Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007915.1 Hibiscus syriacus cultivar Beakdansim tig00110318_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1667290
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 10
Found at i:802577 original size:14 final size:14
Alignment explanation
Indices: 802555--802612 Score: 59
Period size: 14 Copynumber: 4.2 Consensus size: 14
802545 AGAAACCCTA
*
802555 AAATC-TAAACCCT
1 AAATCATAAACCAT
*
802568 AAATCATAAACTAT
1 AAATCATAAACCAT
802582 AAA-CACTAAA-CATT
1 AAATCA-TAAACCA-T
802596 AAATCATAAACCAT
1 AAATCATAAACCAT
802610 AAA
1 AAA
802613 CCCTGATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
13 8 0.22
14 25 0.68
15 4 0.11
ACGTcount: A:0.57, C:0.21, G:0.00, T:0.22
Consensus pattern (14 bp):
AAATCATAAACCAT
Found at i:802590 original size:28 final size:28
Alignment explanation
Indices: 802559--802613 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
802549 ACCCTAAAAT
* *
802559 CTAAACCCTAAATCATAAACTATAAACA
1 CTAAACACTAAATCATAAACCATAAACA
*
802587 CTAAACATTAAATCATAAACCATAAAC
1 CTAAACACTAAATCATAAACCATAAAC
802614 CCTGATATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.22
Consensus pattern (28 bp):
CTAAACACTAAATCATAAACCATAAACA
Found at i:802985 original size:9 final size:9
Alignment explanation
Indices: 802955--803006 Score: 54
Period size: 9 Copynumber: 5.7 Consensus size: 9
802945 AATATGTATG
802955 TATAAACTA
1 TATAAACTA
802964 TGTATAATA-TA
1 --TATAA-ACTA
802975 TATAAACTA
1 TATAAACTA
*
802984 TATATA-TA
1 TATAAACTA
802992 TATAAACTA
1 TATAAACTA
803001 TATAAA
1 TATAAA
803007 GTAAATTACT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
8 8 0.22
9 20 0.56
11 7 0.19
12 1 0.03
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (9 bp):
TATAAACTA
Found at i:802992 original size:17 final size:17
Alignment explanation
Indices: 802955--803004 Score: 73
Period size: 17 Copynumber: 2.8 Consensus size: 17
802945 AATATGTATG
802955 TATAAACTATGTATAATATA
1 TATAAACTA--TAT-ATATA
802975 TATAAACTATATATATA
1 TATAAACTATATATATA
802992 TATAAACTATATA
1 TATAAACTATATA
803005 AAGTAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 18 0.60
18 3 0.10
20 9 0.30
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (17 bp):
TATAAACTATATATATA
Found at i:803113 original size:21 final size:21
Alignment explanation
Indices: 803076--803126 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
803066 TAGTTTATAA
*
803076 AAACCCTAAACCTTAAACT-TT
1 AAACCATAAACCTTAAA-TATT
803097 AAACCATAAACAC-TAAATATT
1 AAACCATAAAC-CTTAAATATT
803118 AAACCATAA
1 AAACCATAA
803127 CCCTGATGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.24
Consensus pattern (21 bp):
AAACCATAAACCTTAAATATT
Found at i:803306 original size:15 final size:15
Alignment explanation
Indices: 803286--803315 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
803276 AATCTTAAAC
803286 TATATATACTATATA
1 TATATATACTATATA
803301 TATATATACTATATA
1 TATATATACTATATA
803316 GTTTATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (15 bp):
TATATATACTATATA
Found at i:803322 original size:20 final size:20
Alignment explanation
Indices: 803299--803555 Score: 76
Period size: 20 Copynumber: 12.8 Consensus size: 20
803289 ATATACTATA
803299 TATATATATACTATATAGTT
1 TATATATATACTATATAGTT
* *
803319 TATATTAATAAACTATATAATT
1 TATA-T-ATATACTATATAGTT
*
803341 TATACA-ATA-TATATTA-TT
1 TATATATATACTATA-TAGTT
*
803359 TATA-ATTATAC-ATAATA-TA
1 TATATA-TATACTAT-ATAGTT
* * * *
803378 TAAATATAAATTGTATAGTT
1 TATATATATACTATATAGTT
* * *
803398 TATATATAATTCATATGTAATT
1 TATATAT-ATAC-TATATAGTT
* * *
803420 TATATAAAAACTATGTAGTT
1 TATATATATACTATATAGTT
* *
803440 TCTATATAGTTC-A-ATAGTT
1 TATATATA-TACTATATAGTT
* *
803459 CATATATAAACTATATAGTAT
1 TATATATATACTATATAGT-T
* *
803480 TATAGTTTATAC-AT-T-GTA
1 TATA-TATATACTATATAGTT
*
803498 TATATAGCTTATACATAATATA-TA
1 TATATA---TATAC-T-ATATAGTT
*
803522 TATATATATA-TATATA-TA
1 TATATATATACTATATAGTT
803540 TATATATATA-TATATA
1 TATATATATACTATATA
803556 TTATAGTTGT
Statistics
Matches: 177, Mismatches: 35, Indels: 52
0.67 0.13 0.20
Matches are distributed among these distances:
17 2 0.01
18 38 0.21
19 36 0.20
20 41 0.23
21 15 0.08
22 34 0.19
23 2 0.01
24 9 0.05
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (20 bp):
TATATATATACTATATAGTT
Found at i:803322 original size:22 final size:22
Alignment explanation
Indices: 803288--803563 Score: 79
Period size: 22 Copynumber: 13.4 Consensus size: 22
803278 TCTTAAACTA
* *
803288 TATATACTATATATATATATAC
1 TATATAGTTTATATATATATAC
*
803310 TATATAGTTTATAT-TAATAAAC
1 TATATAGTTTATATAT-ATATAC
* *
803332 TATATAATTTATACA-ATATA-
1 TATATAGTTTATATATATATAC
803352 TAT-TA-TTTATA-AT-TATAC
1 TATATAGTTTATATATATATAC
* * * *
803370 -ATA-A-TATATAAATATAAAT
1 TATATAGTTTATATATATATAC
* *
803389 TGTATAGTTTATATATA-ATTC
1 TATATAGTTTATATATATATAC
* * *
803410 ATATGTAATTTATATA-A-AAAC
1 -TATATAGTTTATATATATATAC
* *
803431 TATGTAGTTTCTATATAGT-T-C
1 TATATAGTTTATATATA-TATAC
*
803452 -A-ATAGTTCATATATA-A-AC
1 TATATAGTTTATATATATATAC
803470 TATATAGTATTATAGT-T-TATAC
1 TATATAGT-TTATA-TATATATAC
*
803492 -AT-T-GTATATATAGCT-TATAC
1 TATATAGTTTATATA--TATATAC
*
803512 ATAATATA-TATATATATATATA-
1 -T-ATATAGTTTATATATATATAC
*
803534 TATATA-TATATATATATATA-
1 TATATAGTTTATATATATATAC
803554 TATTATAGTT
1 TA-TATAGTT
803564 GTTTTAATAT
Statistics
Matches: 192, Mismatches: 29, Indels: 66
0.67 0.10 0.23
Matches are distributed among these distances:
17 14 0.07
18 13 0.07
19 19 0.10
20 52 0.27
21 25 0.13
22 54 0.28
23 6 0.03
24 9 0.05
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (22 bp):
TATATAGTTTATATATATATAC
Found at i:803520 original size:2 final size:2
Alignment explanation
Indices: 803515--803560 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
803505 CTTATACATA
803515 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
803557 -T AT A
1 AT AT A
803561 GTTGTTTTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:804133 original size:210 final size:209
Alignment explanation
Indices: 803629--804329 Score: 1127
Period size: 210 Copynumber: 3.3 Consensus size: 209
803619 TATTTTTCAT
* * * *
803629 ATTTGATCTCTTTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTTATATTTGTTTAATT
1 ATTTGATCCCTTTGTGTTGTTTAATTTATTTAAAATTTTATTTGTAATTTCATATTTGTTCAATT
803694 TAGTCCTCCAAATTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAA
66 TAGTCCTCCAAATTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAA
803759 TTGGCCCATAACTTTTT-AATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAAT
131 TTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAAT
803823 TTAAAATTATTTCG
196 TTAAAATTATTTCG
* * * *
803837 ATTTGATCCCTTTGTGTTGTGTAATTTATTTAAATTTTTATTTGTAATTTTATATTTGTTTAATT
1 ATTTGATCCCTTTGTGTTGTTTAATTTATTTAAAATTTTATTTGTAATTTCATATTTGTTCAATT
* * *
803902 TAGTCCTCCAAATTTTATTTGCATCTGCAATTGACTCATACTTATTACTCATTTCTATTTTTTAA
66 TAGTCCTCCAAATTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAA
* *
803967 TTGACCCATAACTTTTTAAATGGGGTATAATTTATTACTTTTTTGTATTAATTTCAACCTCACAA
131 TTGGCCCATAACTTTTTAAAT-GGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAA
804032 TTTAAAATTATTTCG
195 TTTAAAATTATTTCG
* *
804047 ATTTGATCCCTTTGTGTTTTTTAATTTATTTAAAATTTTATTTTTAATTTCATATTTGTTCAATT
1 ATTTGATCCCTTTGTGTTGTTTAATTTATTTAAAATTTTATTTGTAATTTCATATTTGTTCAATT
* * *
804112 TAGTCCTCCAAATTATATTTGCATATGAAATTGACCCATACTTATTACTTATTTATATTTTTTAA
66 TAGTCCTCCAAATTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAA
*
804177 TTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAGTTTCAACCTCACAAT
131 TTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAAT
*
804242 TTAAAATTATTTCA
196 TTAAAATTATTTCG
804256 ATTTGATCCCTCATCAATGTGTATTGTTTAATTTATTT-AAATTTTGATTTGTAATTTCATATTT
1 ATTTGATCCCT--T---TGTG--TTGTTTAATTTATTTAAAATTTT-ATTTGTAATTTCATATTT
804320 GTTCAATTTA
58 GTTCAATTTA
804330 ATTCTTAAAT
Statistics
Matches: 458, Mismatches: 25, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
208 141 0.31
209 69 0.15
210 195 0.43
211 1 0.00
214 4 0.01
215 7 0.02
216 41 0.09
ACGTcount: A:0.28, C:0.12, G:0.08, T:0.52
Consensus pattern (209 bp):
ATTTGATCCCTTTGTGTTGTTTAATTTATTTAAAATTTTATTTGTAATTTCATATTTGTTCAATT
TAGTCCTCCAAATTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAA
TTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAAT
TTAAAATTATTTCG
Found at i:808031 original size:24 final size:24
Alignment explanation
Indices: 807986--808034 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
807976 TCTCAATATT
*
807986 AATTTCAATTAAAAAATTACATCA
1 AATTTCAATTAAAAAATAACATCA
*
808010 AATTTGAATTAAAAAGA-AACATCA
1 AATTTCAATTAAAAA-ATAACATCA
808034 A
1 A
808035 TCCAAGGTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.57, C:0.10, G:0.04, T:0.29
Consensus pattern (24 bp):
AATTTCAATTAAAAAATAACATCA
Found at i:810451 original size:17 final size:17
Alignment explanation
Indices: 810431--810486 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
810421 ATTTGATAAC
*
810431 TGTAATCGTCTGATATA
1 TGTAATCATCTGATATA
810448 TGTAAAT-ATCTGATA-A
1 TGT-AATCATCTGATATA
*
810464 TTGTAATCATCTAATATA
1 -TGTAATCATCTGATATA
810482 TGTAA
1 TGTAA
810487 ATATATGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
16 4 0.12
17 25 0.76
18 4 0.12
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (17 bp):
TGTAATCATCTGATATA
Found at i:810462 original size:34 final size:34
Alignment explanation
Indices: 810416--810497 Score: 119
Period size: 34 Copynumber: 2.4 Consensus size: 34
810406 CTGTTATCTT
* * *
810416 TAAATATTTGATAACTGTAATCGTCTGATATATG
1 TAAATATATGATAACTGTAATCATCTAATATATG
* *
810450 TAAATATCTGATAATTGTAATCATCTAATATATG
1 TAAATATATGATAACTGTAATCATCTAATATATG
810484 TAAATATATGATAA
1 TAAATATATGATAA
810498 ATGAAAATCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.40
Consensus pattern (34 bp):
TAAATATATGATAACTGTAATCATCTAATATATG
Found at i:810522 original size:35 final size:34
Alignment explanation
Indices: 810416--810510 Score: 91
Period size: 34 Copynumber: 2.8 Consensus size: 34
810406 CTGTTATCTT
* * * * * *
810416 TAAATATTTGATAACTGTAATCGTCTGATATATG
1 TAAATATATGATAAATGAAATCATATAATATATG
* * * *
810450 TAAATATCTGATAATTGTAATCATCTAATATATG
1 TAAATATATGATAAATGAAATCATATAATATATG
810484 TAAATATATGATAAATGAAAATCATAT
1 TAAATATATGATAAATG-AAATCATAT
810511 GATAACTGTA
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
34 45 0.87
35 7 0.13
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (34 bp):
TAAATATATGATAAATGAAATCATATAATATATG
Found at i:814005 original size:21 final size:20
Alignment explanation
Indices: 813961--814006 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
813951 TTTGTGGTCG
*
813961 TTTCTAGCCGTTGGGTATGA
1 TTTCTAGCCGTTGGGGATGA
* *
