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 10 of 40
Found at i:2014616 original size:25 final size:26
Alignment explanation
Indices: 2014586--2014634 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
2014576 ATTTTATGTT
* *
2014586 AAGAAAA-GAATTTTTAAAATTTTTA
1 AAGAAAATAAATTTATAAAATTTTTA
2014611 AAGAAAATAAATTTATAAAATTTT
1 AAGAAAATAAATTTATAAAATTTT
2014635 AAGAAGTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (26 bp):
AAGAAAATAAATTTATAAAATTTTTA
Found at i:2014638 original size:24 final size:24
Alignment explanation
Indices: 2014584--2014639 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
2014574 TAATTTTATG
* *
2014584 TTAAGAAAAGAATTTTTAAAATTT
1 TTAAGAAAAAAATTTATAAAATTT
2014608 TTAAAGAAAATAAATTTATAAAA-TT
1 TT-AAGAAAA-AAATTTATAAAATTT
2014633 TTAAGAA
1 TTAAGAA
2014640 GTGAATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 7 0.25
25 11 0.39
26 10 0.36
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (24 bp):
TTAAGAAAAAAATTTATAAAATTT
Found at i:2016131 original size:3 final size:3
Alignment explanation
Indices: 2016125--2016158 Score: 50
Period size: 3 Copynumber: 10.7 Consensus size: 3
2016115 AGGACAACAA
2016125 AAT AAT AAT AAT AAT AAT AAT AAT GAACT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT -AA-T AAT AA
2016159 ACGGTTAGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 24 0.83
4 4 0.14
5 1 0.03
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:2017028 original size:2 final size:2
Alignment explanation
Indices: 2017021--2017048 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2017011 TTCCTTTTTA
2017021 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2017049 TTAATTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2017535 original size:31 final size:31
Alignment explanation
Indices: 2017496--2017572 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
2017486 TCCAAAAAAC
* *
2017496 ATAAGATTTGGTCACTTTT-GTTTCGTTTTA
1 ATAAGATTTGGTCACTTTTCATTTCATTTTA
2017526 ATTAAGATTTGGTCA-TTTTCATTTCATTTTA
1 A-TAAGATTTGGTCACTTTTCATTTCATTTTA
**
2017557 ATAAGATACGGTCACT
1 ATAAGATTTGGTCACT
2017573 GAAGGTTAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 16 0.40
31 24 0.60
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.48
Consensus pattern (31 bp):
ATAAGATTTGGTCACTTTTCATTTCATTTTA
Found at i:2018749 original size:31 final size:31
Alignment explanation
Indices: 2018706--2018812 Score: 160
Period size: 31 Copynumber: 3.5 Consensus size: 31
2018696 CTAACCTTAA
*
2018706 GTGACCACATCTTAATTAAAATGAAACGAAG
1 GTGACCACATCTTAATTAAAACGAAACGAAG
*
2018737 GTGACCATATCTTAATTAAAACGAAACGAAG
1 GTGACCACATCTTAATTAAAACGAAACGAAG
* *
2018768 GTGACCACATCTTAATTAAAACGAAATGAAA
1 GTGACCACATCTTAATTAAAACGAAACGAAG
* *
2018799 ATGACCAAATCTTA
1 GTGACCACATCTTA
2018813 TTTTTTTGAA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 69 1.00
ACGTcount: A:0.46, C:0.17, G:0.14, T:0.23
Consensus pattern (31 bp):
GTGACCACATCTTAATTAAAACGAAACGAAG
Found at i:2024560 original size:15 final size:16
Alignment explanation
Indices: 2024535--2024564 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2024525 AGTTACAATG
2024535 GCAATATGGAAATGTA
1 GCAATATGGAAATGTA
2024551 GCAA-ATGGAAATGT
1 GCAATATGGAAATGT
2024565 TATGACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.07, G:0.27, T:0.23
Consensus pattern (16 bp):
GCAATATGGAAATGTA
Found at i:2031566 original size:18 final size:17
Alignment explanation
Indices: 2031539--2031579 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
2031529 TAAGATTATA
* *
2031539 TGATAAAATATAATTAG
1 TGATAAAATATAAGTAC
2031556 TGATAATAATATAAGTAC
1 TGATAA-AATATAAGTAC
