Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_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: 8415618
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 32 of 40
Found at i:6686513 original size:48 final size:48
Alignment explanation
Indices: 6686461--6686552 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
6686451 TTTAAATATT
* *
6686461 TAATTATTATTAA-ATAATTATTAGTAATCATTATTAAATCATTATTAG
1 TAATTATTA-TAATATAATTATTACTAATCATTACTAAATCATTATTAG
* * *
6686509 TAATTATTATAATTTCATTATTACTAATCATTACTAAATTATTA
1 TAATTATTATAATATAATTATTACTAATCATTACTAAATCATTA
6686553 GTATCAAATC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
47 3 0.08
48 35 0.92
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (48 bp):
TAATTATTATAATATAATTATTACTAATCATTACTAAATCATTATTAG
Found at i:6686526 original size:24 final size:24
Alignment explanation
Indices: 6686461--6686552 Score: 105
Period size: 24 Copynumber: 3.8 Consensus size: 24
6686451 TTTAAATATT
* *
6686461 TAATTATTATTAAATAATTATTAG
1 TAATCATTATTAAATCATTATTAG
6686485 TAATCATTATTAAATCATTATTAG
1 TAATCATTATTAAATCATTATTAG
* * *
6686509 TAATTATTA-TAATTTCATTATTAC
1 TAATCATTATTAA-ATCATTATTAG
* *
6686533 TAATCATTACTAAATTATTA
1 TAATCATTATTAAATCATTA
6686553 GTATCAAATC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
23 3 0.05
24 52 0.90
25 3 0.05
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (24 bp):
TAATCATTATTAAATCATTATTAG
Found at i:6686572 original size:21 final size:22
Alignment explanation
Indices: 6686543--6686587 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
6686533 TAATCATTAC
*
6686543 TAAATTATTAGT-ATCAAATCAT
1 TAAATTATTAATAAT-AAATCAT
6686565 TAAA-TATTAATAATAAATCAT
1 TAAATTATTAATAATAAATCAT
6686586 TA
1 TA
6686588 TTAGTAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (22 bp):
TAAATTATTAATAATAAATCAT
Found at i:6686590 original size:24 final size:26
Alignment explanation
Indices: 6686534--6686642 Score: 79
Period size: 26 Copynumber: 4.3 Consensus size: 26
6686524 CATTATTACT
* * *
6686534 AATCATTACTAAATTATTAGT-ATCA
1 AATCATTATTAAATCATTAATAATCA
6686559 AATC---ATTAAAT-ATTAATAAT-A
1 AATCATTATTAAATCATTAATAATCA
*
6686580 AATCATTATTAGTAATCATTACTAAATCA
1 AATCATTATTA--AATCATTAAT-AATCA
* *
6686609 TATCATTACTAAATCATTAA-ATATCA
1 AATCATTATTAAATCATTAATA-ATCA
6686635 AATCATTA
1 AATCATTA
6686643 AATATTAATA
Statistics
Matches: 67, Mismatches: 7, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
21 10 0.15
22 8 0.12
24 4 0.06
25 5 0.07
26 14 0.21
27 13 0.19
28 3 0.04
29 10 0.15
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.39
Consensus pattern (26 bp):
AATCATTATTAAATCATTAATAATCA
Found at i:6686615 original size:16 final size:16
Alignment explanation
Indices: 6686594--6686625 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6686584 ATTATTAGTA
6686594 ATCATTACTAAATCAT
1 ATCATTACTAAATCAT
6686610 ATCATTACTAAATCAT
1 ATCATTACTAAATCAT
6686626 TAAATATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (16 bp):
ATCATTACTAAATCAT
Found at i:6686639 original size:15 final size:15
Alignment explanation
Indices: 6686619--6686647 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6686609 TATCATTACT
6686619 AAATCATTAAATATC
1 AAATCATTAAATATC
6686634 AAATCATTAAATAT
1 AAATCATTAAATAT
6686648 TAATAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATCATTAAATATC
Found at i:6687745 original size:39 final size:39
Alignment explanation
Indices: 6687691--6687765 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
6687681 AGGTCACGTC
*
6687691 AATAGGTCATGACTTCTTGGTGGATGTTATATAATTAAG
1 AATAGGTCATGACTTCTTGATGGATGTTATATAATTAAG
*
6687730 AATAGGTGATGACTTCTTGATGGATGTTATATAATT
1 AATAGGTCATGACTTCTTGATGGATGTTATATAATT
6687766 GAGATGCTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.40
Consensus pattern (39 bp):
AATAGGTCATGACTTCTTGATGGATGTTATATAATTAAG
Found at i:6695508 original size:72 final size:72
Alignment explanation
Indices: 6695391--6695538 Score: 215
Period size: 72 Copynumber: 2.1 Consensus size: 72
6695381 TTAATTGAGT
* * *
6695391 GAAACTTCAGATTAGAGGAATGCGATATAAGTACGTGCAATGAAGGTCAAACAATTAGATGGCTC
1 GAAACTTCAGATTAGAGCAATGCCATATAAGGACGTGCAATGAAGGTCAAACAATTAGATGGCTC
6695456 ATTTAGA
66 ATTTAGA
* * * * *
6695463 GAAACTTCATATTAGAGCAATGCCATATCAGGACTTGCAATGAAGGTCTAACAATTAGATGGTTC
1 GAAACTTCAGATTAGAGCAATGCCATATAAGGACGTGCAATGAAGGTCAAACAATTAGATGGCTC
*
6695528 TTTTAGA
66 ATTTAGA
6695535 GAAA
1 GAAA
6695539 TGGAAAGAGC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (72 bp):
GAAACTTCAGATTAGAGCAATGCCATATAAGGACGTGCAATGAAGGTCAAACAATTAGATGGCTC
ATTTAGA
Found at i:6696586 original size:18 final size:19
Alignment explanation
Indices: 6696551--6696587 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
6696541 CACGAAATGT
6696551 AAGATTATCAGTGGGAATAA
1 AAGATTATCAG-GGGAATAA
6696571 AAGATTATCA-GGGAATA
1 AAGATTATCAGGGGAATA
6696588 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.05, G:0.24, T:0.24
Consensus pattern (19 bp):
AAGATTATCAGGGGAATAA
Found at i:6697337 original size:4 final size:4
Alignment explanation
Indices: 6697328--6697386 Score: 82
Period size: 4 Copynumber: 14.8 Consensus size: 4
6697318 TTTTCTGTTG
* * * *
6697328 ATGT ATGT ATGT ATGT GTGT ATGT ATGT GTAT ATGT ATGT CTGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
6697376 ATGT ATGT ATG
1 ATGT ATGT ATG
6697387 GCTCAATATT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.22, C:0.02, G:0.27, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:6699523 original size:9 final size:9
Alignment explanation
Indices: 6699509--6699534 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
6699499 AATGCTTTAA
6699509 AAAATGACC
1 AAAATGACC
6699518 AAAATGACC
1 AAAATGACC
6699527 AAAATGAC
1 AAAATGAC
6699535 AATTTAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.19, G:0.12, T:0.12
Consensus pattern (9 bp):
AAAATGACC
Found at i:6701596 original size:11 final size:11
Alignment explanation
Indices: 6701582--6701606 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6701572 ATATTATATA
6701582 TATTTTATTTT
1 TATTTTATTTT
6701593 TATTTTATTTT
1 TATTTTATTTT
6701604 TAT
1 TAT
6701607 ATTTTTTGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:6707533 original size:99 final size:99
Alignment explanation
Indices: 6707362--6708170 Score: 1079
Period size: 99 Copynumber: 8.0 Consensus size: 99
6707352 AGAAGGGGCT
* * ** * *
6707362 TCCCAATTTGAGAGCCAATTTTAACTTCACCTCGAAGGATATTGGACTTAAGATAGCACAAGCTC
1 TCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGCTC
*
6707427 AACTTCACAGCGAAGGGACGGCTGACTGTCAACA
66 AACTTCACAGCGAAGGGGCGGCTGACTGTCAACA
*
6707461 TCCCAATTTCAGAGCCAATTTTAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGCTC
1 TCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGCTC
6707526 AACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAA
66 AACTTCACAGCGAAGGGGCGGCTGACTGT---C-AAC-A
6707565 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
1 --TCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
* *
6707630 TCAACTTCACAGCGAATGGGCGGCTGACTGTCAACT
64 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACA
* * *
6707666 TCCCAATTTCAGAGCCAATTTCAACTTCACAATGAAGAATATTGGACTCAAAACAGCACAAGCTC
1 TCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGCTC
* *
6707731 AACTTCACAGCGAAGGGGCTGCTGACAGTCAACAAACAA
66 AACTTCACAGCGAAGGGGCGGCTGACTGT---C-AAC-A
*
6707770 CTTCCCAATTTCAGAGCCAATTTCAACTTTACAACGAAGGATATTGGACTCAAGACAGCACAAGC
1 --TCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
* * *
6707835 TCAACTTCACAGCAAAGGGGCGGCTGACTGTTAACT
64 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACA
* *
6707871 TCCCAATTTCAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCAAGACAACACAAGCTC
1 TCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGCTC
6707936 AACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAA
66 AACTTCACAGCGAAGGGGCGGCTGACTGT---C-AAC-A
* * *
6707975 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGC
1 --TCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
* *
6708040 TCAACTTCAC-GACGAAGGGGTGGCTGATTGTCAA-A
64 TCAACTTCACAG-CGAAGGGGCGGCTGACTGTCAACA
* * * ** * *
6708075 T-TC-A-TTCATAGTCAATTTCAACTTCAGGACGAAGGATATTAGACTCAAGACAACACAAGCTC
1 TCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGCTC
*
6708137 AACTTCACAGCGAAGGGGCGACTGACTGTCAACA
66 AACTTCACAGCGAAGGGGCGGCTGACTGTCAACA
6708171 AACAATTTCC
Statistics
Matches: 639, Mismatches: 47, Indels: 51
0.87 0.06 0.07
Matches are distributed among these distances:
95 78 0.12
96 3 0.00
97 1 0.00
98 1 0.00
99 266 0.42
100 1 0.00
102 10 0.02
103 11 0.02
104 1 0.00
105 1 0.00
106 266 0.42
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (99 bp):
TCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGCTC
AACTTCACAGCGAAGGGGCGGCTGACTGTCAACA
Found at i:6707611 original size:106 final size:102
Alignment explanation
Indices: 6707360--6708227 Score: 1131
Period size: 106 Copynumber: 8.5 Consensus size: 102
6707350 AAAGAAGGGG
* * ** * *
6707360 CTTCCCAATTTGAGAGCCAATTTTAACTTCACCTCGAAGGATATTGGACTTAAGATAGCACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
*
6707425 TCAACTTCACAGCGAAGGGACGGCTGACTGTCAAC-A
66 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAA
*
6707461 --TCCCAATTTCAGAGCCAATTTTAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
6707524 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAA
66 TCAACTTCACAGCGAAGGGGCGGCTGACTGT---C-AACAA
6707565 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
*
6707630 TCAACTTCACAGCGAATGGGCGGCTGACTGT---CAA
66 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAA
* * *
6707664 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAATGAAGAATATTGGACTCAAAACAGCACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
* *
6707729 TCAACTTCACAGCGAAGGGGCTGCTGACAGTCAACAAACAA
