTTATTTAATT
1 TAATTA-TTAATT
75654240 T
1 T
75654241 TTATTGAACG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
12 16 0.50
13 16 0.50
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (12 bp):
TAATTATTAATT
Found at i:75654221 original size:21 final size:21
Alignment explanation
Indices: 75654195--75654239 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
75654185 TTTGATAATT
75654195 ATTAATTTCA-TTATTAATTTA
1 ATTAATTT-ATTTATTAATTTA
*
75654216 ATTAATTTATTTATTTATTTA
1 ATTAATTTATTTATTAATTTA
75654237 ATT
1 ATT
75654240 TTTATTGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTAATTTATTTATTAATTTA
Found at i:75654225 original size:17 final size:17
Alignment explanation
Indices: 75654205--75654240 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
75654195 ATTAATTTCA
75654205 TTATTAATTTAATTAAT
1 TTATTAATTTAATTAAT
* *
75654222 TTATTTATTTATTTAAT
1 TTATTAATTTAATTAAT
75654239 TT
1 TT
75654241 TTATTGAACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTAATTTAATTAAT
Found at i:75658599 original size:34 final size:34
Alignment explanation
Indices: 75658561--75658632 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
75658551 ACTAAGTTAT
*
75658561 AAGTAAAATTTTATTTTAATTACTTAACTAAAAA
1 AAGTAAAATTTTATTTTAATCACTTAACTAAAAA
* *
75658595 AAGTAATATTTTATTTTGATCACTTAACTAAAAA
1 AAGTAAAATTTTATTTTAATCACTTAACTAAAAA
75658629 AAGT
1 AAGT
75658633 TATAATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.40
Consensus pattern (34 bp):
AAGTAAAATTTTATTTTAATCACTTAACTAAAAA
Found at i:75658604 original size:29 final size:29
Alignment explanation
Indices: 75658572--75658647 Score: 80
Period size: 34 Copynumber: 2.4 Consensus size: 29
75658562 AGTAAAATTT
*
75658572 TATTTTAATTACTTAACTAAAAAAAGTAA
1 TATTTTAATCACTTAACTAAAAAAAGTAA
*
75658601 TATTTTATTTTGATCACTTAACTAAAAAAAGTTA
1 TATTTTA-----ATCACTTAACTAAAAAAAGTAA
*
75658635 TAATTTAATCACT
1 TATTTTAATCACT
75658648 AATGTTTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
29 13 0.33
34 26 0.67
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (29 bp):
TATTTTAATCACTTAACTAAAAAAAGTAA
Found at i:75659173 original size:5 final size:5
Alignment explanation
Indices: 75659163--75659190 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
75659153 TTCTTCTTAG
75659163 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
75659191 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAA
Found at i:75669447 original size:18 final size:18
Alignment explanation
Indices: 75669412--75669452 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
75669402 AAAACACGCG
* * *
75669412 AGAAACAAAGAAATAAAT
1 AGAAAAAAACAAAAAAAT
75669430 AGAAAAAAACAAAAAAAT
1 AGAAAAAAACAAAAAAAT
75669448 AGAAA
1 AGAAA
75669453 CAGGAAGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.78, C:0.05, G:0.10, T:0.07
Consensus pattern (18 bp):
AGAAAAAAACAAAAAAAT
Found at i:75670420 original size:14 final size:14
Alignment explanation
Indices: 75670403--75670448 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
75670393 TATTTATTCT
75670403 TTTTATTTTAAATA
1 TTTTATTTTAAATA
75670417 TTTTA--TT-AATA
1 TTTTATTTTAAATA
*
75670428 TGTTATTTTAAATA
1 TTTTATTTTAAATA
75670442 TTTTATT
1 TTTTATT
75670449 GGTTGTTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 8 0.30
12 2 0.07
13 2 0.07
14 15 0.56
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
TTTTATTTTAAATA
Found at i:75670982 original size:27 final size:25
Alignment explanation
Indices: 75670945--75670999 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 25
75670935 ATTCTTCTAC
*
75670945 ATTATTTATTTTAAACTCGCTTTATGT
1 ATTATTCATTTTAAA-TCGCTTTAT-T
*
75670972 ATTATTCATTTTAAATCGTTTTATT
1 ATTATTCATTTTAAATCGCTTTATT
75670997 ATT
1 ATT
75671000 TACTTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 4 0.15
26 8 0.31
27 14 0.54
ACGTcount: A:0.27, C:0.09, G:0.05, T:0.58
Consensus pattern (25 bp):
ATTATTCATTTTAAATCGCTTTATT
Found at i:75671183 original size:27 final size:27
Alignment explanation
Indices: 75671094--75671187 Score: 77
Period size: 27 Copynumber: 3.4 Consensus size: 27
75671084 GTATATTGCC
*
75671094 TATTTTAAAATTTC--TTTTACATATACTC
1 TATTTT-AAATTTCTTTTTTACAT-TA-TT
* * *
75671122 TATTTCTAAA-TTGTTTTGTACATTGTT
1 TATTT-TAAATTTCTTTTTTACATTATT
* *
75671149 GATATTAAATTTCTTTTTTACATTATT
1 TATTTTAAATTTCTTTTTTACATTATT
75671176 TATTTTAAATTT
1 TATTTTAAATTT
75671188 GTTACAGGCC
Statistics
Matches: 51, Mismatches: 11, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
26 4 0.08
27 30 0.59
28 9 0.18
29 8 0.16
ACGTcount: A:0.29, C:0.09, G:0.04, T:0.59
Consensus pattern (27 bp):
TATTTTAAATTTCTTTTTTACATTATT
Found at i:75671595 original size:19 final size:18
Alignment explanation
Indices: 75671571--75671621 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
75671561 TCCTTTTCTT
75671571 TTTTTCCTTCTTTCGAATC
1 TTTTTCCTTCTTTC-AATC
* **
75671590 TTTTTCTTTCTTTCTTTC
1 TTTTTCCTTCTTTCAATC
75671608 TTTTTCCTCTCTTT
1 TTTTTCCT-TCTTT
75671622 TTATATACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 9 0.33
19 18 0.67
ACGTcount: A:0.04, C:0.25, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTTCCTTCTTTCAATC
Found at i:75672288 original size:27 final size:27
Alignment explanation
Indices: 75672258--75672395 Score: 85
Period size: 27 Copynumber: 5.3 Consensus size: 27
75672248 TTATTTTAAA
* *
75672258 TATTATTTATATTATCCTTATGACTAT
1 TATTATTTATATTATCATTATCACTAT
* * *
75672285 TATTATTAATATTCTTATTATCACTAT
1 TATTATTTATATTATCATTATCACTAT
* *
75672312 TATT-TTT-T-TTAT-TTTATCAATA-
1 TATTATTTATATTATCATTATCACTAT
*
75672334 TATTATTACTATAGTTA-CTATTATTA-TAT
1 TATTATT--TATA-TTATC-ATTATCACTAT
* * *
75672363 TATTATAT-TATTATCATTATTATTAT
1 TATTATTTATATTATCATTATCACTAT
75672389 TATTATT
1 TATTATT
75672396 AATTTTTAAT
Statistics
Matches: 87, Mismatches: 13, Indels: 23
0.71 0.11 0.19
Matches are distributed among these distances:
22 4 0.05
23 10 0.11
24 3 0.03
25 12 0.14
26 15 0.17
27 27 0.31
28 5 0.06
29 11 0.13
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.59
Consensus pattern (27 bp):
TATTATTTATATTATCATTATCACTAT
Found at i:75672290 original size:3 final size:3
Alignment explanation
Indices: 75672282--75672396 Score: 87
Period size: 3 Copynumber: 39.7 Consensus size: 3
75672272 TCCTTATGAC
* * * * * *
75672282 TAT TAT TAT TAA TAT TCT TAT TAT CAC TAT TAT TTT TTT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
75672329 CAA TA- TAT TAT TAC TA- TAGT TAC TAT TAT TA- TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
*
75672371 TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
75672397 ATTTTTAATA
Statistics
Matches: 88, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
2 10 0.11
3 76 0.86
4 2 0.02
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:75672528 original size:3 final size:3
Alignment explanation
Indices: 75672520--75672716 Score: 64
Period size: 3 Copynumber: 61.0 Consensus size: 3
75672510 TTTCTTTTTA
* *
75672520 TAT TAT TAT TATT TAT TAT TAT TTT TCAT GTACG TAT TAT T-T ATAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT T-AT -TA-T TAT TAT TAT -TAT
* * *
75672566 TAT TA- TAT CTACT T-T TACCT GTAT TAT AAT TAT TAT TAA TAT TAG
1 TAT TAT TAT -TA-T TAT TA--T -TAT TAT TAT TAT TAT TAT TAT TAT
* *
75672611 TAT ATAT T-T TAT TAT ATAT GTAT ATAT ATACT TTT TAT ATAG TAT TAT
1 TAT -TAT TAT TAT TAT -TAT -TAT -TAT -TA-T TAT TAT -TAT TAT TAT
* * * *
75672659 TTT TTT CTAT TAT TA- TATT TAT TAT T-T TCAC TAT TAT TAT TAT TTT
1 TAT TAT -TAT TAT TAT TA-T TAT TAT TAT T-AT TAT TAT TAT TAT TAT
*
75672705 TAT CAT TAT TAT
1 TAT TAT TAT TAT
75672717 ACATATATAC
Statistics
Matches: 147, Mismatches: 24, Indels: 46
0.68 0.11 0.21
Matches are distributed among these distances:
2 11 0.07
3 95 0.65
4 35 0.24
5 4 0.03
6 2 0.01
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:75672541 original size:21 final size:21
Alignment explanation
Indices: 75672517--75672717 Score: 71
Period size: 21 Copynumber: 9.2 Consensus size: 21
75672507 TATTTTCTTT
75672517 TTATATTATTATTATTTATTA
1 TTATATTATTATTATTTATTA
**
75672538 TTAT-TT-TTCATGTACGTATTA
1 TTATATTATT-AT-TATTTATTA
*
75672559 TTTATATTATTA-TATCTACTT-
1 -TTATATTATTATTATTTA-TTA
** *
75672580 TTACCTGTATTA-TAATTATTA
1 TTATAT-TATTATTATTTATTA
*
75672601 TTAATATTAGTATATATTTTATTA
1 TT-ATATTATTAT-TA-TTTATTA
75672625 -TATATGTATATATATACTTT-TTA
1 TTATAT-TAT-TAT-TA-TTTATTA
*
75672648 TATAGTATTATT-TTTTTCTATTA
1 T-TA-TATTATTATTATT-TATTA
* *
75672671 TTATATTTATTATT-TTCACTA
1 TTATA-TTATTATTATTTATTA
* *
75672692 TTATTATTATTTTTA-TCATTA
1 TTA-TATTATTATTATTTATTA
75672713 TTATA
1 TTATA
75672718 CATATATACA
Statistics
Matches: 138, Mismatches: 19, Indels: 47
0.68 0.09 0.23
Matches are distributed among these distances:
19 2 0.01
20 12 0.09
21 55 0.40
22 25 0.18
23 18 0.13
24 18 0.13
25 5 0.04
26 3 0.02
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (21 bp):
TTATATTATTATTATTTATTA
Found at i:75672613 original size:24 final size:22
Alignment explanation
Indices: 75672590--75672639 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
75672580 TTACCTGTAT
75672590 TATA-ATTATTATTA-ATATTAG
1 TATATATT-TTATTATATATTAG
75672611 TATATATTTTATTATATATGTA-
1 TATATATTTTATTATATAT-TAG
75672633 TATATAT
1 TATATAT
75672640 ACTTTTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 10 0.38
22 14 0.54
23 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
TATATATTTTATTATATATTAG
Found at i:75672889 original size:11 final size:11
Alignment explanation
Indices: 75672873--75672904 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
75672863 TTTAAAATAG
75672873 TATATTTTTTA
1 TATATTTTTTA
*
75672884 TATATTTTGTA
1 TATATTTTTTA
75672895 TATATTTTTT
1 TATATTTTTT
