Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 17 of 135
Found at i:7337405 original size:29 final size:30
Alignment explanation
Indices: 7337357--7337413 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 30
7337347 AGGCTTAGAC
7337357 TCTAATCGTAAATTATATATA-AAATTTGA
1 TCTAATCGTAAATTATATATATAAATTTGA
7337386 TCTAAT-GTATAACTTA-ATATATAAATTT
1 TCTAATCGTA-AA-TTATATATATAAATTT
7337414 TAATTTGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 3 0.12
29 13 0.52
30 9 0.36
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (30 bp):
TCTAATCGTAAATTATATATATAAATTTGA
Found at i:7338222 original size:3 final size:3
Alignment explanation
Indices: 7338214--7338242 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7338204 TTAATATTCC
7338214 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
7338243 TATGACATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:7341270 original size:23 final size:22
Alignment explanation
Indices: 7341228--7341274 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 22
7341218 TCTAGCCATC
7341228 ATCTTTTTATTTTCAAGAATTTA
1 ATCTTTTTATTTTC-AGAATTTA
7341251 ATCTCTTTTATTTTTC-GAATTTA
1 ATCT-TTTTA-TTTTCAGAATTTA
7341274 A
1 A
7341275 AAATTCATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 12 0.55
24 5 0.23
25 5 0.23
ACGTcount: A:0.28, C:0.11, G:0.04, T:0.57
Consensus pattern (22 bp):
ATCTTTTTATTTTCAGAATTTA
Found at i:7342885 original size:20 final size:19
Alignment explanation
Indices: 7342846--7342885 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
7342836 AATTTACTTT
*
7342846 TTAATTTAAAATAAAGAGA
1 TTAATTTAAAATAAAAAGA
*
7342865 TTAATTTATAATTAAAAAGA
1 TTAATTTA-AAATAAAAAGA
7342885 T
1 T
7342886 AAAATATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (19 bp):
TTAATTTAAAATAAAAAGA
Found at i:7346106 original size:13 final size:13
Alignment explanation
Indices: 7346088--7346113 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7346078 TCGTAGCGAC
7346088 AATCAACTTCTCT
1 AATCAACTTCTCT
7346101 AATCAACTTCTCT
1 AATCAACTTCTCT
7346114 CACCGCAACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (13 bp):
AATCAACTTCTCT
Found at i:7346324 original size:24 final size:25
Alignment explanation
Indices: 7346296--7346372 Score: 70
Period size: 24 Copynumber: 3.1 Consensus size: 25
7346286 TAAAATATTC
*
7346296 ATATTTTATGTTATAAAATTTTTAT
1 ATATTTTATGTTATAAAATTTTAAT
**
7346321 -TATTAAATGTCTAT-AAATTTTAAT
1 ATATTTTATGT-TATAAAATTTTAAT
* *
7346345 ATATATTTAT-TAATAAAATATTAAT
1 ATAT-TTTATGTTATAAAATTTTAAT
7346370 ATA
1 ATA
7346373 ATTAATTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
24 19 0.46
25 19 0.46
26 3 0.07
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (25 bp):
ATATTTTATGTTATAAAATTTTAAT
Found at i:7346571 original size:20 final size:21
Alignment explanation
Indices: 7346540--7346580 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
7346530 ATGTTTACTA
7346540 ATATTGAATATTATAATATTT
1 ATATTGAATATTATAATATTT
*
7346561 ATATT-AATATTTTAATATTT
1 ATATTGAATATTATAATATTT
7346581 TTAAAAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATATTGAATATTATAATATTT
Found at i:7349386 original size:15 final size:16
Alignment explanation
Indices: 7349366--7349396 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
7349356 CACCCACACC
7349366 CAAAAACAAAA-AAAA
1 CAAAAACAAAAGAAAA
7349381 CAAAAACAAAAGAAAA
1 CAAAAACAAAAGAAAA
7349397 AGGAAGCCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (16 bp):
CAAAAACAAAAGAAAA
Found at i:7350189 original size:2 final size:2
Alignment explanation
Indices: 7350182--7350224 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
7350172 GTAAGAGACC
7350182 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7350224 G
1 G
7350225 GAACAAATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7350849 original size:3 final size:3
Alignment explanation
Indices: 7350841--7350867 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7350831 AGACCAACTT
7350841 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
7350868 TGGATTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:7351567 original size:21 final size:22
Alignment explanation
Indices: 7351543--7351606 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
7351533 AAAAAATTGA
*
7351543 AAATCAAATTT-AATTAAAAAT
1 AAATAAAATTTAAATTAAAAAT
7351564 AAATAAAATTTAAATTAAAAA-
1 AAATAAAATTTAAATTAAAAAT
*
7351585 AACATAAATATTAAAAATTAAA
1 AA-ATAAA-ATT-TAAATTAAA
7351607 TTTATCGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
21 12 0.32
22 14 0.38
23 3 0.08
24 8 0.22
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (22 bp):
AAATAAAATTTAAATTAAAAAT
Found at i:7352953 original size:24 final size:24
Alignment explanation
Indices: 7352926--7352977 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
7352916 TGATTTTATT
* *
7352926 TATATTTAAAAATTAAGGATAAAA
1 TATATTAAAAAATTAAAGATAAAA
7352950 TATATTAAAAAATTAAAGATAAAA
1 TATATTAAAAAATTAAAGATAAAA
7352974 TATA
1 TATA
7352978 GAATATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.33
Consensus pattern (24 bp):
TATATTAAAAAATTAAAGATAAAA
Found at i:7356024 original size:20 final size:21
Alignment explanation
Indices: 7355999--7356049 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
7355989 AACCACACCA
7355999 TTATATTAAAAAAAAAT-TAT
1 TTATATTAAAAAAAAATATAT
* *
7356019 TTATATTTAAAGAAATATATAT
1 TTATA-TTAAAAAAAAATATAT
7356041 TTATTATTA
1 TTA-TATTA
7356050 TTATTATATG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 5 0.19
21 10 0.38
22 9 0.35
23 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TTATATTAAAAAAAAATATAT
Found at i:7363044 original size:28 final size:28
Alignment explanation
Indices: 7362989--7363046 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
7362979 AAGTTTATAG
* * * *
7362989 TATGTTATTTTTATTTTATTTTATATAT
1 TATGTAATTTATATTATATTTTAAATAT
7363017 TATGTAATTTATATTATATTTTAAATAT
1 TATGTAATTTATATTATATTTTAAATAT
7363045 TA
1 TA
7363047 AAAAATATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (28 bp):
TATGTAATTTATATTATATTTTAAATAT
Found at i:7364845 original size:12 final size:12
Alignment explanation
Indices: 7364828--7364852 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7364818 TAATTAACAT
7364828 ATTATTAAATAA
1 ATTATTAAATAA
7364840 ATTATTAAATAA
1 ATTATTAAATAA
7364852 A
1 A
7364853 ATATAATGAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTATTAAATAA
Found at i:7380481 original size:20 final size:23
Alignment explanation
Indices: 7380436--7380481 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
7380426 TATCTCAATT
*
7380436 TTTTTTATACATCATTACATATA
1 TTTTTTATACATCATTACATAAA
7380459 TTTTTTATAC-TC-TT-CATAAA
1 TTTTTTATACATCATTACATAAA
7380479 TTT
1 TTT
7380482 AAATTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
21 2 0.09
22 2 0.09
23 10 0.45
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTTTATACATCATTACATAAA
Found at i:7380501 original size:14 final size:14
Alignment explanation
Indices: 7380479--7380512 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
7380469 TCTTCATAAA
7380479 TTTAAATTTAAATT
1 TTTAAATTTAAATT
* *
7380493 TTTATATTTTAATT
1 TTTAAATTTAAATT
7380507 TTTAAA
1 TTTAAA
7380513 AATTTGATCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTAAATTTAAATT
Found at i:7386686 original size:24 final size:23
Alignment explanation
Indices: 7386658--7386711 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
7386648 AACATCTAAA
* *
7386658 AACAAAAATAATAATCAAAACAAT
1 AACAAAAATAACAA-CAAAAAAAT
7386682 AACAAAAATAACAACAAAAAAAT
1 AACAAAAATAACAACAAAAAAAT
*
7386705 ACCAAAA
1 AACAAAA
7386712 TAGTAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.74, C:0.15, G:0.00, T:0.11
Consensus pattern (23 bp):
AACAAAAATAACAACAAAAAAAT
Found at i:7386721 original size:19 final size:19
Alignment explanation
Indices: 7386697--7386733 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7386687 AAATAACAAC
*
7386697 AAAAAAATACCAAAATAGT
1 AAAAAAAAACCAAAATAGT
*
7386716 AAAAAAAAATCAAAATAG
1 AAAAAAAAACCAAAATAG
7386734 CAACCAAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.73, C:0.08, G:0.05, T:0.14
Consensus pattern (19 bp):
AAAAAAAAACCAAAATAGT
Found at i:7386793 original size:20 final size:20
Alignment explanation
Indices: 7386734--7386793 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
