Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold439
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: 1094049
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 1 of 7
Found at i:2475 original size:2 final size:2
Alignment explanation
Indices: 2468--2496 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2458 ATAGTGAATA
2468 AT AT 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 AT AT A
2497 GGAACGACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3412 original size:12 final size:12
Alignment explanation
Indices: 3388--3418 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
3378 ATATTTATAT
3388 ATAATAT-AATC
1 ATAATATAAATC
3399 ATAATATAAATC
1 ATAATATAAATC
3411 ATAATATA
1 ATAATATA
3419 TTTATATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.37
12 12 0.63
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATATAAATC
Found at i:3627 original size:3 final size:3
Alignment explanation
Indices: 3619--3645 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3609 AACTTAATTA
3619 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
3646 TTAGGTTGAA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4666 original size:2 final size:2
Alignment explanation
Indices: 4655--4688 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
4645 AAATGCCTTT
*
4655 TA TA -A TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4689 CTCAAATAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5528 original size:15 final size:15
Alignment explanation
Indices: 5510--5542 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
5500 AATTAATTAA
5510 TTTATTATTATTATT
1 TTTATTATTATTATT
5525 TTTATTATTATTATT
1 TTTATTATTATTATT
5540 TTT
1 TTT
5543 TATGAAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATTATTATTATT
Found at i:8352 original size:26 final size:27
Alignment explanation
Indices: 8323--8373 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
8313 ATTTTTGATT
* *
8323 GAAA-AACGGGGTTGGAGTATCCCCTC
1 GAAAGAACAGGGTTGAAGTATCCCCTC
*
8349 GAAAGAATAGGGTTGAAGTATCCCC
1 GAAAGAACAGGGTTGAAGTATCCCC
8374 GATGGTGACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.20
Consensus pattern (27 bp):
GAAAGAACAGGGTTGAAGTATCCCCTC
Found at i:10606 original size:20 final size:20
Alignment explanation
Indices: 10581--10665 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 20
10571 TTTTAACTAG
10581 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
10601 ATGTATCGATACATCTGGGTAAAAAGACAGA
1 ATGTATCGATACAT-T--G-----A-A-A-A
10632 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
10652 ATGTATCGATACAT
1 ATGTATCGATACAT
10666 CTAGGTACTT
Statistics
Matches: 54, Mismatches: 0, Indels: 22
0.71 0.00 0.29
Matches are distributed among these distances:
20 29 0.54
21 2 0.04
22 1 0.02
23 2 0.04
28 2 0.04
29 1 0.02
30 2 0.04
31 15 0.28
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:14543 original size:3 final size:3
Alignment explanation
Indices: 14535--14573 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
14525 TTATTTTTTA
*
14535 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14574 GCTATTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:15540 original size:2 final size:2
Alignment explanation
Indices: 15533--15562 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15523 GAACACATAA
15533 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15563 GGTAAATCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21141 original size:5 final size:5
Alignment explanation
Indices: 21131--21164 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
21121 GAAGTTGAAT
21131 TTAAA TTAAA TTAAA TTAAA TTAAA TTTAAA TTA
1 TTAAA TTAAA TTAAA TTAAA TTAAA -TTAAA TTA
21165 GGTTAGATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TTAAA
Found at i:21233 original size:13 final size:12
Alignment explanation
Indices: 21208--21242 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
21198 ATTTATATTT
*
21208 ATTTAAGTTTAA
1 ATTTAAATTTAA
21220 ATTTGAAATTTAA
1 ATTT-AAATTTAA
21233 ATTTAAATTT
1 ATTTAAATTT
21243 TATTGTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (12 bp):
ATTTAAATTTAA
Found at i:21244 original size:7 final size:6
Alignment explanation
Indices: 21208--21242 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
21198 ATTTATATTT
*
21208 ATTTAA GTTTAA ATTTGAA ATTTAA ATTTAA ATTT
1 ATTTAA ATTTAA ATTT-AA ATTTAA ATTTAA ATTT
21243 TATTGTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (6 bp):
ATTTAA
Found at i:21318 original size:24 final size:25
Alignment explanation
Indices: 21287--21340 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 25
21277 TATTTATATT
21287 ATAA-TTTTTT-AATTTAATTTTT-
1 ATAATTTTTTTAAATTTAATTTTTA
21309 ATAATTTTTTTAAATTTAATTTTTA
1 ATAATTTTTTTAAATTTAATTTTTA
21334 ATAATTT
1 ATAATTT
21341 AATAAGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.14
23 6 0.21
24 12 0.41
25 7 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
ATAATTTTTTTAAATTTAATTTTTA
Found at i:21339 original size:15 final size:14
Alignment explanation
Indices: 21264--21343 Score: 71
Period size: 13 Copynumber: 5.7 Consensus size: 14
21254 TTGTAAATAA
21264 ATAATTTATATTTTAT
1 ATAATTTA-ATTTT-T
*
21280 TTATATTATAATTTTT
1 ATA-ATT-TAATTTTT
21296 -TAATTTAATTTTT
1 ATAATTTAATTTTT
21309 ATAA-TT--TTTTT
1 ATAATTTAATTTTT
21320 A-AATTTAATTTTT
1 ATAATTTAATTTTT
21333 AATAATTTAAT
1 -ATAATTTAAT
21344 AAGTTTTTTA
Statistics
Matches: 55, Mismatches: 1, Indels: 17
0.75 0.01 0.23
Matches are distributed among these distances:
10 2 0.04
11 8 0.15
13 15 0.27
14 7 0.13
15 10 0.18
16 3 0.05
17 8 0.15
18 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATAATTTAATTTTT
Found at i:21339 original size:39 final size:38
Alignment explanation
Indices: 21268--21343 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 38
21258 AAATAAATAA
*
21268 TTTATATTTTATTTATATTATAATTTTTTAATTTAATT
1 TTTATATTTTATTTAAATTATAATTTTTTAATTTAATT
21306 TTTATAATTTT-TTTAAATT-TAATTTTTAATAATTTAAT
1 TTTAT-ATTTTATTTAAATTATAATTTTT--TAATTTAAT
21344 AAGTTTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
37 8 0.24
38 12 0.35
39 14 0.41
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (38 bp):
TTTATATTTTATTTAAATTATAATTTTTTAATTTAATT
Found at i:21936 original size:16 final size:17
Alignment explanation
Indices: 21904--21944 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
21894 ATATAAAAAA
*
21904 TTAATTATATATATTTT
1 TTAATTTTATATATTTT
21921 TTAATTTTAT-TATTTT
1 TTAATTTTATATATTTT
*
21937 TAAATTTT
1 TTAATTTT
21945 TTAATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTAATTTTATATATTTT
Found at i:25956 original size:51 final size:52
Alignment explanation
Indices: 25840--25976 Score: 204
Period size: 51 Copynumber: 2.7 Consensus size: 52
25830 TTACCTACAC
* * * *
25840 GTATCGATGCATTGAAGAATGTATCGATATATTTGGGTCAAAAACCTAGAAT
1 GTATCGATACAATGAAAAATGTATCGATACATTTGGGTCAAAAACCTAGAAT
*
25892 ATATCGATACAATGAAAAATGTATCGATACATTTGGGTC-AAAACCTAGAAT
1 GTATCGATACAATGAAAAATGTATCGATACATTTGGGTCAAAAACCTAGAAT
* *
25943 GTATCGATACAATGAAAAATGTATCTATAGATTT
1 GTATCGATACAATGAAAAATGTATCGATACATTT
25977 TCATTCAAGA
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
51 43 0.56
52 34 0.44
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.31
Consensus pattern (52 bp):
GTATCGATACAATGAAAAATGTATCGATACATTTGGGTCAAAAACCTAGAAT
Found at i:27280 original size:18 final size:18
Alignment explanation
Indices: 27231--27280 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
27221 GAGGAAGAAA
* *
27231 ATCTAGTTTGAATAAGAT
1 ATCTAATTTGAATTAGAT
*
27249 ATTCT-ATTTGAATTAGTT
1 A-TCTAATTTGAATTAGAT
27267 ATCTAATTTGAATT
1 ATCTAATTTGAATT
27281 TTAAATTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 3 0.11
18 21 0.78
19 3 0.11
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.48
Consensus pattern (18 bp):
ATCTAATTTGAATTAGAT
Found at i:28537 original size:20 final size:21
Alignment explanation
Indices: 28490--28542 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
28480 GCCAATCACT
*
28490 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
*
28511 AGTATCGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
28531 TGTATCGATACA
1 TGTATCGATACA
28543 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 14 0.50
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:28548 original size:13 final size:13
Alignment explanation
Indices: 28530--28554 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28520 ACATTTGGTC
28530 ATGTATCGATACA
1 ATGTATCGATACA
28543 ATGTATCGATAC
1 ATGTATCGATAC
28555 TGTGCATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:29155 original size:23 final size:22
Alignment explanation
Indices: 29108--29152 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
29098 TTTCCTTTTC
29108 TCTCCCCCTTAATCAAAAAATT
1 TCTCCCCCTTAATCAAAAAATT
29130 TCTCCCCCTTAAT-AAAACAATT
1 TCTCCCCCTTAATCAAAA-AATT
29152 T
1 T
29153 TCTTTAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (22 bp):
TCTCCCCCTTAATCAAAAAATT
Found at i:31025 original size:13 final size:13
Alignment explanation
Indices: 31007--31045 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
30997 TATAAACCCT
31007 TTGTATCGATACA
1 TTGTATCGATACA
31020 TTGTATCGATACA
1 TTGTATCGATACA
*
31033 ATGTATCGATACA
1 TTGTATCGATACA
31046 GAGAATGCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:37232 original size:13 final size:13
Alignment explanation
Indices: 37214--37238 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37204 AATTTGGTCA
37214 TGTATCGATACAT
1 TGTATCGATACAT
37227 TGTATCGATACA
1 TGTATCGATACA
37239 AACAGTTAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:37307 original size:21 final size:21
Alignment explanation
Indices: 37281--37335 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
37271 CCAATCACCT
37281 GTATCGATACATTCTTTGCAA
1 GTATCGATACATTCTTTGCAA
37302 GTATCGATACATTCTTTGCAA
1 GTATCGATACATTCTTTGCAA
37323 GTATCGATACATT
1 GTATCGATACATT
37336 TGGTCATGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (21 bp):
GTATCGATACATTCTTTGCAA
Found at i:37348 original size:20 final size:20
Alignment explanation
Indices: 37323--37386 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
37313 TTCTTTGCAA
37323 GTATCGATACATTTGGTCAT
1 GTATCGATACATTTGGTCAT
37343 GTATCGATACA-------AT
1 GTATCGATACATTTGGTCAT
37356 GTATCGATACATTTGGTCAT
1 GTATCGATACATTTGGTCAT
37376 GTATCGATACA
1 GTATCGATACA
37387 CTATATCGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 13 0.35
20 24 0.65
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (20 bp):
GTATCGATACATTTGGTCAT
Found at i:37359 original size:13 final size:13
Alignment explanation
Indices: 37341--37366 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37331 ACATTTGGTC
37341 ATGTATCGATACA
1 ATGTATCGATACA
37354 ATGTATCGATACA
1 ATGTATCGATACA
