Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_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: 8859806
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 40 of 41
Found at i:8560293 original size:11 final size:11
Alignment explanation
Indices: 8560277--8560332 Score: 51
Period size: 11 Copynumber: 4.8 Consensus size: 11
8560267 ATTATATAGT
8560277 TTTTGAAAATA
1 TTTTGAAAATA
8560288 TTTTGAAAATA
1 TTTTGAAAATA
*
8560299 TATAT-AATATATA
1 T-TTTGAA-A-ATA
*
8560312 GTTTTGAAAACA
1 -TTTTGAAAATA
8560324 TTTTGAAAA
1 TTTTGAAAA
8560333 CGTTTATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
11 23 0.62
12 5 0.14
13 6 0.16
14 3 0.08
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (11 bp):
TTTTGAAAATA
Found at i:8560309 original size:75 final size:73
Alignment explanation
Indices: 8560218--8560401 Score: 239
Period size: 74 Copynumber: 2.5 Consensus size: 73
8560208 TGTTTTTGAC
* *
8560218 AAAATATA-AT-ATATATAATTTTCAGAAAATGATTTTCGAAAA-TTTATATATTATATAGTTTT
1 AAAATATATATAATATATAGTTTT--GAAAA-CATTTT-GAAAACTTTATATATTATATAGTTTT
*
8560280 TGAAAATATTTTG
62 T-AAAACATTTTG
8560293 AAAATATATATAATATATAGTTTTGAAAACATTTTGAAAACGTTTATATATTATATAGTTTTTAA
1 AAAATATATATAATATATAGTTTTGAAAACATTTTGAAAAC-TTTATATATTATATAGTTTTTAA
8560358 AACATTTTG
65 AACATTTTG
* * *
8560367 AAAACATATATAGTATATAGTTTTAAAAACATTTT
1 AAAATATATATAATATATAGTTTTGAAAACATTTT
8560402 TTGTGAAATT
Statistics
Matches: 99, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
73 5 0.05
74 47 0.47
75 34 0.34
76 2 0.02
77 11 0.11
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.44
Consensus pattern (73 bp):
AAAATATATATAATATATAGTTTTGAAAACATTTTGAAAACTTTATATATTATATAGTTTTTAAA
ACATTTTG
Found at i:8560414 original size:74 final size:72
Alignment explanation
Indices: 8560249--8560497 Score: 242
Period size: 74 Copynumber: 3.4 Consensus size: 72
8560239 TCAGAAAATG
* * *
8560249 ATTTTCGAAAATTTATATATTATATAGTTTTTGAAAATATTTTGAAAATATATATAATATATAGT
1 ATTTT-GAAAACTTATATATTATATAGTTTTT-AAAACATTTTGAAAACATATATAATATATAGT
*
8560314 TTTGAAAAC
64 TTTAAAAAC
*
8560323 ATTTTGAAAACGTTTATATATTATATAGTTTTTAAAACATTTTGAAAACATATATAGTATATAGT
1 ATTTTGAAAAC--TTATATATTATATAGTTTTTAAAACATTTTGAAAACATATATAATATATAGT
8560388 TTTAAAAAC
64 TTTAAAAAC
* * * *
8560397 ATTTTTTGTGAAA-TTATATAATATATAGTTTTAAAAACTTTTTTTTGAAAAC-T-TAT-ATA-A
1 A--TTTTG-AAAACTTATATATTATATAGTTTTTAAAAC---ATTTTGAAAACATATATAATATA
*
8560457 TA-TTTTTAAAAC
60 TAGTTTTAAAAAC
* * *
8560469 GTTTTGAAAAC-TATGTAATATATAGTTTT
1 ATTTTGAAAACTTATATATTATATAGTTTT
8560498 GGAAACTTTT
Statistics
Matches: 152, Mismatches: 14, Indels: 23
0.80 0.07 0.12
Matches are distributed among these distances:
69 20 0.13
70 5 0.03
72 9 0.06
73 8 0.05
74 68 0.45
75 23 0.15
76 6 0.04
77 13 0.09
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (72 bp):
ATTTTGAAAACTTATATATTATATAGTTTTTAAAACATTTTGAAAACATATATAATATATAGTTT
TAAAAAC
Found at i:8560429 original size:38 final size:37
Alignment explanation
Indices: 8560249--8560497 Score: 216
Period size: 38 Copynumber: 6.8 Consensus size: 37
8560239 TCAGAAAATG
* * * **
8560249 ATTTTCGAAAATTTATATATTATATAGTTTTTGAAA-
1 ATTTTTGAAAACTTATATAATATATAGTTTTAAAAAC
*
8560285 ATATTTTGAAAA-TATATATAATATATAGTTTTGAAAAC
1 AT-TTTTGAAAACT-TATATAATATATAGTTTTAAAAAC
* *
8560323 A-TTTTGAAAACGTTTATATATTATATAGTTTTTAAAAC
1 ATTTTTGAAAAC--TTATATAATATATAGTTTTAAAAAC
* *
8560361 A-TTTTGAAAACATATATAGTATATAGTTTTAAAAAC
1 ATTTTTGAAAACTTATATAATATATAGTTTTAAAAAC
*
8560397 ATTTTTTGTGAAA-TTATATAATATATAGTTTTAAAAAC
1 A-TTTTTG-AAAACTTATATAATATATAGTTTTAAAAAC
*
8560435 TTTTTTTTGAAAACTTATAT-A-ATAT--TTTT-AAAAC
1 --ATTTTTGAAAACTTATATAATATATAGTTTTAAAAAC
* *
8560469 -GTTTTGAAAAC-TATGTAATATATAGTTTT
1 ATTTTTGAAAACTTATATAATATATAGTTTT
8560498 GGAAACTTTT
Statistics
Matches: 181, Mismatches: 16, Indels: 34
0.78 0.07 0.15
Matches are distributed among these distances:
30 4 0.02
31 11 0.06
32 4 0.02
34 9 0.05
35 4 0.02
36 35 0.19
37 32 0.18
38 66 0.36
39 16 0.09
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (37 bp):
ATTTTTGAAAACTTATATAATATATAGTTTTAAAAAC
Found at i:8560605 original size:21 final size:21
Alignment explanation
Indices: 8560580--8560620 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8560570 TTATATCATA
* * *
8560580 TTATTTATTTTATTTTATTTT
1 TTATTAATTTAATTTAATTTT
8560601 TTATTAATTTAATTTAATTT
1 TTATTAATTTAATTTAATTT
8560621 CATATATTTT
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (21 bp):
TTATTAATTTAATTTAATTTT
Found at i:8560657 original size:12 final size:12
Alignment explanation
Indices: 8560640--8560671 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
8560630 TTTTTCTCCA
8560640 GGTCCAAAAACG
1 GGTCCAAAAACG
*
8560652 GGTCCAGAAACG
1 GGTCCAAAAACG
8560664 GGTCCAAA
1 GGTCCAAA
8560672 TCCAGTCAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.38, C:0.25, G:0.28, T:0.09
Consensus pattern (12 bp):
GGTCCAAAAACG
Found at i:8561952 original size:11 final size:11
Alignment explanation
Indices: 8561933--8562013 Score: 51
Period size: 11 Copynumber: 7.0 Consensus size: 11
8561923 AAACTTAACC
*
8561933 TTTTATTATTA
1 TTTTTTTATTA
8561944 TTTTTTTATTA
1 TTTTTTTATTA
8561955 TTTCTTTCT-TTCA
1 TTT-TTT-TATT-A
*
8561968 TTATTATTATTA
1 TT-TTTTTATTA
8561980 -TTTTTTATATA
1 TTTTTTTAT-TA
*
8561991 TTTTATTCATT-
1 TTTT-TTTATTA
8562002 TTTTATTTATTA
1 TTTT-TTTATTA
8562014 GCATTTTGTT
Statistics
Matches: 56, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
10 6 0.11
11 26 0.46
12 11 0.20
13 12 0.21
14 1 0.02
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTTTTATTA
Found at i:8562002 original size:20 final size:20
Alignment explanation
Indices: 8561969--8562013 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
8561959 TTTCTTTCAT
8561969 TATTATTATTATTTTTTATA
1 TATTATTATTATTTTTTATA
*
8561989 TATT-TTATTCATTTTTTATT
1 TATTATTATT-ATTTTTTATA
8562009 TATTA
1 TATTA
8562014 GCATTTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
TATTATTATTATTTTTTATA
Found at i:8565450 original size:31 final size:29
Alignment explanation
Indices: 8565389--8565452 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 29
8565379 ACAAGAGAAG
*
8565389 TTTGGGTTAGTGATACGTATAATTTTGAT
1 TTTGGGTTAGTGATACGTATAACTTTGAT
8565418 TTTGGGTTAGTGATACGTATAAAACTTTGAT
1 TTTGGGTTAGTGATACGTAT--AACTTTGAT
8565449 TTTG
1 TTTG
8565453 ATTTTATCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 20 0.62
31 12 0.38
ACGTcount: A:0.25, C:0.05, G:0.23, T:0.47
Consensus pattern (29 bp):
TTTGGGTTAGTGATACGTATAACTTTGAT
Found at i:8566554 original size:19 final size:20
Alignment explanation
Indices: 8566530--8566572 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
8566520 TCCATTTGTT
8566530 TTAAATATA-CTTAATTTTA
1 TTAAATATATCTTAATTTTA
* *
8566549 TTAAATATATTTTCATTTTA
1 TTAAATATATCTTAATTTTA
8566569 TTAA
1 TTAA
8566573 GGTCGGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
TTAAATATATCTTAATTTTA
Found at i:8567787 original size:2 final size:2
Alignment explanation
Indices: 8567780--8567820 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
8567770 TAATTAAACG
8567780 AT AT AT 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 AT AT AT A
8567821 AATCATTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8570504 original size:26 final size:27
Alignment explanation
Indices: 8570459--8570514 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
8570449 ATTTTGGTAT
* * *
8570459 TTGAGGTTGATTTATTCATTTCAGAGC
1 TTGAGGGTGATTTAGTCATTCCAGAGC
*
8570486 TTGAGGGT-ATTTAGTCATTCCAGGGC
1 TTGAGGGTGATTTAGTCATTCCAGAGC
8570512 TTG
1 TTG
8570515 GAGGTACTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.20, C:0.12, G:0.27, T:0.41
Consensus pattern (27 bp):
TTGAGGGTGATTTAGTCATTCCAGAGC
Found at i:8571484 original size:23 final size:23
Alignment explanation
Indices: 8571434--8571491 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
8571424 TATAATTGCA
*
8571434 CCGAAGTG-CCACATAGAAATGTG
1 CCGAA-TGACCACATAGAAATGTC
* *
8571457 TCGAATGACCACATAGATATGTC
1 CCGAATGACCACATAGAAATGTC
*
8571480 CCGAAAGACCAC
1 CCGAATGACCAC
8571492 GAATGACCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 2 0.07
23 27 0.93
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (23 bp):
CCGAATGACCACATAGAAATGTC
Found at i:8571626 original size:14 final size:14
Alignment explanation
Indices: 8571607--8571668 Score: 52
Period size: 15 Copynumber: 4.2 Consensus size: 14
8571597 TTATAACATT
8571607 TCACATAGCTTATA
1 TCACATAGCTTATA
*
8571621 TCACATAGACATATAA
1 TCACATAG-CTTAT-A
* * *
8571637 TCACATAGATCATTG
1 TCACATAGCTTA-TA
*
8571652 TCATATAGCTTATA
1 TCACATAGCTTATA
8571666 TCA
1 TCA
8571669 TATTTTCATG
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
14 12 0.33
15 14 0.39
16 10 0.28
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (14 bp):
TCACATAGCTTATA
Found at i:8571641 original size:16 final size:15
Alignment explanation
Indices: 8571607--8571645 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
8571597 TTATAACATT
*
8571607 TCACATAG-CTTATA
1 TCACATAGACATATA
8571621 TCACATAGACATATAA
1 TCACATAGACATAT-A
8571637 TCACATAGA
1 TCACATAGA
8571646 TCATTGTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.36
15 4 0.18
16 10 0.45
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.28
Consensus pattern (15 bp):
TCACATAGACATATA
Found at i:8571683 original size:45 final size:45
Alignment explanation
Indices: 8571607--8571750 Score: 164
Period size: 45 Copynumber: 3.2 Consensus size: 45
8571597 TTATAACATT
* *** * * *
8571607 TCACATAGCTTATATCACATAGACATATAATCACATAGATCATTG
1 TCACATAGCTTATATCATATTTTCATGTAATCACATAGGTCAATG
*
8571652 TCATATAGCTTATATCATATTTTCATGTAATCACATAGGTCAATG
1 TCACATAGCTTATATCATATTTTCATGTAATCACATAGGTCAATG
* * *
8571697 CCACATAGCTTTTAT-ATCATTTTCATGTAATCACATAGGTCAATA
1 TCACATAGCTTATATCAT-ATTTTCATGTAATCACATAGGTCAATG
*
8571742 TCATATAGC
1 TCACATAGC
8571751 ATAAAATATA
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
44 2 0.02
45 82 0.98
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (45 bp):
TCACATAGCTTATATCATATTTTCATGTAATCACATAGGTCAATG
Found at i:8578719 original size:14 final size:16
Alignment explanation
Indices: 8578700--8578738 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
8578690 TTATAACATT
*
8578700 TCACATAG-CTTAT-A
1 TCACATAGACATATAA
8578714 TCACATAGACATATAA
1 TCACATAGACATATAA