7386724 ATCAAAATAG
*
7386734 CAACCAAAACAATAAAAACAA
1 CAACCAAAACAGTAAAAA-AA
* *
7386755 C-ATCAAAACAGTAAGAAAA
1 CAACCAAAACAGTAAAAAAA
7386774 CAACCAAAACAGTAAAAAAA
1 CAACCAAAACAGTAAAAAAA
7386794 TCAAAATAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
19 3 0.09
20 29 0.88
21 1 0.03
ACGTcount: A:0.68, C:0.20, G:0.05, T:0.07
Consensus pattern (20 bp):
CAACCAAAACAGTAAAAAAA
Found at i:7387843 original size:8 final size:9
Alignment explanation
Indices: 7387801--7387841 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
7387791 TATAAATCTT
7387801 TTAAAAA-A
1 TTAAAAATA
7387809 -TAAAATATA
1 TTAAAA-ATA
*
7387818 TAAAAAATA
1 TTAAAAATA
7387827 TTAAAAATA
1 TTAAAAATA
7387836 TTAAAA
1 TTAAAA
7387842 TAAATATTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
7 5 0.18
8 1 0.04
9 18 0.64
10 4 0.14
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
TTAAAAATA
Found at i:7388096 original size:11 final size:11
Alignment explanation
Indices: 7388082--7388120 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
7388072 AAAAAGTTAA
7388082 AAAAATATATT
1 AAAAATATATT
*
7388093 AAAAATATGTT
1 AAAAATATATT
*
7388104 AAAAATATAAT
1 AAAAATATATT
7388115 AAAAAT
1 AAAAAT
7388121 TAAAACTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (11 bp):
AAAAATATATT
Found at i:7388125 original size:18 final size:18
Alignment explanation
Indices: 7388102--7388152 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
7388092 TAAAAATATG
7388102 TTAAAAATATAATAAAAA
1 TTAAAAATATAATAAAAA
* *
7388120 TTAAAACT-TATATTAAAA
1 TTAAAAATATA-ATAAAAA
7388138 TTAAATAATTATAAT
1 TTAAA-AA-TATAAT
7388153 TATAATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 2 0.08
18 18 0.69
19 1 0.04
20 3 0.12
21 2 0.08
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAAAAATATAATAAAAA
Found at i:7388160 original size:26 final size:25
Alignment explanation
Indices: 7388114--7388166 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
7388104 AAAAATATAA
7388114 TAAAAATTAAAACTTATATTAAAAT
1 TAAAAATTAAAACTTATATTAAAAT
* *
7388139 TAAATAATTATAA-TTATAATTATAAT
1 TAAA-AATTAAAACTTAT-ATTAAAAT
7388165 TA
1 TA
7388167 TATTAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
TAAAAATTAAAACTTATATTAAAAT
Found at i:7388167 original size:6 final size:6
Alignment explanation
Indices: 7388142--7388168 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
7388132 TTAAAATTAA
7388142 ATAATT ATAATT ATAATT ATAATT ATA
1 ATAATT ATAATT ATAATT ATAATT ATA
7388169 TTAAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATAATT
Found at i:7389095 original size:2 final size:2
Alignment explanation
Indices: 7389088--7389143 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
7389078 ATGAAAATCA
7389088 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
7389130 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
7389144 TCACTCAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7389352 original size:17 final size:17
Alignment explanation
Indices: 7389324--7389364 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
7389314 TGTTTCATTG
*
7389324 AAAATAATTTTTA-AAA
1 AAAATTATTTTTATAAA
7389340 AATAATTATTTTTATAAA
1 AA-AATTATTTTTATAAA
7389358 AAAATTA
1 AAAATTA
7389365 ATATTTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 15 0.68
18 5 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATTATTTTTATAAA
Found at i:7390022 original size:8 final size:8
Alignment explanation
Indices: 7390009--7390034 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
7389999 AATATTTATA
7390009 TTAATAAT
1 TTAATAAT
7390017 TTAATAAT
1 TTAATAAT
7390025 TTAATAAT
1 TTAATAAT
7390033 TT
1 TT
7390035 TTAAATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTAATAAT
Found at i:7392233 original size:14 final size:14
Alignment explanation
Indices: 7392201--7392233 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
7392191 TGCTCAAACG
7392201 AAAAAGGGAAGGAA
1 AAAAAGGGAAGGAA
*
7392215 GAAAAGGGAAGGAA
1 AAAAAGGGAAGGAA
7392229 AAAAA
1 AAAAA
7392234 AAAGGGGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
AAAAAGGGAAGGAA
Found at i:7392968 original size:12 final size:12
Alignment explanation
Indices: 7392945--7392979 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
7392935 TGTGATCAAT
7392945 ATTGAAAGTGAA
1 ATTGAAAGTGAA
* *
7392957 AGTGAAATTGAA
1 ATTGAAAGTGAA
7392969 ATTGAAAGTGA
1 ATTGAAAGTGA
7392980 TATGAATTGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.26
Consensus pattern (12 bp):
ATTGAAAGTGAA
Found at i:7392968 original size:18 final size:18
Alignment explanation
Indices: 7392945--7392979 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7392935 TGTGATCAAT
7392945 ATTGAAAGTGAAAGTGAA
1 ATTGAAAGTGAAAGTGAA
*
7392963 ATTGAAATTGAAAGTGA
1 ATTGAAAGTGAAAGTGA
7392980 TATGAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.26
Consensus pattern (18 bp):
ATTGAAAGTGAAAGTGAA
Found at i:7393776 original size:2 final size:2
Alignment explanation
Indices: 7393744--7393768 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7393734 TGGTTGTAAA
7393744 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7393769 CAATATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7401054 original size:14 final size:13
Alignment explanation
Indices: 7401023--7401054 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7401013 TATTTTTAAA
*
7401023 ATTTTTAAATATT
1 ATTTTTAAATACT
7401036 ATTTTTAAATACT
1 ATTTTTAAATACT
7401049 ATTTTT
1 ATTTTT
7401055 GATTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTTTTAAATACT
Found at i:7414924 original size:22 final size:21
Alignment explanation
Indices: 7414894--7414950 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
7414884 AAATATTACA
*
7414894 CTAATAAATTTAATAAAATAATT
1 CTAA-AAATTTAAT-AAATAAGT
*
7414917 TTAAAAATATTAATAAATAAGT
1 CTAAAAAT-TTAATAAATAAGT
*
7414939 CTAAAATTTTAA
1 CTAAAAATTTAA
7414951 ATTCAAAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 4 0.14
22 17 0.59
23 8 0.28
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (21 bp):
CTAAAAATTTAATAAATAAGT
Found at i:7424488 original size:207 final size:207
Alignment explanation
Indices: 7424133--7424961 Score: 1586
Period size: 207 Copynumber: 4.0 Consensus size: 207
7424123 CAACAAAATC
* *
7424133 ACCGAAATAAAGCTTAAAAAGGGATCAGCATATGCCAATAGCAGCTGCAATAGTGATATCTATAT
1 ACCGAAATAAAGCTCAAAAAGGGATCAGCATATGCCAATAGCAGCCGCAATAGTGATATCTATAT
*
7424198 TACTAAACCACCCTACCATGCTAATAGCAGTGAAAGGACATTTGTGACACAAAAGCACTAACAGC
66 TACTAAACCACCCTACCATGCTAATAGCAGCGAAAGGACATTTGTGACACAAAAGCACTAACAGC
7424263 AGCCAAGTTCTCAGTCTAGTATTATATCTGATTCTAAAAGGATTGAACAAATGCGAGTACAAACT
131 AGCCAAGTTCTCAGTCTAGTATTATATCTGATTCTAAAAGGATTGAACAAATGCGAGTACAAACT
7424328 ATGCTACCAAAA
196 ATGCTACCAAAA
*
7424340 ACCGAAATAAAGCTCAAAAAGGGATCAGCATATGCCAATAGCAGCTGCAATAGTGATATCTATAT
1 ACCGAAATAAAGCTCAAAAAGGGATCAGCATATGCCAATAGCAGCCGCAATAGTGATATCTATAT
*
7424405 TACTAAACCACCCTACCATGCTAATAGCAGCGAAAGGACATTTGTGACACAAAAGCCCTAACAGC
66 TACTAAACCACCCTACCATGCTAATAGCAGCGAAAGGACATTTGTGACACAAAAGCACTAACAGC
7424470 AGCCAAGTTCTCAGTCTAGTATTATATCTGATTCTAAAAGGATTGAACAAATGCGAGTACAAACT
131 AGCCAAGTTCTCAGTCTAGTATTATATCTGATTCTAAAAGGATTGAACAAATGCGAGTACAAACT
7424535 ATGCTACCAAAA
196 ATGCTACCAAAA
7424547 ACCGAAATAAAGCTCAAAAAGGGATCAGCATATGCCAATAGCAGCCGCAATAGTGATATCTATAT
1 ACCGAAATAAAGCTCAAAAAGGGATCAGCATATGCCAATAGCAGCCGCAATAGTGATATCTATAT
7424612 TACTAAACCACCCTACCATGCTAATAGCAGCGAAAGGACATTTGTGACACAAAAGCACTAACAGC
66 TACTAAACCACCCTACCATGCTAATAGCAGCGAAAGGACATTTGTGACACAAAAGCACTAACAGC
**
7424677 AGCCAAGTTCTCAGTCTAGTATTATATCTGATTCTAAAAGGATTGAACAAGCGCGAGTACAAACT
131 AGCCAAGTTCTCAGTCTAGTATTATATCTGATTCTAAAAGGATTGAACAAATGCGAGTACAAACT
7424742 ATGCTACCAAAA
196 ATGCTACCAAAA
7424754 ACCGAAATAAAGCTCAAAAAGGGATCAGCATATGCCAATAGCAGCCGCAATAGTGATATCTATAT
1 ACCGAAATAAAGCTCAAAAAGGGATCAGCATATGCCAATAGCAGCCGCAATAGTGATATCTATAT
*
7424819 TACTAAACCACCCTACCATGCTAATAGCAGCGAAAGGACATTTTTGACACAAAAGCACTAACAGC
66 TACTAAACCACCCTACCATGCTAATAGCAGCGAAAGGACATTTGTGACACAAAAGCACTAACAGC
7424884 AGCCAAGTTCTCAGTCTAGTATTATATCTGATTCTAAAAGGATTGAACAAATGCGAGTACAAACT
131 AGCCAAGTTCTCAGTCTAGTATTATATCTGATTCTAAAAGGATTGAACAAATGCGAGTACAAACT
7424949 ATGCTACCAAAA
196 ATGCTACCAAAA
7424961 A
1 A
7424962 AATTTTGCCT
Statistics
Matches: 612, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
207 612 1.00
