Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 43 of 295
Found at i:12484857 original size:117 final size:117
Alignment explanation
Indices: 12484730--12484960 Score: 417
Period size: 117 Copynumber: 2.0 Consensus size: 117
12484720 ACTATTACAT
* * *
12484730 CAGTGCCATTGAAGATTGTGGACTAAATTTATCAAATAAAAATTAGGATCAAAGTGAAAAAATGA
1 CAGTACCATTGAAGATTGAGGACCAAATTTATCAAATAAAAATTAGGATCAAAGTGAAAAAATGA
12484795 GTAAATGTTAAGGGCTAATTTTGCCACTATGCAAACCCAACTTTAGGGACAC
66 GTAAATGTTAAGGGCTAATTTTGCCACTATGCAAACCCAACTTTAGGGACAC
12484847 CAGTACCATTGAAGATTGAGGACCAAATTTATCAAATAAAAATTAGGATCAAAGTGAAAAAATGA
1 CAGTACCATTGAAGATTGAGGACCAAATTTATCAAATAAAAATTAGGATCAAAGTGAAAAAATGA
* *
12484912 GTAAATGTTAGGGGCTAATTTTGCCACTATGCCAACCCAACTTTAGGGA
66 GTAAATGTTAAGGGCTAATTTTGCCACTATGCAAACCCAACTTTAGGGA
12484961 TATGGGTGCT
Statistics
Matches: 109, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 109 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (117 bp):
CAGTACCATTGAAGATTGAGGACCAAATTTATCAAATAAAAATTAGGATCAAAGTGAAAAAATGA
GTAAATGTTAAGGGCTAATTTTGCCACTATGCAAACCCAACTTTAGGGACAC
Found at i:12485563 original size:42 final size:41
Alignment explanation
Indices: 12485490--12485579 Score: 117
Period size: 42 Copynumber: 2.2 Consensus size: 41
12485480 AGCACTTAGC
* *
12485490 AGCTTTCCATTCCAATGGCGGCGAACCCTCCAAACACCGTT
1 AGCTTTCCATTCCAATGACGCCGAACCCTCCAAACACCGTT
* **
12485531 AGCTTTCCATTTTCAATGACGCCGAGGCCTCCAAACACCGTT
1 AGCTTTCCA-TTCCAATGACGCCGAACCCTCCAAACACCGTT
*
12485573 CGCTTTC
1 AGCTTTC
12485580 GATTGGATCA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 9 0.21
42 33 0.79
ACGTcount: A:0.22, C:0.36, G:0.17, T:0.26
Consensus pattern (41 bp):
AGCTTTCCATTCCAATGACGCCGAACCCTCCAAACACCGTT
Found at i:12488191 original size:2 final size:2
Alignment explanation
Indices: 12488184--12488208 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12488174 TTTGAAATCG
12488184 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
12488209 TTTAAAAAAA
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:12492333 original size:21 final size:21
Alignment explanation
Indices: 12492307--12492347 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
12492297 AGACGAGCAA
*
12492307 TACTCCACAACAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
12492328 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
12492348 TTGAGCAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:12500089 original size:132 final size:132
Alignment explanation
Indices: 12499845--12500090 Score: 323
Period size: 132 Copynumber: 1.9 Consensus size: 132
12499835 TGGAAGATAC
* ** *
12499845 GAGTGAAATTCCGAAGAGACATTCGATTATTTTGAACAAACGGGAGATTGCAACCCAACACGATA
1 GAGTGAAATTCCGAAGAGACATTCGACTATTTTGAACAAACAAGAAATTGCAACCCAACACGATA
* * * ** * *
12499910 GGGCACTATTCCCCGAATTGCCAAACATCGAACATTTCTTTCATTTTAAAGAGTTTTTAGAAAAT
66 GGGCACGATTCCCCAAATTACCAAACATCGAACATCGCCTCCATTTTAAAGAGTTTTTAGAAAAT
12499975 GT
131 GT
* * * *
12499977 GAGTGAAATTCTGAAGAGATATTCGACTATTTTGAGCAAACAAGAAATTGCAACCCAGCAC-AGT
1 GAGTGAAATTCCGAAGAGACATTCGACTATTTTGAACAAACAAGAAATTGCAACCCAACACGA-T
* *
12500041 AGGGCACGATTCCCCAAATTACCAAACATCGAATATCGCCTCCGTTTTAA
65 AGGGCACGATTCCCCAAATTACCAAACATCGAACATCGCCTCCATTTTAA
12500091 GGAATTATAA
Statistics
Matches: 96, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
131 1 0.01
132 95 0.99
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (132 bp):
GAGTGAAATTCCGAAGAGACATTCGACTATTTTGAACAAACAAGAAATTGCAACCCAACACGATA
GGGCACGATTCCCCAAATTACCAAACATCGAACATCGCCTCCATTTTAAAGAGTTTTTAGAAAAT
GT
Found at i:12500795 original size:3 final size:3
Alignment explanation
Indices: 12500787--12500811 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
12500777 CATGGGACTA
12500787 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
12500812 GTAAAATCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12514018 original size:11 final size:11
Alignment explanation
Indices: 12513968--12514018 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
12513958 GGGTTTTGGC
12513968 AGCAAAAC-AA
1 AGCAAAACAAA
12513978 AGCAAAACAAA
1 AGCAAAACAAA
*
12513989 ACCAAGAACAAA
1 AGCAA-AACAAA
*
12514001 ATG-AAAACAGA
1 A-GCAAAACAAA
12514012 AGCAAAA
1 AGCAAAA
12514019 ACGAAAGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 9 0.26
11 16 0.47
12 9 0.26
ACGTcount: A:0.69, C:0.18, G:0.12, T:0.02
Consensus pattern (11 bp):
AGCAAAACAAA
Found at i:12516448 original size:17 final size:17
Alignment explanation
Indices: 12516426--12516467 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
12516416 CTCAAGTCAG
* *
12516426 ATATAATATACTTTTAA
1 ATATAATACACATTTAA
12516443 ATATAA-ACACATTTAA
1 ATATAATACACATTTAA
12516459 ATA-AATACA
1 ATATAATACA
12516468 TATAATAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 2 0.09
16 14 0.64
17 6 0.27
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATAATACACATTTAA
Found at i:12518263 original size:43 final size:45
Alignment explanation
Indices: 12518201--12518337 Score: 181
Period size: 45 Copynumber: 3.1 Consensus size: 45
12518191 TACATGTAAT
* * *
12518201 CATATATC-ATGCCACTGTCCCAGACAGGGTCTTACACG-AATCA
1 CATATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAAACA
* * *
12518244 CATATA-CGATGCCGATGTCCCAGACATGGTCTTACACGTAACCA
1 CATATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAAACA
* *
12518288 AATATATCGATGTCAATGTCCCAGACATGGTCTTACACGAAAACA
1 CATATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAAACA
12518333 CATAT
1 CATAT
12518338 CGGAATCCTA
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 1 0.01
43 33 0.41
44 9 0.11
45 38 0.47
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (45 bp):
CATATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAAACA
Found at i:12518312 original size:45 final size:44
Alignment explanation
Indices: 12518202--12518328 Score: 177
Period size: 43 Copynumber: 2.9 Consensus size: 44
12518192 ACATGTAATC
* * * *
12518202 ATATATC-ATGCCACTGTCCCAGACAGGGTCTTACACGAATCAC
1 ATATATCGATGCCAATGTCCCAGACATGGTCTTACACGAACCAA
*
12518245 ATATA-CGATGCCGATGTCCCAGACATGGTCTTACACGTAACCAA
1 ATATATCGATGCCAATGTCCCAGACATGGTCTTACACG-AACCAA
*
12518289 ATATATCGATGTCAATGTCCCAGACATGGTCTTACACGAA
1 ATATATCGATGCCAATGTCCCAGACATGGTCTTACACGAA
12518329 AACACATATC
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
42 1 0.01
43 32 0.43
44 11 0.15
45 30 0.41
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (44 bp):
ATATATCGATGCCAATGTCCCAGACATGGTCTTACACGAACCAA
Found at i:12521662 original size:21 final size:21
Alignment explanation
Indices: 12521637--12521700 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
12521627 CATTCAATTT
12521637 TCTATAATTCAAATGACCTAA
1 TCTATAATTCAAATGACCTAA
12521658 TCTATAATGTC--AT-A---AA
1 TCTATAAT-TCAAATGACCTAA
12521674 --TATAATTCAAATGACCTAA
1 TCTATAATTCAAATGACCTAA
12521693 TCTATAAT
1 TCTATAAT
12521701 GTCATAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 18
0.65 0.00 0.35
Matches are distributed among these distances:
13 2 0.06
14 6 0.18
15 2 0.06
16 3 0.09
19 3 0.09
20 2 0.06
21 14 0.41
22 2 0.06
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.36
Consensus pattern (21 bp):
TCTATAATTCAAATGACCTAA
Found at i:12521685 original size:35 final size:35
Alignment explanation
Indices: 12521639--12521710 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
12521629 TTCAATTTTC
12521639 TATAATTCAAATGACCTAATCTATAATGTCATAAA
1 TATAATTCAAATGACCTAATCTATAATGTCATAAA
12521674 TATAATTCAAATGACCTAATCTATAATGTCATAAA
1 TATAATTCAAATGACCTAATCTATAATGTCATAAA
12521709 TA
1 TA
12521711 AGAAGATTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.35
Consensus pattern (35 bp):
TATAATTCAAATGACCTAATCTATAATGTCATAAA
Found at i:12529741 original size:17 final size:18
Alignment explanation
Indices: 12529721--12529754 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
12529711 AAGTGAATTG
12529721 AAATTGCA-AAATTAAAT
1 AAATTGCAGAAATTAAAT
12529738 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
12529755 ATAAGGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:12530493 original size:20 final size:20
Alignment explanation
Indices: 12530470--12530509 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
12530460 TGAAATTCTA
12530470 AAAGATAAATACAAA-TAAAT
1 AAAGATAAATA-AAATTAAAT
12530490 AAAGATAAATAAAATTAAAT
1 AAAGATAAATAAAATTAAAT
12530510 CCTAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAGATAAATAAAATTAAAT
Found at i:12535089 original size:22 final size:22
Alignment explanation
Indices: 12535039--12535078 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
12535029 GTCAAAATAG
12535039 AATG-TAA-AAATAAATTTAAA
1 AATGATAATAAATAAATTTAAA
*
12535059 AATGATAATAAATGAATTTA
1 AATGATAATAAATAAATTTA
12535079 TAATATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 3 0.18
22 10 0.59
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (22 bp):
AATGATAATAAATAAATTTAAA
Found at i:12535547 original size:3 final size:3
Alignment explanation
Indices: 12535541--12535581 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
12535531 GATGATGATG
*
12535541 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A TACA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA AT
12535582 GATATAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
2 1 0.03
3 33 0.94
4 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:12538375 original size:18 final size:18
Alignment explanation
Indices: 12538349--12538392 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
12538339 CAGTCTTGAT
*
12538349 GATGAATCCGACTTCTGA
1 GATGGATCCGACTTCTGA
12538367 GATGGATCCGACTTCTGA
1 GATGGATCCGACTTCTGA
12538385 GATGGATC
1 GATGGATC
12538393 AATCGGCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (18 bp):
GATGGATCCGACTTCTGA
Found at i:12543239 original size:45 final size:45
Alignment explanation
Indices: 12543139--12543500 Score: 536
Period size: 45 Copynumber: 8.1 Consensus size: 45
12543129 TTTTCTCAAA
* * * *
12543139 TCACCGGCATT-TCGCCTGCTAGGCTC-GAGGCCCG-ATATCCTT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* * ** *
12543181 TCACCGGCATTATAGCCTGTTAGGCTCGAAA-GCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAACATT
*
12543226 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATCT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACAT-T
*
12543272 T-ACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATG
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
*
12543316 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
*
12543361 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAAAATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* *
12543406 TCACCGGCATTATAGCCTACTAGGCTCAAAAGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
12543451 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
12543496 TCACC
1 TCACC
12543501 AGTTCTTTCC
Statistics
Matches: 290, Mismatches: 23, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
42 11 0.04
43 13 0.04
44 8 0.03
45 257 0.89
46 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
Found at i:12552795 original size:22 final size:21
Alignment explanation
Indices: 12552746--12552784 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
12552736 GTCAAAATAG
12552746 AATG-TAA-AAATAATTTAAA
1 AATGATAATAAATAATTTAAA
12552765 AATGATAATAAATGAATTTA
1 AATGATAATAAAT-AATTTA
12552785 TAATATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 3 0.18
