Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 43 of 65
Found at i:8770569 original size:2 final size:2
Alignment explanation
Indices: 8770562--8770599 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
8770552 AGAAGAAATC
8770562 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
8770600 TAACGGAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8770679 original size:27 final size:27
Alignment explanation
Indices: 8770649--8770703 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
8770639 AGAAGAATTC
8770649 ATTGTACCCGCTCAAAAGCATAATATG
1 ATTGTACCCGCTCAAAAGCATAATATG
8770676 ATTGTACCCGCTCAAAAGCATAATATG
1 ATTGTACCCGCTCAAAAGCATAATATG
8770703 A
1 A
8770704 CGCCGTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (27 bp):
ATTGTACCCGCTCAAAAGCATAATATG
Found at i:8774979 original size:2 final size:2
Alignment explanation
Indices: 8774972--8774998 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8774962 CTGGGTTTTC
8774972 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 T
8774999 GGACAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8775280 original size:33 final size:33
Alignment explanation
Indices: 8775238--8775308 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
8775228 TTTAAAATTT
* *
8775238 TATAAATTCGCTCCTAACATAAAATCATGTATA
1 TATAGATTCGCTCATAACATAAAATCATGTATA
*
8775271 TATAGATTCGCTCATAGCATAAAATCATGTATA
1 TATAGATTCGCTCATAACATAAAATCATGTATA
8775304 TATAG
1 TATAG
8775309 TGCATTAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (33 bp):
TATAGATTCGCTCATAACATAAAATCATGTATA
Found at i:8775605 original size:41 final size:41
Alignment explanation
Indices: 8775545--8775682 Score: 143
Period size: 41 Copynumber: 3.4 Consensus size: 41
8775535 CGAATTTTGG
* * *
8775545 AAAATCGCAATGCGGTACTGACTGTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* * *
8775586 AAAATCGCAACGCGATACTGACTTTCGCAACTCGATACT-T
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
** * * * *
8775626 AATTTCGCAACTCAATACTGACTTTCGCAAAGAGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* *
8775667 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
8775683 TTTCAAAGCG
Statistics
Matches: 75, Mismatches: 21, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
40 31 0.41
41 44 0.59
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:8775615 original size:20 final size:20
Alignment explanation
Indices: 8775549--8775655 Score: 90
Period size: 20 Copynumber: 5.3 Consensus size: 20
8775539 TTTTGGAAAA
* * *
8775549 TCGCAATGCGGTACTGACTG
1 TCGCAACGCGATACTGACTT
* **
8775569 TCGCAACGCGATAAT-ACAAAA
1 TCGCAACGCGATACTGAC--TT
8775590 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
* * *
8775610 TCGCAACTCGATACTTAATT
1 TCGCAACGCGATACTGACTT
* *
8775630 TCGCAACTCAATACTGACTT
1 TCGCAACGCGATACTGACTT
8775650 TCGCAA
1 TCGCAA
8775656 AGAGATAATA
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
19 2 0.03
20 52 0.74
21 14 0.20
22 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:8776204 original size:20 final size:20
Alignment explanation
Indices: 8776155--8776213 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
8776145 TTTATTCTCT
* **
8776155 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
8776175 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
8776195 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
8776214 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:8777546 original size:18 final size:18
Alignment explanation
Indices: 8777525--8777572 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
8777515 TCCACTTCTG
8777525 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
8777543 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
8777561 GAGCCATCACCT
1 GAGCCATCACCT
8777573 GATCGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:8778140 original size:20 final size:20
Alignment explanation
Indices: 8778107--8778173 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
8778097 TAGTTTACTT
*
8778107 TCGCAACACGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
* *
8778127 TCGTAACGCGAAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* **
8778147 TCGCAATGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
8778166 TCGCAACG
1 TCGCAACG
8778174 ACAAAATCGC
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
19 13 0.34
20 25 0.66
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:8778168 original size:19 final size:19
Alignment explanation
Indices: 8778146--8778242 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
8778136 GAAAATGGCT
8778146 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
8778165 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
8778179 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
8778198 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
**
8778212 ATCGCAACACGAAATGAAA
1 ATCGCAATGCGAAATGAAA
8778231 ATCGCAATGCGA
1 ATCGCAATGCGA
8778243 TTTGTGTTTC
Statistics
Matches: 62, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 30 0.48
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:8778181 original size:14 final size:14
Alignment explanation
Indices: 8778162--8778219 Score: 62
Period size: 14 Copynumber: 3.8 Consensus size: 14
8778152 ATGCGAAATG
8778162 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
8778176 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
8778195 AAAATCGCAACGAC
1 AAAATCGCAACGAC
8778209 AAAATCGCAAC
1 AAAATCGCAAC
8778220 ACGAAATGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 21 0.57
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.27
ACGTcount: A:0.50, C:0.24, G:0.16, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:8778188 original size:33 final size:33
Alignment explanation
Indices: 8778146--8778237 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
8778136 GAAAATGGCT
8778146 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
8778179 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
**
8778212 ATCGCAACACGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
8778238 TGCGATTTGT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:8778332 original size:20 final size:20
Alignment explanation
Indices: 8778287--8778334 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
8778277 TTTCATTTTG
*
8778287 CATTGCGATAGCCATTTCCG
1 CATTGCGATAGCCATTTCCA
* *
8778307 CGTTGCGATAGTCATTTCCA
1 CATTGCGATAGCCATTTCCA
8778327 CATTGCGA
1 CATTGCGA
8778335 AAGTAAGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (20 bp):
CATTGCGATAGCCATTTCCA
Found at i:8780236 original size:14 final size:14
Alignment explanation
Indices: 8780202--8780240 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
8780192 TTGATTGTTT
8780202 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
8780216 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
8780230 TGTTGATTTGT
1 AATTGATTTGT
8780241 TTAATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:8780401 original size:19 final size:19
Alignment explanation
Indices: 8780377--8780444 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
8780367 ATCGCAACGA
8780377 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
8780396 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
8780415 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
8780429 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
8780445 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:8780488 original size:20 final size:20
Alignment explanation
Indices: 8780471--8780560 Score: 119
Period size: 20 Copynumber: 4.5 Consensus size: 20
8780461 CTATTTTCTA
8780471 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
*** *
8780491 GTTGCGATTTTTCA-TTTCGA
1 GTTGCGA-TAGCCATTTTCGC
*
8780511 ATTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
8780531 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
8780551 GTTGCGATAG
1 GTTGCGATAG
8780561 TCAAATGAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
19 3 0.05
20 52 0.90
21 3 0.05
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:8780783 original size:20 final size:20
Alignment explanation
Indices: 8780767--8780824 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
8780757 ATTGCGATTT
*
8780767 TCAGAATCTCGTTGCGAAAG
1 TCAGAATCTCGTTGCGATAG
8780787 TCAGAATCTCGTTGCGATAG
1 TCAGAATCTCGTTGCGATAG
* * *
8780807 TCAGTATCGCATTGCGAT
1 TCAGAATCTCGTTGCGAT
8780825 TTTCCAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (20 bp):
TCAGAATCTCGTTGCGATAG
Found at i:8780857 original size:20 final size:21
Alignment explanation
Indices: 8780813--8780864 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
8780803 ATAGTCAGTA
*
8780813 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
8780834 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
8780854 TCGCATTGCGA
1 TCGCATTGCGA
8780865 ATTAGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:8781080 original size:12 final size:12
Alignment explanation
Indices: 8781061--8781094 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
8781051 CTCTCCGGCA
8781061 ACATCCGTTCCT
1 ACATCCGTTCCT
*
8781073 ATATCCGTTCCT
1 ACATCCGTTCCT
8781085 ACATCC-TTCC
1 ACATCCGTTCC
8781095 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:8781676 original size:24 final size:24
Alignment explanation
Indices: 8781649--8781702 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
8781639 GTATTCGAAA
*
8781649 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
8781673 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
8781697 TTTGAT
1 TTTGAT
8781703 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:8784021 original size:33 final size:33
Alignment explanation
Indices: 8783979--8784106 Score: 186
Period size: 33 Copynumber: 3.8 Consensus size: 33
8783969 GGAAATTACT
8783979 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
8784012 ATCGCAATGCGAAATGAAAATCGCAATGCGA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
8784044 TTTCGCAATGCGAAATGAAAAATCGCAATGAGGGA
1 -ATCGCAATGCGAAATG-AAAATCGCAACGAGAGA
8784079 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
8784107 CGAATTTAGT
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
32 1 0.01
33 55 0.65
34 28 0.33
35 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:8784085 original size:67 final size:66
Alignment explanation
Indices: 8783980--8784113 Score: 232