75672905 TTAATATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (11 bp):
TATATTTTTTA
Found at i:75672917 original size:39 final size:41
Alignment explanation
Indices: 75672841--75672940 Score: 109
Period size: 39 Copynumber: 2.5 Consensus size: 41
75672831 TTAATACTCT
* * *
75672841 TATATTGTGTATATTATTATTTTTTAAAATAGTATATTTTTTA
1 TATATTTTGTATA-TATTATTTTTT-AAATAGTATATTATTCA
75672884 TATATTTTGTATATATT-TTTTTT-AATA-TCATATTATTCA
1 TATATTTTGTATATATTATTTTTTAAATAGT-ATATTATTCA
*
75672923 TATATTTTAT-TATATTAT
1 TATATTTTGTATATATTAT
75672941 GTATATATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
38 7 0.14
39 22 0.43
41 6 0.12
42 4 0.08
43 12 0.24
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (41 bp):
TATATTTTGTATATATTATTTTTTAAATAGTATATTATTCA
Found at i:75672962 original size:26 final size:26
Alignment explanation
Indices: 75672933--75673050 Score: 120
Period size: 26 Copynumber: 4.7 Consensus size: 26
75672923 TATATTTTAT
75672933 TATATTATGTATATATTTTTAATAAC
1 TATATTATGTATATATTTTTAATAAC
* *
75672959 TATATTATGTATGTATTTTTAA-CAC
1 TATATTATGTATATATTTTTAATAAC
* * * *
75672984 TATATTAAGTACATACTTTTAATATC
1 TATATTATGTATATATTTTTAATAAC
*
75673010 -ATTATTATGTATCTATTTTTAAT-A-
1 TA-TATTATGTATATATTTTTAATAAC
*
75673034 TATA-TATGTGTATATTT
1 TATATTATGTATATATTT
75673051 ATGTAGTATT
Statistics
Matches: 74, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
23 11 0.15
24 2 0.03
25 22 0.30
26 39 0.53
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (26 bp):
TATATTATGTATATATTTTTAATAAC
Found at i:75673005 original size:51 final size:51
Alignment explanation
Indices: 75672933--75673031 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 51
75672923 TATATTTTAT
* * * *
75672933 TATATTATGTATATATTTTTAATAAC-TATATTATGTATGTATTTTTAACAC
1 TATATTAAGTACATACTTTTAATAACAT-TATTATGTATCTATTTTTAACAC
*
75672984 TATATTAAGTACATACTTTTAATATCATTATTATGTATCTATTTTTAA
1 TATATTAAGTACATACTTTTAATAACATTATTATGTATCTATTTTTAA
75673032 TATATATATG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (51 bp):
TATATTAAGTACATACTTTTAATAACATTATTATGTATCTATTTTTAACAC
Found at i:75673238 original size:136 final size:139
Alignment explanation
Indices: 75672932--75673238 Score: 317
Period size: 136 Copynumber: 2.2 Consensus size: 139
75672922 ATATATTTTA
**
75672932 TTATATTATGTATATATTTTTAATA-ACTATATTATGTATGTATTTTTAACACTATATTAAGTAC
1 TTATATTAT-TA-ATATTTTTAATATA-TATATTATGTACATATTTTTAACAC-ATATT-AGTAC
* * ** *
75672996 ATACTTTTAATATCATTATTATGTATCTATTTTTAATATATATATGTGTATATTTATGTAGTATT
61 ATACTTTTAATATCATTATTACGTATCTATTTTTAATACATATATGTAAATATTTATATAGTATT
75673061 ATTAATAGTTGTTT
126 ATTAATAGTTGTTT
* * * *
75673075 TTA-A-TATTATTATTTCTAATATGTATATATTATGTACATATTTTTAATAC-TA-T-GTATATA
1 TTATATTATTAATATTTTTAATA--TATATATTATGTACATATTTTTAACACATATTAGTACATA
* * *
75673135 CTTTTTAT-TCCTATTATTACGTATGTA-TTTTAATACATATATGTAAATATTTATATA-TCGTT
64 CTTTTAATAT-C-ATTATTACGTATCTATTTTTAATACATATATGTAAATATTTATATAGT-ATT
*
75673197 ATTATTAGTTGTTT
126 ATTAATAGTTGTTT
*
75673211 TTATATTATTACTATTTTTAATATATAT
1 TTATATTATTAATATTTTTAATATATAT
75673239 TGTATATATA
Statistics
Matches: 139, Mismatches: 17, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
135 2 0.01
136 63 0.45
137 14 0.10
138 16 0.12
139 12 0.09
140 2 0.01
141 25 0.18
142 2 0.01
143 3 0.02
ACGTcount: A:0.33, C:0.06, G:0.07, T:0.55
Consensus pattern (139 bp):
TTATATTATTAATATTTTTAATATATATATTATGTACATATTTTTAACACATATTAGTACATACT
TTTAATATCATTATTACGTATCTATTTTTAATACATATATGTAAATATTTATATAGTATTATTAA
TAGTTGTTT
Found at i:75677057 original size:22 final size:22
Alignment explanation
Indices: 75677023--75677064 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
75677013 CATGACTAAT
*
75677023 ATTCATTCATCATTTATTCAAC
1 ATTCATTCATCATTCATTCAAC
**
75677045 ATTCATTTGTCATTCATTCA
1 ATTCATTCATCATTCATTCA
75677065 TTGCATGTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.21, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTCATTCATCATTCATTCAAC
Found at i:75683545 original size:44 final size:44
Alignment explanation
Indices: 75683470--75683580 Score: 116
Period size: 44 Copynumber: 2.5 Consensus size: 44
75683460 AAAAAAAGGG
** * *
75683470 TCAAAATGAAAACCCGAAAAGGGTGTTTTGATTAACACAGAAGA
1 TCAAAATGAAAACCCGAAAAGGGCCTCTTGATTAACACAAAAGA
* * *
75683514 TCAAGATGAAAACTCGAAAGGGGCCTCTTGATTAACACAAAAGA
1 TCAAAATGAAAACCCGAAAAGGGCCTCTTGATTAACACAAAAGA
* ** *
75683558 TTAGGACGAAAACCC-AAAAGGGC
1 TCAAAATGAAAACCCGAAAAGGGC
75683581 ATTCTAATGA
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
43 7 0.13
44 48 0.87
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (44 bp):
TCAAAATGAAAACCCGAAAAGGGCCTCTTGATTAACACAAAAGA
Found at i:75684458 original size:75 final size:74
Alignment explanation
Indices: 75684362--75684558 Score: 247
Period size: 75 Copynumber: 2.7 Consensus size: 74
75684352 TGATGTTTTT
* **
75684362 ATTTCTGTTTTCAAAAAAATCAACTCCTATTGCGAGAGGTGAGTTGAGCCTCAAG-ACACGTTGA
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGCACACGCCGA
75684426 GGTATTTTCA
66 GGTA-TTTCA
* ** *
75684436 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGTCACATGCC
1 ATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-CACACGCC
75684501 GAGGTATTTCA
64 GAGGTATTTCA
** * *
75684512 AAATCTGTTTTC--AAAAATCAACACATATTGCGAGAGGAGAGTTGAGC
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
75684559 ATTGGCTTAC
Statistics
Matches: 108, Mismatches: 12, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
73 32 0.30
74 8 0.07
75 47 0.44
76 11 0.10
77 10 0.09
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (74 bp):
ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGCACACGCCGA
GGTATTTCA
Found at i:75686380 original size:28 final size:28
Alignment explanation
Indices: 75686342--75686448 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
75686332 CAATCATTCG
* *
75686342 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
75686370 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
75686398 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
75686426 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
75686449 ATTTGATTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:75688449 original size:13 final size:13
Alignment explanation
Indices: 75688431--75688483 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
75688421 TACCCTATGG
*
75688431 TCTGCCACTACCT
1 TCTGCCACCACCT
*
75688444 TCTGCCACCACCG
1 TCTGCCACCACCT
* *
75688457 TCGGCCACCTACCC
1 TCTGCCACC-ACCT
*
75688471 TCTACCACCACCT
1 TCTGCCACCACCT
75688484 GCTCCTCCAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
13 22 0.69
14 10 0.31
ACGTcount: A:0.17, C:0.53, G:0.09, T:0.21
Consensus pattern (13 bp):
TCTGCCACCACCT
Found at i:75688708 original size:27 final size:27
Alignment explanation
Indices: 75688669--75688724 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
75688659 CAGAAGGTGG
* *
75688669 TTTGTATCCTTTTCTTTTTTTCCTTCT
1 TTTGAATCCTTTTCTTTCTTTCCTTCT
* *
75688696 TTTGAATCTTTTTCTTTCTTTCTTTCT
1 TTTGAATCCTTTTCTTTCTTTCCTTCT
75688723 TT
1 TT
75688725 CTTTTTGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.05, C:0.20, G:0.04, T:0.71
Consensus pattern (27 bp):
TTTGAATCCTTTTCTTTCTTTCCTTCT
Found at i:75689408 original size:3 final size:3
Alignment explanation
Indices: 75689400--75689490 Score: 62
Period size: 3 Copynumber: 31.0 Consensus size: 3
75689390 CTTATGACTG
* * * * * * *
75689400 TTA TTA TTA ATA TTC TTA TTA TCA CTA TTA TTT TTT TTA TT- TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
75689447 ATA -TA TTA TTA CTA -TA GTTA CTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
75689491 ATTTTTAATA
Statistics
Matches: 68, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
2 6 0.09
3 60 0.88
4 2 0.03
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:75689728 original size:43 final size:42
Alignment explanation
Indices: 75689621--75689702 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 42
75689611 TTTATTTGAA
75689621 AAAACGCCGCTAAAGATCATGACCATTAGCGGCGCTTTTCCC
1 AAAACGCCGCTAAAGATCATGACCATTAGCGGCGCTTTTCCC
*
75689663 ACAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTT
1 A-AAACGCCGCTAAAGATCATGACCATTAGCGGCGCTTTT
75689703 TTTTAAAACA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
42 1 0.03
43 37 0.97
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (42 bp):
AAAACGCCGCTAAAGATCATGACCATTAGCGGCGCTTTTCCC
Found at i:75699036 original size:22 final size:22
Alignment explanation
Indices: 75699011--75699053 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
75699001 TTAATCATCT
75699011 TTAACGTTAACAACAGGATTCC
1 TTAACGTTAACAACAGGATTCC
* *
75699033 TTAACGTTAATAGCAGGATTC
1 TTAACGTTAACAACAGGATTC
75699054 GCAAGAATGT
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:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (22 bp):
TTAACGTTAACAACAGGATTCC
Found at i:75700525 original size:41 final size:40
Alignment explanation
Indices: 75700440--75700515 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
75700430 GTTATATGAC
* *
75700440 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTTTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATACTATGT
* *
75700480 TTTTAGCGGCGTTTTTGCCAAAA-CGCCGCTATTACT
1 TTTTAGCGGCG-TTTTACCAAAAGCGCCGCTAATACT
75700516 CAATTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 22 0.69
41 10 0.31
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATACTATGT
Found at i:75700652 original size:3 final size:3
Alignment explanation
Indices: 75700636--75700894 Score: 64
Period size: 3 Copynumber: 85.3 Consensus size: 3
75700626 TTATTTTCTT
* * * * *
75700636 TTA TTA TAA ATA TTA TTA CTA TTA TT- TTA TACA CTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * *
75700680 TCA -TA TT- TTC TTT TTA -TA TTA TTA TT- TT- TTA TTA TTA TTT TTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
* * *
75700724 TGTA CGTA TTA TT- TATA TTA TTA -TA TCTA TTT TTA CCTCTA TTA TAA
1 T-TA -TTA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA --T-TA TTA TTA
* *
75700771 TTA TTA TTA ATA TTA GTA TATA TT- TTA TTA TATA TGTA TATA TATA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T-TA T-TA T-TA T-TA
* * *
75700817 CTTT TTA TATA GTA TTA TT- TTT TCTA TTA TTA -TA TTA -TA TTTA TTA
1 -TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA -TTA TTA
* *
75700863 TT- TTCA CTA TTA TTA TT- TT- TTA TCA TTA TTA T
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA T
75700895 ACATATATAC
Statistics
Matches: 189, Mismatches: 37, Indels: 60
0.66 0.13 0.21
Matches are distributed among these distances:
2 30 0.16
3 121 0.64
4 33 0.17
5 3 0.02
6 2 0.01
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:75700698 original size:13 final size:14
Alignment explanation
Indices: 75700655--75700894 Score: 84
Period size: 15 Copynumber: 16.4 Consensus size: 14
75700645 ATATTATTAC
* *
75700655 TATTATTTTATACAC
1 TATTATTTT-TATAT
75700670 TATTATTTTATCATAT
1 TATTATTTT-T-ATAT
*
75700686 T-TTCTTTTTATAT
1 TATTATTTTTATAT
75700699 TATTATTTTT-TAT
1 TATTATTTTTATAT
*
75700712 TATTATTTTTCAT-G
1 TATTATTTTT-ATAT
*
75700726 TACGTATTATTTATAT
1 TA-TTATT-TTTATAT
* *
75700742 TATTATATCTAT-T
1 TATTATTTTTATAT
** *
75700755 T-TTACCTCTATTAT
1 TATTATTTTTA-TAT
* *
75700769 AATTATTATTAATAT
1 TATTATT-TTTATAT
*
75700784 TAGTATATATTT-TAT
1 TA-T-TATTTTTATAT
* *
75700799 TA-TATATGTATA-
1 TATTATTTTTATAT
75700811 TATATACTTTTTATAT
1 TAT-TA-TTTTTATAT
*
75700827 AGTATTATTTTTTCTAT
1 --TATTA-TTTTTATAT
*
75700844 TATTA-TATTATATT
1 TATTATTTTTATA-T
*
75700858 TATTATTTTCACTAT
1 TATTATTTTTA-TAT
75700873 TATTATTTTTTATCAT
1 TATTA-TTTTTAT-AT
75700889 TATTAT
1 TATTAT
75700895 ACATATATAC
Statistics
Matches: 170, Mismatches: 30, Indels: 50
0.68 0.12 0.20
Matches are distributed among these distances:
12 15 0.09
13 28 0.16
14 23 0.14
15 61 0.36
16 27 0.16
17 13 0.08
18 3 0.02
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (14 bp):
TATTATTTTTATAT
Found at i:75700702 original size:16 final size:16
Alignment explanation
Indices: 75700683--75700721 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
75700673 TATTTTATCA
75700683 TATTTTCTTTTTA-TAT
1 TATTTT-TTTTTATTAT
*
75700699 TATTATTTTTTATTAT
1 TATTTTTTTTTATTAT
75700715 TATTTTT
1 TATTTTT
75700722 CATGTACGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTTTTTTTTATTAT
Found at i:75700708 original size:15 final size:15
Alignment explanation
Indices: 75700655--75700721 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 15
75700645 ATATTATTAC
* * *
75700655 TATTATTTTATACAC
1 TATTATTTTTTATAT
*
75700670 TATTATTTTATCATAT
1 TATTATTTT-TTATAT
*
75700686 T-TT-CTTTTTATAT
1 TATTATTTTTTATAT
75700699 TATTA-TTTTT-TAT
1 TATTATTTTTTATAT
75700712 TATTATTTTT
1 TATTATTTTT
75700722 CATGTACGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
13 14 0.33
14 14 0.33
15 11 0.26
16 3 0.07
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTATTTTTTATAT
Found at i:75700713 original size:10 final size:11
Alignment explanation
Indices: 75700670--75700720 Score: 52
Period size: 10 Copynumber: 4.8 Consensus size: 11
75700660 TTTTATACAC
75700670 TATTATTTTAT
1 TATTATTTTAT
* *
75700681 CA-TATTTTCT
1 TATTATTTTAT
* *
75700691 TTTTATATTAT
1 TATTATTTTAT
75700702 TATT-TTTTAT
1 TATTATTTTAT
75700712 TATTATTTT
1 TATTATTTT
75700721 TCATGTACGT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
10 16 0.53
11 14 0.47
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.73
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:75701046 original size:15 final size:16
Alignment explanation
Indices: 75701026--75701061 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
75701016 TATATTATGT
75701026 ATATTAT-TTTTTTAA
1 ATATTATATTTTTTAA
*
75701041 ATATTATATTTTTTAT
1 ATATTATATTTTTTAA
75701057 ATATT
1 ATATT
75701062 TTGTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATATTATATTTTTTAA
Found at i:75701072 original size:13 final size:11
Alignment explanation
Indices: 75701045--75701124 Score: 54
Period size: 11 Copynumber: 6.7 Consensus size: 11
75701035 TTTTAAATAT
75701045 TATATTTTTTA
1 TATATTTTTTA
75701056 TATATTTTGTATA
1 TATATTTT-T-TA
75701069 TATATTTTTTTAA
1 TATA-TTTTTT-A
*
75701082 TATCATATTATTCA
1 TAT-AT-TT-TTTA
*
75701096 TATATTTTAT-
1 TATATTTTTTA
* *
75701106 TATATTATGTA
1 TATATTTTTTA
75701117 TATATTTT
1 TATATTTT
75701125 AATAACTATA
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
10 8 0.15
11 16 0.29
12 4 0.07
13 14 0.25
14 11 0.20
15 2 0.04
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (11 bp):
TATATTTTTTA
Found at i:75701102 original size:40 final size:40
Alignment explanation
Indices: 75701016--75701113 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 40
75701006 TTAATACTCT
* * * *
75701016 TATATTATGTATATTATTTTTTTAAATATTATATTTTTTA
1 TATATTTTGTATATTATTTTTTTAAATATCATATTATTCA
75701056 TATATTTTGTATATATATTTTTTT-AATATCATATTATTCA
1 TATATTTTGTATAT-TATTTTTTTAAATATCATATTATTCA
*
75701096 TATATTTTATTATATTAT
1 TATATTTT-GTATATTAT
75701114 GTATATATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 37 0.73
41 14 0.27
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (40 bp):
TATATTTTGTATATTATTTTTTTAAATATCATATTATTCA
Found at i:75701134 original size:25 final size:25
Alignment explanation
Indices: 75701076--75701222 Score: 82
Period size: 25 Copynumber: 6.1 Consensus size: 25
75701066 ATATATATTT
*
75701076 TTTTAATATC-ATATTAT-TCATATA
1 TTTTAATAACTATATTATGT-ATATA
75701100 TTTT-AT---TATATTATGTATATA
1 TTTTAATAACTATATTATGTATATA
*
75701121 TTTTAATAACTATATTATGTATGTA
1 TTTTAATAACTATATTATGTATATA
* ** *
75701146 TTTTTAA-CACTATATTACATACATA
1 -TTTTAATAACTATATTATGTATATA
* * *
75701171 CTTTTAATATC-ATTATTACGTATCTA
1 -TTTTAATAACTA-TATTATGTATATA
*
75701197 TTATTAAT-A-TATA-TATGTGTATA
1 TT-TTAATAACTATATTATGTATATA
75701220 TTT
1 TTT
75701223 ATGTAGTATT
Statistics
Matches: 96, Mismatches: 16, Indels: 24
0.71 0.12 0.18
Matches are distributed among these distances:
21 16 0.17
22 4 0.04
23 11 0.11
24 6 0.06
25 37 0.39
26 22 0.23
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.53
Consensus pattern (25 bp):
TTTTAATAACTATATTATGTATATA
Found at i:75701282 original size:11 final size:11
Alignment explanation
Indices: 75701266--75701306 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
75701256 TTATTTCTAA
75701266 TATGTATATAT
1 TATGTATATAT
*
75701277 TATGTACATAT
1 TATGTATATAT
*
75701288 T-TTTA-ATAT
1 TATGTATATAT
75701297 TATGTATATA
1 TATGTATATA
75701307 CTTTTTATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
9 5 0.20
10 6 0.24
11 14 0.56
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (11 bp):
TATGTATATAT
Found at i:75701296 original size:20 final size:21
Alignment explanation
Indices: 75701273--75701313 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
75701263 TAATATGTAT
75701273 ATATTATGTACATA-TTTTTA
1 ATATTATGTACATACTTTTTA
*
75701293 ATATTATGTATATACTTTTTA
1 ATATTATGTACATACTTTTTA
75701314 TTCCTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (21 bp):
ATATTATGTACATACTTTTTA
Found at i:75701406 original size:18 final size:18
Alignment explanation
Indices: 75701368--75701402 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
75701358 TATATATCGT
*
75701368 TATTATTAGTTATTTTTA
1 TATTATTAGCTATTTTTA
75701386 TATTATTA-CTATTTTTA
1 TATTATTAGCTATTTTTA
75701403 ATATATATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (18 bp):
TATTATTAGCTATTTTTA
Found at i:75701441 original size:136 final size:135
Alignment explanation
Indices: 75701182--75701427 Score: 304
Period size: 136 Copynumber: 1.8 Consensus size: 135
75701172 TTTTAATATC
* * * * *
75701182 ATTATTACGTATCTATTATTAATATATATATGTGTATATTTATGTAGTATTACTAATAGTTGTTT
1 ATTATTACGTATATATTATTAATACATATATGTATATATTTATATAGTATTACTAATAGTTATTT
*
75701247 TTAATATTATTATTTCTAATATGTATATATTATGTACATATTTTTAATATTATGTATATACTTTT
66 TTAATATTACTATTTCTAATA-GTATATATTA-GTACATATTTTTAATATTATGTATATACTTTT
75701312 TATTCCT
129 TATTCCT
* * *
75701319 ATTATTACGTATATATT-TTAATACATATATGTATATATTTATATA-TCGTTATTATTAGTTATT
1 ATTATTACGTATATATTATTAATACATATATGTATATATTTATATAGT-ATTACTAATAGTTATT
* *
75701382 TTTATATTATTACTATTTTTAATA-TATAT-TGTA-TATATATTTTTAA
65 TTTA-A-TATTACTATTTCTAATAGTATATAT-TAGTACATATTTTTAA
75701428 ATCTAGTATT
Statistics
Matches: 94, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
134 12 0.13
135 2 0.02
136 48 0.51
137 17 0.18
138 15 0.16
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (135 bp):
ATTATTACGTATATATTATTAATACATATATGTATATATTTATATAGTATTACTAATAGTTATTT
TTAATATTACTATTTCTAATAGTATATATTAGTACATATTTTTAATATTATGTATATACTTTTTA
TTCCT
Found at i:75701489 original size:3 final size:3
Alignment explanation
Indices: 75701483--75701509 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
75701473 TTCATATTTA
75701483 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
75701510 CATGTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:75704653 original size:21 final size:19
Alignment explanation
Indices: 75704603--75704653 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 19
75704593 AACCAATAAA
*
75704603 TCTATGTAAATCCCTAACT
1 TCTATGTAAAGCCCTAACT
75704622 TCTA-GAATAAAGCCCTTAACT
1 TCTATG--TAAAGCCC-TAACT
75704643 TCTATCGTAAA
1 TCTAT-GTAAA
75704654 TATATTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
18 1 0.04
19 4 0.15
20 7 0.27
21 13 0.50
23 1 0.04
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (19 bp):
TCTATGTAAAGCCCTAACT
Found at i:75708988 original size:19 final size:19
Alignment explanation