66 TCAACTTCACAGCGAAGGGGCGGCTGACTGT---C-AACAA
*
6707770 CTTCCCAATTTCAGAGCCAATTTCAACTTTACAACGAAGGATATTGGACTCAAGACAGCACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
* *
6707835 TCAACTTCACAGCAAAGGGGCGGCTGACTGT---TAA
66 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAA
* *
6707869 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCAAGACAACACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
6707934 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAA
66 TCAACTTCACAGCGAAGGGGCGGCTGACTGT---C-AACAA
* * *
6707975 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
* *
6708040 TCAACTTCAC-GACGAAGGGGTGGCTGATTGTC-A-AA
66 TCAACTTCACAG-CGAAGGGGCGGCTGACTGTCAACAA
* * ** * *
6708075 -TT--C-A-TTCATAGTCAATTTCAACTTCAGGACGAAGGATATTAGACTCAAGACAACACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
*
6708135 TCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAA
66 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAAC-AA
* * * ** *
6708173 CAATTTCCCAGTTCCAGAACCAATTTCAACTTCACGGCGGAGGATATTGGACTCA
1 C---TTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCA
6708228 GAGCAATACA
Statistics
Matches: 682, Mismatches: 51, Indels: 63
0.86 0.06 0.08
Matches are distributed among these distances:
95 76 0.11
96 3 0.00
97 1 0.00
98 2 0.00
99 277 0.41
100 2 0.00
101 1 0.00
102 3 0.00
103 4 0.01
104 2 0.00
105 1 0.00
106 310 0.45
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (102 bp):
CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAA
Found at i:6707712 original size:205 final size:205
Alignment explanation
Indices: 6707360--6708227 Score: 1332
Period size: 205 Copynumber: 4.3 Consensus size: 205
6707350 AAAGAAGGGG
* * ** * *
6707360 CTTCCCAATTTGAGAGCCAATTTTAACTTCACCTCGAAGGATATTGGACTTAAGATAGCACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
* * *
6707425 TCAACTTCACAGCGAAGGGACGGCTGACTGTCAACATCCCAATTTCAGAGCCAATTTTAACTTCA
66 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
*
6707490 CAACGAAGGATATTGGACTCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGT
131 CAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGT
6707555 CAACAAACAA
196 CAACAAACAA
6707565 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
*
6707630 TCAACTTCACAGCGAATGGGCGGCTGACTGTCAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
66 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
* * * * * *
6707695 CAATGAAGAATATTGGACTCAAAACAGCACAAGCTCAACTTCACAGCGAAGGGGCTGCTGACAGT
131 CAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGT
6707760 CAACAAACAA
196 CAACAAACAA
*
6707770 CTTCCCAATTTCAGAGCCAATTTCAACTTTACAACGAAGGATATTGGACTCAAGACAGCACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
* *
6707835 TCAACTTCACAGCAAAGGGGCGGCTGACTGTTAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
66 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
*
6707900 CAACGAATGATATTGGACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGT
131 CAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGT
6707965 CAACAAACAA
196 CAACAAACAA
* * *
6707975 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
* * * * *
6708040 TCAACTTCAC-GACGAAGGGGTGGCTGATTGTCAAATT--C-A-TTCATAGTCAATTTCAACTTC
66 TCAACTTCACAG-CGAAGGGGCGGCTGACTGTCAACTTCCCAATTTCAGAGCCAATTTCAACTTC
** * *
6708100 AGGACGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTG
130 ACAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTG
6708165 TCAACAAACAA
195 TCAACAAACAA
* * * * ** *
6708176 TTTCCCAGTTCCAGAACCAATTTCAACTTCACGGCGGAGGATATTGGACTCA
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCA
6708228 GAGCAATACA
Statistics
Matches: 613, Mismatches: 49, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
201 135 0.22
202 1 0.00
203 1 0.00
204 1 0.00
205 475 0.77
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (205 bp):
CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACTTCCCAATTTCAGAGCCAATTTCAACTTCA
CAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGT
CAACAAACAA
Found at i:6708737 original size:33 final size:33
Alignment explanation
Indices: 6708693--6708760 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
6708683 TCCTTTAAAC
*
6708693 AAATTTCGTCTCTCTCGAGACAGTTTCTCTTGA
1 AAATTTCGTCTCCCTCGAGACAGTTTCTCTTGA
* *
6708726 AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGA
1 AAATTTCGTCTCCCTCGAGACAGTTTCTCTTGA
6708759 AA
1 AA
6708761 CACAAAATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.40
Consensus pattern (33 bp):
AAATTTCGTCTCCCTCGAGACAGTTTCTCTTGA
Found at i:6709334 original size:2 final size:2
Alignment explanation
Indices: 6709327--6709385 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
6709317 TTATACTGAT
6709327 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
6709369 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
6709386 TTATTTGTTG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6710727 original size:15 final size:14
Alignment explanation
Indices: 6710706--6710734 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6710696 GACTTTTTCC
6710706 TTATATAT-TATTT
1 TTATATATATATTT
6710719 TTATATATATATTT
1 TTATATATATATTT
6710733 TT
1 TT
6710735 CTCATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATATATATATTT
Found at i:6710964 original size:26 final size:26
Alignment explanation
Indices: 6710924--6710976 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
6710914 GGGGACTTCC
6710924 CTTTATTTTGATTTC-TTTATTATTTT
1 CTTTATTTTGATTTCGTTTATT-TTTT
*
6710950 CTTTATTTTGCTTTCGTTTATTTTTT
1 CTTTATTTTGATTTCGTTTATTTTTT
6710976 C
1 C
6710977 CCCTAACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.11, C:0.11, G:0.06, T:0.72
Consensus pattern (26 bp):
CTTTATTTTGATTTCGTTTATTTTTT
Found at i:6711127 original size:24 final size:22
Alignment explanation
Indices: 6711100--6711166 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 22
6711090 TTTATTTATT
6711100 TTGTTTTTATTATTATTTTTTTAC
1 TTGTTTTT-TTATTATTTTTTT-C
*
6711124 TTGTTCTATTTT-TTATCCTTTTTC
1 TTGTT-T-TTTTATTAT-TTTTTTC
6711148 TTGTTTTGTTTATTATTTT
1 TTGTTTT-TTTATTATTTT
6711167 ATTTGTGCAC
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
22 1 0.03
23 6 0.17
24 19 0.53
25 8 0.22
26 2 0.06
ACGTcount: A:0.12, C:0.07, G:0.06, T:0.75
Consensus pattern (22 bp):
TTGTTTTTTTATTATTTTTTTC
Found at i:6721468 original size:15 final size:15
Alignment explanation
Indices: 6721457--6721487 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6721447 CTAAAATTGT
6721457 ATTGTATAAAATACG
1 ATTGTATAAAATACG
6721472 ATTGTATAAAATACG
1 ATTGTATAAAATACG
6721487 A
1 A
6721488 GAGCATATCT
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:0.48, C:0.06, G:0.13, T:0.32
Consensus pattern (15 bp):
ATTGTATAAAATACG
Found at i:6729545 original size:23 final size:24
Alignment explanation
Indices: 6729501--6729547 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
6729491 AAAATTAATC
*
6729501 AAATAATATATATTAATAAAAATA
1 AAATAATATATACTAATAAAAATA
*
6729525 AAATAATA-ATACTAATTAAAATA
1 AAATAATATATACTAATAAAAATA
6729548 TTAAACATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
AAATAATATATACTAATAAAAATA
Found at i:6729582 original size:11 final size:11
Alignment explanation
Indices: 6729514--6729600 Score: 56
Period size: 11 Copynumber: 7.8 Consensus size: 11
6729504 TAATATATAT
*
6729514 TAATAAAAATA
1 TAATTAAAATA
*
6729525 -AAATAATAATA
1 TAATTAA-AATA
6729536 CTAATT-AAA-A
1 -TAATTAAAATA
6729546 T-ATTAAACATA
1 TAATTAAA-ATA
6729557 TAAAATTAAAATA
1 T--AATTAAAATA
* *
6729570 TATTTAAACTA
1 TAATTAAAATA
6729581 TAATTAAAATA
1 TAATTAAAATA
*
6729592 AAATTAAAA
1 TAATTAAAA
6729601 CTAAATATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 18
0.69 0.09 0.21
Matches are distributed among these distances:
8 3 0.05
9 3 0.05
10 6 0.10
11 33 0.56
12 1 0.02
13 7 0.12
14 6 0.10
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.32
Consensus pattern (11 bp):
TAATTAAAATA
Found at i:6729598 original size:22 final size:22
Alignment explanation
Indices: 6729514--6729612 Score: 64
Period size: 22 Copynumber: 4.4 Consensus size: 22
6729504 TAATATATAT
* *
6729514 TAATAAAAATAAAA-TAATAATA
1 TAATTAAAATAAAATTAA-ACTA
6729536 CTAATTAAAAT---ATTAAACATA
1 -TAATTAAAATAAAATTAAAC-TA
* *
6729557 TAAAATTAAAATATATTTAAACTA
1 T--AATTAAAATAAAATTAAACTA
6729581 TAATTAAAATAAAATTAAAACTA
1 TAATTAAAATAAAATT-AAACTA
6729604 -AATATAAAA
1 TAAT-TAAAA
6729613 AGTAATAAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
20 3 0.05
21 5 0.08
22 25 0.40
23 20 0.32
24 3 0.05
25 6 0.10
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (22 bp):
TAATTAAAATAAAATTAAACTA
Found at i:6730454 original size:11 final size:10
Alignment explanation
Indices: 6730429--6730489 Score: 52
Period size: 11 Copynumber: 5.7 Consensus size: 10
6730419 TCGTTGGTAG
6730429 TTTTTC-TTT
1 TTTTTCTTTT
*
6730438 TCTTTCGTTTT
1 TTTTTC-TTTT
6730449 TTTTTCTTCTT
1 TTTTTCTT-TT
*
6730460 TCTTTCTGTTTT
1 T-TTT-TCTTTT
6730472 TTTTTCTTTT
1 TTTTTCTTTT
6730482 GTTTTTCT
1 -TTTTTCT
6730490 CTGCTCTCTG
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
9 5 0.12
10 7 0.17
11 21 0.50
12 6 0.14
13 3 0.07
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.80
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:6730464 original size:22 final size:22
Alignment explanation
Indices: 6730429--6730481 Score: 83
Period size: 23 Copynumber: 2.5 Consensus size: 22
6730419 TCGTTGGTAG
6730429 TTTTTC-TTTTCTTTC-GTTTT
1 TTTTTCTTTTTCTTTCTGTTTT
6730449 TTTTTCTTCTTTCTTTCTGTTTT
1 TTTTTCTT-TTTCTTTCTGTTTT
6730472 TTTTTCTTTT
1 TTTTTCTTTT
6730482 GTTTTTCTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.20
21 1 0.03
22 10 0.33
23 13 0.43
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (22 bp):
TTTTTCTTTTTCTTTCTGTTTT
Found at i:6730479 original size:16 final size:15
Alignment explanation