8578730 TCACATAGA
1 TCACATAGA
8578739 TAATTGTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.36
15 4 0.18
16 10 0.45
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.28
Consensus pattern (16 bp):
TCACATAGACATATAA
Found at i:8578734 original size:16 final size:15
Alignment explanation
Indices: 8578700--8578760 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
8578690 TTATAACATT
*
8578700 TCACATAG-CTTATA
1 TCACATAGACATATA
8578714 TCACATAGACATATAA
1 TCACATAGACATAT-A
* *
8578730 TCACATAGATA-ATTG
1 TCACATAGACATA-TA
*
8578745 TCACATAGAAATATA
1 TCACATAGACATATA
8578760 T
1 T
8578761 TAATTACATA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
14 8 0.21
15 17 0.45
16 13 0.34
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.31
Consensus pattern (15 bp):
TCACATAGACATATA
Found at i:8579215 original size:14 final size:15
Alignment explanation
Indices: 8579182--8579220 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
8579172 CAAAGTTAAT
*
8579182 GAGTTGACTCTATAC
1 GAGTTGACTCAATAC
8579197 GAGTTGACTCAAT-C
1 GAGTTGACTCAATAC
*
8579211 GAGTTAACTC
1 GAGTTGACTC
8579221 GATGAAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (15 bp):
GAGTTGACTCAATAC
Found at i:8586062 original size:45 final size:46
Alignment explanation
Indices: 8585978--8586064 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 46
8585968 AAAAGCCTGA
* *
8585978 GTGCATCGATGCATGGTCTTGTACATCGATGCATCAAATGCACTAC
1 GTGCATCGATGCATGGTCATGTACATCGATGCATAAAATGCACTAC
* *
8586024 GTGCATCGATGCATTGT-ATGTGCATCGATGCATAAAATGCA
1 GTGCATCGATGCATGGTCATGTACATCGATGCATAAAATGCA
8586065 TTCGATGTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 21 0.57
46 16 0.43
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (46 bp):
GTGCATCGATGCATGGTCATGTACATCGATGCATAAAATGCACTAC
Found at i:8586112 original size:20 final size:20
Alignment explanation
Indices: 8586084--8586122 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8586074 CAAGAAATTA
8586084 ATTGATGCATCGATGCATAG
1 ATTGATGCATCGATGCATAG
* *
8586104 ATTGGTGCATCGGTGCATA
1 ATTGATGCATCGATGCATA
8586123 CCCTTGAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (20 bp):
ATTGATGCATCGATGCATAG
Found at i:8588044 original size:458 final size:458
Alignment explanation
Indices: 8587187--8588062 Score: 1574
Period size: 458 Copynumber: 1.9 Consensus size: 458
8587177 GAGGAGGAGG
** * *
8587187 AGGAGCTAGGAGCAGCTTGTGAGGAACTAGCTCTCGGAGTTTGCTTACCAGGTCTAAAAACCCAT
1 AGGAGCTAGGAGCAGCTCATGAGAAACTAGCTCCCGGAGTTTGCTTACCAGGTCTAAAAACCCAT
*
8587252 TGACCAGTTACCTCGTCTTGTTTCCAATCCGCTTTCTTCAAGGATGTGAGATTGATTGGGTTTTG
66 TGACCAGTTACCTCGTCTTGTTTCCAATCCACTTTCTTCAAGGATGTGAGATTGATTGGGTTTTG
* *
8587317 GAGAGGAATAGAATTGTAAAGAGAGACATCTAAACTGAGTTTGATAAAGAGATTGCTAAGAAGAC
131 GAGAGGAATAGAATTGTAAAGAGAGACATCCAAACCGAGTTTGATAAAGAGATTGCTAAGAAGAC
* *
8587382 AACCATAAACTAATGTTTCAACATGTTTGGATGGGATAATGTTTACGTTATCGACTAACACACTA
196 AACCATAAACTAATGTTTCAACATGTTTGGATGGGATAATGTTTACGGTATCGACGAACACACTA
8587447 AAGATAATATATGGAAGATTTATTTTGATCTTATTCTTAATACAATACATCCACCATAAATCCCT
261 AAGATAATATATGGAAGATTTATTTTGATCTTATTCTTAATACAATACATCCACCATAAATCCCT
*
8587512 AGCACGATGAGTGGAATACCTACCCGCTGATGGTCGAAACCACCATGAGATCATTAAATGAAGAA
326 AGCACGAAGAGTGGAATACCTACCCGCTGATGGTCGAAACCACCATGAGATCATTAAATGAAGAA
*
8587577 AACGATCGTGATGAGATCGAAGGGTACTCATCAGAAACCGGCCAGAGGAGGAGGAGGAGGAGCAC
391 AACGATCGTGATGAGATCAAAGGGTACTCATCAGAAACCGGCCAGAGGAGGAGGAGGAGGAGCAC
8587642 GAT
456 GAT
*
8587645 AGGAGCTAGGAGCAGCTCATGAGAAACTAGCTCCCGGAGTTTGCTTACCGGGTCTAAAAACCCAT
1 AGGAGCTAGGAGCAGCTCATGAGAAACTAGCTCCCGGAGTTTGCTTACCAGGTCTAAAAACCCAT
* *
8587710 TGACCGGTTACCTTGTCTTGTTTCCAATCCACTTTCTTCAAGGATGTGAGATTGATTGGGTTTTG
66 TGACCAGTTACCTCGTCTTGTTTCCAATCCACTTTCTTCAAGGATGTGAGATTGATTGGGTTTTG
*
8587775 GAGAGGAATATG-ATTGTCAAGAGAGACATCCAAACCGAGTTTGATAAAGAGATTGCTAAGAAGA
131 GAGAGGAATA-GAATTGTAAAGAGAGACATCCAAACCGAGTTTGATAAAGAGATTGCTAAGAAGA
*
8587839 CAACCATAAACTAATGTTTCAACATGTTTGGATGGGATAATGTTTACGGTATCGACGAGCACACT
195 CAACCATAAACTAATGTTTCAACATGTTTGGATGGGATAATGTTTACGGTATCGACGAACACACT
*
8587904 AAAGATAATATGTGGAAGATTTATTTTGATCTTATTCTTAATACAATACATCCACCATAAATCCC
260 AAAGATAATATATGGAAGATTTATTTTGATCTTATTCTTAATACAATACATCCACCATAAATCCC
*
8587969 TAGCACGAAGAGTGGAGTACCTACCCGCTGATGGTCGAAACCACCATGAGATCATTAAATGAAGA
325 TAGCACGAAGAGTGGAATACCTACCCGCTGATGGTCGAAACCACCATGAGATCATTAAATGAAGA
8588034 AAACGATCGTGATGAGATCAAAGGGTACT
390 AAACGATCGTGATGAGATCAAAGGGTACT
8588063 AACACTAGCG
Statistics
Matches: 399, Mismatches: 18, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
458 398 1.00
459 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (458 bp):
AGGAGCTAGGAGCAGCTCATGAGAAACTAGCTCCCGGAGTTTGCTTACCAGGTCTAAAAACCCAT
TGACCAGTTACCTCGTCTTGTTTCCAATCCACTTTCTTCAAGGATGTGAGATTGATTGGGTTTTG
GAGAGGAATAGAATTGTAAAGAGAGACATCCAAACCGAGTTTGATAAAGAGATTGCTAAGAAGAC
AACCATAAACTAATGTTTCAACATGTTTGGATGGGATAATGTTTACGGTATCGACGAACACACTA
AAGATAATATATGGAAGATTTATTTTGATCTTATTCTTAATACAATACATCCACCATAAATCCCT
AGCACGAAGAGTGGAATACCTACCCGCTGATGGTCGAAACCACCATGAGATCATTAAATGAAGAA
AACGATCGTGATGAGATCAAAGGGTACTCATCAGAAACCGGCCAGAGGAGGAGGAGGAGGAGCAC
GAT
Found at i:8593146 original size:22 final size:21
Alignment explanation
Indices: 8593104--8593143 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8593094 GAGTTTATTT
*
8593104 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
8593125 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
8593144 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:8595667 original size:18 final size:18
Alignment explanation
Indices: 8595633--8595666 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8595623 TTTAGGGGTT
8595633 TTTTCATTTTAACTTTTA
1 TTTTCATTTTAACTTTTA
*
8595651 TTTTCCTTTT-ACTTTT
1 TTTTCATTTTAACTTTT
8595667 TTTGCTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTCATTTTAACTTTTA
Found at i:8602916 original size:29 final size:27
Alignment explanation
Indices: 8602872--8602954 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
8602862 GTGAAGCCGT
* *
8602872 AGGTCGCCATGTACTCCAGGCGACCAAGG
1 AGGTCACCATGCACTCC-GGCGACCAA-G
* *
8602901 AGGTCTCCATGCACTCCGAG-AACCAAG
1 AGGTCACCATGCACTCCG-GCGACCAAG
8602928 AGGTCACCATGCACTCCGGGCGACCAA
1 AGGTCACCATGCACTCC-GGCGACCAA
8602955 TGAGTGAGTG
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
27 18 0.39
28 12 0.26
29 16 0.35
ACGTcount: A:0.27, C:0.34, G:0.27, T:0.13
Consensus pattern (27 bp):
AGGTCACCATGCACTCCGGCGACCAAG
Found at i:8602993 original size:33 final size:33
Alignment explanation
Indices: 8602947--8603012 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
8602937 TGCACTCCGG
* *
8602947 GCGACCAATGAGTGAGTGCGAGCTATCCAGGGA
1 GCGACCAAGGAGTGAGTGCGAGCAATCCAGGGA
8602980 GCGACCAAGGAGTGAGTGCGAGCAATCCAGGGA
1 GCGACCAAGGAGTGAGTGCGAGCAATCCAGGGA
8603013 ACAGTGCATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.29, C:0.21, G:0.38, T:0.12
Consensus pattern (33 bp):
GCGACCAAGGAGTGAGTGCGAGCAATCCAGGGA
Found at i:8603175 original size:23 final size:23
Alignment explanation
Indices: 8603145--8603188 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
8603135 ATGCATGCGT
*
8603145 TGCATCCATAGCTGGGAGATTCC
1 TGCATCCATAACTGGGAGATTCC
8603168 TGCATCCATAACTGGGAGATT
1 TGCATCCATAACTGGGAGATT
8603189 ACAGCCGAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (23 bp):
TGCATCCATAACTGGGAGATTCC
Found at i:8603655 original size:28 final size:26
Alignment explanation
Indices: 8603636--8603718 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
8603626 GTTTTTAGTA
8603636 TAAATTATTAGTTTGTTAGTTTAAGT
1 TAAATTATTAGTTTGTTAGTTTAAGT
*
8603662 TATATTATATTAGTTTGTTAGTTTAAGT
1 TA-AAT-TATTAGTTTGTTAGTTTAAGT
*
8603690 TATATTATATAGTTTGTTAGTTTAAGT
1 TAAATTAT-TAGTTTGTTAGTTTAAGT
8603717 TA
1 TA
8603719 TATATTATAT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
26 5 0.10
27 23 0.45
28 23 0.45
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.55
Consensus pattern (26 bp):
TAAATTATTAGTTTGTTAGTTTAAGT
Found at i:8603727 original size:27 final size:28
Alignment explanation
Indices: 8603641--8603730 Score: 155
Period size: 28 Copynumber: 3.2 Consensus size: 28
8603631 TAGTATAAAT
8603641 TATTAGTTTGTTAGTTTAAGTTATATTA
1 TATTAGTTTGTTAGTTTAAGTTATATTA
8603669 TATTAGTTTGTTAGTTTAAGTTATATTA
1 TATTAGTTTGTTAGTTTAAGTTATATTA
8603697 TA-TAGTTTGTTAGTTTAAGTTATATATTA
1 TATTAGTTTGTTAGTTTAAG-T-TATATTA
8603726 TATTA
1 TATTA
8603731 TATAAAAATT
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
27 17 0.29
28 31 0.53
29 9 0.15
30 2 0.03
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (28 bp):
TATTAGTTTGTTAGTTTAAGTTATATTA
Found at i:8603792 original size:44 final size:48
Alignment explanation
Indices: 8603699--8603792 Score: 115
Period size: 49 Copynumber: 2.0 Consensus size: 48
8603689 TTATATTATA
* * *
8603699 TAGTTTGTTAGTTTAAGTTATATATTATATTATATAAAAATTAGGTAAT
1 TAGTTTCTTAGTTTAAGTTATATA-TATATTATAAAAAAATTAAGTAAT
*
8603748 TAGTTTCTTAGTTTAAGTTAT-TA-A-A-TATAAAAAAATTAATTAAT
1 TAGTTTCTTAGTTTAAGTTATATATATATTATAAAAAAATTAAGTAAT
8603792 T
1 T
8603793 GTTAGTATCT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
44 17 0.41
45 1 0.02
46 1 0.02
48 2 0.05
49 20 0.49
ACGTcount: A:0.41, C:0.01, G:0.10, T:0.48
Consensus pattern (48 bp):
TAGTTTCTTAGTTTAAGTTATATATATATTATAAAAAAATTAAGTAAT
Found at i:8607598 original size:52 final size:52
Alignment explanation
Indices: 8607473--8607643 Score: 189
Period size: 49 Copynumber: 3.4 Consensus size: 52
8607463 TTTGATTTAG
* * * *
8607473 TAATGATTTGCTAATCATGATT--TAATAATGAAATTA-TA-T-TTAAAATT
1 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTATTAATATT
* *
8607520 ATAATAATTAT-TTAGTAATGATTAGTAATAATGAAATTATTATTATTAATATT
1 -TAATGATT-TGATAGTAATGATTAGTAATAATGAAATTATTATTATTAATATT
8607573 TAATGATTTGATAGTAATGATTAGTAATAATG-AA--ATTATTATTAATATT
1 TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTATTAATATT
* *
8607622 TGATGATTTGGTAGTAATGATT
1 TAATGATTTGATAGTAATGATT
8607644 TTAATATTTG
Statistics
Matches: 107, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
48 16 0.15
49 36 0.34
50 14 0.13
51 5 0.05
52 29 0.27
53 7 0.07
ACGTcount: A:0.42, C:0.01, G:0.12, T:0.46
Consensus pattern (52 bp):
TAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTATTAATATT
Found at i:8607650 original size:30 final size:29
Alignment explanation
Indices: 8607614--8607688 Score: 109