Indices: 75708961--75708997 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
75708951 CCATTTAAAC
*
75708961 AATACTTCATCAATATAAT
1 AATAATTCATCAATATAAT
*
75708980 AATAATTCATCCATATAA
1 AATAATTCATCAATATAA
75708998 CACATAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (19 bp):
AATAATTCATCAATATAAT
Found at i:75709209 original size:23 final size:23
Alignment explanation
Indices: 75709170--75709259 Score: 83
Period size: 24 Copynumber: 3.7 Consensus size: 23
75709160 GCTGATGGAT
*
75709170 AGTAAGTTCTACTGAGCTGA-AAC
1 AGTAAGCTCTAC-GAGCTGAGAAC
75709193 AGTAAGCTCTGACGAGCTGAGAAC
1 AGTAAGCTCT-ACGAGCTGAGAAC
* *
75709217 AGTAAGCTCTTACGATCTGATATATC
1 AGTAAGCTC-TACGAGCTGAGA-A-C
*
75709243 GGTAAGCTCATACGAGC
1 AGTAAGCTC-TACGAGC
75709260 CGAGGTGAGT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
23 16 0.29
24 23 0.41
25 2 0.04
26 15 0.27
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (23 bp):
AGTAAGCTCTACGAGCTGAGAAC
Found at i:75713129 original size:13 final size:13
Alignment explanation
Indices: 75713111--75713136 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
75713101 CTTTATAGTC
75713111 ACTTTATTCAGCT
1 ACTTTATTCAGCT
75713124 ACTTTATTCAGCT
1 ACTTTATTCAGCT
75713137 GTCTATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (13 bp):
ACTTTATTCAGCT
Found at i:75719182 original size:19 final size:20
Alignment explanation
Indices: 75719143--75719181 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
75719133 CTTTTGAAAT
75719143 TTAATTTTTATATTAAAAAA
1 TTAATTTTTATATTAAAAAA
75719163 TTAATGTTTTAT-TTAAAAA
1 TTAAT-TTTTATATTAAAAA
75719182 TCTCAATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
TTAATTTTTATATTAAAAAA
Found at i:75721330 original size:28 final size:28
Alignment explanation
Indices: 75721298--75721353 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
75721288 TTATAATACC
75721298 AAGGATTCATAAAGTTTAAAGCATTATT
1 AAGGATTCATAAAGTTTAAAGCATTATT
75721326 AAGGATTCATAAAGTTTAAAGCATTATT
1 AAGGATTCATAAAGTTTAAAGCATTATT
75721354 TAGTTTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (28 bp):
AAGGATTCATAAAGTTTAAAGCATTATT
Found at i:75729203 original size:2 final size:2
Alignment explanation
Indices: 75729196--75729228 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
75729186 TACATATGTA
*
75729196 AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
75729229 AATAGTAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:75729268 original size:27 final size:28
Alignment explanation
Indices: 75729220--75729281 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
75729210 ATATATATAT
*
75729220 ATATATATAAATAGTAGTAGTGTTGGAA
1 ATATATATAAATAGTAGTAGTGTTAGAA
*
75729248 ATATACTATATATA-TA-TAGTGTTAGAA
1 ATATA-TATAAATAGTAGTAGTGTTAGAA
*
75729275 GTATATA
1 ATATATA
75729282 CATAAGATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 2 0.07
27 14 0.47
28 7 0.23
29 7 0.23
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.39
Consensus pattern (28 bp):
ATATATATAAATAGTAGTAGTGTTAGAA
Found at i:75731116 original size:22 final size:22
Alignment explanation
Indices: 75731059--75731116 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
75731049 TACGAGGACT
* *
75731059 GTGGAGGTATGGGACTGTTGTA
1 GTGGGGGTATGGGGCTGTTGTA
75731081 GTGGGGGTATGGGGCTGTTGTA
1 GTGGGGGTATGGGGCTGTTGTA
75731103 GTGGGGGTATGGGG
1 GTGGGGGTATGGGG
75731117 TTGCTTCATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.12, C:0.03, G:0.55, T:0.29
Consensus pattern (22 bp):
GTGGGGGTATGGGGCTGTTGTA
Found at i:75732037 original size:88 final size:87
Alignment explanation
Indices: 75731753--75732068 Score: 302
Period size: 88 Copynumber: 3.6 Consensus size: 87
75731743 GATCTTGAGT
* * *
75731753 TCAACTCATTTCTCGCAATATGAGTTGACTCTTT-AAAAACAGACATTAAAAACAAAAACTGAAA
1 TCAACTCATCTCTCGCAATATGAGTTGACT-TTTGAAAAACAGA-ATTAAAAACAGAAATTGAAA
* * *
75731817 ATATCTCAGCATGTGAACTGAGGC
64 ATACCTCAGCACGTGAACCGAGGC
* * *
75731841 TCAACTCA-CTTCTCGCAATATGAGTTGATTTTTGAAAAAAAATACA-AATCAAAAACAGAATTT
1 TCAACTCATC-TCTCGCAATATGAGTTGACTTTTG----AAAA-ACAGAATTAAAAACAGAAATT
* **
75731904 AAAAATACCTCAG--CGTGCCCCGAGGC
60 GAAAATACCTCAGCACGTGAACCGAGGC
* * ** *
75731930 TTAACTCATCTCTTGCAATATGAGTTGTA-TTTTGACGAACGGAATTTAAAAACAGAAATTGAAA
1 TCAACTCATCTCTCGCAATATGAGTTG-ACTTTTGAAAAACAGAA-TTAAAAACAGAAATTGAAA
* * *
75731994 ATAGCTCAGCACGTGAGCCAAGGC
64 ATACCTCAGCACGTGAACCGAGGC
*
75732018 TCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAA
1 TCAACTCATCTCTCGCAATATGAGTTGACTTTTGAAAAACAG-AATTAAAA
75732069 GGCTTAACTC
Statistics
Matches: 184, Mismatches: 29, Indels: 30
0.76 0.12 0.12
Matches are distributed among these distances:
84 2 0.01
85 4 0.02
86 24 0.13
87 4 0.02
88 78 0.42
89 39 0.21
90 2 0.01
91 23 0.12
92 5 0.03
93 3 0.02
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.27
Consensus pattern (87 bp):
TCAACTCATCTCTCGCAATATGAGTTGACTTTTGAAAAACAGAATTAAAAACAGAAATTGAAAAT
ACCTCAGCACGTGAACCGAGGC
Found at i:75732222 original size:70 final size:70
Alignment explanation
Indices: 75732068--75732410 Score: 297
Period size: 74 Copynumber: 4.9 Consensus size: 70
75732058 AGAAATTAAA
* * ** ** * *
75732068 AGGCTTAACTCACCTCTCGCAAGATGAGTCAATTTTCTAAACATAAACTAAAAATACCTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-GGAACAGAAATTAAAAATACCTCAGCGT
* *
75732133 GCCCCG
65 GTCCTG
* *
75732139 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGGAACAGAAATTAAAATTACCTCAACGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGGAACAGAAATTAAAAATACCTCAGCGTG
75732204 TCCTG
66 TCCTG
* * * *
75732209 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAACAACAGGAATTAAAAATACTTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG---GAACAGAAATTAAAAATACCTCAG
*
75732274 CGTGACCTG
62 CGTGTCCTG
** ** * *
75732283 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTG-A-A-ACA-T---AATACCTCAGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGGAACAGAAATTAAAAATACCTCAGCGTG
75732341 TGACCTG
66 T--CCTG
** * *
75732348 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAACATG-AATTAAAGATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG-GAACA-GAAATTAAAAATACCTCAG
75732411 AGTACCCAAA
Statistics
Matches: 216, Mismatches: 40, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
63 13 0.06
65 30 0.14
66 5 0.02
67 1 0.00
68 2 0.01
69 2 0.01
70 58 0.27
71 38 0.18
73 4 0.02
74 63 0.29
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (70 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGGAACAGAAATTAAAAATACCTCAGCGTG
TCCTG
Found at i:75755645 original size:21 final size:21
Alignment explanation
Indices: 75755616--75755671 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
75755606 ATTAACACAT
75755616 AATAATAATGATAATAATAAC
1 AATAATAATGATAATAATAAC
* *
75755637 AATATTAATGATATTAATAATTC
1 AATAATAATGATAATAATAA--C
*
75755660 AAAAATAATGAT
1 AATAATAATGAT
75755672 GATATTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 18 0.62
23 11 0.38
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (21 bp):
AATAATAATGATAATAATAAC
Found at i:75756731 original size:22 final size:22
Alignment explanation
Indices: 75756674--75756731 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
75756664 TACGAGGACT
* *
75756674 GTGGAGGTATGGGACTGTTGTA
1 GTGGGGGTATGGGGCTGTTGTA
75756696 GTGGGGGTATGGGGCTGTTGTA
1 GTGGGGGTATGGGGCTGTTGTA
75756718 GTGGGGGTATGGGG
1 GTGGGGGTATGGGG
75756732 TTGCTTCATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.12, C:0.03, G:0.55, T:0.29
Consensus pattern (22 bp):
GTGGGGGTATGGGGCTGTTGTA
Found at i:75757077 original size:45 final size:44
Alignment explanation
Indices: 75757013--75757148 Score: 148
Period size: 45 Copynumber: 3.0 Consensus size: 44
75757003 TTTTGCAGAC
*
75757013 AAGTTACTAGTAC-AGTGTGGATAAACCACTCATCGGTGCAGATAA
1 AAGTTACTAATACGA-TGTGGATAAACCACTCAT-GGTGCAGATAA
* * *
75757058 AAGTTACTAATACGATGTGGATAAATCACTCATTGGTGCATAAAA
1 AAGTTACTAATACGATGTGGATAAACCACTCA-TGGTGCAGATAA
* * * * *
75757103 AAGTTGCTAATATGGTGTGGATAAACCATTCAATGGTGTAGATAA
1 AAGTTACTAATACGATGTGGATAAACCACTC-ATGGTGCAGATAA
75757148 A
1 A
75757149 CTGCTCATAT
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
45 73 0.96
46 3 0.04
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (44 bp):
AAGTTACTAATACGATGTGGATAAACCACTCATGGTGCAGATAA
Found at i:75760236 original size:22 final size:20
Alignment explanation
Indices: 75760215--75760275 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 20
75760205 GGTTTTAAAT
75760215 TTAGATTTCTGAAAAACAAAA
1 TTAGATTTCTGAAAAA-AAAA
75760236 TTAG--TT-TGAAAAAAAAA
1 TTAGATTTCTGAAAAAAAAA
75760253 GTTAGATTCTCTGTAAAAAAAAA
1 -TTAGATT-TCTG-AAAAAAAAA
75760276 GTTCATAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
17 4 0.12
18 11 0.32
19 2 0.06
20 1 0.03
21 5 0.15
22 2 0.06
23 9 0.26
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (20 bp):
TTAGATTTCTGAAAAAAAAA
Found at i:75760519 original size:17 final size:17
Alignment explanation
Indices: 75760479--75760521 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
75760469 TCTAGCTTTC
75760479 ACAATTTAAGTTTTCAA
1 ACAATTTAAGTTTTCAA
*
75760496 ACTATTTAAGTTTTTCAA
1 ACAATTTAAG-TTTTCAA
75760514 A-AATTTAA
1 ACAATTTAA
75760522 ATTTAAAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (17 bp):
ACAATTTAAGTTTTCAA
Found at i:75763528 original size:20 final size:20
Alignment explanation
Indices: 75763489--75763528 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
75763479 ATTTTCGTTA
*
75763489 TTACTATTATTAGCATATTT
1 TTACTATTATTAGCAAATTT
75763509 TTACTATTATTTAG-AAATTT
1 TTACTATTA-TTAGCAAATTT
75763529 GTTAGTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
TTACTATTATTAGCAAATTT
Found at i:75763750 original size:21 final size:20
Alignment explanation