2031574 TGATAA
1 TGATAA
2031580 GCATGTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.51, C:0.02, G:0.12, T:0.34
Consensus pattern (17 bp):
TGATAAAATATAAGTAC
Found at i:2037087 original size:21 final size:23
Alignment explanation
Indices: 2037041--2037093 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
2037031 AGAACACGTG
*
2037041 GTGAAAAAAACAGCTGGCCTTGT
1 GTGAAAAAAACAGCTGACCTTGT
*
2037064 GTGAAAAGAACAGCTGACCTTGT
1 GTGAAAAAAACAGCTGACCTTGT
2037087 GTGAAAA
1 GTGAAAA
2037094 TATCTTCAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (23 bp):
GTGAAAAAAACAGCTGACCTTGT
Found at i:2040263 original size:2 final size:2
Alignment explanation
Indices: 2040250--2040320 Score: 69
Period size: 2 Copynumber: 37.5 Consensus size: 2
2040240 CTGAGCGGCG
* *
2040250 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
2040291 TA AA TA TA -A TA AA TA T- TA T- TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2040321 TATTATTATT
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
1 4 0.07
2 51 0.93
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2040310 original size:3 final size:3
Alignment explanation
Indices: 2040304--2040346 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
2040294 ATATAATAAA
2040304 TAT TAT TA- TAT T-T ATAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2040347 ATAGTTATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 3 0.08
3 33 0.89
4 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2041676 original size:18 final size:18
Alignment explanation
Indices: 2041653--2041691 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
2041643 ATTTTAAACC
2041653 ATTAATTATTATTATTA-T
1 ATTAATTA-TATTATTAGT
2041671 ATTAATTATATTATTAGT
1 ATTAATTATATTATTAGT
2041689 ATT
1 ATT
2041692 TATATCTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
ATTAATTATATTATTAGT
Found at i:2041767 original size:16 final size:15
Alignment explanation
Indices: 2041746--2041775 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2041736 ACCTAAGTAA
2041746 TTTTAATATTTATTAT
1 TTTTAATA-TTATTAT
2041762 TTTTAATATTATTA
1 TTTTAATATTATTA
2041776 ATTAGTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTAATATTATTAT
Found at i:2042265 original size:11 final size:11
Alignment explanation
Indices: 2042249--2042282 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
2042239 CAGTAAATAA
*
2042249 TAAATTTGTTT
1 TAAATTTATTT
2042260 TAAATTTATTT
1 TAAATTTATTT
2042271 T-AATTTATTT
1 TAAATTTATTT
2042281 TA
1 TA
2042283 TTATTTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (11 bp):
TAAATTTATTT
Found at i:2053191 original size:36 final size:38
Alignment explanation
Indices: 2053144--2053233 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 38
2053134 AAGGGGAAAC
*
2053144 AAGC-AATGCAAATCAAGCCTTCAC-AAAAGAGTAGTG
1 AAGCAAATGCAAATCAAGCATTCACAAAAAGAGTAGTG
2053180 AA-CAAATGCAAATTC-AGCATTCACAAAAAGAGTAGTG
1 AAGCAAATGCAAA-TCAAGCATTCACAAAAAGAGTAGTG
2053217 AAGCAAGAT-CAAATCAA
1 AAGCAA-ATGCAAATCAA
2053234 AAGTTCGATC
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
35 1 0.02
36 18 0.38
37 18 0.38
38 8 0.17
39 2 0.04
ACGTcount: A:0.49, C:0.18, G:0.17, T:0.17
Consensus pattern (38 bp):
AAGCAAATGCAAATCAAGCATTCACAAAAAGAGTAGTG
Found at i:2053218 original size:37 final size:36
Alignment explanation
Indices: 2053148--2053233 Score: 113
Period size: 37 Copynumber: 2.3 Consensus size: 36
2053138 GGAAACAAGC
*
2053148 AATGCAAATCAAGCCTTCACAAAAGAGTAGTGAACA
1 AATGCAAATCAAGCATTCACAAAAGAGTAGTGAACA
2053184 AATGCAAATTC-AGCATTCACAAAAAGAGTAGTGAAGCA
1 AATGCAAA-TCAAGCATTCAC-AAAAGAGTAGTGAA-CA
2053222 AGAT-CAAATCAA