Indices: 6730435--6730487 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
6730425 GTAGTTTTTC
* *
6730435 TTTTCTTTCGTTTTTT
1 TTTTTTTTC-TTTTGT
6730451 TTTCTTCTTTCTTTCTGT
1 TTT-TT-TTTCTTT-TGT
6730469 TTTTTTTTCTTTTGT
1 TTTTTTTTCTTTTGT
6730484 TTTT
1 TTTT
6730488 CTCTGCTCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
15 7 0.22
16 10 0.31
17 6 0.19
18 9 0.28
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (15 bp):
TTTTTTTTCTTTTGT
Found at i:6730922 original size:3 final size:3
Alignment explanation
Indices: 6730916--6730992 Score: 88
Period size: 3 Copynumber: 26.3 Consensus size: 3
6730906 ATAATATATT
* *
6730916 TAA TAA TAA T-A TAA T-A TATA TAA T-A TAA TAA TAA TAT TTA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
**
6730959 TAA TAA TAA TAA TAA TAA TTT TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
6730993 TTAAGTAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
2 6 0.10
3 53 0.85
4 3 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:6730924 original size:15 final size:14
Alignment explanation
Indices: 6730904--6730996 Score: 94
Period size: 15 Copynumber: 7.0 Consensus size: 14
6730894 TTTAGGCTTG
6730904 TAATAATATATTTAA
1 TAATAATA-ATTTAA
6730919 TAATAAT-A--TAA
1 TAATAATAATTTAA
*
6730930 T-ATATATAATATAA
1 TAATA-ATAATTTAA
6730944 TAATAAT-ATTT-A
1 TAATAATAATTTAA
6730956 TAATAATAA--TAA
1 TAATAATAATTTAA
6730968 TAATAATAATTTTAA
1 TAATAATAA-TTTAA
6730983 TAATAATAATTTAA
1 TAATAATAATTTAA
6730997 GTAAAATGAA
Statistics
Matches: 67, Mismatches: 1, Indels: 21
0.75 0.01 0.24
Matches are distributed among these distances:
10 3 0.04
11 7 0.10
12 19 0.28
13 5 0.07
14 11 0.16
15 22 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATAATAATTTAA
Found at i:6730936 original size:9 final size:9
Alignment explanation
Indices: 6730906--6730969 Score: 58
Period size: 9 Copynumber: 6.7 Consensus size: 9
6730896 TAGGCTTGTA
6730906 ATAATATAT
1 ATAATATAT
*
6730915 TTAATAATAAT
1 ATAAT-AT-AT
6730926 ATAATATAT
1 ATAATATAT
6730935 ATAATATAAT
1 ATAATAT-AT
*
6730945 AATAATATTT
1 -ATAATATAT
6730955 ATAATA-AT
1 ATAATATAT
6730963 AATAATA
1 -ATAATA
6730970 ATAATAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
8 1 0.02
9 25 0.54
10 7 0.15
11 13 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATAATATAT
Found at i:6730988 original size:12 final size:12
Alignment explanation
Indices: 6730904--6730989 Score: 77
Period size: 12 Copynumber: 6.8 Consensus size: 12
6730894 TTTAGGCTTG
6730904 TAATAATATATT-
1 TAATAATA-ATTA
6730916 TAATAATAA-TA
1 TAATAATAATTA
6730927 TAATATATATAATATAA
1 T-A-ATA-ATAAT-T-A
*
6730944 TAATAATATTTA
1 TAATAATAATTA
*
6730956 TAATAATAATAA
1 TAATAATAATTA
*
6730968 TAATAATAATTT
1 TAATAATAATTA
6730980 TAATAATAAT
1 TAATAATAAT
6730990 AATTTAAGTA
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
10 1 0.02
11 2 0.03
12 40 0.65
13 4 0.06
14 8 0.13
15 3 0.05
16 2 0.03
17 2 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TAATAATAATTA
Found at i:6732114 original size:76 final size:76
Alignment explanation
Indices: 6731146--6732087 Score: 1776
Period size: 76 Copynumber: 12.4 Consensus size: 76
6731136 GAGGTCTTAA
* *
6731146 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
6731211 AGGCTTTTTGG
66 AGGCTTTTTGG
6731222 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
6731287 AGGCTTTTTGG
66 AGGCTTTTTGG
6731298 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
6731363 AGGCTTTTTGG
66 AGGCTTTTTGG
6731374 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
6731439 AGGCTTTTTGG
66 AGGCTTTTTGG
*
6731450 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTTCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
6731515 AGGCTTTTTGG
66 AGGCTTTTTGG
6731526 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
6731591 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
6731602 AAACATCATGCACTGAAGGGCTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
6731667 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
6731678 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTACCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
6731743 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
6731754 AAACATCATGCACTGAAGGGCTTAAAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
6731819 AGGCTTTTTGG
66 AGGCTTTTTGG
*
6731830 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
6731895 AGGCTTTTTGG
66 AGGCTTTTTGG
*
6731906 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
6731971 AGGCTTTTTGG
66 AGGCTTTTTGG
*
6731982 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
6732047 AGGCTTTTTGG
66 AGGCTTTTTGG
6732058 AAACATCATGCACTGAAGGGCTTACAGATG
1 AAACATCATGCACTGAAGGGCTTACAGATG
6732088 TGGGAAATAG
Statistics
Matches: 851, Mismatches: 15, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 851 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (76 bp):
AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:6733239 original size:54 final size:54
Alignment explanation
Indices: 6733157--6733312 Score: 258
Period size: 54 Copynumber: 2.9 Consensus size: 54
6733147 AGAATAGCAG
***
6733157 GTTCGTAAAACATTTGACAGTGCATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
* *
6733211 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
*
6733265 GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGC
6733313 CAAGATTTCT
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
Found at i:6734281 original size:75 final size:74
Alignment explanation
Indices: 6734190--6734363 Score: 181
Period size: 74 Copynumber: 2.3 Consensus size: 74
6734180 CAGGATGTTG
* * * *
6734190 TAGGCCTTCAGTATGCCCCAACATTGT-CTAATACAAGTGTTCAAAATGCATCAACAATTCTGAT
1 TAGGCTTTCAGCATGCCCCAACATTGTACTAATA-AA-TATTCAAAATACATCAACAATTCTGAT
*
6734254 TATGATTGAAA
64 TAGGATTGAAA
* * * * ** * *
6734265 TAGGCTTTCAGCATGCCCCAGCATTTTACTGATAAATATTCAGAATATTTCAACATTTCTGATTC
1 TAGGCTTTCAGCATGCCCCAACATTGTACTAATAAATATTCAAAATACATCAACAATTCTGATTA
6734330 GGATTGAAA
66 GGATTGAAA
*
6734339 -AGGGTTTTCAGCATGCCCCAACATT
1 TA-GGCTTTCAGCATGCCCCAACATT
6734364 TGCTTCTTGT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
73 1 0.01
74 51 0.62
75 25 0.30
76 5 0.06
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (74 bp):
TAGGCTTTCAGCATGCCCCAACATTGTACTAATAAATATTCAAAATACATCAACAATTCTGATTA
GGATTGAAA
Found at i:6735503 original size:114 final size:114
Alignment explanation
Indices: 6735303--6735525 Score: 329
Period size: 114 Copynumber: 2.0 Consensus size: 114
6735293 GATCATGCAG
* * * * *
6735303 TTCATCTTTCAATTTCAATGATTGGTTATGGGATTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTATGGGATTCATACCAAACCAAATCAGATAACTCAAAGA
* * *
6735368 ACACTTTCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTATACTATGAGCAAA
* * * *
6735417 TTCATCTTTCAAATCCAATTATTGGTTTTGGGGTTCATACCAAACCAAATTAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTATGGGATTCATACCAAACCAAATCAGATAACTCAAAGA
*
6735482 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTATACTATGA
66 ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTATACTATGA
6735526 TCACATGGCA
Statistics
Matches: 96, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
114 96 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTATGGGATTCATACCAAACCAAATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTATACTATGAGCAAA
Found at i:6748301 original size:23 final size:24
Alignment explanation
Indices: 6748257--6748303 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
6748247 AAAATTAATC
*
6748257 AAATAATATATATTAATAAAAATA
1 AAATAATATATACTAATAAAAATA
*
6748281 AAATAATA-ATACTAATTAAAATA
1 AAATAATATATACTAATAAAAATA
6748304 TTAAACATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
AAATAATATATACTAATAAAAATA
Found at i:6748338 original size:11 final size:11
Alignment explanation
Indices: 6748270--6748356 Score: 56
Period size: 11 Copynumber: 7.8 Consensus size: 11
6748260 TAATATATAT
*
6748270 TAATAAAAATA
1 TAATTAAAATA
*
6748281 -AAATAATAATA
1 TAATTAA-AATA
6748292 CTAATT-AAA-A
1 -TAATTAAAATA
6748302 T-ATTAAACATA
1 TAATTAAA-ATA
6748313 TAAAATTAAAATA
1 T--AATTAAAATA
* *
6748326 TATTTAAACTA
1 TAATTAAAATA
6748337 TAATTAAAATA
1 TAATTAAAATA
*
6748348 AAATTAAAA
1 TAATTAAAA
6748357 CTAAATATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 18
0.69 0.09 0.21
Matches are distributed among these distances:
8 3 0.05
9 3 0.05
10 6 0.10
11 33 0.56
12 1 0.02
13 7 0.12
14 6 0.10
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.32
Consensus pattern (11 bp):
TAATTAAAATA
Found at i:6748354 original size:22 final size:22
Alignment explanation
Indices: 6748270--6748368 Score: 64
Period size: 22 Copynumber: 4.4 Consensus size: 22
6748260 TAATATATAT
* *
6748270 TAATAAAAATAAAA-TAATAATA
1 TAATTAAAATAAAATTAA-ACTA
6748292 CTAATTAAAAT---ATTAAACATA
1 -TAATTAAAATAAAATTAAAC-TA
* *
6748313 TAAAATTAAAATATATTTAAACTA
1 T--AATTAAAATAAAATTAAACTA
6748337 TAATTAAAATAAAATTAAAACTA
1 TAATTAAAATAAAATT-AAACTA
6748360 -AATATAAAA
1 TAAT-TAAAA
6748369 AGTAATAAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
20 3 0.05
21 5 0.08
22 25 0.40
23 20 0.32
24 3 0.05
25 6 0.10
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (22 bp):
TAATTAAAATAAAATTAAACTA
Found at i:6748398 original size:26 final size:26
Alignment explanation
Indices: 6748366--6748417 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
6748356 ACTAAATATA
*
6748366 AAAAGTAATAAAACTT-GTGATTAAAT
1 AAAAGTAATAAAA-TTAGTGACTAAAT
*
6748392 AAAAGTATTAAAATTAGTGACTAAAT
1 AAAAGTAATAAAATTAGTGACTAAAT
6748418 TATAACATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.31
Consensus pattern (26 bp):
AAAAGTAATAAAATTAGTGACTAAAT
Found at i:6749238 original size:16 final size:15
Alignment explanation
Indices: 6749218--6749282 Score: 64
Period size: 16 Copynumber: 4.3 Consensus size: 15
6749208 TCGTTGGTAG
6749218 TTTTTCTTTTTTTTC
1 TTTTTCTTTTTTTTC
