Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002735.1 Hibiscus syriacus cultivar Beakdansim tig00005639_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: 121610
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:7223 original size:6 final size:6
Alignment explanation
Indices: 7212--7244 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
7202 AAGTGAATGG
7212 TCTTCC TCTTCC TCTTCC TCTTCC TCTT-C TCTT
1 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTT
7245 TTACCATCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (6 bp):
TCTTCC
Found at i:9945 original size:39 final size:39
Alignment explanation
Indices: 9901--10002 Score: 177
Period size: 39 Copynumber: 2.6 Consensus size: 39
9891 TTAACGTTAG
*
9901 TACTAAAATGAAATAAAAACTAAAGATTTTAACAGCAGA
1 TACTAAAATGAAATAAAAACTAAAGATTTTAACAACAGA
*
9940 TACTAAAATGAAATAAAAACTAAAGATTTTAACAACATA
1 TACTAAAATGAAATAAAAACTAAAGATTTTAACAACAGA
*
9979 TACTAAAATGAAACAAAAACTAAA
1 TACTAAAATGAAATAAAAACTAAA
10003 TTTTAGATAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 60 1.00
ACGTcount: A:0.60, C:0.11, G:0.07, T:0.23
Consensus pattern (39 bp):
TACTAAAATGAAATAAAAACTAAAGATTTTAACAACAGA
Found at i:10000 original size:17 final size:17
Alignment explanation
Indices: 9941--10002 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
9931 AACAGCAGAT
*
9941 ACTAAAATGAAATAAAA
1 ACTAAAATGAAACAAAA
**
9958 ACTAAAGATTTTAACAACATA
1 ACTAAA-A-TGAAACAA-A-A
9979 TACTAAAATGAAACAAAA
1 -ACTAAAATGAAACAAAA
9997 ACTAAA
1 ACTAAA
10003 TTTTAGATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
17 12 0.34
18 2 0.06
19 6 0.17
20 7 0.20
21 2 0.06
22 6 0.17
ACGTcount: A:0.63, C:0.11, G:0.05, T:0.21
Consensus pattern (17 bp):
ACTAAAATGAAACAAAA
Found at i:14098 original size:51 final size:51
Alignment explanation
Indices: 14022--14136 Score: 185
Period size: 51 Copynumber: 2.3 Consensus size: 51
14012 ACCTGAAAAA
* *
14022 TATATATAATTTTATCTTATATATTTAAGGATAATTACAACATTATCCCTC
1 TATATATAATTTTACCCTATATATTTAAGGATAATTACAACATTATCCCTC
* * *
14073 TATATATAATTTTACCCTATATATTTAGGGATAATTACAATATTATCTCTC
1 TATATATAATTTTACCCTATATATTTAAGGATAATTACAACATTATCCCTC
14124 TATATATAATTTT
1 TATATATAATTTT
14137 TTTCCAATTA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.37, C:0.12, G:0.04, T:0.47
Consensus pattern (51 bp):
TATATATAATTTTACCCTATATATTTAAGGATAATTACAACATTATCCCTC
Found at i:17774 original size:2 final size:2
Alignment explanation
Indices: 17767--17812 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
17757 TAACGACATC
* * * *
17767 AT AT AT AT AT AT AT AT AT AT GT AT GT AT GT AT AT AT AT AT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17809 AT AT
1 AT AT
17813 GTATGAGAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (2 bp):
AT
Found at i:17799 original size:22 final size:22
Alignment explanation
Indices: 17774--17817 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
17764 ATCATATATA
*
17774 TATATATATATATGTATGTATG
1 TATATATATATATATATGTATG
*
17796 TATATATATATTTATATGTATG
1 TATATATATATATATATGTATG
17818 AGAATATTTA
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:0.36, C:0.00, G:0.11, T:0.52
Consensus pattern (22 bp):
TATATATATATATATATGTATG
Found at i:20624 original size:204 final size:207
Alignment explanation
Indices: 20254--20670 Score: 662
Period size: 204 Copynumber: 2.0 Consensus size: 207
20244 AGCAAAGGAG
20254 TTCAACAGAGGAAAATAAAGCACTTCAACGTACTTTCTGCAGCATTATCTATGGGGTTGGGGGGG
1 TTCAACAGAGGAAAATAAAGCACTTCAACGTACTTTCTGCAGCATTATCTA----G-TGGGGGGG
* * * * * *
20319 GTTGCAGGTTTCTTTGTTTTGTTTTTTATTTTATTTTATGTAGTTTCTTTTGGTTGAGGCTTTGA
61 ATTACAGGTTTCTTTGTTTTGATTTTTATTTGATTTTATGTAGTTTCTTTTGGTCGAGGATTTGA
20384 TAACATTGCTTCTAATTGTTGCTAAACTTGTTTGATGTTCCTAAATATCTGCTTAAATTGTTGCT
126 TAACATTGCTTCTAATTGTTGCTAAACTTGTTTGATGTTCCTAAATATCTGCTTAAATTGTTGCT
20449 AAATCATACCATTGTTA
191 AAATCATACCATTGTTA
* * *
20466 TTCAAGAGAGGAAAAATAAAGCACTTGAAGGTACTTTCTGCAGCATTATCTA-T-GGGGGGATTA
1 TTCAACAGAGG-AAAATAAAGCACTTCAACGTACTTTCTGCAGCATTATCTAGTGGGGGGGATTA
20529 CAGGTTTCTTTG-TTTGATTTTT-TTTGATTTTATGTAGTTTCTTTTGGTCGAGGATTTGATAAC
65 CAGGTTTCTTTGTTTTGATTTTTATTTGATTTTATGTAGTTTCTTTTGGTCGAGGATTTGATAAC
*
20592 ATTGCTTCTAATTGTTGCTGAACTTGTTTGATGTTCCTAAATATCTGCTTAAATTGTTGCTAAAT
130 ATTGCTTCTAATTGTTGCTAAACTTGTTTGATGTTCCTAAATATCTGCTTAAATTGTTGCTAAAT
20657 CATACCATTGTTA
195 CATACCATTGTTA
20670 T
1 T
20671 GAGGAATGTT
Statistics
Matches: 194, Mismatches: 10, Indels: 10
0.91 0.05 0.05
Matches are distributed among these distances:
204 116 0.60
205 9 0.05
206 20 0.10
207 1 0.01
212 10 0.05
213 38 0.20
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (207 bp):
TTCAACAGAGGAAAATAAAGCACTTCAACGTACTTTCTGCAGCATTATCTAGTGGGGGGGATTAC
AGGTTTCTTTGTTTTGATTTTTATTTGATTTTATGTAGTTTCTTTTGGTCGAGGATTTGATAACA
TTGCTTCTAATTGTTGCTAAACTTGTTTGATGTTCCTAAATATCTGCTTAAATTGTTGCTAAATC
ATACCATTGTTA
Found at i:24713 original size:51 final size:52
Alignment explanation
Indices: 24611--24715 Score: 176
Period size: 51 Copynumber: 2.0 Consensus size: 52
24601 TTGATCAAAC
* *
24611 ACGGAATACGTCGAAGAGAAACTGAGCAGGACATTGGGACCTGTTAGAGTGA
1 ACGGAATACATCGAAGAGAAACTGAGCAGGAAATTGGGACCTGTTAGAGTGA
*
24663 ACGGAATACATCGAAGAGAAA-TGAGTAGGAAATTGGGACCTGTTAGAGTGA
1 ACGGAATACATCGAAGAGAAACTGAGCAGGAAATTGGGACCTGTTAGAGTGA