Indices: 75763713--75763753 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
75763703 ACTAGTATTA
* *
75763713 GTATATGTTTTATTATATAT
1 GTATATATTTTAATATATAT
75763733 GTATATATCTTTAATATATAT
1 GTATATAT-TTTAATATATAT
75763754 ATATGTATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.56
Consensus pattern (20 bp):
GTATATATTTTAATATATAT
Found at i:75763927 original size:12 final size:12
Alignment explanation
Indices: 75763892--75763935 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
75763882 TTACCATTAC
75763892 TATTATTACTAT
1 TATTATTACTAT
**
75763904 TGCTA-TATCTAT
1 TATTATTA-CTAT
75763916 TATTATTACTAT
1 TATTATTACTAT
75763928 TATTATTA
1 TATTATTA
75763936 TTATATTCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 2 0.08
12 22 0.85
13 2 0.08
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:75764260 original size:22 final size:23
Alignment explanation
Indices: 75764221--75764265 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
75764211 TACTACCACC
*
75764221 GTTATTTTTATTATCATATTATT
1 GTTATTTTTATTACCATATTATT
75764244 GTTATTTTT-TTACCATATTATT
1 GTTATTTTTATTACCATATTATT
75764266 ATTTCCTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.64
Consensus pattern (23 bp):
GTTATTTTTATTACCATATTATT
Found at i:75764347 original size:3 final size:3
Alignment explanation
Indices: 75764339--75764458 Score: 79
Period size: 3 Copynumber: 40.3 Consensus size: 3
75764329 AATTTCACTT
* * *
75764339 TTA TTA TTA TTA CTA -TA TTA TCA TTG TTA TTA TTA TT- TTCCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT--A TTA
* * * * *
75764384 TTA TTA ATA TTA ATA TTAA TT- TTC TTA TTA TTA CTA TTA TTA GTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
75764429 TCA -TA GGTA TTA -TA TTA TTA TTA TTA TTA T
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA T
75764459 CTTTTATATT
Statistics
Matches: 91, Mismatches: 17, Indels: 18
0.72 0.13 0.14
Matches are distributed among these distances:
2 9 0.10
3 75 0.82
4 5 0.05
5 2 0.02
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:75769568 original size:23 final size:22
Alignment explanation
Indices: 75769533--75769576 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
75769523 CCTAAATTTT
75769533 TAAAATTAAAAATTAAAAAAATC
1 TAAAATTAAAAA-TAAAAAAATC
* * *
75769556 TAAATTTATAAATAATAAAAT
1 TAAAATTAAAAATAAAAAAAT
75769577 AATTTATAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAAATTAAAAATAAAAAAATC
Found at i:75769936 original size:17 final size:17
Alignment explanation
Indices: 75769909--75769943 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
75769899 TTTAATTGTG
75769909 AAAATTCTAAAAATAAAA
1 AAAATTCT-AAAATAAAA
75769927 AAAATT-TAAAATAAAA
1 AAAATTCTAAAATAAAA
75769943 A
1 A
75769944 TAAAAATAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.59
17 1 0.06
18 6 0.35
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAATTCTAAAATAAAA
Found at i:75771899 original size:16 final size:16
Alignment explanation
Indices: 75771878--75771922 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
75771868 TAAATATTAA
**
75771878 ATTTTTTTAAATTGTT
1 ATTTTTTTAAATAATT
75771894 ATTTTTATTAAATAATT
1 ATTTTT-TTAAATAATT
75771911 ATTTTATTTAAA
1 ATTTT-TTTAAA
75771923 AAAATTAGCG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.24
17 18 0.72
18 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
ATTTTTTTAAATAATT
Found at i:75773584 original size:29 final size:27
Alignment explanation
Indices: 75773539--75773618 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 27
75773529 AAAAAAGAGG
* *
75773539 CTAGCTAGATGAATTAGCAAAAATGAAA
1 CTAGCTAGAAGAGTTAGCAAAAATG-AA
* *
75773567 CCTAGCT-GAAAGAGTTAGAAAAAAATGGA
1 -CTAGCTAG-AAGAGTTAG-CAAAAATGAA
75773596 CTAGCTAGAAGAGTTAGCAAAAA
1 CTAGCTAGAAGAGTTAGCAAAAA
75773619 AAACAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
27 5 0.12
28 16 0.37
29 15 0.35
30 7 0.16
ACGTcount: A:0.49, C:0.11, G:0.21, T:0.19
Consensus pattern (27 bp):
CTAGCTAGAAGAGTTAGCAAAAATGAA
Found at i:75773593 original size:30 final size:29
Alignment explanation
Indices: 75773539--75773620 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 29
75773529 AAAAAAGAGG
* *
75773539 CTAGCTAGATGAATTAGC--AAAAATGAAA
1 CTAGCTAGAAGAGTTAGCAAAAAAATG-AA
*
75773567 CCTAGCT-GAAAGAGTTAG-AAAAAAATGGA
1 -CTAGCTAG-AAGAGTTAGCAAAAAAATGAA
75773596 CTAGCTAGAAGAGTTAGCAAAAAAA
1 CTAGCTAGAAGAGTTAGCAAAAAAA
75773621 ACAAAAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
28 16 0.36
29 22 0.49
30 7 0.16
ACGTcount: A:0.50, C:0.11, G:0.21, T:0.18
Consensus pattern (29 bp):
CTAGCTAGAAGAGTTAGCAAAAAAATGAA
Found at i:75773828 original size:28 final size:28
Alignment explanation
Indices: 75773707--75773838 Score: 86
Period size: 28 Copynumber: 4.5 Consensus size: 28
75773697 GAGCTAACTA
* * *
75773707 AAAAAAGGCGTTAGCCT-GATGAGTTTTC
1 AAAAAAGGGGTTAG-CTAGAAGAGTTTGC
* *
75773735 TAAAAAGGAGTTAGCTAGAAGAGTTTGC
1 AAAAAAGGGGTTAGCTAGAAGAGTTTGC
* * * * *
75773763 CAAAAATGGGTTAACCAGAAGAGTTAGAC
1 AAAAAAGGGGTTAGCTAGAAGAGTTTG-C
*
75773792 TAAAAAAAAAGGGGCTAGCTAGAAGAGTTTGC
1 ----AAAAAAGGGGTTAGCTAGAAGAGTTTGC
*
75773824 AAAAATGGGAGTTAG
1 AAAAAAGGG-GTTAG
75773839 TAAGAATAGT
Statistics
Matches: 79, Mismatches: 18, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
27 2 0.03
28 50 0.63
29 5 0.06
32 1 0.01
33 21 0.27
ACGTcount: A:0.41, C:0.10, G:0.27, T:0.22
Consensus pattern (28 bp):
AAAAAAGGGGTTAGCTAGAAGAGTTTGC
Found at i:75773858 original size:61 final size:61
Alignment explanation
Indices: 75773736--75773858 Score: 160
Period size: 61 Copynumber: 2.0 Consensus size: 61
75773726 TGAGTTTTCT
* *
75773736 AAAAAGGAGTTAGCTAGAAGAGTTTGCCAAAAATGGGTTAACCAGAAGAGTTAGACTAAAA
1 AAAAAGGAGCTAGCTAGAAGAGTTTGCCAAAAATGGGTTAACAAGAAGAGTTAGACTAAAA
* ** *
75773797 AAAAAGGGGCTAGCTAGAAGAGTTTG-CAAAAATGGGAGTTAGTAAGAATAGTTAGAC-AAAA
1 AAAAAGGAGCTAGCTAGAAGAGTTTGCCAAAAAT-GG-GTTAACAAGAAGAGTTAGACTAAAA
75773858 A
1 A
75773859 GGAGGTATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
60 7 0.13
61 31 0.57
62 16 0.30
ACGTcount: A:0.46, C:0.08, G:0.26, T:0.20
Consensus pattern (61 bp):
AAAAAGGAGCTAGCTAGAAGAGTTTGCCAAAAATGGGTTAACAAGAAGAGTTAGACTAAAA
Found at i:75775378 original size:15 final size:15
Alignment explanation
Indices: 75775358--75775389 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
75775348 GGCTCTTGGC
75775358 ACCACCATGGTGTGA
1 ACCACCATGGTGTGA
75775373 ACCACCATGGTGTGA
1 ACCACCATGGTGTGA
75775388 AC
1 AC
75775390 TATCCCAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.19
Consensus pattern (15 bp):
ACCACCATGGTGTGA
Found at i:75782247 original size:10 final size:11
Alignment explanation
Indices: 75782210--75782261 Score: 52
Period size: 12 Copynumber: 4.6 Consensus size: 11
75782200 TTAAAATTGG
*
75782210 TTTATTTCCTT
1 TTTATTTACTT
*
75782221 TTTATTGTACAT
1 TTTATT-TACTT
75782233 TTTATTT-CTT
1 TTTATTTACTT
*
75782243 TTTATTTATTT
1 TTTATTTACTT
75782254 ATTTATTT
1 -TTTATTT
75782262 TTCTTTACCT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
10 9 0.26
11 9 0.26
12 16 0.47
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.73
Consensus pattern (11 bp):
TTTATTTACTT
Found at i:75782336 original size:3 final size:3
Alignment explanation
Indices: 75782328--75782355 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
75782318 ACTTTTATAT
75782328 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
75782356 GCATATTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:75784459 original size:57 final size:61
Alignment explanation
Indices: 75784396--75784522 Score: 145
Period size: 62 Copynumber: 2.1 Consensus size: 61
75784386 TATTAATTTC
* **
75784396 ATTATTTATA-T-ATTAATTTATTTATTATTCTTCA-CTTTTT-AAATACGTAAAGTTAAT
1 ATTATTTATATTGATTAATATATTTATTATTCTTCATCTTTTTAAAATACCCAAAGTTAAT
* * * * *
75784453 ATTATTTATATTTGTTTTATATATTTATTATTCTTTATTTTTTTAAAATACCCAAATTTAAT
1 ATTATTTATA-TTGATTAATATATTTATTATTCTTCATCTTTTTAAAATACCCAAAGTTAAT
75784515 ATTATTTA
1 ATTATTTA
75784523 CATCTATTAT
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
57 10 0.18
59 1 0.02
60 19 0.33
61 5 0.09
62 22 0.39
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.57
Consensus pattern (61 bp):
ATTATTTATATTGATTAATATATTTATTATTCTTCATCTTTTTAAAATACCCAAAGTTAAT
Found at i:75784540 original size:62 final size:59
Alignment explanation
Indices: 75784413--75784543 Score: 145
Period size: 62 Copynumber: 2.2 Consensus size: 59
75784403 ATATATTAAT
** * * * *
75784413 TTATTTATTATTCTTCACTTTTTAAATACGTAAAGTTAATATTATTTATATTTGTTTTA
1 TTATTTATTATTCTTCACTTTTTAAATACCCAAAGTTAATATTATTTACATCTATTATA
* * *
75784472 TATATTTATTATTCTTTATTTTTTTAAAATACCCAAATTTAATATTATTTACATCTATTATA
1 T-TATTTATTATTCTTCA-CTTTTT-AAATACCCAAAGTTAATATTATTTACATCTATTATA
75784534 GTTATTTATT
1 -TTATTTATT
75784544 TTTTGTTCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
59 1 0.02
60 15 0.25
61 5 0.08
62 37 0.63
63 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (59 bp):
TTATTTATTATTCTTCACTTTTTAAATACCCAAAGTTAATATTATTTACATCTATTATA
Found at i:75784648 original size:79 final size:80
Alignment explanation
Indices: 75784559--75784705 Score: 201
Period size: 79 Copynumber: 1.9 Consensus size: 80
75784549 TTCATTATTC
**
75784559 TTTTATCTTTTAAACAT-TTAAATGTAATATTATTTACATTT-TTTTATCAATTTACTTATTTAT
1 TTTTATCTTTTAAA-ATATT-AATGTAATATTATGCACATTTATTTTATCAATTTACTTATTTAT
75784622 TTATTTATTTATCTTTA
64 TTATTTATTTATCTTTA
* * * *
75784639 TTTTA-CTTTTAAAATATTTATTTAATATTATGCATATTTATTTTATCTATTTACTTATTTATTT
1 TTTTATCTTTTAAAATATTAATGTAATATTATGCACATTTATTTTATCAATTTACTTATTTATTT
75784703 ATT
66 ATT
75784706 ATTCTTTTAC
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 18 0.31
79 36 0.61
80 5 0.08
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.62