Period size: 67 Copynumber: 2.0 Consensus size: 66
8783970 GAAATTACTA
*
8783980 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
8784045 T
66 T
* *
8784046 TCGCAATGCGAAATGAAAAATCGCAATGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAA
1 TCGCAATGCGAAATG-AAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAA
8784111 TT
65 TT
8784113 T
1 T
8784114 AGTTTCGCGT
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
66 15 0.23
67 49 0.77
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:8784186 original size:47 final size:47
Alignment explanation
Indices: 8784117--8784208 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 47
8784107 CGAATTTAGT
* *
8784117 TTCGCGTTGCGATTTTGTCGTTGCAATTTTCATTTCGCATTGCGAAA
1 TTCGCGTTGCGATTCTCTCGTTGCAATTTTCATTTCGCATTGCGAAA
*
8784164 TTCGCGTTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGA
1 TTCGCGTTGCGATTCTCTCGTTGCAATTTTCATTTCGCATTGCGA
8784209 TAGTACTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.42
Consensus pattern (47 bp):
TTCGCGTTGCGATTCTCTCGTTGCAATTTTCATTTCGCATTGCGAAA
Found at i:8784335 original size:14 final size:14
Alignment explanation
Indices: 8784316--8784352 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
8784306 CATCAATTAA
8784316 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
8784330 ACAAATCACCTTTT
1 ACAAATCAACTTTT
8784344 ACAAATCAA
1 ACAAATCAA
8784353 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:8785747 original size:21 final size:21
Alignment explanation
Indices: 8785681--8785747 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
8785671 GTGAATCGGG
*
8785681 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
8785701 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
8785723 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
8785744 CTCT
1 CTCT
8785748 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:8785766 original size:42 final size:41
Alignment explanation
Indices: 8785681--8785803 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
8785671 GTGAATCGGG
* * * *
8785681 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
8785723 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
8785765 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
8785804 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:8786184 original size:89 final size:90
Alignment explanation
Indices: 8786021--8786200 Score: 303
Period size: 89 Copynumber: 2.0 Consensus size: 90
8786011 ATTTCAAACT
8786021 TTCAACCAAAAGACAAAAAAAGACAAATACTAACTTCACAGTGTTAAAGAATACAGTTTAGCAGA
1 TTCAACCAAAAGACAAAAAAAGACAAATACTAACTTCACAGTGTTAAAGAATACAGTTTAGCAGA
8786086 ATTGGCAGCAACCGAATAAATTTAC
66 ATTGGCAGCAACCGAATAAATTTAC
*
8786111 TTCAACCAAAAGACAAAACAAAAGAC-AATACTAACTTCACAGTGTT-AATAA-ACAGTTTAGCA
1 TTCAACCAAAAGAC-AAA-AAAAGACAAATACTAACTTCACAGTGTTAAAGAATACAGTTTAGCA
*
8786173 GTATTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
8786200 T
1 T
8786201 AAGCAATCTA
Statistics
Matches: 86, Mismatches: 2, Indels: 5
0.92 0.02 0.05
Matches are distributed among these distances:
89 38 0.44
90 18 0.21
91 23 0.27
92 7 0.08
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAAAAAGACAAATACTAACTTCACAGTGTTAAAGAATACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:8787917 original size:20 final size:19
Alignment explanation
Indices: 8787882--8788036 Score: 106
Period size: 19 Copynumber: 8.8 Consensus size: 19
8787872 TCTTTTGGTT
*
8787882 GAAATGAAAATTGCAACGA
1 GAAATGAAAATCGCAACGA
* *
8787901 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
8787922 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
8787941 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
8787955 GAAATGAAAATCGCAATGA
1 GAAATGAAAATCGCAACGA
*
8787974 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
8787988 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
8788007 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
8788021 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
8788037 TGCGATTTTG
Statistics
Matches: 105, Mismatches: 14, Indels: 34
0.69 0.09 0.22
Matches are distributed among these distances:
14 31 0.30
16 6 0.06
17 6 0.06
19 32 0.30
20 28 0.27
21 2 0.02
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:8787950 original size:14 final size:14
Alignment explanation
Indices: 8787931--8788019 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
8787921 GGAAATGACT
8787931 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
8787945 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
*
8787964 ATCGCAATGAGAGA
1 ATCGCAACGAGAGA
*
8787978 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
8787997 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
8788011 ATCGCAACG
1 ATCGCAACG
8788020 CGAAATGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 29 0.49
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 20 0.34
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.10
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:8787968 original size:33 final size:33
Alignment explanation
Indices: 8787907--8788036 Score: 224
Period size: 33 Copynumber: 3.9 Consensus size: 33
8787897 ACGAGATAAT
**
8787907 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGAAAATCGCAACGA
*
8787941 GAGAATCGCAACGCGAAATGAAAATCGCAATGA
1 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
8787974 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
1 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
8788007 GAGAATCGCAACGCGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGAAAATCGCAA
8788037 TGCGATTTTG
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
33 78 0.85
34 14 0.15
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGAAAATCGCAACGA
Found at i:8788070 original size:19 final size:19
Alignment explanation
Indices: 8788037--8788107 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
8788027 AAAATCGCAA
**
8788037 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
8788056 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
8788075 TGCGATAGTT-ATTTCCGCGT
1 TGCGAT-TTTCATTT-CGCGT
8788095 TGCGATTTTCATT
1 TGCGATTTTCATT
8788108 CTCGAAACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
19 29 0.64
20 16 0.36
ACGTcount: A:0.11, C:0.18, G:0.24, T:0.46
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:8788660 original size:20 final size:20
Alignment explanation
Indices: 8788637--8788792 Score: 59
Period size: 20 Copynumber: 7.7 Consensus size: 20
8788627 CGATAGTAAG
8788637 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * * *
8788657 ATTCGTATTGCGAATTATGAA
1 ATTCGCATTGCGATTTACG-T
* ** *
8788678 AATCGCAACGCGA-ATACGT
1 ATTCGCATTGCGATTTACGT
* * * * *
8788697 AAATCGCAATGCGAATTAGGAAA
1 -ATTCGCATTGCGATTTACG--T
*
8788720 ATT-GCATTGCGATAGT-CAGT
1 ATTCGCATTGCGAT-TTAC-GT
* **
8788740 AT-CGCATTGCGATTTTCCAA
1 ATTCGCATTGCGA-TTTACGT
*
8788760 ATTCGCATTGCGATTTACTT
1 ATTCGCATTGCGATTTACGT
8788780 ATTCGCATTGCGA
1 ATTCGCATTGCGA
8788793 ATTGGGAAAA
Statistics
Matches: 98, Mismatches: 27, Indels: 22
0.67 0.18 0.15
Matches are distributed among these distances:
20 62 0.63
21 32 0.33
22 4 0.04
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:8788692 original size:21 final size:21
Alignment explanation
Indices: 8788666--8788721 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
8788656 TATTCGTATT
*
8788666 GCGAATTATGAAAATCGCAAC
1 GCGAATTACGAAAATCGCAAC
* *
8788687 GCGAA-TACGTAAATCGCAAT
1 GCGAATTACGAAAATCGCAAC
*
8788707 GCGAATTAGGAAAAT
1 GCGAATTACGAAAAT
8788722 TGCATTGCGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (21 bp):
GCGAATTACGAAAATCGCAAC
Found at i:8788730 original size:21 final size:21
Alignment explanation
Indices: 8788665--8788731 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
8788655 GTATTCGTAT
*
8788665 TGCGAATTATGAAAATCGCAA
1 TGCGAATTACGAAAATCGCAA
* *
8788686 CGCGAA-TACGTAAATCGCAA
1 TGCGAATTACGAAAATCGCAA
* * *
8788706 TGCGAATTAGGAAAATTGCAT
1 TGCGAATTACGAAAATCGCAA
8788727 TGCGA
1 TGCGA
8788732 TAGTCAGTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (21 bp):
TGCGAATTACGAAAATCGCAA
Found at i:8788767 original size:21 final size:20
Alignment explanation
Indices: 8788741--8788792 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
8788731 ATAGTCAGTA
*
8788741 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGA-TTTACAAAT
**
8788762 TCGCATTGCGATTTACTTAT
1 TCGCATTGCGATTTACAAAT
8788782 TCGCATTGCGA
1 TCGCATTGCGA
8788793 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACAAAT
Found at i:8792906 original size:14 final size:14
Alignment explanation
Indices: 8792879--8792925 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
8792869 TTTTGTCCAG
8792879 TTATTA-TT-TATA
1 TTATTATTTATATA
8792891 TTATTATTTATATA
1 TTATTATTTATATA
8792905 TTATTATTGTAT-TA
1 TTATTATT-TATATA
8792919 TTATTAT
1 TTATTAT
8792926 AAAAATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 6 0.19
13 2 0.06
14 21 0.66
15 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (14 bp):
TTATTATTTATATA
Found at i:8793070 original size:17 final size:18
Alignment explanation
Indices: 8793030--8793072 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
8793020 AAAATGATCC
*
8793030 AGGCCCAAATAACCCAGC
1 AGGCCCAAATAACCCAGA
8793048 AGGCCCAAATAACCC-GA
1 AGGCCCAAATAACCCAGA
8793065 AGGCCCAA
1 AGGCCCAA
8793073 CAAGACCAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.40, C:0.37, G:0.19, T:0.05
Consensus pattern (18 bp):
AGGCCCAAATAACCCAGA
Found at i:8793210 original size:25 final size:22
Alignment explanation
Indices: 8793150--8793232 Score: 130
Period size: 22 Copynumber: 3.8 Consensus size: 22
8793140 TGGTGCTGCC
8793150 TCCAACTGCTCCGCCGCCTATA
1 TCCAACTGCTCCGCCGCCTATA
8793172 TCCAACTGCTCCGCCGCCTATA
1 TCCAACTGCTCCGCCGCCTATA
* *
8793194 TCCAATTGCTCCGCCGCCTACA
1 TCCAACTGCTCCGCCGCCTATA
* *
8793216 TTCAACTGCTCTGCCGC
1 TCCAACTGCTCCGCCGC
8793233 TATGTTCCCC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.17, C:0.45, G:0.14, T:0.24
Consensus pattern (22 bp):
TCCAACTGCTCCGCCGCCTATA
Found at i:8795087 original size:120 final size:121
Alignment explanation
Indices: 8794940--8795238 Score: 469
Period size: 120 Copynumber: 2.5 Consensus size: 121
8794930 AAGAAGTGGA
8794940 GATTAGTTGAAACTTTGACAAATCAATTAATTTTAAAATTTCCATGGAGATTTGCAG-GGGATTC