813981 TTTCTAGCTGTTTGGGGATGT
1 TTTCTAGCCG-TTGGGGATGA
814002 TTTCT
1 TTTCT
814007 CTGCAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.11, C:0.13, G:0.28, T:0.48
Consensus pattern (20 bp):
TTTCTAGCCGTTGGGGATGA
Found at i:814920 original size:20 final size:21
Alignment explanation
Indices: 814883--814922 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
814873 AAATTAAGTT
814883 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
814904 AAATG-ATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
814923 TATTCGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:815177 original size:19 final size:19
Alignment explanation
Indices: 815153--815191 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
815143 TCAAATGCAT
815153 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
815172 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
815191 T
1 T
815192 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:815208 original size:65 final size:64
Alignment explanation
Indices: 815090--815253 Score: 156
Period size: 65 Copynumber: 2.5 Consensus size: 64
815080 TATTCAAAGG
*
815090 CATGCACCGATGCA-TCAGTCCATGCATCGATGCA-TCGATGAATTAATTGAACATCAAATGCAT
1 CATGCACCGATGCACTC--TCCATGCATCGATGCACTC-ATGAATTAATTAAACATCAAATGCAT
815153 TC
63 TC
* *
815155 CATGCACCGATGCACTCTCCATGCATCGATGCACTC-TGAA-TATTTTCAAAACATCGAATGCAT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGAATTA-ATT--AAACATCAAATGCAT
*
815218 TT
63 TC
* * *** *
815220 GATGCATCGATGCACAAGCCATGAATCGATGCAC
1 CATGCACCGATGCACTCTCCATGCATCGATGCAC
815254 CAAGCTATTT
Statistics
Matches: 84, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
62 2 0.02
63 6 0.07
64 16 0.19
65 58 0.69
66 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (64 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGAATTAATTAAACATCAAATGCATTC
Found at i:822708 original size:21 final size:21
Alignment explanation
Indices: 822666--822709 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
822656 ACCCCGGGAG
*
822666 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
822687 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
822708 CT
1 CT
822710 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:823519 original size:20 final size:21
Alignment explanation
Indices: 823482--823521 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
823472 AAATTAAGTT
823482 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
823503 AAATG-ATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
823522 TATTCGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:823776 original size:19 final size:19
Alignment explanation
Indices: 823752--823790 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
823742 TCGAATGCAT
823752 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
823771 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
823790 T
1 T
823791 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:823915 original size:64 final size:65
Alignment explanation
Indices: 823738--823900 Score: 222
Period size: 65 Copynumber: 2.5 Consensus size: 65
823728 GAATTAATTG
* * * *
823738 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
* ** **
823803 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-TTTTCA
823866 A
65 A
823867 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
823901 TGGTGCACCG
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 36 0.42
65 49 0.58
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:828435 original size:21 final size:20
Alignment explanation
Indices: 828396--828445 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
828386 CCCTAAATCC
* *
828396 TTTTTCAAAATTTCATTTTG
1 TTTTTCAAAAATTAATTTTG
828416 TTTTTCAAAAATTAACTTTTG
1 TTTTTCAAAAATTAA-TTTTG
*
828437 -CTTTCAAAA
1 TTTTTCAAAA
828446 GAAAATCGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.32, C:0.12, G:0.04, T:0.52
Consensus pattern (20 bp):
TTTTTCAAAAATTAATTTTG
Found at i:833483 original size:18 final size:20
Alignment explanation
Indices: 833460--833499 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
833450 ATTAATTATC
*
833460 ATTATTAGTTA-G-TTATAT
1 ATTATTAGCTATGATTATAT
833478 ATTATTAGCTATGATTATAT
1 ATTATTAGCTATGATTATAT
833498 AT
1 AT
833500 GTATAGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 1 0.05
20 8 0.42
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.53
Consensus pattern (20 bp):
ATTATTAGCTATGATTATAT
Found at i:834131 original size:22 final size:22
Alignment explanation
Indices: 834105--834149 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
834095 ATGTGAAATT
*
834105 TGTCCCGAAGGACCACTGTATA
1 TGTCCCGAAGGACCACTATATA
*
834127 TGTCCCGAATGACCACTATATA
1 TGTCCCGAAGGACCACTATATA
834149 T
1 T
834150 CCCTCGACTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (22 bp):
TGTCCCGAAGGACCACTATATA
Found at i:834435 original size:17 final size:17
Alignment explanation
Indices: 834397--834437 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
834387 CGTATAATCC
*
834397 ATATTATATGATCATAT
1 ATATTATATCATCATAT
* *
834414 TTATTATATCATCATGT
1 ATATTATATCATCATAT
834431 ATATTAT
1 ATATTAT
834438 CTATGTTCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (17 bp):
ATATTATATCATCATAT
Found at i:837714 original size:21 final size:21
Alignment explanation
Indices: 837684--837727 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
837674 GGATGTTACA
*
837684 ACATATATGTCCCGAAGGACC
1 ACATAGATGTCCCGAAGGACC
837705 ACATAGATGTCCCGAAGGACC
1 ACATAGATGTCCCGAAGGACC
837726 AC
1 AC
837728 TCCTTAAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.30, G:0.20, T:0.16
Consensus pattern (21 bp):
ACATAGATGTCCCGAAGGACC
Found at i:840590 original size:16 final size:16
Alignment explanation
Indices: 840560--840592 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
840550 AGTAAACTAC
840560 GTGATTATATGCATAT
1 GTGATTATATGCATAT
840576 GTGA-TATATGTCATAT
1 GTGATTATATG-CATAT
840592 G
1 G
840593 ATATGAACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.42
Consensus pattern (16 bp):
GTGATTATATGCATAT
Found at i:843509 original size:21 final size:22
Alignment explanation
Indices: 843480--843545 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
843470 TGTGGGGGGT
*
843480 ATCGATTCCC-TCAAGGAGGGA
1 ATCGGTTCCCTTCAAGGAGGGA
*
843501 ATCGGTTCCCATTAAAAGG-GGGA
1 ATCGGTTCCC-TT-CAAGGAGGGA
843524 ATCGGTTCCTCTTCAAGGAGGG
1 ATCGGTTCC-CTTCAAGGAGGG
843546 TATTGATTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
21 9 0.24
22 4 0.11
23 19 0.51
24 5 0.14
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (22 bp):
ATCGGTTCCCTTCAAGGAGGGA
Found at i:847636 original size:117 final size:117
Alignment explanation
Indices: 847421--847637 Score: 258
Period size: 117 Copynumber: 1.9 Consensus size: 117
847411 AAATCAAACT
* * *
847421 TTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCATTTTTCAAGAATTCATTT
1 TTTCTTTTTCAATACTTTCAAATTTCAGTTTTGAAAGCTCTAAATCATTTTCCAACAATTCATTT
* *
847486 TGATTTTCAAAATTCATTTTCGTTTCTAGAAGAAGTTTGTTTAATTTGAAAA
66 TGATTTTCAAAATTCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTGAAAA
* * * * * *
847538 TTTCTTTTTCAGAT-TTTTCAGATTTTAGTTTTGAAAGCTCTAACTCCTTTTCCAACATTTCATT
1 TTTCTTTTTCA-ATACTTTCAAATTTCAGTTTTGAAAGCTCTAAATCATTTTCCAACAATTCATT
* * * **
847602 TTGTTTTTCCAAGTTTGTTTTAGCTTTC-AAAAGAAG
65 TTGATTTTCAAAATTCATTTTAG-TTTCTAAAAGAAG
847638 ATCATTTTTA
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
117 76 0.93
118 6 0.07
ACGTcount: A:0.27, C:0.14, G:0.10, T:0.49
Consensus pattern (117 bp):
TTTCTTTTTCAATACTTTCAAATTTCAGTTTTGAAAGCTCTAAATCATTTTCCAACAATTCATTT
TGATTTTCAAAATTCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTGAAAA
Found at i:851207 original size:20 final size:20
Alignment explanation
Indices: 851182--851237 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
851172 TTTCAAAGTG
*
851182 ATGCACCGATGCACCAATCT
1 ATGCACCGATGCACCAATCC
851202 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
851222 ATGCATCGATGCACCA
1 ATGCACCGATGCACCA
851238 TGGAATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.30, C:0.36, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:851308 original size:45 final size:46
Alignment explanation
Indices: 851259--851346 Score: 151
Period size: 45 Copynumber: 1.9 Consensus size: 46
851249 GAACATCGAA
* *
851259 TGCATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTTAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTTAG
851304 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACT
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACT
851347 CAGGCTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 21 0.52
46 19 0.47
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTTAG
Found at i:875907 original size:103 final size:99
Alignment explanation
Indices: 875673--875909 Score: 267
Period size: 103 Copynumber: 2.3 Consensus size: 99
875663 ATGACCATGG
* * *
875673 ATTTTGCTTCAATTTTCATCTTCTCTTACTAAACCCAAACATGATTTTAAGATTTAACTACCTTA
1 ATTTTGCTTCAATTTTCAACTTCTC-TACTAAACCCAAACATCATTTTAAGATTTAACTACATTA
* * * *
875738 AAAAGATTGCATTCAAGCTATAATCCACCTTAAGG
65 AAAAGACTGAAATCAAGCTATAATCCACCTTAAGA
* * *** * *
875773 ATTTTGCTCCAGTTTTCAACTTCTCTAACTAAACCCAATTTTTCACTCTTTAATATTTAACTATA
1 ATTTTGCTTCAATTTTCAACTTCTCT-ACTAAACCCAA-ACATCA-T-TTTAAGATTTAACTACA
* *
875838 TTAAGAAGACTGAAATCAAGCTATAATCTACCCTTAAGA
62 TTAAAAAGACTGAAATCAAGCTATAATCCA-CCTTAAGA
*
875877 ATTTTGCTTCGATTTTCAACTTCTCTACTAAAC
1 ATTTTGCTTCAATTTTCAACTTCTCTACTAAAC
875910 ACGATTTTCG
Statistics
Matches: 113, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
99 1 0.01
100 33 0.29
101 2 0.02
102 1 0.01
103 46 0.41
104 30 0.27
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (99 bp):
ATTTTGCTTCAATTTTCAACTTCTCTACTAAACCCAAACATCATTTTAAGATTTAACTACATTAA
AAAGACTGAAATCAAGCTATAATCCACCTTAAGA
Found at i:875965 original size:103 final size:100
Alignment explanation
Indices: 875731--875979 Score: 254
Period size: 103 Copynumber: 2.4 Consensus size: 100
875721 AAGATTTAAC
* * * *
875731 TACCTTAAAAAGATTGCATTCAAGCTATAATCCA-CCTTAAGGATTTTGCTCCAGTTTTCAACTT
1 TACCTTAAGAAGACTGCATTCAAGCTATAATCTACCCTTAAGAATTTTGCTCCAGTTTTCAACTT
* * *
875795 CTCTAACTAAACCCAATTTTTCACTCTTTAATATT
66 CTCTAACTAAACACAATTTTTCACACTTTAAGATT
* * * *
875830 TAACTATATTAAGAAGACTGAAATCAAGCTATAATCTACCCTTAAGAATTTTGCTTC-GATTTTC
1 T-AC---CTTAAGAAGACTGCATTCAAGCTATAATCTACCCTTAAGAATTTTGCTCCAG-TTTTC
*
875894 AACTTCTCT-ACTAAACACGA-TTTTCGAAACACTTTCAAGATT
61 AACTTCTCTAACTAAACACAATTTTTC---ACACTTT-AAGATT
* *
875936 TACCTTAAGAAGACTGGCATTCAAACTATAATTTACCCTTAAGA
1 TACCTTAAGAAGACT-GCATTCAAGCTATAATCTACCCTTAAGA
875980 TTGGCATGTA
Statistics
Matches: 122, Mismatches: 17, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