Consensus pattern (80 bp):
TTTTATCTTTTAAAATATTAATGTAATATTATGCACATTTATTTTATCAATTTACTTATTTATTT
ATTTATTTATCTTTA
Found at i:75784823 original size:71 final size:70
Alignment explanation
Indices: 75784619--75784887 Score: 237
Period size: 73 Copynumber: 3.8 Consensus size: 70
75784609 TTTACTTATT
* * * * * *
75784619 TATTTATTTATTTATCT-TTATTTTACTTTTAAAATATTT--ATTTAATATTATGCATATTTATT
1 TATTTATTCATTTATTTATTCTTTTACTTTTAAAACATTTGAATTTAATATTATTCATATTTGTT
*
75784681 TTATC
66 TTGTC
* *
75784686 TATTTACTT-ATTTATTTATTATTCTTTTACTTTGTAAATGC--TTGAATTTAATATTGTTCATA
1 TATTTA-TTCATTTA--T-TTATTCTTTTACTTT-TAAA-ACATTTGAATTTAATATTATTCATA
75784748 TTTGTTTTGTC
60 TTTGTTTTGTC
* * *
75784759 TATTTATTCACTTATTTATTCTTTTACCTTTTAAAACATTTGAATTTGATATTATTTATATTTGT
1 TATTTATTCATTTATTTATTCTTTTA-CTTTTAAAACATTTGAATTTAATATTATTCATATTTG-
75784824 TTTTGTC
64 TTTTGTC
* * * * *
75784831 AATTTA-TCATTTTATTTATTCTTTTACCTTTTTAAAATACTTCAATTTAATGTTATT
1 TATTTATTCA-TTTATTTATTCTTTTA-C-TTTTAAAACATTTGAATTTAATATTATT
75784888 TGTTTTATCT
Statistics
Matches: 166, Mismatches: 20, Indels: 26
0.78 0.09 0.12
Matches are distributed among these distances:
67 11 0.07
68 2 0.01
69 2 0.01
70 16 0.10
71 43 0.26
72 35 0.21
73 57 0.34
ACGTcount: A:0.27, C:0.09, G:0.04, T:0.60
Consensus pattern (70 bp):
TATTTATTCATTTATTTATTCTTTTACTTTTAAAACATTTGAATTTAATATTATTCATATTTGTT
TTGTC
Found at i:75791485 original size:89 final size:88
Alignment explanation
Indices: 75791343--75792125 Score: 634
Period size: 89 Copynumber: 8.8 Consensus size: 88
75791333 CATCGTTGCG
* * * * *
75791343 AATCTCATCTCT-TGAAGTTGTAGTGGAGCAGATT-AA-ATCCACAAATCTTATCTCATTAAAGT
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGAT--ACAAATCTTATCTCCTTGAAGT
*
75791405 TGCAGTGGAGCAGATTGAAGATAACA
64 TGCAGTGGAGCAGATTGAAG-TTACA
* * * * * *
75791431 AATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTATAAACCTTATCT-CTCCGAAGTT
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGATACAAATCTTATCTCCT-TGAAGTT
* * *
75791495 ACAGTGGAGTAGGTTGAAGTTACA
65 GCAGTGGAGCAGATTGAAGTTACA
* * * ** * *
75791519 AGTCTTATATCCCTGAAGTTATAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTTTGAAGTT
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGATA-CAAATCTTATCTCCTTGAAGTT
* * **
75791584 GCAGTAGG-GCAGATTAAAGCTGTA
65 GCAGT-GGAGCAGATTGAAGTTACA
* * * * * * * * *
75791608 AACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCACCCTGAAGTTG
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGATACAAATCTTATCTCCTTGAAGTTG
* * *
75791673 CAGTAGAGTAGATTGAAGATAGCA
66 CAGTGGAGCAGATTGAAGTTA-CA
* * * * * * * *
75791697 AATCTTATCTCTTTGAAGTTGCAATAGAGCAGATTAAAGTTATAAACCTTATCTCCCTAAAGTTG
1 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGATACAAATCTTATCTCCTTGAAGTTG
* *
75791762 CAGTGGAACAGGTTGAAGTTACA
66 CAGTGGAGCAGATTGAAGTTACA
* * * * * * * *
75791785 AGTTTTATCTCGT-TGAAGTTGCAGTGGAGTAAATCGAAGATAGCAAATCTTATCTCTTTAAAGT
1 AATCTTATCTC-TCTGAAGTTGCAGTAGAGCAGATTGAAGATA-CAAATCTTATCTCCTTGAAGT
* * *
75791849 TGCAGTAGAGCATATTGAAGTTATA
64 TGCAGTGGAGCAGATTGAAGTTACA
* *
75791874 AATCTTATCTC-CATGAAGTTGCAGTAGAGTAGATCGAAGATGGA-AAATCTTATCT-CTCTGAA
1 AATCTTATCTCTC-TGAAGTTGCAGTAGAGCAGATTGAAGAT--ACAAATCTTATCTCCT-TGAA
* *
75791936 GTTGCAGTAGAGCAGATTGAAGCTACA
62 GTTGCAGTGGAGCAGATTGAAGTTACA
* * * *
75791963 AATCTGATCT-TCCTGAAGTTGCAATAGAGCAGATTGAAGTTACTAATCTTATCTCCTTGAAGTT
1 AATCTTATCTCT-CTGAAGTTGCAGTAGAGCAGATTGAAGATACAAATCTTATCTCCTTGAAGTT
* *
75792027 GCAGTGGAGTAGATTGAAGTGACA
65 GCAGTGGAGCAGATTGAAGTTACA
* * * * *
75792051 AGTCCTATAC-CTCTAAAGTTGGAATGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTG
1 AATCTTAT-CTCTCTGAAG-T----TGCAGTAGAGCAGATTGAAGATACAAATCTTATCTCCTTG
*
75792115 AAGATGCAGTG
60 AAGTTGCAGTG
75792126 TGTAATGAAC
Statistics
Matches: 551, Mismatches: 117, Indels: 49
0.77 0.16 0.07
Matches are distributed among these distances:
87 2 0.00
88 163 0.30
89 333 0.60
90 6 0.01
91 2 0.00
93 45 0.08
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (88 bp):
AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGATACAAATCTTATCTCCTTGAAGTTG
CAGTGGAGCAGATTGAAGTTACA
Found at i:75791547 original size:133 final size:132
Alignment explanation
Indices: 75791401--75792124 Score: 769
Period size: 133 Copynumber: 5.4 Consensus size: 132
75791391 TATCTCATTA
*
75791401 AAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATT
1 AAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT
* *
75791466 AAAGCTATAAACCTTATCTCTCCGAAGTTACAGTGGAGTAGGTTGAAGTTACAAGTCTTATATCC
66 AAAGTTATAAACCTTATCTC-CCGAAGTTGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATATCC
75791531 CTG
130 CTG
** * * *
75791534 AAGTTATAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTTTGAAGTTGCAGTAGGGCAGATT
1 AAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT
* * * *
75791599 AAAGCTGTAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCA-C
66 AAAGTTATAAACCTTATCTCCC-GAAGTTGCAGTGGAGTAGGTTGAAGTTACAAGTCTTAT-ATC
75791663 CCTG
129 CCTG
* * * * *
75791667 AAGTTGCAGTAGAGTAGATTGAAGATAGCAAATCTTATCTCTTTGAAGTTGCAATAGAGCAGATT
1 AAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT
* ** * * *
75791732 AAAGTTATAAACCTTATCTCCCTAAAGTTGCAGTGGAACAGGTTGAAGTTACAAGTTTTATCTCG
66 AAAGTTATAAACCTTATCTCCC-GAAGTTGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATATCC
*
75791797 TTG
130 CTG
* * * * * * *
75791800 AAGTTGCAGTGGAGTAAATCGAAGATAGCAAATCTTATCTCTTTAAAGTTGCAGTAGAGCATATT
1 AAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT
* * * * * * * * *
75791865 GAAGTTATAAATCTTATCTCCATGAAGTTGCAGTAGAGTAGATCGAAGATGGA-AAATCTTATCT
66 AAAGTTATAAACCTTATCTCC-CGAAGTTGCAGTGGAGTAGGTTGAAG-T-TACAAGTCTTATAT
*
75791929 CTCTG
128 CCCTG
* * * *
75791934 AAGTTGCAGTAGAGCAGATTGAAGCT-ACAAATCTGATCT-TCCTGAAGTTGCAATAGAGCAGAT
1 AAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCT-CTGAAGTTGCAGTAGAGCAGAT
* * * * * *
75791997 TGAAGTTACT-AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGTGACAAGTCCTATA-
65 TAAAGTTA-TAAACCTTATCTCC-CGAAGTTGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATAT
*
75792060 CCTCTA
128 CC-CTG
* *
75792066 AAGTTGGAATGCAGTGGAGCAGATTGAAGAT-ACAAATCTTATCTCCCTGAAGATGCAGT
1 AAG-T----TGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCTCTGAAGTTGCAGT
75792125 GTGTAATGAA
Statistics
Matches: 507, Mismatches: 68, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
131 3 0.01
132 16 0.03
133 408 0.80
134 36 0.07
135 1 0.00
137 43 0.08
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (132 bp):
AAGTTGCAGTGGAGCAGATTGAAGATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT
AAAGTTATAAACCTTATCTCCCGAAGTTGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATATCCC
TG
Found at i:75792042 original size:44 final size:44
Alignment explanation
Indices: 75791343--75792125 Score: 621
Period size: 44 Copynumber: 17.6 Consensus size: 44
75791333 CATCGTTGCG
* * * *
75791343 AATCTCATCT-CTTGAAGTTGTAGTGGAGCAGATT-AAATCCACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGT-TACA
* * *
75791386 AATCTTATCTCATTAAAGTTGCAGTGGAGCAGATTGAAGATAACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAG-TTACA
* * * * *
75791431 AATCTTATCT-CTCTGAAGTTGCAGTAGAGTAGATTAAAGCTATA
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * * *
75791475 AACCTTATCT-CTCCGAAGTTACAGTGGAGTAGGTTGAAGTTACA
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * ** *
75791519 AGTCTTATATCCCTGAAGTTATAGTGGAGCAGATTGAAGATAGCA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CA
* * * **
75791564 AATCTTATCTCTTTGAAGTTGCAGTAGG-GCAGATTAAAGCTGTA
1 AATCTTATCTCCTTGAAGTTGCAGT-GGAGCAGATTGAAGTTACA
* * * *
75791608 AACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * * * *
75791652 AGTCTTATCACCCTGAAGTTGCAGTAGAGTAGATTGAAGATAGCA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CA
* * * * *
75791697 AATCTTATCTCTTTGAAGTTGCAATAGAGCAGATTAAAGTTATA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * * *
75791741 AACCTTATCTCCCTAAAGTTGCAGTGGAACAGGTTGAAGTTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * * * * *
75791785 AGTTTTATCTCGTTGAAGTTGCAGTGGAGTAAATCGAAGATAGCA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CA
* * * * *
75791830 AATCTTATCTCTTTAAAGTTGCAGTAGAGCATATTGAAGTTATA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * * *
75791874 AATCTTATCTCCATGAAGTTGCAGTAGAGTAGATCGAAGATGGA-A
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAG-T-TACA
* *
75791919 AATCTTATCT-CTCTGAAGTTGCAGTAGAGCAGATTGAAGCTACA
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * *
75791963 AATCTGATCTTCC-TGAAGTTGCAATAGAGCAGATTGAAGTTACT
1 AATCTTATC-TCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* *
75792007 AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGTGACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
* * * * *
75792051 AGTCCTAT-ACCTCTAAAGTTGGAATGCAGTGGAGCAGATTGAAGATACA
1 AATCTTATCTCCT-TGAAG-T----TGCAGTGGAGCAGATTGAAGTTACA
* *
75792100 AATCTTATCTCCCTGAAGATGCAGTG
1 AATCTTATCTCCTTGAAGTTGCAGTG
75792126 TGTAATGAAC
Statistics
Matches: 582, Mismatches: 134, Indels: 47
0.76 0.18 0.06
Matches are distributed among these distances:
43 18 0.03
44 346 0.59
45 179 0.31
46 5 0.01
49 32 0.05
50 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
Found at i:75792538 original size:16 final size:16
Alignment explanation
Indices: 75792517--75792595 Score: 65
Period size: 16 Copynumber: 4.8 Consensus size: 16
75792507 TAAGTTAAAA
75792517 AGAAAGAAAGAAAGAT
1 AGAAAGAAAGAAAGAT
*
75792533 AGAAAGATAGAAAGAGTT
1 AGAAAGAAAGAAAGA--T
*
75792551 ACAAAG--AGCAAACG-T
1 AGAAAGAAAG-AAA-GAT
*
75792566 GAGAAAGAAAGAAAGAA
1 -AGAAAGAAAGAAAGAT
75792583 AGAAAGAAAGAAA
1 AGAAAGAAAGAAA
75792596 TAGAAAAGGG
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
15 1 0.02