1 GATTAGTTGAAACTTTGACAAATCAATTAATTTTAAAATTTCCATGGAGATTTGC-GTGGGATTC
* * *
8795004 TTTGCATGAATTTTAATTTTTTTATGGGTATTGCATGGGGTTTGA-AAAATTAGCTT
65 TTTGCATGAATTTTAAATTTTTCATGGGTATTGCATGGGGTTTGAGAAAATGAGCTT
*
8795060 GATTAGTTGAAACTTTGACTAATCAATTAATTTTAAAATTTCCATGGAGATTTGCGTGGGATTCT
1 GATTAGTTGAAACTTTGACAAATCAATTAATTTTAAAATTTCCATGGAGATTTGCGTGGGATTCT
8795125 TTGCATGAATTTTAAATTTTTCATGGGTATTGCATGGGGTTTGAGAAAATGAGCTT
66 TTGCATGAATTTTAAATTTTTCATGGGTATTGCATGGGGTTTGAGAAAATGAGCTT
* * * * * *
8795181 TATTAGTTGAAACTTTGAAAAAACAATT-ATTTTTAAATATTCCATAGTGATTTGCGTG
1 GATTAGTTGAAACTTTGACAAATCAATTAATTTTAAAAT-TTCCATGGAGATTTGCGTG
8795239 TAGTTCATGC
Statistics
Matches: 165, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
119 1 0.01
120 113 0.68
121 51 0.31
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (121 bp):
GATTAGTTGAAACTTTGACAAATCAATTAATTTTAAAATTTCCATGGAGATTTGCGTGGGATTCT
TTGCATGAATTTTAAATTTTTCATGGGTATTGCATGGGGTTTGAGAAAATGAGCTT
Found at i:8797208 original size:3 final size:3
Alignment explanation
Indices: 8797200--8797233 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
8797190 ATATTAAATA
8797200 TAT TAT TAT TAT TAT TAT TAT TAAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT T
8797234 TTACATTTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:8797221 original size:27 final size:27
Alignment explanation
Indices: 8797182--8797233 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
8797172 CTTTAAAAAA
8797182 TATTATCAATATTAAATATATTATTAT
1 TATTATCAATATTAAATATATTATTAT
* * * *
8797209 TATTATTATTATTAATTATTTTATT
1 TATTATCAATATTAAATATATTATT
8797234 TTACATTTGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (27 bp):
TATTATCAATATTAAATATATTATTAT
Found at i:8808407 original size:137 final size:137
Alignment explanation
Indices: 8808150--8808799 Score: 899
Period size: 137 Copynumber: 4.7 Consensus size: 137
8808140 TTTAGGAAAT
*
8808150 ATCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAG
1 ATCATCCTTAGATAACCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAG
* * * ** * *
8808215 ATGGAC-AGACATTCACATCACGAAGGAACAATGTCATCCATTGATTAGAAATCCTCATCACGAA
66 ATGG-CTAGACGTCCTCATCACGAAGGAACAATGTCATCCAACGATCAGAACTCCTCATCACGAA
*
8808279 GGAGCAAC
130 GAAGCAAC
*
8808287 ATCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAG
1 ATCATCCTTAGATAACCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAG
* * * *
8808352 ATGTCTAGACGCCCTCATCAAGAAGGAACAATGTCATCCAACAATCAGAACTCCTCATCACGAAG
66 ATGGCTAGACGTCCTCATCACGAAGGAACAATGTCATCCAACGATCAGAACTCCTCATCACGAAG
*
8808417 AAGCATC
131 AAGCAAC
* * *
8808424 ATCATCCTTAGATAATCAGATGTCCTCATCACGAATGAACCTTGTTATCTCAAATATCTTTAAAG
1 ATCATCCTTAGATAACCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAG
* * * *
8808489 ATGGCCAAACGTCCTCATCATGAATGAACAATGTCATCC-ACTGATCAGAACTCCTCATCACGAA
66 ATGGCTAGACGTCCTCATCACGAAGGAACAATGTCATCCAAC-GATCAGAACTCCTCATCACGAA
**
8808553 GAAGCATT
130 GAAGCAAC
* * *
8808561 ATCATCATTAGATAACCAGATGTCCTTATCACGAAGGAACTGTGTTATCTCAAATATCTTTAAAG
1 ATCATCCTTAGATAACCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAG
* ** * **
8808626 ATGGCTAGACGTCCTCATCATGAAGGAACAATGTCATCCATTGATCAGAATTCCTCATCATAAAG
66 ATGGCTAGACGTCCTCATCACGAAGGAACAATGTCATCCAACGATCAGAACTCCTCATCACGAAG
*
8808691 GAGCAAC
131 AAGCAAC
** * *
8808698 ATCATCCTTAGATAGTCAGATGTCCTCATCACGAAGGAACTGAGTTATCTCAAATATCTTTAAAG
1 ATCATCCTTAGATAACCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAG
* * *
8808763 ATGGTTAGACGTCCTTATCACGAAGGAACAATATCAT
66 ATGGCTAGACGTCCTCATCACGAAGGAACAATGTCAT
8808800 ACACTAGTTT
Statistics
Matches: 459, Mismatches: 51, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
136 3 0.01
137 456 0.99
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (137 bp):
ATCATCCTTAGATAACCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAG
ATGGCTAGACGTCCTCATCACGAAGGAACAATGTCATCCAACGATCAGAACTCCTCATCACGAAG
AAGCAAC
Found at i:8808981 original size:16 final size:15
Alignment explanation
Indices: 8808955--8808996 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
8808945 GTCCCGTTAT
8808955 TATTA-ATATTATTA
1 TATTATATATTATTA
*
8808969 TATATATATATTATTG
1 TAT-TATATATTATTA
8808985 TATTAT-TATTAT
1 TATTATATATTAT
8808997 AAATATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 9 0.36
15 5 0.20
16 11 0.44
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (15 bp):
TATTATATATTATTA
Found at i:8809106 original size:18 final size:19
Alignment explanation
Indices: 8809078--8809113 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
8809068 AATTTCAACC
8809078 CAGTCAGGCCCAAATAACA
1 CAGTCAGGCCCAAATAACA
8809097 CAGT-AGGCCCAAATAAC
1 CAGTCAGGCCCAAATAAC
8809114 CCGAAGGCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.42, C:0.31, G:0.17, T:0.11
Consensus pattern (19 bp):
CAGTCAGGCCCAAATAACA
Found at i:8809123 original size:17 final size:18
Alignment explanation
Indices: 8809083--8809125 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
8809073 CAACCCAGTC
*
8809083 AGGCCCAAATAACACAGT
1 AGGCCCAAATAACACAGA
*
8809101 AGGCCCAAATAAC-CCGA
1 AGGCCCAAATAACACAGA
8809118 AGGCCCAA
1 AGGCCCAA
8809126 CAAGACCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.42, C:0.33, G:0.19, T:0.07
Consensus pattern (18 bp):
AGGCCCAAATAACACAGA
Found at i:8811513 original size:28 final size:23
Alignment explanation
Indices: 8811472--8811536 Score: 121
Period size: 23 Copynumber: 2.8 Consensus size: 23
8811462 AAAAGAAAGA
8811472 AAGAAGATGGGGTTGGGTTGAGC
1 AAGAAGATGGGGTTGGGTTGAGC
8811495 AAGAAGATGGGGTTGGGTTGAGC
1 AAGAAGATGGGGTTGGGTTGAGC
*
8811518 AAGAAGATGAGGTTGGGTT
1 AAGAAGATGGGGTTGGGTT
8811537 TAGAGTTTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.28, C:0.03, G:0.46, T:0.23
Consensus pattern (23 bp):
AAGAAGATGGGGTTGGGTTGAGC
Found at i:8812235 original size:21 final size:21
Alignment explanation
Indices: 8812209--8812263 Score: 83
Period size: 22 Copynumber: 2.6 Consensus size: 21
8812199 TCGTCTAAAT
8812209 CCCCATGGTATTGAAGTGGAA
1 CCCCATGGTATTGAAGTGGAA
* *
8812230 CCCCATGGAAATTGAAGTTGAA
1 CCCCATGG-TATTGAAGTGGAA
8812252 CCCCATGGTATT
1 CCCCATGGTATT
8812264 CGGGGAGGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 11 0.37
22 19 0.63
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (21 bp):
CCCCATGGTATTGAAGTGGAA
Found at i:8814330 original size:11 final size:11
Alignment explanation
Indices: 8814307--8814338 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
8814297 TGTAATTAAT
8814307 TATTTATATATA
1 TATTTA-ATATA
8814319 TATTTAATATA
1 TATTTAATATA
8814330 TATTTAATA
1 TATTTAATA
8814339 ATAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTTAATATA
Found at i:8814342 original size:3 final size:3
Alignment explanation
Indices: 8814334--8814398 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
8814324 AATATATATT
*
8814334 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8814382 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
8814399 TGGATAAAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8815093 original size:223 final size:227
Alignment explanation
Indices: 8814703--8815429 Score: 853
Period size: 223 Copynumber: 3.3 Consensus size: 227
8814693 TAGAATTATG
* *
8814703 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTC-T--TTCTTCAGATGAGTTCTTC-TC
1 CAAAAGGTTGAACAA-TTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCATT
* ** *** *
8814764 ATTGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAACC-AAAGGTTGAAC-AA-
65 A-TGAACTCTACCTGAAAAAAATAATCCATCAAATGATGAATTCAAACCAAAAGGTTGAACAAAT
* *
8814826 -GTTCT--TTATGAA---CTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCTACC
129 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA-GAGTTCTTCTCATTATGAACTCTTCC
8814885 TGGCAATGTTGATCCATCAAATGATGAATTCAAAC
193 TGGCAATGTTGATCCATCAAATGATGAATTCAAAC
*
8814920 CAAAAGGTTGAACAATTCTTCTTATTATGAACTTCTTCTTCCTTTTTCAGATGAGTT-TTCATTA
1 CAAAAGGTTGAACAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCATTA
* * * *
8814984 TGAACT-TTCTCTGAAAAAAATAATCCATC-CA-G-TGAATTCAGA-TAAAAGGTTGAACAAATT
66 TGAACTCTAC-CTGAAAAAAATAATCCATCAAATGATGAATTCAAACCAAAAGGTTGAACAAATT
8815044 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTCCT
130 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA-GAGTTCTTCTCATTATGAACTCTTCCT
8815109 GGCAATGTTGATCCATCAAATGATGAATTCAAAC
194 GGCAATGTTGATCCATCAAATGATGAATTCAAAC
8815143 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTT-CTTCTTCAGATGATGAGTTCTTC
1 CAAAAGGTTGAACAA-TTCTTCTTATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTTC
** *** *
8815207 ATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACCAAAAGGTTGAACAA
62 ATTATGAACTCTACCTGAAAAAAATAATCCATCAAATGATGAATTCAAACCAAAAGGTTGAACAA
* *
8815272 ATTCTTCTTATTATGAACTTCTTCTTCCTTTTTTCAGAT--GAGTTCTTCTCATT-TGAACT-TT
127 ATTCTTCTCATTATGAACTTCTTCTTCC-TTCTTCAGATGAGAGTTCTTCTCATTATGAACTCTT
** * * **
8815333 CTCT-G-AA-AATAATCCATCAATTTGATGAATTC-AGG
191 C-CTGGCAATGTTGATCCATCAA-ATGATGAATTCAAAC
* *
8815368 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 CAAAAGGTTGAAC-AATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
8815430 TCATTATAAC
Statistics
Matches: 445, Mismatches: 36, Indels: 52
0.83 0.07 0.10
Matches are distributed among these distances:
215 20 0.04
216 26 0.06
217 19 0.04
218 26 0.06
219 16 0.04
220 7 0.02
223 113 0.25
224 26 0.06
225 48 0.11
226 29 0.07
227 30 0.07
228 11 0.02
229 15 0.03
230 9 0.02
231 41 0.09
232 9 0.02
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (227 bp):
CAAAAGGTTGAACAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCATTA
TGAACTCTACCTGAAAAAAATAATCCATCAAATGATGAATTCAAACCAAAAGGTTGAACAAATTC
TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGAGTTCTTCTCATTATGAACTCTTCCTGG
CAATGTTGATCCATCAAATGATGAATTCAAAC
Found at i:8815237 original size:114 final size:117
Alignment explanation
Indices: 8814703--8815436 Score: 881
Period size: 114 Copynumber: 6.6 Consensus size: 117
8814693 TAGAATTATG
* *
8814703 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTC-T--TTCTTC--A-GATGAGTTCTTC
1 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
8814762 TCA-T-TGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
66 TCATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
*
8814812 C-AAAGGTTGAAC-AA--GTTC-T-TTATGAA---CTTCTTCCTTCTTCAGATGATGAGTTCTTC
1 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