Period size: 27 Copynumber: 2.6 Consensus size: 29
8607604 GAAATTATTA
8607614 TTAATATTTGATGATTTGGTAGTAATGATT
1 TTAATATTTGATGATTT-GTAGTAATGATT
8607644 TTAATATTTGATGA-TT-TAGTAATGATT
1 TTAATATTTGATGATTTGTAGTAATGATT
* *
8607671 TAAATATTTAATGATTTG
1 TTAATATTTGATGATTTG
8607689 ATGATTTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
27 23 0.56
28 2 0.05
29 2 0.05
30 14 0.34
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (29 bp):
TTAATATTTGATGATTTGTAGTAATGATT
Found at i:8607689 original size:35 final size:35
Alignment explanation
Indices: 8607643--8607720 Score: 117
Period size: 35 Copynumber: 2.3 Consensus size: 35
8607633 TAGTAATGAT
*
8607643 TTTAAT-ATTTGATGATTTAGTAATGATTTAAATA
1 TTTAATGATTTGATGATTTAATAATGATTTAAATA
*
8607677 TTTAATGATTTGATGATTTAATAATGATTTTAATA
1 TTTAATGATTTGATGATTTAATAATGATTTAAATA
8607712 -TT-ATGATTT
1 TTTAATGATTT
8607721 AATAATGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
33 7 0.17
34 8 0.20
35 26 0.63
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.53
Consensus pattern (35 bp):
TTTAATGATTTGATGATTTAATAATGATTTAAATA
Found at i:8607737 original size:14 final size:13
Alignment explanation
Indices: 8607695--8608184 Score: 168
Period size: 14 Copynumber: 37.5 Consensus size: 13
8607685 TTTGATGATT
8607695 TAATAATGATTT-
1 TAATAATGATTTA
8607707 TAATATTATGA-TT-
1 TAATA--ATGATTTA
8607720 TAATAATGATTTA
1 TAATAATGATTTA
*
8607733 GTAATAATCA-TTA
1 -TAATAATGATTTA
8607746 TAATAATGATTTAA
1 TAATAATGATTT-A
*
8607760 TAATAATCA-TTA
1 TAATAATGATTTA
8607772 TAATAATGATTTAA
1 TAATAATGATTT-A
* *
8607786 TAGTAAT-AATT-
1 TAATAATGATTTA
8607797 TAATAATGATTTA
1 TAATAATGATTTA
8607810 GTAATAAT--TTTA
1 -TAATAATGATTTA
8607822 TAATAATGATTTAA
1 TAATAATGATTT-A
*
8607836 TATTAATGA-TT-
1 TAATAATGATTTA
*
8607847 TAATAATTA-TTA
1 TAATAATGATTTA
8607859 CTAATAATGATTTAA
1 -TAATAATGATTT-A
*
8607874 TAATAACAAATGAGTGTA
1 TAAT----AATGA-TTTA
* *
8607892 TAAGT-GTGGA-CTA
1 TAA-TAAT-GATTTA
8607905 CTCGAATTTAA--ATTTA
1 -T--AA--TAATGATTTA
*
8607921 TACATAGTTGAATTTA
1 TA-ATA-ATG-ATTTA
8607937 T--TAATGATTT-
1 TAATAATGATTTA
*
8607947 TTA-AAT-ATTTAA
1 TAATAATGATTT-A
* *
8607959 TGATTTGATGATTTA
1 T-A-ATAATGATTTA
8607974 GT-AT--TGATTTGA
1 -TAATAATGATTT-A
*
8607986 TAATAATCA-TTA
1 TAATAATGATTTA
8607998 TAATAATGATTTA
1 TAATAATGATTTA
*
8608011 GTAATAATCA-TTA
1 -TAATAATGATTTA
8608024 TAATAATGATTTA
1 TAATAATGATTTA
*
8608037 GTAATAATCA-TTA
1 -TAATAATGATTTA
*
8608050 TAATAATAATTTAA
1 TAATAATGATTT-A
*
8608064 TAATAATGA-TAA
1 TAATAATGATTTA
8608076 TAA-AA--ATTTAA
1 TAATAATGATTT-A
*
8608087 TAATAATCA-TTA
1 TAATAATGATTTA
*
8608099 TAATAATAATTTAA
1 TAATAATGATTT-A
* *
8608113 TAGTAATAATTTTA
1 TAATAATGA-TTTA
8608127 TAATAATGATTTAA
1 TAATAATGATTT-A
*
8608141 TACTAATGA-TT-
1 TAATAATGATTTA
*
8608152 TAATAATTA-TTA
1 TAATAATGATTTA
*
8608164 CTAATAATAATTTAA
1 -TAATAATGATTT-A
8608179 TAATAA
1 TAATAA
8608185 CAAATGAGTG
Statistics
Matches: 368, Mismatches: 41, Indels: 136
0.68 0.08 0.25
Matches are distributed among these distances:
9 1 0.00
10 6 0.02
11 55 0.15
12 79 0.21
13 72 0.20
14 115 0.31
15 12 0.03
16 15 0.04
17 1 0.00
18 9 0.02
19 3 0.01
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (13 bp):
TAATAATGATTTA
Found at i:8607756 original size:26 final size:26
Alignment explanation
Indices: 8607689--8608182 Score: 277
Period size: 26 Copynumber: 19.5 Consensus size: 26
8607679 TAATGATTTG
*
8607689 ATGATT-TAATAATGATTTTAAT-ATT
1 ATGATTATAATAATGA-TTTAATAATA
*
8607714 ATGATT-TAATAATGATTTAGTAATA
1 ATGATTATAATAATGATTTAATAATA
*
8607739 ATCATTATAATAATGATTTAATAATA
1 ATGATTATAATAATGATTTAATAATA
* *
8607765 ATCATTATAATAATGATTTAATAGTA
1 ATGATTATAATAATGATTTAATAATA
* *
8607791 ATAATT-TAATAATGATTTAGTAATA
1 ATGATTATAATAATGATTTAATAATA
* *
8607816 AT-TTTATAATAATGATTTAATATTA
1 ATGATTATAATAATGATTTAATAATA
* *
8607841 ATGATT-TAATAATTA-TTACTAATA
1 ATGATTATAATAATGATTTAATAATA
*** * *
8607865 ATGATT-TAATAAT-AACAAATGAGTGT
1 ATGATTATAATAATGATTTAAT-AAT-A
* ** * * *
8607891 ATAAGTGTGGACTACTCGAATT--T-A-A
1 ATGA-T-TATAATAAT-GATTTAATAATA
*
8607916 AT--TTATACATAGTTGAATTT-AT--TA
1 ATGATTATA-ATA-ATG-ATTTAATAATA
* * * *
8607940 ATGATTTTTA-AAT-ATTTAATGATTTG
1 ATGATTATAATAATGATTTAAT-A-ATA
* * *
8607966 ATGATT-TAGTATTGATTTGATAATA
1 ATGATTATAATAATGATTTAATAATA
* *
8607991 ATCATTATAATAATGATTTAGTAATA
1 ATGATTATAATAATGATTTAATAATA
* *
8608017 ATCATTATAATAATGATTTAGTAATA
1 ATGATTATAATAATGATTTAATAATA
* *
8608043 ATCATTATAATAATAATTTAATAATA
1 ATGATTATAATAATGATTTAATAATA
*
8608069 ATGATAATAA-AA--ATTTAATAATA
1 ATGATTATAATAATGATTTAATAATA
* * *
8608092 ATCATTATAATAATAATTTAATAGTA
1 ATGATTATAATAATGATTTAATAATA
* *
8608118 ATAATTTTATAATAATGATTTAATACTA
1 ATGA--TTATAATAATGATTTAATAATA
* *
8608146 ATGATT-TAATAATTA-TTACTAATA
1 ATGATTATAATAATGATTTAATAATA
*
8608170 ATAATT-TAATAAT
1 ATGATTATAATAAT
8608183 AACAAATGAG
Statistics
Matches: 374, Mismatches: 63, Indels: 65
0.75 0.13 0.13
Matches are distributed among these distances:
21 6 0.02
22 6 0.02
23 25 0.07
24 55 0.15
25 90 0.24
26 154 0.41
27 7 0.02
28 24 0.06
29 5 0.01
31 2 0.01
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (26 bp):
ATGATTATAATAATGATTTAATAATA
Found at i:8608076 original size:49 final size:50
Alignment explanation
Indices: 8607978--8608182 Score: 227
Period size: 49 Copynumber: 4.0 Consensus size: 50
8607968 GATTTAGTAT
* * *
8607978 TGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAATAA
1 TGATTTAATAATAATCATTATAATAAT-AATTA-TAATAATAATTATAATAA
* *
8608030 TGATTTAGTAATAATCATTATAATAATAATT-TAATAATAATGATAATAA
1 TGATTTAATAATAATCATTATAATAATAATTATAATAATAATTATAATAA
** *
8608079 AAATTTAATAATAATCATTATAATAATAATTTAATAGTAATAATTTTATAATAA
1 TGATTTAATAATAATCATTATAATAATAA-TT-ATAATAATAA--TTATAATAA
* * *
8608133 TGATTTAATACTAATGATT-TAATAATTATTACTAATAATAATT-TAATAA
1 TGATTTAATAATAATCATTATAATAATAATTA-TAATAATAATTATAATAA
8608182 T
1 T
8608183 AACAAATGAG
Statistics
Matches: 131, Mismatches: 16, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
49 49 0.37
50 4 0.03
51 4 0.03
52 43 0.33
53 8 0.06
54 23 0.18
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (50 bp):
TGATTTAATAATAATCATTATAATAATAATTATAATAATAATTATAATAA
Found at i:8608133 original size:3 final size:3
Alignment explanation
Indices: 8607985--8608122 Score: 61
Period size: 3 Copynumber: 47.7 Consensus size: 3
8607975 TATTGATTTG
* * * * * * * *
8607985 ATA ATA ATC ATT ATA ATA ATG AT- TTA GTA ATA ATC ATT ATA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
8608032 AT- TTA GTA ATA ATC ATT ATA ATA ATA AT- TTA ATA ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
8608078 AAA AT- TTA ATA ATA ATC ATT ATA ATA ATA AT- TTA ATA GTA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
8608123 TTTATAATAA
Statistics
Matches: 98, Mismatches: 32, Indels: 10
0.70 0.23 0.07
Matches are distributed among these distances:
2 5 0.05
3 93 0.95
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.41
Consensus pattern (3 bp):
ATA
Found at i:8608317 original size:59 final size:56
Alignment explanation
Indices: 8608242--8608362 Score: 188
Period size: 59 Copynumber: 2.1 Consensus size: 56
8608232 TCGAATTTAT
*
8608242 TAATGATTTTTAAATATTTAATGATTTGATACTAATGATTTACTAATTATTATTAA
1 TAATGATTTTTAAATATTTAATGATTTGATACTAATGATTTACTAATTATTACTAA
* *
8608298 TAATGATTTATTATTAATATTTAATTATTTGATACTAATGATTTACTAATTATTACTAG
1 TAATGATTT-TTA--AATATTTAATGATTTGATACTAATGATTTACTAATTATTACTAA
8608357 TAATGA
1 TAATGA
8608363 AATTATAATA
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
56 9 0.15
57 3 0.05
59 47 0.80
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (56 bp):
TAATGATTTTTAAATATTTAATGATTTGATACTAATGATTTACTAATTATTACTAA
Found at i:8608322 original size:24 final size:24
Alignment explanation
Indices: 8608274--8608318 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
8608264 GATTTGATAC
*
8608274 TAATGATTTACTAATTATTATTAA
1 TAATGATTTACTAATTAATATTAA
*
8608298 TAATGATTTA-TTATTAATATT
1 TAATGATTTACTAATTAATATT
8608319 TAATTATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (24 bp):
TAATGATTTACTAATTAATATTAA
Found at i:8608325 original size:17 final size:17
Alignment explanation
Indices: 8608285--8608326 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
8608275 AATGATTTAC
8608285 TAATTATTATTAATAAT
1 TAATTATTATTAATAAT
* * *
8608302 GATTTATTATTAATATT
1 TAATTATTATTAATAAT
8608319 TAATTATT
1 TAATTATT
8608327 TGATACTAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TAATTATTATTAATAAT
Found at i:8612151 original size:24 final size:20
Alignment explanation
Indices: 8612094--8612190 Score: 76
Period size: 19 Copynumber: 4.8 Consensus size: 20
8612084 TTCCCCTTGA
*
8612094 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
8612114 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CC-T-AC
*
8612137 ATGTGCATCGATGCACTCCT-T
1 A-GTGCATCGATGCA-TCCTAC
*
8612158 A-TGCATCGATGCACTCCT-T
1 AGTGCATCGATGCA-TCCTAC
8612177 A-TGCATCGATGCAT
1 AGTGCATCGATGCAT
8612191 TAATTGTATT
Statistics
Matches: 68, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
18 1 0.01
19 31 0.46
20 14 0.21
21 2 0.03
22 1 0.01
23 4 0.06
24 14 0.21
25 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:8612164 original size:19 final size:19
Alignment explanation
Indices: 8612140--8612189 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
8612130 CCTTAACATG
8612140 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
8612159 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
8612178 TGCATCGATGCA
1 TGCATCGATGCA
8612190 TTAATTGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (19 bp):
TGCATCGATGCACTCCTTA
Found at i:8615908 original size:23 final size:23
Alignment explanation
Indices: 8615844--8615908 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
8615834 CAGCTCGTAT
* **
8615844 AATTGCACTGAAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCATGTAG
* *
8615867 AAATGCACCGTAGTGCCATGTAG
1 AATTGCACCGAAGTGCCATGTAG
*
8615890 GATTGCACCGAAGTGCCAT
1 AATTGCACCGAAGTGCCAT
8615909 ATAACATGTC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCATGTAG
Found at i:8616138 original size:21 final size:23
Alignment explanation
Indices: 8616112--8616171 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
8616102 TCATTTTGTT
8616112 TGTCACATATTCATAT-AT-TCA
1 TGTCACATATTCATATAATCTCA
* *
8616133 TTTCACATATGCATATAATCTCA