1 A-ATGCAAATCAA
2053234 AAGTTCGATC
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
36 16 0.36
37 18 0.41
38 8 0.18
39 2 0.05
ACGTcount: A:0.49, C:0.17, G:0.16, T:0.17
Consensus pattern (36 bp):
AATGCAAATCAAGCATTCACAAAAGAGTAGTGAACA
Found at i:2053433 original size:3 final size:3
Alignment explanation
Indices: 2053422--2053490 Score: 131
Period size: 3 Copynumber: 23.3 Consensus size: 3
2053412 ATATAATAAA
2053422 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2053469 TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
2053491 CTTAATAGTT
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 63 0.97
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2054637 original size:2 final size:2
Alignment explanation
Indices: 2054630--2054675 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
2054620 ATCCTTACTT
2054630 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
2054672 TA TA
1 TA TA
2054676 GGATAAATAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2054845 original size:18 final size:18
Alignment explanation
Indices: 2054822--2054860 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
2054812 ATTTTAAACC
2054822 ATTAATTATTATTATTA-T
1 ATTAATTA-TATTATTAGT
2054840 ATTAATTATATTATTAGT
1 ATTAATTATATTATTAGT
2054858 ATT
1 ATT
2054861 TATATCTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
ATTAATTATATTATTAGT
Found at i:2054936 original size:16 final size:15
Alignment explanation
Indices: 2054915--2054944 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2054905 ACCTAAGTAA
2054915 TTTTAATATTTATTAT
1 TTTTAATA-TTATTAT
2054931 TTTTAATATTATTA
1 TTTTAATATTATTA
2054945 ATTAGTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTAATATTATTAT
Found at i:2059882 original size:21 final size:22
Alignment explanation
Indices: 2059830--2059882 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
2059820 TATTTCTGTC
*
2059830 AATAATAAATTTTAAATAATAATG
1 AATAA-AAA-TTTAAATAAAAATG
*
2059854 AATCAAAATTTAAA-AAAAATG
1 AATAAAAATTTAAATAAAAATG
*
2059875 ACTAAAAA
1 AATAAAAA
2059883 AGTGAACAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 12 0.48
22 6 0.24
23 3 0.12
24 4 0.16
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (22 bp):
AATAAAAATTTAAATAAAAATG
Found at i:2060116 original size:38 final size:38
Alignment explanation
Indices: 2060074--2060150 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
2060064 TAAATTTTAA
2060074 TCAACATTTGTGTACTTTACCCATTAGCAATACAAGCG
1 TCAACATTTGTGTACTTTACCCATTAGCAATACAAGCG
2060112 TCAACATTTGTGTACTTTACCCATTAGCAATACAAGCG
1 TCAACATTTGTGTACTTTACCCATTAGCAATACAAGCG
2060150 T
1 T
2060151 AAAGAGAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.32
Consensus pattern (38 bp):
TCAACATTTGTGTACTTTACCCATTAGCAATACAAGCG
Found at i:2063953 original size:21 final size:21
Alignment explanation
Indices: 2063929--2063977 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
2063919 TTAAATAGAA
2063929 ACTCAAAAAATTTGAGACTCG
1 ACTCAAAAAATTTGAGACTCG
2063950 ACTCAAAAAATTTGAGACTCG
1 ACTCAAAAAATTTGAGACTCG
2063971 ACTCAAA
1 ACTCAAA
2063978 TTTTATAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.22
Consensus pattern (21 bp):
ACTCAAAAAATTTGAGACTCG
Found at i:2078541 original size:36 final size:36
Alignment explanation
Indices: 2078498--2078574 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
2078488 ACCGAATTAA
* **
2078498 ACGGGGATGGGGAAAAATTGTTTATGCTAAACGGGG
1 ACGGGGATGGAGAAAAACCGTTTATGCTAAACGGGG
2078534 ACGGGGATGGAGAAAAACCGTTTATGCTAAACGGGG
1 ACGGGGATGGAGAAAAACCGTTTATGCTAAACGGGG
2078570 ACGGG
1 ACGGG
2078575 TTTGGTAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.31, C:0.12, G:0.39, T:0.18