*
8814868 TCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
66 TCATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
*
8814920 CAAAAGGTTGAAC-AATTCTTCTTATTATGAACTTCTTCTTCCTTTTTC--A-GATGAG-T-TT-
1 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
** *** * * *
8814978 TCATTATGAACT-TTCTCTGAAAAAAATAATCCATC-CA-G-TGAATTCAGA-
66 TCATTATGAACTCTTC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
* * *
8815026 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTC
1 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
8815091 TCATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
66 TCATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
*
8815143 CAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTT-CTTCTTCAGATGATGAGTTC-T-
1 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
*
8815205 TCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
66 TCATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
*
8815257 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTTTTTC--A-GATGAGTTCTT
1 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCC-TTCTTCAGATGATGAGTTCTT
** * * **
8815319 CTCATT-TGAACT-TTCTCT-G-AA-AATAATCCATCAATTTGATGAATTC-AGG
65 CTCATTATGAACTCTTC-CTGGCAATGTTGATCCATCAA-ATGATGAATTCAAAC
* *
8815368 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTTC
1 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
8815430 TCATTAT
66 TCATTAT
8815437 AACCTTTTCT
Statistics
Matches: 545, Mismatches: 44, Indels: 70
0.83 0.07 0.11
Matches are distributed among these distances:
100 4 0.01
101 1 0.00
103 13 0.02
104 1 0.00
105 4 0.01
106 27 0.05
107 44 0.08
108 57 0.10
109 18 0.03
110 53 0.10
111 59 0.11
112 16 0.03
113 50 0.09
114 106 0.19
115 8 0.01
116 46 0.08
117 38 0.07
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (117 bp):
CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
TCATTATGAACTCTTCCTGGCAATGTTGATCCATCAAATGATGAATTCAAAC
Found at i:8816498 original size:84 final size:84
Alignment explanation
Indices: 8816180--8816899 Score: 1158
Period size: 84 Copynumber: 8.7 Consensus size: 84
8816170 GTAATTCCTA
* *
8816180 CCAACCCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATTG-GCAAATTCATCTTCCA
1 CCAA-CCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCCA
*
8816244 CATTCAATGATTGGTTCTG-
65 AATTCAATGATTGGTTCTGT
8816263 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGA-CA-ATTCATCTTCCA
1 CC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCCA
*
8816326 AACTCAATGATTGGTTCTGT
65 AATTCAATGATTGGTTCTGT
*
8816346 CCAACCAGATCAGATAACTCAAAG-A-ACTTCCAGAAGATGCTATTGAACACATT-ATTCTTCCA
1 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCA-TCTTCCA
8816408 AATTCAATGATTGGTTCTGT
65 AATTCAATGATTGGTTCTGT
*
8816428 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAACACATT-ATTCTTCCA
1 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCA-TCTTCCA
8816492 AATTCAATGATTGGTTCTGT
65 AATTCAATGATTGGTTCTGT
* *
8816512 CCAACCAGATCAG-TAACTC-AAGAACACTTCTAAAAGATGCTA-TGAGCACATTCATCTTCCAA
1 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCCAA
8816574 ATTCAATGATTGGTTCTGT
66 ATTCAATGATTGGTTCTGT
* *
8816593 CTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATTGAGCACATT-ATTCTTCCA
1 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCA-TCTTCCA
8816657 AATTCAATGATTGGTTCTGT
65 AATTCAATGATTGGTTCTGT
* *
8816677 CCAACCAGATCAGATAACTCAAAGAACACTTCTAAAAGATGCTATTGAGCACATTCATCTTCCAA
1 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCCAA
8816742 ATTCAATGATTGGTTCTGT
66 ATTCAATGATTGGTTCTGT
* *
8816761 CCAACCAGATCAGATAACTCAAAGAACACTTCTAAAAGATGCTATTGAGCACATTCATCTTCCAA
1 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCCAA
* *
8816826 ATTCAATGATTGATTTTGT
66 ATTCAATGATTGGTTCTGT
*
8816845 CTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATT
1 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATT
8816900 ATATTTGTTC
Statistics
Matches: 603, Mismatches: 20, Indels: 27
0.93 0.03 0.04
Matches are distributed among these distances:
80 21 0.03
81 52 0.09
82 132 0.22
83 76 0.13
84 321 0.53
85 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (84 bp):
CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCCAA
ATTCAATGATTGGTTCTGT
Found at i:8817701 original size:16 final size:18
Alignment explanation
Indices: 8817662--8817708 Score: 71
Period size: 16 Copynumber: 2.7 Consensus size: 18
8817652 TCATATATAA
8817662 AAATAAATTGAATTTCTAC
1 AAATAAATTGAA-TTCTAC
8817681 AAATAAATTGAA-TCT-C
1 AAATAAATTGAATTCTAC
8817697 AAATAAATTGAA
1 AAATAAATTGAA
8817709 CTTGAAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.46
17 3 0.11
19 12 0.43
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (18 bp):
AAATAAATTGAATTCTAC
Found at i:8818046 original size:1 final size:1
Alignment explanation
Indices: 8818036--8818078 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
8818026 ACCTTGACCC
* * * *
8818036 TTTTTCTTTTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8818079 CTTTCTTCAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:8818056 original size:8 final size:8
Alignment explanation
Indices: 8818035--8818085 Score: 68
Period size: 8 Copynumber: 6.4 Consensus size: 8
8818025 CACCTTGACC
8818035 CTTTTTCTT
1 CTTTTT-TT
*
8818044 TTTTTTTT
1 CTTTTTTT
8818052 CTTTTTTT
1 CTTTTTTT
8818060 CTTTTTTT
1 CTTTTTTT
8818068 CTTTTTTT
1 CTTTTTTT
*
8818076 -TTTCTTT
1 CTTTTTTT
8818083 CTT
1 CTT
8818086 CAAGCATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.16
8 27 0.71
9 5 0.13
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
CTTTTTTT
Found at i:8818060 original size:19 final size:19
Alignment explanation
Indices: 8818036--8818082 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
8818026 ACCTTGACCC
8818036 TTTTTCTTTTTTT-TTTCTT
1 TTTTTCTTTTTTTCTTT-TT
8818055 TTTTTCTTTTTTTCTTTTT
1 TTTTTCTTTTTTTCTTTTT
8818074 TTTTTCTTT
1 TTTTTCTTT
8818083 CTTCAAGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 24 0.89
20 3 0.11
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (19 bp):
TTTTTCTTTTTTTCTTTTT
Found at i:8828700 original size:13 final size:15
Alignment explanation
Indices: 8828678--8828714 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
8828668 TTTGACAGAA
8828678 AAAT-AAATAC-TG-
1 AAATAAAATACTTGC
8828690 AAATAAAATACTTGC
1 AAATAAAATACTTGC
8828705 AAATAAAATA
1 AAATAAAATA
8828715 AAACATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.18
13 6 0.27
14 2 0.09
15 10 0.45
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (15 bp):
AAATAAAATACTTGC
Found at i:8830900 original size:11 final size:11
Alignment explanation
Indices: 8830877--8830908 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
8830867 TGTAATTAAT
8830877 TATTTATATATA
1 TATTTA-ATATA
8830889 TATTTAATATA
1 TATTTAATATA
8830900 TATTTAATA
1 TATTTAATA
8830909 ATAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTTAATATA
Found at i:8830912 original size:3 final size:3
Alignment explanation
Indices: 8830904--8830971 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
8830894 AATATATATT
*
8830904 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8830952 TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
8830972 TGGATAAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8848689 original size:2 final size:2
Alignment explanation
Indices: 8848682--8848706 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8848672 AATTCATGCA
8848682 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8848707 GTATCTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8849295 original size:37 final size:37
Alignment explanation
Indices: 8849249--8849324 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
8849239 AAATATTTTT
8849249 TTTTTAATTTCAATGAGAAAAAACTTAAATAAAATGA
1 TTTTTAATTTCAATGAGAAAAAACTTAAATAAAATGA
8849286 TTTTTAATTTCAATGAGAAAAAACTTAAATAAAATGA
1 TTTTTAATTTCAATGAGAAAAAACTTAAATAAAATGA
8849323 TT
1 TT
8849325 AATAGTGTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (37 bp):
TTTTTAATTTCAATGAGAAAAAACTTAAATAAAATGA
Found at i:8853494 original size:103 final size:103
Alignment explanation
Indices: 8853269--8853486 Score: 418
Period size: 103 Copynumber: 2.1 Consensus size: 103
8853259 GTAGAGGGTC
*
8853269 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACAGGTGTGAGGTCTGTTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTATTTGGAACAGGTGTGAGGTCTGTTGAGACACATAC
8853334 TTGATCTTTGGCATATATATATGATTCTTAAGGAATGA
66 TTGATCTTTGGCATATATATATGATTCTTAAGGAATGA
8853372 TATGTGGTCCTTCGGGACATATATGTATTATTTGGAACAGGTGTGAGGTCTGTTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTATTTGGAACAGGTGTGAGGTCTGTTGAGACACATAC
*
8853437 TTGATCTTTGGCATATTTATATGATTCTTAAGGAATGA
66 TTGATCTTTGGCATATATATATGATTCTTAAGGAATGA
8853475 TATGTGGTCCTT
1 TATGTGGTCCTT
8853487 ATGGACATTA
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 113 1.00
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTATTTGGAACAGGTGTGAGGTCTGTTGAGACACATAC
TTGATCTTTGGCATATATATATGATTCTTAAGGAATGA
Found at i:8853536 original size:23 final size:23
Alignment explanation
Indices: 8853503--8853565 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
8853493 ATTATTATAT
8853503 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
8853526 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
*
8853549 GGTACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
8853566 ATATGAGCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 34 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:8855584 original size:2 final size:2
Alignment explanation
Indices: 8855577--8855616 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
8855567 GTAAGTTTCT
8855577 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8855617 GGGGTTGCAA
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):
TA
Found at i:8866895 original size:129 final size:129
Alignment explanation
Indices: 8866658--8866903 Score: 307
Period size: 129 Copynumber: 1.9 Consensus size: 129
8866648 CGTTGACCGA
* * ** * *
8866658 CCGTTGACTTTGACCAAAAAGTCAAAATATTTTAAAAGTAATATTTTATGTTTTTTTACGTTCTG
1 CCGTTGACTTTGACCAAAAAGTCAAAATATTTGAAAAGTAATATTTTATATTTTTCGACATCCTG
* *
8866723 AGTCCGAATCCGAAGTATGTTTTTCCAAATTCGAACCCGAAAGCCTCAAAATCGTCAGTTAAAC
66 AGTCCGAATCCGAAGTATGTTTTGCCAAATTCGAACCCAAAAGCCTCAAAATCGTCAGTTAAAC
*