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.22
Consensus pattern (207 bp):
ACCGAAATAAAGCTCAAAAAGGGATCAGCATATGCCAATAGCAGCCGCAATAGTGATATCTATAT
TACTAAACCACCCTACCATGCTAATAGCAGCGAAAGGACATTTGTGACACAAAAGCACTAACAGC
AGCCAAGTTCTCAGTCTAGTATTATATCTGATTCTAAAAGGATTGAACAAATGCGAGTACAAACT
ATGCTACCAAAA
Found at i:7428673 original size:17 final size:17
Alignment explanation
Indices: 7428653--7428699 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 17
7428643 AATATTTTCT
7428653 TTTAATTAATTAAAAAA
1 TTTAATTAATTAAAAAA
7428670 TTTAATTAATT---AAA
1 TTTAATTAATTAAAAAA
*
7428684 TTTATTTAATTAAAAA
1 TTTAATTAATTAAAAA
7428700 TCAATTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 13 0.50
17 13 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTAATTAATTAAAAAA
Found at i:7428674 original size:13 final size:14
Alignment explanation
Indices: 7428658--7428708 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
7428648 TTTCTTTTAA
7428658 TTAATTAA-AAAAT
1 TTAATTAATAAAAT
*
7428671 TTAATTAATTAAAT
1 TTAATTAATAAAAT
* *
7428685 TTATTTAATTAAAAA
1 TTAATTAA-TAAAAT
*
7428700 TCAATTAAT
1 TTAATTAAT
7428709 TTACTTAGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 8 0.27
14 12 0.40
15 10 0.33
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (14 bp):
TTAATTAATAAAAT
Found at i:7429503 original size:38 final size:38
Alignment explanation
Indices: 7429452--7429528 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
7429442 GGGTAAACTA
7429452 TGTTATTTTAGTCAAGAGCTGCTCACTCTCCCTCTCCC
1 TGTTATTTTAGTCAAGAGCTGCTCACTCTCCCTCTCCC
7429490 TGTTATTTTAGTCAAGAGCTGCTCACTCTCCCTCTCCC
1 TGTTATTTTAGTCAAGAGCTGCTCACTCTCCCTCTCCC
7429528 T
1 T
7429529 CTCCCTCTCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.16, C:0.34, G:0.13, T:0.38
Consensus pattern (38 bp):
TGTTATTTTAGTCAAGAGCTGCTCACTCTCCCTCTCCC
Found at i:7429705 original size:2 final size:2
Alignment explanation
Indices: 7429700--7429729 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7429690 CCTCTCTTAC
7429700 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
7429730 TTTCCAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:7430350 original size:21 final size:21
Alignment explanation
Indices: 7430325--7430365 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7430315 TAATAGATAT
* *
7430325 AATCATATCAAATTTTTAATA
1 AATCATATAAAAATTTTAATA
*
7430346 AATCATTTAAAAATTTTAAT
1 AATCATATAAAAATTTTAAT
7430366 TTAATCGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (21 bp):
AATCATATAAAAATTTTAATA
Found at i:7430371 original size:22 final size:21
Alignment explanation
Indices: 7430324--7430371 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
7430314 ATAATAGATA
* *
7430324 TAATCATATCAAATTTTTAAT
1 TAATCATATAAAAATTTTAAT
* *
7430345 AAATCATTTAAAAATTTTAATT
1 TAATCATATAAAAATTTTAA-T
7430367 TAATC
1 TAATC
7430372 GAAATTCCTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATCATATAAAAATTTTAAT
Found at i:7436543 original size:18 final size:18
Alignment explanation
Indices: 7436510--7436565 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
7436500 ACTAAAAATT
*
7436510 TAAAAAATAATAATTAA-A
1 TAAAAATTAAT-ATTAATA
7436528 TAACAAATTAATATTAATA
1 TAA-AAATTAATATTAATA
* *
7436547 TTAATATTAATATTAATA
1 TAAAAATTAATATTAATA
7436565 T
1 T
7436566 TAAATGAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 23 0.70
19 10 0.30
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAAATTAATATTAATA
Found at i:7436545 original size:6 final size:6
Alignment explanation
Indices: 7436534--7436568 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
7436524 TAAATAACAA
7436534 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAA
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAA
7436569 ATGAACAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
ATTAAT
Found at i:7442072 original size:31 final size:29
Alignment explanation
Indices: 7442008--7442076 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
7441998 ACAATAACGT
*
7442008 AAGTGACTAAAACTTAACATTTCAAACAT
1 AAGTGACTAAAACTTAACATTTCAAACAA
7442037 AAGTGACTAAAA-TGTAACATGAGTT-AAACAA
1 AAGTGACTAAAACT-TAACAT---TTCAAACAA
7442068 AAGTGACTA
1 AAGTGACTA
7442077 TTTTGATAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
28 1 0.03
29 18 0.51
31 14 0.40
32 2 0.06
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.25
Consensus pattern (29 bp):
AAGTGACTAAAACTTAACATTTCAAACAA
Found at i:7443988 original size:2 final size:2
Alignment explanation
Indices: 7443983--7444025 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
7443973 ATATATATAC
7443983 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7444025 A
1 A
7444026 CTGATTTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7462445 original size:30 final size:31
Alignment explanation
Indices: 7462376--7462446 Score: 74
Period size: 30 Copynumber: 2.3 Consensus size: 31
7462366 TTATTTTAAA
* *
7462376 TATAAAAATTTAACAAATTTAGCTCTCAATT
1 TATAAAAATTTAACAAATTTAACTCTAAATT
* * *
7462407 T-TACAAAATTTATC-ATTTTAATTCTAAATT
1 TATA-AAAATTTAACAAATTTAACTCTAAATT
7462437 TATAAAAATT
1 TATAAAAATT
7462447 ATAAAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
30 21 0.64
31 12 0.36
ACGTcount: A:0.45, C:0.10, G:0.01, T:0.44
Consensus pattern (31 bp):
TATAAAAATTTAACAAATTTAACTCTAAATT
Found at i:7463046 original size:60 final size:61
Alignment explanation
Indices: 7462974--7463087 Score: 137
Period size: 60 Copynumber: 1.9 Consensus size: 61
7462964 ATTATATAAA
*
7462974 TTTTATAATTATAACTAAAATT-A-AAAATTCTGTAAATATTGAAG-GATAAATTTGTTGAAC
1 TTTTATAATTATAA-TAAAATTGATAAAA-TATGTAAATATTGAAGAGATAAATTTGTTGAAC
* * *
7463034 TTTTA-AATTTATAATCAAATTGATAGAATATGTAAATATTGAAGAGCTAAATTT
1 TTTTATAA-TTATAATAAAATTGATAAAATATGTAAATATTGAAGAGATAAATTT
7463088 ATTATTAGGC
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
59 8 0.17
60 27 0.59
61 11 0.24
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (61 bp):
TTTTATAATTATAATAAAATTGATAAAATATGTAAATATTGAAGAGATAAATTTGTTGAAC
Found at i:7483056 original size:21 final size:21
Alignment explanation
Indices: 7483032--7483071 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7483022 AACGTAGACC
* *
7483032 CTGAACCTTAAATCTTAAATT
1 CTGAACCTCAAACCTTAAATT
*
7483053 CTGAATCTCAAACCTTAAA
1 CTGAACCTCAAACCTTAAA
7483072 CCATAAACTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.33
Consensus pattern (21 bp):
CTGAACCTCAAACCTTAAATT
Found at i:7483839 original size:2 final size:2
Alignment explanation
Indices: 7483832--7483891 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
7483822 ATTTGAATGA
7483832 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
7483874 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
7483892 GATAATAGGA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7488057 original size:3 final size:3
Alignment explanation
Indices: 7488049--7488085 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
7488039 TCAAAGGCTA
7488049 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7488086 CAAAGTTAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7488656 original size:23 final size:23
Alignment explanation
Indices: 7488630--7488737 Score: 137
Period size: 23 Copynumber: 4.7 Consensus size: 23
7488620 TAATGTTCAT
**
7488630 GAACATGTTCATTTAAC-TTAATC
1 GAACATGTTCA-CGAACATTAATC
*
7488653 GAACATGTTCACGAACATCAATC
1 GAACATGTTCACGAACATTAATC
7488676 GAACATGTTCACGAACATTAATC
1 GAACATGTTCACGAACATTAATC
* *
7488699 GAACATGTTCATGAACATATAATT
1 GAACATGTTCACGAACAT-TAATC
*
7488723 GAACACGTTCACGAA
1 GAACATGTTCACGAA
7488738 TAATGTTAAT
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
22 3 0.04
23 55 0.73
24 17 0.23
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (23 bp):
GAACATGTTCACGAACATTAATC
Found at i:7489266 original size:15 final size:16
Alignment explanation
Indices: 7489235--7489267 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7489225 TTATAACGAT
7489235 AAAAAATGAAGATTAA
1 AAAAAATGAAGATTAA
*
7489251 AAAAAATTAAGA-TAA
1 AAAAAATGAAGATTAA
7489266 AA
1 AA
7489268 TTAAACCCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (16 bp):
AAAAAATGAAGATTAA
Found at i:7496143 original size:23 final size:22
Alignment explanation
Indices: 7496116--7496173 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
7496106 TATAATATGT
*
7496116 ATAATAATTAAATTTATTTAAAA