99 1 0.01
100 2 0.02
102 16 0.13
103 59 0.48
104 30 0.25
105 8 0.07
106 6 0.05
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (100 bp):
TACCTTAAGAAGACTGCATTCAAGCTATAATCTACCCTTAAGAATTTTGCTCCAGTTTTCAACTT
CTCTAACTAAACACAATTTTTCACACTTTAAGATT
Found at i:877704 original size:16 final size:18
Alignment explanation
Indices: 877680--877712 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
877670 TTAAATTTAA
877680 ATTTAAATATAT-TTTTC
1 ATTTAAATATATATTTTC
877697 ATTT-AATATATATTTT
1 ATTTAAATATATATTTT
877713 TATAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTAAATATATATTTTC
Found at i:877709 original size:18 final size:17
Alignment explanation
Indices: 877680--877713 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
877670 TTAAATTTAA
877680 ATTTAAATATATTTTTC
1 ATTTAAATATATTTTTC
877697 ATTTAATATATATTTTT
1 ATTTAA-ATATATTTTT
877714 ATAAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTAAATATATTTTTC
Found at i:886633 original size:42 final size:42
Alignment explanation
Indices: 886582--886747 Score: 235
Period size: 42 Copynumber: 3.9 Consensus size: 42
886572 ATAAACAAGT
*
886582 AAATAAATAACACAATAACACCATTAAGTCTCAATAAATCCA
1 AAATAAATAACACAATAACACCATTAAGTCTCAATAAATCTA
* *
886624 AAATAAATAACA-ACATAACACCATTAAGTATCAATAAGTCTA
1 AAATAAATAACACA-ATAACACCATTAAGTCTCAATAAATCTA
* *
886666 AAATAAATAACACAATAACACCATTAAATCTCAATAAGTCTA
1 AAATAAATAACACAATAACACCATTAAGTCTCAATAAATCTA
* * *
886708 AAATAAATAACACCATAACATCATTAAGTCTAAAATAAAT
1 AAATAAATAACACAATAACACCATTAAGTCT-CAATAAAT
886748 AACATCATAA
Statistics
Matches: 111, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.01
42 103 0.93
43 7 0.06
ACGTcount: A:0.55, C:0.18, G:0.03, T:0.23
Consensus pattern (42 bp):
AAATAAATAACACAATAACACCATTAAGTCTCAATAAATCTA
Found at i:886691 original size:84 final size:84
Alignment explanation
Indices: 886582--886736 Score: 265
Period size: 84 Copynumber: 1.8 Consensus size: 84
886572 ATAAACAAGT
*
886582 AAATAAATAACACAATAACACCATTAAGTCTCAATAAATCCAAAATAAATAACAACATAACACCA
1 AAATAAATAACACAATAACACCATTAAATCTCAATAAATCCAAAATAAATAACAACATAACACCA
886647 TTAAGTATCAATAAGTCTA
66 TTAAGTATCAATAAGTCTA
* * * *
886666 AAATAAATAACACAATAACACCATTAAATCTCAATAAGTCTAAAATAAATAACACCATAACATCA
1 AAATAAATAACACAATAACACCATTAAATCTCAATAAATCCAAAATAAATAACAACATAACACCA
886731 TTAAGT
66 TTAAGT
886737 CTAAAATAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 66 1.00
ACGTcount: A:0.55, C:0.19, G:0.03, T:0.23
Consensus pattern (84 bp):
AAATAAATAACACAATAACACCATTAAATCTCAATAAATCCAAAATAAATAACAACATAACACCA
TTAAGTATCAATAAGTCTA
Found at i:886743 original size:74 final size:75
Alignment explanation
Indices: 886638--886787 Score: 216
Period size: 74 Copynumber: 2.0 Consensus size: 75
886628 AAATAACAAC
* *
886638 ATAACACCATTAAGTATCAATAAGTCTAAAATAAATAACA-CAATAACACCATTAAATCTCAATA
1 ATAACACCATTAAGCATCAATAAGTCTAAAATAAATAACATC-ATAACACCAATAAATCTCAATA
886702 AGTCTAAAATAA
65 AGTCT-AAATAA
* * *
886714 ATAACACCA-TAA-CATCATTAAGTCTAAAATAAATAACATCATAACACTAATAAGTCTCAATAA
1 ATAACACCATTAAGCATCAATAAGTCTAAAATAAATAACATCATAACACCAATAAATCTCAATAA
886777 GTCTAAATAA
66 GTCTAAATAA
886787 A
1 A
886788 ATCAACATCA
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
73 7 0.10
74 48 0.71
75 4 0.06
76 9 0.13
ACGTcount: A:0.53, C:0.17, G:0.04, T:0.25
Consensus pattern (75 bp):
ATAACACCATTAAGCATCAATAAGTCTAAAATAAATAACATCATAACACCAATAAATCTCAATAA
GTCTAAATAA
Found at i:886768 original size:32 final size:32
Alignment explanation
Indices: 886679--886770 Score: 116
Period size: 32 Copynumber: 2.8 Consensus size: 32
886669 TAAATAACAC
886679 AATAACACCATTAA-ATCTCAATAAGTCTAAAATA
1 AATAACACCA-TAACA--TCAATAAGTCTAAAATA
*
886713 AATAACACCATAACATCATTAAGTCTAAAATA
1 AATAACACCATAACATCAATAAGTCTAAAATA
*
886745 AATAACATCATAACA-CTAATAAGTCT
1 AATAACACCATAACATC-AATAAGTCT
886771 CAATAAGTCT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
31 1 0.02
32 38 0.72
33 3 0.06
34 11 0.21
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.26
Consensus pattern (32 bp):
AATAACACCATAACATCAATAAGTCTAAAATA
Found at i:886786 original size:84 final size:83
Alignment explanation
Indices: 886582--886787 Score: 227
Period size: 84 Copynumber: 2.5 Consensus size: 83
886572 ATAAACAAGT
*
886582 AAATAAATAACACAATAACACCATTAAGTCTCAATAAATCCAAAATAAATAACAACATAACACCA
1 AAATAAATAACACAATAACACCAATAAGTCTCAATAAATCCAAAATAAATAACAACATAACACCA
* *
886647 TTAAGTATCAATAAGTCTA
66 TTAAGTATAAATAAG-ATA
* * * * * *
886666 AAATAAATAACACAATAACACCATTAAATCTCAATAAGTCTAAAATAAATAACACCATAACATCA
1 AAATAAATAACACAATAACACCAATAAGTCTCAATAAATCCAAAATAAATAACAACATAACACCA
*
886731 TTAAGTCTAAAATAA-ATA
66 TTAAGTAT-AAATAAGATA
* * ** *
886749 ACAT-CATAACACTAATAAGTCTCAATAAGTCTAAATAAA
1 AAATAAATAACAC-AATAACAC-CAATAAGTCTCAATAAA
886788 ATCAACATCA
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
82 7 0.07
83 11 0.11
84 80 0.78
85 5 0.05
ACGTcount: A:0.55, C:0.18, G:0.03, T:0.24
Consensus pattern (83 bp):
AAATAAATAACACAATAACACCAATAAGTCTCAATAAATCCAAAATAAATAACAACATAACACCA
TTAAGTATAAATAAGATA
Found at i:887915 original size:2 final size:2
Alignment explanation
Indices: 887908--887984 Score: 145
Period size: 2 Copynumber: 38.5 Consensus size: 2
887898 GATTATGCCC
*
887908 AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
887950 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
887985 AAGCACCTTA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:892960 original size:3 final size:3
Alignment explanation
Indices: 892952--893025 Score: 103
Period size: 3 Copynumber: 24.0 Consensus size: 3
892942 CCATTTTTAT
* *
892952 TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TAA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
893000 TAA TATA TATA TTA TTA TTA TTA TTA
1 TTA T-TA T-TA TTA TTA TTA TTA TTA
893026 AAAAAATAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
3 58 0.91
4 6 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:894722 original size:26 final size:25
Alignment explanation
Indices: 894681--894732 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
894671 TTCCAAATAA
894681 ATAAATATTTTATTTATA-AATATAT
1 ATAAATATTTTATTTATATAAT-TAT
894706 ATAAATTATTATT-TTTATATAATTAT
1 ATAAA-TATT-TTATTTATATAATTAT
894732 A
1 A
894733 ATTTTGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 5 0.21
26 14 0.58
27 5 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
ATAAATATTTTATTTATATAATTAT
Found at i:894729 original size:17 final size:18
Alignment explanation
Indices: 894703--894737 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
894693 TTTATAAATA
*
894703 TATATAAATTATTATTTT
1 TATATAAATTATAATTTT
894721 TATAT-AATTATAATTTT
1 TATATAAATTATAATTTT
894738 GAAATAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATATAAATTATAATTTT
Found at i:898585 original size:15 final size:15
Alignment explanation
Indices: 898565--898596 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
898555 ATCAATACCT
898565 TTTTGCATACATACA
1 TTTTGCATACATACA
*
898580 TTTTGCATACATTCA
1 TTTTGCATACATACA
898595 TT
1 TT
898597 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATACA
Found at i:905962 original size:17 final size:17
Alignment explanation
Indices: 905926--905962 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
905916 ATTATGCTTG
* *
905926 AAGAAAAAAGAACAAGA
1 AAGAAAAAAGAAAAAAA
905943 AAGAAAAAAGAAAAAAA
1 AAGAAAAAAGAAAAAAA
905960 AAG
1 AAG
905963 GGGTCAAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAGAAAAAAA
Found at i:907497 original size:115 final size:115
Alignment explanation
Indices: 907327--907676 Score: 605
Period size: 115 Copynumber: 3.1 Consensus size: 115
907317 TAATTGGAAC
907327 AAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
1 AAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
907392 TTATCTGATCTGGTTTGGTATGAAACCCAAAAACCAATCATTGGATTTGA
66 TTATCTGATCTGGTTTGGTATGAAACCCAAAAACCAATCATTGGATTTGA
907442 AAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
1 AAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
*
907507 TTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGA
66 TTATCTGATCTGGTTTGGTATGAAACCCAAAAACCAATCATTGGATTTGA
* *
907557 AAGATAAATGTGCTCATAGTAGAAATAAGAAGACCCGATAGCATCTTCTGGAAGTGTTCTTTGAG
1 AAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
* * * * *
907622 TTATCTGATCTGGTTCGGTA-GGAA-CCACAGAACCAATCATTGGAATTAA
66 TTATCTGATCTGGTTTGGTATGAAACCCA-AAAACCAATCATTGGATTTGA
907671 AAGATG
1 AAGATG
907677 GACTGCATGA
Statistics
Matches: 224, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
113 3 0.01
114 25 0.11
115 196 0.88
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.29
Consensus pattern (115 bp):
AAGATGAATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
TTATCTGATCTGGTTTGGTATGAAACCCAAAAACCAATCATTGGATTTGA
Found at i:908758 original size:224 final size:223
Alignment explanation
Indices: 908367--909032 Score: 809
Period size: 224 Copynumber: 3.0 Consensus size: 223
908357 GCAAAGATTC
* *
908367 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATCAGCATTACC--AGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* *
908432 AAGGAGGTAG-AGTTCATAATGAGAAGAACTTGTTCAA-TCTTTTGCTCAAATCCATCACTTGAT
64 AAGGAAG-AGAAGTTCATAATGAGAAGAACTTGTTCAACT-TTTTGCTCAAATCCATCACTTAAT
** * *
908495 GGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTC
127 GGATCAGCAGTACCAGTTCGAGTTCATAATAAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTC
*
908560 ATAATGAGAAGAACTTGTTCAACTTTTTGCTA
192 ATAATGAGAAGAACTTGTTCAACCTTTTGCTA
** *
908592 AAATCCATCATTCAATGGATCAGCATTACCAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAA
1 AAATCCATCATTTGATGGATCAGCATTACCAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
* *
908657 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCA-TTCAATGG
66 GGAAG-AGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCAAATCCATCACTT-AATGG
** *
908721 ATTGGCAGTACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
129 ATCAGCAGTACCAGTTCGAGTTCATAATAAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCAT
* * *
908786 AATGAGAAGAATTTGTTCAACCTTTTGTTT
194 AATGAGAAGAACTTGTTCAACCTTTTGCTA
* * * * *
908816 AAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATCCATCATTTGATGGATCAGCATTACCA-G-AAAGTTCATAATGAGAAGAA--C-TCATCTG
* *
908881 AAGAA-GAAGA-AA-TTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCCATCACTTGA
61 AAGAAGGAAGAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCAAATCCATCACTTAA
** * * * **
908943 T-GATCAGCTTTTCCAG--AGAAGTTCATAATGAGAAGAACT--TAT-CTGAA-GAAGAAGAAGT
126 TGGATCAGCAGTACCAGTTCG-AGTTCATAATAAGAAGAACTCATATGAAGAAGGAAGAAGAAGT
* *
909001 TCACAATGAGAAGAGCTTGTTCAACCTTTTGC
190 TCATAATGAGAAGAACTTGTTCAACCTTTTGC
909033 ATAATTCTAT
Statistics
Matches: 384, Mismatches: 47, Indels: 26