Consensus pattern (36 bp):
ACGGGGATGGAGAAAAACCGTTTATGCTAAACGGGG
Found at i:2078686 original size:40 final size:36
Alignment explanation
Indices: 2078651--2078729 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 36
2078641 TAATTATTTT
*
2078651 ATATATATATAATATTAATAAATTTCATTTTAATTA
1 ATATATATATAATATTAATAAATTTAATTTTAATTA
* *
2078687 ATATATATATAATATTTATAAATTTAA-TTTAAAT-
1 ATATATATATAATATTAATAAATTTAATTTTAATTA
2078721 ATATATATA
1 ATATATATA
2078730 CTCGGCCCGA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 9 0.22
35 6 0.15
36 25 0.62
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (36 bp):
ATATATATATAATATTAATAAATTTAATTTTAATTA
Found at i:2080879 original size:23 final size:23
Alignment explanation
Indices: 2080849--2080892 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
2080839 CAAAACATTA
2080849 ATATAAAAAACATTAGCTTTAAT
1 ATATAAAAAACATTAGCTTTAAT
*
2080872 ATATAAAAAACATTAGGTTTA
1 ATATAAAAAACATTAGCTTTA
2080893 GAAGCTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (23 bp):
ATATAAAAAACATTAGCTTTAAT
Found at i:2081420 original size:2 final size:2
Alignment explanation
Indices: 2081413--2081445 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2081403 CATTTACTAT
2081413 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2081446 TATTTTCACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2088569 original size:8 final size:9
Alignment explanation
Indices: 2088539--2088576 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
2088529 ATTATCAAAA
2088539 TAATATTATT
1 TAATA-TATT
2088549 TAATATATT
1 TAATATATT
2088558 TAATAT-TT
1 TAATATATT
2088566 TAATAATATT
1 TAAT-ATATT
2088576 T
1 T
2088577 TAGTTTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 6 0.23
9 12 0.46
10 8 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TAATATATT
Found at i:2088608 original size:23 final size:24
Alignment explanation
Indices: 2088582--2088626 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
2088572 TATTTTAGTT
2088582 TATTAAAATATTTAA-AATATATC
1 TATTAAAATATTTAACAATATATC
* *
2088605 TATTAATATTTTTAACAATATA
1 TATTAAAATATTTAACAATATA
2088627 ATATTCTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
TATTAAAATATTTAACAATATATC
Found at i:2089076 original size:5 final size:5
Alignment explanation
Indices: 2089066--2089093 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
2089056 AAGCTTCCTT
2089066 TTCCC TTCCC TTCCC TTCCC TTCCC TTC
1 TTCCC TTCCC TTCCC TTCCC TTCCC TTC
2089094 AATTCCCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (5 bp):
TTCCC
Found at i:2089099 original size:15 final size:15
Alignment explanation
Indices: 2089066--2089100 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2089056 AAGCTTCCTT
**
2089066 TTCCCTTCCCTTCCC
1 TTCCCTTCCCTTCAA
2089081 TTCCCTTCCCTTCAA
1 TTCCCTTCCCTTCAA
2089096 TTCCC
1 TTCCC
2089101 CTTTAAAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.54, G:0.00, T:0.40
Consensus pattern (15 bp):
TTCCCTTCCCTTCAA
Found at i:2089218 original size:4 final size:4
Alignment explanation
Indices: 2089209--2089234 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2089199 GAACCCACAA
2089209 TTCT TTCT TTCT TTCT TTCT TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TT
2089235 TCTATCAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTCT
Found at i:2093839 original size:24 final size:24
Alignment explanation
Indices: 2093807--2093892 Score: 163
Period size: 24 Copynumber: 3.6 Consensus size: 24
2093797 AAAATTTAGA
2093807 AGCTCGATTGAAGCCTGAAACTCG
1 AGCTCGATTGAAGCCTGAAACTCG
2093831 AGCTCGATTGAAGCCTGAAACTCG
1 AGCTCGATTGAAGCCTGAAACTCG