1 TGTCACATATTCATATAATCTCA
8616156 TGTCACAT-TCTCATAT
1 TGTCACATAT-TCATAT
8616172 GGTCATATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 14 0.44
22 3 0.09
23 15 0.47
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.42
Consensus pattern (23 bp):
TGTCACATATTCATATAATCTCA
Found at i:8616161 original size:23 final size:21
Alignment explanation
Indices: 8616112--8616163 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
8616102 TCATTTTGTT
*
8616112 TGTCACATATTCATATATTCA
1 TGTCACATATGCATATATTCA
*
8616133 TTTCACATATGCATATAATCTCA
1 TGTCACATATGCATAT-AT-TCA
8616156 TGTCACAT
1 TGTCACAT
8616164 TCTCATATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 14 0.54
22 2 0.08
23 10 0.38
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (21 bp):
TGTCACATATGCATATATTCA
Found at i:8617664 original size:24 final size:20
Alignment explanation
Indices: 8617607--8617684 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
8617597 TTCCCCTTGA
*
8617607 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
8617627 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CC-T-AC
*
8617650 ATGTGCATCGATGCACTCCT-T
1 A-GTGCATCGATGCA-TCCTAC
8617671 A-TGCATCGATGCAT
1 AGTGCATCGATGCAT
8617685 TAATTGCATT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
18 1 0.02
19 12 0.24
20 14 0.29
21 2 0.04
22 1 0.02
23 4 0.08
24 14 0.29
25 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:8618680 original size:3 final size:3
Alignment explanation
Indices: 8618672--8618704 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
8618662 GTCTGGGATA
8618672 TAT TAT TAT TAT TAT TA- TAT TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
8618705 ATAATAATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8618694 original size:8 final size:8
Alignment explanation
Indices: 8618670--8618704 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
8618660 TTGTCTGGGA
8618670 TATATTAT
1 TATATTAT
8618678 TATTATTAT
1 TA-TATTAT
8618687 TATATTAT
1 TATATTAT
*
8618695 TTTATTAT
1 TATATTAT
8618703 TA
1 TA
8618705 ATAATAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
TATATTAT
Found at i:8622426 original size:22 final size:22
Alignment explanation
Indices: 8622398--8622446 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
8622388 ACAACTATTA
*
8622398 AACTATTCTTTAATGTAACTTT
1 AACTATTCTTTAATATAACTTT
*
8622420 AACTATTTTTTAATATAACTTT
1 AACTATTCTTTAATATAACTTT
8622442 AACTA
1 AACTA
8622447 AAAAACTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.49
Consensus pattern (22 bp):
AACTATTCTTTAATATAACTTT
Found at i:8623047 original size:21 final size:20
Alignment explanation
Indices: 8622999--8623047 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
8622989 ATATAACTTA
8622999 AACTAAACTAACAATAATAT
1 AACTAAACTAACAATAATAT
8623019 AACTTAAACTAACAAACTAAT-T
1 AAC-TAAACTAAC-AA-TAATAT
8623041 AACTAAA
1 AACTAAA
8623048 ATTTGTGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.12
21 13 0.50
22 6 0.23
23 4 0.15
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.24
Consensus pattern (20 bp):
AACTAAACTAACAATAATAT
Found at i:8623094 original size:33 final size:38
Alignment explanation
Indices: 8623021--8623099 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 38
8623011 AATAATATAA
*
8623021 CTTAAACTAACAAACTAATTAACTAAAATTTGTGTTTAC
1 CTTAAACTAACAAACTAATTAACT-AAATATGTGTTTAC
8623060 CTTAAAC-AACAAA-TAA-TAACT-AATATGT-TTTAC
1 CTTAAACTAACAAACTAATTAACTAAATATGTGTTTAC
8623093 CTTAAAC
1 CTTAAAC
8623100 CATCAACTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
33 12 0.31
34 6 0.15
36 5 0.13
37 3 0.08
38 6 0.15
39 7 0.18
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (38 bp):
CTTAAACTAACAAACTAATTAACTAAATATGTGTTTAC
Found at i:8623241 original size:15 final size:15
Alignment explanation
Indices: 8623203--8623233 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8623193 CTCTTTTCTC
8623203 TGCTATCTTCTCCCT
1 TGCTATCTTCTCCCT
8623218 TGCTATCTTCTCCCT
1 TGCTATCTTCTCCCT
8623233 T
1 T
8623234 TCTTTCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.39, G:0.06, T:0.48
Consensus pattern (15 bp):
TGCTATCTTCTCCCT
Found at i:8623358 original size:11 final size:11
Alignment explanation
Indices: 8623342--8623377 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
8623332 TGAGCGGGCT
8623342 GCAATAATGCA
1 GCAATAATGCA
*
8623353 GCAATAAGTGCT
1 GCAATAA-TGCA
8623365 GCAATAATGCA
1 GCAATAATGCA
8623376 GC
1 GC
8623378 TGAATTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.19
Consensus pattern (11 bp):
GCAATAATGCA
Found at i:8623566 original size:29 final size:29
Alignment explanation
Indices: 8623533--8623592 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
8623523 GCCATGCACA
8623533 CTCCTTGGTCGCCCGGAGTGCATGGCGAC
1 CTCCTTGGTCGCCCGGAGTGCATGGCGAC
8623562 CTCCTTGGTCGCCCGGAGTGCATGGCGAC
1 CTCCTTGGTCGCCCGGAGTGCATGGCGAC
8623591 CT
1 CT
8623593 ACGGCTTCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.10, C:0.35, G:0.33, T:0.22
Consensus pattern (29 bp):
CTCCTTGGTCGCCCGGAGTGCATGGCGAC
Found at i:8628732 original size:20 final size:20
Alignment explanation
Indices: 8628707--8628754 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
8628697 GACATTGAGT
8628707 CCATTAAATATTAAACAATG
1 CCATTAAATATTAAACAATG
8628727 CCATTAAATATTAAACAATG
1 CCATTAAATATTAAACAATG
*
8628747 CCACTAAA
1 CCATTAAA
8628755 ACAATAGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.27
Consensus pattern (20 bp):
CCATTAAATATTAAACAATG
Found at i:8629767 original size:11 final size:11
Alignment explanation
Indices: 8629753--8629798 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
8629743 ATTTTAAATG
8629753 AAAAATATAAA
1 AAAAATATAAA
*
8629764 AAAAATCT-AA
1 AAAAATATAAA
*
8629774 AAATATATAAA
1 AAAAATATAAA
8629785 AAAAA-ATTAAA
1 AAAAATA-TAAA
8629796 AAA
1 AAA
8629799 TTTAGGGCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 9 0.31
11 20 0.69
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAAATATAAA
Found at i:8629783 original size:21 final size:20
Alignment explanation
Indices: 8629753--8629799 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 20
8629743 ATTTTAAATG
8629753 AAAAATAT-AAAAAAAATCTA
1 AAAAATATAAAAAAAAAT-TA
8629773 AAAATATATAAAAAAAAATTA
1 AAAA-ATATAAAAAAAAATTA
8629794 AAAAAT
1 AAAAAT
8629800 TTAGGGCCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.24
21 10 0.40
22 9 0.36
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAAATATAAAAAAAAATTA
Found at i:8637143 original size:16 final size:17
Alignment explanation
Indices: 8637112--8637145 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8637102 TAGAATATCA
*
8637112 ACTCTTATTATATACAC
1 ACTCTTACTATATACAC
8637129 ACTCTTACT-TATACAC
1 ACTCTTACTATATACAC
8637145 A
1 A
8637146 AAACTATTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.38
Consensus pattern (17 bp):
ACTCTTACTATATACAC
Found at i:8639228 original size:10 final size:10
Alignment explanation
Indices: 8639205--8639254 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
8639195 AAGAGATTGA
* *
8639205 AGAGAATATA
1 AGAGAATTTG
*
8639215 AGAGTATTTG
1 AGAGAATTTG
*
8639225 AGAGAAGTTG
1 AGAGAATTTG
*
8639235 AGAGAAATTG
1 AGAGAATTTG
8639245 AGAGAATTTG
1 AGAGAATTTG
8639255 GTGTGATGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (10 bp):
AGAGAATTTG
Found at i:8640669 original size:29 final size:29
Alignment explanation
Indices: 8640636--8640691 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
8640626 TCCCAACACA
* *
8640636 TAGGTCGCCATGCCCTCATGGCGACCTTG
1 TAGGTCGCCATGCACTCAGGGCGACCTTG
*
8640665 TAGGTCGCCATGCACTCCGGGCGACCT
1 TAGGTCGCCATGCACTCAGGGCGACCT
8640692 ACCCTCGCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.14, C:0.36, G:0.29, T:0.21
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCAGGGCGACCTTG
Found at i:8640759 original size:33 final size:32
Alignment explanation
Indices: 8640707--8640778 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 32
8640697 CGCTCAGCTT
* *
8640707 CCCTCGGATTCCTCGCATAGCTCGCTCGGTTG
1 CCCTCGGATCCCTCGCATAGCTCGCTCGGATG
*
8640739 CCCTCGGATGCCCTCGCATAGCTCGTTCGGATG
1 CCCTCGGAT-CCCTCGCATAGCTCGCTCGGATG
*
8640772 GCCTCGG
1 CCCTCGG
8640779 TCGGATGGCC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
32 9 0.26
33 26 0.74
ACGTcount: A:0.10, C:0.38, G:0.28, T:0.25
Consensus pattern (32 bp):
CCCTCGGATCCCTCGCATAGCTCGCTCGGATG
Found at i:8640782 original size:14 final size:14
Alignment explanation
Indices: 8640760--8640824 Score: 67
Period size: 14 Copynumber: 4.2 Consensus size: 14
8640750 CCTCGCATAG
*
8640760 CTCGTTCGGATGGC
1 CTCGGTCGGATGGC
8640774 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
8640788 CTCGGATGCTCTCGGATGGC
1 CTC-G--G---TCGGATGGC
8640808 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
8640822 CTC
1 CTC
8640825 ATATGCCCAG
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
14 28 0.64
15 1 0.02
17 2 0.05
19 1 0.02
20 12 0.27
ACGTcount: A:0.08, C:0.31, G:0.37, T:0.25
Consensus pattern (14 bp):
CTCGGTCGGATGGC
Found at i:8640808 original size:34 final size:36
Alignment explanation
Indices: 8640717--8640824 Score: 129
Period size: 34 Copynumber: 3.1 Consensus size: 36
8640707 CCCTCGGATT
* *
8640717 CCTCGCATAGCTCGCTCGG-TTGCC-C--TCGGATGC
1 CCTCGCATAGCTCG-TCGGATGGCCTCGGTCGGATGG
8640750 CCTCGCATAGCTCGTTCGGATGGCCTCGGTCGGATGG
1 CCTCGCATAGCTCG-TCGGATGGCCTCGGTCGGATGG
*
8640787 CCTCGGAT-GCTC-TCGGATGGCCTCGGTCGGATGG
1 CCTCGCATAGCTCGTCGGATGGCCTCGGTCGGATGG
8640821 CCTC
1 CCTC
8640825 ATATGCCCAG
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
33 18 0.27
34 30 0.45
35 1 0.01
36 4 0.06
37 14 0.21
ACGTcount: A:0.09, C:0.34, G:0.32, T:0.24
Consensus pattern (36 bp):
CCTCGCATAGCTCGTCGGATGGCCTCGGTCGGATGG
Found at i:8640905 original size:29 final size:29
Alignment explanation
Indices: 8640868--8640925 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
8640858 GTAATCTCTT
** *
8640868 GTAGCTCGCCGGGAAGACATGGCGACCTA
1 GTAGCTCGCCCCGAAGACATGACGACCTA
* *
8640897 GTAGGTCGCCCCGAAGGCATGACGACCTA
1 GTAGCTCGCCCCGAAGACATGACGACCTA
8640926 CGACCAACAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.24, C:0.29, G:0.33, T:0.14
Consensus pattern (29 bp):
GTAGCTCGCCCCGAAGACATGACGACCTA
Found at i:8641050 original size:3 final size:3
Alignment explanation
Indices: 8641042--8641078 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