0.84 0.10 0.06
Matches are distributed among these distances:
219 39 0.10
220 3 0.01
221 2 0.01
222 1 0.00
223 61 0.16
224 166 0.43
225 72 0.19
226 22 0.06
227 1 0.00
228 5 0.01
229 12 0.03
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (223 bp):
AAATCCATCATTTGATGGATCAGCATTACCAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
GGAAGAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCAAATCCATCACTTAATGGAT
CAGCAGTACCAGTTCGAGTTCATAATAAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTTTGCTA
Found at i:908812 original size:113 final size:111
Alignment explanation
Indices: 908365--909032 Score: 777
Period size: 113 Copynumber: 6.0 Consensus size: 111
908355 TAGCAAAGAT
* *
908365 TCAAATCCATCATTTGATGGATCAGCTTTTCCAG-AGAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCA-TTGATGGATCAGCATTACCAGTAG--AGTTCATAATGAGAAGAACTCATCTG
* * *
908429 AAGAAGGAGGTAG-AGTTCATAATGAGAAGAACTTGTTCAATCTTTTGC
63 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * * *
908477 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATATGA
1 TCAAATCCATCA-TTGATGGATCAGCATTACCAG-TAGAGTTCATAATGAGAAGAACTCATCTGA
*
908542 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGC
64 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * * *
908590 TAAAATCCATCATTCAATGGATCAGCATTACCAG-AAAGTTCATAATAAGAAGAACTCATCTGAA
1 TCAAATCCATCATT-GATGGATCAGCATTACCAGTAGAGTTCATAATGAGAAGAACTCATCTGAA
*
908654 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGC
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * * ** * * *
908701 TTAAATTCATCATTCAATGGATTGGCAGTACCAGTTCGAGTTCATAATAAGAAGAACTCATCTGA
1 TCAAATCCATCATT-GATGGATCAGCATTACCAG-TAGAGTTCATAATGAGAAGAACTCATCTGA
* *
908766 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
64 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * * * *
908814 TTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATC
1 TCAAATCCATCA-TTGATGGATCAGCATTACCA-GTAGAGTTCATAATGAGAAGAA--C-TCATC
* *
908879 TGAAGAA-GAAG-A-AA-TTCATAATGAGAAGAATTTGTTCAACTTTTTGC
61 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * *
908926 TCAAATCCATCACTTGAT-GATCAGCTTTTCCAG-AGAAGTTCATAATGAGAAGAACTTATCT--
1 TCAAATCCATCA-TTGATGGATCAGCATTACCAGTAG-AGTTCATAATGAGAAGAACTCATCTGA
* *
908987 -GAA-GAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTGC
64 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
909033 ATAATTCTAT
Statistics
Matches: 495, Mismatches: 46, Indels: 35
0.86 0.08 0.06
Matches are distributed among these distances:
104 7 0.01
105 1 0.00
106 2 0.00
107 34 0.07
108 1 0.00
109 2 0.00
110 19 0.04
111 112 0.23
112 117 0.24
113 178 0.36
114 5 0.01
115 5 0.01
116 12 0.02
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (111 bp):
TCAAATCCATCATTGATGGATCAGCATTACCAGTAGAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
Found at i:908989 original size:336 final size:332
Alignment explanation
Indices: 908403--909032 Score: 899
Period size: 336 Copynumber: 1.9 Consensus size: 332
908393 TTCCAGAGAA
* * *
908403 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGGTAGAGTTCATAATGAGAAGAACTTGTTCA
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAGTTCATAATGAGAAGAACTTGTTCA
* * * * * *
908468 ATCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAA
66 ACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAA
*
908533 CTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTAAAATCC
131 CTCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACTTTTTGCTAAAATCC
908598 ATCATTCAATGGATCAGCATTACCAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGA
196 ATCATTCAATGGATCAGCATTACCAGAAAGTTCATAATAAGAAGAACTCATCT---GAA-GAAGA
* *
908663 AGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCATTCAATGGATTGGCA
257 AGAAGTTCACAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCATTCAATGGATTGGCA
908728 GTACCAGTTCG
322 GTACCAGTTCG
*
908739 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAG-AGTTCATAATGAGAAGAACTTGTTC
* * * * *
908804 AACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGA
65 AACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGA
* ** * *
908869 ACTCGTCAT-CTGAA-GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAAT
130 ACTCAT-ATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACTTTTTGCTAAAAT
* * * * *
908932 CCATCACTT-GAT-GATCAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTTATCTGAAGAAGA
194 CCATCA-TTCAATGGATCAGCATTACCAGA-AAGTTCATAATAAGAAGAACTCATCTGAAGAAGA
*
908995 AGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTGC
257 AGAAGTTCACAATGAGAAGAACTTGTTCAACCTTTTGC
909033 ATAATTCTAT
Statistics
Matches: 261, Mismatches: 29, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
332 40 0.15
333 3 0.01
335 14 0.05
336 114 0.44
337 88 0.34
338 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (332 bp):
AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAGTTCATAATGAGAAGAACTTGTTCA
ACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAA
CTCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACTTTTTGCTAAAATCC
ATCATTCAATGGATCAGCATTACCAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGAAGAA
GTTCACAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCATTCAATGGATTGGCAGTAC
CAGTTCG
Found at i:909099 original size:120 final size:119
Alignment explanation
Indices: 908952--909169 Score: 373
Period size: 120 Copynumber: 1.8 Consensus size: 119
908942 ATGATCAGCT
*
908952 TTTCCAGAGAAGTTCATAATGAGAAGAACTTATCTGAAGAAGAAGAAGTTCACAATGAGAAGAGC
1 TTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCACAATGAGAAGAGC
* * * *
909017 TTGTTCAACCTTTTGCATAATTCTATTATAGAAAGAGATAGATTAGCATCAACC
66 TTATTCAACCTTTTGAATAACTCTATCATAGAAAGAGATAGATTAGCATCAACC
909071 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCACAATGAGAAGAG
1 TTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCACAATGAGAAGAG
*
909136 CTTATTCAACCTTTTGAATGACTCTATCATAGAA
65 CTTATTCAACCTTTTGAATAACTCTATCATAGAA
909170 GGAAATAGGT
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
119 9 0.10
120 83 0.90
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (119 bp):
TTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCACAATGAGAAGAGC
TTATTCAACCTTTTGAATAACTCTATCATAGAAAGAGATAGATTAGCATCAACC
Found at i:909113 original size:336 final size:335
Alignment explanation
Indices: 908392--909151 Score: 839
Period size: 336 Copynumber: 2.2 Consensus size: 335
908382 TGGATCAGCT
*
908392 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGGTAGAGTTCATAATGAGAA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT--AGAA-GAAG-A-AGTTCATAATGAGAA
* * * * * *
908457 GAACTTGTTCAATCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCAT
61 GAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTGCCAGGTAGAGTTCAT
*
908522 AATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTT
126 AATGAGAAGAACTCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACTTTT
908587 TGCTAAAATCCATCATTCAATGGATCAGCATTACCAGAAAGTTCATAATAAGAAGAACTCATCTG
191 TGCTAAAATCCATCATTCAATGGATCAGCATTACCAGAAAGTTCATAATAAGAAGAACTCATCT-
* * * *
908652 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCATTCA
255 -AGAAGGAAGAAGAAGTTCACAATGAGAAGAACTTGTTCAACCTTTTGCATAAATTCATCATACA
* *
908717 ATGGATTGGCAGTACCA
319 ATAGATTAGCAGTACCA
* *
908734 GTT-C---G--AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT-----A-GAAGAAGAAGTTCATAATGAGA
* * * * * *
908793 AGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCA
60 AGAACTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTGCCAGGTAGAGTTCA
* ** *
908858 TAATGAGAAGAACTCGTCAT-CTGAA-GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTT
125 TAATGAGAAGAACTCAT-ATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACTT
* * * * * *
908921 TTTGCTCAAATCCATCACTT-GAT-GATCAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTTA
189 TTTGCTAAAATCCATCA-TTCAATGGATCAGCATTACCAGA-AAGTTCATAATAAGAAGAACTCA
* *
908984 TCT-GAA-GAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTGCAT-AATTCTATTAT
252 TCTAGAAGGAAGAAGAAGTTCACAATGAGAAGAACTTGTTCAACCTTTTGCATAAATTC-ATCAT
*
909046 AGAAAGAGATAGATTAGCA-TCAACC-
316 ----ACA-ATAGATTAGCAGT--ACCA
* *
909071 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCACAATGAGAAGAG
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT--AGAAGAAGAAGTTCATAATGAGAAGAA
*
909136 CTTATTCAACCTTTTG
64 CTTGTTCAACCTTTTG
909152 AATGACTCTA
Statistics
Matches: 356, Mismatches: 41, Indels: 45
0.81 0.09 0.10
Matches are distributed among these distances:
331 5 0.01
332 45 0.13
333 3 0.01
335 14 0.04
336 104 0.29
337 99 0.28
338 8 0.02
339 44 0.12
340 6 0.02
341 2 0.01
342 2 0.01
343 24 0.07
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.29
Consensus pattern (335 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTAGAAGAAGAAGTTCATAATGAGAAGAACT
TGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGA
GAAGAACTCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACTTTTTGCTA
AAATCCATCATTCAATGGATCAGCATTACCAGAAAGTTCATAATAAGAAGAACTCATCTAGAAGG
AAGAAGAAGTTCACAATGAGAAGAACTTGTTCAACCTTTTGCATAAATTCATCATACAATAGATT
AGCAGTACCA
Found at i:909390 original size:3 final size:3
Alignment explanation
Indices: 909382--909455 Score: 85
Period size: 3 Copynumber: 24.0 Consensus size: 3
909372 CCAATTTTAT
* * * *
909382 TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TAA TAA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
909430 TAA TATA TATA TTA TTA TTA TTA TTA
1 TTA T-TA T-TA TTA TTA TTA TTA TTA
909456 AAAAAAATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
3 58 0.91
4 6 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:911127 original size:23 final size:27
Alignment explanation
Indices: 911095--911159 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 27
911085 CCTTTTCTGA
*
911095 TATTTCTAAATA-A-ATAAA-TATT-T
1 TATTTATAAATATATATAAATTATTAT
911118 TATTTATAAATATATATAAATTATTAT
1 TATTTATAAATATATATAAATTATTAT
911145 T-TTTATATAAT-TATA
1 TATTTATA-AATATATA
911160 ATTTTGAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
23 11 0.31
24 1 0.03
25 5 0.14
26 14 0.39
27 5 0.14
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
TATTTATAAATATATATAAATTATTAT
Found at i:911156 original size:17 final size:18
Alignment explanation
Indices: 911130--911164 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
911120 TTTATAAATA
*
911130 TATATAAATTATTATTTT
1 TATATAAATTATAATTTT
911148 TATAT-AATTATAATTTT
1 TATATAAATTATAATTTT
911165 GAAATAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATATAAATTATAATTTT
Found at i:923851 original size:22 final size:22
Alignment explanation
Indices: 923815--923872 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
923805 TCACTCTTTA
*
923815 CGACGACATCCGTCCCCATCTC
1 CGACGAAATCCGTCCCCATCTC