37367 TTTGGTCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:37365 original size:33 final size:33
Alignment explanation
Indices: 37323--37386 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
37313 TTCTTTGCAA
37323 GTATCGATACATTTGGTCATGTATCGATACAAT
1 GTATCGATACATTTGGTCATGTATCGATACAAT
37356 GTATCGATACATTTGGTCATGTATCGATACA
1 GTATCGATACATTTGGTCATGTATCGATACA
37387 CTATATCGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (33 bp):
GTATCGATACATTTGGTCATGTATCGATACAAT
Found at i:37394 original size:33 final size:33
Alignment explanation
Indices: 37324--37394 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
37314 TCTTTGCAAG
*
37324 TATCGATACATTTGGTCATGTATCGATACAATG
1 TATCGATACATTTGGTCATGTATCGATACAATA
*
37357 TATCGATACATTTGGTCATGTATCGATACACTA
1 TATCGATACATTTGGTCATGTATCGATACAATA
37390 TATCG
1 TATCG
37395 GTACTGTGCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (33 bp):
TATCGATACATTTGGTCATGTATCGATACAATA
Found at i:38510 original size:50 final size:50
Alignment explanation
Indices: 38449--38545 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 50
38439 TGAATAGTAC
* *
38449 ATGTATTGATACATTCTG-TTTTTTACCCAGATGTATCGATACATTTTTTA
1 ATGTATCGATACATTCTGTTTTTTTACCCAAATGTATCGATAC-TTTTTTA
*
38499 ATGTATCGATACATTTTGTTTTTTTACCCAAATGTATCGATACTTTT
1 ATGTATCGATACATTCTGTTTTTTTACCCAAATGTATCGATACTTTT
38546 ACATTTTTCA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 20 0.47
51 23 0.53
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.48
Consensus pattern (50 bp):
ATGTATCGATACATTCTGTTTTTTTACCCAAATGTATCGATACTTTTTTA
Found at i:38553 original size:57 final size:50
Alignment explanation
Indices: 38449--38569 Score: 143
Period size: 57 Copynumber: 2.3 Consensus size: 50
38439 TGAATAGTAC
* * *
38449 ATGTATTGATACATTCTGTTTTTTACCCAGATGTATCGATACATTTTTTA
1 ATGTATCGATACATTCTGTTTTTTACCCAAATGTATCGATACATTTTTCA
*
38499 ATGTATCGATACATTTTGTTTTTTTACCCAAATGTATCGATACTTTTACATTTTTCA
1 ATGTATCGATACATTCTG-TTTTTTACCCAAATGTATCG--A----TACATTTTTCA
38556 ATGTATCGATACAT
1 ATGTATCGATACAT
38570 CTAGTTAATT
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
50 16 0.27
51 19 0.32
53 1 0.02
57 24 0.40
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.47
Consensus pattern (50 bp):
ATGTATCGATACATTCTGTTTTTTACCCAAATGTATCGATACATTTTTCA
Found at i:38558 original size:26 final size:27
Alignment explanation
Indices: 38488--38569 Score: 85
Period size: 26 Copynumber: 2.9 Consensus size: 27
38478 GATGTATCGA
*
38488 TACATTTTTTAATGTATCGATACATTT
1 TACATTTTTCAATGTATCGATACATTT
***
38515 TGTTTTTTTACCCAAATGTATCGATAC-TTT
1 TACATTTTT---C-AATGTATCGATACATTT
38545 TACATTTTTCAATGTATCGATACAT
1 TACATTTTTCAATGTATCGATACAT
38570 CTAGTTAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
26 13 0.30
27 8 0.19
30 9 0.21
31 13 0.30
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.49
Consensus pattern (27 bp):
TACATTTTTCAATGTATCGATACATTT
Found at i:40484 original size:97 final size:97
Alignment explanation
Indices: 40315--40531 Score: 317
Period size: 97 Copynumber: 2.2 Consensus size: 97
40305 GAAAAACAGA
** *
40315 GTTGGAGTATCCCCTTGGAGGAATGGGGTTGGAGTGTCCCTGATGATGACAATTTAAGTAAGAAT
1 GTTGGAGTATCCCCTCAGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTAAGAAT
* * ***
40380 AAAATTTAAACTTTGATGTGTTTAAAAGTGGG
66 AAAATTTAAACTTTGATATATTTAAAAGCAAG
* * *
40412 GTTGGAGTATCCCCTCAGAGGAATGTGGTTGGAGTGTCCCCGATGATGATAATTTAAGTGAGAAT
1 GTTGGAGTATCCCCTCAGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTAAGAAT
*
40477 AAGATTTAAACTTTGATATATTTAAAAGCAAG
66 AAAATTTAAACTTTGATATATTTAAAAGCAAG
*
40509 GTTGGAGTATCCCTTCAGAGGAA
1 GTTGGAGTATCCCCTCAGAGGAA
40532 CAGGGTTGAA
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
97 107 1.00
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (97 bp):
GTTGGAGTATCCCCTCAGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTAAGAAT
AAAATTTAAACTTTGATATATTTAAAAGCAAG
Found at i:41503 original size:12 final size:12
Alignment explanation
Indices: 41488--41553 Score: 69
Period size: 12 Copynumber: 5.3 Consensus size: 12
41478 TTTGTTTCTA
* *
41488 TTTTTGTCTTTT
1 TTTTTTTCTCTT
**
41500 TTTTCTTTCTCCC
1 TTTT-TTTCTCTT
*
41513 TTTTTTTCTCTC
1 TTTTTTTCTCTT
41525 TTTTTTTCTCTT
1 TTTTTTTCTCTT
41537 TTTTTTTCTCATT
1 TTTTTTTCTC-TT
41550 TTTT
1 TTTT
41554 AGTTGAACCT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
12 32 0.70
13 14 0.30
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.77
Consensus pattern (12 bp):
TTTTTTTCTCTT
Found at i:41532 original size:24 final size:22
Alignment explanation
Indices: 41512--41553 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
41502 TTCTTTCTCC
41512 CTTTTTTTCTCTCTTTTTTTCT
1 CTTTTTTTCTCTCTTTTTTTCT
* *
41534 CTTTTTTTTTCTCATTTTTT
1 CTTTTTTTCTCTCTTTTTTT
41554 AGTTGAACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (22 bp):
CTTTTTTTCTCTCTTTTTTTCT
Found at i:42421 original size:32 final size:32
Alignment explanation
Indices: 42372--42500 Score: 110
Period size: 32 Copynumber: 4.2 Consensus size: 32
42362 TGAAAAAAAA
* *
42372 TGCCACCAACTTATGTGGGCTTT-GAAGGGGGT
1 TGCCACCGACTTATGTGGGCTTTGGAA-AGGGT
* * *
42404 TGTCACCGACTTGTGTGGACTTTGGAAAGGGT
1 TGCCACCGACTTATGTGGGCTTTGGAAAGGGT
* * *
42436 TGCCACCGATTTCTGTGGGCTTTAGAGAAGGG-
1 TGCCACCGACTTATGTGGGCTTTGGA-AAGGGT
*
42468 TGCCACTGAC-T-TGTGGG-TTTGG-AAGGG-
1 TGCCACCGACTTATGTGGGCTTTGGAAAGGGT
42495 TGCCAC
1 TGCCAC
42501 TAATTTATGG
Statistics
Matches: 82, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
27 11 0.13
29 4 0.05
30 6 0.07
31 1 0.01
32 52 0.63
33 8 0.10
ACGTcount: A:0.18, C:0.19, G:0.35, T:0.29
Consensus pattern (32 bp):
TGCCACCGACTTATGTGGGCTTTGGAAAGGGT
Found at i:42525 original size:28 final size:28
Alignment explanation
Indices: 42449--43299 Score: 548
Period size: 28 Copynumber: 30.3 Consensus size: 28
42439 CACCGATTTC
*
42449 TGTGGGCTTTAGAGAAGGGTGCCACTGACT
1 TGTGGGCTTT-GA-AAGGGTGCCACTAACT
* *
42479 TGTGGG-TTTGGAAGGGTGCCACTAATT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* * ** *
42506 TATGGGCTTTGAAAGGGTGCAACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* * * *
42534 TATGGAC-TTAAAAGGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGG-TGCCACTAACT
* * ** * *
42562 TGTGGACTTTGTAAGCATGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* *
42590 TATGGGCTTTGAAAAAGAAGATGCCACTAACT
1 TGTGGGCTTTG--AAAG--GGTGCCACTAACT
* * *
42622 TGTGGACTTTGAAAGGATGCAACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
42650 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* *
42678 TGTGGGCTTTGAAAGGATGCAACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
42706 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
*
42734 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
*
42762 TGTGGGCTTTGAAAAGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* *
42790 TATGGGCTTTGGAAA-GGTGCCACTGACT
1 TGTGGGCTTT-GAAAGGGTGCCACTAACT
* ** * *
42818 TGTGGGC-TTAAAAGAATGCCACGAAGT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* * **
42845 TGTGGAC-TTGAAAGGATGAAAC-AGACT
1 TGTGGGCTTTGAAAGGGTGCCACTA-ACT
* * * * *
42872 TATGGAC-TTAAAAGGGTACCAC-AGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTA-ACT
* * ** ** *
42899 TGTGGAC-TTAAAAGAATGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* * * *
42926 TGTGGAC-TTAAAAGGATGCCAC-AGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTA-ACT
* * * * *
42953 TGTGGACTTTAAAATGGTGCCGC-AGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTA-ACT
* * * **
42981 TGTGGAC-TTAAAAGGATGCCACGGACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* * ****
43008 TGTGGAC-TTAAAAGGGTGCCACGGGGT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* * * *
43035 GGTGGAC-TTAAAAGGGTGCCA-TAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTA-ACT
* * * *
43062 TGTGGACTTTAAAAGCGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* * *
43090 TATAGGCTTTGAAAAAGAAGATGCCACTAACT
1 TGTGGGCTTTG--AAAG--GGTGCCACTAACT
* * *
43122 TGTGGGCTTTTGAAAAGATGACACTAACT
1 TGTGGGC-TTTGAAAGGGTGCCACTAACT
* * *
43151 TGTGGACTTTGAAAGGATGCCATTGAA-T
1 TGTGGGCTTTGAAAGGGTGCCACT-AACT
*
43179 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* * *
43207 TATGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
43235 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
* * * * *
43263 TATAGGCTTTGGAAGGGCGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTAACT
43291 TGTGGGCTT
1 TGTGGGCTT
43300 AAAAGAATGC
Statistics
Matches: 679, Mismatches: 118, Indels: 50
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.01
27 195 0.29
28 389 0.57
29 33 0.05
30 17 0.03
31 3 0.00
32 34 0.05
33 4 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTAACT
Found at i:42593 original size:56 final size:57
Alignment explanation
Indices: 42417--43851 Score: 694
Period size: 56 Copynumber: 25.8 Consensus size: 57
42407 CACCGACTTG
* * * * * *
42417 TGTGGACTTTGGAAAGGGTTGCCACCGATTTCTGTGGGCTTTAGAGAAGGGTGCCACTGACT
1 TGTGGACTTT-AAAAGGGATGCCACTGA-CT-TGTGGACTTT-GA-AAGGATGCCACTGACT
* ** * * * * * * * *
42479 TGTGG-GTTTGGAAGGG-TGCCACTAATTTATGGGCTTTGAAAGGGTGCAACGGAGT
1 TGTGGACTTTAAAAGGGATGCCACTGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * *
42534 TATGGAC-TTAAAAGGGATGCCACTGACTTGTGGACTTTGTAAGCATGCCATTGACT
1 TGTGGACTTTAAAAGGGATGCCACTGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * * * *
42590 TATGGGCTTTGAAAAAGAAGATGCCACTAACTTGTGGACTTTGAAAGGATGCAACTAACT
1 TGTGGACTTT--AAAAG-GGATGCCACTGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * * * *
42650 TGTGGGCTTTGAAAGGG-TGCCACTAACTTGTGGGCTTTGAAAGGATGCAACTAACT
1 TGTGGACTTTAAAAGGGATGCCACTGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * * *
42706 TGTGGGCTTTGAAAGGG-TGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGACTTTAAAAGGGATGCCACTGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * *
42762 TGTGGGCTTTGAAAA-GG-TGCCACTAACTTATGGGCTTTGGAAAGG-TGCCACTGACT
1 TGTGGACTTT-AAAAGGGATGCCACTGACTTGTGGACTTT-GAAAGGATGCCACTGACT
* * * ** *
42818 TGTGGGC-TTAAAA-GAATGCCAC-GAAGTTGTGGAC-TTGAAAGGATGAAACAGACT
1 TGTGGACTTTAAAAGGGATGCCACTG-ACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * * * * * *
42872 TATGGAC-TTAAAAGGG-TACCACAGAGTTGTGGAC-TTAAAAGAATGCCACGGAGT
1 TGTGGACTTTAAAAGGGATGCCACTGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * * * *
42926 TGTGGAC-TTAAAA-GGATGCCACAGAGTTGTGGACTTTAAAATGG-TGCCGCAGAGT
1 TGTGGACTTTAAAAGGGATGCCACTGACTTGTGGACTTTGAAA-GGATGCCACTGACT
* * * * **
42981 TGTGGAC-TTAAAA-GGATGCCACGGACTTGTGGAC-TTAAAAGGGTGCCACGGGGT
1 TGTGGACTTTAAAAGGGATGCCACTGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * *
43035 GGTGGAC-TTAAAAGGG-TGCCA-TAGAGTTGTGGACTTTAAAAGCG-TGCCACTGACT
1 TGTGGACTTTAAAAGGGATGCCACT-GACTTGTGGACTTTGAAAG-GATGCCACTGACT
* * * * * * *
43090 TATAGG-CTTTGAAAAAGAAGATGCCACTAACTTGTGGGCTTTTGAAAAGATGACACTAACT
1 TGT-GGACTTT--AAAAG-GGATGCCACTGACTTGTGGAC-TTTGAAAGGATGCCACTGACT
* * * * *