2093855 AGCTCGATTGAAGCCTGAAACTCG
1 AGCTCGATTGAAGCCTGAAACTCG
*
2093879 AGTTCGATTGAAGC
1 AGCTCGATTGAAGC
2093893 AAAAGAATAG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (24 bp):
AGCTCGATTGAAGCCTGAAACTCG
Found at i:2094309 original size:19 final size:19
Alignment explanation
Indices: 2094287--2094323 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2094277 TAAACAAAAT
*
2094287 TTTGATTTTCAAAATCAAC
1 TTTGACTTTCAAAATCAAC
*
2094306 TTTGGCTTTCAAAATCAA
1 TTTGACTTTCAAAATCAA
2094324 ATCATTTTCA
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:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (19 bp):
TTTGACTTTCAAAATCAAC
Found at i:2096218 original size:20 final size:21
Alignment explanation
Indices: 2096187--2096226 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2096177 AGTTGTTGGG
*
2096187 GCCTTATGGTATTGATACTAT
1 GCCTTATGGTATCGATACTAT
2096208 GCCTT-TGGTATCGATACTA
1 GCCTTATGGTATCGATACTA
2096227 CTATACATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (21 bp):
GCCTTATGGTATCGATACTAT
Found at i:2098113 original size:21 final size:21
Alignment explanation
Indices: 2098018--2098113 Score: 79
Period size: 21 Copynumber: 4.5 Consensus size: 21
2098008 AGTAATTCTC
* *
2098018 TTCATGAAAAGATTAAATCCT
1 TTCATCAAAAGATTAAGTCCT
*
2098039 TTCATGAAAAGATTAA-TCACTT
1 TTCATCAAAAGATTAAGTC-C-T
*
2098061 TTCATCATAATGA-TAAGTCCT
1 TTCATCA-AAAGATTAAGTCCT
* **
2098082 TTAATTGAAAGATTAAGTCCT
1 TTCATCAAAAGATTAAGTCCT
*
2098103 TCCATCAAAAG
1 TTCATCAAAAG
2098114 GTCTTAACCC
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
20 6 0.10
21 37 0.62
22 11 0.18
23 6 0.10
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (21 bp):
TTCATCAAAAGATTAAGTCCT
Found at i:2099085 original size:7 final size:7
Alignment explanation
Indices: 2099069--2099099 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
2099059 TGGTTTGAGT
*
2099069 TTGCAGG
1 TTGCAAG
2099076 TTGCAAG
1 TTGCAAG
2099083 TTGCAAG
1 TTGCAAG
2099090 TTGCAAG
1 TTGCAAG
2099097 TTG
1 TTG
2099100 ACATATCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.23, C:0.13, G:0.32, T:0.32
Consensus pattern (7 bp):
TTGCAAG
Found at i:2101431 original size:21 final size:22
Alignment explanation
Indices: 2101398--2101441 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
2101388 CCTATTCAAC
2101398 AATTCTCTTCATGAAAAGATTA
1 AATTCTCTTCATGAAAAGATTA
*
2101420 AATTCT-TTCATGAAAAGGTTA
1 AATTCTCTTCATGAAAAGATTA
2101441 A
1 A
2101442 GCACTTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (22 bp):
AATTCTCTTCATGAAAAGATTA
Found at i:2101485 original size:21 final size:21
Alignment explanation
Indices: 2101461--2101500 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2101451 ATCAAAAGGA
*
2101461 TAAGTCCTTTAATTGAAAGAT
1 TAAGTCCTTTAATCGAAAGAT
*
2101482 TAAGTCCTTTCATCGAAAG
1 TAAGTCCTTTAATCGAAAG
2101501 GTCTTAACCC
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:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (21 bp):
TAAGTCCTTTAATCGAAAGAT
Found at i:2104799 original size:18 final size:20
Alignment explanation
Indices: 2104754--2104802 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
2104744 CTGGGCCAGC
2104754 AGTATCGATACTCACCCCTTG
1 AGTATCGATACTCA-CCCTTG
*
2104775 GGTATCGATACTCA-CC-TG
1 AGTATCGATACTCACCCTTG
2104793 AGTATCGATA
1 AGTATCGATA
2104803 TCAAATTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 11 0.42
19 2 0.08
21 13 0.50
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (20 bp):
AGTATCGATACTCACCCTTG
Found at i:2104882 original size:20 final size:20
Alignment explanation
Indices: 2104837--2104909 Score: 112