*
923837 CGACGAAATCTGTCCCCATCTC
1 CGACGAAATCCGTCCCCATCTC
*
923859 CGGCGAAATCCGTC
1 CGACGAAATCCGTC
923873 TATCTCCATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.21, C:0.43, G:0.17, T:0.19
Consensus pattern (22 bp):
CGACGAAATCCGTCCCCATCTC
Found at i:924311 original size:20 final size:20
Alignment explanation
Indices: 924263--924313 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
924253 TCAAATTTGC
**
924263 GTTGCGATAGTCACTTTCGT
1 GTTGCGATTTTCACTTTCGT
*
924283 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCACTTTCGT
924303 GTTGCGATTTT
1 GTTGCGATTTT
924314 AAGTTTCAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.12, C:0.16, G:0.24, T:0.49
Consensus pattern (20 bp):
GTTGCGATTTTCACTTTCGT
Found at i:924320 original size:20 final size:20
Alignment explanation
Indices: 924277--924320 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
924267 CGATAGTCAC
* *
924277 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
924297 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
924317 TTTC
1 TTTC
924321 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:925659 original size:18 final size:18
Alignment explanation
Indices: 925638--925686 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
925628 CTCCACTTCG
925638 AGAGCCATCACCTCACCC
1 AGAGCCATCACCTCACCC
925656 AGAGCCATCACCTCACCC
1 AGAGCCATCACCTCACCC
*
925674 AGAGTCATCACCT
1 AGAGCCATCACCT
925687 GATCGACCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.29, C:0.45, G:0.12, T:0.14
Consensus pattern (18 bp):
AGAGCCATCACCTCACCC
Found at i:926285 original size:20 final size:20
Alignment explanation
Indices: 926245--926312 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
926235 AAACTTAAAA
*
926245 ATCGCAACGCA-AAAAGACT
1 ATCGCAACGCAGAAATGACT
926264 ATCGCAACGCAGAAATGACT
1 ATCGCAACGCAGAAATGACT
* *
926284 ATCACAACGC-GAATTTGACT
1 ATCGCAACGCAGAA-ATGACT
926304 ATCGCAACG
1 ATCGCAACG
926313 GGATAATCAC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
19 14 0.33
20 29 0.67
ACGTcount: A:0.40, C:0.26, G:0.18, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCAGAAATGACT
Found at i:926343 original size:33 final size:34
Alignment explanation
Indices: 926304--926374 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
926294 GAATTTGACT
* *
926304 ATCGCAACGGGATAATCACAATGTG-AAATAAAA
1 ATCGCAACGGGAAAATCACAATGCGAAAATAAAA
* * *
926337 ATCGCAACGTGAAAATCGCAATGCGAAAATGAAA
1 ATCGCAACGGGAAAATCACAATGCGAAAATAAAA
926371 ATCG
1 ATCG
926375 TAATGCGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 21 0.66
34 11 0.34
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (34 bp):
ATCGCAACGGGAAAATCACAATGCGAAAATAAAA
Found at i:926369 original size:20 final size:20
Alignment explanation
Indices: 926346--926383 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
926336 AATCGCAACG
926346 TGAAAATCGCAATGCGAAAA
1 TGAAAATCGCAATGCGAAAA
*
926366 TGAAAATCGTAATGCGAA
1 TGAAAATCGCAATGCGAA
926384 TTTAGTTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.18
Consensus pattern (20 bp):
TGAAAATCGCAATGCGAAAA
Found at i:926411 original size:19 final size:20
Alignment explanation
Indices: 926384--926422 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
926374 GTAATGCGAA
*
926384 TTTAGTTTCGCGTTGCGATT
1 TTTAGTTTCGCATTGCGATT
926404 TTTA-TTTCGCATTGCGATT
1 TTTAGTTTCGCATTGCGATT
926423 ATCCCGTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.13, C:0.15, G:0.21, T:0.51
Consensus pattern (20 bp):
TTTAGTTTCGCATTGCGATT
Found at i:926452 original size:20 final size:20
Alignment explanation
Indices: 926427--926495 Score: 104
Period size: 20 Copynumber: 3.5 Consensus size: 20
926417 GCGATTATCC
*
926427 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAATTTCG
926447 CGTTGCGATAGTC-ATTTCCG
1 CGTTGCGATAGTCAATTT-CG
*
926467 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAATTTCG
926487 CGTTGCGAT
1 CGTTGCGAT
926496 TTTAAGTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.07
20 39 0.87
21 3 0.07
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:926453 original size:34 final size:37
Alignment explanation
Indices: 926409--926496 Score: 101
Period size: 40 Copynumber: 2.4 Consensus size: 37
926399 CGATTTTTAT
*
926409 TTCGCATTGCGATT-A-TCC-CGTTGCGATAGTCAAA
1 TTCGCGTTGCGATTCATTCCGCGTTGCGATAGTCAAA
**
926443 TTCGCGTTGCGATAGTCATTTCCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGAT--TCA-TTCCGCGTTGCGATAGTCAAA
926483 TTCGCGTTGCGATT
1 TTCGCGTTGCGATT
926497 TTAAGTTTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
34 12 0.27
36 1 0.02
37 1 0.02
38 1 0.02
39 3 0.07
40 27 0.60
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (37 bp):
TTCGCGTTGCGATTCATTCCGCGTTGCGATAGTCAAA
Found at i:927086 original size:42 final size:42
Alignment explanation
Indices: 927022--927133 Score: 127
Period size: 42 Copynumber: 2.7 Consensus size: 42
927012 ATGTCATCAT
* * * *
927022 TCAAGAGGCCTCTCCTATCGTTCAAGAGGCCCCTATCATCCC
1 TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTATCATCCC
* **
927064 TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTGTCATCGT
1 TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTATCATCCC
* *
927106 TGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCAAGA-GTCCCCTCCCACCGTTCAAGAG
927134 CCCGATTCAT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
42 58 0.97
43 2 0.03
ACGTcount: A:0.22, C:0.38, G:0.19, T:0.21
Consensus pattern (42 bp):
TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTATCATCCC
Found at i:927106 original size:21 final size:21
Alignment explanation
Indices: 927013--927118 Score: 88
Period size: 21 Copynumber: 5.0 Consensus size: 21
927003 CCGAATCACA
* *
927013 TGTCATCATTCAAGAGGCCTC
1 TGTCATCGTTCAAGAGGCCCC
*
927034 T-CCTATCGTTCAAGAGGCCCC
1 TGTC-ATCGTTCAAGAGGCCCC
* ** *
927055 TATCATCCCTCAAGAGTCCCC
1 TGTCATCGTTCAAGAGGCCCC
** *
927076 TCCCACCGTTCAAGAGGCCCC
1 TGTCATCGTTCAAGAGGCCCC
* *
927097 TGTCATCGTTGAAGAGGTCCC
1 TGTCATCGTTCAAGAGGCCCC
927118 T
1 T
927119 CCCACCATTC
Statistics
Matches: 65, Mismatches: 18, Indels: 4
0.75 0.21 0.05
Matches are distributed among these distances:
20 1 0.02
21 63 0.97
22 1 0.02
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.25
Consensus pattern (21 bp):
TGTCATCGTTCAAGAGGCCCC
Found at i:927132 original size:21 final size:21
Alignment explanation
Indices: 927021--927133 Score: 70
Period size: 21 Copynumber: 5.4 Consensus size: 21
927011 CATGTCATCA
* *
927021 TTCAAGAGG-CCTCTCCTATCG
1 TTCAAGAGGTCC-CTCCCACCG
* **
927042 TTCAAGAGGCCCCTATCATCC-
1 TTCAAGAGGTCCCTCCCA-CCG
*
927063 CTCAAGA-GTCCCCTCCCACCG
1 TTCAAGAGGT-CCCTCCCACCG
* ** *
927084 TTCAAGAGGCCCCTGTCATCG
1 TTCAAGAGGTCCCTCCCACCG
* *
927105 TTGAAGAGGTCCCTCCCACCA
1 TTCAAGAGGTCCCTCCCACCG
927126 TTCAAGAG
1 TTCAAGAG
927134 CCCGATTCAT
Statistics
Matches: 67, Mismatches: 20, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
20 3 0.04
21 60 0.90
22 4 0.06
ACGTcount: A:0.22, C:0.37, G:0.19, T:0.22
Consensus pattern (21 bp):
TTCAAGAGGTCCCTCCCACCG
Found at i:928511 original size:36 final size:36
Alignment explanation
Indices: 928469--928580 Score: 125
Period size: 36 Copynumber: 3.4 Consensus size: 36
928459 AAAGTCTGAT
928469 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
1 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
* * *
928505 TTGTTTAATTGATTTGT-AA-AAGT-TGA----T--
1 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
928532 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
1 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
*
928568 TTATTTAATTGAT
1 TTGTTTAATTGAT
928581 TGAAATGTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
27 16 0.27
28 2 0.03
29 4 0.07
30 2 0.03
33 2 0.03
34 4 0.07
35 2 0.03
36 28 0.47
ACGTcount: A:0.27, C:0.04, G:0.16, T:0.54
Consensus pattern (36 bp):
TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
Found at i:928548 original size:63 final size:64
Alignment explanation
Indices: 928441--928603 Score: 258
Period size: 63 Copynumber: 2.5 Consensus size: 64
928431 CTTTTTTTGA
*
928441 TTGTTTAATTGATTCT-TAAAAGTCTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
1 TTGTTTAATTGATTATGTAAAAGT-TGATTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
928505 TTGTTTAATTGATT-TGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
1 TTGTTTAATTGATTATGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
*
928568 TTATTTAATTGATTGAAATGTAAAAGTTGATTTGTT
1 TTGTTTAATTGATT---ATGTAAAAGTTGATTTGTT
928604 GATTTCAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 7
0.92 0.01 0.07
Matches are distributed among these distances:
63 54 0.58
64 21 0.23
67 18 0.19
ACGTcount: A:0.28, C:0.04, G:0.17, T:0.52
Consensus pattern (64 bp):
TTGTTTAATTGATTATGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
Found at i:928736 original size:20 final size:20
Alignment explanation
Indices: 928662--928807 Score: 153
Period size: 20 Copynumber: 7.7 Consensus size: 20
928652 CTTTCGCAAC
*
928662 GCGAAAGTC-AATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
* * *
928681 GCGATAGTCTAATACGCTTT
1 GCGATAGTCAAATTCGCGTT
*
928701 GCGAT--T----TTCTCGTT
1 GCGATAGTCAAATTCGCGTT
*
928715 GCGATAGTCAAATTCCCGTT
1 GCGATAGTCAAATTCGCGTT
* *
928735 GCGATAATCAAATTCACGTT
1 GCGATAGTCAAATTCGCGTT
928755 GCGATAGTCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
928775 GCGATAGTCAAATTCGCGTT
1 GCGATAGTCAAATTCGCGTT
* *
928795 GCAATATTCAAAT
1 GCGATAGTCAAAT
928808 GAATGTGTAA
Statistics
Matches: 107, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
14 10 0.09
16 1 0.01
18 1 0.01
19 8 0.07
20 87 0.81
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (20 bp):
GCGATAGTCAAATTCGCGTT
Found at i:929030 original size:140 final size:140
Alignment explanation
Indices: 928778--929056 Score: 522
Period size: 140 Copynumber: 2.0 Consensus size: 140
928768 TCGCGTTGCG
928778 ATAGTCAAATTCGCGTTGCAATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCAATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
*
928843 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTATACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
928908 AATACACATT
131 AATACACATT
*
928918 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCAATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
* *
928983 TAGCAATGTTCAAACTCAAGTTACTAATACATGTCTATCTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
929048 AATACACAT
131 AATACACAT
929057 AATACAACGT
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 135 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCAATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATT
Found at i:931425 original size:24 final size:24
Alignment explanation