43151 TGTGGACTTTGAAA-GGATGCCATTGAATTGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGACTTTAAAAGGGATGCCACTGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * * * *
43207 TATGGGCTTTGAAA-GGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGACTTTAAAAGGGATGCCACTGACTTGTGGACTTTGAAAGGATGCCACTGACT
* ** * * * * * *
43263 TATAGG-CTTTGGAAGGG-CGCCACTGACTTGTGGGC-TTAAAAGAATGCCA-AGAAGT
1 TGT-GGACTTTAAAAGGGATGCCACTGACTTGTGGACTTTGAAAGGATGCCACTG-ACT
* * * * *
43318 TGTGGACATGAAAA-GG-TGCCA-TGGAGTTGCGGAC-TT-AAATGGATGCCA-TGGAGT
1 TGTGGACTTTAAAAGGGATGCCACT-GACTTGTGGACTTTGAAA-GGATGCCACT-GACT
* * * * * * *
43372 TGTGGAC-TTAAAA-GGATGCCACAGACTTATTTTGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGGATGCCACTGAC-T-TGTGGACTTTGAAAGGATGCCACTGACT
* * * * * * *
43428 TGTGGAC-TTAAAA-AGATGCCACGGAGTTTTGGACTTTAAAAGGGTGCCAC-GAAGT
1 TGTGGACTTTAAAAGGGATGCCACTGACTTGTGGACTTTGAAAGGATGCCACTG-ACT
** * * * * *
43483 TGTGGAC-TTAAAA-GGATGCCAAGGACTTGTAGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGGATGCCACTGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * * * *
43537 GGTGGAC-TTAAAA-GG-TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGACT
1 TGTGGACTTTAAAAGGGATGCCACTGACTTGTGGACTTTGAAAGGATGCCACTGACT
* * * ** * *
43591 TGCGGAC-TTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAAGGGTGCCA-TAGAGT
1 TGTGGACTTTAAAAGGGATGCCACTGACTTGTGGACTTTGAAAGGATGCCACT-GACT
* * * * * * *
43646 TATGGA-TTTAAAAGGG-TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGGCT
1 TGTGGACTTTAAAAGGGATGCCACTGACTTGTGGACTTTGAAAGGATGCCACTGACT
** * * *
43701 TGTGGAC-TTAAAA-GGATGCCACAAAGTTGTGGAC-TTAAAAAGATGCCA-TGGACT
1 TGTGGACTTTAAAAGGGATGCCACTGACTTGTGGACTTTGAAAGGATGCCACT-GACT
* * * * * * *
43755 TGTAGAC-TTAAAA-AGATACTAC-GAAGTTGTAGA-TTTAAAAGGATGCCA-TGGACT
1 TGTGGACTTTAAAAGGGATGCCACTG-ACTTGTGGACTTTGAAAGGATGCCACT-GACT
* * * * *
43809 TATGGACTTCAAAAGGAATGCCACTGAATCGTGGACTTTGAAA
1 TGTGGACTTTAAAAGGGATGCCACTGACTTGTGGACTTTGAAA
43852 ATGTTACCCT
Statistics
Matches: 1137, Mismatches: 175, Indels: 127
0.79 0.12 0.09
Matches are distributed among these distances:
53 36 0.03
54 303 0.27
55 293 0.26
56 330 0.29
57 52 0.05
58 11 0.01
59 16 0.01
60 66 0.06
61 25 0.02
62 5 0.00
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (57 bp):
TGTGGACTTTAAAAGGGATGCCACTGACTTGTGGACTTTGAAAGGATGCCACTGACT
Found at i:42847 original size:27 final size:27
Alignment explanation
Indices: 42611--43846 Score: 561
Period size: 27 Copynumber: 44.7 Consensus size: 27
42601 AAAAAGAAGA
* * * *
42611 TGCCACTAACTTGTGGACTTTGAAAGGA
1 TGCCACGAAGTTGTGGAC-TTAAAAGGG
* * * * *
42639 TGCAACTAACTTGTGGGCTTTGAAAGGG
1 TGCCACGAAGTTGTGGAC-TTAAAAGGG
* * * * *
42667 TGCCACTAACTTGTGGGCTTTGAAAGGA
1 TGCCACGAAGTTGTGGAC-TTAAAAGGG
* * * * *
42695 TGCAACTAACTTGTGGGCTTTGAAAGGG
1 TGCCACGAAGTTGTGGAC-TTAAAAGGG
* * * * *
42723 TGCCACTAACTTGTGGGCTTTGAAAGGA
1 TGCCACGAAGTTGTGGAC-TTAAAAGGG
* * *
42751 TGCCACTAACTTGTGGGCTTTGAAAA-GG
1 TGCCACGAAGTTGTGGAC-TT-AAAAGGG
* * * * *
42779 TGCCACTAACTTATGGGCTTTGGAAA-GG
1 TGCCACGAAGTTGTGGAC-TT-AAAAGGG
* * **
42807 TGCCACTG-ACTTGTGGGCTTAAAAGAA
1 TGCCAC-GAAGTTGTGGACTTAAAAGGG
* *
42834 TGCCACGAAGTTGTGGACTTGAAAGGA
1 TGCCACGAAGTTGTGGACTTAAAAGGG
** * *
42861 TGAAAC-AGACTTATGGACTTAAAAGGG
1 TGCCACGA-AGTTGTGGACTTAAAAGGG
* **
42888 TACCAC-AGAGTTGTGGACTTAAAAGAA
1 TGCCACGA-AGTTGTGGACTTAAAAGGG
* *
42915 TGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGAAGTTGTGGACTTAAAAGGG
*
42942 TGCCAC-AGAGTTGTGGACTTTAAAATGG
1 TGCCACGA-AGTTGTGGAC-TTAAAAGGG
* *
42970 TGCCGC-AGAGTTGTGGACTTAAAAGGA
1 TGCCACGA-AGTTGTGGACTTAAAAGGG
* *
42997 TGCCACGGACTTGTGGACTTAAAAGGG
1 TGCCACGAAGTTGTGGACTTAAAAGGG
** *
43024 TGCCACGGGGTGGTGGACTTAAAAGGG
1 TGCCACGAAGTTGTGGACTTAAAAGGG
* *
43051 TGCCA-TAGAGTTGTGGACTTTAAAAGCG
1 TGCCACGA-AGTTGTGGAC-TTAAAAGGG
* * *
43079 TGCCACTG-ACTTATAGG-CTTTGAAAAAGAAGA
1 TGCCAC-GAAGTTGT-GGAC-TT--AAAAG--GG
* * * *
43111 TGCCACTAACTTGTGGGCTTTTGAAAA-GA
1 TGCCACGAAGTTGTGGAC--TT-AAAAGGG
* * * * *
43140 TGACACTAACTTGTGGACTTTGAAAGGA
1 TGCCACGAAGTTGTGGAC-TTAAAAGGG
* * *
43168 TGCCATTGAA-TTGTGGGCTTTGAAAGGG
1 TGCCA-CGAAGTTGTGGAC-TTAAAAGGG
* * * * *
43196 TGCCACTG-ACTTATGGGCTTTGAAAGGA
1 TGCCAC-GAAGTTGTGGAC-TTAAAAGGG
* * *
43224 TGCCACTG-ACTTGTGGGCTTTGAAAGGG
1 TGCCAC-GAAGTTGTGGAC-TTAAAAGGG
* * * **
43252 TGCCACTAACTTATAGG-CTTTGGAAGGG
1 TGCCACGAAGTTGT-GGAC-TTAAAAGGG
* * * **
43280 CGCCACTG-ACTTGTGGGCTTAAAAGAA
1 TGCCAC-GAAGTTGTGGACTTAAAAGGG
* *
43307 TGCCAAGAAGTTGTGGACATGAAAA-GG
1 TGCCACGAAGTTGTGGAC-TTAAAAGGG
* * * * *
43334 TGCCATGGAGTTGCGGACTTAAATGGA
1 TGCCACGAAGTTGTGGACTTAAAAGGG
* * *
43361 TGCCATGGAGTTGTGGACTTAAAAGGA
1 TGCCACGAAGTTGTGGACTTAAAAGGG
** * *
43388 TGCCACAGACTTATTTTGACTTAAAAGGG
1 TGCCAC-GAAGT-TGTGGACTTAAAAGGG
* * *
43417 TGCCACGGAGTTGTGGACTTAAAAAGA
1 TGCCACGAAGTTGTGGACTTAAAAGGG
* *
43444 TGCCACGGAGTTTTGGACTTTAAAAGGG
1 TGCCACGAAGTTGTGGAC-TTAAAAGGG
*
43472 TGCCACGAAGTTGTGGACTTAAAAGGA
1 TGCCACGAAGTTGTGGACTTAAAAGGG
* * * *
43499 TGCCAAGGACTTGTAGACTTAAAAGGG
1 TGCCACGAAGTTGTGGACTTAAAAGGG
* *
43526 TGCCACGGAGTGGTGGACTTAAAA-GG
1 TGCCACGAAGTTGTGGACTTAAAAGGG
*
43552 TGCCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGAAGTTGTGGAC-TTAAAAGGG
* * *
43580 TGCCACGGACTTGCGGACTTAAAAGGG
1 TGCCACGAAGTTGTGGACTTAAAAGGG
*
43607 TGCCACGGAGTTGTGGACTTAAAAAGGG
1 TGCCACGAAGTTGTGGACTT-AAAAGGG
* * *
43635 TGCCA-TAGAGTTATGGATTTAAAAGGG
1 TGCCACGA-AGTTGTGGACTTAAAAGGG
*
43662 TGCCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGAAGTTGTGGAC-TTAAAAGGG
* *
43690 TGCCACG-GGCTTGTGGACTTAAAAGGA
1 TGCCACGAAG-TTGTGGACTTAAAAGGG
* * *
43717 TGCCACAAAGTTGTGGACTTAAAAAGA
1 TGCCACGAAGTTGTGGACTTAAAAGGG
* * * * * *
43744 TGCCATGGACTTGTAGACTTAAAAAGA
1 TGCCACGAAGTTGTGGACTTAAAAGGG
* * * * *
43771 TACTACGAAGTTGTAGATTTAAAAGGA
1 TGCCACGAAGTTGTGGACTTAAAAGGG
* * * * *
43798 TGCCATGGACTTATGGACTTCAAAAGGAA
1 TGCCACGAAGTTGTGGACTT-AAAAGG-G
*
43827 TGCCACTGAA-TCGTGGACTT
1 TGCCAC-GAAGTTGTGGACTT
43847 TGAAAATGTT
Statistics
Matches: 989, Mismatches: 173, Indels: 91
0.79 0.14 0.07
Matches are distributed among these distances:
26 29 0.03
27 453 0.46
28 419 0.42
29 60 0.06
30 7 0.01
31 2 0.00
32 16 0.02
33 3 0.00
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.26
Consensus pattern (27 bp):
TGCCACGAAGTTGTGGACTTAAAAGGG
Found at i:42990 original size:55 final size:55
Alignment explanation
Indices: 42805--43852 Score: 702
Period size: 54 Copynumber: 19.0 Consensus size: 55
42795 GCTTTGGAAA
* * * * *
42805 GGTGCCACTGACTTGTGGGCTTAAAAGAATGCCAC-GAAGTTGTGGAC-TTGAAAG
1 GGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACAG-AGTTGTGGACTTTAAAAG
* ** * * * *
42859 GATGAAACAGACTTATGGACTTAAAAGGGTACCACAGAGTTGTGGAC-TTAAAAG
1 GGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAG
** * *
42913 AATGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAT
1 GGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAG
* * *
42968 GGTGCCGCAGAGTTGTGGACTTAAAAGGATGCCACGGACTTGTGGAC-TTAAAAG
1 GGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAG
* * * * *
43022 GGTGCCACGGGGTGGTGGACTTAAAAGGGTGCCATAGAGTTGTGGACTTTAAAAG
1 GGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAG
* * * * * *
43077 CGTGCCACTGACTTATAGG-CTTTGAAAAAGAAGATGCCACTA-ACTTGTGGGCTTTTGAAAA-
1 GGTGCCACAGAGTTGT-GGAC-TT--AAAAG--GATGCCAC-AGAGTTGTGGAC-TTT-AAAAG
* * * * ** * * *
43138 GATGACACTA-ACTTGTGGACTTTGAAAGGATGCCATTGAATTGTGGGCTTTGAAAG
1 GGTGCCAC-AGAGTTGTGGAC-TTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAG
* * * * * * * * *
43194 GGTGCCACTGACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACAGAGTTGTGGAC-TTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAG
* * ** ** * * *
43250 GGTGCCACTA-ACTTATAGG-CTTTGGAAGGGCGCCACTGACTTGTGGGC-TTAAAAG
1 GGTGCCAC-AGAGTTGT-GGAC-TTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAG
** * ** * *
43305 AATGCCA-AGAAGTTGTGGACATGAAAAGG-TGCCATGGAGTTGCGGAC-TTAAATG
1 GGTGCCACAG-AGTTGTGGAC-TTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAG
* ** * * *
43359 GATGCCATGGAGTTGTGGACTTAAAAGGATGCCACAGACTTATTTTGAC-TTAAAAG
1 GGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGA-GT-TGTGGACTTTAAAAG
* * * *
43415 GGTGCCACGGAGTTGTGGACTTAAAAAGATGCCACGGAGTTTTGGACTTTAAAAG
1 GGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAG
* *
43470 GGTGCCAC-GAAGTTGTGGACTTAAAAGGATGCCA-AGGACTTGTAGAC-TTAAAAG
1 GGTGCCACAG-AGTTGTGGACTTAAAAGGATGCCACA-GAGTTGTGGACTTTAAAAG
* * *
43524 GGTGCCACGGAGTGGTGGACTTAAAAGG-TGCCACGGAGTTGTGGACTTTAAAAG
1 GGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAG
* * * * * *
43578 GGTGCCACGGACTTGCGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAG
1 GGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAG
* * * * *
43633 GGTGCCATAGAGTTATGGATTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAG
1 GGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAG
* * *
43688 GGTGCCAC-GGGCTTGTGGACTTAAAAGGATGCCACAAAGTTGTGGAC-TTAAAAA
1 GGTGCCACAGAG-TTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAG
* ** * * * * * *
43742 GATGCCATGGACTTGTAGACTTAAAAAGATACTAC-GAAGTTGTAGA-TTTAAAAG
1 GGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACAG-AGTTGTGGACTTTAAAAG
* ** * * * * *
43796 GATGCCATGGACTTATGGACTTCAAAAGGAATGCCACTGAATCGTGGACTTTGAAAA
1 GGTGCCACAGAGTTGTGGACTT-AAAAGG-ATGCCACAGAGTTGTGGACTTT-AAAA
43853 TGTTACCCTA
Statistics
Matches: 808, Mismatches: 144, Indels: 80
0.78 0.14 0.08
Matches are distributed among these distances:
53 22 0.03
54 307 0.38
55 256 0.32
56 150 0.19
57 22 0.03
58 9 0.01
59 4 0.00
60 16 0.02
61 18 0.02
62 4 0.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (55 bp):
GGTGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAG
Found at i:52370 original size:1 final size:1
Alignment explanation
Indices: 52360--52417 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
52350 TGGCAATTGG
* * * ** * *
52360 AAAAAGAAAAAAAACAAAACAAAAAAAAGGAAAAAGAAAAAAAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
52418 GAGTGAAGAT
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.88, C:0.05, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:52408 original size:28 final size:30
Alignment explanation
Indices: 52358--52415 Score: 102
Period size: 28 Copynumber: 2.0 Consensus size: 30
52348 CATGGCAATT
52358 GGAAAAAGAAAAAAAACAAAACAAAAAAAA
1 GGAAAAAGAAAAAAAACAAAACAAAAAAAA
52388 GGAAAAAG-AAAAAAA-AAAACAAAAAAAA
1 GGAAAAAGAAAAAAAACAAAACAAAAAAAA
52416 AAGAGTGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 13 0.46
29 7 0.25
30 8 0.29
ACGTcount: A:0.84, C:0.05, G:0.10, T:0.00
Consensus pattern (30 bp):
GGAAAAAGAAAAAAAACAAAACAAAAAAAA
Found at i:52416 original size:30 final size:30
Alignment explanation
Indices: 52358--52418 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
52348 CATGGCAATT
*
52358 GGAAAAAGAAAAAAAACAAAACAAAAAAAA
1 GGAAAAAGAAAAAAAACAAAAAAAAAAAAA
52388 GGAAAAAGAAAAAAAA-AAACAAAAAAAAAA