21 4 0.24
22 6 0.35
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (21 bp):
AATGATAATAAATAATTTAAA
Found at i:12553245 original size:3 final size:3
Alignment explanation
Indices: 12553237--12553280 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
12553227 TAATAGTATG
*
12553237 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A A-A AT- ACA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
12553281 GATATAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 5 0.14
3 32 0.86
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:12553275 original size:24 final size:23
Alignment explanation
Indices: 12553248--12553292 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
12553238 TAATAATAAT
12553248 AATAATAATAATAATAAAAAATAC
1 AATAATAATAAT-ATAAAAAATAC
*
12553272 AATAATAATGATATAAAAAAT
1 AATAATAATAATATAAAAAAT
12553293 GTCCAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (23 bp):
AATAATAATAATATAAAAAATAC
Found at i:12554439 original size:17 final size:17
Alignment explanation
Indices: 12554421--12554452 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12554411 CTTTATTATT
12554421 TTTTA-TTTA-AATTTG
1 TTTTATTTTATAATTTG
12554436 TTTTATTTTATAATTTG
1 TTTTATTTTATAATTTG
12554453 GGCCCGGGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 4 0.27
17 6 0.40
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (17 bp):
TTTTATTTTATAATTTG
Found at i:12561060 original size:18 final size:17
Alignment explanation
Indices: 12561030--12561070 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
12561020 ATTAATTCTG
* *
12561030 AAAAATATTTTTGGGAT
1 AAAAATATATTTGAGAT
12561047 AAAAACTATATTTGAGAT
1 AAAAA-TATATTTGAGAT
12561065 AAAAAT
1 AAAAAT
12561071 GCTTTGAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.51, C:0.02, G:0.12, T:0.34
Consensus pattern (17 bp):
AAAAATATATTTGAGAT
Found at i:12572078 original size:30 final size:30
Alignment explanation
Indices: 12572015--12572079 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
12572005 ACCATTAACT
* * * *
12572015 ATTTTCCATTATAGACGTAATGGAGTTATC
1 ATTTTCCATTACAGACGTAACGGAGCTACC
* *
12572045 ATTTTCCATTACAGACTTAACGGAGCTGCC
1 ATTTTCCATTACAGACGTAACGGAGCTACC
12572075 ATTTT
1 ATTTT
12572080 TCATCCCCAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (30 bp):
ATTTTCCATTACAGACGTAACGGAGCTACC
Found at i:12577167 original size:15 final size:15
Alignment explanation
Indices: 12577147--12577177 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12577137 GTTGATAAAG
12577147 TATCACAAAATGCTC
1 TATCACAAAATGCTC
12577162 TATCACAAAATGCTC
1 TATCACAAAATGCTC
12577177 T
1 T
12577178 CGGAAGTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.26, G:0.06, T:0.29
Consensus pattern (15 bp):
TATCACAAAATGCTC
Found at i:12585590 original size:28 final size:31
Alignment explanation
Indices: 12585538--12585594 Score: 84
Period size: 28 Copynumber: 1.9 Consensus size: 31
12585528 TGTTTTAATA
*
12585538 ATTTATGAAAATTTTATCAAATCAAAATTTT
1 ATTTATGAAAATTGTATCAAATCAAAATTTT
12585569 ATTTAT-AAAATTGTA-C-AATCAAAATT
1 ATTTATGAAAATTGTATCAAATCAAAATT
12585595 CATGAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 10 0.40
29 1 0.04
30 8 0.32
31 6 0.24
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (31 bp):
ATTTATGAAAATTGTATCAAATCAAAATTTT
Found at i:12592724 original size:2 final size:2
Alignment explanation
Indices: 12592717--12593293 Score: 500
Period size: 2 Copynumber: 283.5 Consensus size: 2
12592707 TTATTTTAAC
* *
12592717 TA TA TA TA TA T- TA TA TA TCA TA TC TA TA TA TC TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
* *
12592758 TA TA TA T- TA TC TA TA TA TA TA GA TA TGA TA TA TA TCA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA T-A TA TA TA
* * *
12592801 TA TC TA TA TA T- TA TC TA TA TA TA TA AA TA TGA TA TA TA TCA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA T-A TA
* *
12592844 TA TA TA TA TA TC TA TCA TA TA TA TA TA TA GA TCA TA T- TA TA TA
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA T-A TA TA TA TA TA
* *
12592887 TA TGA TA TA TA TGA TC TA TA TA TA TA T- TA TC TA TA TA TA TA TA
1 TA T-A TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
12592930 TGA TA TA TA TA T- TA TC TA TA TA TA TA TA GA TA TA GA TA TC TA
1 T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
12592972 TA TA TA TA TGA TA TA TA TC TA TA TC TA TA TGA TA TA TA T- TA TA
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
* * * * *
12593015 GA TA TA TA TA TA GA TA GA GA T- TA TC TA TA TA TA TA TGA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
* * * *
12593057 TA CA TA TA TC TA TA TA TA TA TC TA TCA TA TA TA TA TA TA GA TCA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA T-A
* * *
12593101 TA T- TA TA TA TA TGA TA TA T- TA TC TA TA TA GA TA TGA TA TC TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
*
12593143 TA TA TA -A TA TA TCA TA TA TGA TC TA TA TA TA TA TCA TA TA TCA
1 TA TA TA TA TA TA T-A TA TA T-A TA TA TA TA TA TA T-A TA TA T-A
* *
12593186 TA TA T- TA TC TA TA TA TA TA T- TA TC TA TA TA TA TGA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
* * * *
12593227 TCA TA TC TA TA TA TC TA TA TA T- TA TC TA TA TA TA TA GA TA TGA
1 T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
12593270 TA TA TA TCA TA TA TA TA TA TA TA T
1 TA TA TA T-A TA TA TA TA TA TA TA T
12593294 CAAAACGTTG
Statistics
Matches: 465, Mismatches: 70, Indels: 80
0.76 0.11 0.13
Matches are distributed among these distances:
1 15 0.03
2 400 0.86
3 50 0.11
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:12592759 original size:15 final size:15
Alignment explanation
Indices: 12592721--12593293 Score: 257
Period size: 15 Copynumber: 38.5 Consensus size: 15
12592711 TTTAACTATA
12592721 TATATATTATATATC
1 TATATATTATATATC
*
12592736 -ATAT-CTATATATC
1 TATATATTATATATC
12592749 TATATATTATATA--
1 TATATATTATATATC
*
12592762 TAT-TATCTATATATA
1 TATATAT-TATATATC
* *
12592777 TAGATATGATATA--
1 TATATATTATATATC
12592790 TATCATA-TATATATC
1 TAT-ATATTATATATC
*
12592805 TATATATTATCTATATA
1 TATATATTA--TATATC
12592822 TATAAATATGATATATATC
1 TAT--ATAT--TATATATC
12592841 -ATATATATATATATC
1 TATATAT-TATATATC
*
12592856 TATCATATATATATATA
1 TAT-ATAT-TATATATC
*
12592873 GATCATATTATATA--
1 TAT-ATATTATATATC
12592887 TATGATA-TATATGATC
1 TAT-ATATTATAT-ATC
12592903 TATATA-TATATTATC
1 TATATATTATA-TATC
12592918 TATATA-TATATAT-
1 TATATATTATATATC
*
12592931 GATATA-TATATTATC
1 TATATATTATA-TATC
* *
12592946 TATATATATATAGATA
1 TATATAT-TATATATC
* *
12592962 TAGATATCTATATATA
1 TATATAT-TATATATC
12592978 TATGATATATATCTATATC
1 TAT-ATAT-TA--TATATC
12592997 TATATGA-TATATAT-
1 TATAT-ATTATATATC
* *
12593011 TATAGA-TATATATA
1 TATATATTATATATC
* * *
12593025 TAGATA-GAGATTATC
1 TATATATTATA-TATC
12593040 TATATA-TATATGA--
1 TATATATTATAT-ATC
*
12593053 TATATA-CATATATC
1 TATATATTATATATC
*
12593067 TATATATATATCTATC
1 TATATAT-TATATATC
*
12593083 -ATATA-TATATATA
1 TATATATTATATATC
*
12593096 GATCATATTATATA--
1 TAT-ATATTATATATC
12593110 TATGATA-TAT-TATC
1 TAT-ATATTATATATC
*
12593124 TATATAGATATGATATC
1 TATATA-TTAT-ATATC
*
12593141 TATATATAATATATC
1 TATATATTATATATC
* * *
12593156 -ATATATGATCTATA
1 TATATATTATATATC
*
12593170 TATATATCATATATC
1 TATATATTATATATC
* *
12593185 -ATATATTATCTATA
1 TATATATTATATATC
* *
12593199 TATATATTATCTATA
1 TATATATTATATATC
12593214 TATATGA-TATATATC
1 TATAT-ATTATATATC
*
12593229 -ATAT-CTATATATC
1 TATATATTATATATC
* *
12593242 TATATATTATCTATA
1 TATATATTATATATC
* *
12593257 TATATA-GATATGATA
1 TATATATTATAT-ATC
*
12593272 TATATCA-TATATATA
1 TATAT-ATTATATATC
12593287 TATATAT
1 TATATAT
12593294 CAAAACGTTG
Statistics
Matches: 446, Mismatches: 57, Indels: 110
0.73 0.09 0.18
Matches are distributed among these distances:
12 6 0.01
13 76 0.17
14 87 0.20
15 148 0.33
16 56 0.13
17 49 0.11
18 4 0.01
19 18 0.04
21 2 0.00
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (15 bp):
TATATATTATATATC
Found at i:12596251 original size:12 final size:12
Alignment explanation
Indices: 12596234--12596259 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12596224 TCATTGATAA
12596234 ATAAACGAGTTT
1 ATAAACGAGTTT
12596246 ATAAACGAGTTT
1 ATAAACGAGTTT
12596258 AT
1 AT
12596260 TCGTAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (12 bp):
ATAAACGAGTTT
Found at i:12598441 original size:34 final size:34
Alignment explanation
Indices: 12598398--12598465 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
12598388 GAGAACGAGA
12598398 AGCAATCGGAAGTCATCCAACAACTTAGACGTTG
1 AGCAATCGGAAGTCATCCAACAACTTAGACGTTG
*
12598432 AGCAATCGGAAGTCCTCCAACAACTTAGACGTTG
1 AGCAATCGGAAGTCATCCAACAACTTAGACGTTG
12598466 GTTTGTTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.21
Consensus pattern (34 bp):
AGCAATCGGAAGTCATCCAACAACTTAGACGTTG
Found at i:12599856 original size:27 final size:25
Alignment explanation
Indices: 12599813--12599868 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 25
12599803 AAGACCAATG
12599813 AATTAAATGATAAAAAACTATAAAACA
1 AATTAAATGATAAAAAA-TAT-AAACA
* *
12599840 AATTAAAAT-ATATAAAATGTAAACA
1 AATT-AAATGATAAAAAATATAAACA
12599865 AATT
1 AATT
12599869 TTAGAATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 9 0.35
26 2 0.08
27 11 0.42
28 4 0.15
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (25 bp):
AATTAAATGATAAAAAATATAAACA
Found at i:12600021 original size:24 final size:25
Alignment explanation
Indices: 12599988--12600046 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
12599978 AGATAATATG
* *
12599988 TATATATAAAAGTGTAAAATAAATAA
1 TATATA-AAAAATCTAAAATAAATAA
*
12600014 TATTTAAAAAATCTAAAATAAATAA
1 TATATAAAAAATCTAAAATAAATAA
12600039 TA-ATAAAA
1 TATATAAAA
12600047 TCATTTGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 5 0.17
25 19 0.66
26 5 0.17
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (25 bp):
TATATAAAAAATCTAAAATAAATAA
Found at i:12600122 original size:27 final size:24
Alignment explanation
Indices: 12600070--12600136 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 24
12600060 GTAAAAAGGG
*
12600070 TTTAAAATAAGGTATATAAGATAA
1 TTTAAAATAAGATATATAAGATAA
12600094 TTTTAAAATAAGTAATATATAAG-TCAA
1 -TTTAAAATAAG--ATATATAAGAT-AA
*
12600121 TTTAAAATAACATATA
1 TTTAAAATAAGATATA
12600137 ACAAGTTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
24 5 0.14
25 11 0.30
26 11 0.30
27 10 0.27
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (24 bp):
TTTAAAATAAGATATATAAGATAA
Found at i:12600448 original size:28 final size:29
Alignment explanation
Indices: 12600385--12600449 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
12600375 GGAAGGAATA
12600385 TAAAAT-AAATAATACATAAAAAATAGAT
1 TAAAATAAAATAATACATAAAAAATAGAT
** *
12600413 TAGGATAAAATATATACATAAAACA-AG-T
1 TAAAATAAAATA-ATACATAAAAAATAGAT
12600441 TAAAATAAA
1 TAAAATAAA
12600450 GAATAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 12 0.40
29 7 0.23
30 11 0.37
ACGTcount: A:0.65, C:0.05, G:0.06, T:0.25
Consensus pattern (29 bp):
TAAAATAAAATAATACATAAAAAATAGAT
Found at i:12600711 original size:19 final size:19
Alignment explanation
Indices: 12600687--12600731 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
12600677 CTAGCAGGGA
12600687 CTAGATGGAAAAATATCCC
1 CTAGATGGAAAAATATCCC
12600706 CTAGATGGAAAAATATCCC
1 CTAGATGGAAAAATATCCC
12600725 CTAGATG
1 CTAGATG