16 35 0.69
17 6 0.12
18 9 0.18
ACGTcount: A:0.65, C:0.04, G:0.25, T:0.06
Consensus pattern (16 bp):
AGAAAGAAAGAAAGAT
Found at i:75792576 original size:4 final size:4
Alignment explanation
Indices: 75792567--75792595 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
75792557 AGCAAACGTG
75792567 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
75792596 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:75799833 original size:4 final size:4
Alignment explanation
Indices: 75799824--75799852 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
75799814 AGCAAACGTG
75799824 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
75799853 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:75801847 original size:44 final size:44
Alignment explanation
Indices: 75801776--75802020 Score: 213
Period size: 44 Copynumber: 5.4 Consensus size: 44
75801766 GGACGTTACA
* * * *
75801776 CAGTGGAGTAGATTGAAGACGCTAATCTTATCTCCCTGAAATTG
1 CAGTGGAGCAGATTGAAGATGCGAATCTTATCTCCCTGAAGTTG
* *
75801820 CAGTGGAGCATATTGAAGATGCGAATCTTTAT-TTCCTGAAGTTG
1 CAGTGGAGCAGATTGAAGATGCGAATC-TTATCTCCCTGAAGTTG
* * * * * *
75801864 CAGTGGAATGGATTAATGGTACAAGTTACAAATCTTATCTCCCTGAAGTTG
1 CAGTGG-A-GCA--GAT--T-GAAGATGCGAATCTTATCTCCCTGAAGTTG
* * *
75801915 CAGTGGAGCAGATTGAAGATGCGACTCTTATTTCCCTGAAGTTA
1 CAGTGGAGCAGATTGAAGATGCGAATCTTATCTCCCTGAAGTTG
* * * * * *
75801959 CAATGGAGCAGATTGAAGTTACTAATCTTATCTTCCTAAAGTTG
1 CAGTGGAGCAGATTGAAGATGCGAATCTTATCTCCCTGAAGTTG
*
75802003 TAGTGGAGCAGATTGAAG
1 CAGTGGAGCAGATTGAAG
75802021 CGACAATTCC
Statistics
Matches: 159, Mismatches: 33, Indels: 18
0.76 0.16 0.09
Matches are distributed among these distances:
44 113 0.71
45 6 0.04
46 2 0.01
47 2 0.01
48 2 0.01
49 2 0.01
50 6 0.04
51 26 0.16
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (44 bp):
CAGTGGAGCAGATTGAAGATGCGAATCTTATCTCCCTGAAGTTG
Found at i:75803546 original size:12 final size:12
Alignment explanation
Indices: 75803520--75803557 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
75803510 AATTTTGACC
75803520 TTTTATATA-TA
1 TTTTATATATTA
75803531 TTTTATATATTA
1 TTTTATATATTA
75803543 TTTTA-ATTATTA
1 TTTTATA-TATTA
75803555 TTT
1 TTT
75803558 GTTTATTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTATATATTA
Found at i:75803731 original size:3 final size:3
Alignment explanation
Indices: 75803719--75803761 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
75803709 CGTACTTTTA
* *
75803719 TAT T-T TAT TAT TAT TAC CAT TAT TAT TAT TAT TAT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
75803762 GCATATTGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:75803925 original size:4 final size:4
Alignment explanation
Indices: 75803908--75803937 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
75803898 TTTAGTCGTT
75803908 TTTA TTTCA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTT-A TTTA TTTA TTTA TTTA TTTA T
75803938 CATTCTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:75812545 original size:24 final size:24
Alignment explanation
Indices: 75812446--75812546 Score: 73
Period size: 24 Copynumber: 4.2 Consensus size: 24
75812436 TATTATCATT
* * *
75812446 CATCCATCAGGGGATAAGATTTCA
1 CATCCCTCAAGGGATAATATTTCA
*
75812470 CATCCCTCAAGGGATCATATTTCA
1 CATCCCTCAAGGGATAATATTTCA
* * *
75812494 CAT-TCTTAA-GGA-AATACTATTCTG
1 CATCCCTCAAGGGATAATA-T-TTC-A
*
75812518 TATCCCTCAAGGGATAATATTTCA
1 CATCCCTCAAGGGATAATATTTCA
*
75812542 TATCC
1 CATCC
75812547 TTTAGGGGAC
Statistics
Matches: 59, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
21 3 0.05
22 4 0.07
23 7 0.12
24 30 0.51
25 7 0.12
26 4 0.07
27 4 0.07
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (24 bp):
CATCCCTCAAGGGATAATATTTCA
Found at i:75812570 original size:48 final size:48
Alignment explanation
Indices: 75812471--75812580 Score: 121
Period size: 48 Copynumber: 2.3 Consensus size: 48
75812461 AAGATTTCAC
* * * *
75812471 ATCCCTCAAGGGATCATATTTCACATTCTTAAGGAAATACTATTCTGT
1 ATCCCTCAAGGGATAATATTTCACATCCTTAAGGAAACACTATTATGT
* * ** * *
75812519 ATCCCTCAAGGGATAATATTTCATATCCTTTAGGGGACATTATTATTT
1 ATCCCTCAAGGGATAATATTTCACATCCTTAAGGAAACACTATTATGT
*
75812567 ATCCCTAAAGGGAT
1 ATCCCTCAAGGGAT
75812581 TTTATGATTA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (48 bp):
ATCCCTCAAGGGATAATATTTCACATCCTTAAGGAAACACTATTATGT
Found at i:75817041 original size:13 final size:13
Alignment explanation
Indices: 75817023--75817099 Score: 75
Period size: 13 Copynumber: 5.9 Consensus size: 13
75817013 AGTTCTTCAT
75817023 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
75817036 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
75817049 T-ATTGTGAAAAAG
1 TGCTTTTG-AAAAG
*
75817062 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
** *
75817075 CACTTTTGAGAAG
1 TGCTTTTGAAAAG
*
75817088 TGCTTTGGAAAA
1 TGCTTTTGAAAA
75817100 TTTTAATTGT
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
12 4 0.08
13 43 0.84
14 4 0.08
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:75817088 original size:26 final size:26
Alignment explanation
Indices: 75817025--75817099 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
75817015 TTCTTCATTG
*
75817025 CTTTTGAAAAGTGCTTTTGAAAAGTA
1 CTTTTGAAAAGTGCTTTTGAAAAGCA
* *
75817051 -TTGTGAAAAAGTGCTTTTGAGAAGCA
1 CTTTTG-AAAAGTGCTTTTGAAAAGCA
* *
75817077 CTTTTGAGAAGTGCTTTGGAAAA
1 CTTTTGAAAAGTGCTTTTGAAAA
75817100 TTTTAATTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
25 4 0.10
26 32 0.80
27 4 0.10
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
CTTTTGAAAAGTGCTTTTGAAAAGCA
Found at i:75818499 original size:23 final size:22
Alignment explanation
Indices: 75818472--75818514 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
75818462 TATATTTTTA
75818472 TAAAATTTTAAAACTCTAAATTC
1 TAAAATTTTAAAAC-CTAAATTC
*
75818495 TAAAATTTTAGAACCTAAAT
1 TAAAATTTTAAAACCTAAAT
75818515 CTTAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (22 bp):
TAAAATTTTAAAACCTAAATTC
Found at i:75826742 original size:16 final size:16
Alignment explanation
Indices: 75826721--75826755 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
75826711 ATATTTATTA
75826721 TAATTATTAAT-TAAAT
1 TAATTA-TAATATAAAT
75826737 TAATTATAATATAAAT
1 TAATTATAATATAAAT
75826753 TAA
1 TAA
75826756 ATGAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TAATTATAATATAAAT
Found at i:75826768 original size:21 final size:21
Alignment explanation
Indices: 75826729--75826768 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
75826719 TATAATTATT
* * *
75826729 AATTAAATTAATTATAATATA
1 AATTAAATGAAATAAAATATA
75826750 AATTAAATGAAATAAAATA
1 AATTAAATGAAATAAAATA
75826769 AACAAAAGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
AATTAAATGAAATAAAATATA
Found at i:75827585 original size:21 final size:20
Alignment explanation
Indices: 75827557--75827617 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 20
75827547 ATGGATAAGT
75827557 ATTGAAAATGAATTGTATATTG
1 ATTGAAAATGAATTG-A-ATTG
75827579 A-TGAAAAGTGAAATTGAATTG
1 ATTGAAAA-TG-AATTGAATTG
*
75827600 ATTCATAAATGAATTGAA
1 ATTGA-AAATGAATTGAA
75827618 AGTGATATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
21 18 0.53
22 8 0.24
23 8 0.24
ACGTcount: A:0.46, C:0.02, G:0.18, T:0.34
Consensus pattern (20 bp):
ATTGAAAATGAATTGAATTG
Found at i:75829173 original size:15 final size:15
Alignment explanation
Indices: 75829153--75829183 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
75829143 AAATATGTAC
75829153 ATGATTTGTGTCTGA
1 ATGATTTGTGTCTGA
75829168 ATGATTTGTGTCTGA
1 ATGATTTGTGTCTGA
75829183 A
1 A
75829184 ATGTCTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.06, G:0.26, T:0.45
Consensus pattern (15 bp):
ATGATTTGTGTCTGA
Found at i:75830163 original size:27 final size:27
Alignment explanation
Indices: 75830133--75830189 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
75830123 GAAAGTGTAA
75830133 ATACTAAGGTAATAATTATACTTTCTT
1 ATACTAAGGTAATAATTATACTTTCTT
75830160 ATACTAAGGTAATAATTATACTTTCTT
1 ATACTAAGGTAATAATTATACTTTCTT
75830187 ATA
1 ATA
75830190 GTTACAAGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.44
Consensus pattern (27 bp):
ATACTAAGGTAATAATTATACTTTCTT
Found at i:75831455 original size:19 final size:20
Alignment explanation
Indices: 75831415--75831455 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
75831405 TTGTTTAACT
*
75831415 ATTAAATGAAATTTAAAAAA
1 ATTAAATGAAAGTTAAAAAA
*
75831435 ATTAAAT-AAAGTTAAATAA
1 ATTAAATGAAAGTTAAAAAA
75831454 AT
1 AT
75831456 ATATAGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
ATTAAATGAAAGTTAAAAAA
Found at i:75832131 original size:15 final size:15
Alignment explanation
Indices: 75832111--75832140 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
75832101 TTCAACAAAA
*
75832111 CCAATTAGATATTTT
1 CCAATTAAATATTTT
75832126 CCAATTAAATATTTT
1 CCAATTAAATATTTT
75832141 TCTCAACCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (15 bp):
CCAATTAAATATTTT
Found at i:75833006 original size:32 final size:32
Alignment explanation
Indices: 75832964--75833026 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
75832954 CATCAGAGTG
75832964 TATGAATCAAGCATACATAGTTTATTATCCAC
1 TATGAATCAAGCATACATAGTTTATTATCCAC
* *
75832996 TATGAGTCAAGCATACATAGTTTGTTATCCA
1 TATGAATCAAGCATACATAGTTTATTATCCA
75833027 TTCAGGATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (32 bp):
TATGAATCAAGCATACATAGTTTATTATCCAC
Found at i:75833137 original size:17 final size:17
Alignment explanation
Indices: 75833115--75833149 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
75833105 GCTCCAATTT
75833115 GATGTACTATTAGTCTA
1 GATGTACTATTAGTCTA
75833132 GATGTACTATTAGTCTA
1 GATGTACTATTAGTCTA
75833149 G
1 G