1 GGAAAAAGAAAAAAAACAAA-AAAAAAAAAA
52418 G
1 G
52419 AGTGAAGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 3 0.10
30 26 0.90
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (30 bp):
GGAAAAAGAAAAAAAACAAAAAAAAAAAAA
Found at i:58681 original size:14 final size:14
Alignment explanation
Indices: 58662--58698 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
58652 AGCCCATTAT
58662 GGGTTCGATGAATC
1 GGGTTCGATGAATC
*
58676 GGGTTCGATGAATT
1 GGGTTCGATGAATC
58690 GGGTTCGAT
1 GGGTTCGAT
58699 CCGATGGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.19, C:0.11, G:0.38, T:0.32
Consensus pattern (14 bp):
GGGTTCGATGAATC
Found at i:60184 original size:97 final size:96
Alignment explanation
Indices: 60041--60278 Score: 316
Period size: 97 Copynumber: 2.5 Consensus size: 96
60031 TGAAAAACAG
** * *
60041 GATTGGAGTATCCCCTAAGAGGAATGGGTTGGAGTATCCCCGATGATGACAATTTAAGTGAGAAT
1 GATTGGAGTATCCCCTCGGAGGAATGGGTTGGAGTATCCCCGATGATGACAATTTAAGTAAAAAT
* *
60106 AAGATTTAAACTTTAATGTGTTTAAAAGTGA
66 AAAATTTAAACTTTAATGTGTTTAAAAGCGA
* * * *
60137 GGTTGGAGTATCCCCTCGGTA-GAATGGGGTTGGAGTGTCCCCGATGATTATAATTTAAGTAAAA
1 GATTGGAGTATCCCCTCGG-AGGAAT-GGGTTGGAGTATCCCCGATGATGACAATTTAAGTAAAA
*
60201 ATAAAATTTAAACTTTGATGTGTTTAAAAGCGA
64 ATAAAATTTAAACTTTAATGTGTTTAAAAGCGA
* * *
60234 GATTGGAGTATTCCCTCGGAGGAATAGGGTTAGAGTATTCCCGAT
1 GATTGGAGTATCCCCTCGGAGGAAT-GGGTTGGAGTATCCCCGAT
60279 AAATAAAATT
Statistics
Matches: 122, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
96 21 0.17
97 101 0.83
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.31
Consensus pattern (96 bp):
GATTGGAGTATCCCCTCGGAGGAATGGGTTGGAGTATCCCCGATGATGACAATTTAAGTAAAAAT
AAAATTTAAACTTTAATGTGTTTAAAAGCGA
Found at i:61941 original size:13 final size:13
Alignment explanation
Indices: 61917--61975 Score: 79
Period size: 12 Copynumber: 4.7 Consensus size: 13
61907 CCTATTTGTT
61917 TCTTTTTTTT-TC
1 TCTTTTTTTTCTC
*
61929 T-TTTTTTTCTTTC
1 TCTTTTTTT-TCTC
61942 TCTTTTTTTTCTC
1 TCTTTTTTTTCTC
61955 TC-TTTTTTTCTC
1 TCTTTTTTTTCTC
61967 TCTTTTTTT
1 TCTTTTTTT
61976 AGTTGAACCT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
11 7 0.17
12 14 0.33
13 14 0.33
14 7 0.17
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TCTTTTTTTTCTC
Found at i:67798 original size:7 final size:7
Alignment explanation
Indices: 67780--67809 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
67770 AATATTAGAA
67780 TTTAAA-
1 TTTAAAT
67786 TTTAAAT
1 TTTAAAT
67793 TTTAAAT
1 TTTAAAT
67800 TTTAAAT
1 TTTAAAT
67807 TTT
1 TTT
67810 GAATACTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TTTAAAT
Found at i:68196 original size:2 final size:2
Alignment explanation
Indices: 68191--68221 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
68181 GCACCTAACA
68191 AT AT AT 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 AT AT AT A
68222 AGCAAAAGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:71670 original size:23 final size:24
Alignment explanation
Indices: 71644--71690 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
71634 AATTACATGA
71644 TAAATAATATATT-TTTAAATAAT
1 TAAATAATATATTATTTAAATAAT
* *
71667 TAAATAATTTATTATTTTAATAAT
1 TAAATAATATATTATTTAAATAAT
71691 AAACTAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TAAATAATATATTATTTAAATAAT
Found at i:74286 original size:22 final size:22
Alignment explanation
Indices: 74261--74302 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
74251 AATCAATTTT
*
74261 AAGAGAGATCAATATTTTTTCA
1 AAGAGAAATCAATATTTTTTCA
* *
74283 AAGAGAAATTAATTTTTTTT
1 AAGAGAAATCAATATTTTTT
74303 TTTTAAGAAA
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:0.40, C:0.05, G:0.12, T:0.43
Consensus pattern (22 bp):
AAGAGAAATCAATATTTTTTCA
Found at i:75155 original size:3 final size:3
Alignment explanation
Indices: 75147--75231 Score: 107
Period size: 3 Copynumber: 28.3 Consensus size: 3
75137 AATGATCAAT
75147 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* * * * * * *
75195 ATG ATG ATG ATG ATG ATG AAG AAG AAG AAG AAA AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
75232 GCGGAAACAA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.61, C:0.00, G:0.32, T:0.07
Consensus pattern (3 bp):
AAG
Found at i:75761 original size:22 final size:22
Alignment explanation
Indices: 75734--75775 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
75724 CCATCATAAT
75734 TTTTGTAGG-TCTCATCATTGGA
1 TTTTGT-GGCTCTCATCATTGGA
*
75756 TTTTGTGGCTGTCATCATTG
1 TTTTGTGGCTCTCATCATTG
75776 CCATCTTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.14, C:0.14, G:0.24, T:0.48
Consensus pattern (22 bp):
TTTTGTGGCTCTCATCATTGGA
Found at i:77155 original size:3 final size:3
Alignment explanation
Indices: 77147--77173 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
77137 CATCTTTCTT
77147 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
77174 CTAGAATTAA
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):
TTA
Found at i:78775 original size:60 final size:60
Alignment explanation
Indices: 78682--78801 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 60
78672 GAAAAATGCC
* *
78682 GAGTTTAACCACTTGCTTATGGATGAGGCTTTATTCCATGTCACCCTTATCCCATGTACT
1 GAGTTTAACCACTTGCTTATGGATAAGGCTTTATTCCATGTCACACTTATCCCATGTACT
78742 GAGTTTAACCACTTGCTTATGGATAAGGCTTTATTCCATGTCACACTTATCCCATGTACT
1 GAGTTTAACCACTTGCTTATGGATAAGGCTTTATTCCATGTCACACTTATCCCATGTACT
78802 AGTCCTATCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (60 bp):
GAGTTTAACCACTTGCTTATGGATAAGGCTTTATTCCATGTCACACTTATCCCATGTACT
Found at i:79069 original size:32 final size:32
Alignment explanation
Indices: 79033--79103 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
79023 ACTCGAATCC
*
79033 AAAATAATTCAAATTTGAAATGA-TTCAAACCT
1 AAAATAATTCAAATTTAAAATGACTT-AAACCT
* * * *
79065 AAAATGATTTAATTTTAAAATGACTTAAATCT
1 AAAATAATTCAAATTTAAAATGACTTAAACCT
79097 AAAATAA
1 AAAATAA
79104 CCCAAATGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
32 30 0.94
33 2 0.06
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.34
Consensus pattern (32 bp):
AAAATAATTCAAATTTAAAATGACTTAAACCT
Found at i:79099 original size:16 final size:15
Alignment explanation
Indices: 79050--79101 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
79040 TTCAAATTTG
*
79050 AAATGATTCAAACCTA
1 AAATGATT-AAATCTA
* *
79066 AAATGATTTAATTTTA
1 AAATGA-TTAAATCTA
79082 AAATGACTTAAATCTA
1 AAATGA-TTAAATCTA
79098 AAAT
1 AAAT
79102 AACCCAAATG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
16 27 0.93
17 2 0.07
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.35
Consensus pattern (15 bp):
AAATGATTAAATCTA
Found at i:80311 original size:2 final size:2
Alignment explanation
Indices: 80262--80298 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
80252 GTTGTCTGTG
80262 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
80299 GTTTTTGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:81939 original size:33 final size:32
Alignment explanation
Indices: 81902--81969 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
81892 CGTTACAAGC
**
81902 CAATGTATCGATACATTTTATGATGTATCGATA
1 CAATGTATCGATACATACTATG-TGTATCGATA
*
81935 CAATGTATCGATACATACTGTGTGTATCGATA
1 CAATGTATCGATACATACTATGTGTATCGATA
81967 CAA
1 CAA
81970 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATACTATGTGTATCGATA
Found at i:81942 original size:13 final size:13
Alignment explanation
Indices: 81924--81949 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
81914 ACATTTTATG
81924 ATGTATCGATACA
1 ATGTATCGATACA
81937 ATGTATCGATACA
1 ATGTATCGATACA
81950 TACTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:82048 original size:20 final size:21
Alignment explanation
Indices: 82001--82053 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
81991 GCCAATAACC
**
82001 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
*
82022 AGTATCGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
82042 TGTATCGATACA
1 TGTATCGATACA
82054 ATGTATCACT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:82086 original size:20 final size:20
Alignment explanation
Indices: 82063--82105 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
82053 AATGTATCAC
*
82063 TACAATGCAATCTGTATCGA
1 TACAATGAAATCTGTATCGA
* * *
82083 TACATTTAAATGTGTATCGA
1 TACAATGAAATCTGTATCGA
82103 TAC
1 TAC
82106 TTTTCAGGGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (20 bp):
TACAATGAAATCTGTATCGA
Found at i:85821 original size:52 final size:51
Alignment explanation
Indices: 85743--85891 Score: 217
Period size: 52 Copynumber: 2.9 Consensus size: 51
85733 CGAAATATGA
*
85743 AAATTTACCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
85795 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
* **
85847 AAACTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
85892 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.95
53 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:85972 original size:20 final size:20
Alignment explanation
Indices: 85943--86000 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
85933 GCAGTAGCTT
85943 AAAT-TGTATCGATACAAAA
1 AAATATGTATCGATACAAAA
*
85962 AAATATGTATCGATACAACA
1 AAATATGTATCGATACAAAA
***
85982 TTTTATGTATCGATACAAA
1 AAATATGTATCGATACAAA
86001 TCGTTGAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (20 bp):
AAATATGTATCGATACAAAA
Found at i:91729 original size:75 final size:76
Alignment explanation
Indices: 91649--91801 Score: 254
Period size: 77 Copynumber: 2.0 Consensus size: 76
91639 ACTAACTCAG
*
91649 AGACATTACCTTGTTTTTTTCTACAAAAACTCCTATTTC-ATTATATAAAAAAATAAAATGAAAA
1 AGACATTACCTTGATTTTTTCTACAAAAACTCCTATTTCAATTATATAAAAAAATAAAATGAAAA
91713 ATAATAAATAA
66 ATAATAAATAA
** *
91724 AGACATTGTCTTGATTTTTTCTATAAAAACTCCTATTTCATATTATATAAAAAAATAAAATGAAA
1 AGACATTACCTTGATTTTTTCTACAAAAACTCCTATTTCA-ATTATATAAAAAAATAAAATGAAA
91789 AATAATAAATAA
65 AATAATAAATAA
91801 A
1 A
91802 TAAATAAATA
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
75 35 0.49
77 37 0.51
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (76 bp):
AGACATTACCTTGATTTTTTCTACAAAAACTCCTATTTCAATTATATAAAAAAATAAAATGAAAA
ATAATAAATAA
Found at i:91801 original size:4 final size:4
Alignment explanation
Indices: 91770--91821 Score: 63
Period size: 4 Copynumber: 13.2 Consensus size: 4
91760 TTCATATTAT
* *
91770 ATAA AAAA ATAAA ATGA A-AA AT-A ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA AT-AA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
91817 ATAA A
1 ATAA A
91822 AATTGCCCTA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 5 0.12
4 32 0.78
5 4 0.10
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:92392 original size:19 final size:18
Alignment explanation
Indices: 92367--92431 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
92357 ATTTCAGCGA
92367 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