12600732 CTCTGCGCGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (19 bp):
CTAGATGGAAAAATATCCC
Found at i:12606661 original size:23 final size:22
Alignment explanation
Indices: 12606618--12606662 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
12606608 GTTAAATTGA
* **
12606618 ATTGTATGTATGTGATTGTATT
1 ATTGTATGTATATGAAAGTATT
12606640 ATTGTCATGTATATGAAAGTATT
1 ATTGT-ATGTATATGAAAGTATT
12606663 CACATATTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (22 bp):
ATTGTATGTATATGAAAGTATT
Found at i:12612287 original size:50 final size:48
Alignment explanation
Indices: 12612233--12612369 Score: 120
Period size: 44 Copynumber: 2.9 Consensus size: 48
12612223 AGTGGGATGG
12612233 ATTGAAGTTATTATGACGAATCTTACCTCCCTATAGTTGTAGTAGAGCAA
1 ATTGAAGTTA--ATGACGAATCTTACCTCCCTATAGTTGTAGTAGAGCAA
** * * * * * *
12612283 ATTGAAG----CCACAAATTTTATCTCCCTAAAGTTGTAGTGGAGCAT
1 ATTGAAGTTAATGACGAATCTTACCTCCCTATAGTTGTAGTAGAGCAA
* *
12612327 ATCGAAGTTACCATGGCGAATCTTACCTCCCTATAGTTGTAGT
1 ATTGAAGTTA--ATGACGAATCTTACCTCCCTATAGTTGTAGT
12612370 GGGATAGATT
Statistics
Matches: 65, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
44 35 0.54
50 30 0.46
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (48 bp):
ATTGAAGTTAATGACGAATCTTACCTCCCTATAGTTGTAGTAGAGCAA
Found at i:12612598 original size:44 final size:44
Alignment explanation
Indices: 12612251--12613248 Score: 488
Period size: 44 Copynumber: 21.7 Consensus size: 44
12612241 TATTATGACG
* * * * *
12612251 AATCTTACCTCCCT-ATAGTTGTAGTAGAGCAAATTGAAGCCACA
1 AATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * * *
12612295 AATTTTATCTCCCTAAAGTTGTAGTGGAGCATATCGAAGTTACCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CA
* * * *
12612340 TGGCGAATCTTACCTCCCT-ATAGTTGTAGTGG-GATAGATTGAAGCCACA
1 -----AATCTTATCTCCCTGA-AGTTGCAGTGGAG-CAGATTGAAGCTACA
* * * * * *
12612389 AATTTTATCTCCCTGAATTTGTAGTGGAGCATATCGAAGTTACCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CA
* * * *
12612434 TGGCGAATCTTATCT-CCTTATAGTTGTAGTAGG-GTAGATTGAAGCCACA
1 -----AATCTTATCTCCCTGA-AGTTGCAGT-GGAGCAGATTGAAGCTACA
* * ** * * *
12612483 ATTTTTATCTCTTTGAAGTTGCAGTGGAGCATATCGAAGTTATCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CA
* *
12612528 TGGCGAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTACA
1 -----AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * * *
12612577 AGTCTTATCTCCCTGAAGTTGCAGTAGAGTAG-GTGAAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAGCTA-CA
* * * * * *
12612622 AGTCTTATCTCCTTGAAGTTGCAGTAGAGGAGACTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CA
* * * * * * * * *
12612667 AATCTTATCTCTCTAAATTTGAAGTAGAGTAGATTAAAGCGATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * *
12612711 AACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGCTACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
** * * * * * *
12612755 AATCCAATTTCCTTGAAGTTGCAGTGGAGCGGATTAAAGCGATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
** * * *
12612799 AATCTTATACGT--CTGAAGTTGCAGTAGGTCGGATAAAATCTACTATAACTACA
1 AATCTTAT-C-TCCCTGAAGTTGC---A-GT-GGAGCAGAT-T--GA-AGCTACA
* * *
12612852 AATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* *
12612896 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * *
12612940 AGTCCTATCTCCTTGAAGTTGCAGTGGAGCAGACTT-AAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGCTA-CA
* * * * *
12612985 AGTCTTATCTCCCTGAAGTTGTAGTAGAGCAGATAGAAGATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT-ACA
* *
12613030 AATCTTATCTCTTTGCCCTGAAGTTGCAGTGGAGCAGGTTGAAGCTACT
1 AATCTTA--TC--T-CCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * *
12613079 AATCCTATCTCCTTGAAGTTGTAGTGGAGCAGATTAAAGCGACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * *
12613123 AATCCTATAC-CTCTGAAGTTGCAGT-AAGTCAGATTAAATCTACTA
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAGATTGAAGCTAC-A
*
12613168 TAACTACAAATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACA
1 -AA-T-C---T-T-ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * *
12613220 AGTCTTATCTCTCTGAAGTTGCGGTGGAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG
12613249 TGGATCAAAG
Statistics
Matches: 736, Mismatches: 153, Indels: 130
0.72 0.15 0.13
Matches are distributed among these distances:
43 6 0.01
44 366 0.50
45 130 0.18
46 7 0.01
47 7 0.01
48 9 0.01
49 29 0.04
50 123 0.17
51 4 0.01
52 5 0.01
53 48 0.07
54 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
Found at i:12612598 original size:94 final size:93
Alignment explanation
Indices: 12612249--12612601 Score: 465
Period size: 94 Copynumber: 3.8 Consensus size: 93
12612239 GTTATTATGA
* * *
12612249 CGAATCTTACCTCCCTATAGTTGTAGTAGAGCAAATTGAAGCCACAAATTTTATCTCCCTAAAGT
1 CGAATCTTACCTCCCTATAGTTGTAGT-GGGCAGATTGAAGCCACAAATTTTATCTCCCTGAAGT
*
12612314 TGTAGTGGAGCATATCGAAGTTACCATGG
65 TGCAGTGGAGCATATCGAAGTTACCATGG
* *
12612343 CGAATCTTACCTCCCTATAGTTGTAGTGGGATAGATTGAAGCCACAAATTTTATCTCCCTGAATT
1 CGAATCTTACCTCCCTATAGTTGTAGTGGG-CAGATTGAAGCCACAAATTTTATCTCCCTGAAGT
*
12612408 TGTAGTGGAGCATATCGAAGTTACCATGG
65 TGCAGTGGAGCATATCGAAGTTACCATGG
* * * * **
12612437 CGAATCTTATCTCCTTATAGTTGTAGTAGGGTAGATTGAAGCCACAATTTTTATCTCTTTGAAGT
1 CGAATCTTACCTCCCTATAGTTGTAGT-GGGCAGATTGAAGCCACAAATTTTATCTCCCTGAAGT
*
12612502 TGCAGTGGAGCATATCGAAGTTATCATGG
65 TGCAGTGGAGCATATCGAAGTTACCATGG
* * * ** * *
12612531 CGAATCTTATCTCTCTGA-AGTTGCAGTGGAGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAG
1 CGAATCTTACCTCCCT-ATAGTTGTAGTGG-GCAGATTGAAGCCACAAATTTTATCTCCCTGAAG
12612595 TTGCAGT
64 TTGCAGT
12612602 AGAGTAGGTG
Statistics
Matches: 232, Mismatches: 23, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
93 4 0.02
94 224 0.97
95 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (93 bp):
CGAATCTTACCTCCCTATAGTTGTAGTGGGCAGATTGAAGCCACAAATTTTATCTCCCTGAAGTT
GCAGTGGAGCATATCGAAGTTACCATGG
Found at i:12612749 original size:89 final size:87
Alignment explanation
Indices: 12612536--12613040 Score: 232
Period size: 89 Copynumber: 5.6 Consensus size: 87
12612526 CATGGCGAAT
* * * * *
12612536 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTAAAGTTGAAG
* **
12612601 TAGAGTAGGTGAAAGATAGCGAGT
66 TAGAGTAGATGAAAGATA--GAAC
* * * * * *
12612625 CTTATCTCCTTGAAGTTGCAGTAGAGGAGACTGAAGATAGCAAATCTTATCTCTCTAAATTTGAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTTATCTCCCTAAAGTTGAA
*
12612690 GTAGAGTAGATTAAAGCGATA-AAC
65 GTAGAGTAGATGAAA--GATAGAAC
* * * * ** * * * *
12612714 CTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGCTACTAATCCAATTTCCTTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTAAAGTTGAAG
* ** * *
12612779 TGGAGCGGATTAAAGCGATA-AAT
66 TAGAGTAGATGAAA--GATAGAAC
* * * * *
12612802 CTTATACGT--CTGAAGTTGCAGTAGG-TCGGATAAAATCTACTATAACTACAAATCTCATCTCC
1 CTTAT-C-TCCCTGAAGTTGCAGT-GGAGCAGAT----T-GA--A-GA-TACAAATCTTATCTCC
* * * * * *
12612864 CTGAAGTTGCAGTGGAGTAGATTG-AAGTTACAAAT
54 CTAAAGTTGAAGTAGAGTAGA-TGAAAGATA-GAAC
* * * * * * *
12612899 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAGTCCTATCTCCTTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTAAAGTTGAAG
* * * **
12612964 TGGAGCAGACT-TAAGATAGCGAGT
66 TAGAGTAGA-TGAAAGATA--GAAC
* * *
12612988 CTTATCTCCCTGAAGTTGTAGTAGAGCAGATAGAAGATAACAAATCTTATCTC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACAAATCTTATCTC
12613041 TTTGCCCTGA
Statistics
Matches: 320, Mismatches: 72, Indels: 47
0.73 0.16 0.11
Matches are distributed among these distances:
88 94 0.29
89 106 0.33
90 47 0.15
92 6 0.02
93 2 0.01
95 5 0.02
96 3 0.01
97 56 0.17
98 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (87 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTAAAGTTGAAG
TAGAGTAGATGAAAGATAGAAC
Found at i:12613072 original size:139 final size:132
Alignment explanation
Indices: 12612858--12613115 Score: 356
Period size: 139 Copynumber: 1.9 Consensus size: 132
12612848 TACAAATCTC
* * * *
12612858 ATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGG
1 ATCTCCCTGAAGTTGCAGTAGAGCAGATAGAAGTAACAAATCTTATCTCCCTGAAGTTGCAGTGG
* *
12612923 AGTAGATTGAAGTTAC-AAGTCCTATCTCCTTGAAGTTGCAGTGGAGCAGACTTAAGATAGCGAG
66 AGCAGATTGAAGCTACTAA-TCCTATCTCCTTGAAGTTGCAGTGGAGCAGA-TTAAGATAGCGAG
12612987 TCTT
129 TCTT
*
12612991 ATCTCCCTGAAGTTGTAGTAGAGCAGATAGAAGATAACAAATCTTATCTCTTTGCCCTGAAGTTG
1 ATCTCCCTGAAGTTGCAGTAGAGCAGATAGAAG-TAACAAATCTTA--TC--T-CCCTGAAGTTG
* *
12613056 CAGTGGAGCAGGTTGAAGCTACTAATCCTATCTCCTTGAAGTTGTAGTGGAGCAGATTAA
60 CAGTGGAGCAGATTGAAGCTACTAATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAA
12613116 AGCGACAAAT
Statistics
Matches: 109, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
133 29 0.27
134 11 0.10
136 2 0.02
138 5 0.05
139 60 0.55
140 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (132 bp):
ATCTCCCTGAAGTTGCAGTAGAGCAGATAGAAGTAACAAATCTTATCTCCCTGAAGTTGCAGTGG
AGCAGATTGAAGCTACTAATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAGATAGCGAGTC
TT
Found at i:12613140 original size:324 final size:319
Alignment explanation
Indices: 12612533--12613249 Score: 1008
Period size: 324 Copynumber: 2.2 Consensus size: 319
12612523 TATCATGGCG
* * *
12612533 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTG
1 AATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTG
* * * *
12612598 CAGTAGAGTAGGTGAAAGATAGCGAGTCTTATCTCCTTGAAGTTGCAGTAGAGGAGACTGAAGAT
66 CAGTGGAGTAGGTGAAAGATAGCAAGTCCTATCTCCTTGAAGTTGCAGTAGAGCAGACTGAAGAT
* * * * *
12612663 AGCAAATCTTATCTCTCTAAATTTGAAGTAGAGTAGATTAAAGCGATAAACCTTATCTCCCTGAA
131 AGCAAATCTTATCTCCCTAAAGTTGAAGTAGAGCAGATTAAAGCAACAAACCTTATCTCCCTGAA
* * *
12612728 GTTGCAGTGGAGTAGGTTGAAGCTACTAATCCAATTTCCTTGAAGTTGCAGTGGAGCGGATTAAA
196 GTTGCAGTGGAGCAGGTTGAAGCTACTAATCCAATCTCCTTGAAGTTGCAGTGGAGCAGATTAAA
* * * * *
12612793 GCGATAAATCTTATACGTCTGAAGTTGCAGTAGGTCGGATAAAATCTACTATAACTACA
261 GCGACAAATCCTATACCTCTGAAGTTGCAGTAAGTCAGATAAAATCTACTATAACTACA
*
12612852 AATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTCCCTGAAGTTG
1 AATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTG
* * * *
12612917 CAGTGGAGTAGATTG-AAGTTA-CAAGTCCTATCTCCTTGAAGTTGCAGTGGAGCAGACTTAAGA
66 CAGTGGAGTAG-GTGAAAGATAGCAAGTCCTATCTCCTTGAAGTTGCAGTAGAGCAGACTGAAGA
* * * * * *
12612980 TAGCGAGTCTTATCTCCCTGAAGTTGTAGTAGAGCAGA-TAGAAGATAACAAATCTTATCTCTTT
130 TAGCAAATCTTATCTCCCTAAAGTTGAAGTAGAGCAGATTA-AAG-CAACAAACCTTA--TC--T
* *
12613044 GCCCTGAAGTTGCAGTGGAGCAGGTTGAAGCTACTAATCCTATCTCCTTGAAGTTGTAGTGGAGC
189 -CCCTGAAGTTGCAGTGGAGCAGGTTGAAGCTACTAATCCAATCTCCTTGAAGTTGCAGTGGAGC
*
12613109 AGATTAAAGCGACAAATCCTATACCTCTGAAGTTGCAGTAAGTCAGATTAAATCTACTATAACTA
253 AGATTAAAGCGACAAATCCTATACCTCTGAAGTTGCAGTAAGTCAGATAAAATCTACTATAACTA
12613174 CA
318 CA
* *
12613176 AATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAGTCTTATCTCTCTGAAGTTG
1 AATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTG
*
12613241 CGGTGGAGT
66 CAGTGGAGT
12613250 GGATCAAAGC
Statistics
Matches: 352, Mismatches: 38, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
317 2 0.01
318 71 0.20
319 84 0.24
320 2 0.01
321 2 0.01
323 1 0.00
324 190 0.54
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (319 bp):
AATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTG
CAGTGGAGTAGGTGAAAGATAGCAAGTCCTATCTCCTTGAAGTTGCAGTAGAGCAGACTGAAGAT
AGCAAATCTTATCTCCCTAAAGTTGAAGTAGAGCAGATTAAAGCAACAAACCTTATCTCCCTGAA
GTTGCAGTGGAGCAGGTTGAAGCTACTAATCCAATCTCCTTGAAGTTGCAGTGGAGCAGATTAAA
GCGACAAATCCTATACCTCTGAAGTTGCAGTAAGTCAGATAAAATCTACTATAACTACA