1 ATAATAATTAAA-TAATTTAAAA
* * *
7496139 TTAATGATTTAATAATTTAAAA
1 ATAATAATTAAATAATTTAAAA
7496161 ATATATAATTAAA
1 ATA-ATAATTAAA
7496174 GAATAAATGA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
ATAATAATTAAATAATTTAAAA
Found at i:7496678 original size:6 final size:6
Alignment explanation
Indices: 7496669--7496703 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
7496659 TCCACCACCG
7496669 CCAGCC CCAGCC CCAGCC CCAGCC CCAGCC CCAGC
1 CCAGCC CCAGCC CCAGCC CCAGCC CCAGCC CCAGC
7496704 ACATCCACTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.66, G:0.17, T:0.00
Consensus pattern (6 bp):
CCAGCC
Found at i:7514611 original size:3 final size:3
Alignment explanation
Indices: 7514603--7514651 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
7514593 CCAAGAGAAC
7514603 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
7514651 A
1 A
7514652 AGTAGCAATC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:7518801 original size:14 final size:15
Alignment explanation
Indices: 7518784--7518817 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
7518774 GAGAAGTAAA
7518784 TAGAACTGTTACTG-
1 TAGAACTGTTACTGT
7518798 TAGAACTGTTACTGT
1 TAGAACTGTTACTGT
7518813 TAGAA
1 TAGAA
7518818 TAGAAGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (15 bp):
TAGAACTGTTACTGT
Found at i:7526095 original size:15 final size:14
Alignment explanation
Indices: 7526073--7526112 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
7526063 ATTTTTAAAA
*
7526073 TTAAAAAAGTTATT
1 TTAAAAAAATTATT
7526087 TTAAAAAAATTATT
1 TTAAAAAAATTATT
7526101 TTAAAAAAATTA
1 TTAAAAAAATTA
7526113 AAAATCAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (14 bp):
TTAAAAAAATTATT
Found at i:7526647 original size:9 final size:9
Alignment explanation
Indices: 7526635--7526664 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
7526625 TTATTTTAAA
7526635 AAATTAATT
1 AAATTAATT
*
7526644 AAATTATTT
1 AAATTAATT
7526653 AAATTAATT
1 AAATTAATT
7526662 AAA
1 AAA
7526665 AATTATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
AAATTAATT
Found at i:7526673 original size:18 final size:18
Alignment explanation
Indices: 7526635--7526680 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
7526625 TTATTTTAAA
*
7526635 AAATTAATTAAATTATTT
1 AAATTAATTAAATAATTT
7526653 AAATTAATTAAA-AATTAT
1 AAATTAATTAAATAATT-T
7526671 AAATTTAATT
1 AAA-TTAATT
7526681 TAATCTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 3 0.12
18 16 0.64
19 6 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATTAATTAAATAATTT
Found at i:7529464 original size:23 final size:23
Alignment explanation
Indices: 7529338--7529464 Score: 114
Period size: 23 Copynumber: 5.4 Consensus size: 23
7529328 ACACTAGCGC
* *
7529338 GCTCTCTGTTTAGCAC-GTCTCAT
1 GCTCTCTGTTTAGCACTGTGT-GT
7529361 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-T-TTAGCACTGTGTGT
** *
7529386 GCTCTCTGAATAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
* * *
7529409 GCTCTCTGATTAGTACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
**
7529432 ATTCGT-TGTTTAGCACTGTGTGT
1 GCTC-TCTGTTTAGCACTGTGTGT
7529455 GCTCTCTGTT
1 GCTCTCTGTT
7529465 GCCCAGCACT
Statistics
Matches: 85, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
22 1 0.01
23 63 0.74
24 2 0.02
25 16 0.19
26 3 0.04
ACGTcount: A:0.13, C:0.21, G:0.22, T:0.44
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTGTGT
Found at i:7539656 original size:29 final size:30
Alignment explanation
Indices: 7539613--7539669 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
7539603 TTATAATTTA
7539613 TATTTTTATTATTTT-TAAATGATTAAAAAT
1 TATTTTTATTATTTTGTAAATG-TTAAAAAT
*
7539643 TATTTTT-TTATTTTGTAGATGTTAAAA
1 TATTTTTATTATTTTGTAAATGTTAAAA
7539670 TTTAACTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (30 bp):
TATTTTTATTATTTTGTAAATGTTAAAAAT
Found at i:7542745 original size:12 final size:11
Alignment explanation
Indices: 7542723--7542810 Score: 52
Period size: 11 Copynumber: 7.6 Consensus size: 11
7542713 TAAATGCCTC
7542723 TAAAATAATAA
1 TAAAATAATAA
7542734 TAAAATTAATAA
1 TAAAA-TAATAA
* *
7542746 TAAAACAAGAA
1 TAAAATAATAA
*
7542757 TTATACAATATTCAA
1 -TA-A-AATAAT-AA
* *
7542772 -ACAATAAAAA
1 TAAAATAATAA
* *
7542782 TAAAATAGTAG
1 TAAAATAATAA
*
7542793 TAACATAATAA
1 TAAAATAATAA
7542804 TAAAATA
1 TAAAATA
7542811 GTAGCAAAAC
Statistics
Matches: 55, Mismatches: 16, Indels: 12
0.66 0.19 0.14
Matches are distributed among these distances:
10 2 0.04
11 33 0.60
12 13 0.24
13 2 0.04
14 3 0.05
15 2 0.04
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:7543603 original size:17 final size:17
Alignment explanation
Indices: 7543581--7543616 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7543571 CATACACATC
7543581 AACCCTTTCTGCTTGCG
1 AACCCTTTCTGCTTGCG
* *
7543598 AACCCTTTTTGCTTTCG
1 AACCCTTTCTGCTTGCG
7543615 AA
1 AA
7543617 AAATTGAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.31, G:0.14, T:0.39
Consensus pattern (17 bp):
AACCCTTTCTGCTTGCG
Found at i:7545724 original size:17 final size:16
Alignment explanation
Indices: 7545699--7545733 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
7545689 GCTACAAAAA
7545699 AAGACAAAAAAAATAAC
1 AAGAC-AAAAAAATAAC
*
7545716 AAGAGAAAAAAATAAC
1 AAGACAAAAAAATAAC
7545732 AA
1 AA
7545734 AAATGAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.77, C:0.09, G:0.09, T:0.06
Consensus pattern (16 bp):
AAGACAAAAAAATAAC
Found at i:7545741 original size:18 final size:16
Alignment explanation
Indices: 7545705--7545735 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7545695 AAAAAAGACA
*
7545705 AAAAAAATAACAAGAG
1 AAAAAAATAACAAAAG
7545721 AAAAAAATAACAAAA
1 AAAAAAATAACAAAA
7545736 ATGAAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.06, G:0.06, T:0.06
Consensus pattern (16 bp):
AAAAAAATAACAAAAG
Found at i:7554008 original size:29 final size:29
Alignment explanation
Indices: 7553976--7554048 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
7553966 ACCCGAGGGT
* *
7553976 AAAATGGTAATTTTGAACTCTCGGGGGCA
1 AAAATGGTAATTTTGAACTCTCGAGAGCA
*
7554005 AAAATGGTAATTTTGAACTCTCGAGATCA
1 AAAATGGTAATTTTGAACTCTCGAGAGCA
7554034 AAAATGGTAATTTTG
1 AAAATGGTAATTTTG
7554049 GAAACATTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.32
Consensus pattern (29 bp):
AAAATGGTAATTTTGAACTCTCGAGAGCA
Found at i:7554328 original size:58 final size:59
Alignment explanation
Indices: 7554266--7554466 Score: 157
Period size: 59 Copynumber: 3.5 Consensus size: 59
7554256 AAATAAGATA
* *
7554266 AAAAATGGGATTTATGGACA-TTCGGGGGT-AAAATAGTAATTTCGAG-AG-TTTTGAGGTC
1 AAAAATGGAATTT-TGGAAAGTTCGGGGGTAAAAATA-TAATTTCGAGAAGTTTTTG-GGTC
* * * **
7554324 AAAAATTGAATTTTTGAAAGTTTGGGGGTAAAAATATAATTTTTAGAAGTTTTTGGGTC
1 AAAAATGGAATTTTGGAAAGTTCGGGGGTAAAAATATAATTTCGAGAAGTTTTTGGGTC
* * * * * * **
7554383 AAAAATGTAATTTTTGAAATTTTGGGGGTAAAAATGTAATTTTTG-GAAG---TTAAGTC
1 AAAAATGGAATTTTGGAAAGTTCGGGGGTAAAAATATAA-TTTCGAGAAGTTTTTGGGTC
*
7554439 AAAAATGAAATTTTGGAGAAGTTCGGGG
1 AAAAATGGAATTTTGGA-AAGTTCGGGG
7554467 TCAAAATGTA
Statistics
Matches: 119, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
56 20 0.17
57 12 0.10
58 27 0.23
59 51 0.43
60 9 0.08
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.35
Consensus pattern (59 bp):
AAAAATGGAATTTTGGAAAGTTCGGGGGTAAAAATATAATTTCGAGAAGTTTTTGGGTC
Found at i:7554346 original size:30 final size:29
Alignment explanation
Indices: 7554290--7554433 Score: 136
Period size: 29 Copynumber: 4.9 Consensus size: 29
7554280 TGGACATTCG
* *
7554290 GGGGT-AAAATAGTAA-TTTCGAGAGTTTT
1 GGGGTAAAAAT-GTAATTTTTGAAAGTTTT
* *
7554318 GAGGTCAAAAAT-TGAATTTTTGAAAGTTTG
1 GGGGT-AAAAATGT-AATTTTTGAAAGTTTT
*
7554348 GGGGTAAAAATATAATTTTT-AGAAGTTTT
1 GGGGTAAAAATGTAATTTTTGA-AAGTTTT
*
7554377 TGGGTCAAAAATGTAATTTTTGAAA-TTTT
1 GGGGT-AAAAATGTAATTTTTGAAAGTTTT
*
7554406 GGGGGTAAAAATGTAATTTTTGGAAGTT
1 -GGGGTAAAAATGTAATTTTTGAAAGTT
7554434 AAGTCAAAAA
Statistics
Matches: 96, Mismatches: 10, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
28 6 0.06
29 47 0.49
30 42 0.44
31 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.24, T:0.39
Consensus pattern (29 bp):
GGGGTAAAAATGTAATTTTTGAAAGTTTT
Found at i:7554347 original size:29 final size:29
Alignment explanation
Indices: 7554315--7554483 Score: 136
Period size: 29 Copynumber: 5.9 Consensus size: 29