92385 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
92401 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
92417 TTTTGTATTGATACA
1 -TTTGTATCGATACA
92432 ATGTATCGCT
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 23 0.59
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:92405 original size:32 final size:32
Alignment explanation
Indices: 92369--92439 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
92359 TTCAGCGATT
92369 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
92401 TGTATCGATACATAAGTTTTGTATTGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
92433 TGTATCG
1 TGTATCG
92440 CTAGGAAGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:92406 original size:13 final size:13
Alignment explanation
Indices: 92388--92412 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92378 ACATAAGTGT
92388 TGTATCGATACAA
1 TGTATCGATACAA
92401 TGTATCGATACA
1 TGTATCGATACA
92413 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:92500 original size:13 final size:13
Alignment explanation
Indices: 92482--92507 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
92472 ACATTTTTTG
92482 TGTATCGATACAT
1 TGTATCGATACAT
92495 TGTATCGATACAT
1 TGTATCGATACAT
92508 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:93056 original size:13 final size:13
Alignment explanation
Indices: 93039--93072 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
93029 AATCCTTTAG
93039 CAAAAAAAAAAC-
1 CAAAAAAAAAACA
93051 CAAAAAAAAAACA
1 CAAAAAAAAAACA
93064 CAAAAAAAA
1 CAAAAAAAA
93073 CACTATTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (13 bp):
CAAAAAAAAAACA
Found at i:93074 original size:11 final size:11
Alignment explanation
Indices: 93042--93075 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
93032 CCTTTAGCAA
*
93042 AAAAAAAACCAA
1 AAAAAAAA-CAC
93054 AAAAAAAACAC
1 AAAAAAAACAC
93065 AAAAAAAACAC
1 AAAAAAAACAC
93076 TATTCCATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAC
Found at i:94937 original size:51 final size:51
Alignment explanation
Indices: 94877--94993 Score: 140
Period size: 51 Copynumber: 2.4 Consensus size: 51
94867 AATTCTCCGC
94877 AATCGGGGATA-TCCCAACTCCGATTTCATTT-TCAAAACA-CTAATTTTCTAT
1 AATCGGGGATACT-CCAACTCCGATTTCATTTCT-AAAACATC-AATTTTCTAT
*
94928 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACATCAATTTT-TCAT
1 AATCGGGGATACTCCAACTCCGATTTCATTTCTAAAACATCAATTTTCT-AT
94979 --T-GGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
94994 CCCGTTAATC
Statistics
Matches: 61, Mismatches: 1, Indels: 11
0.84 0.01 0.15
Matches are distributed among these distances:
48 14 0.23
49 1 0.02
50 1 0.02
51 42 0.69
52 3 0.05
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (51 bp):
AATCGGGGATACTCCAACTCCGATTTCATTTCTAAAACATCAATTTTCTAT
Found at i:95175 original size:51 final size:52
Alignment explanation
Indices: 95115--95284 Score: 191
Period size: 52 Copynumber: 3.3 Consensus size: 52
95105 TTATCTCCGA
* * *
95115 GGGGATACTCCAACCCCGGTTTTATTTCCAAATCATCGATTTTCC-ATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCTATAATC
* ** *
95166 GGGGATACTCCAACCCCGGCTTTATTTTTAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCTATAATC
* * * * * *
95218 GGGGATACTCCAACTCTGATTTTATTTCCAAAAACACCAATTTTTC-ACAATT
1 GGGGATACTCCAACCCCGGTTTTATTTCC-AAAACACCAATTTTCCTATAATC
*
95270 GAGGATACTCCAACC
1 GGGGATACTCCAACC
95285 TCGTTATTTC
Statistics
Matches: 98, Mismatches: 19, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
51 39 0.40
52 44 0.45
53 15 0.15
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCTATAATC
Found at i:95180 original size:79 final size:80
Alignment explanation
Indices: 95011--95183 Score: 226
Period size: 79 Copynumber: 2.2 Consensus size: 80
95001 ATCATCGAGA
* ** * *
95011 ATACTCCAACCCCGTTATTTTTGAGGGGATACTTCAACCCCCGGCTTTATTTCTAAAATATTAAT
1 ATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCCCGGCTTTATTTCTAAAATATGAAT
95076 TTCTCATAACCGGGG
66 TTCTCATAACCGGGG
* *
95091 ATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAA-CCCCGGTTTTATTTC-CAAATCATCGA
1 ATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCCCGGCTTTATTTCTAAAAT-AT-GA
* *
95154 TTTTC-CATAATCGGGG
64 ATTTCTCATAACCGGGG
95170 ATACTCCAACCCCG
1 ATACTCCAACCCCG
95184 GCTTTATTTT
Statistics
Matches: 82, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
78 4 0.05
79 40 0.49
80 38 0.46
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.30
Consensus pattern (80 bp):
ATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCCCGGCTTTATTTCTAAAATATGAAT
TTCTCATAACCGGGG
Found at i:95406 original size:290 final size:284
Alignment explanation
Indices: 94876--95464 Score: 774
Period size: 290 Copynumber: 2.1 Consensus size: 284
94866 CAATTCTCCG
* *
94876 CAATCGGGGATA-TCCCAACTCCGATTTCATTTTCAAAACACTAATTTTCTATAATCGGGGATAC
1 CAATCGGGGATACT-CCAACCCCGATTTCATTTTCAAAACACCAATTTTCTATAATCGGGGATAC
* * *
94940 TCCAACTCCGATTTTATTTCTAAAACATCAATTTTTCATTGGGGATACTCCAACCCCGTTAATCA
65 TCCAACTCCGATTTTATTTCAAAAACACCAATTTTTCATTGAGGATACTCCAACCCCGTTAATCA
** ** *
95005 TCGAGAATACTCCAACCCCGTTATTTTTGAGGGGATACTTCAACCCCCGGCTTTATTTCTAAAAT
130 TCGAGAATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCCGGCTTTATTTCTAAAAT
* *
95070 ATTAATTTCTCATAACCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCCGGT
195 ATTAATTTCTCATAACCGGGGATACTCCAACCCCATTATCTCCGAGGGGATACTCCAACCCCGAT
95135 TTTATTTCCAAATCATCGATTT-TCCA
260 TTT-TTTCCAAATCATCGATTTCT-CA
* * * *
95161 TAATCGGGGATACTCCAACCCCGGCTTT-ATTTTTAAAACACCAATTTTCCTTTAATCGGGGATA
1 CAATCGGGGATACTCCAACCCC-GATTTCATTTTCAAAACACCAATTTT-CTATAATCGGGGATA
* *
95225 CTCCAACTCTGATTTTATTTCCAAAAACACCAATTTTTCACAATTGAGGATACTCCAACCTCGTT
64 CTCCAACTCCGATTTTATTT-CAAAAACACCAATTTTT--C-ATTGAGGATACTCCAACCCCGTT
* * *
95290 ATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAA-CCCCGGCTTTA-TTC
125 A-ATCATCGAGAATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCCGGCTTTATTTC
* ** * *
95353 TCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCTCATTATTTCCGAGGGGATACTCCAA
189 T-AAAATATTAATTTCTCATAACCGGGGATACTCCAACCCCATTATCTCCGAGGGGATACTCCAA
* * *
95418 TCCCGATTTTTTTTCTAATCATCGATTTCTCA
253 CCCCGATTTTTTTCCAAATCATCGATTTCTCA
*
95450 CAACCGGGGATACTC
1 CAATCGGGGATACTC
95465 TAGCCCCGTT
Statistics
Matches: 263, Mismatches: 31, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
285 36 0.14
286 38 0.14
287 15 0.06
289 36 0.14
290 99 0.38
291 39 0.15
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (284 bp):
CAATCGGGGATACTCCAACCCCGATTTCATTTTCAAAACACCAATTTTCTATAATCGGGGATACT
CCAACTCCGATTTTATTTCAAAAACACCAATTTTTCATTGAGGATACTCCAACCCCGTTAATCAT
CGAGAATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCCGGCTTTATTTCTAAAATA
TTAATTTCTCATAACCGGGGATACTCCAACCCCATTATCTCCGAGGGGATACTCCAACCCCGATT
TTTTTCCAAATCATCGATTTCTCA
Found at i:95477 original size:78 final size:78
Alignment explanation
Indices: 95297--95518 Score: 223
Period size: 78 Copynumber: 2.8 Consensus size: 78
95287 GTTATTTCAT
** *
95297 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCTCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCC-GATTTATTCTCAAAATAT
* * *
95362 TGATTTCTCATAAT
65 CGATTTCTCACAAC
* * * * * * *
95376 TGGGGATACTCCAACCTCATTATTTCCGAGGGGATACTCCAATCCCGATTTTTTTTC-TAATCAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTATTCTCAAAAT-AT
95440 CGATTTCTCACAAC
65 CGATTTCTCACAAC
* * * * * *
95454 CGGGGATACTCTAGCCCCGTTATTTTCAAGGGGACACTCCAACCCCGTTATTA-TCTCCAAAATA
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGAT-TTATTCT-CAAAATA
95518 T
64 T
95519 TAAATTTCTC
Statistics
Matches: 113, Mismatches: 26, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
77 3 0.03
78 62 0.55
79 45 0.40
80 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTATTCTCAAAATATC
GATTTCTCACAAC
Found at i:107922 original size:13 final size:13
Alignment explanation
Indices: 107904--107963 Score: 68
Period size: 13 Copynumber: 4.5 Consensus size: 13
107894 CCTTCTCTTC
107904 AAAAAAAAAAACA
1 AAAAAAAAAAACA
*
107917 AAAAAAAGCAAA-A
1 AAAAAAA-AAAACA
*
107930 AAAAAACAAAACA
1 AAAAAAAAAAACA
*
107943 AAAAAACAAAACA
1 AAAAAAAAAAACA
107956 AAGAAAAA
1 AA-AAAAA
107964 GAGAGAAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
12 3 0.08
13 30 0.75
14 7 0.17
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAACA
Found at i:107929 original size:21 final size:22
Alignment explanation
Indices: 107905--107945 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
107895 CTTCTCTTCA
107905 AAAAAAAAAACAAAA-AAAAGC
1 AAAAAAAAAACAAAACAAAAGC
107926 AAAAAAAAAACAAAACAAAA
1 AAAAAAAAAACAAAACAAAA
107946 AAACAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAACAAAACAAAAGC
Found at i:107931 original size:18 final size:18
Alignment explanation
Indices: 107908--107963 Score: 73
Period size: 17 Copynumber: 3.3 Consensus size: 18
107898 CTCTTCAAAA
107908 AAAAAAACAAAAAAAAGC
1 AAAAAAACAAAAAAAAGC
*
107926 AAAAAAA-AAACAAAA-C
1 AAAAAAACAAAAAAAAGC
*
107942 AAAAAAACAAAACAAAG-
1 AAAAAAACAAAAAAAAGC
107959 AAAAA
1 AAAAA
107964 GAGAGAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
16 8 0.24
17 18 0.55
18 7 0.21
ACGTcount: A:0.86, C:0.11, G:0.04, T:0.00
Consensus pattern (18 bp):
AAAAAAACAAAAAAAAGC
Found at i:109063 original size:60 final size:59
Alignment explanation
Indices: 108947--109714 Score: 840
Period size: 55 Copynumber: 13.3 Consensus size: 59
108937 TCCGCTTTTT
* * * *
108947 AGTCCTCAAAGAGCAGAATGCCTTTTCCCTTTAAAAGCCCCCACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACG-CTTTT--CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
*
109009 AGTCCTCAAAGAGCAGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGCGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGC-TTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * * **
109069 AGTCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAGCGCACGCAAGTTGGTGGCACCTT-C
1 AGTCCTCAAAGAGCAGGACG-CTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
*
109128 AGTCCTCAAAGAGCAGGACAC----CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
109183 AGTCCTCAAAGAGCAGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCT
1 AGTCCTCAAAGAGCAGGAC-GCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * **
109243 AGTCCTTAAAGAGTAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
1 AGTCCTCAAAGAGCAGGACG-CTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * **
109302 AGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
1 AGTCCTCAAAGAGCAGGACG-CTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
109361 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTAGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGC-TTTTCTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
* *
109422 AGTCCTCAAAGAGCAGGACACATTTC----AAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * * *
109477 AGTCCTCAAAGAGCAGGACAC----CTCTTAAAGCCCACATAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACGCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* * * *
109532 AGTCCCCAAAGAGCAGGACAC----CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCT
1 AGTCCTCAAAGAGCAGGACGCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
109587 AGTCCTCAAAGAGCAGGACAC----CTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACGCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* * * * *
109642 AGTCCTCAAAGAGCAAGATGC----CTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-T
1 AGTCCTCAAAGAGCAGGACGCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
109697 AGTCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
109715 TACACTTTAT
Statistics
Matches: 628, Mismatches: 59, Indels: 45
0.86 0.08 0.06
Matches are distributed among these distances:
51 1 0.00
54 31 0.05
55 247 0.39
56 7 0.01
58 2 0.00
59 102 0.16
60 194 0.31
61 22 0.04
62 22 0.04
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (59 bp):
AGTCCTCAAAGAGCAGGACGCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:110459 original size:21 final size:21
Alignment explanation
Indices: 110433--110509 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
110423 AAATTATCCA
110433 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
110454 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
110475 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
110496 AATGTATCGATACA
1 AATGTATCGATACA
110510 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:110570 original size:19 final size:19
Alignment explanation
Indices: 110546--110596 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
110536 TTTCAACGAT
110546 TTGTATCGATACATAAATG
1 TTGTATCGATACATAAATG
* *
110565 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAATG
110584 TTGTATCGATACA
1 TTGTATCGATACA
110597 ATGTATCGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATAAATG
Found at i:110665 original size:13 final size:13
Alignment explanation
Indices: 110647--110672 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
110637 ACATTTTTTG
110647 TGTATCGATACAT
1 TGTATCGATACAT
110660 TGTATCGATACAT
1 TGTATCGATACAT
110673 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:111203 original size:12 final size:12
Alignment explanation
Indices: 111186--111217 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
111176 AATCCTTTAG
111186 CAAAAAAAAAAA
1 CAAAAAAAAAAA
*
111198 CAAAAAAAAACA
1 CAAAAAAAAAAA
111210 CAAAAAAA
1 CAAAAAAA
111218 CACTATTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (12 bp):
CAAAAAAAAAAA
Found at i:111204 original size:10 final size:10
Alignment explanation
Indices: 111189--111219 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
111179 CCTTTAGCAA
111189 AAAAAAAAAC
1 AAAAAAAAAC
111199 AAAAAAAAAC
1 AAAAAAAAAC
*
111209 ACAAAAAAAC
1 AAAAAAAAAC
111219 A
1 A
111220 CTATTCCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:113091 original size:51 final size:48
Alignment explanation
Indices: 113018--113134 Score: 123
Period size: 51 Copynumber: 2.4 Consensus size: 48
113008 AATTCTACGC
113018 AATCGGGGATA-TCCCAACTCCGATTTCATTT-TCAAAACA-CTAATTTTCTAT
1 AATCGGGGATACT-CCAACTCCGATTTCATTTCT-AAAACATC-AA-TTT-T-T
* * *
113069 AATCGGGGATACTCTAATTCCGATTTTATTTCTAAAACATCAATTTTT
1 AATCGGGGATACTCCAACTCCGATTTCATTTCTAAAACATCAATTTTT
*
113117 CATCGGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
113135 CCCGTTAATC
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
48 16 0.28
49 1 0.02
50 3 0.05
51 34 0.60
52 3 0.05
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (48 bp):
AATCGGGGATACTCCAACTCCGATTTCATTTCTAAAACATCAATTTTT
Found at i:113154 original size:27 final size:27
Alignment explanation
Indices: 113116--113192 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
113106 CATCAATTTT
113116 TCATCGGGGATACTCCAACCCCGTTAA
1 TCATCGGGGATACTCCAACCCCGTTAA
* *
113143 TCATCGGGGATACTCCAACCTCGTTAT
1 TCATCGGGGATACTCCAACCCCGTTAA
** *
113170 TTTTGAGGGGATACTCCAACCCC
1 TCAT-CGGGGATACTCCAACCCC
113193 TGGCTTTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 27 0.63
28 16 0.37
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (27 bp):
TCATCGGGGATACTCCAACCCCGTTAA
Found at i:113322 original size:79 final size:80
Alignment explanation
Indices: 113145--113324 Score: 238
Period size: 80 Copynumber: 2.3 Consensus size: 80
113135 CCCGTTAATC
* * **
113145 ATCGGGGATACTCCAACCTCGTTATTTTTGAGGGGATACTCCAACCCCTGGCTTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCCTGGCTTTATTTCTAAAA
* *
113210 TATTAATTTCTCATA
66 TATCAATTTCTCACA
* * *
113225 ACCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCC-GGTTTTATTTC-CAAA
1 ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCCTGGCTTTATTTCTAAAA
* *
113288 TCATCGATTTTTCACA
66 T-ATCAATTTCTCACA
113304 ATCGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
113325 GCTTTATTTT
Statistics
Matches: 87, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
78 4 0.05
79 40 0.46
80 43 0.49
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (80 bp):
ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCCTGGCTTTATTTCTAAAA
TATCAATTTCTCACA
Found at i:113383 original size:52 final size:51
Alignment explanation
Indices: 113256--113424 Score: 196
Period size: 51 Copynumber: 3.3 Consensus size: 51
113246 TTATCTCCGA
* * * *
113256 GGGGATACTCCAACCCCGGTTTTATTTCCAAATCATCGATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCACAATC
* **
113307 GGGGATACTCCAACCCCGGCTTTATTTTCAAAACACCAATTTTTCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTC-ACAATC
* * * *
113359 GGGGATACTCCAACTCCGATTTTATTTCTAAAAACACCAA-TTTTCACAATT
1 GGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTTTCACAATC
**
113410 GAAGATACTCCAACC
1 GGGGATACTCCAACC
113425 TCGTTATTTC
Statistics
Matches: 99, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
51 55 0.56
52 33 0.33
53 11 0.11
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCACAATC
Found at i:114925 original size:29 final size:28
Alignment explanation
Indices: 114895--115054 Score: 128
Period size: 29 Copynumber: 5.5 Consensus size: 28
114885 TAAGTTCCTA
* *
114895 AACTTTTCAAAATTAGACATTGACCTGTA
1 AACTTTTCAAAATTAGACTTTGACCT-TG
* *
114924 AAC-TTTCTAAAGTTATACTTTGAACCTTG
1 AACTTTTC-AAAATTAGACTTTG-ACCTTG
114953 AACTTTTC-AAATTATG-CTTTGACCCTTG
1 AACTTTTCAAAATTA-GACTTTGA-CCTTG
* *
114981 AACTTTCTTAAAATTATACTTTGACCTTTG
1 AACTTT-TCAAAATTAGACTTTGACC-TTG
* * **
115011 AACTTTTCAAAATTACACTTTAATTGTTG
1 AACTTTTCAAAATTAGACTTTGA-CCTTG
*
115040 AAATTTTCAAAATTA
1 AACTTTTCAAAATTA
115055 CACATTAACC
Statistics
Matches: 107, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
27 1 0.01
28 25 0.23
29 52 0.49
30 29 0.27
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (28 bp):
AACTTTTCAAAATTAGACTTTGACCTTG
Found at i:114997 original size:30 final size:29
Alignment explanation
Indices: 114895--115031 Score: 134
Period size: 29 Copynumber: 4.7 Consensus size: 29
114885 TAAGTTCCTA
* * * *
114895 AACTTTTCAAAATTAGACATTGA-CCTGTA
1 AACTTTTTAAAATTATACTTTGACCCT-TG
* * *
114924 AACTTTCTAAAGTTATACTTTGAACCTTG
1 AACTTTTTAAAATTATACTTTGACCCTTG
* *
114953 AAC-TTTTCAAATTATGCTTTGACCCTTG
1 AACTTTTTAAAATTATACTTTGACCCTTG
*
114981 AACTTTCTTAAAATTATACTTTGACCTTTG
1 AACTTT-TTAAAATTATACTTTGACCCTTG
* *
115011 AACTTTTCAAAATTACACTTT
1 AACTTTTTAAAATTATACTTT
115032 AATTGTTGAA
Statistics
Matches: 89, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
28 23 0.26
29 37 0.42
30 29 0.33
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (29 bp):
AACTTTTTAAAATTATACTTTGACCCTTG
Found at i:117155 original size:150 final size:149
Alignment explanation
Indices: 116865--117156 Score: 324
Period size: 150 Copynumber: 1.9 Consensus size: 149
116855 TGAAAAACTC
* * * *
116865 ATAAAATAAATTGAATTTTCAAAAAATGATTTACTATGAATTTAATGAAAATATTTGATAAATTT
1 ATAAAATAAATTAAATTTTC-AAAAATGATTTAATATGAATTCAATCAAAATATTTGATAAATTT
* * * * *
116930 TAAAAATTTTAAACTGAAAAAAATCTAATCAAAAAATTTTACAAAGTATAAAACTCCATATTTTA
65 TAAAAATTATAAACTGAAAAAAATCTAATCAAAAAAATTTACAAAGTAGAAAACTCCATATCTCA
116995 GAAACAAAAAATTAAAATTA
130 GAAACAAAAAATTAAAATTA
*
117015 ATAAAATAAATTAAAATTTTTC-AAACTGATTTAATATGAATTCAA-CAATAATATTTGA-AGAA
1 ATAAAATAAATT-AAA-TTTTCAAAAATGATTTAATATGAATTCAATCAA-AATATTTGATA-AA
* * * * * *
117077 TTTTAAAAATTATAAACTTAGAAAAATCCTTA-CGAAAAAAATTTACGGAA-TAGAAAATTTCAT
62 TTTTAAAAATTATAAACTGAAAAAAAT-CTAATC-AAAAAAATTTAC-AAAGTAGAAAACTCCAT
*
117140 ATCTCAGTAACAAAAAA
124 ATCTCAGAAACAAAAAA
117157 AATCCAAAGC
Statistics
Matches: 118, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
149 3 0.03
150 68 0.58
151 40 0.34
152 7 0.06
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (149 bp):
ATAAAATAAATTAAATTTTCAAAAATGATTTAATATGAATTCAATCAAAATATTTGATAAATTTT
AAAAATTATAAACTGAAAAAAATCTAATCAAAAAAATTTACAAAGTAGAAAACTCCATATCTCAG
AAACAAAAAATTAAAATTA
Found at i:119017 original size:20 final size:20
Alignment explanation
Indices: 118992--119046 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
118982 TTTTCACAAT
118992 TTATATCGATACATTGTTCA
1 TTATATCGATACATTGTTCA
119012 TTATATCGATACATTGTTCA
1 TTATATCGATACATTGTTCA
*
119032 TTGTATCGATACATT
1 TTATATCGATACATT
119047 CTGAGTTTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (20 bp):
TTATATCGATACATTGTTCA
Found at i:121612 original size:51 final size:51
Alignment explanation
Indices: 121503--121622 Score: 134
Period size: 51 Copynumber: 2.4 Consensus size: 51
121493 TTATTTTCGA
* * * *
121503 GGGGATACTCTAACCTCGGTTTTATTTCTAAAATATCAATTTTCCATAATC
1 GGGGATACTCCAACCTCGATTTTATTTCTAAAACATCAATTTTCCACAATC
** * * *
121554 GAAGATACTCCAACTTTGATTTTATTT-TCAAAACATCAATTTTTCACAATC
1 GGGGATACTCCAACCTCGATTTTATTTCT-AAAACATCAATTTTCCACAATC
*
121605 GGGGATACACCAACCTCG
1 GGGGATACTCCAACCTCG
121623 TTATTTCATC
Statistics
Matches: 54, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
50 1 0.02
51 53 0.98
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (51 bp):
GGGGATACTCCAACCTCGATTTTATTTCTAAAACATCAATTTTCCACAATC
Found at i:121674 original size:28 final size:27
Alignment explanation
Indices: 121605--121677 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
121595 TTTCACAATC
* *
121605 GGGGATACACCAACCTCGTTATTTCAT
1 GGGGATACTCCAACCCCGTTATTTCAT
* *
121632 CGGGATACTCTAACCCCGTTATTTC-T
1 GGGGATACTCCAACCCCGTTATTTCAT
121658 GAGGGGATACTCCAACCCCG
1 --GGGGATACTCCAACCCCG
121678 ACTTTATTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.03
27 21 0.55
28 16 0.42
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTATTTCAT
Found at i:121722 original size:51 final size:51
Alignment explanation
Indices: 121659--121778 Score: 168
Period size: 51 Copynumber: 2.4 Consensus size: 51
121649 GTTATTTCTG
* * *
121659 AGGGGATACTCCAACCCCGACTTTATTTTCAAAATATTGATTTCTCACAAT
1 AGGGGATACTCCAACCCCGACCTTATTTTCAAAACATCGATTTCTCACAAT
* * *