24714 AC
1 AC
24716 AGGCTCGTCC
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
51 30 0.60
52 20 0.40
ACGTcount: A:0.37, C:0.13, G:0.31, T:0.18
Consensus pattern (52 bp):
ACGGAATACATCGAAGAGAAACTGAGCAGGAAATTGGGACCTGTTAGAGTGA
Found at i:31186 original size:18 final size:18
Alignment explanation
Indices: 31159--31218 Score: 69
Period size: 18 Copynumber: 3.7 Consensus size: 18
31149 TTTATCAACC
31159 AAAT-CATTCAACTATTT
1 AAATACATTCAACTATTT
*
31176 AAGTACATTC-A--A-TT
1 AAATACATTCAACTATTT
31190 AAAT-CATTCAACTATTT
1 AAATACATTCAACTATTT
31207 AAATACATTCAA
1 AAATACATTCAA
31219 TCAAGTCACT
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
13 5 0.14
14 6 0.17
15 1 0.03
16 1 0.03
17 10 0.29
18 12 0.34
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.37
Consensus pattern (18 bp):
AAATACATTCAACTATTT
Found at i:31194 original size:31 final size:31
Alignment explanation
Indices: 31159--31219 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
31149 TTTATCAACC
*
31159 AAATCATTCAACTATTTAAGTACATTCAATT
1 AAATCATTCAACTATTTAAATACATTCAATT
31190 AAATCATTCAACTATTTAAATACATTCAAT
1 AAATCATTCAACTATTTAAATACATTCAAT
31220 CAAGTCACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.38
Consensus pattern (31 bp):
AAATCATTCAACTATTTAAATACATTCAATT
Found at i:31421 original size:35 final size:35
Alignment explanation
Indices: 31371--31442 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
31361 TTTAAACCTC
31371 AAATCAAAAAAACTAATTTTAATATTATTAAGCTT
1 AAATCAAAAAAACTAATTTTAATATTATTAAGCTT
*
31406 AAATCAAAAATACTAATTTTAATATTATTAAGCTT
1 AAATCAAAAAAACTAATTTTAATATTATTAAGCTT
31441 AA
1 AA
31443 CTCGATTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (35 bp):
AAATCAAAAAAACTAATTTTAATATTATTAAGCTT
Found at i:31977 original size:19 final size:19
Alignment explanation
Indices: 31953--31992 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
31943 TAACACTCGA
31953 TCTCGGGCACCGACCCGGT
1 TCTCGGGCACCGACCCGGT
31972 TCTCGGGCACCGACCCGGT
1 TCTCGGGCACCGACCCGGT
31991 TC
1 TC
31993 CCAAGCCCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.10, C:0.42, G:0.30, T:0.17
Consensus pattern (19 bp):
TCTCGGGCACCGACCCGGT
Found at i:35883 original size:16 final size:15
Alignment explanation
Indices: 35847--35884 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
35837 AAAAATATAT
35847 TTTAA-ATATATGAA
1 TTTAAGATATATGAA
*
35861 TTTAAGATATATGTA
1 TTTAAGATATATGAA
35876 TGTTAAGAT
1 T-TTAAGAT
35885 GTGAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.24
15 9 0.43
16 7 0.33
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (15 bp):
TTTAAGATATATGAA
Found at i:37204 original size:18 final size:16
Alignment explanation
Indices: 37177--37237 Score: 56
Period size: 18 Copynumber: 3.8 Consensus size: 16
37167 TTTATCAATC
37177 AAATCATTCAACTATTT
1 AAATCATTCAA-TATTT
37194 AAATACATTC-A-A-TT
1 AAAT-CATTCAATATTT
37208 AAATCATTCAATTATTT
1 AAATCATTCAA-TATTT
*
37225 AGATACATTCAAT
1 AAAT-CATTCAAT
37238 CAAACCACTT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 5 0.14
14 7 0.19
15 1 0.03
16 1 0.03
17 11 0.30
18 12 0.32
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (16 bp):
AAATCATTCAATATTT
Found at i:37212 original size:31 final size:31
Alignment explanation
Indices: 37171--37241 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
37161 TAAAATTTTA
37171 TCAATCAAATCATTCAACTATTTAAATACAT
1 TCAATCAAATCATTCAACTATTTAAATACAT
* * *
37202 TCAATTAAATCATTCAATTATTTAGATACAT
1 TCAATCAAATCATTCAACTATTTAAATACAT
37233 TCAATCAAA
1 TCAATCAAA
37242 CCACTTGTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.37
Consensus pattern (31 bp):
TCAATCAAATCATTCAACTATTTAAATACAT
Found at i:37217 original size:13 final size:14
Alignment explanation
Indices: 37192--37221 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
37182 ATTCAACTAT
37192 TTAAATACATTCAA
1 TTAAATACATTCAA
37206 TTAAAT-CATTCAA
1 TTAAATACATTCAA
37219 TTA
1 TTA
37222 TTTAGATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (14 bp):
TTAAATACATTCAA
Found at i:43559 original size:19 final size:19
Alignment explanation
Indices: 43535--43571 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
43525 TGGTTGGTAC
*
43535 AAAATAAATATATTAAATT
1 AAAATAAATAAATTAAATT
*
43554 AAAATAATTAAATTAAAT
1 AAAATAAATAAATTAAAT
43572 CATCAAATTT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATAAATAAATTAAATT
Found at i:43563 original size:14 final size:15
Alignment explanation
Indices: 43540--43570 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
43530 GGTACAAAAT
43540 AAATATATTAAATTA
1 AAATATATTAAATTA
43555 AAATA-ATTAAATTA
1 AAATATATTAAATTA
43569 AA
1 AA
43571 TCATCAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATATATTAAATTA
Found at i:44876 original size:34 final size:32
Alignment explanation
Indices: 44814--44883 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
44804 CCTTACAAAC
* * *
44814 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACATT
*
44846 TCCCTAGCTTTTACACGGGATAAGCTAGAACATT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACATT
44880 TCCC
1 TCCC
44884 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 20 0.62
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACATT
Found at i:45262 original size:20 final size:20
Alignment explanation
Indices: 45237--45309 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
45227 GCAGCCTTCG
45237 TGCATGGATGCACAACAGGA
1 TGCATGGATGCACAACAGGA
45257 TGCATGGATGCACAACAGGA
1 TGCATGGATGCACAACAGGA
* *
45277 TGCATTGATGCACATCAGGA
1 TGCATGGATGCACAACAGGA
* *
45297 TGCCTCGATGCAC
1 TGCATGGATGCAC
45310 TAAGTGCATT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.19
Consensus pattern (20 bp):
TGCATGGATGCACAACAGGA
Found at i:45611 original size:21 final size:21
Alignment explanation
Indices: 45587--45626 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45577 ATGTTTAATG
45587 AAAAAGATACCAATTGTTAAC
1 AAAAAGATACCAATTGTTAAC
* *
45608 AAAATGATATCAATTGTTA
1 AAAAAGATACCAATTGTTA
45627 CCAATTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (21 bp):
AAAAAGATACCAATTGTTAAC
Found at i:46675 original size:19 final size:20
Alignment explanation
Indices: 46634--46681 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
46624 TCTAAATCCT
*
46634 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
*
46654 TTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
46673 TTTTCAAAA
1 TTTTCAAAA
46682 GAAAATCGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.29, C:0.10, G:0.06, T:0.54
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:49207 original size:31 final size:31
Alignment explanation
Indices: 49171--49229 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
49161 AACTTAAAAG
49171 AGTTTTACAATA-TTGAAATTTAAATAATTTT
1 AGTTTTACAATACTT-AAATTTAAATAATTTT
*
49202 AGTTTTATAATACTTAAATTTAAATAAT
1 AGTTTTACAATACTTAAATTTAAATAAT
49230 CAATACAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (31 bp):
AGTTTTACAATACTTAAATTTAAATAATTTT
Found at i:49279 original size:22 final size:22
Alignment explanation
Indices: 49254--49502 Score: 320
Period size: 22 Copynumber: 11.3 Consensus size: 22
49244 ATAATAAATT
*
49254 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
*
49276 TTTTAAAATAAATCAATCAATA
1 TTTTAAAATAAATCAATCCATA
*** *
49298 TTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
*
49320 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
*
49342 TTTTAAAATAAATCAATCAATA
1 TTTTAAAATAAATCAATCCATA
** *
49364 TTTTAAAATAAAAT-TTTTCATA
1 TTTTAAAAT-AAATCAATCCATA
49386 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
49408 TTTTAAAATAAATTAATCCATA
1 TTTTAAAATAAATCAATCCATA
49430 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*** *
49452 TTTTAAAATAAATTTTTCCATG
1 TTTTAAAATAAATCAATCCATA
* *
49474 TTTTAAAATAAATTAATCTATA
1 TTTTAAAATAAATCAATCCATA
49496 TTTTAAA
1 TTTTAAA
49503 TAATTTTAAT
Statistics
Matches: 196, Mismatches: 29, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
21 4 0.02
22 188 0.96
23 4 0.02
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:49332 original size:66 final size:66
Alignment explanation
Indices: 49254--49509 Score: 363
Period size: 66 Copynumber: 3.9 Consensus size: 66
49244 ATAATAAATT
*
49254 TTTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCAATATTTTAAAATAAATTTTTTCAT
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAATATTTTAAAATAAATTTTTTCAT
49319 A
66 A
* *
49320 TTTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCAATATTTTAAAATAAAATTTTTCAT
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAATATTTTAAAATAAATTTTTTCAT
49385 A
66 A
* * *** *
49386 TTTTAAAATAAATCAATCCATATTTTAAAATAAATTAATCCATATTTTAAAATAAATCAATCCAT
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAATATTTTAAAATAAATTTTTTCAT
49451 A
66 A
*** * * *
49452 TTTTAAAATAAATTTTTCCATGTTTTAAAATAAATTAATCTATATTTT-AAAT-AATTTT
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAATATTTTAAAATAAATTTT
49510 AATTTCTTTG
Statistics
Matches: 173, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
64 3 0.02
65 4 0.02
66 166 0.96
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (66 bp):
TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAATATTTTAAAATAAATTTTTTCAT
A
Found at i:49871 original size:3 final size:3
Alignment explanation
Indices: 49865--49897 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
49855 ATTTTATTAT
49865 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
49898 AAGAAAAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:55092 original size:58 final size:60
Alignment explanation
Indices: 54994--55125 Score: 135
Period size: 58 Copynumber: 2.2 Consensus size: 60
54984 AATTAGAAGA
** * *** * *
54994 TTTT-AAAGTTTAGGGATTAATTTTGAATAAGGTTTATAATTTGAGGATAAAATT-AATT
1 TTTTAAAAGTTTAAAGACTAATTTTGAATAAAAATTATAATTTAAGGATAAAATTGAAAT
* * * *
55052 TTTTTAAA-TTTAAAGACTAATTTTGAATAAAAATTGTAATTTAAGTATATAATTGAAAT
1 TTTTAAAAGTTTAAAGACTAATTTTGAATAAAAATTATAATTTAAGGATAAAATTGAAAT
55111 TTTTAAAAGTTTAAA
1 TTTTAAAAGTTTAAA
55126 AATCAAAATA
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
58 40 0.68
59 13 0.22
60 6 0.10
ACGTcount: A:0.42, C:0.01, G:0.12, T:0.45
Consensus pattern (60 bp):
TTTTAAAAGTTTAAAGACTAATTTTGAATAAAAATTATAATTTAAGGATAAAATTGAAAT
Found at i:55626 original size:16 final size:18
Alignment explanation
Indices: 55607--55639 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
55597 TATCAACACT
55607 ATATTTT-TT-TATTTTC
1 ATATTTTGTTATATTTTC
55623 ATATTTTGTTATATTTT