Found at i:12613265 original size:44 final size:44
Alignment explanation
Indices: 12613173--12613265 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
12613163 TACTATAACT
* ** *
12613173 ACAAATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCT
1 ACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGCA
* * * *
12613217 ACAAGTCTTATCTCTCTGAAGTTGCGGTGGAGTGGATCAAAGCA
1 ACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGCA
12613261 ACAAG
1 ACAAG
12613266 ATGCGGTGGA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (44 bp):
ACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGCA
Found at i:12614869 original size:3 final size:3
Alignment explanation
Indices: 12614863--12614891 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
12614853 ATTGTTTGTG
12614863 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
12614892 TTAAACCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:12618530 original size:20 final size:20
Alignment explanation
Indices: 12618489--12618530 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
12618479 ATTTCCCACG
* *
12618489 TTGGCCCATTTTCTCATTTT
1 TTGGCCCATTTTCGCATCTT
12618509 TTGGCCCATTTATCGC-TCTT
1 TTGGCCCATTT-TCGCATCTT
12618529 TT
1 TT
12618531 TACTCTCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.10, C:0.26, G:0.12, T:0.52
Consensus pattern (20 bp):
TTGGCCCATTTTCGCATCTT
Found at i:12620985 original size:46 final size:47
Alignment explanation
Indices: 12620924--12621056 Score: 187
Period size: 48 Copynumber: 2.8 Consensus size: 47
12620914 GTCTCACACC
* *
12620924 CTAAGTGCCAATATCATGACCCGAAGCCAAATCAATGTAACT-CACA
1 CTAAGTGCCAATATCATGACCCAAAGCCAACTCAATGTAACTCCACA
* * *
12620970 CTAAGTGCCAATATCATGGCCCAAATCCAACTCAATGTAACTCGCACC
1 CTAAGTGCCAATATCATGACCCAAAGCCAACTCAATGTAACTC-CACA
* *
12621018 CGAAGTGCCAATATCATGTCCCAAAGCCAACTCAATGTA
1 CTAAGTGCCAATATCATGACCCAAAGCCAACTCAATGTA
12621057 TCCCCTAATG
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
46 38 0.49
48 39 0.51
ACGTcount: A:0.36, C:0.30, G:0.14, T:0.20
Consensus pattern (47 bp):
CTAAGTGCCAATATCATGACCCAAAGCCAACTCAATGTAACTCCACA
Found at i:12621033 original size:48 final size:46
Alignment explanation
Indices: 12620920--12621056 Score: 193
Period size: 46 Copynumber: 2.9 Consensus size: 46
12620910 GGGAGTCTCA
* *
12620920 CACCCTAAGTGCCAATATCATGACCCGAAGCCAAATCAATGTAACT
1 CACCCTAAGTGCCAATATCATGACCCAAAGCCAACTCAATGTAACT
* * *
12620966 CACACTAAGTGCCAATATCATGGCCCAAATCCAACTCAATGTAACT
1 CACCCTAAGTGCCAATATCATGACCCAAAGCCAACTCAATGTAACT
* *
12621012 CGCACCCGAAGTGCCAATATCATGTCCCAAAGCCAACTCAATGTA
1 --CACCCTAAGTGCCAATATCATGACCCAAAGCCAACTCAATGTA
12621057 TCCCCTAATG
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 41 0.51
48 39 0.49
ACGTcount: A:0.36, C:0.31, G:0.13, T:0.20
Consensus pattern (46 bp):
CACCCTAAGTGCCAATATCATGACCCAAAGCCAACTCAATGTAACT
Found at i:12624164 original size:46 final size:46
Alignment explanation
Indices: 12624114--12624289 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
12624104 TGGTTGAGCA
*
12624114 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
12624160 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
12624205 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
12624253 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
12624290 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.58
47 28 0.27
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:12624270 original size:93 final size:93
Alignment explanation
Indices: 12624111--12624282 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
12624101 GGATGGTTGA
* * * *
12624111 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
12624176 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
12624204 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
12624269 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
12624283 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:12626306 original size:23 final size:22
Alignment explanation
Indices: 12626280--12626329 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
12626270 CCGAATTATA
*
12626280 TAATA-AATATATATTTTTATTTT
1 TAATATAAT-TATA-TTTTAGTTT
12626303 TAATTATAATTATATTTTAGTTT
1 TAA-TATAATTATATTTTAGTTT
12626326 TAAT
1 TAAT
12626330 TTTAATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
22 1 0.04
23 14 0.58
24 6 0.25
25 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TAATATAATTATATTTTAGTTT
Found at i:12626330 original size:23 final size:24
Alignment explanation
Indices: 12626289--12626335 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
12626279 ATAATAAATA
*
12626289 TATATTTTTATTTTTAATTATAAT
1 TATATTTTTAGTTTTAATTATAAT
*
12626313 TATA-TTTTAGTTTTAATTTTAAT
1 TATATTTTTAGTTTTAATTATAAT
12626336 ATAATCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (24 bp):
TATATTTTTAGTTTTAATTATAAT
Found at i:12626396 original size:40 final size:40
Alignment explanation
Indices: 12626352--12626432 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
12626342 AATTTTTATT
12626352 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
** * * * *
12626392 ATATATTTTTTATTTGTTTCTTGTTTTAATATTTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
12626432 A
1 A
12626433 ATGTATTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.63
Consensus pattern (40 bp):
ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
Found at i:12627158 original size:30 final size:30
Alignment explanation
Indices: 12627124--12627184 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
12627114 TCATTAACTC
12627124 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
12627154 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
12627184 A
1 A
12627185 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:12628394 original size:21 final size:20
Alignment explanation
Indices: 12628356--12628394 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
12628346 CAAAACAGGT
*
12628356 ATAACTATCATCAGACATTC
1 ATAACTATCATCAAACATTC
*
12628376 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
12628395 CAAAATACTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:12632423 original size:39 final size:40
Alignment explanation
Indices: 12632311--12632495 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
12632301 TCGAATGATG
* * * *
12632311 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
12632351 TCCGGACTAAGAT-TCGAAGGCATTTGTGTGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
12632391 TCCGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
12632430 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
12632471 -CCGGGCTATGTTCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
12632496 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 32 0.27
40 79 0.66
41 9 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:12634675 original size:24 final size:24
Alignment explanation
Indices: 12634623--12634715 Score: 125
Period size: 24 Copynumber: 3.9 Consensus size: 24
12634613 GAGCTAATGG
**
12634623 ACAGTAAGCTCTATTGAGCT-AAA
1 ACAGTAAGCTCTAACGAGCTGAAA
12634646 ACAGTAAGCTCTAACGAGCTGAAA
1 ACAGTAAGCTCTAACGAGCTGAAA
* *
12634670 ACAGTAAGCTCTTACGAGCTAAAA
1 ACAGTAAGCTCTAACGAGCTGAAA
* *
12634694 ACAGTAAGCTCTTATGAGCTGA
1 ACAGTAAGCTCTAACGAGCTGA
12634716 TATATCGGTA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
23 18 0.29
24 45 0.71
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (24 bp):
ACAGTAAGCTCTAACGAGCTGAAA
Found at i:12634699 original size:48 final size:48
Alignment explanation
Indices: 12634623--12634739 Score: 139
Period size: 48 Copynumber: 2.4 Consensus size: 48
12634613 GAGCTAATGG
*
12634623 ACAGTAAGCTCTATTGAGCTAAAACAGTAAGCTCTAACGAGCTGA-A-A
1 ACAGTAAGCTCTA-CGAGCTAAAACAGTAAGCTCTAACGAGCTGATATA
* *
12634670 ACAGTAAGCTCTTACGAGCTAAAAACAGTAAGCTCTTATGAGCTGATATA
1 ACAGTAAGCTC-TACGAGCT-AAAACAGTAAGCTCTAACGAGCTGATATA
* *
12634720 TCGGTAAGCTCATACGAGCT
1 ACAGTAAGCTC-TACGAGCT
12634740 GTGGTGAGTC
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
47 16 0.27
48 25 0.42
49 1 0.02
50 18 0.30
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (48 bp):
ACAGTAAGCTCTACGAGCTAAAACAGTAAGCTCTAACGAGCTGATATA
Found at i:12640848 original size:17 final size:17
Alignment explanation
Indices: 12640826--12640871 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
12640816 CGTACTTCTA
12640826 TCATACATTCAATCATT
1 TCATACATTCAATCATT
*
12640843 TCATACAATC-ATCATT
1 TCATACATTCAATCATT
*
12640859 TGA-A-ATTCAATCA
1 TCATACATTCAATCA
12640872 ATTTGTCCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 3 0.12
15 5 0.20
16 8 0.32
17 9 0.36
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (17 bp):
TCATACATTCAATCATT
Found at i:12643883 original size:27 final size:27
Alignment explanation
Indices: 12643853--12644030 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
12643843 ATATTGAGTC
* *
12643853 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
12643880 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
12643907 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
12643935 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
12643962 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
12643989 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
12644016 TGCACACTTAGTGCT
1 CGCACACTTAGTGCT
12644031 GTACAATTCA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:12643992 original size:82 final size:81
Alignment explanation
Indices: 12643874--12644029 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
12643864 TGCTATATAA
* *
12643874 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
12643939 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
12643956 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATTGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
12644020 CACTTAGTGC
65 CACTTAGTGC
12644030 TGTACAATTC
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:12644042 original size:82 final size:83
Alignment explanation
Indices: 12643853--12644042 Score: 212
Period size: 82 Copynumber: 2.3 Consensus size: 83
12643843 ATATTGAGTC
* * * * *
12643853 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
12643917 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * **
12643935 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
12643996 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
*
12644016 TGCACACTTAGTGCTGTACAATTCAAT
1 CGCACACTTAGTGCTGTACAATTCAAT
12644043 CCCGCGCACT
Statistics
Matches: 89, Mismatches: 12, Indels: 14
0.77 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 16 0.18
82 69 0.78
83 1 0.01
84 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:12651980 original size:27 final size:27
Alignment explanation
Indices: 12651950--12652127 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
12651940 ATATTGAGTC
* *
12651950 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
12651977 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
12652004 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
12652032 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
12652059 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
12652086 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
12652113 TGCACACTTAGTGCT
1 CGCACACTTAGTGCT
12652128 GTACAATTCA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:12652089 original size:82 final size:81