7554305 TTTCGAGAGT
*
7554315 TTTGAGGTCAAAAAT-TGAATTTTTGAAAG
1 TTTGGGGTCAAAAATGT-AATTTTTGAAAG
*
7554344 TTTGGGGGT-AAAAATATAATTTTT-AGAAG
1 TTT-GGGGTCAAAAATGTAATTTTTGA-AAG
* *
7554373 TTTTTGGGTCAAAAATGTAATTTTTGAAAT
1 -TTTGGGGTCAAAAATGTAATTTTTGAAAG
*
7554403 TTTGGGGGT-AAAAATGTAATTTTTGGAAG
1 TTT-GGGGTCAAAAATGTAATTTTTGAAAG
** * *
7554432 -TT-AAGTCAAAAATGAAATTTTGGAGAAG
1 TTTGGGGTCAAAAATGTAATTTTTGA-AAG
* *
7554460 TTCGGGGTC-AAAATGTAACTTTTG
1 TTTGGGGTCAAAAATGTAATTTTTG
7554484 GAAAATTTAG
Statistics
Matches: 111, Mismatches: 18, Indels: 22
0.74 0.12 0.15
Matches are distributed among these distances:
26 2 0.02
27 14 0.13
28 6 0.05
29 57 0.51
30 31 0.28
31 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.38
Consensus pattern (29 bp):
TTTGGGGTCAAAAATGTAATTTTTGAAAG
Found at i:7554383 original size:59 final size:60
Alignment explanation
Indices: 7554289--7554433 Score: 192
Period size: 59 Copynumber: 2.5 Consensus size: 60
7554279 ATGGACATTC
**
7554289 GGGGGT-AAAATAGTAATTTCGAG-AG-TTTTGAGGTCAAAAAT-TGAATTTTTGAAAGTTT
1 GGGGGTAAAAATA-TAATTTTTAGAAGTTTTTGAGGTCAAAAATGT-AATTTTTGAAAGTTT
*
7554347 GGGGGTAAAAATATAATTTTTAGAAGTTTTTG-GGTCAAAAATGTAATTTTTGAAATTTT
1 GGGGGTAAAAATATAATTTTTAGAAGTTTTTGAGGTCAAAAATGTAATTTTTGAAAGTTT
* *
7554406 GGGGGTAAAAATGTAATTTTTGGAAGTT
1 GGGGGTAAAAATATAATTTTTAGAAGTT
7554434 AAGTCAAAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
58 14 0.18
59 58 0.74
60 6 0.08
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.39
Consensus pattern (60 bp):
GGGGGTAAAAATATAATTTTTAGAAGTTTTTGAGGTCAAAAATGTAATTTTTGAAAGTTT
Found at i:7556182 original size:27 final size:28
Alignment explanation
Indices: 7556152--7556222 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 28
7556142 TAATTAAATT
* *
7556152 TAAATTCAAAA-CAAATTTAAATTTAA-A
1 TAAATTCAAAATC-AATTCAAACTTAATA
*
7556179 TAAATTTAAAATCAATTCAAACTTAATA
1 TAAATTCAAAATCAATTCAAACTTAATA
7556207 TAAATTCAAAAATCAA
1 TAAATTC-AAAATCAA
7556223 AATTTTAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 21 0.57
28 8 0.22
29 8 0.22
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (28 bp):
TAAATTCAAAATCAATTCAAACTTAATA
Found at i:7556190 original size:17 final size:16
Alignment explanation
Indices: 7556134--7556188 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
7556124 TTAAAACCAT
*
7556134 TTTAAATTTAATTAAA
1 TTTAAATTTAAATAAA
* *
7556150 TTTAAATTCAAAACAAA
1 TTTAAATT-TAAATAAA
7556167 TTTAAATTTAAATAAA
1 TTTAAATTTAAATAAA
7556183 TTTAAA
1 TTTAAA
7556189 ATCAATTCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
16 20 0.61
17 13 0.39
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:7556866 original size:12 final size:14
Alignment explanation
Indices: 7556832--7556868 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
7556822 TGATGTCAAA
*
7556832 TTAATTTATAACAC
1 TTAATTAATAACAC
7556846 TTAATTAATAACAC
1 TTAATTAATAACAC
7556860 -T-ATTAATAA
1 TTAATTAATAA
7556869 GAAACCCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 8 0.36
13 1 0.05
14 13 0.59
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.41
Consensus pattern (14 bp):
TTAATTAATAACAC
Found at i:7557289 original size:29 final size:29
Alignment explanation
Indices: 7557257--7557313 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
7557247 GATGGAAATA
*
7557257 ATAAAATGCGTATAATAAAATTAAAATGC
1 ATAAAATGCGCATAATAAAATTAAAATGC
** *
7557286 ATAAGGTGTGCATAATAAAATTAAAATG
1 ATAAAATGCGCATAATAAAATTAAAATG
7557314 TGTATATGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.53, C:0.05, G:0.14, T:0.28
Consensus pattern (29 bp):
ATAAAATGCGCATAATAAAATTAAAATGC
Found at i:7566737 original size:38 final size:40
Alignment explanation
Indices: 7566695--7566776 Score: 141
Period size: 38 Copynumber: 2.1 Consensus size: 40
7566685 CTGATGTCAA
7566695 TTAGAAAGTTATACGTACATAAACGC-A-TATGATGGAGG
1 TTAGAAAGTTATACGTACATAAACGCAATTATGATGGAGG
7566733 TTAGAAAGTTATACGTACATAAACGCATATTATGATGGAGG
1 TTAGAAAGTTATACGTACATAAACGCA-ATTATGATGGAGG
7566774 TTA
1 TTA
7566777 AAGTGTCTAG
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
38 26 0.63
40 1 0.02
41 14 0.34
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (40 bp):
TTAGAAAGTTATACGTACATAAACGCAATTATGATGGAGG
Found at i:7569457 original size:21 final size:23
Alignment explanation
Indices: 7569415--7569465 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
7569405 TATATTTTAT
7569415 TTATTAAATAAGTAACTTAAATAA
1 TTATTAAATAAGTAAC-TAAATAA
* *
7569439 TTATTCAATAA-TAAC-AAATGA
1 TTATTAAATAAGTAACTAAATAA
7569460 TT-TTAA
1 TTATTAA
7569466 CTTCTCGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 3 0.12
21 7 0.29
23 4 0.17
24 10 0.42
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (23 bp):
TTATTAAATAAGTAACTAAATAA
Found at i:7570951 original size:3 final size:3
Alignment explanation
Indices: 7570943--7570971 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7570933 AATAGAACAA
7570943 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7570972 ATAAAAAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7573270 original size:23 final size:23
Alignment explanation
Indices: 7573244--7573342 Score: 137
Period size: 23 Copynumber: 4.3 Consensus size: 23
7573234 ACACTAGCGC
7573244 GCTCTCTG-TGTAGCACTGTGTGT
1 GCTCTCTGAT-TAGCACTGTGTGT
*
7573267 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
7573290 GCTCTCTGATTAGTACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
7573313 ACTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
7573336 GCTCTCT
1 GCTCTCT
7573343 ATTGCCCAGC
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
23 67 0.99
24 1 0.01
ACGTcount: A:0.11, C:0.22, G:0.23, T:0.43
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:7577066 original size:193 final size:197
Alignment explanation
Indices: 7576701--7577149 Score: 554
Period size: 201 Copynumber: 2.3 Consensus size: 197
7576691 GTACTCGATA
* * * * * * *
7576701 CTGCTCACACGAGTTATCGAGGACTTGCAACGTATGCGGTACCCCAGCCATCGGTACTGTGCTTG
1 CTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACTGTGC-TA
* *
7576766 TCTGTACTATAAACTGTTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAGTATACAATAAGCA
65 TCTGTACTATAAACTATTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATACAATAAGCA
* *
7576831 TAGTCCTAGCCATCGTAGGGCCTATAATCCATTTAGGATCCATA-TC-TCT-TTCCCGAGTCAAG
130 TAATCCTAGCCATCGTAGGGCCTATAATCCATTTAGGATCCATATTCTTCTATTCCCGACTCAAG
7576893 AAG
195 AAG
* * *
7576896 CTGCTCACACGAGCTGTCGAGGACTCACAACATATGCAGTACCTCAGTCATCGATAC-G-G-TAT
1 CTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACTGTGCTAT
* * * *
7576958 CTGTGC-ATATAACTATTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATGCACTTATGC
66 CTGTACTATA-AACTATTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATACA-ATAAGC
*
7577022 ATAAAT-CTCAGCCATCGTAGGGCCTGTAATCCATTTAGGATCCATATTTCTTTTCTCAATTCCC
129 AT-AATCCT-AGCCATCGTAGGGCCTATAATCCATTTAGGATCCATA-TTC--TTCT--ATTCCC
*
7577086 GACTCAAGATG
187 GACTCAAGAAG
* *
7577097 CTGCTCAAACGAGCTGTCGAGGACTCGCAACATATGTGGTACCTCAGCCATCG
1 CTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCG
7577150 CGTTGGTTTC
Statistics
Matches: 217, Mismatches: 25, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
190 3 0.01
191 51 0.24
192 8 0.04
193 39 0.18
194 1 0.00
195 50 0.23
198 3 0.01
201 62 0.29
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (197 bp):
CTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACTGTGCTAT
CTGTACTATAAACTATTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAATATACAATAAGCAT
AATCCTAGCCATCGTAGGGCCTATAATCCATTTAGGATCCATATTCTTCTATTCCCGACTCAAGA
AG
Found at i:7582006 original size:16 final size:17
Alignment explanation
Indices: 7581985--7582031 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
7581975 TTTCCTCTAA
7581985 AAAAATATTAAATAA-T
1 AAAAATATTAAATAATT
* *
7582001 AAAAATAGTAACTAATT
1 AAAAATATTAAATAATT
*
7582018 AAATATAGTTAAAT
1 AAAAATA-TTAAAT
7582032 TTTGATCCAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
16 13 0.54
17 7 0.29
18 4 0.17
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (17 bp):
AAAAATATTAAATAATT
Found at i:7584345 original size:24 final size:25
Alignment explanation
Indices: 7584318--7584369 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
7584308 TCTTCAGTTA
7584318 AAGGAGCTATTTTAC-TTTATACTC