Indices: 931391--931444 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
931381 CTGAAACATC
*
931391 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* * *
931415 ATCAAAGTCCGGGTATTGACTAAG
1 ATCAAAATCCGAGTATTGACCAAG
931439 ATCAAA
1 ATCAAA
931445 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:932304 original size:21 final size:21
Alignment explanation
Indices: 932279--932353 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
932269 GACAGTCAGA
*
932279 ATCGCGTTGTGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
**
932300 ATCGCGTTGCGA-TA-GTCAGA
1 ATCGCGTTGCGATTATGT-ATT
* *
932320 ATCGTGTTGCAATTATGTATT
1 ATCGCGTTGCGATTATGTATT
932341 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
932354 AGTCAGAATT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
19 2 0.05
20 13 0.31
21 25 0.60
22 2 0.05
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.39
Consensus pattern (21 bp):
ATCGCGTTGCGATTATGTATT
Found at i:932320 original size:41 final size:41
Alignment explanation
Indices: 932263--932374 Score: 179
Period size: 41 Copynumber: 2.7 Consensus size: 41
932253 TGAAATTCAA
* *
932263 CGTTGCGACAGTCAGAATCGCGTTGTGATTATGTATTATCG
1 CGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCG
* *
932304 CGTTGCGATAGTCAGAATCGTGTTGCAATTATGTATTATCG
1 CGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCG
*
932345 CGTTGCGATAGTCAGAATTGCGTTGCGATT
1 CGTTGCGATAGTCAGAATCGCGTTGCGATT
932375 TACATATTCG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (41 bp):
CGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCG
Found at i:932328 original size:20 final size:20
Alignment explanation
Indices: 932263--932373 Score: 91
Period size: 20 Copynumber: 5.5 Consensus size: 20
932253 TGAAATTCAA
*
932263 CGTTGCGACAGTCAGAATCG
1 CGTTGCGATAGTCAGAATCG
* **
932283 CGTTGTGATTATGT-ATTATCG
1 CGTTGCGA-TA-GTCAGAATCG
932304 CGTTGCGATAGTCAGAATCG
1 CGTTGCGATAGTCAGAATCG
* * **
932324 TGTTGCAATTATGT-ATTATCG
1 CGTTGCGA-TA-GTCAGAATCG
*
932345 CGTTGCGATAGTCAGAATTG
1 CGTTGCGATAGTCAGAATCG
932365 CGTTGCGAT
1 CGTTGCGAT
932374 TTACATATTC
Statistics
Matches: 69, Mismatches: 16, Indels: 12
0.71 0.16 0.12
Matches are distributed among these distances:
19 4 0.06
20 35 0.51
21 26 0.38
22 4 0.06
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCAGAATCG
Found at i:932453 original size:15 final size:15
Alignment explanation
Indices: 932433--932461 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
932423 ATCGCAATGC
932433 GATAGTCAAAATCGT
1 GATAGTCAAAATCGT
932448 GATAGTCAAAATCG
1 GATAGTCAAAATCG
932462 CGTTACGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (15 bp):
GATAGTCAAAATCGT
Found at i:934228 original size:3 final size:3
Alignment explanation
Indices: 934222--934272 Score: 72
Period size: 3 Copynumber: 17.7 Consensus size: 3
934212 AAATTAAAAT
934222 TAA TAA TAA TAA TAA TAA TAA TAAA TAA -AA TAA TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
934266 T-A TAA TA
1 TAA TAA TA
934273 TTTTTATAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
2 6 0.14
3 35 0.80
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:934838 original size:33 final size:34
Alignment explanation
Indices: 934763--934885 Score: 158
Period size: 33 Copynumber: 3.6 Consensus size: 34
934753 CTCGAAGGTC
*
934763 TTTGTGTTTCAAGAGAAACATTTTCAAAGGTTTTTTT
1 TTTGTGTTTCAAGAGAAACAATTTCAAA-G--TTTTT
*
934800 TTTGTGTTTCAAGAGAAACAACTTCAAAG-TTTT
1 TTTGTGTTTCAAGAGAAACAATTTCAAAGTTTTT
* * * *
934833 TTTGTGTTTCAAGATAAACGATTTCAAAGATGTT
1 TTTGTGTTTCAAGAGAAACAATTTCAAAGTTTTT
934867 TTTGTGTTTCAAGAGAAAC
1 TTTGTGTTTCAAGAGAAAC
934886 TGTCTCCAGG
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
33 30 0.38
34 21 0.27
36 1 0.01
37 26 0.33
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (34 bp):
TTTGTGTTTCAAGAGAAACAATTTCAAAGTTTTT
Found at i:934979 original size:37 final size:37
Alignment explanation
Indices: 934938--935016 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
934928 CAGAGATTGG
934938 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
* * *
934975 TGTTTCAAGGGAATCTGTCTCAAGAGAGATAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
935012 TGTTT
1 TGTTT
935017 TGATTAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.30
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
Found at i:935928 original size:109 final size:106
Alignment explanation
Indices: 935782--935979 Score: 281
Period size: 109 Copynumber: 1.8 Consensus size: 106
935772 GTTTCAAGTC
* * * * *
935782 CAATATCATTCGCTGTAAAGTTGAAATTGGCTCTGAATGAAACTGAGAAGTTATTTGTTGACAGT
1 CAATATCATTCGCTGTAAAGTTGAAATTGACTCTGAATGAAACTGAAAAATTATTTGTTAAAAGT
*
935847 CAGCCACCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTT
66 C-G---CCCATTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTT
* *
935892 CAATATCCTTCG-TGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAATTATTTGTTAAAAGT
1 CAATATCATTCGCTGTAAAGTTGAAATTGACTCTGAATGAAACTGAAAAATTATTTGTTAAAAGT
935956 CGCCCATTCGCTGTGAAGTTGAGC
66 CGCCCATTCGCTGTGAAGTTGAGC
935980 AACCACCATC
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
105 21 0.26
108 1 0.01
109 47 0.59
110 11 0.14
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (106 bp):
CAATATCATTCGCTGTAAAGTTGAAATTGACTCTGAATGAAACTGAAAAATTATTTGTTAAAAGT
CGCCCATTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTT
Found at i:949320 original size:18 final size:18
Alignment explanation
Indices: 949299--949351 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
949289 GATTTTAAAA
949299 ATTATTTATTTATTTATG
1 ATTATTTATTTATTTATG
* *
949317 ATTATTATTTTTATTT-TT
1 ATTATT-TATTTATTTATG
* *
949335 ATTATTAATTTTTTTAT
1 ATTATTTATTTATTTAT
949352 TAATTTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 6 0.21
18 14 0.50
19 8 0.29
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (18 bp):
ATTATTTATTTATTTATG
Found at i:949325 original size:21 final size:19
Alignment explanation
Indices: 949299--949348 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
949289 GATTTTAAAA
949299 ATTATTTATTTATTTATGATT
1 ATTATTT-TTTATTT-TGATT
*
949320 ATTA-TTTTTATTTTTATT
1 ATTATTTTTTATTTTGATT
949338 ATTAATTTTTT
1 ATT-ATTTTTT
949349 TATTAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 7 0.27
19 8 0.31
20 7 0.27
21 4 0.15
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (19 bp):
ATTATTTTTTATTTTGATT
Found at i:949349 original size:21 final size:21
Alignment explanation
Indices: 949311--949352 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
949301 TATTTATTTA
949311 TTTATGATTATTATTTTTATT
1 TTTATGATTATTATTTTTATT
*
949332 TTTATTATTAATT-TTTTTATT
1 TTTATGATT-ATTATTTTTATT
949353 AATTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTATGATTATTATTTTTATT
Found at i:949358 original size:12 final size:12
Alignment explanation
Indices: 949329--949361 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
949319 TATTATTTTT
949329 ATTTTTATTATTA
1 ATTTTT-TTATTA
949342 ATTTTTTTATTA
1 ATTTTTTTATTA
949354 ATTTTTTT
1 ATTTTTTT
949362 TCTTTTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
ATTTTTTTATTA
Found at i:949361 original size:15 final size:14
Alignment explanation
Indices: 949318--949362 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 14
949308 TTATTTATGA
949318 TTATTATTTTTATTT
1 TTATTATTTTT-TTT
*
949333 TTATTATTAATTTTT
1 TTATTATT-TTTTTT
949348 TTATTAATTTTTTTT
1 TTATT-ATTTTTTTT
949363 CTTTTTTCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 21 0.81
16 5 0.19
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTATTATTTTTTTT
Found at i:950376 original size:16 final size:17
Alignment explanation
Indices: 950355--950399 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
950345 TTATGAGTTT
950355 TTATTTATTTATTTC-A
1 TTATTTATTTATTTCTA
*
950371 TTATTT-TTTCTTTCTA
1 TTATTTATTTATTTCTA
*
950387 TT-TTGATTTATTT
1 TTATTTATTTATTT
950400 AATATTTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (17 bp):
TTATTTATTTATTTCTA
Found at i:954543 original size:32 final size:32
Alignment explanation
Indices: 954507--954576 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
954497 AGGAACAATG
* *
954507 GGGGCACCTTTGAAGATTCAACATCAAATGTT
1 GGGGCACCTTTGAAAATTCAACATCAAATATT
**
954539 GGGGCATTTTTGAAAATTCAACATCAAATATT
1 GGGGCACCTTTGAAAATTCAACATCAAATATT
954571 GGGGCA
1 GGGGCA
954577 TCTTCGGGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.29
Consensus pattern (32 bp):
GGGGCACCTTTGAAAATTCAACATCAAATATT
Found at i:954577 original size:32 final size:32
Alignment explanation
Indices: 954515--954577 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
954505 TGGGGGCACC
* *
954515 TTTGAAGATTCAACATCAAATGTTGGGGCATT
1 TTTGAAAATTCAACATCAAATATTGGGGCATT
954547 TTTGAAAATTCAACATCAAATATTGGGGCAT
1 TTTGAAAATTCAACATCAAATATTGGGGCAT
954578 CTTCGGGGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (32 bp):
TTTGAAAATTCAACATCAAATATTGGGGCATT
Found at i:954590 original size:32 final size:32
Alignment explanation
Indices: 954507--954596 Score: 99
Period size: 32 Copynumber: 2.8 Consensus size: 32
954497 AGGAACAATG
* * *
954507 GGGGCACCTTTGAAGATTCAACATCAAATGTT
1 GGGGCATCTTCGAAGATTCAACATCAAATATT
* * *
954539 GGGGCATTTTTGAAAATTCAACATCAAATATT
1 GGGGCATCTTCGAAGATTCAACATCAAATATT
** *
954571 GGGGCATCTTCGGGGATTCAAAATCA
1 GGGGCATCTTCGAAGATTCAACATCA
954597 TGATGCGAAC
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (32 bp):
GGGGCATCTTCGAAGATTCAACATCAAATATT
Found at i:955040 original size:34 final size:34
Alignment explanation
Indices: 954955--955040 Score: 136
Period size: 34 Copynumber: 2.5 Consensus size: 34
954945 AGCTTGGATT
* *
954955 TCAACTTCATACCGAAGGATATTCAAGTTAAGGC
1 TCAACTTCACAACGAAGGATATTCAAGTTAAGGC
* *
954989 TCAACTTCACGATGAAGGATATTCAAGTTAAGGC
1 TCAACTTCACAACGAAGGATATTCAAGTTAAGGC
955023 TCAACTTCACAACGAAGG
1 TCAACTTCACAACGAAGG
955041 GGCCATCTAC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (34 bp):
TCAACTTCACAACGAAGGATATTCAAGTTAAGGC
Found at i:955138 original size:116 final size:117
Alignment explanation
Indices: 954989--955335 Score: 455
Period size: 124 Copynumber: 2.9 Consensus size: 117
954979 AAGTTAAGGC
* * *
954989 TCAACTTCACGATGAAGGATATTCAAGTT-AAGGCTCAACTTCACAACGAAGGGGCCATCTACGG
1 TCAACTTCACGATGAAGGATATCCAA-TTCAAGGCTCAACTTCACAACGAAGGGGCCATCAACAG
955053 TTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAACATTT-ATTGGATT
65 TTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAACATTTAATTGGATT
* * * *
955105 TCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACGACGAATGGGCCATCCACAGT
1 TCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCAACAGT
*
955170 TTCAACTTCACGACGAAGGGAATCGTGCTCACCAGTAACATTCATTTTTAGATTGGATT
66 TTCAACTTCACGACGAAGGGAATCGTGCTCACCAG---CA-ACA--TTTA-ATTGGATT
* ** * * *