1 ATATTTTGTTATATTTT
55640 TTAACTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (18 bp):
ATATTTTGTTATATTTTC
Found at i:62305 original size:38 final size:35
Alignment explanation
Indices: 62257--62336 Score: 97
Period size: 38 Copynumber: 2.2 Consensus size: 35
62247 ATATTTAAAG
* *
62257 TTTAACTTTTGTTTTATTTTAGTATTCGCCATTAAAAA
1 TTTAA-TTTTGTTTCATTTTAATA-TC-CCATTAAAAA
*
62295 TTCTAATTTTGTTTCATTTTAATATCCCATTTAAAA
1 TT-TAATTTTGTTTCATTTTAATATCCCATTAAAAA
62331 TTTAAT
1 TTTAAT
62337 ATTAAGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
35 4 0.11
36 11 0.29
37 2 0.05
38 18 0.47
39 3 0.08
ACGTcount: A:0.30, C:0.11, G:0.05, T:0.54
Consensus pattern (35 bp):
TTTAATTTTGTTTCATTTTAATATCCCATTAAAAA
Found at i:65312 original size:14 final size:14
Alignment explanation
Indices: 65293--65321 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
65283 GAATATACTT
65293 ATACAAGAGAGAAG
1 ATACAAGAGAGAAG
65307 ATACAAGAGAGAAG
1 ATACAAGAGAGAAG
65321 A
1 A
65322 ATAGGACAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.28, T:0.07
Consensus pattern (14 bp):
ATACAAGAGAGAAG
Found at i:72157 original size:21 final size:20
Alignment explanation
Indices: 72071--72227 Score: 93
Period size: 20 Copynumber: 7.8 Consensus size: 20
72061 AAATGACCAA
**
72071 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
72090 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
72110 CATAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
72130 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
72151 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
72171 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
72191 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
72212 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
72228 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 9
0.73 0.20 0.06
Matches are distributed among these distances:
19 16 0.15
20 56 0.54
21 32 0.31
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:72180 original size:41 final size:41
Alignment explanation
Indices: 72071--72227 Score: 126
Period size: 41 Copynumber: 3.9 Consensus size: 41
72061 AAATGACCAA
* **
72071 CAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGA-TCCC
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
* ** * *
72110 CATAATCGCAAATC-AGTTTCCAAAATCGCAACGCGATTCTT-
1 CAAAATCGCAACGCGAATAT-CAAAATCGCAACGCGATT-TTC
* * * **
72151 GAAAATCGCAATGCG-ATAGTCAAATTCGCATTGCGATTTTC
1 CAAAATCGCAACGCGAATA-TCAAAATCGCAACGCGATTTTC
*
72192 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGA
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGA
72228 ACACATAAAT
Statistics
Matches: 87, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 17 0.20
41 53 0.61
42 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (41 bp):
CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
Found at i:72237 original size:20 final size:20
Alignment explanation
Indices: 72194--72387 Score: 187
Period size: 20 Copynumber: 9.7 Consensus size: 20
72184 CGATTTTCCA
* ** *
72194 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
72214 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
72234 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
72254 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
72274 AAATCGCAACGCGTA-CGGGT
1 AAATCGCAACGCGTATC-CGT
*
72294 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
72314 ATATCGCAACGCGTATCAGT
1 AAATCGCAACGCGTATCCGT
* * *
72334 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
*
72354 AAAATCGCAACGTGTATCCGT
1 -AAATCGCAACGCGTATCCGT
72375 AAATCGCAACGCG
1 AAATCGCAACGCG
72388 ATATTTAAAG
Statistics
Matches: 141, Mismatches: 26, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.02
20 119 0.84
21 18 0.13
22 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:72279 original size:60 final size:60
Alignment explanation
Indices: 72194--72387 Score: 237
Period size: 60 Copynumber: 3.2 Consensus size: 60
72184 CGATTTTCCA
* *
72194 AAATCGCAACGCGAAT-ATGAAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCA-GTAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
* * * ***
72254 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTACGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCAGTAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
* ** * * *
72314 ATATCGCAACGCGTATCAGTAAATCGCAACGATAATACATAAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCAGTAAATCGCAACGCGAACACAT-AAATCGCAATGCGTATCCGT
72375 AAATCGCAACGCG
1 AAATCGCAACGCG
72388 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
60 81 0.73
61 30 0.27
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCAGTAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
Found at i:72809 original size:33 final size:33
Alignment explanation
Indices: 72770--72840 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
72760 TTCACTTAGA
72770 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
72803 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
72836 TTTCA
1 TTTCA
72841 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:72977 original size:19 final size:20
Alignment explanation
Indices: 72920--72994 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
72910 TGCAGAAGAG