1 AAGGAGCTATTTTACTTTTATACTC
* * *
7584342 AAGGATCTGTTTTACTTTTATATTC
1 AAGGAGCTATTTTACTTTTATACTC
7584367 AAG
1 AAG
7584370 TGCTAGTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.44
Consensus pattern (25 bp):
AAGGAGCTATTTTACTTTTATACTC
Found at i:7589270 original size:57 final size:57
Alignment explanation
Indices: 7589168--7589276 Score: 132
Period size: 57 Copynumber: 1.9 Consensus size: 57
7589158 GCTTCTTAGT
* *
7589168 GTTCAGATTCTGAGTAAATGCTTTTATCTGAATTAATATAATTTCTTTATAATTGTGC
1 GTTCAGATTCTGAGTAAATGCTTTTATCTGAACTAACATAATTTC-TTATAATTGTGC
* * * *
7589226 GTTCAGATTTTTA-TAAATGCTTTTATCT-AAGCTGACATAGTTTCTTATAAT
1 GTTCAGATTCTGAGTAAATGCTTTTATCTGAA-CTAACATAATTTCTTATAAT
7589277 CTTGCAGATG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
56 9 0.20
57 24 0.55
58 11 0.25
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (57 bp):
GTTCAGATTCTGAGTAAATGCTTTTATCTGAACTAACATAATTTCTTATAATTGTGC
Found at i:7593171 original size:59 final size:59
Alignment explanation
Indices: 7593073--7593387 Score: 382
Period size: 59 Copynumber: 5.4 Consensus size: 59
7593063 TGGATACCCA
* * * *
7593073 GGGGCAAAATGGTAA-TTTTGGTGAAATCGGGGTTGAAAATGGAATTTTGGAAAGTTCG
1 GGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCG
* * * * * *
7593131 GGGGTAAAATGCTAATTTTTGATAAAATCGAGGTTAAAAATGGGATTTTAGAAGGTTCA
1 GGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCG
* * * * *
7593190 GGGGTAAAATGGTAATTTTTAATGAAATCGGGGCT-AAAATGGAATTTTGGAAAATTTG
1 GGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCG
* * *
7593248 GGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTAGAATGTTCG
1 GGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCG
* * * * * *
7593307 AGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGAAATTTTTGAAGGTTCG
1 GGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCG
* *
7593366 AGGGTAAAATGGTACTTTTTGA
1 GGGGTAAAATGGTAATTTTTGA
7593388 AAGTTTTGGG
Statistics
Matches: 220, Mismatches: 35, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
58 61 0.28
59 159 0.72
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCG
Found at i:7593251 original size:117 final size:118
Alignment explanation
Indices: 7593071--7593387 Score: 424
Period size: 117 Copynumber: 2.7 Consensus size: 118
7593061 TTTGGATACC
* *
7593071 CAGGGGCAAAATGGTAA-TTTTGGTGAAATCGGGGTTGAAAATGGAATTTTGGAAAGTTCGGGGG
1 CAGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGG
* * *
7593135 TAAAATGCTAATTTTTGATAAAATCGAGGTTAAAAATGGGATTTTAGAAGGTT
66 TAAAATGGTAATTTTTGATAAAACCGAGGTTAAAAATGGAATTTTAGAAGGTT
** * * *
7593188 CAGGGGTAAAATGGTAATTTTTAATGAAATCGGGGCT-AAAATGGAATTTTGGAAAATTTGGGGG
1 CAGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGG
* * * *
7593252 TAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTAGAATGTT
66 TAAAATGGTAATTTTTGATAAAACCGAGGTTAAAAATGGAATTTTAGAAGGTT
* * * * *
7593305 C-GAGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGAAATTTTTGAAGGTTCGAGG
1 CAG-GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGG
*
7593369 GTAAAATGGTACTTTTTGA
65 GTAAAATGGTAATTTTTGA
7593388 AAGTTTTGGG
Statistics
Matches: 172, Mismatches: 25, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
116 1 0.01
117 118 0.69
118 53 0.31
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (118 bp):
CAGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGG
TAAAATGGTAATTTTTGATAAAACCGAGGTTAAAAATGGAATTTTAGAAGGTT
Found at i:7593384 original size:29 final size:28
Alignment explanation
Indices: 7593073--7593532 Score: 172
Period size: 29 Copynumber: 15.8 Consensus size: 28
7593063 TGGATACCCA
* *
7593073 GGGGCAAAATGGTAATTTTGGTGAA--ATC
1 GGGGTAAAATGGTAATTTT--TGAAGGTTC
* *
7593101 GGGGTTGAAAATGG-AATTTTGGAAAGTTC
1 GGGG-T-AAAATGGTAATTTTTGAAGGTTC
* ***
7593130 GGGGGTAAAATGCTAATTTTTGATAAAATC
1 -GGGGTAAAATGGTAATTTTTGA-AGGTTC
* * *
7593160 GAGGTTAAAAATGG-GATTTTAGAAGGTTC
1 G-GGGT-AAAATGGTAATTTTTGAAGGTTC
**
7593189 AGGGGTAAAATGGTAATTTTT-AATGAAATC
1 -GGGGTAAAATGGTAATTTTTGAA-G-GTTC
* ** *
7593219 GGGGCTAAAATGG-AATTTTGGAAAATTTG
1 GGGG-TAAAATGGTAATTTTTG-AAGGTTC
** ***
7593248 GGGGTAAAATGGTAATTTTTGGTGAAACC
1 GGGGTAAAATGGTAATTTTTGAAG-GTTC
* *
7593277 GGGGTTAAAAATGG-AATTTTAGAATGTTC
1 GGGG-T-AAAATGGTAATTTTTGAAGGTTC
** ***
7593306 GAGGGTAAAATGGTAATTTTTGGTGAAACC
1 G-GGGTAAAATGGTAATTTTTGAAG-GTTC
*
7593336 GGGGTTAAAAAT-GAAATTTTTGAAGGTTC
1 GGGG-T-AAAATGGTAATTTTTGAAGGTTC
* * *
7593365 GAGGGTAAAATGGTACTTTTTGAAAGTTTT
1 G-GGGTAAAATGGTAATTTTTG-AAGGTTC
*
7593395 GGGGTAAAATGGTAATTTTCGGTGAA-ATT-
1 GGGGTAAAATGGTAATTTT---TGAAGGTTC
*
7593424 GGGGTTAAAAATGG-AATTTTAGAAGGTTC
1 GGGG-T-AAAATGGTAATTTTTGAAGGTTC
* *
7593453 GGGGGTAAAATGGTAATTTTTGGAAGTTTT
1 -GGGGTAAAATGGTAATTTTT-GAAGGTTC
** *
7593483 GGGGTTAAAAT-GTAATTTCTTGAAATTTT
1 GGGG-TAAAATGGTAATTT-TTGAAGGTTC
*
7593512 GGGGTCAAAAT-GTAATATTTG
1 GGGGT-AAAATGGTAATTTTTG
7593533 GACTGTTTGG
Statistics
Matches: 326, Mismatches: 65, Indels: 82
0.69 0.14 0.17
Matches are distributed among these distances:
27 6 0.02
28 52 0.16
29 141 0.43
30 96 0.29
31 29 0.09
32 2 0.01
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.34
Consensus pattern (28 bp):
GGGGTAAAATGGTAATTTTTGAAGGTTC
Found at i:7593433 original size:59 final size:58
Alignment explanation
Indices: 7593370--7593533 Score: 167
Period size: 59 Copynumber: 2.8 Consensus size: 58
7593360 GGTTCGAGGG
*
7593370 TAAAATGGTACTTTTTGAAAGTTTTGGGGTAAAATGGTAATTTTCGGTGAA-ATTGGGGT
1 TAAAATGGTAATTTTTGAAAGTTTTGGGGTAAAATGGTAATTTT-GG-GAAGATTGGGGT
* * ** * *
7593429 TAAAAATGG-AATTTTAGAAGGTTCGGGGGTAAAATGGTAATTTTTGGAAGTTTTGGGGT
1 T-AAAATGGTAATTTTTGAAAGTTTTGGGGTAAAATGGTAATTTTGGGAAG-ATTGGGGT
7593488 TAAAAT-GTAATTTCTTGAAA-TTTTGGGGTCAAAAT-GTAATATTTGG
1 TAAAATGGTAATTT-TTGAAAGTTTTGGGGT-AAAATGGTAAT-TTTGG
7593534 ACTGTTTGGG
Statistics
Matches: 86, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
57 4 0.05
58 23 0.27
59 52 0.60
60 7 0.08
ACGTcount: A:0.31, C:0.03, G:0.27, T:0.38
Consensus pattern (58 bp):
TAAAATGGTAATTTTTGAAAGTTTTGGGGTAAAATGGTAATTTTGGGAAGATTGGGGT
Found at i:7593516 original size:88 final size:88
Alignment explanation
Indices: 7593108--7593500 Score: 304
Period size: 88 Copynumber: 4.5 Consensus size: 88
7593098 ATCGGGGTTG
* ** * * * * * *
7593108 AAAATGG-AATTTTGGAAAGTTCGGGGGTAAAATGCTAATTTTTGATAAAATCGAGGTTAAAAAT
1 AAAATGGTAATTTTTGAAAGTTTTGGGGTAAAATGGTAATTTTCGGTGAAATTGGGGTTAAAAAT
**
7593172 GGGATTTTAGAAGGTTC-AGGGGT
66 GAAATTTTAGAAGGTTCGA-GGGT
* ** * * *
7593195 AAAATGGTAATTTTT-AATGAAATCGGGGCTAAAATGG-AATTTT-GG-AAAATTTGGGGGT-AA
1 AAAATGGTAATTTTTGAAAG-TTTTGGGG-TAAAATGGTAATTTTCGGTGAAA-TTGGGGTTAAA
* * ** ***
7593255 AATGGTAATTTTTGGTGAAACCG-GGGTT
63 AAT-GAAATTTTAGAAG-GTTCGAGGG-T
* * * * **
7593283 AAAAATGG-AATTTTAGAATG-TTCGAGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAA
1 -AAAATGGTAATTTTTGAAAGTTTTG-GGGTAAAATGGTAATTTTCGGTGAAATTGGGGTTAAAA
*
7593346 ATGAAATTTTTGAAGGTTCGAGGGT
64 ATGAAATTTTAGAAGGTTCGAGGGT
*
7593371 AAAATGGTACTTTTTGAAAGTTTTGGGGTAAAATGGTAATTTTCGGTGAAATTGGGGTTAAAAAT
1 AAAATGGTAATTTTTGAAAGTTTTGGGGTAAAATGGTAATTTTCGGTGAAATTGGGGTTAAAAAT
* *
7593436 GGAATTTTAGAAGGTTCGGGGGT
66 GAAATTTTAGAAGGTTCGAGGGT
*
7593459 AAAATGGTAATTTTTGGAAGTTTTGGGGTTAAAAT-GTAATTT
1 AAAATGGTAATTTTTGAAAGTTTTGGGG-TAAAATGGTAATTT
7593501 CTTGAAATTT
Statistics
Matches: 244, Mismatches: 43, Indels: 37
0.75 0.13 0.11
Matches are distributed among these distances:
86 9 0.04
87 45 0.18
88 135 0.55
89 47 0.19
90 8 0.03
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (88 bp):
AAAATGGTAATTTTTGAAAGTTTTGGGGTAAAATGGTAATTTTCGGTGAAATTGGGGTTAAAAAT
GAAATTTTAGAAGGTTCGAGGGT
Found at i:7593541 original size:29 final size:28
Alignment explanation
Indices: 7593454--7593546 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 28
7593444 AGAAGGTTCG
*
7593454 GGGGT-AAAATGGTAATTTTTGGAAGTTTT
1 GGGGTCAAAAT-GTAATTTTTGGATG-TTT
* *
7593483 GGGGTTAAAATGTAATTTCTTGAAAT-TTT
1 GGGGTCAAAATGTAATTT-TTG-GATGTTT
*
7593512 GGGGTCAAAATGTAATATTTGGACTGTTT
1 GGGGTCAAAATGTAATTTTTGGA-TGTTT
7593541 GGGGTC
1 GGGGTC
7593547 CTATAAACAA
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
27 1 0.02
28 4 0.07
29 40 0.74
30 8 0.15
31 1 0.02
ACGTcount: A:0.27, C:0.04, G:0.29, T:0.40
Consensus pattern (28 bp):
GGGGTCAAAATGTAATTTTTGGATGTTT
Found at i:7593960 original size:2 final size:2
Alignment explanation