Period size: 20 Copynumber: 3.6 Consensus size: 20
2104827 AAAATGCCTC
2104837 AGTATCGATACTG-ACCCTCTG
1 AGTATCGATACTGAACCC-C-G
*
2104858 AGTATCGATATTGAACCCCG
1 AGTATCGATACTGAACCCCG
2104878 AGTATCGATACTGAACCCCG
1 AGTATCGATACTGAACCCCG
2104898 AGTATCGATACT
1 AGTATCGATACT
2104910 CTTTGAAGGG
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
20 32 0.65
21 13 0.27
22 4 0.08
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (20 bp):
AGTATCGATACTGAACCCCG
Found at i:2107899 original size:21 final size:20
Alignment explanation
Indices: 2107875--2107936 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
2107865 GATAGGAAAA
*
2107875 GCACGACAGACACGAGAAGCG
1 GCACGA-AGACATGAGAAGCG
*
2107896 GCACGAAAAGCATGAGAAGCG
1 GCACGAAGA-CATGAGAAGCG
*
2107917 GCATGAAAGACATGAGAAGC
1 GCACG-AAGACATGAGAAGC
2107937 TGTATTCTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 2 0.06
21 30 0.86
22 3 0.09
ACGTcount: A:0.42, C:0.21, G:0.32, T:0.05
Consensus pattern (20 bp):
GCACGAAGACATGAGAAGCG
Found at i:2108701 original size:20 final size:21
Alignment explanation
Indices: 2108647--2108703 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
2108637 TTTTTAATTC
2108647 ATCAATTTTAATTTTGTTTGAT
1 ATCAATTTTAATTTT-TTTGAT
** *
2108669 -TTGATTTTTATTTTTTT-AT
1 ATCAATTTTAATTTTTTTGAT
2108688 ATCAATTTTAATTTTT
1 ATCAATTTTAATTTTT
2108704 AAATTTAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
19 2 0.07
20 15 0.54
21 11 0.39
ACGTcount: A:0.25, C:0.04, G:0.05, T:0.67
Consensus pattern (21 bp):
ATCAATTTTAATTTTTTTGAT
Found at i:2110453 original size:22 final size:22
Alignment explanation
Indices: 2110428--2110478 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
2110418 CTACGGCGAC
* *
2110428 ATCCGTCCTCATATCCGACGAA
1 ATCCGTCCCCATATCCGACAAA
*
2110450 ATCCGTCCCCATTTCCGACAAA
1 ATCCGTCCCCATATCCGACAAA
2110472 ATCCGTC
1 ATCCGTC
2110479 TATCTCTATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.39, G:0.12, T:0.24
Consensus pattern (22 bp):
ATCCGTCCCCATATCCGACAAA
Found at i:2110710 original size:13 final size:13
Alignment explanation
Indices: 2110692--2110723 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
2110682 AATATTTGTC
2110692 TTTGTTTTGTCTT
1 TTTGTTTTGTCTT
2110705 TTTGTTTTGTCTT
1 TTTGTTTTGTCTT
2110718 TTTGTT
1 TTTGTT
2110724 GAAGAAACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.06, G:0.16, T:0.78
Consensus pattern (13 bp):
TTTGTTTTGTCTT
Found at i:2112813 original size:21 final size:21
Alignment explanation
Indices: 2112785--2112899 Score: 76
Period size: 21 Copynumber: 5.5 Consensus size: 21
2112775 TGCACCTATC
**
2112785 ATCATTCAAGAGGCGTCTCAT
1 ATCATTCAAGAGGCCCCTCAT
* * *
2112806 ATCGTTCAAAAGGCCCCTCCT
1 ATCATTCAAGAGGCCCCTCAT
2112827 ATCATTCAAGAGGCCCCT-AT
1 ATCATTCAAGAGGCCCCTCAT
* *
2112847 CATC-GTCGAAGAAGCCCCTC-T
1 -ATCATTC-AAGAGGCCCCTCAT
* * *
2112868 CACCATTCAAAAGGCCCCT-GT
1 -ATCATTCAAGAGGCCCCTCAT
2112889 CATCATTCAAG
1 -ATCATTCAAG
2112900 TGGTCCCGCC
Statistics
Matches: 73, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
20 3 0.04
21 68 0.93
22 2 0.03
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.23
Consensus pattern (21 bp):
ATCATTCAAGAGGCCCCTCAT
Found at i:2112852 original size:42 final size:42
Alignment explanation
Indices: 2112783--2112899 Score: 116
Period size: 42 Copynumber: 2.8 Consensus size: 42
2112773 GATGCACCTA
**
2112783 TCATCATTCAAGAGGCGTCTCAT-ATCGTTCAA-AAGGCCCCTC
1 TCATCATTCAAGAGGCCCCT-ATCATCGTTCAAGAA-GCCCCTC
2112825 -CTATCATTCAAGAGGCCCCTATCATCG-TCGAAGAAGCCCCTC
1 TC-ATCATTCAAGAGGCCCCTATCATCGTTC-AAGAAGCCCCTC
* * * *
2112867 TCACCATTCAAAAGGCCCCTGTCATCATTCAAG
1 TCATCATTCAAGAGGCCCCTATCATCGTTCAAG