* *
72920 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGACAA
**
72941 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGACAA
*
72961 TCGCAACGCGA-AATGACAA
1 TCGCAACGAGAGAATGACAA
72980 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
72995 CGCAACGCGA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
19 16 0.36
20 18 0.40
21 11 0.24
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAGAATGACAA
Found at i:72997 original size:14 final size:14
Alignment explanation
Indices: 72978--73034 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
72968 GCGAAATGAC
72978 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
72992 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
73011 AATCGCAACGAGAG
1 AATCGCAACGAGAG
73025 AATCGCAACG
1 AATCGCAACG
73035 CGAAACCAAA
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:73003 original size:33 final size:33
Alignment explanation
Indices: 72932--73050 Score: 157
Period size: 33 Copynumber: 3.4 Consensus size: 33
72922 GCAACGAGAT
72932 AAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGCG
1 AAATGAAAATCGCAACGAGAG-A--A---TCGCAACGCG
*
72971 AAATGACAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
73004 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
73037 AAACCAAAATCGCA
1 AAATGAAAATCGCA
73051 TTGCGATTTT
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
33 54 0.71
36 1 0.01
38 1 0.01
39 20 0.26
ACGTcount: A:0.45, C:0.23, G:0.23, T:0.10
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:73016 original size:19 final size:19
Alignment explanation
Indices: 72932--73020 Score: 80
Period size: 19 Copynumber: 4.9 Consensus size: 19
72922 GCAACGAGAT
*
72932 AAATGAAAATCGCAACGAG
1 AAATGAAAATCGCAACGCG
***
72951 AGAATGACTGTCGCAACGCG
1 A-AATGAAAATCGCAACGCG
*
72971 AAATGACAATCGCAA--CG
1 AAATGAAAATCGCAACGCG
*
72988 --A-GAGAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
73004 AAATGAAAATCGCAACG
1 AAATGAAAATCGCAACG
73021 AGAGAATCGC
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 25 0.45
20 15 0.27
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.11
Consensus pattern (19 bp):
AAATGAAAATCGCAACGCG
Found at i:73085 original size:19 final size:19
Alignment explanation
Indices: 73046--73128 Score: 97
Period size: 19 Copynumber: 4.7 Consensus size: 19
73036 GAAACCAAAA
*
73046 TCGCATTGCGATTTT-ATT
1 TCGCGTTGCGATTTTCATT
73064 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
73083 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
73097 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
73116 TCGCGTTGCGATT
1 TCGCGTTGCGATT
73129 CTCTCGTTGC
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
14 10 0.18
16 2 0.04
17 3 0.05
18 14 0.25
19 26 0.47
ACGTcount: A:0.11, C:0.22, G:0.23, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:73105 original size:14 final size:14
Alignment explanation
Indices: 73086--73142 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
73076 TTTCATTTCG
73086 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
73100 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
73119 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
73133 CGTTGCGATT
1 CGTTGCGATT
73143 TTCATTTCAA
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:0.09, C:0.25, G:0.25, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:73107 original size:33 final size:33
Alignment explanation
Indices: 73067--73150 Score: 159
Period size: 33 Copynumber: 2.5 Consensus size: 33
73057 TTTTATTTCG
73067 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
*
73100 CGTTGCGATTGTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
73133 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
73151 AACCAAAAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:75007 original size:93 final size:93
Alignment explanation
Indices: 74848--75316 Score: 913
Period size: 93 Copynumber: 5.1 Consensus size: 93
74838 TAGATTGCTT
*
74848 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
74913 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
74941 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
75006 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
75034 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
75099 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
75127 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
75192 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
75220 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTTTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
75285 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
75312 AGTAA
1 AGTAA
75317 TGCAATCCAT
Statistics
Matches: 374, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 6 0.02
93 368 0.98
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:75404 original size:19 final size:19
Alignment explanation
Indices: 75364--75492 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
75354 TAGTTTACCT
**
75364 TCGCAACGCGAAAGTTAAAA
1 TCGCAACGCGAAA-CCAAAA
75384 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
75403 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
75422 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
75436 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