8866787 CCGTTGACTTTGACCAACAAGTCAAAAT-TTTCGAAAAG-ACATATTTTATATTTTTCGACATCC
1 CCGTTGACTTTGACCAAAAAGTCAAAATATTT-GAAAAGTA-ATATTTTATATTTTTCGACATCC
* * ** * * * *
8866850 TGAGTTCGATTTTGCAGTCTGTTTTGCCAAATTCGAAGCCAAAAGCCTCCAAAT
64 TGAGTCCGAATCCGAAGTATGTTTTGCCAAATTCGAACCCAAAAGCCTCAAAAT
8866904 TGGCATTCAA
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
128 4 0.04
129 94 0.96
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (129 bp):
CCGTTGACTTTGACCAAAAAGTCAAAATATTTGAAAAGTAATATTTTATATTTTTCGACATCCTG
AGTCCGAATCCGAAGTATGTTTTGCCAAATTCGAACCCAAAAGCCTCAAAATCGTCAGTTAAAC
Found at i:8872498 original size:2 final size:2
Alignment explanation
Indices: 8872491--8872515 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8872481 AATACTTACC
8872491 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 T
8872516 GAACTCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8873551 original size:22 final size:22
Alignment explanation
Indices: 8873521--8873564 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
8873511 ATTAATTGAT
*
8873521 AAAATTAATAGATCA-ATAATAA
1 AAAAATAATAGAT-ATATAATAA
8873543 AAAAATAATAGATATATAATAA
1 AAAAATAATAGATATATAATAA
8873565 TACGTGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (22 bp):
AAAAATAATAGATATATAATAA
Found at i:8874022 original size:46 final size:46
Alignment explanation
Indices: 8873955--8874057 Score: 179
Period size: 46 Copynumber: 2.2 Consensus size: 46
8873945 AAACAGTATA
*
8873955 CAACTAAACCCCAAGGTAGACGACAAGCCATATCAATATATATCAT
1 CAACTAAACCCCAAGGTAGACGACAAGACATATCAATATATATCAT
* *
8874001 CAACTAAACCTCAAGGTAGACGATAAGACATATCAATATATATCAT
1 CAACTAAACCCCAAGGTAGACGACAAGACATATCAATATATATCAT
8874047 CAACTAAACCC
1 CAACTAAACCC
8874058 TGAAGACAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.45, C:0.25, G:0.10, T:0.20
Consensus pattern (46 bp):
CAACTAAACCCCAAGGTAGACGACAAGACATATCAATATATATCAT
Found at i:8874786 original size:2 final size:2
Alignment explanation
Indices: 8874779--8874815 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
8874769 AAATAATTTA
*
8874779 AT AT AT AT AA 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 AT AT AT A
8874816 ACCCAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:8875106 original size:2 final size:2
Alignment explanation
Indices: 8875099--8875132 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
8875089 AAATAACTCA
*
8875099 AT AT AT AT AT AC 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
8875133 GAGAAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8875261 original size:20 final size:19
Alignment explanation
Indices: 8875236--8875289 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
8875226 GCGAAATAAA
8875236 AATCGCAACGCGATCTCCAG
1 AATCGCAACGCGATC-CCAG
** *
8875256 AATCGCAAATCAGTTCCCAG
1 AATCGCAACGC-GATCCCAG
8875276 AATCGCAACGCGAT
1 AATCGCAACGCGAT
8875290 TATGAAGAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (19 bp):
AATCGCAACGCGATCCCAG
Found at i:8875351 original size:21 final size:21
Alignment explanation
Indices: 8875236--8875351 Score: 67
Period size: 21 Copynumber: 5.6 Consensus size: 21
8875226 GCGAAATAAA
*
8875236 AATCGCAACGCGA-TCTCCAG
1 AATCGCAACGCGATTTTCCAG
** * *
8875256 AATCGCAAATC-AGTTCCCAG
1 AATCGCAACGCGATTTTCCAG
* **
8875276 AATCGCAACGCGATTATGAAG
1 AATCGCAACGCGATTTTCCAG
* ** *
8875297 AATCGCAATGCGATAGTACA-
1 AATCGCAACGCGATTTTCCAG
* **
8875317 AATTCTCATTGCGATTTTCCAG
1 AA-TCGCAACGCGATTTTCCAG
8875339 AATCGCAACGCGA
1 AATCGCAACGCGA
8875352 ATATGAAAAT
Statistics
Matches: 68, Mismatches: 24, Indels: 7
0.69 0.24 0.07
Matches are distributed among these distances:
19 1 0.01
20 25 0.37
21 40 0.59
22 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.22
Consensus pattern (21 bp):
AATCGCAACGCGATTTTCCAG
Found at i:8875381 original size:20 final size:20
Alignment explanation
Indices: 8875339--8875391 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
8875329 GATTTTCCAG
*
8875339 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAACATGAA
*
8875359 AATCGTAACGCGAACAT-ATA
1 AATCGCAACGCGAACATGA-A
*
8875379 AATGGCAACGCGA
1 AATCGCAACGCGA
8875392 TTCTGACTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.15
Consensus pattern (20 bp):
AATCGCAACGCGAACATGAA
Found at i:8875448 original size:20 final size:20
Alignment explanation
Indices: 8875419--8875573 Score: 163
Period size: 20 Copynumber: 7.7 Consensus size: 20
8875409 AGTATCCGTA
* * *
8875419 AAATCACAACGCGTATCCGT
1 AAATCGCAACGCGAATACGT
8875439 AAATCGCAACGAC-AATACGT
1 AAATCGCAACG-CGAATACGT
8875459 AAAATCGCAACGAC-AATACGT
1 -AAATCGCAACG-CGAATACGT
*
8875480 AAATCGCAACGCGTAT-CTGT
1 AAATCGCAACGCGAATAC-GT
*
8875500 AAATCGCAACGAGAATACGT
1 AAATCGCAACGCGAATACGT
* * *
8875520 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATACGT
* *
8875540 AAATCGCAATGCGAATATGT
1 AAATCGCAACGCGAATACGT
8875560 AAATCGCAACGCGA
1 AAATCGCAACGCGA
8875574 TTTTTAAAGC
Statistics
Matches: 116, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
19 2 0.02
20 92 0.79
21 22 0.19
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGAATACGT
Found at i:8875517 original size:40 final size:40
Alignment explanation
Indices: 8875400--8875572 Score: 186
Period size: 40 Copynumber: 4.3 Consensus size: 40
8875390 GATTCTGACT
* * * * * *
8875400 ATCGCAATGAGTATCCGTAAAATCACAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGT-AAATCGCAACGAGAATACGTAA
* * *
8875441 ATCGCAACGAC-AATACGTAAAATCGCAACGACAATACGTAA
1 ATCGCAACG-CGTATCCGT-AAATCGCAACGAGAATACGTAA
*
8875482 ATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAA
* * * *
8875522 ATCGCAATGCGTATCCGTAAATCGCAATGCGAATATGTAA
1 ATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAA
8875562 ATCGCAACGCG
1 ATCGCAACGCG
8875573 ATTTTTAAAG
Statistics
Matches: 111, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 67 0.60
41 44 0.40
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (40 bp):
ATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAA
Found at i:8876195 original size:21 final size:21
Alignment explanation
Indices: 8876135--8876226 Score: 86
Period size: 20 Copynumber: 4.6 Consensus size: 21
8876125 TTATAAACTT
8876135 AAAATCGCAAC-ATGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
* * *
8876155 AAAATCACAAC-ACAAAAATG
1 AAAATCGCAACGAGAGAAATG
**
8876175 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAACGAGAGAAATG
*
8876196 AAAATCGCAA--AGCGAAATG
1 AAAATCGCAACGAGAGAAATG
8876215 AAAATCGCAACG
1 AAAATCGCAACG
8876227 CGAAACCAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
19 19 0.33
20 24 0.41
21 15 0.26
ACGTcount: A:0.53, C:0.18, G:0.16, T:0.12
Consensus pattern (21 bp):
AAAATCGCAACGAGAGAAATG
Found at i:8876214 original size:19 final size:19
Alignment explanation
Indices: 8876190--8876242 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
8876180 CGCAACGAGA
8876190 GAAATGAAAATCGCAAAGC
1 GAAATGAAAATCGCAAAGC
*
8876209 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAAAGC
**
8876228 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
8876243 TTGCGATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.51, C:0.21, G:0.19, T:0.09
Consensus pattern (19 bp):
GAAATGAAAATCGCAAAGC
Found at i:8876294 original size:20 final size:19
Alignment explanation
Indices: 8876238--8876317 Score: 88
Period size: 20 Copynumber: 4.1 Consensus size: 19
8876228 GAAACCAAAA
* *
8876238 TCGCATTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
**
8876257 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
8876276 TACGCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
* *
8876296 CTCTCGTTGCGATTTTTATT
1 -TCGCGTTGCGATTTTCATT
8876316 TC
1 TC
8876318 AACCAAAAGA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.35
20 32 0.63
21 1 0.02
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:8878174 original size:94 final size:94
Alignment explanation
Indices: 8878013--8878391 Score: 638
Period size: 94 Copynumber: 4.1 Consensus size: 94
8878003 TAGATTGCTT
* *
8878013 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
8878078 ATTTGTCTTTTGTTTTGTCCTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
8878107 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
8878172 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * *
8878201 AGTAAATTTGTTCGGTTGCTGCCAATTCTGATAAACTGTGTATTCTTTAACACTGTGAAGTTATT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
8878266 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * * *
8878295 AGTAAATTTGTTCGGTTACTGCCAATTCTGCTAAACT-TGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
8878359 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
8878387 AGTAA
1 AGTAA
8878392 TGCAATCCAT
Statistics
Matches: 273, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
92 6 0.02
93 70 0.26
94 197 0.72
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:8878595 original size:14 final size:14
Alignment explanation
Indices: 8878578--8878629 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
8878568 TTTCTCATTA
8878578 CGATTCTCTCGTTG
1 CGATTCTCTCGTTG
*
8878592 CGATTTTCATTTCGCGTTG
1 CGA--TTC---TCTCGTTG
8878611 CGATTCTCTCGTTG
1 CGATTCTCTCGTTG
8878625 CGATT
1 CGATT
8878630 TTCATTTCGC
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 15 0.48
16 3 0.10
17 3 0.10
19 10 0.32
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.44
Consensus pattern (14 bp):
CGATTCTCTCGTTG
Found at i:8878611 original size:19 final size:19
Alignment explanation
Indices: 8878587--8878671 Score: 81
Period size: 19 Copynumber: 4.6 Consensus size: 19
8878577 ACGATTCTCT
8878587 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
8878606 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
8878620 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
** *
8878639 CGTTGCGATAGTCATTTTTCA
1 CGTTGCGATTTTCA--TTTCG
8878660 CGTTGCGATTTT
1 CGTTGCGATTTT
8878672 AAGTTCCAGA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
14 10 0.19
16 3 0.06
17 3 0.06
19 22 0.42
21 14 0.27
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:8878640 original size:33 final size:33
Alignment explanation
Indices: 8878556--8878647 Score: 157
Period size: 33 Copynumber: 2.8 Consensus size: 33
8878546 TATAATCGCA
* * *
8878556 TTGCGATTTTCATTTCTCATTACGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
8878589 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