6749233 GTTTTT-TTTTCTTTTC
1 -TTTTTCTTTT-TTTTC
*
6749249 TCTTTCTGTTTTTTT-
1 TTTTTCT-TTTTTTTC
6749264 TCTTTTC-TTTTTTTC
1 T-TTTTCTTTTTTTTC
6749279 TTTT
1 TTTT
6749283 GTTTTTCTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
14 10 0.24
15 10 0.24
16 19 0.45
17 3 0.07
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTTCTTTTTTTTC
Found at i:6749260 original size:22 final size:21
Alignment explanation
Indices: 6749218--6749274 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 21
6749208 TCGTTGGTAG
6749218 TTTTTCTTTT-TTTTCGTTTT
1 TTTTTCTTTTCTTTTCGTTTT
6749238 TTTTTCTTTTCTCTTTC-TGTTT
1 TTTTTCTTTTCT-TTTCGT-TTT
6749260 TTTTTCTTTTCTTTT
1 TTTTTCTTTTCTTTT
6749275 TTTCTTTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
20 10 0.29
21 5 0.15
22 19 0.56
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.82
Consensus pattern (21 bp):
TTTTTCTTTTCTTTTCGTTTT
Found at i:6749264 original size:27 final size:27
Alignment explanation
Indices: 6749218--6749288 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
6749208 TCGTTGGTAG
6749218 TTTTTCT-TTTT-TTTCGTTTTT-TTTTC
1 TTTTTCTCTTTTGTTT--TTTTTCTTTTC
6749244 -TTTTCTCTTTCTGTTTTTTTTCTTTTC
1 TTTTTCTCTTT-TGTTTTTTTTCTTTTC
*
6749271 TTTTTTTCTTTTGTTTTT
1 TTTTTCTCTTTTGTTTTT
6749289 CTCTGCTCTC
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
25 6 0.15
26 8 0.21
27 13 0.33
28 12 0.31
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (27 bp):
TTTTTCTCTTTTGTTTTTTTTCTTTTC
Found at i:6749265 original size:11 final size:10
Alignment explanation
Indices: 6749218--6749290 Score: 67
Period size: 11 Copynumber: 6.7 Consensus size: 10
6749208 TCGTTGGTAG
6749218 TTTTTC-TTT
1 TTTTTCTTTT
6749227 TTTTTCGTTTT
1 TTTTTC-TTTT
6749238 TTTTTCTTTT
1 TTTTTCTTTT
*
6749248 CTCTTTCTGTTT
1 -TTTTTCT-TTT
6749260 TTTTTCTTTTCTT
1 TTTTTC--TT-TT
6749273 TTTTTCTTTT
1 TTTTTCTTTT
6749283 GTTTTTCT
1 -TTTTTCT
6749291 CTGCTCTCTG
Statistics
Matches: 54, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
9 6 0.11
10 6 0.11
11 29 0.54
12 4 0.07
13 9 0.17
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.82
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:6749282 original size:22 final size:22
Alignment explanation
Indices: 6749219--6749287 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
6749209 CGTTGGTAGT
6749219 TTTTCTTTTTTTTCGTTTTTTTTTC
1 TTTTC-TTTTTTTC--TTTTTTTTC
* * *
6749244 TTTTCTCTTTCTGTTTTTTTTC
1 TTTTCTTTTTTTCTTTTTTTTC
6749266 TTTTCTTTTTTTCTTTTGTTTT
1 TTTTCTTTTTTTCTTTT-TTTT
6749288 TCTCTGCTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
22 23 0.62
23 4 0.11
24 5 0.14
25 5 0.14
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (22 bp):
TTTTCTTTTTTTCTTTTTTTTC
Found at i:6749721 original size:3 final size:3
Alignment explanation
Indices: 6749715--6749789 Score: 75
Period size: 3 Copynumber: 25.3 Consensus size: 3
6749705 ATAATATATT
* *
6749715 TAA TAA TAA T-A TAA T-A TATA TAA T-A TAA TAA TAA TAT TTA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
**
6749758 TAA TAA TAA TAA TAA TTTT TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA T
6749790 TTAAGTAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
2 6 0.10
3 49 0.83
4 4 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:6749735 original size:9 final size:9
Alignment explanation
Indices: 6749705--6749768 Score: 58
Period size: 9 Copynumber: 6.7 Consensus size: 9
6749695 TGGGCTTGTA
6749705 ATAATATAT
1 ATAATATAT
*
6749714 TTAATAATAAT
1 ATAAT-AT-AT
6749725 ATAATATAT
1 ATAATATAT
6749734 ATAATATAAT
1 ATAATAT-AT
*
6749744 AATAATATTT
1 -ATAATATAT
6749754 ATAATA-AT
1 ATAATATAT
6749762 AATAATA
1 -ATAATA
6749769 ATAATTTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
8 1 0.02
9 25 0.54
10 7 0.15
11 13 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATAATATAT
Found at i:6749742 original size:22 final size:23
Alignment explanation
Indices: 6749715--6749789 Score: 88
Period size: 22 Copynumber: 3.4 Consensus size: 23
6749705 ATAATATATT
6749715 TAATAATAATATAATATATATAA
1 TAATAATAATATAATATATATAA
*
6749738 T-ATAAT-A-ATAATATTTATAA
1 TAATAATAATATAATATATATAA
*
6749758 TAATAATAATAATAAT-T-TTTAA
1 TAATAATAAT-ATAATATATATAA
6749780 TAATAATAAT
1 TAATAATAAT
6749790 TTAAGTAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
20 13 0.28
21 6 0.13
22 20 0.43
23 2 0.04
24 5 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TAATAATAATATAATATATATAA
Found at i:6749759 original size:40 final size:43
Alignment explanation
Indices: 6749703--6749789 Score: 119
Period size: 40 Copynumber: 2.1 Consensus size: 43
6749693 TTTGGGCTTG
6749703 TAATAATATATTTAATAATAAT-ATAAT-ATATATAAT-ATAA
1 TAATAATATATTTAATAATAATAATAATAATATATAATAATAA
* *
6749743 TAATAATAT-TTATAATAATAATAATAATAATTTTTAATAATAA
1 TAATAATATATT-TAATAATAATAATAATAATATATAATAATAA
6749786 TAAT
1 TAAT
6749790 TTAAGTAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
39 2 0.05
40 19 0.46
41 5 0.12
42 7 0.17
43 8 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (43 bp):
TAATAATATATTTAATAATAATAATAATAATATATAATAATAA
Found at i:6749782 original size:16 final size:16
Alignment explanation
Indices: 6749761--6749791 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
6749751 TTTATAATAA
6749761 TAATAATAATAATTTT
1 TAATAATAATAATTTT
6749777 TAATAATAATAATTT
1 TAATAATAATAATTT
6749792 AAGTAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAATAATAATAATTTT
Found at i:6751751 original size:35 final size:35
Alignment explanation
Indices: 6751686--6751790 Score: 176
Period size: 35 Copynumber: 3.0 Consensus size: 35
6751676 AACATCTACC
*
6751686 AAAC-TTTACCAAACTTTGAAAAACATTTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCA-TTTTCAAAG
*
6751721 AAACATTTACCGAACTTTGAAAACCATTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
6751756 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
6751791 TTGGTTGCCA
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
35 47 0.71
36 19 0.29
ACGTcount: A:0.45, C:0.19, G:0.07, T:0.30
Consensus pattern (35 bp):
AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
Found at i:6756302 original size:21 final size:21
Alignment explanation
Indices: 6756278--6756338 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
6756268 TTCAAATAAA
6756278 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
6756299 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
6756313 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
6756334 CATTT
1 CATTT
6756339 TCAAAATTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:6756305 original size:35 final size:35
Alignment explanation
Indices: 6756252--6756343 Score: 157
Period size: 35 Copynumber: 2.6 Consensus size: 35
6756242 ACTTTATCAT
* *
6756252 ACTTTGAAAAACATTTTTCAAATAAACATTTACCAA
1 ACTTTGAAAACCA-TTTTCAAAGAAACATTTACCAA
6756288 ACTTTGAAAACCATTTTCAAAGAAACATTTACCAA
1 ACTTTGAAAACCATTTTCAAAGAAACATTTACCAA
6756323 ACTTTGAAAACCATTTTCAAA
1 ACTTTGAAAACCATTTTCAAA
6756344 ATTGATTGCC
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
35 42 0.78
36 12 0.22
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.32
Consensus pattern (35 bp):
ACTTTGAAAACCATTTTCAAAGAAACATTTACCAA
Found at i:6761200 original size:23 final size:23
Alignment explanation
Indices: 6761174--6761244 Score: 97
Period size: 23 Copynumber: 3.1 Consensus size: 23
6761164 TGTTTGTGTT
*
6761174 TGTTCATTTAGCATTTGTAAACA
1 TGTTCGTTTAGCATTTGTAAACA
* *
6761197 TGTTCGTTTAGCATTCGTAAAAA
1 TGTTCGTTTAGCATTTGTAAACA
* *
6761220 TGTTCGTTTAACGTTTGTAAACA
1 TGTTCGTTTAGCATTTGTAAACA
6761243 TG
1 TG
6761245 GTCGGGAATC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (23 bp):
TGTTCGTTTAGCATTTGTAAACA
Found at i:6763283 original size:21 final size:21
Alignment explanation
Indices: 6763255--6763296 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6763245 TAAAAGCTTG
*
6763255 ATTACATAAAATTAA-TTACA
1 ATTACATAAAATAAACTTACA
6763275 ATTAGCATAAAATAAACTTACA
1 ATTA-CATAAAATAAACTTACA
6763297 TGTTGTAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (21 bp):
ATTACATAAAATAAACTTACA
Found at i:6766321 original size:3 final size:3
Alignment explanation
Indices: 6766303--6766355 Score: 63
Period size: 3 Copynumber: 17.3 Consensus size: 3
6766293 GTAAATGTAA
* *
6766303 AAT AAT AAAT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT -AT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6766348 AATT AAT A
1 AA-T AAT A
6766356 TTTATAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
2 2 0.05
3 35 0.81
4 6 0.14
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:6766662 original size:51 final size:51
Alignment explanation
Indices: 6766605--6766887 Score: 327
Period size: 51 Copynumber: 5.4 Consensus size: 51
6766595 AGTTTGTTCT
*
6766605 CTATTCCTTCAGAGAGTATAGGACTAAATCTTCAACAAATGTGTCCGCTCC
1 CTATTCCTTCAGAGAGTATAGGACTAAATCTTCAACAAATGTGTCTGCTCC
* * *
6766656 CCATTCCTTCAGAGAGTATAGGACTCAATCTTCAATCAAACGTGTCTGCTCC
1 CTATTCCTTCAGAGAGTATAGGACTAAATCTTCAA-CAAATGTGTCTGCTCC
* * * *
6766708 CTATTTCTTCAGAGAGTATATGACTTAAACAACCTTCAACAAACGTGTCCT-CTCC
1 CTATTCCTTCAGAGAGTATAGGAC-T--A-AATCTTCAACAAATGTGT-CTGCTCC
* *
6766763 CTATTCCTTCAGAAAGTATAGGACTCAATCTTCAACAAATGTGTCTGCTCC
1 CTATTCCTTCAGAGAGTATAGGACTAAATCTTCAACAAATGTGTCTGCTCC
* * *
6766814 CTATTCCTTCAGAGAGTATAAGACTCGAATAATTTTCAAC-ATTCGTGTCTGCTCC
1 CTATTCCTTCAGAGAGTATAGGACT---A-AATCTTCAACAAAT-GTGTCTGCTCC
*
6766869 CTATTTCTTCAGAGAGTAT
1 CTATTCCTTCAGAGAGTAT
6766888 TAGACTCGAA
Statistics
Matches: 199, Mismatches: 21, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
50 2 0.01
51 76 0.38
52 35 0.18
53 1 0.01
54 3 0.02
55 72 0.36
56 10 0.05
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (51 bp):
CTATTCCTTCAGAGAGTATAGGACTAAATCTTCAACAAATGTGTCTGCTCC
Found at i:6766763 original size:55 final size:54
Alignment explanation