Indices: 7593953--7593979 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7593943 AAATGGGTCC
7593953 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7593980 TATTTTAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7594668 original size:3 final size:3
Alignment explanation
Indices: 7594660--7594710 Score: 75
Period size: 3 Copynumber: 16.0 Consensus size: 3
7594650 GTCTCTTAGG
7594660 TTA TTA TTA TTA TTA TTA TTA TTTA TTTA TTA TTA TTA TTA TTAA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TT-A TTA
7594708 TTA
1 TTA
7594711 CCATTAATGT
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 36 0.78
4 10 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7594690 original size:23 final size:23
Alignment explanation
Indices: 7594663--7594709 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
7594653 TCTTAGGTTA
*
7594663 TTATTATTATTATTATTATTTAT
1 TTATTATTATTATTATTAATTAT
7594686 TTATTATTATTATTATTAATTAT
1 TTATTATTATTATTATTAATTAT
7594709 T
1 T
7594710 ACCATTAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (23 bp):
TTATTATTATTATTATTAATTAT
Found at i:7595430 original size:11 final size:11
Alignment explanation
Indices: 7595414--7595489 Score: 73
Period size: 11 Copynumber: 6.8 Consensus size: 11
7595404 TTATAATAAT
7595414 ATTAAATTTAA
1 ATTAAATTTAA
*
7595425 ATTAAATTCAA
1 ATTAAATTTAA
*
7595436 ATTCAAATTAAA
1 ATT-AAATTTAA
*
7595448 ATTGAATTTAA
1 ATTAAATTTAA
*
7595459 AATAAATTTAA
1 ATTAAATTTAA
*
7595470 GATTAAA-ATAA
1 -ATTAAATTTAA
*
7595481 ATTTAATTT
1 ATTAAATTT
7595490 TCAAATGGTT
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
10 5 0.10
11 32 0.62
12 15 0.29
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:7595437 original size:17 final size:16
Alignment explanation
Indices: 7595398--7595489 Score: 71
Period size: 17 Copynumber: 5.5 Consensus size: 16
7595388 ACTTTTCTTT
7595398 TTAAATTTATAA-TAATA
1 TTAAATTTA-AATTAA-A
7595415 TTAAATTTAAATTAAA
1 TTAAATTTAAATTAAA
*
7595431 TTCAAATTCAAATTAAAA
1 TT-AAATTTAAATT-AAA
* *
7595449 TTGAATTTAAAATAAA
1 TTAAATTTAAATTAAA
*
7595465 TTTAAGA-TTAAAATAAA
1 -TTAA-ATTTAAATTAAA
*
7595482 TTTAATTT
1 TTAAATTT
7595490 TCAAATGGTT
Statistics
Matches: 63, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
15 1 0.02
16 13 0.21
17 43 0.68
18 6 0.10
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (16 bp):
TTAAATTTAAATTAAA
Found at i:7596324 original size:22 final size:25
Alignment explanation
Indices: 7596276--7596325 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 25
7596266 CTATCGAGAA
*
7596276 ATTATTTTATGAACTTTTTTCATTT
1 ATTATTTTATGAACTTTTTTCAATT
*
7596301 ATTA-TTTATG-A-TTTTTTTAATT
1 ATTATTTTATGAACTTTTTTCAATT
7596323 ATT
1 ATT
7596326 TAATAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 12 0.52
23 1 0.04
24 6 0.26
25 4 0.17
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (25 bp):
ATTATTTTATGAACTTTTTTCAATT
Found at i:7596527 original size:14 final size:14
Alignment explanation
Indices: 7596508--7596534 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7596498 AAGGTTTGGG
7596508 TTCAAAATTTAAAA
1 TTCAAAATTTAAAA
7596522 TTCAAAATTTAAA
1 TTCAAAATTTAAA
7596535 GTAAAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (14 bp):
TTCAAAATTTAAAA
Found at i:7597591 original size:18 final size:18
Alignment explanation
Indices: 7597568--7597605 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
7597558 TAATATAATT
*
7597568 TTATTCGATTTATTCAAA
1 TTATTCGAGTTATTCAAA
*
7597586 TTATTCGAGTTATTCGAA
1 TTATTCGAGTTATTCAAA
7597604 TT
1 TT
7597606 CGAAAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.50
Consensus pattern (18 bp):
TTATTCGAGTTATTCAAA
Found at i:7614795 original size:25 final size:25
Alignment explanation
Indices: 7614761--7614817 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
7614751 ATGGTAACCA
* *
7614761 TTTAACAATTAATAAATT-TTTAATT
1 TTTAAAAATTAA-AAATTATTAAATT
7614786 TTTAAAAATTAAAAATTATTAAATT
1 TTTAAAAATTAAAAATTATTAAATT
*
7614811 ATTAAAA
1 TTTAAAA
7614818 GATGCATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TTTAAAAATTAAAAATTATTAAATT
Found at i:7615074 original size:17 final size:18
Alignment explanation
Indices: 7615037--7615074 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
7615027 AATACTTTTT
* *
7615037 AAAAGTACTTTTGAGTTA
1 AAAAATACTTTTGAGTAA
7615055 AAAAATACTTTTGAG-AA
1 AAAAATACTTTTGAGTAA
7615072 AAA
1 AAA
7615075 GCTAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.50, C:0.05, G:0.13, T:0.32
Consensus pattern (18 bp):
AAAAATACTTTTGAGTAA
Found at i:7615203 original size:18 final size:19
Alignment explanation
Indices: 7615180--7615219 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
7615170 TTTAATAATG
*
7615180 TTTTTATCTCAAAAATA-T
1 TTTTTATCCCAAAAATACT
7615198 TTTTTATCCCAAAAATACT
1 TTTTTATCCCAAAAATACT
7615217 TTT
1 TTT
7615220 GAGAAGCAAT
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:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTTTATCCCAAAAATACT
Found at i:7615627 original size:22 final size:22
Alignment explanation
Indices: 7615602--7615643 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7615592 AACTCAAAAA
7615602 AATTATAAAAAAAAGTAAAATT
1 AATTATAAAAAAAAGTAAAATT
* * *
7615624 AATTTTTAAAAAAATTAAAA
1 AATTATAAAAAAAAGTAAAA
7615644 AGATGAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (22 bp):
AATTATAAAAAAAAGTAAAATT
Found at i:7617881 original size:14 final size:14
Alignment explanation
Indices: 7617855--7617890 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
7617845 ATTAAATGAT
7617855 ATTTAAATAATATC
1 ATTTAAATAATATC
7617869 ATTT--ATAATAT-
1 ATTTAAATAATATC
7617880 ATTTAAATAAT
1 ATTTAAATAAT
7617891 TTAACATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
11 4 0.20
12 7 0.35
13 5 0.25
14 4 0.20
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTTAAATAATATC
Found at i:7620622 original size:17 final size:16
Alignment explanation
Indices: 7620581--7620616 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
7620571 AAGTGAAAAG
7620581 AAAATTAAAAAGATGA
1 AAAATTAAAAAGATGA
*
7620597 AAAATTAAAGAGATGA
1 AAAATTAAAAAGATGA
7620613 AAAA
1 AAAA
7620617 AATAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (16 bp):
AAAATTAAAAAGATGA
Found at i:7625467 original size:10 final size:10
Alignment explanation
Indices: 7625448--7625498 Score: 59
Period size: 10 Copynumber: 4.9 Consensus size: 10
7625438 GCAGCGTGAC
7625448 AAAAAA-AAA
1 AAAAAAGAAA
7625457 AAAAAAGAAA
1 AAAAAAGAAA
7625467 AAGAAAAGAAA
1 AA-AAAAGAAA
*
7625478 AGAAAAGAAA
1 AAAAAAGAAA
7625488 GAAATAAAGAA
1 -AAA-AAAGAA
7625499 GCGTGACAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
9 6 0.17
10 13 0.36
11 11 0.31
12 6 0.17
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:7625484 original size:5 final size:5
Alignment explanation
Indices: 7625449--7625491 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
7625439 CAGCGTGACA
* *
7625449 AAAAA AAAAA AAAAG AAAAAG AAAAG AAAAG AAAAG -AAAG AAA
1 AAAAG AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAA
7625492 TAAAGAAGCG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
4 4 0.11
5 26 0.74
6 5 0.14
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:7646405 original size:14 final size:15
Alignment explanation
Indices: 7646386--7646424 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
7646376 AAAACTCAAT
*
7646386 TTTTTAAATA-TATA
1 TTTTTAAAAATTATA
7646400 TTTTTAAAAATTATA
1 TTTTTAAAAATTATA
*
7646415 ATTTTAAAAA
1 TTTTTAAAAA
7646425 ATTAATATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTTTAAAAATTATA
Found at i:7646425 original size:16 final size:17
Alignment explanation
Indices: 7646394--7646432 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
7646384 ATTTTTTAAA
*
7646394 TATATATTTTTAAAAAT
1 TATATATTTTAAAAAAT
7646411 TATA-ATTTTAAAAAAT
1 TATATATTTTAAAAAAT
7646427 TA-ATAT
1 TATATAT
7646433 GGAATTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 15 0.75
17 4 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATATATTTTAAAAAAT
Found at i:7647370 original size:47 final size:46
Alignment explanation
Indices: 7647302--7647397 Score: 165
Period size: 47 Copynumber: 2.1 Consensus size: 46
7647292 AATCAAGAAA
*
7647302 TTATAAACTAAAAAGTATGAATTTTTATTGGTTACCTTTGTACATT
1 TTATAAAATAAAAAGTATGAATTTTTATTGGTTACCTTTGTACATT
*