Alignment explanation
Indices: 12651971--12652126 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
12651961 TGCTATATAA
* *
12651971 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
12652036 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
12652053 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATTGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
12652117 CACTTAGTGC
65 CACTTAGTGC
12652127 TGTACAATTC
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:12652139 original size:82 final size:83
Alignment explanation
Indices: 12651950--12652139 Score: 212
Period size: 82 Copynumber: 2.3 Consensus size: 83
12651940 ATATTGAGTC
* * * * *
12651950 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
12652014 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * **
12652032 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
12652093 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
*
12652113 TGCACACTTAGTGCTGTACAATTCAAT
1 CGCACACTTAGTGCTGTACAATTCAAT
12652140 CCCGCGCACT
Statistics
Matches: 89, Mismatches: 12, Indels: 14
0.77 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 16 0.18
82 69 0.78
83 1 0.01
84 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:12669142 original size:49 final size:49
Alignment explanation
Indices: 12669085--12669362 Score: 349
Period size: 49 Copynumber: 5.6 Consensus size: 49
12669075 TATGCATAGA
** *
12669085 AGCCTGCACTTAGTACTACACATGTGACCAATTATTTGGTACACGTATT
1 AGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAGT
* * * * *
12669134 AGCTTGCACTTAGTACTACACATGTGATCGAAGTTATCGGGTACTCATAGT
1 AGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCGGTACACGTAGT
* *
12669185 AGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGT
1 AGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAGT
* * * *
12669234 AGCCTGCACTTAGTACTACACATGTGATCGAAGTTATCGGGTACGCATAGT
1 AGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCGGTACACGTAGT
* * * *
12669285 AGCCTACACTTAGTACTACACATGCGACTAATAATCCGGTACACGTAGT
1 AGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAGT
*
12669334 AGCCTGCACTTAGTACTACACACGTGACC
1 AGCCTGCACTTAGTACTACACATGTGACC
12669363 TCACAATAGG
Statistics
Matches: 194, Mismatches: 31, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
49 105 0.54
50 12 0.06
51 77 0.40
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
AGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAGT
Found at i:12669214 original size:100 final size:100
Alignment explanation
Indices: 12669068--12669360 Score: 469
Period size: 100 Copynumber: 2.9 Consensus size: 100
12669058 TAGCCAAAGC
* * * * * ** *
12669068 TATCTGGTATGCATAGAAGCCTGCACTTAGTACTACACATGTGACCAATTATTTGGTACACGTAT
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAG
*
12669133 TAGCTTGCACTTAGTACTACACATGTGATCGAAGT
66 TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
*
12669168 TATCGGGTACTCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAG
12669233 TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
66 TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
* *
12669268 TATCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACTAATAATCCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAG
*
12669333 TAGCCTGCACTTAGTACTACACACGTGA
66 TAGCCTGCACTTAGTACTACACATGTGA
12669361 CCTCACAATA
Statistics
Matches: 179, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 179 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAG
TAGCCTGCACTTAGTACTACACATGTGATCGAAGT
Found at i:12680502 original size:14 final size:15
Alignment explanation
Indices: 12680477--12680507 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
12680467 TGATAAATAT
12680477 TTATGTTGTTCTTAA
1 TTATGTTGTTCTTAA
12680492 TTATG-TGTTCTTAA
1 TTATGTTGTTCTTAA
12680506 TT
1 TT
12680508 CTTGTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (15 bp):
TTATGTTGTTCTTAA
Found at i:12687470 original size:42 final size:41
Alignment explanation
Indices: 12687361--12687482 Score: 129
Period size: 44 Copynumber: 2.9 Consensus size: 41
12687351 ATCTGATATG
* *
12687361 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTC
1 TGATTTCGTGTAAGA-CATGTCTGGGACATTGGCATCGAC-TC
*
12687404 TGTTTTACGTGTAAGACAATGTCTGGGACATTGGCATCGTA-TC
1 TGATTT-CGTGTAAGAC-ATGTCTGGGACATTGGCATCG-ACTC
* * *
12687447 TGATTTCGTGTAAGAGCGTGTCTGCGACAGTGGCAT
1 TGATTTCGTGTAAGA-CATGTCTGGGACATTGGCAT
12687483 TAATGTTTGA
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
42 25 0.37
43 14 0.21
44 28 0.41
45 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.32
Consensus pattern (41 bp):
TGATTTCGTGTAAGACATGTCTGGGACATTGGCATCGACTC
Found at i:12695270 original size:43 final size:43
Alignment explanation
Indices: 12695218--12695327 Score: 130
Period size: 43 Copynumber: 2.6 Consensus size: 43
12695208 CTGGCATTTC
* * ** *
12695218 GCCTACTAGGCTTGAAGCCCGATATCATTTCACCAGTATTATA
1 GCCTGCTAGGCTCGAAGCCCGATATCACCTCACCAGCATTATA
* * *
12695261 GCCTGCTAGGATCGAAGCCCGATATTACCTCACCGGCATTATA
1 GCCTGCTAGGCTCGAAGCCCGATATCACCTCACCAGCATTATA
* *
12695304 GCCTGCTAGGCCCAAAGCCCGATA
1 GCCTGCTAGGCTCGAAGCCCGATA
12695328 ATATTATTCA
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (43 bp):
GCCTGCTAGGCTCGAAGCCCGATATCACCTCACCAGCATTATA
Found at i:12701599 original size:27 final size:26
Alignment explanation
Indices: 12701555--12701606 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
12701545 CTTGCTGCAA
*
12701555 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
12701582 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
12701607 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:12711184 original size:64 final size:65
Alignment explanation
Indices: 12711073--12711280 Score: 201
Period size: 67 Copynumber: 3.2 Consensus size: 65
12711063 CATCATGTGT
*
12711073 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC-AGAGA-TAT-ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
12711138 TAG
63 TAG
* * * * *
12711141 ACAAGAGAGCTACAG-GATATATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATG
1 ACAAGAGAGCTACAGAGATATATGTAGCTAGGTCGCATGGGTGA-TACTA-TG-TGTACACCATG
12711205 TAG
63 TAG
* * * * * *
12711208 ACAAGAGAGCTA-TGAGATAAACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-
1 ACAAGAGAGCTACAGAGATATA-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTA
12711269 G
65 G
12711270 TACAAGAGAGC
1 -ACAAGAGAGC
12711281 CGAACTATAT
Statistics
Matches: 117, Mismatches: 17, Indels: 17
0.77 0.11 0.11
Matches are distributed among these distances:
62 1 0.01
63 19 0.16
64 23 0.20
65 9 0.08
66 19 0.16
67 31 0.26
68 15 0.13
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.23
Consensus pattern (65 bp):
ACAAGAGAGCTACAGAGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:12716406 original size:13 final size:13
Alignment explanation
Indices: 12716388--12716416 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
12716378 TTTAGTTTAA
12716388 TTAGTTAATTAGT
1 TTAGTTAATTAGT
12716401 TTAGTTAATTAGT
1 TTAGTTAATTAGT
12716414 TTA
1 TTA
12716417 ATAAACAACC
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:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:12727124 original size:21 final size:21
Alignment explanation
Indices: 12727089--12727128 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12727079 ACAAGAGACG
12727089 AAAGAGCAAATGATGGAGTCCC
1 AAAGAGCAAATGAT-GAGTCCC
*
12727111 AAAGAG-AGATGATGAGTC
1 AAAGAGCAAATGATGAGTC
12727129 AGTTGTCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 6 0.35
22 6 0.35
ACGTcount: A:0.42, C:0.12, G:0.30, T:0.15
Consensus pattern (21 bp):
AAAGAGCAAATGATGAGTCCC
Found at i:12731869 original size:27 final size:27
Alignment explanation
Indices: 12731838--12732015 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
12731828 TAAATTGTAC
12731838 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
12731865 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
12731891 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
12731919 GGCACTAAGTGTGCGAGTTTAACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
12731947 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
12731974 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
12732001 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
12732016 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:12731955 original size:82 final size:81
Alignment explanation
Indices: 12731839--12731994 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
12731829 AAATTGTACA
* * *
12731839 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
12731903 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
12731920 GCACTAAGTGTGCGAGTTTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
12731985 TGCGAGTTGA
65 TGCGAATTGA
12731995 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:12732006 original size:82 final size:81
Alignment explanation
Indices: 12731835--12732015 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
12731825 GATTAAATTG
* * *
12731835 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
12731900 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
12731916 TGCGGCACTAAGTGTGCGAGTTTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
12731980 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
12731998 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
12732016 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:12739807 original size:27 final size:27
Alignment explanation
Indices: 12739776--12739953 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
12739766 TAAATTGTAC
12739776 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
12739803 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
12739829 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
12739857 GGCACTAAGTGTGCGAGTTTAACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
12739885 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
12739912 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
12739939 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
12739954 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:12739893 original size:82 final size:81
Alignment explanation
Indices: 12739777--12739932 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
12739767 AAATTGTACA
* * *
12739777 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
12739841 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
12739858 GCACTAAGTGTGCGAGTTTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
12739923 TGCGAGTTGA
65 TGCGAATTGA
12739933 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:12739944 original size:82 final size:81
Alignment explanation
Indices: 12739773--12739953 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
12739763 GATTAAATTG
* * *
12739773 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
12739838 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
12739854 TGCGGCACTAAGTGTGCGAGTTTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
12739918 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
12739936 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
12739954 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:12755163 original size:26 final size:27
Alignment explanation
Indices: 12755127--12755179 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