8641032 ATATTATACC
8641042 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
8641079 GGAACGAGTT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:8655013 original size:131 final size:131
Alignment explanation
Indices: 8654779--8655099 Score: 554
Period size: 131 Copynumber: 2.5 Consensus size: 131
8654769 CACACAAAAT
* *
8654779 GTATCGATACACATATATAAAGTATTGATACTTATAATTTCGAAACATATTACTTTAAAGTAATA
1 GTATCGATACTCATATATAAAGTATTGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATA
* *
8654844 TGTAAATTAACAATGTACACGGTAAACGTTTCTACCGGTATAATGAAAATAGACGTAAATGTCCA
66 GGTAAATTAACAATGTACACAGTAAACGTTTCTACCGGTATAATGAAAATAGACGTAAATGTCCA
8654909 A
131 A
* * *
8654910 GTATCGATACTCATATACCAAA-TATCGATACTTATAATTTCGAAACCTGTTACTTTAAAGTAAT
1 GTATCGATACTCATATA-TAAAGTATTGATACTTATAATTTCGAAACCTATTACTTTAAAGTAAT
8654974 AGGTAAATTAACAATGTACACAGTAAACGTTTCTACCGGTATAATGAAAATAGACGTAAATGTCC
65 AGGTAAATTAACAATGTACACAGTAAACGTTTCTACCGGTATAATGAAAATAGACGTAAATGTCC
8655039 AA
130 AA
*
8655041 GTATCGATACTCATATATAAAGTATTGATACTTATAATTTCAAAACCTATTACTTTAAA
1 GTATCGATACTCATATATAAAGTATTGATACTTATAATTTCGAAACCTATTACTTTAAA
8655100 ATAAGAGAAA
Statistics
Matches: 177, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
130 3 0.02
131 171 0.97
132 3 0.02
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (131 bp):
GTATCGATACTCATATATAAAGTATTGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATA
GGTAAATTAACAATGTACACAGTAAACGTTTCTACCGGTATAATGAAAATAGACGTAAATGTCCA
A
Found at i:8655337 original size:20 final size:21
Alignment explanation
Indices: 8655312--8655363 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
8655302 TTTTTCCAAT
*
8655312 TCGCAATGCGAATAAG-TAAA
1 TCGCAATGCGAATAAGAAAAA
* **
8655332 TCGCAACGCGAATTGGAAAAA
1 TCGCAATGCGAATAAGAAAAA
8655353 TCGCAATGCGA
1 TCGCAATGCGA
8655364 TACTTACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATAAGAAAAA
Found at i:8655967 original size:19 final size:19
Alignment explanation
Indices: 8655929--8655994 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
8655919 TTCGAGAATG
8655929 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
8655949 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
* *
8655968 AAAAACGCAACGCGAAA-C
1 AAAATCGCAACGCGAAATA
8655986 AAAATCGCA
1 AAAATCGCA
8655995 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
18 8 0.21
19 20 0.51
20 11 0.28
ACGTcount: A:0.50, C:0.24, G:0.17, T:0.09
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:8656017 original size:19 final size:19
Alignment explanation
Indices: 8655990--8656173 Score: 172
Period size: 19 Copynumber: 10.1 Consensus size: 19
8655980 CGAAACAAAA
*
8655990 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
8656009 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
8656028 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
8656047 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
8656066 TCGCGTTGTGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * **
8656080 TCTCGTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
8656099 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
8656113 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
8656132 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
8656152 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
8656172 TC
1 TC
8656174 AACCAAAAGA
Statistics
Matches: 135, Mismatches: 18, Indels: 24
0.76 0.10 0.14
Matches are distributed among these distances:
14 18 0.13
16 4 0.03
17 5 0.04
19 76 0.56
20 31 0.23
21 1 0.01
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:8656048 original size:38 final size:38
Alignment explanation
Indices: 8655990--8656173 Score: 172
Period size: 33 Copynumber: 5.1 Consensus size: 38
8655980 CGAAACAAAA
*
8655990 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
*
8656028 TCGCGTTGCGATTTTTATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* * * **
8656066 TCGCGTTGTGA--TTC---TCTCGTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* **
8656099 TCGCGTTGCGA--TTC---TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* *
8656132 TCCGCGTTGCGATTCTCATTATCTCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT-TCGCGTTGCGATTTTCATT
8656172 TC
1 TC
8656174 AACCAAAAGA
Statistics
Matches: 126, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
33 47 0.37
34 10 0.08
36 4 0.03
38 46 0.37
39 1 0.01
40 18 0.14
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.45
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:8658267 original size:21 final size:20
Alignment explanation
Indices: 8658209--8658268 Score: 50
Period size: 21 Copynumber: 3.0 Consensus size: 20
8658199 CTCGAGAGTC
8658209 CCCTCCCACCATTC-AGAGG
1 CCCTCCCACCATTCAAGAGG
** * * *
8658228 CCACTGTCATCGTTGAAGAGG
1 CC-CTCCCACCATTCAAGAGG
8658249 TCCCTCCCACCATTCAAGAG
1 -CCCTCCCACCATTCAAGAG
8658269 CCCGATTCAC
Statistics
Matches: 28, Mismatches: 10, Indels: 4
0.67 0.24 0.10
Matches are distributed among these distances:
19 2 0.07
20 7 0.25
21 17 0.61
22 2 0.07
ACGTcount: A:0.23, C:0.38, G:0.18, T:0.20
Consensus pattern (20 bp):
CCCTCCCACCATTCAAGAGG
Found at i:8659656 original size:14 final size:14
Alignment explanation
Indices: 8659621--8659656 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
8659611 GATTGTTTAA
8659621 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
*
8659635 GTGA-TTGTAAAAG
1 TTGATTTGTAAAAG
8659648 TTGATTTGT
1 TTGATTTGT
8659657 TTAATTGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:8659799 original size:14 final size:14
Alignment explanation
Indices: 8659780--8659836 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
8659770 GCGAAATGAA
8659780 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
8659794 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
8659813 AATCGCAACGAGAG
1 AATCGCAACGAGAG
8659827 AATCGCAACG
1 AATCGCAACG
8659837 CGAAATTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:8659807 original size:33 final size:33
Alignment explanation
Indices: 8659762--8659851 Score: 153
Period size: 33 Copynumber: 2.7 Consensus size: 33
8659752 AAAAAGTACT
*
8659762 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
8659795 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
8659828 ATCGCAACGCGAAATTAAATTCGC
1 ATCGCAACGCGAAATGAAAATCGC
8659852 GTTGCGATTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.43, C:0.21, G:0.22, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:8659821 original size:19 final size:19
Alignment explanation
Indices: 8659762--8659822 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
8659752 AAAAAGTACT
*
8659762 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
8659781 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
8659795 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
8659814 ATCGCAACG
1 ATCGCAACG
8659823 AGAGAATCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 10 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 19 0.54
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:8659879 original size:19 final size:19
Alignment explanation
Indices: 8659847--8659907 Score: 51
Period size: 19 Copynumber: 3.5 Consensus size: 19
8659837 CGAAATTAAA
* *
8659847 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGTGATTTTCAT
*
8659866 TTCGCATTGTGA--TTC-C
1 TTCGCATTGTGATTTTCAT
*
8659882 CTCG--TTGTGATTTTCAT
1 TTCGCATTGTGATTTTCAT
8659899 TTCGCATTG
1 TTCGCATTG
8659908 CGAAATTAGC
Statistics
Matches: 31, Mismatches: 6, Indels: 10
0.66 0.13 0.21
Matches are distributed among these distances:
14 6 0.19
16 6 0.19
17 6 0.19
19 13 0.42
ACGTcount: A:0.11, C:0.21, G:0.20, T:0.48
Consensus pattern (19 bp):
TTCGCATTGTGATTTTCAT
Found at i:8659975 original size:32 final size:32
Alignment explanation
Indices: 8659851--8659975 Score: 164
Period size: 32 Copynumber: 3.9 Consensus size: 32
8659841 ATTAAATTCG
* *
8659851 CGTTGCGATTTTCATTTCGCATTGTGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CAT
* *
8659884 CGTTGTGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCAT
*
8659917 CGTTGCGA-TTTCATTTCGCATTGCGATTCTT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCAT
8659948 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
8659976 AGTAATTTCC
Statistics
Matches: 81, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
30 3 0.04
31 8 0.10
32 36 0.44
33 31 0.38
35 3 0.04
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.44
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCAT
Found at i:8662460 original size:22 final size:22
Alignment explanation
Indices: 8662428--8662471 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
8662418 CTAAAACATC
*
8662428 ATCAAAATCCGTGTATTGACCA
1 ATCAAAATCCGGGTATTGACCA
*
8662450 ATCAAAGTCCGGGTATTGACCA
1 ATCAAAATCCGGGTATTGACCA
8662472 GGATCAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (22 bp):
ATCAAAATCCGGGTATTGACCA
Found at i:8663550 original size:20 final size:20
Alignment explanation
Indices: 8663525--8663575 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
8663515 ATTCATTTGA
8663525 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
8663545 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
8663565 CTATCGCAACG
1 CTATCGCAACG
8663576 AAAAATCGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:8663640 original size:19 final size:19
Alignment explanation
Indices: 8663599--8663683 Score: 126
Period size: 19 Copynumber: 4.7 Consensus size: 19
8663589 CGAATGAAAA
8663599 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
8663615 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
8663632 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
8663651 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
8663670 TCGCATTGCAATTT
1 TCGCATTGCGATTT
8663684 CTCGTTGCAA
Statistics
Matches: 63, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
14 11 0.17
16 3 0.05
17 3 0.05
19 46 0.73
ACGTcount: A:0.15, C:0.21, G:0.16, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:8663830 original size:14 final size:13
Alignment explanation
Indices: 8663801--8663835 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
8663791 CATCAATTAA
8663801 ACAAATCACATTT
1 ACAAATCACATTT
*
8663814 ACAAATCATCTTTT
1 ACAAATCA-CATTT
8663828 ACAAATCA
1 ACAAATCA