Indices: 6766605--6767016 Score: 389
Period size: 55 Copynumber: 7.7 Consensus size: 54
6766595 AGTTTGTTCT
* *
6766605 CTATTCCTTCAGAGAGTATAGGAC-T-A-AATCTTCAACAAATGTGTCCGCTCC
1 CTATTCCTTCAGAGAGTATAGGACTTAACAATCTTCAACAAACGTGTCTGCTCC
*
6766656 CCATTCCTTCAGAGAGTATAGGAC-T--CAATCTTCAATCAAACGTGTCTGCTCC
1 CTATTCCTTCAGAGAGTATAGGACTTAACAATCTTCAA-CAAACGTGTCTGCTCC
* * *
6766708 CTATTTCTTCAGAGAGTATATGACTTAAACAACCTTCAACAAACGTGTCCT-CTCC
1 CTATTCCTTCAGAGAGTATAGGACTT-AACAATCTTCAACAAACGTGT-CTGCTCC
* *
6766763 CTATTCCTTCAGAAAGTATAGGAC-T--CAATCTTCAACAAATGTGTCTGCTCC
1 CTATTCCTTCAGAGAGTATAGGACTTAACAATCTTCAACAAACGTGTCTGCTCC
* * * * **
6766814 CTATTCCTTCAGAGAGTATAAGACTCGAATAATTTTCAACATTCGTGTCTGCTCC
1 CTATTCCTTCAGAGAGTATAGGACT-TAACAATCTTCAACAAACGTGTCTGCTCC
* * * * ** *
6766869 CTATTTCTTCAGAGAGTATTA-GACTCGAACAATTTTCAATATTCATGTCTGCTCC
1 CTATTCCTTCAGAGAGTA-TAGGACT-TAACAATCTTCAACAAACGTGTCTGCTCC
* * * *
6766924 CTATTGCTTAAGAGAGTAT-GAGACTTGAACAATCTTCAACAATCGTGTCTGCTCT
1 CTATTCCTTCAGAGAGTATAG-GACTT-AACAATCTTCAACAAACGTGTCTGCTCC
** * * *
6766979 CTATTTGTTCAGAAAGTATAAGACTCGAACAATCTTCA
1 CTATTCCTTCAGAGAGTATAGGACT-TAACAATCTTCA
6767017 TTTGCTTCAC
Statistics
Matches: 305, Mismatches: 38, Indels: 32
0.81 0.10 0.09
Matches are distributed among these distances:
50 2 0.01
51 76 0.25
52 35 0.11
53 1 0.00
54 2 0.01
55 176 0.58
56 13 0.04
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.32
Consensus pattern (54 bp):
CTATTCCTTCAGAGAGTATAGGACTTAACAATCTTCAACAAACGTGTCTGCTCC
Found at i:6781225 original size:3 final size:3
Alignment explanation
Indices: 6781207--6781256 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
6781197 GCAAATGTAA
* *
6781207 AAT AAT AAAT ATT AAT AAT AAT AAT AAT AAT AAT AAC AAT -AT AATT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
6781253 AAT A
1 AAT A
6781257 TTTATAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 32 0.80
4 6 0.15
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:6781750 original size:24 final size:24
Alignment explanation
Indices: 6781722--6781801 Score: 75
Period size: 23 Copynumber: 3.5 Consensus size: 24
6781712 TAAAAGCAAT
6781722 TAAATAATTATTTATATATATTTA
1 TAAATAATTATTTATATATATTTA
*
6781746 TAAAT-TTTATATTATAT-TATTCTA
1 TAAATAATTAT-TTATATATATT-TA
*
6781770 -AAAAAATTATTTATA-ATA-TTA
1 TAAATAATTATTTATATATATTTA
6781791 TAAA-AA-TATTT
1 TAAATAATTATTT
6781802 TAAAGTATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
20 5 0.10
21 4 0.08
22 4 0.08
23 18 0.38
24 17 0.35
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (24 bp):
TAAATAATTATTTATATATATTTA
Found at i:6782047 original size:21 final size:21
Alignment explanation
Indices: 6782001--6782062 Score: 56
Period size: 20 Copynumber: 2.9 Consensus size: 21
6781991 AAATAAATAA
*
6782001 ATAAATTGA-TTTTA-AAAATT
1 ATAAATT-ATTTTTATAATATT
*
6782021 AAAAATTATTTTTATAATATT
1 ATAAATTATTTTTATAATATT
6782042 ATAAATATACTTTTTTATAAT
1 ATAAAT-TA--TTTTTATAAT
6782063 GAGTTCCTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.03
20 11 0.32
21 10 0.29
22 2 0.06
24 10 0.29
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
ATAAATTATTTTTATAATATT
Found at i:6782256 original size:15 final size:15
Alignment explanation
Indices: 6782236--6782297 Score: 54
Period size: 19 Copynumber: 3.9 Consensus size: 15
6782226 ATCATAAATT
6782236 TTAAATTATTTAAAA
1 TTAAATTATTTAAAA
6782251 TTAAATAAATAATTTAAAA
1 TTAAAT---T-ATTTAAAA
*
6782270 ATAATATTATTTAAAA
1 TTAA-ATTATTTAAAA
*
6782286 -TAAATTAATTAA
1 TTAAATTATTTAA
6782298 TTAATTTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
14 8 0.20
15 9 0.22
16 8 0.20
17 1 0.03
18 1 0.03
19 11 0.28
20 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TTAAATTATTTAAAA
Found at i:6783284 original size:96 final size:101
Alignment explanation
Indices: 6783173--6783402 Score: 287
Period size: 96 Copynumber: 2.3 Consensus size: 101
6783163 TCATACTACA
* * * * * *
6783173 AAAAAAATGTGGCACTTAACACATACTTACACTAGTGTATGTGAATAAAAT-AAACAAGTGTAGC
1 AAAAAAATGTAGCACTTAACACATACTTACACTAGTATAAGTGAATAAAATAAAAAAAATATAGC
**
6783237 ACTTAACACATACTTTA-G-TGTAAGT-AGATAAAAT
66 ACTTAACACATACTACACGATGTAAGTGA-ATAAAAT
6783271 -AAAAAA-GTAGCACTTAACACATACTATAC-C-AGTATAAGTGAATAAAATAAAAAAAATATAG
1 AAAAAAATGTAGCACTTAACACATACT-TACACTAGTATAAGTGAATAAAATAAAAAAAATATAG
6783332 CACTTAACACATACTACACTGATGTAAGTGAATAAAAT
65 CACTTAACACATACTACAC-GATGTAAGTGAATAAAAT
* *
6783370 AAAAAAATATAACACTTAACACATACTTACACT
1 AAAAAAATGTAGCACTTAACACATACTTACACT
6783403 GATGTAAGTA
Statistics
Matches: 112, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
95 16 0.14
96 44 0.39
97 9 0.08
98 1 0.01
99 14 0.12
100 10 0.09
101 18 0.16
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (101 bp):
AAAAAAATGTAGCACTTAACACATACTTACACTAGTATAAGTGAATAAAATAAAAAAAATATAGC
ACTTAACACATACTACACGATGTAAGTGAATAAAAT
Found at i:6783401 original size:51 final size:51
Alignment explanation
Indices: 6783173--6783411 Score: 266
Period size: 51 Copynumber: 4.8 Consensus size: 51
6783163 TCATACTACA
* * *
6783173 AAAAAAATGTGGCACTTAACACATACTTACACT-AGTGTATGTGAATAAAAT
1 AAAAAAATATAGCACTTAACACATACTTACACTGA-TGTAAGTGAATAAAAT
* * * *
6783224 AAACAAGTGTAGCACTTAACACATACTT-TA--G-TGTAAGT-AGATAAAAT
1 AAAAAAATATAGCACTTAACACATACTTACACTGATGTAAGTGA-ATAAAAT
* * *
6783271 -AAAAAA-GTAGCACTTAACACATACTATAC-CAG-TATAAGTGAATAAAAT
1 AAAAAAATATAGCACTTAACACATACT-TACACTGATGTAAGTGAATAAAAT
6783319 AAAAAAAATATAGCACTTAACACATAC-TACACTGATGTAAGTGAATAAAAT
1 -AAAAAAATATAGCACTTAACACATACTTACACTGATGTAAGTGAATAAAAT
*
6783370 AAAAAAATATAACACTTAACACATACTTACACTGATGTAAGT
1 AAAAAAATATAGCACTTAACACATACTTACACTGATGTAAGT
6783412 ATGTACATAT
Statistics
Matches: 162, Mismatches: 13, Indels: 26
0.81 0.06 0.13
Matches are distributed among these distances:
45 19 0.12
46 6 0.04
47 13 0.08
48 14 0.09
49 4 0.02
50 34 0.21
51 72 0.44
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (51 bp):
AAAAAAATATAGCACTTAACACATACTTACACTGATGTAAGTGAATAAAAT
Found at i:6784012 original size:20 final size:20
Alignment explanation
Indices: 6783989--6784104 Score: 135
Period size: 20 Copynumber: 5.8 Consensus size: 20
6783979 TGCCTTTTTC
**
6783989 CAAATTCGCAACGCGGTAGT
1 CAAATTCGCAACGCGAAAGT
*
6784009 CAAATTCGCAACGAGAAAGT
1 CAAATTCGCAACGCGAAAGT
* *
6784029 CAAATTCGCAACACAAAAGT
1 CAAATTCGCAACGCGAAAGT
6784049 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
* * **
6784069 CAAATTCACAAC-TGAATTT
1 CAAATTCGCAACGCGAAAGT
*
6784088 TAAATTCGCAACGCGAA
1 CAAATTCGCAACGCGAA
6784105 TTTAATTTTG
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
19 14 0.17
20 66 0.82
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.19
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:6784885 original size:12 final size:12
Alignment explanation
Indices: 6784864--6784897 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6784854 ACCACATTTC
*
6784864 CAATACCAAACA
1 CAATATCAAACA
6784876 CAATATCAAACA
1 CAATATCAAACA
*
6784888 CAATCTCAAA
1 CAATATCAAA
6784898 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:6785074 original size:24 final size:24
Alignment explanation
Indices: 6785017--6785076 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
6785007 TAGTCAGTAT
6785017 TCGAAATTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
* *
6785041 -CTGGACTTTGATCTTGGTCAATAC
1 TC-GAAATTTGATCTTGGTCAATAC
*
6785065 TCGAATTTTGAT
1 TCGAAATTTGAT
6785077 GATGTGATGG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 1 0.03
24 28 0.93
25 1 0.03
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (24 bp):
TCGAAATTTGATCTTGGTCAATAC
Found at i:6787716 original size:20 final size:20
Alignment explanation
Indices: 6787693--6787768 Score: 125
Period size: 20 Copynumber: 3.8 Consensus size: 20
6787683 AATCGCAAAC
*
6787693 CGAATTTGACTTTCGCGTTG
1 CGAATTTGACTATCGCGTTG
*
6787713 CGAATTTGACTATCGCGTAG
1 CGAATTTGACTATCGCGTTG
*
6787733 CGAATTTGACTTTCGCGTTG
1 CGAATTTGACTATCGCGTTG
6787753 CGAATTTGACTATCGC
1 CGAATTTGACTATCGC
6787769 AACGCTTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.36
Consensus pattern (20 bp):
CGAATTTGACTATCGCGTTG
Found at i:6787739 original size:40 final size:40
Alignment explanation
Indices: 6787693--6787768 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
6787683 AATCGCAAAC
6787693 CGAATTTGACTTTCGCGTTGCGAATTTGACTATCGCGTAG
1 CGAATTTGACTTTCGCGTTGCGAATTTGACTATCGCGTAG
6787733 CGAATTTGACTTTCGCGTTGCGAATTTGACTATCGC
1 CGAATTTGACTTTCGCGTTGCGAATTTGACTATCGC
6787769 AACGCTTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.36
Consensus pattern (40 bp):
CGAATTTGACTTTCGCGTTGCGAATTTGACTATCGCGTAG
Found at i:6787786 original size:34 final size:38
Alignment explanation
Indices: 6787698--6787793 Score: 119
Period size: 40 Copynumber: 2.6 Consensus size: 38
6787688 CAAACCGAAT
* *
6787698 TTGACTTTCGCGTTGCGAATTTGACTATCGCGTAGCGAAT
1 TTGACTTTCGCGTTGCGAATTTGACTATCGCG-AACG-AC
6787738 TTGACTTTCGCGTTGCGAATTTGACTATCGC-AACG-C
1 TTGACTTTCGCGTTGCGAATTTGACTATCGCGAACGAC
*
6787774 TT-A-TTTCGCGTTGTGAATTT
1 TTGACTTTCGCGTTGCGAATTT
6787794 ACCTTCAACA
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
34 16 0.30
35 1 0.02
36 2 0.04
38 3 0.06
40 31 0.58
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.39
Consensus pattern (38 bp):
TTGACTTTCGCGTTGCGAATTTGACTATCGCGAACGAC
Found at i:6787887 original size:25 final size:25
Alignment explanation
Indices: 6787859--6787910 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
6787849 AAATCAATTA
*
6787859 AACATTATTGTGGGTACATTATTTG
1 AACATTATTATGGGTACATTATTTG
*
6787884 AACATTGTTATGGGTACATTATTTG
1 AACATTATTATGGGTACATTATTTG
6787909 AA
1 AA
6787911 AAAATAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (25 bp):
AACATTATTATGGGTACATTATTTG
Found at i:6788314 original size:12 final size:12
Alignment explanation
Indices: 6788295--6788340 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