12755117 TGTCAGCTAG
* *
12755127 TGAAATTTTAA-TGTTCGAATGTATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
*
12755153 TGAATTTTTAAGTGTCCGAATGCATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
12755180 CAGAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TGAAATTTTAAGTGTCCGAATGCATGC
Found at i:12756510 original size:48 final size:48
Alignment explanation
Indices: 12756446--12756593 Score: 224
Period size: 48 Copynumber: 3.1 Consensus size: 48
12756436 TTGATGTACA
*
12756446 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
12756494 AGATATATATATGTGGTAAAGTCGAAAGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
** ** *
12756542 AGCCATGCATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
12756590 AGAT
1 AGAT
12756594 GTGTATATAT
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 88 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (48 bp):
AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:12763106 original size:44 final size:43
Alignment explanation
Indices: 12763058--12763284 Score: 110
Period size: 44 Copynumber: 5.1 Consensus size: 43
12763048 GGAACAGATC
12763058 GAAGAAAGCAAGCCTTAACCCTCTAAGTAGTAGGGTAACAGGCT
1 GAAGAAAGCAAGCCTTAACCC-CTAAGTAGTAGGGTAACAGGCT
** * * * *
12763102 GAAGATTGC-AGATCTTATCTCCCTGAAGCT-GCAGTGG-AACA-GAT
1 GAAGAAAGCAAG-CCTTAAC-CCCT-AAG-TAGTAG-GGTAACAGGCT
* *
12763146 CGAAAAAAGCAATCCTTAACCCCCTAAGTAGTAGGGTAACAGGCT
1 -GAAGAAAGCAAGCCTTAA-CCCCTAAGTAGTAGGGTAACAGGCT
* * ** ** * *
12763191 AAAGATTA-CAAATCTTGTCTCCCTGAAGCT-GCAGTGG-AACA-GAT
1 GAAGA-AAGCAAGCCTTAAC-CCCT-AAG-TAGTAG-GGTAACAGGCT
*
12763235 CGAAGAAAGCAAGCCTTACCCCTCTAAGTAGTAGGGTAACAGGCT
1 -GAAGAAAGCAAGCCTTAACCC-CTAAGTAGTAGGGTAACAGGCT
12763280 GAAGA
1 GAAGA
12763285 TTGCAAATCT
Statistics
Matches: 130, Mismatches: 31, Indels: 44
0.63 0.15 0.21
Matches are distributed among these distances:
43 9 0.07
44 59 0.45
45 54 0.42
46 8 0.06
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (43 bp):
GAAGAAAGCAAGCCTTAACCCCTAAGTAGTAGGGTAACAGGCT
Found at i:12763125 original size:89 final size:89
Alignment explanation
Indices: 12762938--12763327 Score: 541
Period size: 89 Copynumber: 4.4 Consensus size: 89
12762928 AATTCACAGG
* * * * **
12762938 TCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACGGCAAGCCTTAACCC-CTAAGTAGTA
1 TCTTATCTCCCTAAAGCTGCAGTGGAACAGATCGAAGAAAGCAAGCCTTAACCCTCTAAGTAGTA
* *
12763002 -GGTAACAGGCTGAAGATTGTAGA
66 GGGTAACAGGCTGAAGATTGCAAA
* * * *
12763025 TCTTGTTTCCCTAAATCTACAGTGGAACAGATCGAAGAAAGCAAGCCTTAACCCTCTAAGTAGTA
1 TCTTATCTCCCTAAAGCTGCAGTGGAACAGATCGAAGAAAGCAAGCCTTAACCCTCTAAGTAGTA
*
12763090 GGGTAACAGGCTGAAGATTGCAGA
66 GGGTAACAGGCTGAAGATTGCAAA
* * * *
12763114 TCTTATCTCCCTGAAGCTGCAGTGGAACAGATCGAAAAAAGCAATCCTTAACCCCCTAAGTAGTA
1 TCTTATCTCCCTAAAGCTGCAGTGGAACAGATCGAAGAAAGCAAGCCTTAACCCTCTAAGTAGTA
* *
12763179 GGGTAACAGGCTAAAGATTACAAA
66 GGGTAACAGGCTGAAGATTGCAAA
* * *
12763203 TCTTGTCTCCCTGAAGCTGCAGTGGAACAGATCGAAGAAAGCAAGCCTTACCCCTCTAAGTAGTA
1 TCTTATCTCCCTAAAGCTGCAGTGGAACAGATCGAAGAAAGCAAGCCTTAACCCTCTAAGTAGTA
12763268 GGGTAACAGGCTGAAGATTGCAAA
66 GGGTAACAGGCTGAAGATTGCAAA
* * *
12763292 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAA
1 TCTTATCTCCCTAAAGCTGCAGTGGAACAGATCGAA
12763328 ATCACAATCC
Statistics
Matches: 271, Mismatches: 30, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
87 46 0.17
88 10 0.04
89 215 0.79
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.23
Consensus pattern (89 bp):
TCTTATCTCCCTAAAGCTGCAGTGGAACAGATCGAAGAAAGCAAGCCTTAACCCTCTAAGTAGTA
GGGTAACAGGCTGAAGATTGCAAA
Found at i:12763240 original size:178 final size:177
Alignment explanation
Indices: 12762938--12763328 Score: 606
Period size: 178 Copynumber: 2.2 Consensus size: 177
12762928 AATTCACAGG
* **
12762938 TCTTGTCTCCCTGAAGTTGCAGTGGAACAGATC-AAAGACGGCAAGCCTTAACCCCTAAGTAGTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAAGAAAGCAAGCCTTAACCCCTAAGTAGTA
* ** * * *
12763002 GGTAACAGGCTGAAGATTGTAGATCTTGTTTCCCTAAATCTACAGTGGAACAGATCGAAGAAAGC
66 GGTAACAGGCTAAAGATTACAAATCTTGTCTCCCTAAAGCTACAGTGGAACAGATCGAAGAAAGC
*
12763067 AAGCCTTAACCCTCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGA
131 AAGCCTTAACCCTCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAAA
* *
12763114 TCTTATCTCCCTGAAGCTGCAGTGGAACAGATCGAAA-AAAGCAATCCTTAACCCCCTAAGTAGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAAGAAAGCAAGCCTTAA-CCCCTAAGTAGT
* *
12763178 AGGGTAACAGGCTAAAGATTACAAATCTTGTCTCCCTGAAGCTGCAGTGGAACAGATCGAAGAAA
65 A-GGTAACAGGCTAAAGATTACAAATCTTGTCTCCCTAAAGCTACAGTGGAACAGATCGAAGAAA
*
12763243 GCAAGCCTTACCCCTCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAAA
129 GCAAGCCTTAACCCTCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAAA
*
12763292 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAA
12763329 TCACAATCCT
Statistics
Matches: 195, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
176 42 0.22
177 16 0.08
178 137 0.70
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (177 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAAGAAAGCAAGCCTTAACCCCTAAGTAGTA
GGTAACAGGCTAAAGATTACAAATCTTGTCTCCCTAAAGCTACAGTGGAACAGATCGAAGAAAGC
AAGCCTTAACCCTCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAAA
Found at i:12763356 original size:44 final size:45
Alignment explanation
Indices: 12763293--12763407 Score: 137
Period size: 44 Copynumber: 2.6 Consensus size: 45
12763283 GATTGCAAAT
* *
12763293 CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATCGAAAT-CAC-AATC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGAT-AAAATAAACGAA-C
* **
12763337 CTTATCTCTCTGAAGTTGCAGAAGAGCAGGATAAAATAAACGAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAATAAACGAAC
*
12763382 CATATCTCCCTGAAGTTGCAGTGGAG
1 CTTATCTCCCTGAAGTTGCAGTGGAG
12763408 TAGCTGCAGT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
44 29 0.49
45 28 0.47
46 2 0.03
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAATAAACGAAC
Found at i:12763392 original size:178 final size:178
Alignment explanation
Indices: 12762938--12763406 Score: 509
Period size: 178 Copynumber: 2.6 Consensus size: 178
12762928 AATTCACAGG
* * ** * *
12762938 TCTTGTCTCCCTGAAGTTGCAGTGGAACAGATC-AAAGACGGCAAGCCTTAA-CCCCTAAGTAGT
1 TCTTATCTCCCTGAAGCTGCAGTGGAACAGATCGAAA-AAAGCAATCCTTAACCCCCTAAGTAGC
* * *** * * * * * * * *
12763001 AG-GTAACAGGCTGAAGATTGTAGATCTTGTTTCCCTAAATCTACAGTGGAACAGATCGAAGAAA
65 AGAGTAACAGGATAAAGATAACAAACCATATCTCCCTGAAGCTGCAGTGGAACAGATCGAAGAAA
*
12763065 GCAAGCCTTAACCCTCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGA
130 GCAAGCCTTAACCCTCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAAA
*
12763114 TCTTATCTCCCTGAAGCTGCAGTGGAACAGATCGAAAAAAGCAATCCTTAACCCCCTAAGTAGTA
1 TCTTATCTCCCTGAAGCTGCAGTGGAACAGATCGAAAAAAGCAATCCTTAACCCCCTAAGTAGCA
* * * * * *
12763179 GGGTAACAGGCTAAAGATTACAAATCTTGTCTCCCTGAAGCTGCAGTGGAACAGATCGAAGAAAG
66 GAGTAACAGGATAAAGATAACAAACCATATCTCCCTGAAGCTGCAGTGGAACAGATCGAAGAAAG
*
12763244 CAAGCCTTACCCCTCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAAA
131 CAAGCCTTAACCCTCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAAA
* * ** * * * *
12763292 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAATCA-CAATCCTTATCTCTCTGAAGTTGC
1 TCTTATCTCCCTGAAGCTGCAGTGGAACAGATCGAAAAAAGCAATCCTTAACCCCCT-AAGTAGC
* * *
12763356 AGAAG-AGCAGGATAAA-ATAAACGAACCATATCTCCCTGAAGTTGCAGTGGA
65 AG-AGTAACAGGATAAAGAT-AACAAACCATATCTCCCTGAAGCTGCAGTGGA
12763407 GTAGCTGCAG
Statistics
Matches: 254, Mismatches: 33, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
176 42 0.17
177 32 0.13
178 179 0.70
179 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (178 bp):
TCTTATCTCCCTGAAGCTGCAGTGGAACAGATCGAAAAAAGCAATCCTTAACCCCCTAAGTAGCA
GAGTAACAGGATAAAGATAACAAACCATATCTCCCTGAAGCTGCAGTGGAACAGATCGAAGAAAG
CAAGCCTTAACCCTCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAAA
Found at i:12775335 original size:55 final size:55
Alignment explanation
Indices: 12775255--12775381 Score: 143
Period size: 55 Copynumber: 2.3 Consensus size: 55
12775245 CATATAGGGG
**** * *
12775255 CAAAACAGTCATTTTA--TCAGTTAAGGGCAAGGTGGTCATTTTTCCTCATAAAGGC
1 CAAAACAGTCATTTTACCTCAG-TAAGGGCAAAACAGTCATTTTACCACAT-AAGGC
*
12775310 CAAAACAGTCATTTTACCTCA-TAAGGGCAAAACAGTCATTTTACCACATAAGGG
1 CAAAACAGTCATTTTACCTCAGTAAGGGCAAAACAGTCATTTTACCACATAAGGC
*
12775364 TAAAACAGTCATTTTACC
1 CAAAACAGTCATTTTACC
12775382 ACAAAGCGGG
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
54 21 0.34
55 38 0.61
57 3 0.05
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (55 bp):
CAAAACAGTCATTTTACCTCAGTAAGGGCAAAACAGTCATTTTACCACATAAGGC
Found at i:12775380 original size:27 final size:27
Alignment explanation
Indices: 12775252--12775384 Score: 149
Period size: 27 Copynumber: 4.9 Consensus size: 27
12775242 TATCATATAG
* **
12775252 GGGCAAAACAGTCATTTTATCAGTTAA
1 GGGCAAAACAGTCATTTTACCACATAA
**** * *
12775279 GGGCAAGGTGGTCATTTTTCCTCATAAA
1 GGGCAAAACAGTCATTTTACCACAT-AA
* *
12775307 GGCCAAAACAGTCATTTTACCTCATAA
1 GGGCAAAACAGTCATTTTACCACATAA
12775334 GGGCAAAACAGTCATTTTACCACATAA
1 GGGCAAAACAGTCATTTTACCACATAA
*
12775361 GGGTAAAACAGTCATTTTACCACA
1 GGGCAAAACAGTCATTTTACCACA
12775385 AAGCGGGTCA
Statistics
Matches: 87, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
27 66 0.76
28 21 0.24
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (27 bp):
GGGCAAAACAGTCATTTTACCACATAA
Found at i:12776785 original size:12 final size:12
Alignment explanation
Indices: 12776770--12776808 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
12776760 CCTAGTCTCT
12776770 CTCCTAAAATCC
1 CTCCTAAAATCC
* *
12776782 CTCCTTAAATCT
1 CTCCTAAAATCC
*
12776794 CTCCTCAAATCC
1 CTCCTAAAATCC
12776806 CTC
1 CTC
12776809 AACTGATCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.26, C:0.44, G:0.00, T:0.31
Consensus pattern (12 bp):
CTCCTAAAATCC
Found at i:12780966 original size:28 final size:29
Alignment explanation
Indices: 12780901--12780999 Score: 116
Period size: 28 Copynumber: 3.5 Consensus size: 29
12780891 CATGAGATTG
* *
12780901 GCACTAAGTGTGCG-GGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGGTTC-GATTATATA
12780930 GCACTAAGTGTGCGAGGTT-GATTATATA
1 GCACTAAGTGTGCGAGGTTCGATTATATA
* *
12780958 GCACTAAGTGTGC-AAGTTCGACTACTA-A
1 GCACTAAGTGTGCGAGGTTCGATTA-TATA
12780986 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
12781000 GGCTTATTAT
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
27 4 0.06
28 38 0.61
29 16 0.26
30 4 0.06
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGGTTCGATTATATA
Found at i:12788917 original size:28 final size:28
Alignment explanation
Indices: 12788852--12788950 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
12788842 CATGAGATTG
* * *
12788852 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
12788881 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
12788909 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
12788937 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
12788951 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:12797232 original size:6 final size:6
Alignment explanation
Indices: 12797221--12797259 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
12797211 TCCTCCTATC
*
12797221 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
12797260 CAATTTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:12797265 original size:18 final size:18