955229 TCAACTTCACGATGAAGGATATCCAATTCAAGACTCAGGTTCATAGCGAAGGGGCCATAAACAGT
1 TCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCAACAGT
* * *
955294 TTCAACTTCACGACGAAGGGAATCGTACCCATCAGCAACATT
66 TTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAACATT
955336 CATCTTCAGG
Statistics
Matches: 201, Mismatches: 21, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
115 2 0.01
116 91 0.45
118 2 0.01
119 2 0.01
120 4 0.02
121 2 0.01
122 3 0.01
124 95 0.47
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (117 bp):
TCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCAACAGT
TTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAACATTTAATTGGATT
Found at i:955458 original size:21 final size:21
Alignment explanation
Indices: 955424--955503 Score: 91
Period size: 21 Copynumber: 4.0 Consensus size: 21
955414 AATTTACTCA
955424 AAACAAAGTTTTGTCTCTCTTG
1 AAACAAA-TTTTGTCTCTCTTG
955446 AAACAAATTTTGTCTCTCTTG
1 AAACAAATTTTGTCTCTCTTG
* *
955467 AGAC--A----GTTTCTCTTG
1 AAACAAATTTTGTCTCTCTTG
955482 AAACAAATTTTGTCTCTCTTG
1 AAACAAATTTTGTCTCTCTTG
955503 A
1 A
955504 GACAGTTTCC
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
15 12 0.25
17 1 0.02
19 1 0.02
21 27 0.56
22 7 0.15
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (21 bp):
AAACAAATTTTGTCTCTCTTG
Found at i:955483 original size:36 final size:36
Alignment explanation
Indices: 955439--955697 Score: 234
Period size: 36 Copynumber: 7.3 Consensus size: 36
955429 AAGTTTTGTC
955439 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
1 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
955475 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
1 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
* * *
955511 TCCCTTGAAACAAA------ATCT-TTGA-ATATGTT
1 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACA-GTT
* * * * *
955540 T-TCCTCGAAACAAATTTCGTCTCCCTTAAGATAGTT
1 TCT-CTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
* * * ** * *
955576 TCT-TTCGGAGCTAAGTTTTACCTTTTTTGAGACAGTT
1 TCTCTT-GAAAC-AAATTTTGTCTCTCTTGAGACAGTT
*
955613 TCTCTTTAAACAAATTTTGTCTCTCTTGAGACAGTT
1 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
*
955649 TCCCTTGAAACAAAGTTTTTGTCTCTCTTGAGACA-TT
1 TCTCTTGAAACAAA--TTTTGTCTCTCTTGAGACAGTT
955686 TCTCTTGAAACA
1 TCTCTTGAAACA
955698 CCAATCTTTG
Statistics
Matches: 176, Mismatches: 31, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
28 2 0.01
29 18 0.10
30 3 0.02
35 3 0.02
36 91 0.52
37 38 0.22
38 21 0.12
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (36 bp):
TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
Found at i:955725 original size:67 final size:68
Alignment explanation
Indices: 955646--955796 Score: 198
Period size: 67 Copynumber: 2.2 Consensus size: 68
955636 TCTTGAGACA
* * * * ** *
955646 GTTTCCCTTGAAACAAAGTTTTTGTCTCTCTTGAGACA-TTTCTCTTGAAAC-ACCAATCTTTGA
1 GTTTCTCTTGAAACAAAATTTTT-CCTCCCTTGAGACAGTTTCTCTTGAAACAAAAAAACTTTGA
*
955709 ATAT
65 AAAT
955713 GTTTCTCTTGAAACAAAATTTTTCCTCCCTTGAGACAGTTTCTCTTGAAACAAAAAAAACTTTGA
1 GTTTCTCTTGAAACAAAATTTTTCCTCCCTTGAGACAGTTTCTCTTGAAAC-AAAAAAACTTTGA
955778 AAAT
65 AAAT
955782 GTTTCTCTTGAAACA
1 GTTTCTCTTGAAACA
955797 CCAAACCTTC
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
66 12 0.16
67 34 0.47
69 27 0.37
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (68 bp):
GTTTCTCTTGAAACAAAATTTTTCCTCCCTTGAGACAGTTTCTCTTGAAACAAAAAAACTTTGAA
AAT
Found at i:955949 original size:84 final size:84
Alignment explanation
Indices: 955801--955971 Score: 234
Period size: 84 Copynumber: 2.0 Consensus size: 84
955791 GAAACACCAA
* * * *
955801 ACCTTCGCGTTCCATTACACTCAGCTCCAAGGTACATCATTTGCAACATAGCTCAAGGCAAGAAG
1 ACCTTCGAGTTCCACTACACTCAACTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAG
*
955866 AGTTATTTGCCAACCAAAG
66 AGTTATCTGCCAACCAAAG
* * * * * *
955885 ACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAG
1 ACCTTCGAGTTCCACTACACTCAACTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAG
*
955950 GGTTATCTGCCAACCAAAG
66 AGTTATCTGCCAACCAAAG
955969 ACC
1 ACC
955972 GGACGAGTTC
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 75 1.00
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (84 bp):
ACCTTCGAGTTCCACTACACTCAACTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAG
AGTTATCTGCCAACCAAAG
Found at i:956238 original size:18 final size:18
Alignment explanation
Indices: 956218--956257 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
956208 AAAATATTTA
956218 TTTATTTATGATTATTAAT
1 TTTA-TTATGATTATTAAT
*
956237 TTTATTATTATTATTAAT
1 TTTATTATGATTATTAAT
956255 TTT
1 TTT
956258 TTTTTCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTATTATGATTATTAAT
Found at i:956681 original size:20 final size:20
Alignment explanation
Indices: 956609--956957 Score: 434
Period size: 20 Copynumber: 17.4 Consensus size: 20
956599 GATTTTCCAT
* ** *
956609 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
956629 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
956649 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
956669 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
956689 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
956709 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
956729 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
956749 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
956769 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
956789 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
956809 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
956829 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
956849 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
956869 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
956889 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
* *
956909 AATCGCAACGAGAATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
956929 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
956949 AATCACAAC
1 AATCGCAAC
956958 ACTGAAATTT
Statistics
Matches: 293, Mismatches: 30, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
19 3 0.01
20 287 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:957679 original size:24 final size:24
Alignment explanation
Indices: 957640--957686 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
957630 AAATTTGGTC
957640 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
957664 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
957687 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:957878 original size:12 final size:12
Alignment explanation
Indices: 957861--957885 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
957851 ATATAATCCT
957861 GAAGAAGAAAAA
1 GAAGAAGAAAAA
957873 GAAGAAGAAAAA
1 GAAGAAGAAAAA
957885 G
1 G
957886 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:960189 original size:19 final size:19
Alignment explanation
Indices: 960167--960453 Score: 329
Period size: 19 Copynumber: 16.4 Consensus size: 19
960157 CGGAAAATAC
*
960167 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
960186 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
960200 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
960220 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
960234 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
960253 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
960272 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
960286 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
960305 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
960319 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
960338 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
960357 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
960376 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
960394 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
960408 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
960427 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
960446 AATCGCAA
1 AATCGCAA
960454 CGAGATAATC
Statistics
Matches: 232, Mismatches: 10, Indels: 52
0.79 0.03 0.18
Matches are distributed among these distances:
14 48 0.21
15 3 0.01
16 20 0.09
17 9 0.04
18 12 0.05
19 127 0.55
20 13 0.06
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:960254 original size:33 final size:33
Alignment explanation
Indices: 960167--960434 Score: 184
Period size: 33 Copynumber: 7.8 Consensus size: 33
960157 CGGAAAATAC
* *
960167 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAA
*
960200 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGAA
960234 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
*
960272 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
* *
960305 AATCGCAA--CGACA-G--AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
960338 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
960376 AATCGCAATGCGAAATG-AAATCGCAACGA-AA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA
960407 GAATCGCAATGCGAAATGAAAATCGCAA
1 -AATCGCAATGCGAAATGAAAATCGCAA
960435 TGCGAAATGA
Statistics
Matches: 211, Mismatches: 8, Indels: 32
0.84 0.03 0.13
Matches are distributed among these distances:
31 2 0.01
32 17 0.08
33 93 0.44
34 30 0.14
35 11 0.05
36 3 0.01
37 10 0.05
38 45 0.21
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAA
Found at i:960282 original size:52 final size:53
Alignment explanation
Indices: 960195--960439 Score: 289
Period size: 52 Copynumber: 4.7 Consensus size: 53
960185 AAATCCCAAC
960195 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAAGCGAGAGAATCGCAATGCGAA
960248 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAGAATCGCAATGCGAA
* * *
960300 ATGAAAATCGCAA--CGACA-G--AATCGCAATGCGAAATTAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG--A-GAGAATCGCAATGCGAA
*
960352 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAA--CGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAGA-G-AATCGCAATGCGAA
960406 A-G--AATCGCAATGCGAAATGAAAATCGCAATGCGA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGA
960440 AATGAAAATC
Statistics
Matches: 174, Mismatches: 6, Indels: 26
0.84 0.03 0.13
Matches are distributed among these distances:
47 8 0.05
49 3 0.02
50 4 0.02
51 33 0.19
52 77 0.44
53 17 0.10
54 10 0.06
55 2 0.01
56 8 0.05
57 12 0.07
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (53 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAGAATCGCAATGCGAA
Found at i:960464 original size:33 final size:34
Alignment explanation
Indices: 960250--960475 Score: 243
Period size: 33 Copynumber: 6.6 Consensus size: 34
960240 AATGCGAAAT
960250 GAAAATCGCAATGCGAAATGAAAATCGCAA-CGA
1 GAAAATCGCAATGCGAAATGAAAATCGCAAGCGA
*