6788285 GTAATTGGAG
6788295 TTTAAATTTCAA
1 TTTAAATTTCAA
* * *
6788307 TTTCAATTTGAG
1 TTTAAATTTCAA
6788319 TTTAAATTTCAA
1 TTTAAATTTCAA
*
6788331 TATAAATTTC
1 TTTAAATTTC
6788341 GGCTCCACTA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (12 bp):
TTTAAATTTCAA
Found at i:6788338 original size:24 final size:24
Alignment explanation
Indices: 6788287--6788339 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
6788277 TTTCATATGT
* * *
6788287 AATTGGAGTTTAAATTTCAATTTC
1 AATTTGAGTTTAAATTTCAATATA
6788311 AATTTGAGTTTAAATTTCAATATA
1 AATTTGAGTTTAAATTTCAATATA
6788335 AATTT
1 AATTT
6788340 CGGCTCCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTAAATTTCAATATA
Found at i:6788685 original size:39 final size:39
Alignment explanation
Indices: 6788642--6788728 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
6788632 TCCGATGCTC
6788642 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
*
6788681 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
6788720 ATCAAAATC
1 ATCAAAATC
6788729 TACAACTTGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:6788987 original size:20 final size:20
Alignment explanation
Indices: 6788942--6788980 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6788932 AATAAGCGTT
*
6788942 GCGATAGTCAAATTCGCAAC
1 GCGAAAGTCAAATTCGCAAC
6788962 GCGAAAGTCAAATTCGCAA
1 GCGAAAGTCAAATTCGCAA
6788981 ACCGAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (20 bp):
GCGAAAGTCAAATTCGCAAC
Found at i:6789117 original size:14 final size:14
Alignment explanation
Indices: 6789098--6789137 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
6789088 ATAATTCTTA
6789098 TTTACAAATCAACT
1 TTTACAAATCAACT
6789112 TTTACAAATCAACT
1 TTTACAAATCAACT
6789126 TTTACAAATCAA
1 TTTACAAATCAA
6789138 TTAATCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.35
Consensus pattern (14 bp):
TTTACAAATCAACT
Found at i:6790591 original size:21 final size:21
Alignment explanation
Indices: 6790544--6790662 Score: 107
Period size: 21 Copynumber: 5.7 Consensus size: 21
6790534 GTGAATCGGG
* * * *
6790544 CTCTTGAACGACGGGCGGGAC
1 CTCTTGAACGATGAGAGGGGC
*
6790565 CACTTGAACGATGAGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
* *
6790586 CTCTTGAACGGTGTGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
* *
6790607 TTCTTCG-ATGATGAGAGGGGC
1 CTCTT-GAACGATGAGAGGGGC
*
6790628 CTCTTGAACGAT-AGGAGGTGC
1 CTCTTGAACGATGA-GAGGGGC
*
6790649 CTCTTGAATGATGA
1 CTCTTGAACGATGA
6790663 TAGGTGCATC
Statistics
Matches: 78, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
20 2 0.03
21 74 0.95
22 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.36, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGGC
Found at i:6790660 original size:42 final size:42
Alignment explanation
Indices: 6790544--6790662 Score: 125
Period size: 42 Copynumber: 2.8 Consensus size: 42
6790534 GTGAATCGGG
* * * * * *
6790544 CTCTTGAACGACGGGCGGGACCACTTGAACGATGAGAGGGGC
1 CTCTTGAACGATGTGAGGGGCCTCTTGAATGATGAGAGGGGC
* *
6790586 CTCTTGAACGGTGTGAGGGGCTTCTTCG-ATGATGAGAGGGGC
1 CTCTTGAACGATGTGAGGGGCCTCTT-GAATGATGAGAGGGGC
*
6790628 CTCTTGAACGATAG-GAGGTGCCTCTTGAATGATGA
1 CTCTTGAACGAT-GTGAGGGGCCTCTTGAATGATGA
6790663 TAGGTGCATC
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
41 1 0.02
42 60 0.95
43 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.36, T:0.23
Consensus pattern (42 bp):
CTCTTGAACGATGTGAGGGGCCTCTTGAATGATGAGAGGGGC
Found at i:6790838 original size:4 final size:4
Alignment explanation
Indices: 6790806--6790855 Score: 64
Period size: 4 Copynumber: 12.5 Consensus size: 4
6790796 GGGCCACTGA
* * * *
6790806 AAAT AAAT TAAT ACAT AAAT CAGT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
6790854 AA
1 AA
6790856 TGTCGAAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:6792864 original size:19 final size:19
Alignment explanation
Indices: 6792813--6792866 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
6792803 AGAAGTTTCT
*
6792813 GAAACTTAAATTCGCAACGC
1 GAAAC-TAAAATCGCAACGC
*
6792833 GAAAATGAAAATCGCAACGC
1 GAAACT-AAAATCGCAACGC
6792853 GAAACTAAAATCGC
1 GAAACTAAAATCGC
6792867 GTTGCGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.30
20 21 0.70
ACGTcount: A:0.46, C:0.22, G:0.17, T:0.15
Consensus pattern (19 bp):
GAAACTAAAATCGCAACGC
Found at i:6793181 original size:22 final size:22
Alignment explanation
Indices: 6793153--6793203 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
6793143 TATGGAGATA
6793153 GACGGATTTCGTCGGAAATGGG
1 GACGGATTTCGTCGGAAATGGG
*
6793175 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAAATGGG
6793197 GACGGAT
1 GACGGAT
6793204 GTCGCTGTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.22, C:0.14, G:0.43, T:0.22
Consensus pattern (22 bp):
GACGGATTTCGTCGGAAATGGG
Found at i:6793356 original size:20 final size:20
Alignment explanation
Indices: 6793331--6793515 Score: 198
Period size: 20 Copynumber: 9.2 Consensus size: 20
6793321 GCGTACAAAC
*
6793331 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
6793351 ATTTGACTATCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
6793371 ATTTGACTATCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
* *
6793391 ATTTGACTTTCGCATTGCGA
1 ATTTGACTATCGCGTTGCGA
*
6793411 ATTTGACTATCGCGTTGTGA
1 ATTTGACTATCGCGTTGCGA
** ***
6793431 ATTTTGAAAATCGCAAAGCG-
1 A-TTTGACTATCGCGTTGCGA
6793451 ATTT-ACATATTCGCGTTGCGAA
1 ATTTGAC-TA-TCGCGTTGCG-A
* *
6793473 ATTGGAATA-CGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
*
6793492 ATTTGA-GATCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
6793511 ATTTG
1 ATTTG
6793516 TTGGTCATTT
Statistics
Matches: 137, Mismatches: 21, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
18 2 0.01
19 25 0.18
20 92 0.67
21 12 0.09
22 5 0.04
23 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (20 bp):
ATTTGACTATCGCGTTGCGA
Found at i:6797320 original size:2 final size:2
Alignment explanation
Indices: 6797263--6797300 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
6797253 ATTACCCTGA
6797263 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
6797301 GTGCGTGTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 32 0.94
3 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6800028 original size:50 final size:49
Alignment explanation
Indices: 6799967--6800073 Score: 169
Period size: 50 Copynumber: 2.2 Consensus size: 49
6799957 TTGTCACGAG
*
6799967 GGGGTGACGAATTCCATAAAATATATTAAAAAATTAGAACTCATTATGA
1 GGGGTGACGAATTCCATAAAATATATTAAAAAATTAGAACTCATCATGA
* * *
6800016 GGGGATGACGAATTCGATAAAATATATTAAAAAATTAGAATTCGTCATGA
1 GGGG-TGACGAATTCCATAAAATATATTAAAAAATTAGAACTCATCATGA
6800066 GGGGTGAC
1 GGGGTGAC
6800074 AAGTTTCACC
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
49 8 0.15
50 45 0.85
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.27
Consensus pattern (49 bp):
GGGGTGACGAATTCCATAAAATATATTAAAAAATTAGAACTCATCATGA
Found at i:6803531 original size:3 final size:3
Alignment explanation
Indices: 6803523--6803570 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
6803513 CCCTTACATT
6803523 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
6803571 ATAACAGCAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (3 bp):
CTC
Found at i:6803635 original size:3 final size:3
Alignment explanation
Indices: 6803627--6803705 Score: 149
Period size: 3 Copynumber: 26.3 Consensus size: 3
6803617 TTACATTTGA
*
6803627 TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
6803675 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
6803706 CCTCTCTGAA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:6805403 original size:15 final size:16
Alignment explanation
Indices: 6805385--6805417 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
6805375 GTGGCAGATC
6805385 AAAATCCAG-ACGGGA
1 AAAATCCAGAACGGGA
6805400 AAAATCCAGAACGGGA
1 AAAATCCAGAACGGGA
6805416 AA
1 AA
6805418 GAAAGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.52, C:0.18, G:0.24, T:0.06
Consensus pattern (16 bp):
AAAATCCAGAACGGGA
Found at i:6809731 original size:36 final size:36
Alignment explanation
Indices: 6809684--6809785 Score: 152
Period size: 36 Copynumber: 2.9 Consensus size: 36
6809674 TCTACAGGAG
* * *
6809684 ATAGTT-TTCTTCTAAATATCTAATGCATCTATGGT
1 ATAGTTATTCTTCGAAATATCTCATGCATCTAGGGT
*
6809719 ATAGTTATTCTTCGAAATATCTCATGAATCTAGGGT
1 ATAGTTATTCTTCGAAATATCTCATGCATCTAGGGT
*
6809755 ATAGTTATTCTTCGAAATATTTCATGCATCT
1 ATAGTTATTCTTCGAAATATCTCATGCATCT
6809786 GAGGCGTTTC
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
35 6 0.10
36 54 0.90
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (36 bp):
ATAGTTATTCTTCGAAATATCTCATGCATCTAGGGT
Found at i:6812671 original size:23 final size:23
Alignment explanation
Indices: 6812645--6812692 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
6812635 ATAAAGTACA
*
6812645 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
6812668 ATAATGTAATAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
6812691 AT
1 AT
6812693 TTACCTAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:6813148 original size:23 final size:23
Alignment explanation
Indices: 6813122--6813180 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
6813112 AACCACTACC
6813122 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
6813145 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
6813168 TATTACATCATAT
1 TATTACATTATAT
6813181 TTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:6813542 original size:434 final size:434
Alignment explanation
Indices: 6812759--6813826 Score: 2029
Period size: 434 Copynumber: 2.5 Consensus size: 434
6812749 TATTACATTA
6812759 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
6812824 TTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
* *
6812888 ATTTACACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
*