121710 AGGGGATACTCCAACCCCGACCTTATTTTTAAAGCATCGATTTTTCACAAT
1 AGGGGATACTCCAACCCCGACCTTATTTTCAAAACATCGATTTCTCACAAT
* *
121761 CGGGGATACTTCAACCCC
1 AGGGGATACTCCAACCCC
121779 ATTATTTTCG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (51 bp):
AGGGGATACTCCAACCCCGACCTTATTTTCAAAACATCGATTTCTCACAAT
Found at i:121793 original size:79 final size:79
Alignment explanation
Indices: 121710--121939 Score: 273
Period size: 79 Copynumber: 2.9 Consensus size: 79
121700 TTCTCACAAT
** * * * *
121710 AGGGGATACTCCAACCCCGACCTTATTTTTAAAGCATCGATTTTTCACAATCGGGGATACTTCAA
1 AGGGGATACTCCAACCCCGATTTTATTTTCAAAACATCGATTTTTCATAATCGGGGATACTACAA
121775 CCCCATTATTTTCG
66 CCCCATTATTTTCG
* * * *
121789 AGGGGATACTCTAACCCCAATTTTATTTTCAAAATATCGA-TTTTCTATAATCAGGGATACTACA
1 AGGGGATACTCCAACCCCGATTTTATTTTCAAAACATCGATTTTTC-ATAATCGGGGATACTACA
*
121853 ACCCTATTATTTTCG
65 ACCCCATTATTTTCG
* ** * * * * *
121868 AGGGAATACTTGAACCTCGATTTTATTTTCAAAACACCGATTTTCCATAATCGGGGATACTCCAG
1 AGGGGATACTCCAACCCCGATTTTATTTTCAAAACATCGATTTTTCATAATCGGGGATACTACAA
121933 CCCCATT
66 CCCCATT
121940 GTTATCTCCA
Statistics
Matches: 126, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
78 5 0.04
79 117 0.93
80 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (79 bp):
AGGGGATACTCCAACCCCGATTTTATTTTCAAAACATCGATTTTTCATAATCGGGGATACTACAA
CCCCATTATTTTCG
Found at i:129283 original size:23 final size:23
Alignment explanation
Indices: 129253--129302 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
129243 TCAGGCTCCG
129253 TGAACTTTGATAAGAAAACAGGA
1 TGAACTTTGATAAGAAAACAGGA
*
129276 TGAACTTTGATAAGAAAATAGGA
1 TGAACTTTGATAAGAAAACAGGA
129299 TGAA
1 TGAA
129303 GCGTTAGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.48, C:0.06, G:0.22, T:0.24
Consensus pattern (23 bp):
TGAACTTTGATAAGAAAACAGGA
Found at i:130548 original size:16 final size:16
Alignment explanation
Indices: 130522--130591 Score: 90
Period size: 16 Copynumber: 4.4 Consensus size: 16
130512 TTATTTTCGG
130522 GTTCGGATCATTTTGA
1 GTTCGGATCATTTTGA
130538 GTTC-GAGTCATTTTG-
1 GTTCGGA-TCATTTTGA
*
130553 GATTCGGATCATTTTGG
1 G-TTCGGATCATTTTGA
*
130570 GTTTGGATCATTTTGA
1 GTTCGGATCATTTTGA
130586 GTTCGG
1 GTTCGG
130592 GTTGTTTTGG
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
15 3 0.06
16 41 0.87
17 3 0.06
ACGTcount: A:0.16, C:0.11, G:0.29, T:0.44
Consensus pattern (16 bp):
GTTCGGATCATTTTGA
Found at i:130564 original size:32 final size:33
Alignment explanation
Indices: 130506--130568 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
130496 TTATAATATT
* *
130506 TTCGAGTTATTTTCGGGTTCGGATCATTTTGAG
1 TTCGAGTCATTTTCGGATTCGGATCATTTTGAG
130539 TTCGAGTCATTTT-GGATTCGGATCATTTTG
1 TTCGAGTCATTTTCGGATTCGGATCATTTTG
130569 GGTTTGGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.16, C:0.13, G:0.25, T:0.46
Consensus pattern (33 bp):
TTCGAGTCATTTTCGGATTCGGATCATTTTGAG
Found at i:130581 original size:32 final size:33
Alignment explanation
Indices: 130509--130607 Score: 96
Period size: 32 Copynumber: 3.0 Consensus size: 33
130499 TAATATTTTC
* * * *
130509 GAGTTATTTTCGGGTTCGGATCATTTTGAG-TTC
1 GAGTCATTTT-GGATTCGGATCATTTTGGGTTTG
130542 GAGTCATTTTGGATTCGGATCATTTTGGGTTTG
1 GAGTCATTTTGGATTCGGATCATTTTGGGTTTG
* **
130575 GA-TCATTTT-GAGTTCGGGTTGTTTTGGGTTTG
1 GAGTCATTTTGGA-TTCGGATCATTTTGGGTTTG
130607 G
1 G
130608 GCTATTTCGA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
31 2 0.04
32 42 0.74
33 13 0.23
ACGTcount: A:0.13, C:0.09, G:0.31, T:0.46
Consensus pattern (33 bp):
GAGTCATTTTGGATTCGGATCATTTTGGGTTTG
Found at i:131377 original size:24 final size:23
Alignment explanation
Indices: 131333--131377 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
131323 TTAAAATTCG
* *
131333 ATTATCAATTTTACTTAAATAAA
1 ATTATCAATTATAATTAAATAAA
*
131356 ATTATCAAATTATAATTTAATA
1 ATTATC-AATTATAATTAAATA
131378 TTTTTACTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 6 0.33
24 12 0.67
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTATCAATTATAATTAAATAAA
Found at i:135863 original size:12 final size:12
Alignment explanation
Indices: 135846--135871 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
135836 TTTAGACATA
135846 ATAAATATTATT
1 ATAAATATTATT
135858 ATAAATATTATT
1 ATAAATATTATT
135870 AT
1 AT
135872 CATAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATAAATATTATT
Found at i:136672 original size:2 final size:2
Alignment explanation
Indices: 136665--136704 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
136655 ACACCTTGAA
136665 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
136705 TACTTCATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:140890 original size:9 final size:9
Alignment explanation
Indices: 140873--140908 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
140863 GAGATAAGGT
*
140873 TTGGTAGCC
1 TTGGAAGCC
140882 TTGGAAGCC
1 TTGGAAGCC
140891 TTGGAAGCC
1 TTGGAAGCC
*
140900 TTGGGAGCC
1 TTGGAAGCC
140909 AATGAACTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.17, C:0.22, G:0.36, T:0.25
Consensus pattern (9 bp):
TTGGAAGCC
Found at i:141875 original size:55 final size:52
Alignment explanation
Indices: 141816--142332 Score: 252
Period size: 43 Copynumber: 10.8 Consensus size: 52
141806 CGATATTTGG
* *
141816 CTTAAAGATGAGAAAAAGGATGTCAATGTGCTAATTCAAGGCCAGCTACATTGAA
1 CTTAAAGAT--GAAAAAGG-TGCCAATATGCTAATTCAAGGCCAGCTACATTGAA
* * * *
141871 CTTAAAGATGAAAAAGGTGCCAATATGCTGATTCAATGCCAGCTATATTGGA
1 CTTAAAGATGAAAAAGGTGCCAATATGCTAATTCAAGGCCAGCTACATTGAA
* * * *
141923 C-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGA
1 CTTAAAGATGAAAAAGGTGCCAATATGCTAATTCAAGGCCAGCTACATTGAA
* * * * *
141966 CTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATT-AGA
1 CTTAAAGATGAAAAAGGTGCCAATATGCTAATTCAAGGCCAGCTACATTGA-A
* * * * * *
142018 C-TAAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAACAATATTGGA
1 CTTAAAGATGAAAAAGGTGCCAATATGCTAATTCAAGGCCAGCTACATTGAA
* * *
142066 C-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGAAAAAGGTGCCAATATGCTAATTCAAGGCCAGCTACATTGAA
* * * *
142109 CTCAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
1 CTTAAAGATGAAAAAGGTGCCAATATGCTAATTCAAGGCCAGCTACATTGAA
* * * * *
142158 C-T-----T---AAAGGTGCCAATGTGTTGATTCAAGGTCAGCTACATTGGA
1 CTTAAAGATGAAAAAGGTGCCAATATGCTAATTCAAGGCCAGCTACATTGAA
* ** * * *
142201 CTT-AA-A-GAAGAAGGTGATAATATGCTGATTCAAGGCCAGCTATATTGGA
1 CTTAAAGATGAAAAAGGTGCCAATATGCTAATTCAAGGCCAGCTACATTGAA
* * *
142250 CTT-AA-A-G----A--TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGAAAAAGGTGCCAATATGCTAATTCAAGGCCAGCTACATTGAA
* *
142293 CTT-AA-A-GAAGAAGGTGCCAATATGCTGATTCAAGGCCAGC
1 CTTAAAGATGAAAAAGGTGCCAATATGCTAATTCAAGGCCAGC
142333 GATATTGGGC
Statistics
Matches: 385, Mismatches: 44, Indels: 72
0.77 0.09 0.14
Matches are distributed among these distances:
43 150 0.39
44 2 0.01
45 1 0.00
46 1 0.00
47 1 0.00
48 35 0.09
49 105 0.27
51 9 0.02
52 64 0.17
53 8 0.02
55 9 0.02
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (52 bp):
CTTAAAGATGAAAAAGGTGCCAATATGCTAATTCAAGGCCAGCTACATTGAA
Found at i:141944 original size:43 final size:43
Alignment explanation
Indices: 141883--142350 Score: 414
Period size: 43 Copynumber: 10.1 Consensus size: 43
141873 TAAAGATGAA
*
141883 AAAGGTGCCAATATGCTGATTCAATGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
141926 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
* * *
141975 GACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTAAAGAT
1 ---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT-----T
* * * *
142026 GAAGGTGCCAATGTGCTGATTCAAGGCCAACAATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
142069 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTCAAAGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT------T
*
142118 GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
142161 AAAGGTGCCAATGTGTTGATTCAAGGTCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
**
142204 AAAGAAGAAGGTGATAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 -----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
142253 AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
142296 AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 -----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
142345 AGAAGG
1 A-AAGG
142351 GTTGCCACCG
Statistics
Matches: 354, Mismatches: 44, Indels: 53
0.78 0.10 0.12
Matches are distributed among these distances:
43 152 0.43
44 8 0.02
48 38 0.11
49 114 0.32
51 7 0.02
52 35 0.10
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:141958 original size:95 final size:96
Alignment explanation
Indices: 141830--142072 Score: 308
Period size: 95 Copynumber: 2.5 Consensus size: 96
141820 AAGATGAGAA
* * *
141830 AAAGGATGTCAATGTGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGAAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAAAAGGCGCCAAT
* * *
141895 ATGCTGATTCAATGCCAGCTATATTGGACT-T
65 ATGCTGATTCAAGGCCAGCGATATTAGACTAT
* * *
141926 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGACAAAGGCGCCAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAAAAGGCGCCAATA
141991 TGCTGATTCAAGGCCAGCGATATTAGACTAAAGAT
66 TGCTGATTCAAGGCCAGCGATATTAGACT----AT
* * * * *
142026 GAAGGTGCCAATGTGCTGATTCAAGGCCAACAATATTGGACTTAAAG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAG
142073 GTGCCAATGT
Statistics
Matches: 128, Mismatches: 14, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
95 80 0.62
96 5 0.04
100 43 0.34
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (96 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAAAAGGCGCCAATA
TGCTGATTCAAGGCCAGCGATATTAGACTAT
Found at i:142094 original size:21 final size:21
Alignment explanation
Indices: 142027--142094 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
142017 ACTAAAGATG
142027 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
142048 AAGG-CCAACAATAT--TGGACTTA
1 AAGGTGC--CAATGTGCT-GA-TTC
142070 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
142091 AAGG
1 AAGG
142095 CCAGCTACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
20 2 0.06
21 17 0.50
22 13 0.38
23 2 0.06
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:142141 original size:92 final size:92
Alignment explanation
Indices: 141978--142350 Score: 568
Period size: 92 Copynumber: 4.1 Consensus size: 92
141968 TAAAGATGAC
* * * * * * *
141978 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTAGAC-TAAAGATGAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
* *
142042 TGATTCAAGGCCAACAATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* *
142069 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTCAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
142134 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* * **
142161 AAAGGTGCCAATGTGTTGATTCAAGGTCAGCTACATTGGACTTAAAGAAGAAGGTGATAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