2112900 TGGTCCCGCC
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
41 5 0.08
42 53 0.84
43 5 0.08
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.24
Consensus pattern (42 bp):
TCATCATTCAAGAGGCCCCTATCATCGTTCAAGAAGCCCCTC
Found at i:2113300 original size:12 final size:12
Alignment explanation
Indices: 2113283--2113315 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
2113273 TTTTTTTTTA
2113283 AAATTTATTAAT
1 AAATTTATTAAT
*
2113295 AAATTTACTAAT
1 AAATTTATTAAT
2113307 AAATTTATT
1 AAATTTATT
2113316 TTTTTATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATTTATTAAT
Found at i:2114350 original size:14 final size:14
Alignment explanation
Indices: 2114331--2114370 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
2114321 TTTTGATTAA
2114331 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
** *
2114345 TTGATTTGTTTAAT
1 TTGATTTGTAAAAG
2114359 TTGATTTGTAAA
1 TTGATTTGTAAA
2114371 TAAGAATTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:2114382 original size:61 final size:62
Alignment explanation
Indices: 2114281--2114420 Score: 185
Period size: 66 Copynumber: 2.2 Consensus size: 62
2114271 TTTTATATTG
*
2114281 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGATTTA-TTTT-TTGATTAATTGATTTGTA
1 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTCTTGATTAATTGATTTGTA
** * *
2114341 AAAGTTGATTTGTTTAATTTGATTTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGT
1 AAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATTA--TTTTT-CTTGATTAATTGATTTGT
2114406 A
62 A
2114407 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
2114421 GTTTCTAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
60 17 0.25
61 17 0.25
64 4 0.06
66 31 0.45
ACGTcount: A:0.31, C:0.01, G:0.17, T:0.51
Consensus pattern (62 bp):
AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTCTTGATTAATTGATTTGTA
Found at i:2114527 original size:20 final size:20
Alignment explanation
Indices: 2114504--2114542 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2114494 GATTTTCGGT
*
2114504 TTACAAATTTGACTTTCGCG
1 TTACAAATTTGACTATCGCG
*
2114524 TTACGAATTTGACTATCGC
1 TTACAAATTTGACTATCGC
2114543 AACGCTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (20 bp):
TTACAAATTTGACTATCGCG
Found at i:2114591 original size:17 final size:17
Alignment explanation
Indices: 2114569--2114614 Score: 92
Period size: 17 Copynumber: 2.7 Consensus size: 17
2114559 TGATCGCAAC
2114569 ATACAACATCAAGGTAT
1 ATACAACATCAAGGTAT
2114586 ATACAACATCAAGGTAT
1 ATACAACATCAAGGTAT
2114603 ATACAACATCAA
1 ATACAACATCAA
2114615 ACACATTCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.50, C:0.20, G:0.09, T:0.22
Consensus pattern (17 bp):
ATACAACATCAAGGTAT
Found at i:2114807 original size:39 final size:39
Alignment explanation
Indices: 2114753--2114839 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
2114743 TCAAGTTGTA
2114753 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
2114792 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
2114831 GATTTTGAT
1 GATTTTGAT
2114840 GTGCATCAGA
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:0.17, C:0.15, G:0.21, T:0.47
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:2115173 original size:18 final size:18
Alignment explanation
Indices: 2115150--2115186 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2115140 CAAAATTTAT
2115150 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
2115168 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
2115186 A
1 A
2115187 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:2115608 original size:25 final size:25
Alignment explanation