75833150 TCAGTCACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (17 bp):
GATGTACTATTAGTCTA
Found at i:75834562 original size:19 final size:18
Alignment explanation
Indices: 75834538--75834580 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
75834528 CAAATAGTAT
*
75834538 TTCAATGTATAATTCTAAA
1 TTCAATATATAATT-TAAA
* *
75834557 TTCAATATGTCATTTAAA
1 TTCAATATATAATTTAAA
75834575 TTCAAT
1 TTCAAT
75834581 TCACTCACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.44
Consensus pattern (18 bp):
TTCAATATATAATTTAAA
Found at i:75835464 original size:18 final size:18
Alignment explanation
Indices: 75835441--75835478 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
75835431 AAATTGAAGG
75835441 TCTAGCTTCCGAGATGGA
1 TCTAGCTTCCGAGATGGA
*
75835459 TCTAGCTTCTGAGATGGA
1 TCTAGCTTCCGAGATGGA
75835477 TC
1 TC
75835479 AATCGGCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (18 bp):
TCTAGCTTCCGAGATGGA
Found at i:75835643 original size:13 final size:13
Alignment explanation
Indices: 75835625--75835651 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
75835615 GCTCAATAGG
75835625 GACACGCCCGTGT
1 GACACGCCCGTGT
75835638 GACACGCCCGTGT
1 GACACGCCCGTGT
75835651 G
1 G
75835652 CGATTGTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:75838242 original size:13 final size:13
Alignment explanation
Indices: 75838224--75838249 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
75838214 GCTTGATAGA
75838224 GACACGCCCGTGT
1 GACACGCCCGTGT
75838237 GACACGCCCGTGT
1 GACACGCCCGTGT
75838250 ACGATTGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:75841659 original size:273 final size:273
Alignment explanation
Indices: 75841172--75841716 Score: 867
Period size: 273 Copynumber: 2.0 Consensus size: 273
75841162 TTTTTAATCA
*
75841172 TGAGCACATACATCTTTTTGAAAATTTCCTCAAATGTTGATTACCAAGACAACTTTAGTTAAGAT
1 TGAGCACATACATCTTTTTGAAAATTTCCTCAAACGTTGATTACCAAGACAACTTTAGTTAAGAT
** * * **
75841237 GGATGCACAAAATTAGGATCGCTTTAAAAAATGATAATGTTGCTTATAATGTAGATTCATTGCAA
66 GGATGCACAAAATTAGGATAACTTTAAAAAATGATAATGTGGCTTATAAGGTAGACCCATTGCAA
* * * *
75841302 TAAATAGGCCTTGAAGCTCAAAATTATAGTTTCAATGGTCTAATATCATAAGGTTTGCTCGAAAA
131 TAAACAGGCCTTGAAGCTCAAAATTACAGTTTCAAGGGTCTAATATCATAAGGTTGGCTCGAAAA
* * * **
75841367 GGCTCAAACGATCCAAATAAATATTGCCTATATCATTTTAGATTTTTGTGTCTCCTAGGATTTTG
196 GGCTCAAACGATCCAAATAAATAGTGCCTATATCATTTTAGATTTTTATGTCTCCTAAGATTTCA
75841432 CCTCAAAAAAGTG
261 CCTCAAAAAAGTG
*
75841445 TGAGCACATACATCTTTTTGAAAATTTCCTCAAACGTTGATTACCTAGACAACTTTAGTTAAGAT
1 TGAGCACATACATCTTTTTGAAAATTTCCTCAAACGTTGATTACCAAGACAACTTTAGTTAAGAT
* * * *
75841510 GGGTGCACAAAATTAGGATAAC-TTAAAAAGGTGGTAATGTGGCTTATAAGGTAGACCCATTGTA
66 GGATGCACAAAATTAGGATAACTTTAAAAA-ATGATAATGTGGCTTATAAGGTAGACCCATTGCA
*
75841574 ATAAACAGGCCTTTAAGCTCAAAATTACAGTTTCAAGGGTCTAATATCATAAGGTTGGCTCGAAA
130 ATAAACAGGCCTTGAAGCTCAAAATTACAGTTTCAAGGGTCTAATATCATAAGGTTGGCTCGAAA
75841639 AGGCTCAAACGATCCAAATAAATAGTGCCTATATCATTTTAGATTTTTATGTCTCCTAAGATTTC
195 AGGCTCAAACGATCCAAATAAATAGTGCCTATATCATTTTAGATTTTTATGTCTCCTAAGATTTC
*
75841704 ACCTCAAGAAAGT
260 ACCTCAAAAAAGT
75841717 TACTAAGTCA
Statistics
Matches: 248, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
272 7 0.03
273 241 0.97
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (273 bp):
TGAGCACATACATCTTTTTGAAAATTTCCTCAAACGTTGATTACCAAGACAACTTTAGTTAAGAT
GGATGCACAAAATTAGGATAACTTTAAAAAATGATAATGTGGCTTATAAGGTAGACCCATTGCAA
TAAACAGGCCTTGAAGCTCAAAATTACAGTTTCAAGGGTCTAATATCATAAGGTTGGCTCGAAAA
GGCTCAAACGATCCAAATAAATAGTGCCTATATCATTTTAGATTTTTATGTCTCCTAAGATTTCA
CCTCAAAAAAGTG
Found at i:75843631 original size:16 final size:16
Alignment explanation
Indices: 75843610--75843656 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 16
75843600 GGATGGTGCG
75843610 GCGACAACGACAGCGT
1 GCGACAACGACAGCGT
*
75843626 GCGACAGCAACGACAGTGT
1 GCG--A-CAACGACAGCGT
75843645 GCGACAACGACA
1 GCGACAACGACA
75843657 ACAGTGACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 11 0.41
17 1 0.04
18 1 0.04
19 14 0.52
ACGTcount: A:0.34, C:0.30, G:0.30, T:0.06
Consensus pattern (16 bp):
GCGACAACGACAGCGT
Found at i:75843636 original size:19 final size:19
Alignment explanation
Indices: 75843614--75843650 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
75843604 GGTGCGGCGA
75843614 CAACGACAGCGTGCGACAG
1 CAACGACAGCGTGCGACAG
*
75843633 CAACGACAGTGTGCGACA
1 CAACGACAGCGTGCGACA
75843651 ACGACAACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.30, T:0.08
Consensus pattern (19 bp):
CAACGACAGCGTGCGACAG
Found at i:75843660 original size:19 final size:19
Alignment explanation
Indices: 75843613--75843662 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
75843603 TGGTGCGGCG
* *
75843613 ACAACGACAGCGTGCGACA
1 ACAACAACAGTGTGCGACA
* *
75843632 GCAACGACAGTGTGCGACA
1 ACAACAACAGTGTGCGACA
*
75843651 ACGACAACAGTG
1 ACAACAACAGTG
75843663 ACATGTGACA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.36, C:0.28, G:0.28, T:0.08
Consensus pattern (19 bp):
ACAACAACAGTGTGCGACA
Found at i:75855599 original size:46 final size:46
Alignment explanation
Indices: 75855532--75855855 Score: 463
Period size: 46 Copynumber: 7.0 Consensus size: 46
75855522 AAATCGATGT
* *
75855532 CCATGGCCACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATA
1 CCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATA
* *
75855578 CCATGGCAACCTGATATGAAATGTGTAAGACTATGGTTGAAAGATA
1 CCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATA
* *
75855624 CCATGGCAACGTGATATGAAATGTGTAAGACCATGGTTGAAAGATA
1 CCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATA
* *
75855670 CCATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGATA
1 CCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATA
75855716 CCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATA
1 CCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATA
* * *
75855762 CCATGGCAACATGACGA-GAAAATGAATAAGACCATGGTTGAAAGATA
1 CCATGGCAACCTGA-TATG-AAATGAGTAAGACCATGGTTGAAAGATA
* * * * *
75855809 CCATGGCAACATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATA
1 CCATGGCAACCTGATATG-AAATGAGTAAGACCATGGTTGAAAGATA
75855855 C
1 C
75855856 TATGACATCA
Statistics
Matches: 260, Mismatches: 16, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
46 218 0.84
47 42 0.16
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
CCATGGCAACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATA
Found at i:75859535 original size:17 final size:18
Alignment explanation
Indices: 75859513--75859550 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
75859503 AAAATATGAT
75859513 AATAAA-TTAAAAAAATA
1 AATAAATTTAAAAAAATA
*
75859530 AATAAATTTAAAAATATA
1 AATAAATTTAAAAAAATA
75859548 AAT
1 AAT
75859551 TTTTATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AATAAATTTAAAAAAATA
Found at i:75864436 original size:18 final size:16
Alignment explanation
Indices: 75864404--75864506 Score: 63
Period size: 16 Copynumber: 6.4 Consensus size: 16
75864394 TGTTGAATAA
* *
75864404 TAATAATACTTATATCT
1 TAATAATAATAATAT-T
75864421 TCAATAATAATAATATT
1 T-AATAATAATAATATT
* *
75864438 TAATAATCATACA-ATAA
1 TAATAATAATA-ATAT-T
* *
75864455 TAATATTTATAATATT
1 TAATAATAATAATATT
75864471 TAATAATAATACA-A--
1 TAATAATAATA-ATATT
*
75864485 TAATAAAAAT-ATATT
1 TAATAATAATAATATT
75864500 TAATAAT
1 TAATAAT
75864507 TAAATGAGAT
Statistics
Matches: 67, Mismatches: 11, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
12 1 0.01
13 1 0.01
14 9 0.13
15 6 0.09
16 22 0.33
17 16 0.24
18 12 0.18
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATAATATT
Found at i:75864452 original size:27 final size:24
Alignment explanation
Indices: 75864399--75864459 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 24
75864389 AAATATGTTG
*
75864399 AATAATAATAATACTTATATCTTC
1 AATAATAATAATACTTATATCTAC
*
75864423 AATAATAATAATATTTAATAATCATAC
1 AATAATAATAATACTT-AT-ATC-TAC
75864450 AATAATAATA
1 AATAATAATA
75864460 TTTATAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 15 0.47
25 2 0.06
26 3 0.09
27 12 0.38
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (24 bp):
AATAATAATAATACTTATATCTAC
Found at i:75864453 original size:24 final size:22
Alignment explanation
Indices: 75864426--75864481 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 22
75864416 TATCTTCAAT
75864426 AATAATAATATTTAATAATCATAC
1 AATAATAATATTT-ATAAT-ATAC
**
75864450 AATAATAATATTTATAATATTT
1 AATAATAATATTTATAATATAC
75864472 AATAATAATA
1 AATAATAATA
75864482 CAATAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 12 0.40
23 5 0.17
24 13 0.43
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (22 bp):
AATAATAATATTTATAATATAC
Found at i:75864490 original size:36 final size:34
Alignment explanation
Indices: 75864430--75864509 Score: 92
Period size: 33 Copynumber: 2.3 Consensus size: 34
75864420 TTCAATAATA
* *
75864430 ATAATATTTAATAATCATACAATAATAATAT-TT
1 ATAATATTTAATAATAATACAATAAAAATATATT
75864463 ATAATATTTAATAATAATACAATAATAAAAATATATT
1 ATAATATTTAATAATAATAC---AATAAAAATATATT
*
75864500 -TAATAATTAA
1 ATAATATTTAA
75864510 ATGAGATAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
33 19 0.47
36 19 0.47
37 2 0.05
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (34 bp):
ATAATATTTAATAATAATACAATAAAAATATATT
Found at i:75867589 original size:5 final size:5
Alignment explanation
Indices: 75867581--75867627 Score: 69
Period size: 5 Copynumber: 9.4 Consensus size: 5
75867571 GAGCAATACT
*
75867581 GAACA GAACA GAACA GAACA -AAGCA GAACA GAATA GAACA GAACA GA
1 GAACA GAACA GAACA GAACA GAA-CA GAACA GAACA GAACA GAACA GA
75867628 GCAAAACGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
4 2 0.05
5 34 0.89
6 2 0.05
ACGTcount: A:0.60, C:0.17, G:0.21, T:0.02
Consensus pattern (5 bp):
GAACA
Done.