142226 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
*
142253 AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
* *
142318 TGATTCAAGGCCAGCGATATTGGGCTT
66 TGATTCAAGGCCAGCTATATTGGACTT
142345 AGAAGG
1 A-AAGG
142351 GTTGCCACCG
Statistics
Matches: 257, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
91 36 0.14
92 218 0.85
93 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTT
Found at i:142384 original size:32 final size:32
Alignment explanation
Indices: 142338--142535 Score: 305
Period size: 32 Copynumber: 6.2 Consensus size: 32
142328 CCAGCGATAT
*
142338 TGGGC-TTAGA-AGGGTTGCCACCGACTTATG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
* *
142368 TAGGCTTTAGAGAGGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
142400 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
*
142432 TGGGCTTTAGAG-GGGATTGCCACCAACTTGTG
1 TGGGCTTTAGAGAGGG-TTGCCACCGACTTGTG
*
142464 TGGGCTTTAGA-AGGGATTGCCACTGACTTGTG
1 TGGGCTTTAGAGAGGG-TTGCCACCGACTTGTG
142496 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
142528 TGGGCTTT
1 TGGGCTTT
142536 GAAAAGAAGG
Statistics
Matches: 154, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
30 4 0.03
31 8 0.05
32 138 0.90
33 4 0.03
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.29
Consensus pattern (32 bp):
TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
Found at i:142635 original size:35 final size:35
Alignment explanation
Indices: 142546--142802 Score: 304
Period size: 35 Copynumber: 7.6 Consensus size: 35
142536 GAAAAGAAGG
*
142546 TGCCACGGAGTTGTGGGC-TT-AGAAGGAAAAAGA
1 TGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGA
* *
142579 GTGCTACGGAGTTGTGTGCTTTAAAAAGGAAAAAGA
1 -TGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGA
* *
142615 TGCCACAGAGTTATGGGCTTTAAAAAGGAAAAAGA
1 TGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGA
142650 GTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGA
1 -TGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGA
*
142686 TGCCACAGAGTTGTGGGC-TT-AAAAGG-----G-
1 TGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGA
* *
142713 TGCCACGGAGTTGTGGGCTTTGAAAA-GAAAAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGA
*
142747 TGCCACGGAGTTGTGGGCTTTAAAAA-GAAAAAGGG
1 TGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAA-GA
* *
142782 TGCCACGGAGTCGTGGACTTT
1 TGCCACGGAGTTGTGGGCTTT
142803 GAGACAAAAG
Statistics
Matches: 197, Mismatches: 14, Indels: 23
0.84 0.06 0.10
Matches are distributed among these distances:
27 17 0.09
28 4 0.02
29 4 0.02
33 7 0.04
34 49 0.25
35 71 0.36
36 45 0.23
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.21
Consensus pattern (35 bp):
TGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGA
Found at i:142651 original size:71 final size:68
Alignment explanation
Indices: 142546--142802 Score: 312
Period size: 71 Copynumber: 3.8 Consensus size: 68
142536 GAAAAGAAGG
* * * *
142546 TGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCTACGGAGTTGTGTGCTTTAAAAAGGAAA
1 TGCCACAGAGTTGTGGGCTTA-AAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAA
142611 AAGA
65 AAGA
*
142615 TGCCACAGAGTTATGGGCTTTAAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGA
1 TGCCACAGAGTTGTGGGC-TT-AAAA-GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGA
142680 AAAAGA
63 AAAAGA
*
142686 TGCCACAGAGTTGTGGGCTTAAAAG-----G-GTGCCACGGAGTTGTGGGCTTTGAAAA-GAAAA
1 TGCCACAGAGTTGTGGGCTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAA
*
142744 AGG
66 AGA
* * * *
142747 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGGTGCCACGGAGTCGTGGACTTT
1 TGCCACAGAGTTGTGGGC-TT-AAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
142803 GAGACAAAAG
Statistics
Matches: 166, Mismatches: 11, Indels: 22
0.83 0.06 0.11
Matches are distributed among these distances:
61 24 0.14
62 28 0.17
63 6 0.04
68 2 0.01
69 40 0.24
70 6 0.04
71 60 0.36
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.21
Consensus pattern (68 bp):
TGCCACAGAGTTGTGGGCTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAA
AGA
Found at i:142720 original size:62 final size:62
Alignment explanation
Indices: 142644--142771 Score: 204
Period size: 62 Copynumber: 2.1 Consensus size: 62
142634 TTAAAAAGGA
142644 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGATGCCACAGAGTTGTGGGC-TT
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA-GAAAAAGATGCCACAGAGTTGTGGGCTTT
* * * *
142706 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGATGCCACAGAGTTGTGGGCTTT
142768 AAAA
1 AAAA
142772 AGAAAAAGGG
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
61 24 0.39
62 37 0.61
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (62 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGATGCCACAGAGTTGTGGGCTTT
Found at i:142786 original size:96 final size:98
Alignment explanation
Indices: 142615--142797 Score: 282
Period size: 96 Copynumber: 1.9 Consensus size: 98
142605 AGGAAAAAGA
142615 TGCCACAGAGTTATGGGCTTTAAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGA
1 TGCCACAGAGTTATGGGCTTTAAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGA
*
142680 AAAAGATGCCACAGAGTTGTGGGCTTAAAAGGG
66 AAAAGATGCCACAGAGTCGTGGGCTTAAAAGGG
* * *
142713 TGCCACGGAGTTGTGGGCTTTGAAAA-GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAA-GA
1 TGCCACAGAGTTATGGGCTTTAAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGA
* *
142775 AAAAGGGTGCCACGGAGTCGTGG
66 AAAA-GATGCCACAGAGTCGTGG
142798 ACTTTGAGAC
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
95 6 0.08
96 42 0.54
97 7 0.09
98 23 0.29
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (98 bp):
TGCCACAGAGTTATGGGCTTTAAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGA
AAAAGATGCCACAGAGTCGTGGGCTTAAAAGGG
Found at i:142825 original size:32 final size:31
Alignment explanation
Indices: 142772--143046 Score: 356
Period size: 32 Copynumber: 8.6 Consensus size: 31
142762 GGCTTTAAAA
* *
142772 AGAAAAAGGGTGCCACGGAGTCGTGGACTTTG
1 AGAAAAA-GATGCCACTGAGTCGTGGACTTTG
142804 AGACAAAAGATGCCACTGAGTCGTGGACTTTG
1 AGA-AAAAGATGCCACTGAGTCGTGGACTTTG
*
142836 AAGAAAAGGATGCCACTGAGTCGTGGACTTTG
1 -AGAAAAAGATGCCACTGAGTCGTGGACTTTG
*
142868 AGACAAAAGATGCCACTGAGTTGTGGACTTTG
1 AGA-AAAAGATGCCACTGAGTCGTGGACTTTG
*
142900 AAGAAAAGGATGCCACTG-GTCGTGGACTTTG
1 -AGAAAAAGATGCCACTGAGTCGTGGACTTTG
*
142931 AGACAAAAGATGCCACTAAGTCGTGGACTTTG
1 AGA-AAAAGATGCCACTGAGTCGTGGACTTTG
*
142963 AAGAAAAGGATGCCACTGAGTCGTGGACTTTG
1 -AGAAAAAGATGCCACTGAGTCGTGGACTTTG
* * *
142995 AGACAAAAGATGCCACTGAGTTGTGGGCGTTG
1 AGA-AAAAGATGCCACTGAGTCGTGGACTTTG
*
143027 AG-AAGAGATTGCCACTGAGT
1 AGAAAAAGA-TGCCACTGAGT
143047 ATTTGACGAA
Statistics
Matches: 218, Mismatches: 16, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
30 8 0.04
31 41 0.19
32 156 0.72
33 13 0.06
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (31 bp):
AGAAAAAGATGCCACTGAGTCGTGGACTTTG
Found at i:142861 original size:64 final size:64
Alignment explanation
Indices: 142775--143046 Score: 442
Period size: 64 Copynumber: 4.3 Consensus size: 64
142765 TTTAAAAAGA
* *
142775 AAAAGGGTGCCACGGAGTCGTGGACTTTGAGACAAAAGATGCCACTGAGTCGTGGACTTTGAAG
1 AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAAGATGCCACTGAGTCGTGGACTTTGAAG
*
142839 AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAAGATGCCACTGAGTTGTGGACTTTGAAG
1 AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAAGATGCCACTGAGTCGTGGACTTTGAAG
*
142903 AAAAGGATGCCACTG-GTCGTGGACTTTGAGACAAAAGATGCCACTAAGTCGTGGACTTTGAAG
1 AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAAGATGCCACTGAGTCGTGGACTTTGAAG
* * *
142966 AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAAGATGCCACTGAGTTGTGGGCGTTG-AG
1 AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAAGATGCCACTGAGTCGTGGACTTTGAAG
*
143029 AAGA-GATTGCCACTGAGT
1 AAAAGGA-TGCCACTGAGT
143047 ATTTGACGAA
Statistics
Matches: 196, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
62 2 0.01
63 77 0.39
64 117 0.60
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.22
Consensus pattern (64 bp):
AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAAGATGCCACTGAGTCGTGGACTTTGAAG
Found at i:142941 original size:127 final size:130
Alignment explanation
Indices: 142706--143020 Score: 467
Period size: 127 Copynumber: 2.4 Consensus size: 130
142696 TTGTGGGCTT
* * * * * * *
142706 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGA-AAAAGGTGCCACGGAGTTGTGGGCTTTAA
1 AAAAGGATGCCACTGAGTCGTGGACTTTG---AGACAAAAGATGCCACTGAGTTGTGGACTTT-A
* *
142770 AAAGAAAAAGGGTGCCACGGAGTCGTGGACTTTGAGACAAAAGATGCCACTGAGTCGTGGACTTT
62 AAAGAAAAAGGATGCCACGGAGTCGTGGACTTTGAGACAAAAGATGCCACTAAGTCGTGGACTTT
142835 GAAG
127 GAAG
*
142839 AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAAGATGCCACTGAGTTGTGGACTTT-GAAG
1 AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAAGATGCCACTGAGTTGTGGACTTTAAAAG
*
142903 -AAAAGGATGCCACTG-GTCGTGGACTTTGAGACAAAAGATGCCACTAAGTCGTGGACTTTGAAG
66 AAAAAGGATGCCACGGAGTCGTGGACTTTGAGACAAAAGATGCCACTAAGTCGTGGACTTTGAAG
142966 AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAAGATGCCACTGAGTTGTGG
1 AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAAGATGCCACTGAGTTGTGG
143021 GCGTTGAGAA
Statistics
Matches: 170, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
127 102 0.60
128 13 0.08
129 3 0.02
130 3 0.02
131 24 0.14
133 25 0.15
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (130 bp):
AAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAAGATGCCACTGAGTTGTGGACTTTAAAAG
AAAAAGGATGCCACGGAGTCGTGGACTTTGAGACAAAAGATGCCACTAAGTCGTGGACTTTGAAG
Found at i:143999 original size:12 final size:12
Alignment explanation
Indices: 143980--144022 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
143970 GGTTTTTCCC
143980 TTTT-TTTTTTG
1 TTTTGTTTTTTG
143991 TTTTGTTTTTTG
1 TTTTGTTTTTTG
*
144003 TTTTATTTTTT-
1 TTTTGTTTTTTG
144014 TTTGTGTTT
1 TTT-TGTTT
144023 GGAAAAGAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 7 0.25
12 21 0.75
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (12 bp):
TTTTGTTTTTTG
Found at i:144006 original size:17 final size:16
Alignment explanation
Indices: 143980--144022 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
143970 GGTTTTTCCC
*
143980 TTTTTT-TTTTGTTTT
1 TTTTTTGTTTTATTTT
143995 GTTTTTTGTTTTATTTT
1 -TTTTTTGTTTTATTTT
144012 TTTTTGTGTTT
1 TTTTT-TGTTT
144023 GGAAAAGAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (16 bp):
TTTTTTGTTTTATTTT
Found at i:144288 original size:12 final size:11
Alignment explanation
Indices: 144273--144311 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
144263 TTTTTCTGTG
144273 TTTTTGTTTTT
1 TTTTTGTTTTT
144284 TTTTTGTTTTT
1 TTTTTGTTTTT
**
144295 TTTTTGACTTT
1 TTTTTGTTTTT
144306 TTTTTG
1 TTTTTG
144312 ACTTTTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.85
Consensus pattern (11 bp):
TTTTTGTTTTT
Done.