8878622 TTGCGATTTTCATTTCGCGTTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
8878648 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.12, C:0.23, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:8879149 original size:21 final size:21
Alignment explanation
Indices: 8879125--8879191 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
8879115 TCATTCCTCG
8879125 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
8879146 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
8879167 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
8879188 AGAG
1 AGAG
8879192 CCCTATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:8880527 original size:14 final size:14
Alignment explanation
Indices: 8880508--8880543 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
8880498 ATTGTTTAAT
8880508 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
8880522 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
8880536 TGATTTGT
1 TGATTTGT
8880544 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:8880697 original size:33 final size:33
Alignment explanation
Indices: 8880650--8880729 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
8880640 AAAAATGACT
* * *
8880650 ATCGCAATGTGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
8880683 ATCGCAATGCGAAATTAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
8880716 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
8880730 CTAAATTCAC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:8880763 original size:19 final size:19
Alignment explanation
Indices: 8880741--8880886 Score: 106
Period size: 19 Copynumber: 8.4 Consensus size: 19
8880731 TAAATTCACG
8880741 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* * *
8880760 TTGCGA--TTC---CCTCT
1 TTGCGATTTTCATTTCGCA
*
8880774 TTGCAATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
8880793 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
8880807 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
** *
8880826 TTGCGATAGTCATTTCCGCG
1 TTGCGATTTTCATTT-CGCA
8880846 TTGCGATTTTCA---CG--
1 TTGCGATTTTCATTTCGCA
8880860 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
8880879 TTGCGATT
1 TTGCGATT
8880887 CTCTCGTTGC
Statistics
Matches: 96, Mismatches: 15, Indels: 32
0.67 0.10 0.22
Matches are distributed among these distances:
14 25 0.26
16 12 0.12
17 12 0.12
19 34 0.35
20 13 0.14
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:8880788 original size:33 final size:33
Alignment explanation
Indices: 8880739--8880832 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
8880729 ACTAAATTCA
8880739 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
* * *
8880772 CTTTGCAATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
8880805 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
8880833 AGTCATTTCC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.14, C:0.24, G:0.17, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:8880861 original size:14 final size:14
Alignment explanation
Indices: 8880844--8880871 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8880834 GTCATTTCCG
8880844 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
8880858 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
8880872 TTTCGCATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTTTCA
Found at i:8880862 original size:53 final size:52
Alignment explanation
Indices: 8880783--8880885 Score: 170
Period size: 53 Copynumber: 2.0 Consensus size: 52
8880773 TTTGCAATTT
*
8880783 TCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATAG
1 TCATTTCGCATTGCGATTCTCACGTTGCGATTTTCATTTCGCATTGCGATAG
* *
8880835 TCATTTCCGCGTTGCGATTTTCACGTTGCGATTTTCATTTCGCATTGCGAT
1 TCATTT-CGCATTGCGATTCTCACGTTGCGATTTTCATTTCGCATTGCGAT
8880886 TCTCTCGTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 6 0.13
53 41 0.87
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (52 bp):
TCATTTCGCATTGCGATTCTCACGTTGCGATTTTCATTTCGCATTGCGATAG
Found at i:8880873 original size:34 final size:34
Alignment explanation
Indices: 8880826--8880919 Score: 127
Period size: 33 Copynumber: 2.8 Consensus size: 34
8880816 TCATTTCGCA
* *
8880826 TTGCGATAGTCATTTCCGCGTTGCGATTTTCACG
1 TTGCGATAGTCATTTCCGCATTGCGATTCTCACG
** *
8880860 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
1 TTGCGATAGTCATTTCCGCATTGCGATTCTCACG
*
8880893 TTGCGATAGTAATTTCCGCATTGCGAT
1 TTGCGATAGTCATTTCCGCATTGCGAT
8880920 AGACATTAAG
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 27 0.53
34 24 0.47
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.40
Consensus pattern (34 bp):
TTGCGATAGTCATTTCCGCATTGCGATTCTCACG
Found at i:8880965 original size:20 final size:20
Alignment explanation
Indices: 8880892--8880965 Score: 53
Period size: 20 Copynumber: 3.6 Consensus size: 20
8880882 CGATTCTCTC
* *
8880892 GTTGCGATAGTAATTTCCGC
1 GTTGCGATAGTCATTTCCGT
* * **
8880912 ATTGCGATAGACA-TTAAGAT
1 GTTGCGATAGTCATTTCCG-T
8880932 GATTGCGA-ACGTCATTTCCGT
1 G-TTGCGATA-GTCATTTCCGT
8880953 GTTGCGATAGTCA
1 GTTGCGATAGTCA
8880966 AATGAATGCC
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
19 3 0.08
20 21 0.54
21 12 0.31
22 3 0.08
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (20 bp):
GTTGCGATAGTCATTTCCGT
Found at i:8884246 original size:20 final size:19
Alignment explanation
Indices: 8884225--8884481 Score: 126
Period size: 20 Copynumber: 12.8 Consensus size: 19
8884215 GCGATAGTCA
8884225 GAATCTCGTTGCGATTTAC
1 GAATCTCGTTGCGATTTAC
* * *
8884244 AGATTCGCATTGCGATTTAC
1 -GAATCTCGTTGCGATTTAC
*
8884264 GTAT-TCGCATTGCGATTTAC
1 GAATCTCG--TTGCGATTTAC
*
8884284 GTAT-TCGCATTGCGATTTAC
1 GAATCTCG--TTGCGATTTAC
* * *
8884304 GGATACGCATTGCGATTTAC
1 GAAT-CTCGTTGCGATTTAC
*
8884324 GTATTCTCGTTGCGATTTAC
1 G-AATCTCGTTGCGATTTAC
*
8884344 -AGATACGCGTTGCGATTTAC
1 GA-AT-CTCGTTGCGATTTAC
*
8884364 -AGATACGCGTTGCGATTTAC
1 GA-AT-CTCGTTGCGATTTAC
* *
8884384 GTATTCTCATTGCGATTTAC
1 G-AATCTCGTTGCGATTTAC
* * *
8884404 GGATACGCGTTGTGATTTTAC
1 GAAT-CTCGTTGCGA-TTTAC
* * *
8884425 GTATTGTCTTTGCGATTTAC
1 G-AATCTCGTTGCGATTTAC
* *
8884445 GGATACGCGTTGCGATTTTAC
1 GAAT-CTCGTTGCGA-TTTAC
*
8884466 GGATACTCGTTGCGAT
1 GAAT-CTCGTTGCGAT
8884482 AGTCAGAATC
Statistics
Matches: 187, Mismatches: 36, Indels: 28
0.75 0.14 0.11
Matches are distributed among these distances:
18 2 0.01
19 5 0.03
20 144 0.77
21 33 0.18
22 3 0.02
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (19 bp):
GAATCTCGTTGCGATTTAC
Found at i:8884277 original size:40 final size:39
Alignment explanation
Indices: 8884233--8884462 Score: 248
Period size: 40 Copynumber: 5.7 Consensus size: 39
8884223 CAGAATCTCG
* *
8884233 TTGCGATTTACAGATTCGCATTGCGATTTACGTATTCGCA
1 TTGCGATTTAC-GATACGCGTTGCGATTTACGTATTCGCA
* * * *
8884273 TTGCGATTTACGTATTCGCATTGCGATTTACGGATACGCA
1 TTGCGATTTACG-ATACGCGTTGCGATTTACGTATTCGCA
* * * *
8884313 TTGCGATTTACGTATTCTCGTTGCGATTTACAG-ATACGCG
1 TTGCGATTTACG-ATACGCGTTGCGATTTAC-GTATTCGCA
*
8884353 TTGCGATTTACAGATACGCGTTGCGATTTACGTATTCTCA
1 TTGCGATTTAC-GATACGCGTTGCGATTTACGTATTCGCA
* *
8884393 TTGCGATTTACGGATACGCGTTGTGATTTTACGTATT-GTCT
1 TTGCGATTTAC-GATACGCGTTGCGA-TTTACGTATTCG-CA
8884434 TTGCGATTTACGGATACGCGTTGCGATTT
1 TTGCGATTTAC-GATACGCGTTGCGATTT
8884463 TACGGATACT
Statistics
Matches: 169, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
39 2 0.01
40 129 0.76
41 38 0.22
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (39 bp):
TTGCGATTTACGATACGCGTTGCGATTTACGTATTCGCA
Found at i:8884297 original size:60 final size:59
Alignment explanation
Indices: 8884231--8884481 Score: 281
Period size: 60 Copynumber: 4.2 Consensus size: 59
8884221 GTCAGAATCT
* *
8884231 CGTTGCGATTTACAGATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCG
1 CGTTGCGATTTACAGATACGCATTGCGATTTACGTATTCGCATTGCGATTTACG-ATACG
* * * *
8884291 CATTGCGATTTACGGATACGCATTGCGATTTACGTATTCTCGTTGCGATTTACAGATACG
1 CGTTGCGATTTACAGATACGCATTGCGATTTACGTATTCGCATTGCGATTTAC-GATACG
* *
8884351 CGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCTCATTGCGATTTACGGATACG
1 CGTTGCGATTTACAGATACGCATTGCGATTTACGTATTCGCATTGCGATTTAC-GATACG
* * * * * * *
8884411 CGTTGTGATTTTAC-G-TATTGTCTTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACT
1 CGTTGCGA-TTTACAGATA-CG-CATTGCGATTTACGTATTCGCATTGCGA-TTTAC-GATACG
8884473 CGTTGCGAT
1 CGTTGCGAT
8884482 AGTCAGAATC
Statistics
Matches: 166, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
59 2 0.01
60 116 0.70
61 30 0.18
62 18 0.11
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.37
Consensus pattern (59 bp):
CGTTGCGATTTACAGATACGCATTGCGATTTACGTATTCGCATTGCGATTTACGATACG
Found at i:8886971 original size:3 final size:3
Alignment explanation
Indices: 8886963--8887030 Score: 100
Period size: 3 Copynumber: 22.0 Consensus size: 3
8886953 GATTCATTTG
*
8886963 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT ATT AAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
*
8887009 AAT ATT ATAT ATT ATT ATT ATT
1 ATT ATT AT-T ATT ATT ATT ATT
8887031 TAATAAATAA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
3 53 0.90
4 6 0.10
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:8887766 original size:13 final size:13
Alignment explanation
Indices: 8887748--8887776 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
8887738 CCACCGTTCA
8887748 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
8887761 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
8887774 CGG
1 CGG
8887777 AGTACGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.62, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:8887833 original size:11 final size:11
Alignment explanation
Indices: 8887817--8887841 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8887807 TCCGGCGAGG
8887817 GAAACTAGAGA
1 GAAACTAGAGA
8887828 GAAACTAGAGA
1 GAAACTAGAGA
8887839 GAA
1 GAA
8887842 CTCTGGTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.08, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAACTAGAGA
Found at i:8888662 original size:20 final size:19
Alignment explanation
Indices: 8888637--8888678 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
8888627 ATACTTTATA
8888637 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
8888657 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
8888676 AAT
1 AAT
8888679 ATCGAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:8888670 original size:119 final size:120