960283 GAGAATCGCAATGCGAAATGAAAATCGCAA-CGA
1 GAAAATCGCAATGCGAAATGAAAATCGCAAGCGA
* * *
960316 CAGAATCGCAATGCGAAATTAAAATCGCAATGCGAAA
1 GAAAATCGCAATGCGAAATGAAAATCGCAA-GCG--A
960353 TGAAAATCGCAATGCGAAATGAAAATCGCAATGCGA
1 -GAAAATCGCAATGCGAAATGAAAATCGCAA-GCGA
*
960389 AATGAAATCGCAA--CGAAA-G--AATCGCAATGCGAAA
1 GA--AAATCGCAATGCGAAATGAAAATCGCAA-GCG--A
960423 TGAAAATCGCAATGCGAAATGAAAATCGCAA-CGA
1 -GAAAATCGCAATGCGAAATGAAAATCGCAAGCGA
*
960457 GATAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
960476 TATAAACGCA
Statistics
Matches: 169, Mismatches: 9, Indels: 30
0.81 0.04 0.14
Matches are distributed among these distances:
32 12 0.07
33 87 0.51
34 3 0.02
35 14 0.08
36 4 0.02
37 10 0.06
38 39 0.23
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (34 bp):
GAAAATCGCAATGCGAAATGAAAATCGCAAGCGA
Found at i:960471 original size:52 final size:51
Alignment explanation
Indices: 960167--960475 Score: 253
Period size: 52 Copynumber: 5.9 Consensus size: 51
960157 CGGAAAATAC
* *
960167 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-G-AAATCGCAATGC-GAAATGAA
* * * * *
960220 AATCGCAACGAGAGAATCG-CAATGCGAAATGA-AAATCGCAATGCGAAATGAA
1 AATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGAAATCGCAATGCGAAATGAA
* * * * * *
960272 AATCGCAA--CG--A-GAGAATCGCAATGCGAAAT-GAAAAT-CGCAACGACA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAAATCG-CAATGCGAAATGA-A
*
960318 GAATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAAAATCGCAA--CG--A-G-AAATCGCAATGCGAAATGAA
*
960376 AATCGCAATGCGAAATG-AAATCGCAACGAAAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGA-AATCGCAATGCGAAATGAA
960427 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAACGAGA-AATCGCAATGCGAAAT
960476 TATAAACGCA
Statistics
Matches: 209, Mismatches: 23, Indels: 49
0.74 0.08 0.17
Matches are distributed among these distances:
45 14 0.07
46 11 0.05
47 9 0.04
49 2 0.01
50 2 0.01
51 37 0.18
52 55 0.26
53 24 0.11
54 9 0.04
55 4 0.02
56 10 0.05
57 17 0.08
58 8 0.04
59 7 0.03
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (51 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAAATCGCAATGCGAAATGAA
Found at i:960591 original size:19 final size:19
Alignment explanation
Indices: 960482--960583 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
960472 AAATTATAAA
960482 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
960501 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
960521 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
960537 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
960554 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
960573 CGCATTGCGAT
1 CGCATTGCGAT
960584 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:960709 original size:14 final size:14
Alignment explanation
Indices: 960690--960726 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
960680 CATCAATTAC
960690 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
960704 ACAAATCATCTTTT
1 ACAAATCAACTTTT
960718 ACAAATCAA
1 ACAAATCAA
960727 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:962726 original size:14 final size:14
Alignment explanation
Indices: 962707--962763 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
962697 GCGAAATGAA
*
962707 AATCGCAACGACAG
1 AATCGCAACGAAAG
962721 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
962738 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
962754 AATCGCAACG
1 AATCGCAACG
962764 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:962734 original size:33 final size:33
Alignment explanation
Indices: 962688--962780 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
962678 GCGAAACCAA
*
962688 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
962721 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
962754 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
962781 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:962745 original size:19 final size:19
Alignment explanation
Indices: 962651--962785 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
962641 TAGTTTACTT
* *
962651 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
962671 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
962690 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
962709 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
962723 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
962742 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
962756 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
962775 TCGCAATGCGA
1 TCGCAACGCGA
962786 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:962803 original size:19 final size:19
Alignment explanation
Indices: 962781--962857 Score: 83
Period size: 19 Copynumber: 4.3 Consensus size: 19
962771 AAAATCGCAA
962781 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
962800 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
962814 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
962833 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
962853 TGCGA
1 TGCGA
962858 AAGTAAACTA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
14 11 0.23
15 1 0.02
16 1 0.02
17 1 0.02
18 1 0.02
19 20 0.42
20 13 0.27
ACGTcount: A:0.09, C:0.16, G:0.30, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:963060 original size:93 final size:93
Alignment explanation
Indices: 962901--963559 Score: 1293
Period size: 93 Copynumber: 7.1 Consensus size: 93
962891 TTGAATGGAT
962901 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
962966 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
962994 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
963059 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
963087 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
963152 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
963180 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
963245 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
963273 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
963338 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
963366 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
963430 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
963458 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
963523 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
963551 AAATTTACT
1 AAATTTACT
963560 AAGCAATCTA
Statistics
Matches: 562, Mismatches: 3, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
92 92 0.16
93 470 0.84
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:965266 original size:14 final size:14
Alignment explanation
Indices: 965247--965336 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
965237 TTGAAATGAA
*
965247 AATCGCAATGAGAG
1 AATCGCAACGAGAG
965261 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
965278 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
965294 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
965313 AATCGCAACGAGAG
1 AATCGCAACGAGAG
965327 AATCGCAACG
1 AATCGCAACG
965337 CGAAATGAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 20
0.73 0.03 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 7 0.11
17 8 0.13
18 1 0.02
19 18 0.29
ACGTcount: A:0.42, C:0.22, G:0.26, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:965284 original size:33 final size:33
Alignment explanation
Indices: 965239--965353 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
965229 TCTTTTGGTT
*
965239 GAAATGAAAATCGCAATGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
965272 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
965305 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
965338 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
965354 TGCGATTTTG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 77 1.00
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:965285 original size:19 final size:18
Alignment explanation
Indices: 965261--965358 Score: 86
Period size: 19 Copynumber: 5.7 Consensus size: 18
965251 GCAATGAGAG
965261 AATCGCAACGCGAGATGA
1 AATCGCAACGCGAGATGA
965279 CAATCGCAA--CGAGA-G-
1 -AATCGCAACGCGAGATGA
*
965294 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAGATG-A
965313 AATCGCAA--CGAGA-G-
1 AATCGCAACGCGAGATGA
*
965327 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAGATG-A
*
965346 AATCGCAATGCGA
1 AATCGCAACGCGA
965359 TTTTGGTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
14 16 0.25
16 10 0.15
17 11 0.17
19 28 0.43
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.10
Consensus pattern (18 bp):
AATCGCAACGCGAGATGA
Found at i:965554 original size:33 final size:33
Alignment explanation
Indices: 965512--965582 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
965502 AATACTAACT
*
965512 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
965545 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
965578 TGAAA
1 TGAAA
965583 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:965816 original size:22 final size:22
Alignment explanation
Indices: 965764--965818 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
965754 TGGTTGTGAG
**
965764 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
* **
965786 GAAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
965808 GGATTTCTTCG
1 GGATTTCTTCG
965819 CCGTAGAGAG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.22, C:0.16, G:0.38, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:965989 original size:20 final size:20
Alignment explanation
Indices: 965964--966156 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
965954 CTTTAAATAT
965964 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
965984 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
966006 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
966025 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
966045 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
966065 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
966085 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
966105 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
966125 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
966145 CGCGTTGCGATT
1 CGCGTTGCGATT
966157 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:966151 original size:60 final size:60
Alignment explanation
Indices: 965964--966156 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
965954 CTTTAAATAT
**
965964 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
966025 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
966085 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
966145 CGCGTTGCGATT
1 CGCGTTGCGATT
966157 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Done.