6812953 A-TA-A-T-AATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
196 ACAACATTAAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
6813014 AATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGAC
261 AATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGAC
6813079 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
326 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
6813144 ATATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 ATATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
6813188 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
6813253 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
6813318 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
6813383 ACAACATTAAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
196 ACAACATTAAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
*
6813448 AATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
261 AATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGAC
6813513 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
326 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
*
6813578 CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 ATATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
6813622 TATTATATTGAAAGTGTCCATACCTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
6813687 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
6813752 ATTTGCACAAAAAATTATTTTATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
6813817 ACAACATTAA
196 ACAACATTAA
6813827 CCAAAGATAA
Statistics
Matches: 625, Mismatches: 9, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
429 76 0.12
430 116 0.19
431 1 0.00
432 1 0.00
433 1 0.00
434 430 0.69
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (434 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
ACAACATTAAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
AATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGAC
ACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
ATATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:6813578 original size:23 final size:23
Alignment explanation
Indices: 6813552--6813614 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
6813542 ATATAACCAC
6813552 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
6813575 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
6813598 TACCTATTACATCATAT
1 TACCTATTACATTATAT
6813615 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:6814091 original size:39 final size:39
Alignment explanation
Indices: 6814037--6814122 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
6814027 CAAGTTGTAG
*
6814037 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
6814076 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
6814115 ATTTTGAT
1 ATTTTGAT
6814123 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:6814402 original size:18 final size:18
Alignment explanation
Indices: 6814379--6814415 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6814369 CGAAATATAT
6814379 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
6814397 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
6814415 A
1 A
6814416 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:6814868 original size:28 final size:26
Alignment explanation
Indices: 6814836--6814897 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 26
6814826 GATAGATACT
*
6814836 TTACAATATATTATATAAGCGCTACCTA
1 TTACAATATATTATA-AA-CGATACCTA
6814864 TTAC-AT-TA-TATAAACGATACCTA
1 TTACAATATATTATAAACGATACCTA
*
6814887 TTACATTATAT
1 TTACAATATAT
6814898 ACTTGTAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
23 12 0.41
24 3 0.10
25 6 0.21
26 2 0.07
27 2 0.07
28 4 0.14
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (26 bp):
TTACAATATATTATAAACGATACCTA
Found at i:6814875 original size:23 final size:23
Alignment explanation
Indices: 6814845--6814898 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
6814835 TTTACAATAT
* *
6814845 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAACGATACCTATTAC
6814868 ATTATATAAACGATACCTATTAC
1 ATTATATAAACGATACCTATTAC
6814891 ATTATATA
1 ATTATATA
6814899 CTTGTAGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.37
Consensus pattern (23 bp):
ATTATATAAACGATACCTATTAC
Found at i:6818316 original size:199 final size:198
Alignment explanation
Indices: 6817562--6818501 Score: 1785
Period size: 199 Copynumber: 4.7 Consensus size: 198
6817552 TTCTACACTT
6817562 TATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGGAAATAAATATCGACACAA
1 TATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAATAAATATCGACACAA
6817626 ACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAATTGTACCGGT
66 ACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAATTGTACCGGT
*
6817691 TAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTT
131 TAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGATCGACACTTTTT
6817756 ATA
196 ATA
6817759 TATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGGAAATAAATATCGACACAA
1 TATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAATAAATATCGACACAA
6817823 ACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAATTGTACCGGT
66 ACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAATTGTACCGGT
* *
6817888 TAGAATGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTT
131 TAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGATCGACACTTTTT
6817953 ATA
196 ATA
*
6817956 TATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAATAAATATCGACACAA
1 TATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAATAAATATCGACACAA
6818021 ACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAATTGTACCGGT
66 ACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAATTGTACCGGT
6818086 TAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGATCGACACTTTTT
131 TAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGATCGACACTTTTT
6818151 ATA
196 ATA
*
6818154 TATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACA
1 TATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAATAAATATCGACACA
6818219 AACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAATTGTACCGG
65 AACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAATTGTACCGG
6818284 TTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGATCGACACTTTT
130 TTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGATCGACACTTTT
6818349 TATA
195 TATA
*
6818353 TATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACA
1 TATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAATAAATATCGACACA
*
6818418 AACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAATCGGTATAATTGTACCGG
65 AACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAATTGTACCGG
6818483 TTAGATTGAAAAATTACAT
130 TTAGATTGAAAAATTACAT
6818502 CCTTTTGGCC
Statistics
Matches: 734, Mismatches: 7, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
197 214 0.29
198 222 0.30
199 298 0.41
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (198 bp):
TATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAATAAATATCGACACAA
ACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAATTGTACCGGT
TAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGATCGACACTTTTT
ATA
Found at i:6818672 original size:19 final size:19
Alignment explanation
Indices: 6818626--6818674 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
6818616 TTATATTCAC
* *
6818626 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATAGT
*
6818645 ATACAAAATTATAAATATT
1 ATACAAAATTATAAATAGT
6818664 ATACAAAATTA
1 ATACAAAATTA
6818675 ACCCTACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATAGT
Found at i:6820507 original size:33 final size:33
Alignment explanation
Indices: 6820470--6820535 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
6820460 CATCTTAATA
*
6820470 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
6820503 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
6820536 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:6820609 original size:21 final size:21
Alignment explanation
Indices: 6820569--6820633 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
6820559 CCCCTTATGC
* *
6820569 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
6820590 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
6820611 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
6820632 CT
1 CT
6820634 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:6822883 original size:17 final size:18
Alignment explanation
Indices: 6822861--6822903 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
6822851 ATATATCCGG
6822861 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
6822878 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
6822898 TATCAT
1 TATCAT
6822904 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:6822921 original size:20 final size:19
Alignment explanation
Indices: 6822866--6822912 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
6822856 TCCGGTATCA
6822866 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
6822885 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
6822906 TTTTACC
1 TTTTACC
6822913 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:6823078 original size:20 final size:19
Alignment explanation
Indices: 6823034--6823078 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
6823024 CACTTTTAAA
6823034 TTTACCGGTTTTATCATTT
1 TTTACCGGTTTTATCATTT
6823053 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCAT-TT
6823074 TTTAC
1 TTTAC
6823079 ATGGTATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 20 0.83
21 3 0.12
ACGTcount: A:0.18, C:0.16, G:0.11, T:0.56
Consensus pattern (19 bp):
TTTACCGGTTTTATCATTT
Found at i:6826509 original size:64 final size:64
Alignment explanation
Indices: 6826408--6826536 Score: 240
Period size: 64 Copynumber: 2.0 Consensus size: 64