75455 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
75469 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
75488 TCGCA
1 TCGCA
75493 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.45, C:0.28, G:0.19, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:75443 original size:33 final size:32
Alignment explanation
Indices: 75400--75492 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
75390 CGCGAAACCA
**
75400 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
75432 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
75465 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
75493 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:75490 original size:52 final size:51
Alignment explanation
Indices: 75364--75492 Score: 136
Period size: 52 Copynumber: 2.5 Consensus size: 51
75354 TAGTTTACCT
**
75364 TCGCAACGCGAAAGTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACGCGAAA-CCAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* ** * *
75416 T-GAAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACGCGAAAC--CAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
75469 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
75493 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
51 7 0.12
52 42 0.70
53 3 0.05
54 8 0.13
ACGTcount: A:0.45, C:0.28, G:0.19, T:0.09
Consensus pattern (51 bp):
TCGCAACGCGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:75510 original size:19 final size:19
Alignment explanation
Indices: 75488--75622 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
75478 GAAACCAAAA
*
75488 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
75507 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
75523 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
75540 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
75556 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
75573 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
75592 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
75612 TCGTGTTGCGA
1 TCGCGTTGCGA
75623 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:75529 original size:14 final size:14
Alignment explanation
Indices: 75510--75566 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
75500 TTTCATTTCG
75510 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
75524 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
75541 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
75557 CGTTGCGATT
1 CGTTGCGATT
75567 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:75535 original size:33 final size:33
Alignment explanation
Indices: 75493--75585 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
75483 CAAAATCGCA
*
75493 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
75526 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
75559 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
75586 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:77563 original size:14 final size:14
Alignment explanation
Indices: 77544--77579 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
77534 ATTGTTTAAT
77544 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
77558 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
77572 TGATTTGT
1 TGATTTGT
77580 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:77753 original size:20 final size:19
Alignment explanation
Indices: 77685--77767 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
77675 AAAAATGACT
77685 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
77704 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
77718 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
77737 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
77757 ATCGCAATGCG
1 ATCGCAATGCG
77768 TTTATAATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 21 0.38
20 19 0.34
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:77829 original size:19 final size:19
Alignment explanation
Indices: 77802--78154 Score: 415
Period size: 19 Copynumber: 20.1 Consensus size: 19
77792 CTCGTTGGGT
*
77802 TTTTTATTTCGCATTGCGA
1 TTTTCATTTCGCATTGCGA
77821 TTTTCATTTCGCATTGCGA
1 TTTTCATTTCGCATTGCGA
77840 --TTC-TTTCG--TTGCGA
1 TTTTCATTTCGCATTGCGA
77854 TTTTCATTTCGCATTGCGA
1 TTTTCATTTCGCATTGCGA
77873 TTTTCATTTCGCATTGCGA
1 TTTTCATTTCGCATTGCGA
*
77892 TTTTAATTTCGCATTGCGA
1 TTTTCATTTCGCATTGCGA
*
77911 --TTC-TGTCG--TTGCGA
1 TTTTCATTTCGCATTGCGA
77925 TTTTCATTTCGCATTGCGA
1 TTTTCATTTCGCATTGCGA
77944 TTTTCATTTCGCATTGCGA
1 TTTTCATTTCGCATTGCGA
77963 TTTTCATTTCGCATTGCGA
1 TTTTCATTTCGCATTGCGA
*
77982 --TTC-TGTCG--TTGCGA
1 TTTTCATTTCGCATTGCGA
77996 TTTTCATTTCGCATTGCGA
1 TTTTCATTTCGCATTGCGA
78015 TTTTCATTTCGCATTGCGA
1 TTTTCATTTCGCATTGCGA
*
78034 --TTC-TCTCG--TTGCGA
1 TTTTCATTTCGCATTGCGA
78048 TTTTCATTTCGCATTGCGA
1 TTTTCATTTCGCATTGCGA
78067 TTTTCATTTCGCATTGCGA
1 TTTTCATTTCGCATTGCGA
*
78086 --TTC-TCTCG--TTGCGA
1 TTTTCATTTCGCATTGCGA
78100 TTTTCATTTCCGCATTGCGA
1 TTTTCATTT-CGCATTGCGA
*
78120 TTTTCA--T-G--TTGGGA
1 TTTTCATTTCGCATTGCGA
*
78134 TTTTCATTTCGCGTTGCGA
1 TTTTCATTTCGCATTGCGA
78153 TT
1 TT
78155 GTAATTTCCG
Statistics
Matches: 290, Mismatches: 13, Indels: 62
0.79 0.04 0.17
Matches are distributed among these distances:
14 41 0.14
16 38 0.13
17 34 0.12
18 3 0.01
19 162 0.56
20 12 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTTTCATTTCGCATTGCGA
Found at i:77836 original size:52 final size:52
Alignment explanation
Indices: 77774--78087 Score: 245
Period size: 52 Copynumber: 5.9 Consensus size: 52
77764 TGCGTTTATA
* * *
77774 ATTTCGCATTGCGATTCTCTCGTTGGGTTTTTTATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
77826 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* * *
77878 ATTTCGCATTGCGATTTTAATTTCGCATTGCGA--TTC-TGTCG--TTGCGATTTTC
1 ATTTCGCATTGCGA--TT-CTCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
*
77930 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTGTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATT-T-TC
* * * * *
77989 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT-T-TC
* * * * *
78041 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTCATTTCGCATTGCGATT
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
78088 CTCTCGTTGC
Statistics
Matches: 233, Mismatches: 15, Indels: 28
0.84 0.05 0.10
Matches are distributed among these distances:
52 182 0.78
54 11 0.05
55 12 0.05
56 2 0.01
57 14 0.06
58 3 0.01
59 9 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:77882 original size:71 final size:71
Alignment explanation
Indices: 77802--78154 Score: 478
Period size: 71 Copynumber: 5.0 Consensus size: 71
77792 CTCGTTGGGT
*
77802 TTTTTATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCA
1 TTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCA
77867 TTGCGA
66 TTGCGA
* *
77873 TTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCA
1 TTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCA
77938 TTGCGA
66 TTGCGA
*
77944 TTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCA
1 TTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCA
78009 TTGCGA
66 TTGCGA
*
78015 TTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTTCATT
78075 TCGCATTGCGA
61 TCGCATTGCGA
* *
78086 --TTC-TCTCG--TTGCGATTTTCATTTCCGCATTGCGA-T-TTTCATGTTGGGATTTTCATTTC
1 TTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTTTC--GTTGCGATTTTCATTTC
*
78144 GCGTTGCGA
63 GCATTGCGA
78153 TT
1 TT
78155 GTAATTTCCG
Statistics
Matches: 257, Mismatches: 10, Indels: 32
0.86 0.03 0.11
Matches are distributed among these distances:
66 12 0.05
67 27 0.11
68 14 0.05
69 14 0.05
70 2 0.01
71 182 0.71
72 6 0.02
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (71 bp):
TTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCA
TTGCGA
Found at i:77914 original size:123 final size:123
Alignment explanation
Indices: 77758--78126 Score: 561
Period size: 123 Copynumber: 3.0 Consensus size: 123
77748 GAAATGAAAA
* * * *
77758 TCGCAATGCG-TTTATAATTTCGCATTGCGATTCTCTCGTTGGGTTTTTTATTTCGCATTGCGAT
1 TCGCATTGCGATTT-TAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGAT
77822 TTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
65 TTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
*
77881 TCGCATTGCGATTTTAATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCATTGCGATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
*
77946 TTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TGTCG--TTGCGATTTTCATT
66 TTCATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATT
*
78004 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
*
78069 TTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCAT
66 TTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCAT
78127 GTTGGGATTT
Statistics
Matches: 224, Mismatches: 10, Indels: 23
0.87 0.04 0.09
Matches are distributed among these distances:
118 6 0.03
120 7 0.03
121 5 0.02
122 2 0.01
123 167 0.75
124 16 0.07
125 7 0.03
126 8 0.04
128 6 0.03
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (123 bp):
TCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
TTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:78088 original size:52 final size:52
Alignment explanation
Indices: 77848--78126 Score: 384
Period size: 52 Copynumber: 5.2 Consensus size: 52
77838 GATTCTTTCG
* *
77848 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* * * * *
77905 TTGCGATTCTGTCGTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTCATTTCGCA
1 TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
*
77957 TTGCGATTTTCATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
78009 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
78061 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCA
78114 TTGCGATTTTCAT
1 TTGCGATTTTCAT
78127 GTTGGGATTT
Statistics
Matches: 201, Mismatches: 14, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
50 9 0.04
51 5 0.02
52 146 0.73
53 17 0.08
54 2 0.01
56 2 0.01
57 8 0.04
58 3 0.01
59 9 0.04
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:80662 original size:24 final size:24
Alignment explanation
Indices: 80628--80674 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
80618 CTGAAACATC
80628 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
80652 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
80675 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:81385 original size:20 final size:20
Alignment explanation
Indices: 81357--81546 Score: 193