8663836 ATTAAACAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
ACAAATCACATTT
Found at i:8665835 original size:20 final size:21
Alignment explanation
Indices: 8665812--8665867 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
8665802 GAAACTTAAA
8665812 ATCGCAACGCGAAAAT-GACT
1 ATCGCAACGCGAAAATGGACT
* *
8665832 ATCGCAACGCGGAAATGGGCT
1 ATCGCAACGCGAAAATGGACT
*
8665853 ATCGCAATGCGAAAA
1 ATCGCAACGCGAAAA
8665868 AATCGCAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.14
Consensus pattern (21 bp):
ATCGCAACGCGAAAATGGACT
Found at i:8665885 original size:14 final size:14
Alignment explanation
Indices: 8665866--8665922 Score: 69
Period size: 14 Copynumber: 3.8 Consensus size: 14
8665856 GCAATGCGAA
8665866 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
8665880 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
8665896 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
8665912 AAAATCGCAAC
1 AAAATCGCAAC
8665923 ACGAAACACA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.49, C:0.26, G:0.16, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:8665908 original size:32 final size:30
Alignment explanation
Indices: 8665853--8665928 Score: 116
Period size: 32 Copynumber: 2.5 Consensus size: 30
8665843 GAAATGGGCT
*
8665853 ATCGCAATGCGAAAAAATCGCAACGACAAA
1 ATCGCAACGCGAAAAAATCGCAACGACAAA
8665883 ATCGCAACGCGAAATGAAATCGCAACGACAAA
1 ATCGCAACGCGAAA--AAATCGCAACGACAAA
*
8665915 ATCGCAACACGAAA
1 ATCGCAACGCGAAA
8665929 CACAAATCGC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
30 13 0.31
32 29 0.69
ACGTcount: A:0.49, C:0.25, G:0.17, T:0.09
Consensus pattern (30 bp):
ATCGCAACGCGAAAAAATCGCAACGACAAA
Found at i:8665957 original size:19 final size:18
Alignment explanation
Indices: 8665935--8666030 Score: 75
Period size: 19 Copynumber: 5.6 Consensus size: 18
8665925 GAAACACAAA
8665935 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGATTTTCATT
*
8665954 TCGCGTTGCGATTTT--GT
1 TCGC-TTGCGATTTTCATT
8665971 T-G-TTGCGA-TTTCATT
1 TCGCTTGCGATTTTCATT
*
8665986 TCGCGTTGCGA-TTT--TG
1 TCGC-TTGCGATTTTCATT
8666002 TCG-TTGCGATTTTCATT
1 TCGCTTGCGATTTTCATT
8666019 TCGCATTGCGAT
1 TCGC-TTGCGAT
8666031 AGCCATTTCC
Statistics
Matches: 62, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
13 3 0.05
14 12 0.19
15 5 0.08
16 6 0.10
17 6 0.10
18 9 0.15
19 21 0.34
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (18 bp):
TCGCTTGCGATTTTCATT
Found at i:8665977 original size:14 final size:14
Alignment explanation
Indices: 8665958--8666014 Score: 53
Period size: 14 Copynumber: 3.8 Consensus size: 14
8665948 TTCATTTCGC
8665958 GTTGCGATTTTGTT
1 GTTGCGATTTTGTT
8665972 GTTGCGATTTCAT-TT
1 GTTGCGATTT--TGTT
*
8665987 CGCGTTGCGATTTTGTC
1 ---GTTGCGATTTTGTT
8666004 GTTGCGATTTT
1 GTTGCGATTTT
8666015 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
14 21 0.58
15 2 0.06
16 2 0.06
17 1 0.03
18 10 0.28
ACGTcount: A:0.09, C:0.14, G:0.26, T:0.51
Consensus pattern (14 bp):
GTTGCGATTTTGTT
Found at i:8666021 original size:33 final size:33
Alignment explanation
Indices: 8665940--8666030 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
8665930 ACAAATCGCA
*
8665940 TTGCGATTTTCATTTCGCGTTGCGATTTTGTTG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
8665973 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
8666005 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
8666031 AGCCATTTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 31 0.56
33 24 0.44
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:8666049 original size:20 final size:19
Alignment explanation
Indices: 8666015--8666069 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
8666005 TTGCGATTTT
*
8666015 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
8666034 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
8666054 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
8666070 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:8666576 original size:18 final size:18
Alignment explanation
Indices: 8666550--8666594 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
8666540 GTCGATCAGA
*
8666550 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
8666568 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
8666586 TGATGGCTC
1 TGATGGCTC
8666595 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:8668148 original size:20 final size:21
Alignment explanation
Indices: 8668123--8668169 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
8668113 TCTGAGAGAT
8668123 GGAGAT-AGACGGATTTCGCC
1 GGAGATGAGACGGATTTCGCC
* *
8668143 GGAGATGGGGACGGATTTCGTC
1 GGAGAT-GAGACGGATTTCGCC
8668165 GGAGA
1 GGAGA
8668170 GGGGTGAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 6 0.26
22 17 0.74
ACGTcount: A:0.23, C:0.15, G:0.43, T:0.19
Consensus pattern (21 bp):
GGAGATGAGACGGATTTCGCC
Found at i:8668157 original size:22 final size:21
Alignment explanation
Indices: 8668130--8668173 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
8668120 GATGGAGATA
8668130 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGA-GGG
*
8668152 GACGGATTTCGTCGGAGAGGG
1 GACGGATTTCGCCGGAGAGGG
8668173 G
1 G
8668174 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.18, C:0.16, G:0.48, T:0.18
Consensus pattern (21 bp):
GACGGATTTCGCCGGAGAGGG
Found at i:8668461 original size:41 final size:41
Alignment explanation
Indices: 8668344--8668473 Score: 156
Period size: 41 Copynumber: 3.2 Consensus size: 41
8668334 GAAAATTGTA
*
8668344 TTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCG
1 TTGCGATTATGTATTATCGCGTTGCGAAAGTCAGTATCGCG
* * * *
8668385 TTGCGA--AAGTCAGTATCGCGTTGCGAAAGTAAGTATCTCG
1 TTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGTATCGCG
* * * *
8668425 TTGCGATTTTGTATTATCGCATTGCGATAGTCAGTATCGCA
1 TTGCGATTATGTATTATCGCGTTGCGAAAGTCAGTATCGCG
8668466 TTGCGATT
1 TTGCGATT
8668474 TTCCCAATTC
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
39 3 0.04
40 31 0.42
41 37 0.51
42 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (41 bp):
TTGCGATTATGTATTATCGCGTTGCGAAAGTCAGTATCGCG
Found at i:8668472 original size:20 final size:20
Alignment explanation
Indices: 8668358--8668471 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
8668348 GATTATGTAT
8668358 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
8668378 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
8668398 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* ** *
8668418 TATCTCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
* *
8668439 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
8668459 TATCGCATTGCGA
1 TATCGCGTTGCGA
8668472 TTTTCCCAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
19 3 0.04
20 63 0.79
21 12 0.15
22 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:8668490 original size:21 final size:21
Alignment explanation
Indices: 8668461--8668535 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
8668451 ATAGTCAGTA
8668461 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
8668482 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
*
8668502 TCGCATTGTGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
*
8668523 TCGCGTTGCGATT
1 TCGCATTGCGATT
8668536 ACTTATTCGC
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 15 0.36
21 27 0.64
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:8668491 original size:41 final size:41
Alignment explanation
Indices: 8668400--8668534 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
8668390 AAAGTCAGTA
* * * ** *
8668400 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
8668440 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* ** *
8668482 TCGCGTTGCGAT-TTACTTATTCGCATTGTGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
8668523 TCGCGTTGCGAT
1 TCGCGTTGCGAT
8668535 TACTTATTCG
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.04
41 73 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:8668535 original size:41 final size:40
Alignment explanation
Indices: 8668461--8668551 Score: 157
Period size: 41 Copynumber: 2.3 Consensus size: 40
8668451 ATAGTCAGTA
8668461 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGA-TTACTTAT
*
8668502 TCGCATTGTGATTTTCCCAATTCGCGTTGCGATTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTACTTAT
8668542 TCGCA-TGCGA
1 TCGCATTGCGA
8668552 ATTGGAAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 4 0.08
40 13 0.27
41 31 0.65
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.40
Consensus pattern (40 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTACTTAT
Found at i:8678901 original size:2 final size:2
Alignment explanation
Indices: 8678894--8678926 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8678884 TTTCATTCTT
8678894 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8678927 TTAATCAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8678995 original size:13 final size:12
Alignment explanation
Indices: 8678960--8678998 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
8678950 CTTTTTAAAT
8678960 AAATTTAAATAA
1 AAATTTAAATAA
8678972 AAATTTAAATAA
1 AAATTTAAATAA
*
8678984 AAATTATCAATAA
1 AAATT-TAAATAA
8678997 AA
1 AA
8678999 TAATTAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 17 0.68
13 8 0.32
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATTTAAATAA
Found at i:8686306 original size:2 final size:2
Alignment explanation
Indices: 8686299--8686351 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
8686289 AACCTTAAAT
8686299 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8686341 TA TA TA TA TA T
1 TA TA TA TA TA T
8686352 CAAGTAATTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8692259 original size:36 final size:35
Alignment explanation
Indices: 8692212--8692282 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 35
8692202 AGATTCTGCA
8692212 TTTACCTTGACATGGTTATAACTTTGAATCACATCC
1 TTTACCTTGACATGGTTATAAC-TTGAATCACATCC
*
8692248 TTTACCTTGACATGGTTATAACTTGAGTCACATCC
1 TTTACCTTGACATGGTTATAACTTGAATCACATCC
8692283 CCATGCTGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 12 0.35
36 22 0.65
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.38
Consensus pattern (35 bp):
TTTACCTTGACATGGTTATAACTTGAATCACATCC
Found at i:8694894 original size:48 final size:48
Alignment explanation