Alignment explanation
Indices: 12797226--12797266 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
12797216 CTATCTTTTT
* **
12797226 ATTTTTATTTTTATTTTT
1 ATTTTTATTTTCATTTCA
12797244 ATTTTTATTTTCATTTCA
1 ATTTTTATTTTCATTTCA
12797262 ATTTT
1 ATTTT
12797267 ATTATTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (18 bp):
ATTTTTATTTTCATTTCA
Found at i:12799871 original size:32 final size:32
Alignment explanation
Indices: 12799831--12799896 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
12799821 TTAAGCGGAG
*
12799831 TTGATTGCGAGCCTAGAAATAGTGTGACAAGA
1 TTGATTGCGAGCCTAGAAATAGCGTGACAAGA
12799863 TTGATTGCGAGCCTAGAAATAGCGTGACAAGA
1 TTGATTGCGAGCCTAGAAATAGCGTGACAAGA
12799895 TT
1 TT
12799897 TTGATGGATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (32 bp):
TTGATTGCGAGCCTAGAAATAGCGTGACAAGA
Found at i:12801801 original size:5 final size:5
Alignment explanation
Indices: 12801791--12801832 Score: 57
Period size: 5 Copynumber: 7.8 Consensus size: 5
12801781 GATGATGATG
12801791 TTTTA TTTTA TTTTA TTTTA TTTTTA TTTTTA TTTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA -TTTTA -TTTTA TTTT
12801833 TTATTAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 19 0.53
6 17 0.47
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:12801817 original size:6 final size:6
Alignment explanation
Indices: 12801791--12801833 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
12801781 GATGATGATG
12801791 TTTTA- TTTTA- TTTTA- TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
12801834 TATTAATTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 15 0.41
6 22 0.59
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:12815677 original size:33 final size:33
Alignment explanation
Indices: 12815632--12815725 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 33
12815622 TGCATTACAT
* * *
12815632 TGTTACTATATAGGGCTAAGGCCGAGATTCTAC
1 TGTTACTGTATAGGGCTAAGGCCCAGAATCTAC
* * *
12815665 TGTTACTGTATAGGGCCAAGGCCCAGAATGTAT
1 TGTTACTGTATAGGGCTAAGGCCCAGAATCTAC
* *
12815698 TGATTACTGAATAGGGCTCAGGCCCAGA
1 TG-TTACTGTATAGGGCTAAGGCCCAGA
12815726 CTGTTACTGC
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
33 29 0.57
34 22 0.43
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (33 bp):
TGTTACTGTATAGGGCTAAGGCCCAGAATCTAC
Found at i:12826376 original size:27 final size:26
Alignment explanation
Indices: 12826342--12826487 Score: 132
Period size: 27 Copynumber: 5.4 Consensus size: 26
12826332 TGGATAAGTT
12826342 GTAGAATTACCGAAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCTTGT-AG
*
12826369 GTAGAATTATCGAAATACTCC-TGTAG
1 GTAGAATTACCGAAATAC-CCTTGTAG
** *
12826395 GATAGAATTACCGAAATATTCTTGTTG
1 G-TAGAATTACCGAAATACCCTTGTAG
* * *
12826422 GCTAGAAATACCGAAATACCCCTATAGG
1 G-TAGAATTACCGAAATACCCTTGTA-G
* * *
12826450 GTAGAATTATCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGT-AG
*
12826477 GTAAAATTACC
1 GTAGAATTACC
12826488 ATTTTGCCCC
Statistics
Matches: 94, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
26 4 0.04
27 86 0.91
28 4 0.04
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (26 bp):
GTAGAATTACCGAAATACCCTTGTAG
Found at i:12826419 original size:54 final size:54
Alignment explanation
Indices: 12826343--12826473 Score: 156
Period size: 54 Copynumber: 2.4 Consensus size: 54
12826333 GGATAAGTTG
* * * *
12826343 TAGAATTACCGAAATACCCTTGTAAGG-TAGAATTATCGAAATACTCCTGTAGGA
1 TAGAATTACCGAAATACCCTTGT-AGGCTAGAAATACCGAAATACCCCTATAGGA
** * *
12826397 TAGAATTACCGAAATATTCTTGTTGGCTAGAAATACCGAAATACCCCTATAGGG
1 TAGAATTACCGAAATACCCTTGTAGGCTAGAAATACCGAAATACCCCTATAGGA
* *
12826451 TAGAATTATCGAGATACCCTTGT
1 TAGAATTACCGAAATACCCTTGT
12826474 GGGGTAAAAT
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 2 0.03
54 62 0.97
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (54 bp):
TAGAATTACCGAAATACCCTTGTAGGCTAGAAATACCGAAATACCCCTATAGGA
Found at i:12845154 original size:27 final size:27
Alignment explanation
Indices: 12845131--12845319 Score: 182
Period size: 27 Copynumber: 7.0 Consensus size: 27
12845121 CAAAATTATT
**
12845131 GAAATACCCCTGTAGGGTAGAATTATT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
12845158 GAAATACCTCTGAAGGATAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
12845185 GAAATACCCTTGTTA-GGTAGAAATACT
1 GAAATACCCCTG-TAGGGTAGAATTACC
*
12845212 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
12845239 AAAATACCCTTGAAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
12845266 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * ** * *
12845293 TAGATACCTTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
12845320 ATTTTGCCCC
Statistics
Matches: 128, Mismatches: 32, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
26 2 0.02
27 125 0.98
28 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:12845300 original size:54 final size:54
Alignment explanation
Indices: 12845132--12845315 Score: 203
Period size: 54 Copynumber: 3.4 Consensus size: 54
12845122 AAAATTATTG
* * * * * *
12845132 AAATACCCCTGTAGGGTAGAATTATTGAAATACCTCTGA-AGGATAGAATTACCG
1 AAATACCCTTGTAGGGTAGAAATACTGAAATACCCCT-ATAGGGTAGAATTACCA
* *
12845186 AAATACCCTTGTTA-GGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTATCA
1 AAATACCCTTG-TAGGGTAGAAATACTGAAATACCCCTATAGGGTAGAATTACCA
* * *
12845240 AAATACCCTTGAAGGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACCT
1 AAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTATAGGGTAGAATTACCA
* * *
12845294 AGATACCTTTGTGGGGTA-AAAT
1 AAATACCCTTGTAGGGTAGAAAT
12845316 TACCATTTTG
Statistics
Matches: 110, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
53 5 0.05
54 103 0.94
55 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (54 bp):
AAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTATAGGGTAGAATTACCA
Found at i:12845317 original size:81 final size:81
Alignment explanation
Indices: 12845130--12845287 Score: 230
Period size: 81 Copynumber: 2.0 Consensus size: 81
12845120 ACAAAATTAT
** * *
12845130 TGAAATACCCCTGTAGGGTAGAATTATTGAAATACCTCTGAAGGATAGAATTACCGAAATACCCT
1 TGAAATACCCCTGTAGGGTAGAATTATCAAAATACCTCTGAAGGATAGAAATACCGAAATACCCC
*
12845195 TGTTAGGTAGAAATAC
66 TGATAGGTAGAAATAC
*
12845211 TGAAATACCCCTGTAGGGTAGAATTATCAAAATACC-CTTGAAGGGTAGAAATACCGAAATACCC
1 TGAAATACCCCTGTAGGGTAGAATTATCAAAATACCTC-TGAAGGATAGAAATACCGAAATACCC
12845275 CT-ATAGGGTAGAA
65 CTGATA-GGTAGAA
12845288 TTACCTAGAT
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 3 0.04
81 66 0.96
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (81 bp):
TGAAATACCCCTGTAGGGTAGAATTATCAAAATACCTCTGAAGGATAGAAATACCGAAATACCCC
TGATAGGTAGAAATAC
Found at i:12845960 original size:27 final size:26
Alignment explanation
Indices: 12845930--12846038 Score: 137
Period size: 27 Copynumber: 4.1 Consensus size: 26
12845920 ATTCTGTTAA
* *
12845930 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
*
12845957 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
*
12845984 GTGGCTCTGCCATAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
12846011 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
12846037 GT
1 GT
12846039 AGCCATGCTG
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.21
27 51 0.70
28 7 0.10
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:12846242 original size:12 final size:12
Alignment explanation
Indices: 12846205--12846242 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
12846195 CTGTCACCTA
12846205 ATTCTAGTTCTG
1 ATTCTAGTTCTG
*
12846217 ATTCTTA-TTTTG
1 ATTC-TAGTTCTG
12846229 ATTCTAGTTCTG
1 ATTCTAGTTCTG
12846241 AT
1 AT
12846243 AATGTTTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 2 0.09
12 18 0.82
13 2 0.09
ACGTcount: A:0.18, C:0.13, G:0.13, T:0.55
Consensus pattern (12 bp):
ATTCTAGTTCTG
Found at i:12846251 original size:18 final size:17
Alignment explanation
Indices: 12846230--12846263 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
12846220 CTTATTTTGA
*
12846230 TTCTAGTTCTGATAATGT
1 TTCTAATTCTG-TAATGT
12846248 TTCTAATTCTGTAATG
1 TTCTAATTCTGTAATG
12846264 GGCTAAGGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.50
Consensus pattern (17 bp):
TTCTAATTCTGTAATGT
Found at i:12846256 original size:24 final size:24
Alignment explanation
Indices: 12846202--12846257 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
12846192 ATTCTGTCAC
**
12846202 CTAATTCTAGTTCTGATTCTTATT
1 CTAATTCTAGTTCTGATAATTATT
* *
12846226 TTGATTCTAGTTCTGATAATGT-TT
1 CTAATTCTAGTTCTGATAAT-TATT
12846250 CTAATTCT
1 CTAATTCT
12846258 GTAATGGGCT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.21, C:0.14, G:0.11, T:0.54
Consensus pattern (24 bp):
CTAATTCTAGTTCTGATAATTATT
Found at i:12850782 original size:13 final size:13
Alignment explanation
Indices: 12850764--12850792 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
12850754 GGTTGTTTAT
12850764 TAAACTAATTAAC
1 TAAACTAATTAAC
12850777 TAAACTAATTAAC
1 TAAACTAATTAAC
12850790 TAA
1 TAA
12850793 TTAAACTAAA
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:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:12853042 original size:17 final size:19
Alignment explanation
Indices: 12853013--12853053 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
12853003 TTCATAATAT
12853013 ATCAACAATAATT-ATT-G
1 ATCAACAATAATTCATTCG
12853030 ATCAATCAA-AATTCATTCG
1 ATCAA-CAATAATTCATTCG
12853049 ATCAA
1 ATCAA
12853054 GATTATGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.43
18 6 0.29
19 6 0.29
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (19 bp):
ATCAACAATAATTCATTCG
Found at i:12853551 original size:6 final size:6
Alignment explanation
Indices: 12853537--12853581 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
12853527 AATAAAACTG
* *
12853537 AAATGA AAATAA AAATAA AAAGAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
12853582 GATAAGAGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.13
Consensus pattern (6 bp):
AAATAA
Found at i:12853564 original size:24 final size:24
Alignment explanation
Indices: 12853537--12853583 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
12853527 AATAAAACTG
*
12853537 AAATGAAAATAAAAATAAAAAGAA
1 AAATAAAAATAAAAATAAAAAGAA
12853561 AAATAAAAATAAAAATAAAAAGA
1 AAATAAAAATAAAAATAAAAAGA
12853584 TAAGAGGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (24 bp):
AAATAAAAATAAAAATAAAAAGAA
Found at i:12862764 original size:19 final size:20
Alignment explanation
Indices: 12862740--12862777 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
12862730 GGTACCACCA
12862740 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
12862759 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
12862778 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:12863122 original size:93 final size:93
Alignment explanation
Indices: 12863007--12863177 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
12862997 GCCCCTAAGT
*
12863007 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAATGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
12863071 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* * *
12863100 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
12863165 CGAGTTCGGATGC
66 CGAGTTCGGATGC
12863178 TCGACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:12863172 original size:46 final size:46
Alignment explanation
Indices: 12863002--12863174 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