Period size: 20 Copynumber: 9.5 Consensus size: 20
81347 AAATTCCAGT
* * *
81357 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
81377 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
**
81397 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
81417 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* **
81437 GTTGCGATATACGGAAACGC
1 GTTGCGATTTACGGATTCGC
* *
81457 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
81477 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
81497 ATTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
81517 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
81537 GTTGCGATTT
1 GTTGCGATTT
81547 TGGAAAATCG
Statistics
Matches: 148, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 147 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:81540 original size:60 final size:57
Alignment explanation
Indices: 81396--81667 Score: 161
Period size: 60 Copynumber: 4.5 Consensus size: 57
81386 TACGGATTAT
* * ** * ** *
81396 CGTTGCGATTTACGGATTATCGTTGCGATTTACGGATACGCGTTGCGATATACGGAAACG
1 CGTTGCGATTTTCAGATTCGCGTTGCGATTT-CGGATACGCATTGCGAT-TTTGG-ATCG
* * * * *
81456 CGTTGCGATTTACGGATACACGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCG
1 CGTTGCGATTTTCAGATTCGCGTTGCGATTT-CGGATACGCATTGCGATTT-TG-GATCG
* * * * * *
81516 CGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAATGCGAATTTGACTATCG
1 CGTTGCGATTTTCAGATTCGCGTTGCGATTTCGG-ATA-CGCATTGCGATTTTG--GATCG
* * * * *
81577 CATTGCGATTTTCAAGAATCGCGTTGCGATTTTGGACACTG-ATTTGCGATTCTGGGGATCG
1 CGTTGCGATTTTC-AGATTCGCGTTGCGATTTCGGATAC-GCA-TTGCGATT-T-TGGATCG
* *
81638 CGTTGCGATTTTTA-TTTCGCGTTGCGATTT
1 CGTTGCGATTTTCAGATTCGCGTTGCGATTT
81668 TGTTGGTCAT
Statistics
Matches: 170, Mismatches: 32, Indels: 21
0.76 0.14 0.09
Matches are distributed among these distances:
59 17 0.10
60 81 0.48
61 51 0.30
62 20 0.12
63 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (57 bp):
CGTTGCGATTTTCAGATTCGCGTTGCGATTTCGGATACGCATTGCGATTTTGGATCG
Found at i:81563 original size:21 final size:20
Alignment explanation
Indices: 81513--81610 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
81503 ATTTATGTGT
* * * *
81513 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
81533 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
81554 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
81574 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
81595 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
81611 GACACTGATT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 32 0.52
21 29 0.48
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:81605 original size:41 final size:41
Alignment explanation
Indices: 81513--81669 Score: 110
Period size: 41 Copynumber: 3.9 Consensus size: 41
81503 ATTTATGTGT
* * *
81513 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
** *
81554 TCGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGA-TATTCGCATTGCGATTTTGCAA-AA
* * * ***
81595 TCGCGTTGCGATTTTGGACACT-G-ATTTGCGATTCTG-GGGA
1 TCGCGTTGCGATTTT-GATATTCGCA-TTGCGATTTTGCAAAA
* *
81635 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTG
81670 TTGGTCATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
38 1 0.01
39 12 0.13
40 19 0.21
41 52 0.58
42 5 0.06
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
Found at i:84437 original size:42 final size:43
Alignment explanation
Indices: 84362--84444 Score: 150
Period size: 42 Copynumber: 1.9 Consensus size: 43
84352 GAAATTTCTC
84362 AGGCCACAACTGCCAAAAAAAATAACATTAAATTTTGAACAGAT
1 AGGCCACAACTGCC-AAAAAAATAACATTAAATTTTGAACAGAT
84406 AGGCCACAACTGCC-AAAAAATAACATTAAATTTTGAACA
1 AGGCCACAACTGCCAAAAAAATAACATTAAATTTTGAACA
84445 TATATTAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
42 25 0.64
44 14 0.36
ACGTcount: A:0.49, C:0.19, G:0.11, T:0.20
Consensus pattern (43 bp):
AGGCCACAACTGCCAAAAAAATAACATTAAATTTTGAACAGAT
Found at i:87341 original size:5 final size:5
Alignment explanation
Indices: 87331--87356 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
87321 TATTATTATT
87331 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
87357 TTCTAAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:102182 original size:2 final size:2
Alignment explanation
Indices: 102175--102204 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
102165 TATATTAAGT
102175 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
102205 ATTATTCATA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:102507 original size:21 final size:21
Alignment explanation
Indices: 102483--102526 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
102473 TTTAAACTTA
*
102483 AGGGAGATGAACTAAAATTCT
1 AGGGAGACGAACTAAAATTCT
* *
102504 AGGGAGGCGGACTAAAATTCT
1 AGGGAGACGAACTAAAATTCT
102525 AG
1 AG
102527 AGGGCAAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.30, T:0.20
Consensus pattern (21 bp):
AGGGAGACGAACTAAAATTCT
Found at i:102821 original size:5 final size:5
Alignment explanation
Indices: 102811--102849 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
102801 TAATAATACA
102811 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATA
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATA
102850 GAAACAGTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Done.