Indices: 8694823--8694918 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
8694813 CAGTCAGATG
* *
8694823 GTGACAAAGTGTGCAAGTTGAAGAAATTTCTTTATGATCTTAAAACAT
1 GTGACAAAGTGTGCAAGTCGAAGAAATTTCTCTATGATCTTAAAACAT
8694871 GTGACAAAGTGTGCAAGTCGAAGAAATTTCTCTATGATCTTAAAACAT
1 GTGACAAAGTGTGCAAGTCGAAGAAATTTCTCTATGATCTTAAAACAT
8694919 ATTGATAAGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (48 bp):
GTGACAAAGTGTGCAAGTCGAAGAAATTTCTCTATGATCTTAAAACAT
Found at i:8696453 original size:30 final size:31
Alignment explanation
Indices: 8696419--8696480 Score: 101
Period size: 30 Copynumber: 2.0 Consensus size: 31
8696409 ACTATCCACT
8696419 CCAGCACATGCTCCACTCT-CCA-CACCAGCA
1 CCAGCACATGCTCCACT-TACCAGCACCAGCA
8696449 CCAGCACATGCTCCACTTACCAGCACCAGCA
1 CCAGCACATGCTCCACTTACCAGCACCAGCA
8696480 C
1 C
8696481 ATGTGGCTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 1 0.03
30 20 0.67
31 9 0.30
ACGTcount: A:0.27, C:0.48, G:0.11, T:0.13
Consensus pattern (31 bp):
CCAGCACATGCTCCACTTACCAGCACCAGCA
Found at i:8697517 original size:44 final size:44
Alignment explanation
Indices: 8697454--8697543 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
8697444 TTTCGAAGAC
8697454 TTTTCGCACAAATGTTTTATTCAATAATTTTATCAGCTTTACAT
1 TTTTCGCACAAATGTTTTATTCAATAATTTTATCAGCTTTACAT
*
8697498 TTTTCGCACAAATGTTTTATTCAATAATTTTATTAGCTTTACAT
1 TTTTCGCACAAATGTTTTATTCAATAATTTTATCAGCTTTACAT
8697542 TT
1 TT
8697544 AATTATTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (44 bp):
TTTTCGCACAAATGTTTTATTCAATAATTTTATCAGCTTTACAT
Found at i:8700614 original size:22 final size:21
Alignment explanation
Indices: 8700562--8700621 Score: 104
Period size: 20 Copynumber: 2.9 Consensus size: 21
8700552 GATTTCTGGG
8700562 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAATCGGTACCCATT
8700583 CAA-GGGAATCGGTACCCATT
1 CAAGGGGAATCGGTACCCATT
8700603 CAATGGGGAATCGGTACCC
1 CAA-GGGGAATCGGTACCC
8700622 CCCTCAAACG
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
20 20 0.54
21 3 0.08
22 14 0.38
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.18
Consensus pattern (21 bp):
CAAGGGGAATCGGTACCCATT
Found at i:8702237 original size:103 final size:103
Alignment explanation
Indices: 8702058--8702268 Score: 377
Period size: 103 Copynumber: 2.0 Consensus size: 103
8702048 GTCTACGCGG
*
8702058 TCCTTCGGGGCATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCC
1 TCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCC
* *
8702123 TTGGCATATGTATATGATTCTTAAGGAATGATATGTGA
66 CTAGCATATGTATATGATTCTTAAGGAATGATATGTGA
8702161 TCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCC
1 TCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCC
* *
8702226 CTAGTATATGTATATGATTCTTAAGGAATGATATGTGG
66 CTAGCATATGTATATGATTCTTAAGGAATGATATGTGA
8702264 TCCTT
1 TCCTT
8702269 ATGGACATTA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.36
Consensus pattern (103 bp):
TCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCC
CTAGCATATGTATATGATTCTTAAGGAATGATATGTGA
Found at i:8702318 original size:23 final size:23
Alignment explanation
Indices: 8702285--8702352 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
8702275 ATTATTATAT
8702285 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * *
8702308 GGCACTCCGGTGTAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* * *
8702331 GACACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
8702353 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:8711062 original size:19 final size:19
Alignment explanation
Indices: 8711030--8711074 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
8711020 GAACGAAAAA
8711030 ATATATAAGTAATATACATAT
1 ATATATAAG-AATATA-ATAT
8711051 ATATATAA-AATATAATAT
1 ATATATAAGAATATAATAT
8711069 ACTATA
1 A-TATA
8711075 GTATAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.22
19 10 0.43
21 8 0.35
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (19 bp):
ATATATAAGAATATAATAT
Found at i:8711208 original size:2 final size:2
Alignment explanation
Indices: 8711203--8711236 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
8711193 TATATAAGTA
8711203 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A
8711237 AATAAATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8711241 original size:4 final size:4
Alignment explanation
Indices: 8711234--8711274 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
8711224 TATATATAGT
8711234 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
8711275 GAAAAAGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:8713080 original size:105 final size:105
Alignment explanation
Indices: 8712912--8713653 Score: 1071
Period size: 105 Copynumber: 7.3 Consensus size: 105
8712902 TGTTCCGAGG
**
8712912 CCAATATCCTTCGCCGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGC
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGC
* * *
8712977 AGTCCCTTCGTCGTGAAGTTGAACTCGCGTTGCCTGGAGT
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
*
8713017 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAATTGAGAAATGTTTGTTGACAACCAGC
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGC
* *
8713082 GGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCGGGAGT
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
8713122 CCAATATCCTTCGTTGTGAAGTTGAAATTGG----GAAATT--G---TCG---GTTGACAACCAG
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAT-GTTTGTTGACAACCAG
*
8713175 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTTTGGAGT
65 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
*
8713216 CCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGC
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGC
* * *
8713281 GGTCACTTCATCGTGAAGTTGAACTTGCGTTGTCGGGAGT
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
8713321 CCAATATCCTTCGTTGTGAAGTTGAAATTGG----GAAATT--G---TCG---GTTGACAACCAG
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAT-GTTTGTTGACAACCAG
8713374 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
65 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* *
8713415 CCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTAAAATTGAGAAATGTTTGTTGACAACCAGC
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGC
8713480 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
*
8713520 CCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAATT--G---TCG---GTTGACAACCAG
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAT-GTTTGTTGACAACCAG
* *
8713577 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCCGGGGT
65 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
8713618 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
8713654 GGTAAGACCT
Statistics
Matches: 582, Mismatches: 28, Indels: 61
0.87 0.04 0.09
Matches are distributed among these distances:
94 160 0.27
96 2 0.00
97 2 0.00
98 97 0.17
99 2 0.00
100 3 0.01
101 13 0.02
102 2 0.00
103 3 0.01
105 298 0.51
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (105 bp):
CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGC
GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
Found at i:8713189 original size:199 final size:199
Alignment explanation
Indices: 8712946--8713653 Score: 1195
Period size: 199 Copynumber: 3.5 Consensus size: 199
8712936 AAATTGGCTC
* ** * *
8712946 TGAAATTGAGAAA-TGTTTGTTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTCGCGTTGC
1 TGAAATTGGGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGC
*
8713010 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAATTGAGAAATGTTTGTTGAC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGAC
*
8713075 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCGGGAGTCCAATATCCTTCGTTGTG
131 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGTG
8713140 AAGT
196 AAGT
*
8713144 TGAAATTGGGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGC
* *
8713209 TTGGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGAC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGAC
* *
8713274 AACCAGCGGTCACTTCATCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGTG
131 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGTG
8713339 AAGT
196 AAGT
*
8713343 TGAAATTGGGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGC
* *
8713408 CTGGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTAAAATTGAGAAATGTTTGTTGAC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGAC
* *
8713473 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTCCGTTGTG
131 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGTG
8713538 AAGT
196 AAGT
8713542 TGAAATTGGCTCTGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
1 TGAAATTGG----GAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
*
8713607 TTGTCC-GGGGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
62 TTG-CCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
8713654 GGTAAGACCT
Statistics
Matches: 480, Mismatches: 24, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
198 12 0.03
199 374 0.78
203 93 0.19
204 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (199 bp):
TGAAATTGGGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGC
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGAC
AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGTG
AAGT
Found at i:8713473 original size:304 final size:296
Alignment explanation
Indices: 8712896--8713648 Score: 1048
Period size: 304 Copynumber: 2.5 Consensus size: 296
8712886 CCAATGTAAG
** * * **
8712896 TTGCGTTGTTCCGAGGCCAATATCCTTCGCCGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATG
1 TTGCGTTGTTTGGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATG
* * * *
8712961 TTTGTTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTCGCGTTGCCTGGAGTCCAATATCC
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCC
8713026 TTCGTTGTGAAGTTGAAATTGGCTTTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTC
131 TTCGTTGTGAAGTTGAAATTGG---TGAAATT-AG--ATG--TGTTGACAACCAGCGGTCCCTTC
* *
8713091 GTCGTGAAGTTGAACTTACGTTGTCGGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAA
188 GTCGTGAAGTTGAACTTACGTTGTCGGGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGAAA
8713156 ATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
253 ATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
8713200 TTGCGTTGTTTGGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATG
1 TTGCGTTGTTTGGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATG
* *
8713265 TTTGTTGACAACCAGCGGTCACTTCATCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCC
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCC
8713330 TTCGTTGTGAAGTTGAAATTGG-GAAATT-G-TCG-GTTGACAACCAGCGGTCCCTTCGTCGTGA
131 TTCGTTGTGAAGTTGAAATTGGTGAAATTAGAT-GTGTTGACAACCAGCGGTCCCTTCGTCGTGA
* *
8713391 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTAAAATT
195 AGTTGAACTTACGTTGTCGGGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGG----AAAATT
8713456 GAGAAAT-GTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
256 --G---TCG---GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
*
8713504 TTGCGTTGTCTGGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAATT--G---TC
1 TTGCGTTGTTTGGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAT-
8713564 G---GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCCGGG-GTCCAATAT
65 GTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT-CGGGAGTCCAATAT
8713625 CCTTCGTTGTGAAGTTGAAATTGG
129 CCTTCGTTGTGAAGTTGAAATTGG
8713649 CTCTGGGTAA
Statistics
Matches: 415, Mismatches: 19, Indels: 37
0.88 0.04 0.08
Matches are distributed among these distances:
293 81 0.20
295 1 0.00
296 1 0.00
297 82 0.20
298 5 0.01
299 2 0.00
300 7 0.02
301 1 0.00
302 2 0.00
304 233 0.56
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (296 bp):
TTGCGTTGTTTGGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATG
TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCC
TTCGTTGTGAAGTTGAAATTGGTGAAATTAGATGTGTTGACAACCAGCGGTCCCTTCGTCGTGAA
GTTGAACTTACGTTGTCGGGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGAAAATTGTCGG
TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
Found at i:8725134 original size:2 final size:2
Alignment explanation
Indices: 8725129--8725175 Score: 53
Period size: 2 Copynumber: 23.5 Consensus size: 2
8725119 TATATAAGTA
*
8725129 AT AT AT AT AT AT AT AT AT AT AT AT A- AA AT AT A- AT AT ACT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
8725170 AGT AT A
1 A-T AT A
8725176 AATAAATAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
1 2 0.05
2 34 0.85
3 4 0.10
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:8725303 original size:2 final size:2
Alignment explanation
Indices: 8725298--8725348 Score: 54
Period size: 2 Copynumber: 25.5 Consensus size: 2
8725288 TATACAAGTA
8725298 AT AT AT AT AT AT AT AT AT AT A- AT AT A- AT AT A- AT AT ACT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
8725338 AGT AT AGT AT A
1 A-T AT A-T AT A
8725349 AATAAATAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
1 3 0.07
2 34 0.79
3 6 0.14
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (2 bp):
AT
Found at i:8725312 original size:21 final size:21
Alignment explanation
Indices: 8725286--8725368 Score: 63
Period size: 21 Copynumber: 4.2 Consensus size: 21
8725276 GAACGAAAAA
8725286 AATATACA-AGTAATAT-ATAT
1 AATATACATA-TAATATAATAT
*
8725306 ATATATATATATAATATAATAT
1 A-ATATACATATAATATAATAT
* *
8725328 AATATAC-TATAGTATAGTAT
1 AATATACATATAATATAATAT
*
8725348 AA-ATAAATA-AATA-AATA-
1 AATATACATATAATATAATAT
8725365 AATA
1 AATA
8725369 AATAAAGAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
17 2 0.04
18 4 0.08
19 6 0.12
20 16 0.31
21 17 0.33
22 6 0.12
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (21 bp):
AATATACATATAATATAATAT
Found at i:8725355 original size:4 final size:4
Alignment explanation
Indices: 8725346--8725374 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
8725336 ATAGTATAGT
8725346 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
8725375 GAAAGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:8727209 original size:105 final size:105
Alignment explanation
Indices: 8727027--8727768 Score: 1073
Period size: 105 Copynumber: 7.3 Consensus size: 105
8727017 TGTTCCGAGG
** *
8727027 CCAATATCCTTCGCCGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAAC
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGC
* *
8727092 AGTCCCTTCGTCGTGAAGTTGAACTCT-CGTTTTCTGGAGT
66 GGTCCCTTCGTCGTGAAGTTGAACT-TGCGTTGTCTGGAGT
*
8727132 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAATTGAGAAATGTTTGTTGACAACCAGC
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGC
* *
8727197 GGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCGGGAGT
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
8727237 CCAATATCCTTCGTTGTGAAGTTGAAATTGG----GAAATT--G---TCG---GTTGACAACCAG
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAT-GTTTGTTGACAACCAG
8727290 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
65 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
8727331 CCAATATCCTCCGTTATGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGT
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGC
*
8727396 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGT
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
8727436 CCAATATCCTTCGTTGTGAAGTTGAAATTGG----GAAATT--G---TCG---GTTGACAACCAG
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAT-GTTTGTTGACAACCAG
8727489 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
65 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
*
8727530 CCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGC
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGC
8727595 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
*
8727635 CCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAATT-----ATCG---GTTGACAACCAG
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAT-GTTTGTTGACAACCAG
* *
8727692 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCCGGGGT
65 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
8727733 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
8727769 GGTAAGACCT
Statistics
Matches: 587, Mismatches: 22, Indels: 63
0.87 0.03 0.09
Matches are distributed among these distances:
94 161 0.27
96 2 0.00
97 2 0.00
98 98 0.17
99 2 0.00
100 4 0.01
101 13 0.02
102 2 0.00
103 2 0.00
104 1 0.00
105 300 0.51
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (105 bp):
CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGC
GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
Found at i:8727262 original size:43 final size:43
Alignment explanation
Indices: 8727201--8727356 Score: 123
Period size: 43 Copynumber: 3.4 Consensus size: 43
8727191 ACCAGCGGTC
8727201 CCTTCGTCGTGAAGTTGAACTTGCATTGTCGGGAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAACTTGCATTGTCGGGAGTCCAATAT
* * * ** ***
8727244 CCTTCGTTGTGAAGTTGAAATTGGGAAATTGTCGGTTGACAACCAGCGGT
1 CCTTCGTCGTGAAGTTGAACTT--G-CATTGTCGG--GA-GTCCA-ATAT
* *
8727294 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 -CCTTCGTCGTGAAGTTGAACTTGCATTGTCGGGAGTCCAATAT
* **
8727338 CCTCCGTTATGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAA
8727357 ATTGGCTCTG
Statistics
Matches: 84, Mismatches: 21, Indels: 16
0.69 0.17 0.13
Matches are distributed among these distances:
43 36 0.43
44 1 0.01
45 4 0.05
46 10 0.12
48 8 0.10
49 4 0.05
50 1 0.01
51 20 0.24
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (43 bp):
CCTTCGTCGTGAAGTTGAACTTGCATTGTCGGGAGTCCAATAT
Found at i:8727306 original size:199 final size:199
Alignment explanation
Indices: 8727061--8727768 Score: 1204
Period size: 199 Copynumber: 3.5 Consensus size: 199
8727051 AAATTGGCTC
* ** * * *
8727061 TGAAATTGAGAAA-TGTTTGTTGACAACCAACAGTCCCTTCGTCGTGAAGTTGAACTCT-CGTTT
1 TGAAATTGGGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT-TGCGTTG
* *
8727124 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAATTGAGAAATGTTTGTTGA
65 TCTGGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGA
*
8727189 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCGGGAGTCCAATATCCTTCGTTGT
130 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGT
8727254 GAAGT
195 GAAGT
8727259 TGAAATTGGGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
8727324 CTGGAGTCCAATATCCTCCGTTATGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGAC
66 CTGGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGAC
*
8727389 AACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGTG
131 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGTG
8727454 AAGT
196 AAGT
8727458 TGAAATTGGGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
8727523 CTGGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGAC
66 CTGGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGAC
* *
8727588 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTCCGTTGTG
131 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGTG
8727653 AAGT
196 AAGT
*
8727657 TGAAATTGGCTCTGAAATTATCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
1 TGAAATTGG----GAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
* * *
8727722 TTGTCCGGGGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
62 TTGTCTGGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTG
8727769 GGTAAGACCT
Statistics
Matches: 485, Mismatches: 19, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
198 13 0.03
199 377 0.78
203 95 0.20
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (199 bp):
TGAAATTGGGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGAC
AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGTG
AAGT
Found at i:8727307 original size:51 final size:50
Alignment explanation
Indices: 8727165--8727313 Score: 134
Period size: 43 Copynumber: 3.1 Consensus size: 50
8727155 GAAATTGGCT
**
8727165 TTGAAATTGAGAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
1 TTGAAATTG-GAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
* * ** *** *
8727215 TTGAACTT-G-CATTGTCGG--GA-GTCCA-ATAT-CCTTCGTTGTGAAG
1 TTGAAATTGGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
8727258 TTGAAATTGGGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
1 TTGAAATT-GGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
8727309 TTGAA
1 TTGAA
8727314 CTTGCGTTGT
Statistics
Matches: 72, Mismatches: 18, Indels: 17
0.67 0.17 0.16
Matches are distributed among these distances:
43 20 0.28
44 1 0.01
45 4 0.06
46 10 0.14
47 1 0.01
48 7 0.10
49 3 0.04
50 8 0.11
51 18 0.25
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (50 bp):
TTGAAATTGGAAATTGTCGGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
Done.