6826398 CATTTTTATG
6826408 TCTTCCGTCGTTGGATCGTTACTAAACGTTAATATAGAGACAAATTCATAAATATTTTTCAAAA
1 TCTTCCGTCGTTGGATCGTTACTAAACGTTAATATAGAGACAAATTCATAAATATTTTTCAAAA
* *
6826472 TCTTCCGTCGTTGGATCGTTACTAAACGTTAATATAGAGATAAATTCATAAATATTTTTTAAAA
1 TCTTCCGTCGTTGGATCGTTACTAAACGTTAATATAGAGACAAATTCATAAATATTTTTCAAAA
6826536 T
1 T
6826537 AGACACATAT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (64 bp):
TCTTCCGTCGTTGGATCGTTACTAAACGTTAATATAGAGACAAATTCATAAATATTTTTCAAAA
Found at i:6829146 original size:15 final size:15
Alignment explanation
Indices: 6829123--6829186 Score: 58
Period size: 14 Copynumber: 4.1 Consensus size: 15
6829113 TTTTTAAATA
*
6829123 ATTATTATATTTTAT
1 ATTAATATATTTTAT
6829138 ATTAATATA-TTTAT
1 ATTAATATATTTTAT
* *
6829152 ATAAATATTATTTTTT
1 ATTAATA-TATTTTAT
*
6829168 ATTAAAATAATATTTAT
1 ATTAATAT-AT-TTTAT
6829185 AT
1 AT
6829187 AATTATTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
14 11 0.28
15 11 0.28
16 11 0.28
17 6 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTAATATATTTTAT
Found at i:6829168 original size:32 final size:33
Alignment explanation
Indices: 6829115--6829202 Score: 110
Period size: 33 Copynumber: 2.7 Consensus size: 33
6829105 TTAGTATTTT
*
6829115 TTTAAATAATTATTATATTTTATATT--AAT-ATA
1 TTTATATAATTATTAT-TTTT-TATTAAAATAATA
*
6829147 TTTATATAAATATTATTTTTTATTAAAATAATA
1 TTTATATAATTATTATTTTTTATTAAAATAATA
6829180 TTTATATAATTATTATTTATTTA
1 TTTATATAATTATTATTT-TTTA
6829203 GAATTATTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
30 4 0.08
31 4 0.08
32 17 0.35
33 20 0.41
34 4 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (33 bp):
TTTATATAATTATTATTTTTTATTAAAATAATA
Found at i:6834855 original size:14 final size:15
Alignment explanation
Indices: 6834825--6834859 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
6834815 CATGCCTTCC
6834825 ATTATTTCCTATTCA
1 ATTATTTCCTATTCA
6834840 ATTATTTCCT-TTCA
1 ATTATTTCCTATTCA
6834854 ATTATT
1 ATTATT
6834860 ACCCAACCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.26, C:0.17, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTATTTCCTATTCA
Found at i:6834986 original size:16 final size:16
Alignment explanation
Indices: 6834965--6835005 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
6834955 TTACTTTCAC
6834965 ATTCTTTCTTCTATTA
1 ATTCTTTCTTCTATTA
6834981 ATTCTTTCTTCTATTA
1 ATTCTTTCTTCTATTA
6834997 ATTCTTTCT
1 ATTCTTTCT
6835006 ATCAAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTCTTTCTTCTATTA
Found at i:6835433 original size:14 final size:15
Alignment explanation
Indices: 6835399--6835437 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
6835389 TAAATCGTAT
*
6835399 AACTCTCAATCTTTGA
1 AACTCTCAATC-TTCA
6835415 AACTCTCAATC-TCA
1 AACTCTCAATCTTCA
6835429 AACTCTCAA
1 AACTCTCAA
6835438 AATGAGGCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
16 11 0.50
ACGTcount: A:0.36, C:0.31, G:0.03, T:0.31
Consensus pattern (15 bp):
AACTCTCAATCTTCA
Found at i:6836676 original size:27 final size:27
Alignment explanation
Indices: 6836626--6836677 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
6836616 TAATTAAATA
* *
6836626 AATAGTAAACAAATTAAAATATAAACT
1 AATACTAAACAAATTAAAAAATAAACT
6836653 AATACTAAA-AAATTAAATAAATAAA
1 AATACTAAACAAATTAAA-AAATAAA
6836678 ATATTCACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (27 bp):
AATACTAAACAAATTAAAAAATAAACT
Found at i:6841457 original size:20 final size:20
Alignment explanation
Indices: 6841432--6841484 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
6841422 AATTGGGAAA
6841432 ATCGCAATACGATACTGACT
1 ATCGCAATACGATACTGACT
*
6841452 ATCGCAATACGATACTTACT
1 ATCGCAATACGATACTGACT
6841472 ATCGCAATACGAT
1 ATCGCAATACGAT
6841485 TTACGTATTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (20 bp):
ATCGCAATACGATACTGACT
Found at i:6841508 original size:122 final size:122
Alignment explanation
Indices: 6841374--6841610 Score: 320
Period size: 122 Copynumber: 1.9 Consensus size: 122
6841364 TCTACAGTGT
* *
6841374 CGTTGCGATTTTCCCAATTCGCAATGCGAATAAGTAAATCGCAACGCGAATT-GGGAAAATCGCA
1 CGTTGCGATTTTCACAAATCGCAATGCGAATAAGTAAATCGCAACGCGAATTAGGG-AAATCGCA
*
6841438 ATACG-ATAC-TGACTATCGCAATACG-ATACTTACTATCGCAATACGATTTACGTATTCG
65 ATACGAATACGT-A-AATCGCAATACGAAT-CTTACTATCGCAATACGATTTACGTATTCG
* * *
6841496 CGTTGCGATTTTCATAAATCGCAATGCGATTAAGTAAATCGCAATGCGAATTAGGGAAATCGCAA
1 CGTTGCGATTTTCACAAATCGCAATGCGAATAAGTAAATCGCAACGCGAATTAGGGAAATCGCAA
** * *
6841561 TGTGAATACGTAAATCGCAATGCGAATCTTACTATCGCAATGCGATTTAC
66 TACGAATACGTAAATCGCAATACGAATCTTACTATCGCAATACGATTTAC
6841611 ATAGCGCCAT
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
122 90 0.89
123 10 0.10
124 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (122 bp):
CGTTGCGATTTTCACAAATCGCAATGCGAATAAGTAAATCGCAACGCGAATTAGGGAAATCGCAA
TACGAATACGTAAATCGCAATACGAATCTTACTATCGCAATACGATTTACGTATTCG
Found at i:6841587 original size:20 final size:20
Alignment explanation
Indices: 6841510--6841605 Score: 104
Period size: 20 Copynumber: 4.8 Consensus size: 20
6841500 GCGATTTTCA
* *
6841510 TAAATCGCAATGCGATTAAG
1 TAAATCGCAATGCGAATACG
*
6841530 TAAATCGCAATGCGAATTAGG
1 TAAATCGCAATGCGAA-TACG
* *
6841551 GAAATCGCAATGTGAATACG
1 TAAATCGCAATGCGAATACG
*
6841571 TAAATCGCAATGCGAAT-CT
1 TAAATCGCAATGCGAATACG
*
6841590 TACTATCGCAATGCGA
1 TA-AATCGCAATGCGA
6841606 TTTACATAGC
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
19 3 0.05
20 45 0.69
21 17 0.26
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.24
Consensus pattern (20 bp):
TAAATCGCAATGCGAATACG
Found at i:6842153 original size:20 final size:20
Alignment explanation
Indices: 6842128--6842176 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
6842118 GAGAATGAAA
*
6842128 ATCGCAATGCGGAAATAACT
1 ATCGCAACGCGGAAATAACT
6842148 ATCGCAACGCGGAAATAACT
1 ATCGCAACGCGGAAATAACT
6842168 ATCGCAACG
1 ATCGCAACG
6842177 AGAGAATCGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGGAAATAACT
Found at i:6842205 original size:19 final size:19
Alignment explanation
Indices: 6842181--6842225 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
6842171 GCAACGAGAG
*
6842181 AATCGCAAAGCGAAATAAA
1 AATCGCAAAGCGAAACAAA
* *
6842200 AATCGCAACGCGAAACCAA
1 AATCGCAAAGCGAAACAAA
6842219 AATCGCA
1 AATCGCA
6842226 TTGCGATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.51, C:0.24, G:0.16, T:0.09
Consensus pattern (19 bp):
AATCGCAAAGCGAAACAAA
Found at i:6842296 original size:20 final size:19
Alignment explanation
Indices: 6842221--6842319 Score: 112
Period size: 19 Copynumber: 5.1 Consensus size: 19
6842211 GAAACCAAAA
*
6842221 TCGCATTGCGATGT-TCATT
1 TCGCGTTGCGAT-TATCATT
*
6842240 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTATCATT
6842259 TCGCGTTGCGA-TAGTCATT
1 TCGCGTTGCGATTA-TCATT
6842278 TCCGCGTTGCGATTATCATT
1 T-CGCGTTGCGATTATCATT
* *
6842298 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTATCATT
6842318 TC
1 TC
6842320 AACCAAATGA
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
18 2 0.03
19 35 0.49
20 31 0.44
21 3 0.04
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTATCATT
Found at i:6844529 original size:21 final size:20
Alignment explanation
Indices: 6844470--6844530 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
6844460 CTCGAGAGTC
*
6844470 CCCTCCCACCGTTCAAGAGG
1 CCCTCTCACCGTTCAAGAGG
* * *
6844490 CCACTGTCATCGTTGAAGAGG
1 CC-CTCTCACCGTTCAAGAGG
*
6844511 TCCCTCTCACCATTCAAGAG
1 -CCCTCTCACCGTTCAAGAG
6844531 CCCGATTCAC
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.23, C:0.36, G:0.20, T:0.21
Consensus pattern (20 bp):
CCCTCTCACCGTTCAAGAGG
Found at i:6846053 original size:14 final size:14
Alignment explanation
Indices: 6846034--6846090 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
6846024 GCGAAATGAA
6846034 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
6846048 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
6846067 AATCGCAACGAGAG
1 AATCGCAACGAGAG
6846081 AATCGCAACG
1 AATCGCAACG
6846091 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:6846061 original size:33 final size:33
Alignment explanation
Indices: 6846016--6846105 Score: 153
Period size: 33 Copynumber: 2.7 Consensus size: 33
6846006 AAAAAGTACT
*
6846016 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
6846049 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
6846082 ATCGCAACGCGAAATTAAATTCGC
1 ATCGCAACGCGAAATGAAAATCGC
6846106 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:6846075 original size:19 final size:19
Alignment explanation
Indices: 6846016--6846076 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
6846006 AAAAAGTACT
*
6846016 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
6846035 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
6846049 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
6846068 ATCGCAACG
1 ATCGCAACG
6846077 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:6846123 original size:19 final size:19
Alignment explanation
Indices: 6846101--6846231 Score: 96
Period size: 19 Copynumber: 7.7 Consensus size: 19
6846091 CGAAATTAAA
*
6846101 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
6846120 TTCGCATTGCGA--TTCA-
1 TTCGCATTGCGATTTTCAT
*
6846136 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
6846153 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
*
6846167 TAC-CATATGCGATTTTCAT
1 TTCGCAT-TGCGATTTTCAT
6846186 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
6846202 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
6846219 TTCGCATTGCGAT
1 TTCGCATTGCGAT
6846232 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 9, Indels: 34
0.67 0.07 0.26
Matches are distributed among these distances:
13 3 0.03
14 20 0.23
16 14 0.16
17 14 0.16
19 32 0.37
20 3 0.03
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Done.