7647348 TTATAAAATAAAAAAGTATGAATTTTTATTGGTTATCTTTGTACATT
1 TTATAAAAT-AAAAAGTATGAATTTTTATTGGTTACCTTTGTACATT
7647395 TTA
1 TTA
7647398 GTTGTGTAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 8 0.17
47 39 0.83
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.47
Consensus pattern (46 bp):
TTATAAAATAAAAAGTATGAATTTTTATTGGTTACCTTTGTACATT
Found at i:7657938 original size:113 final size:113
Alignment explanation
Indices: 7657658--7657962 Score: 328
Period size: 114 Copynumber: 2.7 Consensus size: 113
7657648 TTGTCAGAAA
* * *** * *
7657658 AAAAAATTCAAAATTTTTTGGTGTTGGTCATTTGATGACCAACACCCCCGT-TTCTAAAAAAAAT
1 AAAAATTTCAAAATTTTTTGGTGTTGATCATCAAATGGCCGACACCCCC-TATT-TAAAAAAAAT
*
7657722 TACATTTTTGGGTGTTGACCATCAAATGATCGACACCTCCTTTTCTCGAG
64 TACATTTTTGGGTGTTGACCATCAAATGATCGACACCTCCTTTTCTAGAG
** ** * * ** *
7657772 AAATTTTTTTTAAATTTTTTAGTGTTGACCATCAAATGGCCGACACCTTCTATTTTAAAAAAATT
1 AAA-AATTTCAAAATTTTTTGGTGTTGATCATCAAATGGCCGACACCCCCTATTTAAAAAAAATT
** * *** *
7657837 GTATTTTTGGGTGTTGGCCATTGCATGGTCGACACC-CCATTTTCTAGAG
65 ACATTTTTGGGTGTTGACCATCAAATGATCGACACCTCC-TTTTCTAGAG
7657886 AAAAATTTCAAAATTTTTTGGTGTTGATCATCAAATGGCCGACACCCCCTATTTAAAAAAAA-TA
1 AAAAATTTCAAAATTTTTTGGTGTTGATCATCAAATGGCCGACACCCCCTATTTAAAAAAAATTA
*
7657950 CATTTTGGGGTGT
66 CATTTTTGGGTGT
7657963 CGGCCATGCC
Statistics
Matches: 152, Mismatches: 36, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
112 12 0.08
113 52 0.34
114 55 0.36
115 33 0.22
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (113 bp):
AAAAATTTCAAAATTTTTTGGTGTTGATCATCAAATGGCCGACACCCCCTATTTAAAAAAAATTA
CATTTTTGGGTGTTGACCATCAAATGATCGACACCTCCTTTTCTAGAG
Found at i:7658234 original size:31 final size:31
Alignment explanation
Indices: 7658192--7658251 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
7658182 TACAATCGAA
* *
7658192 TTTCGGGGTTGAGCTATATACTGTCATGTAT
1 TTTCGGAGTTGAACTATATACTGTCATGTAT
*
7658223 TTTCGGAGTTGAATTATATACTGTCATGT
1 TTTCGGAGTTGAACTATATACTGTCATGT
7658252 GAAGCGACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.22, C:0.12, G:0.23, T:0.43
Consensus pattern (31 bp):
TTTCGGAGTTGAACTATATACTGTCATGTAT
Found at i:7658637 original size:17 final size:18
Alignment explanation
Indices: 7658615--7658648 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7658605 AATTATTTAT
*
7658615 AATTTATTTTAT-TTGTA
1 AATTTAATTTATATTGTA
7658632 AATTTAATTTATATTGT
1 AATTTAATTTATATTGT
7658649 TGTAATATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (18 bp):
AATTTAATTTATATTGTA
Found at i:7660120 original size:30 final size:30
Alignment explanation
Indices: 7660069--7660160 Score: 105
Period size: 30 Copynumber: 3.1 Consensus size: 30
7660059 TCCGTTTACT
* * *
7660069 TTTTAAATTTAAATTGTAATTTCGTT-TTTA
1 TTTTAAATTTAATTTCTAATTTC-TTGTATA
*
7660099 TTTTAAATTTAATTTCAAATTTCTTGTATA
1 TTTTAAATTTAATTTCTAATTTCTTGTATA
* * *
7660129 TTTTAATTTTAATTTCTAATTTCCTATATA
1 TTTTAAATTTAATTTCTAATTTCTTGTATA
7660159 TT
1 TT
7660161 CTAATTATTA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
29 2 0.04
30 51 0.96
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (30 bp):
TTTTAAATTTAATTTCTAATTTCTTGTATA
Found at i:7661270 original size:62 final size:61
Alignment explanation
Indices: 7661156--7661318 Score: 213
Period size: 62 Copynumber: 2.6 Consensus size: 61
7661146 GAGGTGTCGG
*
7661156 CCATTTGATGGCCAACA-AAAAAAAATT-AAATTTTTTTTCTCGAGAAAAGGGGGGTGTCAA
1 CCATTTGATGGCCAACACAAAAAAATTTGAAA-TTTTTTTCTCGAGAAAAGGGGGGTGTCAA
* * **
7661216 CCATTTGATGGCCAACACTAAAAAAATTTGAAATTTTTTTCTTGAGAACAGGGGGGTGTCGG
1 CCATTTGATGGCCAACAC-AAAAAAATTTGAAATTTTTTTCTCGAGAAAAGGGGGGTGTCAA
* *
7661278 CCATTTGATGGCCGACACCAAAAAAAATTTGAATTTTTTTT
1 CCATTTGATGGCCAACA-C-AAAAAAATTTGAAATTTTTTT
7661319 TCAAACAAGG
Statistics
Matches: 91, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
60 17 0.19
62 50 0.55
63 24 0.26
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (61 bp):
CCATTTGATGGCCAACACAAAAAAATTTGAAATTTTTTTCTCGAGAAAAGGGGGGTGTCAA
Found at i:7664561 original size:32 final size:33
Alignment explanation
Indices: 7664525--7664604 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 33
7664515 GTCAAATTGT
*
7664525 TTTTTAACGA-AAATGCTAACTAAAATATTAAA
1 TTTTTGACGAGAAATGCTAACTAAAATATTAAA
7664557 TTTTTGACGATGTTGGAAATGCTAACTAAAATATTAAA
1 TTTTTGACGA-----GAAATGCTAACTAAAATATTAAA
7664595 TTTTTGACGA
1 TTTTTGACGA
7664605 TGTTGGTGTG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
32 9 0.22
38 32 0.78
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (33 bp):
TTTTTGACGAGAAATGCTAACTAAAATATTAAA
Found at i:7664577 original size:38 final size:38
Alignment explanation
Indices: 7664535--7664610 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
7664525 TTTTTAACGA
7664535 AAATGCTAACTAAAATATTAAATTTTTGACGATGTTGG
1 AAATGCTAACTAAAATATTAAATTTTTGACGATGTTGG
7664573 AAATGCTAACTAAAATATTAAATTTTTGACGATGTTGG
1 AAATGCTAACTAAAATATTAAATTTTTGACGATGTTGG
7664611 TGTGGTAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (38 bp):
AAATGCTAACTAAAATATTAAATTTTTGACGATGTTGG
Found at i:7664802 original size:13 final size:13
Alignment explanation
Indices: 7664786--7664830 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
7664776 GAATTTTTTT
7664786 TTCGAATTTCGAG
1 TTCGAATTTCGAG
7664799 TTCGAA-TT-GAG
1 TTCGAATTTCGAG
*
7664810 TT-GAATTTTCGAA
1 TTCGAA-TTTCGAG
7664823 TTCGAATT
1 TTCGAATT
7664831 ATTCAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
10 3 0.11
11 5 0.19
12 4 0.15
13 12 0.44
14 3 0.11
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (13 bp):
TTCGAATTTCGAG
Found at i:7665068 original size:58 final size:58
Alignment explanation
Indices: 7664996--7665115 Score: 197
Period size: 58 Copynumber: 2.1 Consensus size: 58
7664986 ACTCATCAAC
* *
7664996 AAACTAAACCCAAATATTTTTAAACTCAAATATAATTTCATTCTTCAAA-AACACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCT-AAATAACACTCAT
*
7665054 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTTATTCCTAAATAACACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCAT
7665112 AAAC
1 AAAC
7665116 AACTCCTTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
57 3 0.05
58 55 0.95
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (58 bp):
AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCAT
Found at i:7666613 original size:34 final size:34
Alignment explanation
Indices: 7666570--7666639 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
7666560 TGAGTCCTGG
*
7666570 TTTTGCTTGTGTAAATAATATAGCGAAAGTCAGA
1 TTTTGCTTGTGTAAACAATATAGCGAAAGTCAGA
7666604 TTTTGCTTGTGTAAACAATATAGCGAAAGTCAGA
1 TTTTGCTTGTGTAAACAATATAGCGAAAGTCAGA
7666638 TT
1 TT
7666640 GCTACACACT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (34 bp):
TTTTGCTTGTGTAAACAATATAGCGAAAGTCAGA
Found at i:7667709 original size:29 final size:28
Alignment explanation
Indices: 7667671--7667746 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 28
7667661 TATAAGTGTT
*
7667671 AATAATTAAATTAAATTTTTAAATTTAAA
1 AATAAATAAATTAAATTTTTAAA-TTAAA
*
7667700 AATAAATAAACTAAAATTTTTAAATTAAA
1 AATAAATAAA-TTAAATTTTTAAATTAAA
* *
7667729 AATAAAAAAACTAAATTT
1 AATAAATAAATTAAATTT
7667747 CAAATGTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 6 0.15
29 23 0.56
30 12 0.29
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (28 bp):
AATAAATAAATTAAATTTTTAAATTAAA
Found at i:7667719 original size:30 final size:29
Alignment explanation
Indices: 7667683--7667743 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
7667673 TAATTAAATT
*
7667683 AAATTTTTAAATTTAAAAATAAATAAACTA
1 AAATTTTTAAA-TTAAAAATAAAAAAACTA
7667713 AAATTTTTAAATTAAAAATAAAAAAACTA
1 AAATTTTTAAATTAAAAATAAAAAAACTA
7667742 AA
1 AA
7667744 TTTCAAATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (29 bp):
AAATTTTTAAATTAAAAATAAAAAAACTA
Found at i:7667761 original size:29 final size:29
Alignment explanation
Indices: 7667683--7667758 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
7667673 TAATTAAATT
* *
7667683 AAATTTTTAAATTTAAAAATAAATAAACTA
1 AAATTTTCAAA-TTAAAAATAAAAAAACTA
*
7667713 AAATTTTTAAATTAAAAATAAAAAAACT-
1 AAATTTTCAAATTAAAAATAAAAAAACTA
7667741 AAA-TTTCAAATGTAAAAA
1 AAATTTTCAAAT-TAAAAA
7667759 ATATAATATT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 7 0.16
28 9 0.21
29 16 0.37
30 11 0.26
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (29 bp):
AAATTTTCAAATTAAAAATAAAAAAACTA
Done.