Alignment explanation
Indices: 8888532--8888784 Score: 288
Period size: 120 Copynumber: 2.1 Consensus size: 120
8888522 TATTTTAATC
* * *
8888532 TTGTTTTAA-TATTTATTTATTTTTCAATAT-TAAG-AAAG-GTCAGCCTTAAAACAACTGGATG
1 TTGTTTTAATTATTTATTTATTTTTCAATATCGAAGAAAAGAG-CAGCCTTAAAACAACTAGAAG
*
8888593 TCCATTTTCTGATATTTTTAAATAAATAAATATCATACTTTATA-A-ATT-ATATATT
65 -CCATTTTCTGATATTTCTAAATAAATAAATATCATA-TTTATATATATTAATATATT
* * * * *
8888648 AATTGTTTTAATTATTTATTTATTTTTTAATATCGAAGAAAAGAGCTGTCTTAAGACACCTAGAA
1 --TTGTTTTAATTATTTATTTATTTTTCAATATCGAAGAAAAGAGCAGCCTTAAAACAACTAGAA
* * *
8888713 GCCCTTTTCTGATATTTCTAAATAAGTAAATATCTTATTTATATATATTAATATATT
64 GCCATTTTCTGATATTTCTAAATAAATAAATATCATATTTATATATATTAATATATT
8888770 TT-TTTTAAATTATTT
1 TTGTTTT-AATTATTT
8888785 GAAATAACAG
Statistics
Matches: 115, Mismatches: 12, Indels: 14
0.82 0.09 0.10
Matches are distributed among these distances:
118 9 0.08
119 30 0.26
120 46 0.40
121 22 0.19
122 8 0.07
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.47
Consensus pattern (120 bp):
TTGTTTTAATTATTTATTTATTTTTCAATATCGAAGAAAAGAGCAGCCTTAAAACAACTAGAAGC
CATTTTCTGATATTTCTAAATAAATAAATATCATATTTATATATATTAATATATT
Found at i:8890750 original size:43 final size:43
Alignment explanation
Indices: 8890683--8890768 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
8890673 TGGCTTTAGA
* *
8890683 GAAGTTAGGAGGGAAAGTTATCCCCTATATGTAAAGTTTTGTT
1 GAAGTTAGGACGGAAAGATATCCCCTATATGTAAAGTTTTGTT
* *
8890726 GAAGTTAGGACTGAAAGATGTCCCCTATATGTAAAGTTTTGTT
1 GAAGTTAGGACGGAAAGATATCCCCTATATGTAAAGTTTTGTT
8890769 TGATGCACGG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.30, C:0.10, G:0.24, T:0.35
Consensus pattern (43 bp):
GAAGTTAGGACGGAAAGATATCCCCTATATGTAAAGTTTTGTT
Found at i:8890860 original size:13 final size:13
Alignment explanation
Indices: 8890842--8890884 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
8890832 CTTTTCATAC
8890842 TTGCATTTGTATT
1 TTGCATTTGTATT
8890855 TTGCATTTGTACATTT
1 TTGCATTTGT--A-TT
*
8890871 TTACATTTGTATT
1 TTGCATTTGTATT
8890884 T
1 T
8890885 ACATTTACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 13 0.50
14 1 0.04
15 1 0.04
16 11 0.42
ACGTcount: A:0.19, C:0.09, G:0.12, T:0.60
Consensus pattern (13 bp):
TTGCATTTGTATT
Found at i:8891061 original size:15 final size:15
Alignment explanation
Indices: 8891025--8891063 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
8891015 AATTTACATG
8891025 TTTACATTT-GCATA
1 TTTACATTTGGCATA
*
8891039 TTTACATTTGGCATC
1 TTTACATTTGGCATA
*
8891054 TTTGCATTTG
1 TTTACATTTG
8891064 TATTTTTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (15 bp):
TTTACATTTGGCATA
Found at i:8894381 original size:24 final size:26
Alignment explanation
Indices: 8894353--8894403 Score: 79
Period size: 24 Copynumber: 2.0 Consensus size: 26
8894343 TATTATACTC
8894353 ATCCAGCAAAGAAA-GAAAAAA-AAA
1 ATCCAGCAAAGAAAGGAAAAAAGAAA
*
8894377 ATCCAGCAAATAAAGGAAAAAAGAAA
1 ATCCAGCAAAGAAAGGAAAAAAGAAA
8894403 A
1 A
8894404 AAGAGGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 13 0.54
25 7 0.29
26 4 0.17
ACGTcount: A:0.69, C:0.12, G:0.14, T:0.06
Consensus pattern (26 bp):
ATCCAGCAAAGAAAGGAAAAAAGAAA
Found at i:8894404 original size:8 final size:8
Alignment explanation
Indices: 8894388--8894466 Score: 56
Period size: 8 Copynumber: 9.4 Consensus size: 8
8894378 TCCAGCAAAT
*
8894388 AAAGGAAA
1 AAAGAAAA
8894396 AAAGAAAA
1 AAAGAAAA
8894404 AAGAGGAAAA
1 AA-A-GAAAA
*
8894414 AAGGAAAAA
1 AAAG-AAAA
8894423 AAAGGAAAGA
1 AAA-GAAA-A
8894433 AATAGAAAA
1 AA-AGAAAA
8894442 AAA-ACAAA
1 AAAGA-AAA
8894450 AAAG--AA
1 AAAGAAAA
8894456 AAAGAAAA
1 AAAGAAAA
8894464 AAA
1 AAA
8894467 TTAAATCAAG
Statistics
Matches: 58, Mismatches: 3, Indels: 20
0.72 0.04 0.25
Matches are distributed among these distances:
6 6 0.10
7 1 0.02
8 22 0.38
9 13 0.22
10 15 0.26
11 1 0.02
ACGTcount: A:0.80, C:0.01, G:0.18, T:0.01
Consensus pattern (8 bp):
AAAGAAAA
Found at i:8894414 original size:10 final size:9
Alignment explanation
Indices: 8894388--8894444 Score: 50
Period size: 10 Copynumber: 6.3 Consensus size: 9
8894378 TCCAGCAAAT
8894388 AAAGG-AAA
1 AAAGGAAAA
8894396 AAA-GAAAA
1 AAAGGAAAA
8894404 AAGAGG-AAA
1 AA-AGGAAAA
8894413 AAAGGAAAAA
1 AAAGG-AAAA
8894423 AAAGGAAAGA
1 AAAGGAAA-A
8894433 AATA-GAAAA
1 AA-AGGAAAA
8894442 AAA
1 AAA
8894445 ACAAAAAAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
7 1 0.02
8 12 0.29
9 12 0.29
10 16 0.38
11 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (9 bp):
AAAGGAAAA
Found at i:8894420 original size:18 final size:17
Alignment explanation
Indices: 8894388--8894458 Score: 81
Period size: 17 Copynumber: 4.0 Consensus size: 17
8894378 TCCAGCAAAT
8894388 AAAGGAAAAAAGAAAAA
1 AAAGGAAAAAAGAAAAA
*
8894405 AGAGGAAAAAAGGAAAAA
1 AAAGGAAAAAA-GAAAAA
8894423 AAAGGAAAGAAATAGAAAAA
1 AAAGG-AA-AAA-AGAAAAA
*
8894443 AAA-CAAAAAAGAAAAA
1 AAAGGAAAAAAGAAAAA
8894459 GAAAAAAATT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
16 7 0.15
17 13 0.28
18 12 0.26
19 2 0.04
20 12 0.26
21 1 0.02
ACGTcount: A:0.79, C:0.01, G:0.18, T:0.01
Consensus pattern (17 bp):
AAAGGAAAAAAGAAAAA
Found at i:8894440 original size:20 final size:18
Alignment explanation
Indices: 8894388--8894458 Score: 76
Period size: 18 Copynumber: 4.0 Consensus size: 18
8894378 TCCAGCAAAT
8894388 AAAGG-AAAAAAGAAAAA
1 AAAGGAAAAAAAGAAAAA
* *
8894405 AGAGGAAAAAAGGAAAAA
1 AAAGGAAAAAAAGAAAAA
8894423 AAAGGAAAGAAATAGAAAAA
1 AAAGGAAA-AAA-AGAAAAA
*
8894443 AAA--CAAAAAAGAAAAA
1 AAAGGAAAAAAAGAAAAA
8894459 GAAAAAAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
16 7 0.15
17 7 0.15
18 20 0.43
19 3 0.07
20 9 0.20
ACGTcount: A:0.79, C:0.01, G:0.18, T:0.01
Consensus pattern (18 bp):
AAAGGAAAAAAAGAAAAA
Found at i:8894443 original size:22 final size:22
Alignment explanation
Indices: 8894411--8894466 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
8894401 AAAAAGAGGA
* **
8894411 AAAAAGGAAAAAAA-AGGAAAG
1 AAAAAGAAAAAAAACAAAAAAG
*
8894432 AAATAGAAAAAAAACAAAAAAG
1 AAAAAGAAAAAAAACAAAAAAG
8894454 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
8894467 TTAAATCAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.02
Consensus pattern (22 bp):
AAAAAGAAAAAAAACAAAAAAG
Found at i:8896908 original size:114 final size:114
Alignment explanation
Indices: 8896703--8896925 Score: 374
Period size: 114 Copynumber: 2.0 Consensus size: 114
8896693 TGCCAGGTGA
8896703 TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGA
1 TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGA
* * *
8896768 TTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATTTGC
66 TTCGGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATGAATTTGC
* *
8896817 TCATAGTAGAAATAAGGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGA
1 TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGA
* * *
8896882 TTCGGTAGGAACCCCAGAACCGATCATTGGAATTGAAAGATGAA
66 TTCGGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATGAA
8896926 CTGCATGATC
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 101 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.30
Consensus pattern (114 bp):
TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGA
TTCGGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATGAATTTGC
Found at i:8899416 original size:22 final size:22
Alignment explanation
Indices: 8899390--8899466 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
8899380 ATCTACACTC
8899390 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
8899412 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGATAGATTCTCTT
* * *
8899434 TTTAAAGATGACAGTTTCTCTT
1 TTCAAAGATGATAGATTCTCTT
8899456 TTCAAAGATGA
1 TTCAAAGATGA
8899467 AAGCTTTATC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:8900072 original size:113 final size:113
Alignment explanation
Indices: 8899874--8900744 Score: 938
Period size: 113 Copynumber: 7.9 Consensus size: 113
8899864 GATTCAAATC
* * * *
8899874 CATCA-TCTGATGGATCAACTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCATTC-GATGGATCAGCATTACCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
*
8899938 AAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTCGCTTGAATT
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
* * *
8899987 CATCATTCGATGGATCAACATTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTCGATGGATCAGCATTACCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
8900052 AGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTCGCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
* * *
8900100 CATCATTCGATGGATCATCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTCGATGGATCAGCATTACCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
8900165 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAATTTTTCGTTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
* * * * * * * * *
8900213 CATCATTAGATGGATCAACTTTTCCATAGAAAGTTCATAATGAGAAGAATTTATCT---------
1 CATCATTCGATGGATCAGCATTACCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * ** *
8900269 -GAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTT-GCTCAAATC
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTTGAATT
* * * * *
8900316 CATCACTT-GATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGG
1 CATCA-TTCGATGGATCAGCATTACCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
8900380 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
* *
8900429 CATCATTCGAT-GATTCAGTATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCATTCGATGGA-TCAGCATTACCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
* * * * * *
8900493 AAGGAGAAATTCATAATGAGAAGAATTTATTCAACCTTTT-GC--AAATC
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTTGAATT
* * * * *
8900540 CATCACTT-GATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAG
1 CATCA-TTCGATGGATCAGCATTACCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
* * * *
8900604 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCGAC-TTTAG-TTTAA-T
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
* * * * * * *
8900650 CA--A--C-----ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAATTTATCTGAAGAAGGA
1 CATCATTCGATGGATCAGCATTACCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
**
8900706 AGAAGAAGTTCATAATGAGAAGAGTTTGTTCAACCTTTT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTT
8900745 GCATGACTCT
Statistics
Matches: 661, Mismatches: 72, Indels: 60
0.83 0.09 0.08
Matches are distributed among these distances:
101 78 0.12
102 1 0.00
103 85 0.13
104 6 0.01
108 1 0.00
109 3 0.00
110 4 0.01
111 86 0.13
112 13 0.02
113 377 0.57
114 7 0.01
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (113 bp):
CATCATTCGATGGATCAGCATTACCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
Found at i:8900362 original size:216 final size:214
Alignment explanation
Indices: 8900053--8900703 Score: 769
Period size: 216 Copynumber: 3.0 Consensus size: 214
8900043 GAAGAAGGAA
* ** *
8900053 GAAGAAGTTCATAATAAGAAGAACTTGTTCAA-CTTTTCGCTTGAATTCATCA-TTCGATGGATC
1 GAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTT-GCTCAAATCCATCACTT-GATGGATC
* * * ****
8900116 ATCATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
64 AGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
8900181 GAGAAGAACTTGTTCAATTTTTCGTTTGAATTCATCATTAGATGGATCAACTTTTCCATAGAAAG
129 GAGAAGAACTTGTTCAA-TTTTCGTTTGAATTCATCATTAGAT-GATCAACTTTTCCATAGAAAG
8900246 TTCATAATGAGAAGAATTTATCT
192 TTCATAATGAGAAGAATTTATCT
8900269 GAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAG
1 GAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAG
*
8900334 CTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAAGAAGTTCATAATGA
66 CTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* * * *
8900399 GAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGATTC-AGTATTACCAGGTAG--A
131 GAAGAACTTGTTCAA-TTTTCGTTTGAATTCATCATTAGATGA-TCAACT-TTTCCA--TAGAAA
* *
8900461 GTTCATAATGAGAAGAACTCATCT
191 GTTCATAATGAGAAGAATTTATCT
* *
8900485 GAAGAAGGAAGGAGAAATTCATAATGAGAAGAATTTATTCAACCTTTTG--CAAATCCATCACTT
1 ---GAA-G-A--AG---TTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTT
*
8900548 GATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAG
56 GATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* * * * * *
8900613 TTCATAATGAGAAGAATTTGTTCGACTTTAGTTT--A---ATC---A-A-CATCAACTTTTCCAG
121 TTCATAATGAGAAGAACTTGTTCAATTTTCGTTTGAATTCATCATTAGATGATCAACTTTTCCAT
8900668 AGAAAGTTCATAATGAGAAGAATTTATCT
186 AGAAAGTTCATAATGAGAAGAATTTATCT
8900697 GAAGAAG
1 GAAGAAG
8900704 GAAGAAGAAG
Statistics
Matches: 381, Mismatches: 35, Indels: 49
0.82 0.08 0.11
Matches are distributed among these distances:
205 2 0.01
207 1 0.00
208 1 0.00
209 3 0.01
210 2 0.01
212 30 0.08
213 3 0.01
214 1 0.00
215 4 0.01
216 177 0.46
217 7 0.02
218 6 0.02
219 3 0.01
220 1 0.00
221 2 0.01
223 8 0.02
224 100 0.26
226 30 0.08
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (214 bp):
GAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAG
CTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
GAAGAACTTGTTCAATTTTCGTTTGAATTCATCATTAGATGATCAACTTTTCCATAGAAAGTTCA
TAATGAGAAGAATTTATCT
Found at i:8900490 original size:329 final size:327
Alignment explanation
Indices: 8899868--8900601 Score: 987
Period size: 329 Copynumber: 2.2 Consensus size: 327
8899858 AGCAAAGATT
* *
8899868 CAAATCCATCA-TCTGATGGATCAACTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGA
1 CAAATCCATCACT-TGATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCT--
** *
8899932 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGA
63 --------GAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTCGCTCAAATCCATCATTCGA
****
8899997 TGGATCAACATTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
120 TGGATCAACATTACCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
8900062 CATAATAAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCATCATTACCAG
185 CATAATAAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCATCATTACCAG
* *
8900127 GTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
250 GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTT
* *
8900192 GTTCAA-TTTTTCG
315 ATTCAACCTTTT-G
** * * * * *
8900205 TTTGAATTCATCA-TTAGATGGATCAACTTTTCCATAGAAAGTTCATAATGAGAAGAATTTATCT
1 --CAAATCCATCACTT-GATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCT
*
8900269 GAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTT-GCTCAAATCCATCACTT-GATGGATC
63 GAAGAAGTTCATAATAAGAAGAACTTGTTCAA-CTTTTCGCTCAAATCCATCA-TTCGATGGATC
* * * *
8900332 AGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAAGAAGTTCATAAT
126 AACATTACCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
*
8900397 GAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGAT-GATTCAGT-ATTACCAGGTAG
191 AAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGA-TCA-TCATTACCAGGTAG
* *
8900460 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGGAGAAATTCATAATGAGAAGAATTTATTC
254 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTATTC
8900525 AACCTTTTG
319 AACCTTTTG
*
8900534 CAAATCCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAA
1 CAAATCCATCACTTGATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAA
8900599 GAA
66 GAA
8900602 AGAAGAAGAA
Statistics
Matches: 354, Mismatches: 34, Indels: 26
0.86 0.08 0.06
Matches are distributed among these distances:
327 57 0.16
328 4 0.01
329 227 0.64
330 12 0.03
338 1 0.00
339 53 0.15
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.29
Consensus pattern (327 bp):
CAAATCCATCACTTGATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAA
GAAGTTCATAATAAGAAGAACTTGTTCAACTTTTCGCTCAAATCCATCATTCGATGGATCAACAT
TACCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAA
GAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCATCATTACCAGGTAGAGTTCAT
AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTATTCAACCTTT
TG
Found at i:8900674 original size:101 final size:101
Alignment explanation
Indices: 8900553--8900736 Score: 314
Period size: 101 Copynumber: 1.8 Consensus size: 101
8900543 CACTTGATGG
*
8900553 ATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCAT
1 ATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCAT
8900618 AATGAGAAGAATTTGTTCGACTTTAGTTTAATCAAC
66 AATGAGAAGAATTTGTTCGACTTTAGTTTAATCAAC
* * * *
8900654 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAATTTATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCAT
*
8900719 AATGAGAAGAGTTTGTTC
66 AATGAGAAGAATTTGTTC
8900737 AACCTTTTGC
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 77 1.00
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.28
Consensus pattern (101 bp):
ATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCAT
AATGAGAAGAATTTGTTCGACTTTAGTTTAATCAAC
Found at i:8900805 original size:84 final size:83
Alignment explanation
Indices: 8900706--8900898 Score: 278
Period size: 84 Copynumber: 2.3 Consensus size: 83
8900696 TGAAGAAGGA
** * *
8900706 AGAAGAAGTTCATAATGAGAAGAGTTTGTTCAACCTTTTGCATGACTCTATCACAGAATTAGATA
1 AGAA-AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATAACTCTATCACAGAAGTAGATA
*
8900771 GATCAACATCAACTTTTCC
65 GATCAACATCAACATTTCC
* ** *
8900790 AGAGAAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGTTTAACTCTATCACAGAAGTAGATG
1 AGA-AAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATAACTCTATCACAGAAGTAGATA
8900855 GATCAACATCAACATTTCC
65 GATCAACATCAACATTTCC
*
8900874 AGAAATGTTCATAATGAGAAGAACT
1 AGAAAAGTTCATAATGAGAAGAACT
8900899 CATCTGAAAG
Statistics
Matches: 98, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
83 21 0.21
84 76 0.78
85 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (83 bp):
AGAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATAACTCTATCACAGAAGTAGATAG
ATCAACATCAACATTTCC
Found at i:8901155 original size:3 final size:3
Alignment explanation
Indices: 8901147--8901207 Score: 95
Period size: 3 Copynumber: 20.0 Consensus size: 3
8901137 GATTCATTTG
*
8901147 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT AAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
*
8901193 AAT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT
8901208 TAATAAATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:8901940 original size:13 final size:13
Alignment explanation
Indices: 8901922--8901950 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
8901912 CCACCGTTCA
8901922 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
8901935 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
8901948 CGG
1 CGG
8901951 AGTACGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.62, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:8902826 original size:20 final size:19
Alignment explanation
Indices: 8902801--8902842 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
8902791 ATACTTTATA
8902801 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
8902821 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
8902840 AAT
1 AAT
8902843 ATCGAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:8902838 original size:119 final size:121
Alignment explanation
Indices: 8902696--8902933 Score: 299
Period size: 120 Copynumber: 2.0 Consensus size: 121
8902686 TATTTTAATC
* * *
8902696 TTGTTTTAATATTTATTTATTTTTCAATAT-TAAG-AAAG-GCCAGTCTTAAAACAACTGGATGT
1 TTGTTTTAATATTTATTTATTTTTCAATATCGAAGAAAAGAG-CAGTCTTAAAACAACTAGAAG-
*
8902758 CCATTTTCTGATATTTTTAAATAAATAAATATCATACTTTATA-A-ATT-ATATATTAA
64 CCATTTTCTGATATTTCTAAATAAATAAATATCATA-TTTATATATATTAATATATTAA
* * * *
8902814 TTGTTTTAATTATTTATTTATTTTTTAATATCGAAGAAAAGAGCTGTCTTAAGACACCTAGAAGC
1 TTGTTTTAA-TATTTATTTATTTTTCAATATCGAAGAAAAGAGCAGTCTTAAAACAACTAGAAGC
* * *
8902879 CCTTTTCTGATATTTCTAAATAAGTAAATATCTTATTTATATATATTAATATATT
65 CATTTTCTGATATTTCTAAATAAATAAATATCATATTTATATATATTAATATATT
8902934 TTTTTAAATT
Statistics
Matches: 102, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
118 9 0.09
119 26 0.25
120 36 0.35
121 23 0.23
122 8 0.08
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (121 bp):
TTGTTTTAATATTTATTTATTTTTCAATATCGAAGAAAAGAGCAGTCTTAAAACAACTAGAAGCC
ATTTTCTGATATTTCTAAATAAATAAATATCATATTTATATATATTAATATATTAA
Found at i:8907996 original size:17 final size:17
Alignment explanation
Indices: 8907974--8908023 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
8907964 AAATTCTTCT
8907974 AACATTCATAGAAACCA
1 AACATTCATAGAAACCA
*
8907991 AACA-T--T-GATACTCA
1 AACATTCATAGAAAC-CA
8908005 AACATTCATAGAAACCA
1 AACATTCATAGAAACCA
8908022 AA
1 AA
8908024 ACATGAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
13 4 0.15
14 7 0.27
15 1 0.04
16 1 0.04
17 9 0.35
18 4 0.15
ACGTcount: A:0.52, C:0.22, G:0.06, T:0.20
Consensus pattern (17 bp):
AACATTCATAGAAACCA
Done.