12862992 AACCCGCCCC
* * *
12863002 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCA
* * *
12863048 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
12863096 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
12863141 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
12863175 TGCTCGACCA
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 58 0.54
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:12863631 original size:30 final size:30
Alignment explanation
Indices: 12863597--12863656 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
12863587 ATTTAATACG
12863597 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
12863627 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
12863657 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:12876574 original size:45 final size:45
Alignment explanation
Indices: 12876401--12876591 Score: 124
Period size: 45 Copynumber: 4.3 Consensus size: 45
12876391 GTGAATTAAC
*
12876401 AGATCTTATCTCCATAAGGTAGCAATGGAGCAGATC-AAGGA-CG-
1 AGATCTTATCTCCATAAGGTAGCAATGGAGCAGATCGAA-GATAGT
* * * ** ** *
12876444 ACGAATCTTATCTCCCTGAGGTAGCAAGGGAGCAGATTTAAGCGACT
1 A-G-ATCTTATCTCCATAAGGTAGCAATGGAGCAGATCGAAGATAGT
* * * * * * * *
12876491 AG-CCTTGTCTCCCTGA-GCAGCAGTGGAGCAG-GCTGAAGATTGT
1 AGATCTTATCTCCATAAGGTAGCAATGGAGCAGATC-GAAGATAGT
*
12876534 AGATCTTATCTCCATAAGGTAGCAATGGAGCAGATCGAAGATGGT
1 AGATCTTATCTCCATAAGGTAGCAATGGAGCAGATCGAAGATAGT
* *
12876579 AAATCTTGTCTCC
1 AGATCTTATCTCC
12876592 TTAAACAGTT
Statistics
Matches: 110, Mismatches: 29, Indels: 16
0.71 0.19 0.10
Matches are distributed among these distances:
43 19 0.17
44 23 0.21
45 63 0.57
46 4 0.04
47 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.24
Consensus pattern (45 bp):
AGATCTTATCTCCATAAGGTAGCAATGGAGCAGATCGAAGATAGT
Found at i:12876715 original size:44 final size:44
Alignment explanation
Indices: 12876667--12877304 Score: 337
Period size: 44 Copynumber: 14.7 Consensus size: 44
12876657 AATATTGTAG
*
12876667 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGGAAATGGAAA
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGGAAATGGTAA
* ** ** *
12876711 ATCTTGTCTCCCTAAGCAGTAATGGAGCAGAT--TTAA-GCCACC
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGGAAATGGTA-A
* * * * * * * *
12876753 ATCCTATCTCCCTAAGTAGTAGTGGAGTAG-GCTGAAGATTGTAG
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGGAA-ATGGTAA
* * * * *
12876797 ATCTTGTCTCCCTAAGTATTAGTGAAGCAGATCGAAAATGGTGA
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGGAAATGGTAA
* * * * *
12876841 ATCTTGTCTCCCTAAGCAGTAGTGGAGTAG-GCTGAAGATTGTAG
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGGAA-ATGGTAA
* * * *
12876885 ATCTTGTCTCCTTAAACAGTAGTGGAGCAGATCGAAAATGGTGA
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGGAAATGGTAA
** * ** ** *
12876929 ATCTTGTCTCCCTAAGCAGTAGTATAGGAGAT--TTAA-GCCACC
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGGAAATGGTA-A
* * * * * *
12876971 ATC-TATCTCCCTAAGCAGTAGTGGAGTAG-GCTGAAGATTGTAG
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGGAA-ATGGTAA
* * *
12877014 ATCTTGTCTCCTTAAACAGTAGTGGAGCAGATCGAAAATGG-AGA
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGGAAATGGTA-A
* ** ** *
12877058 ATCTTGTCT-CCTAAGCAGTAGTGGAGTAGAT--TTAA-GCCACC
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGGAAATGGTA-A
* * * ** * * * *
12877099 ATCCTATCTCCTTAAGCAGTAGTGGAGTGGGT-TGAAGATTGTAG
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGGAA-ATGGTAA
* **
12877143 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCGA
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGGAAATGGTAA
* ** ** *
12877187 ATCTTGTCTCCCTAAGAAGTAGTGGAGCTA-AT--TTAAT-CCACC
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGC-AGATCGGAAATGGTA-A
* * * * * * *
12877229 ATCTTATCTCCCTAAGCAGTAGTAGAGTAG-GCTGAAGATTGTAG
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGGAA-ATGGTAA
12877273 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGAT
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGAT
12877305 TTGAGCCACC
Statistics
Matches: 434, Mismatches: 130, Indels: 59
0.70 0.21 0.09
Matches are distributed among these distances:
40 1 0.00
41 37 0.09
42 79 0.18
43 30 0.07
44 272 0.63
45 15 0.03
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (44 bp):
ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGGAAATGGTAA
Found at i:12876742 original size:130 final size:130
Alignment explanation
Indices: 12876472--12876867 Score: 506
Period size: 130 Copynumber: 3.0 Consensus size: 130
12876462 AGGTAGCAAG
* * * * * * * *
12876472 GGAGCAGATTTAAGCGACTAGCCTTGTCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTGTAGA
1 GGAGCAGATTTAAGCCACCATCC-TATCTCCCTAAACAGTAGTGGAGTAGGCTGAAGATTGTAGA
* * * * * *
12876537 TCTTATCTCCATAAGGTAGCAATGGAGCAGATC-GAAGATGGTAAATCTTGTCTCCTTAAACAGT
65 TCTTGTCTCCCTAA-GTAGTAGTGGAGCAGATCGGAA-ATGGTAAATCTTGTCTCCCTAAGCAGT
*
12876601 TGT
128 AGT
** * *
12876604 AAAGCAGATTTAAGCCACCATCCTATCTCTCTAAACAGTAGTGGAGTAGGCTGAATATTGTAGAT
1 GGAGCAGATTTAAGCCACCATCCTATCTCCCTAAACAGTAGTGGAGTAGGCTGAAGATTGTAGAT
* * *
12876669 CTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGGAAATGGAAAATCTTGTCTCCCTAAGCAGTAAT
66 CTTGTCTCCCTAAGTAGTAGTGGAGCAGATCGGAAATGGTAAATCTTGTCTCCCTAAGCAGTAGT
**
12876734 GGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTAGTAGTGGAGTAGGCTGAAGATTGTAGAT
1 GGAGCAGATTTAAGCCACCATCCTATCTCCCTAAACAGTAGTGGAGTAGGCTGAAGATTGTAGAT
* * * *
12876799 CTTGTCTCCCTAAGTATTAGTGAAGCAGATCGAAAATGGTGAATCTTGTCTCCCTAAGCAGTAGT
66 CTTGTCTCCCTAAGTAGTAGTGGAGCAGATCGGAAATGGTAAATCTTGTCTCCCTAAGCAGTAGT
12876864 GGAG
1 GGAG
12876868 TAGGCTGAAG
Statistics
Matches: 228, Mismatches: 35, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
130 161 0.71
131 49 0.21
132 18 0.08
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (130 bp):
GGAGCAGATTTAAGCCACCATCCTATCTCCCTAAACAGTAGTGGAGTAGGCTGAAGATTGTAGAT
CTTGTCTCCCTAAGTAGTAGTGGAGCAGATCGGAAATGGTAAATCTTGTCTCCCTAAGCAGTAGT
Found at i:12876870 original size:88 final size:88
Alignment explanation
Indices: 12876667--12877213 Score: 427
Period size: 88 Copynumber: 6.3 Consensus size: 88
12876657 AATATTGTAG
* * * * * *
12876667 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGGAA-ATGGAAAATCTTGTCTCCCTAAGCAGT
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGTAG-GCTGAAGATTGTAGATCTTGTCTCCCTAAGCAGT
* ** **
12876731 AATGGAGCAGAT--TTAA--GCCA
65 AGTGGAGCAGATCGAAAATGGTGA
* * * * *
12876751 CCATCCTATCTCCCTAAGTAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAGTAT
1 --ATCTTGTCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAGCAG
*
12876816 TAGTGAAGCAGATCGAAAATGGTGA
64 TAGTGGAGCAGATCGAAAATGGTGA
* *
12876841 ATCTTGTCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCTTAAACAGTA
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTA
12876906 GTGGAGCAGATCGAAAATGGTGA
66 GTGGAGCAGATCGAAAATGGTGA
* *
12876929 ATCTTGTCTCCCTAAGCAGTAGT--A-TA-G--G-AGATT-TAAGCCACCATCTATCTCCCTAAG
1 ATCTTGTCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGT-AG--ATC-T-TGTCTCCCTAAG
* * * *
12876986 CAGTAGTGGAGTAG-GCTGAAGATTGT-A
61 CAGTAGTGGAGCAGATC-GAAAATGGTGA
* * * * * *
12877013 GATCTTGTCTCCTTAAACAGTAGTGGAGCA-GATCGAA-AATGGAGAATCTTGTCT-CCTAAGCA
1 -ATCTTGTCTCCCTAAGCAGTAGTGGAGTAGGCT-GAAGATTGTAG-ATCTTGTCTCCCTAAGCA
* ** **
12877075 GTAGTGGAGTAGAT--TTAA--GCCA
63 GTAGTGGAGCAGATCGAAAATGGTGA
* * * * *
12877097 CCATCCTATCTCCTTAAGCAGTAGTGGAGTGGGTTGAAGATTGTAGATCTTGTCTCCCTAAGCAG
1 --ATCTTGTCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAGCAG
*
12877162 TAGTGGAGCAGATCGAAAATGGCGA
64 TAGTGGAGCAGATCGAAAATGGTGA
*
12877187 ATCTTGTCTCCCTAAGAAGTAGTGGAG
1 ATCTTGTCTCCCTAAGCAGTAGTGGAG
12877214 CTAATTTAAT
Statistics
Matches: 368, Mismatches: 63, Indels: 58
0.75 0.13 0.12
Matches are distributed among these distances:
80 1 0.00
81 7 0.02
82 1 0.00
83 3 0.01
84 5 0.01
85 93 0.25
86 87 0.24
87 21 0.06
88 136 0.37
89 1 0.00
90 7 0.02
91 5 0.01
92 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (88 bp):
ATCTTGTCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTA
GTGGAGCAGATCGAAAATGGTGA
Found at i:12876873 original size:218 final size:217
Alignment explanation
Indices: 12876629--12877086 Score: 729
Period size: 218 Copynumber: 2.1 Consensus size: 217
12876619 CACCATCCTA
* * * *
12876629 TCTCTCTAAACAGTAGTGGAGTAGGCTGAATATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAG
* *
12876694 CAGATCGGAAATGGAAAATCTTGTCTCCCTAAGCAGTAATGGAGCAGATTTAAGCCACCATCCTA
66 CAGATCGAAAATGGAAAATCTTGTCTCCCTAAGCAGTAATAGAGCAGATTTAAGCCACCAT-CTA
* ** *
12876759 TCTCCCTAAGTAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAGTATTAGTGAAG
130 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGAAG
*
12876824 CAGATCGAAAATGGTGAATCTTG
195 CAGATCGAAAATGGAGAATCTTG
*
12876847 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCTTAAACAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAG
** * * *
12876912 CAGATCGAAAATGGTGAATCTTGTCTCCCTAAGCAGTAGTATAGGAGATTTAAGCCACCATCTAT
66 CAGATCGAAAATGGAAAATCTTGTCTCCCTAAGCAGTAATAGAGCAGATTTAAGCCACCATCTAT
* *
12876977 CTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCTTAAACAGTAGTGGAGC
131 CTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGAAGC
12877042 AGATCGAAAATGGAGAATCTTG
196 AGATCGAAAATGGAGAATCTTG
12877064 TCT-CCTAAGCAGTAGTGGAGTAG
1 TCTCCCTAAGCAGTAGTGGAGTAG
12877087 ATTTAAGCCA
Statistics
Matches: 221, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
216 20 0.09
217 87 0.39
218 114 0.52
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (217 bp):
TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAG
CAGATCGAAAATGGAAAATCTTGTCTCCCTAAGCAGTAATAGAGCAGATTTAAGCCACCATCTAT
CTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGAAGC
AGATCGAAAATGGAGAATCTTG
Found at i:12877006 original size:129 final size:129
Alignment explanation
Indices: 12876847--12877304 Score: 740
Period size: 129 Copynumber: 3.5 Consensus size: 129
12876837 GTGAATCTTG
*
12876847 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCTTAAACAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAG
* ** *
12876912 CAGATCGAAAATGGTGAATCTTGTCTCCCTAAGCAGTAGTATAGGAGATTTAAGCCACCATCTA
66 CAGATCGAAAATGGAGAATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATTTAAGCCACCATCTA
*
12876976 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCTTAAACAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAG
12877041 CAGATCGAAAATGGAGAATCTTGTCT-CCTAAGCAGTAGTGGAGTAGATTTAAGCCACCATCCTA
66 CAGATCGAAAATGGAGAATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATTTAAGCCACCAT-CTA
* * * *
12877105 TCTCCTTAAGCAGTAGTGGAGTGGGTTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAG
* * *
12877170 CAGATCGAAAATGGCGAATCTTGTCTCCCTAAGAAGTAGTGGAGCTA-ATTTAATCCACCATCTT
66 CAGATCGAAAATGGAGAATCTTGTCTCCCTAAGCAGTAGTGGAG-TAGATTTAAGCCACCATC-T
12877234 A
129 A
* *
12877235 TCTCCCTAAGCAGTAGTAGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAG
12877300 CAGAT
66 CAGAT
12877305 TTGAGCCACC
Statistics
Matches: 309, Mismatches: 16, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
128 31 0.10
129 179 0.58
130 97 0.31
131 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (129 bp):
TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAG
CAGATCGAAAATGGAGAATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATTTAAGCCACCATCTA
Done.