Indices: 2115574--2115623 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
2115564 TTATTTTTTC
*
2115574 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
2115599 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
2115624 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:2115777 original size:20 final size:20
Alignment explanation
Indices: 2115713--2115769 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
2115703 AAATAAGCGT
2115713 TGCGAAAGTCAAATTCGCTA
1 TGCGAAAGTCAAATTCGCTA
** * *
2115733 CACGATAGTCAAATTCGCAA
1 TGCGAAAGTCAAATTCGCTA
2115753 TGCGAAAGTCAAATTCG
1 TGCGAAAGTCAAATTCG
2115770 GTTTGCGATT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (20 bp):
TGCGAAAGTCAAATTCGCTA
Found at i:2115840 original size:20 final size:20
Alignment explanation
Indices: 2115785--2115843 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
2115775 CGATTTCGCG
* **
2115785 TTGCGAATTTGACTATCGCG
1 TTGCGAATTTGACTTTCGTA
*
2115805 TTGCGAATTTGTCTTTCGTA
1 TTGCGAATTTGACTTTCGTA
2115825 TTGCGAATTTGACTTTCGT
1 TTGCGAATTTGACTTTCGT
2115844 GTTGATCGCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (20 bp):
TTGCGAATTTGACTTTCGTA
Found at i:2118459 original size:24 final size:24
Alignment explanation
Indices: 2118432--2118485 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
2118422 TCATCACATC
* *
2118432 ATCAAAATCTGAGTATTGATCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
2118456 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
2118480 ATCAAA
1 ATCAAA
2118486 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:2119426 original size:20 final size:20
Alignment explanation
Indices: 2119390--2119560 Score: 111
Period size: 20 Copynumber: 8.6 Consensus size: 20
2119380 ACTAAAACCT
*
2119390 GTTGCGAAATT-AAATTCGC
1 GTTGCGAATTTGAAATTCGC
* *
2119409 GTTGAGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGC
*
2119428 GTTGCGAATTTG-ACTATCGC
1 GTTGCGAATTTGAAAT-TCGC
** * *
2119448 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGAAATTCGC
*
2119468 GTTGCGAATTTG-ACTATCGC
1 GTTGCGAATTTGAAAT-TCGC
** *
2119488 GTTGCGAATTTGACTTTCGA
1 GTTGCGAATTTGAAATTCGC
* *
2119508 GCTGCGAATTTGGAAAATCGC
1 GTTGCGAATTT-GAAATTCGC
**
2119529 AATGCG-ATTT-ACATATTCGC
1 GTTGCGAATTTGA-A-ATTCGC
2119549 GTTGCGAATTTG
1 GTTGCGAATTTG
2119561 TTGGTCATTT
Statistics
Matches: 114, Mismatches: 27, Indels: 19
0.71 0.17 0.12
Matches are distributed among these distances:
18 3 0.03
19 24 0.21
20 72 0.63
21 15 0.13
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGC
Found at i:2119483 original size:40 final size:40
Alignment explanation
Indices: 2119405--2119519 Score: 169
Period size: 40 Copynumber: 2.9 Consensus size: 40
2119395 GAAATTAAAT
* **
2119405 TCGCGTTGAGAATTTGAAATTC-AGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTTTCGAGTTGCGAATTTGACTA
* *
2119444 TCGCGTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTTTCGAGTTGCGAATTTGACTA
*
2119484 TCGCGTTGCGAATTTGACTTTCGAGCTGCGAATTTG
1 TCGCGTTGCGAATTTGACTTTCGAGTTGCGAATTTG
2119520 GAAAATCGCA
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 18 0.27
40 49 0.73
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.38
Consensus pattern (40 bp):
TCGCGTTGCGAATTTGACTTTCGAGTTGCGAATTTGACTA
Found at i:2120211 original size:26 final size:26
Alignment explanation
Indices: 2120180--2120232 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
2120170 TGGATTAAGG
2120180 TTAGGATCTGGAAATTTTAAAGATTT
1 TTAGGATCTGGAAATTTTAAAGATTT
* *
2120206 TTAGGATCTTGAAATTTTAAGGATTT
1 TTAGGATCTGGAAATTTTAAAGATTT
2120232 T
1 T
2120233 GACATTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.32, C:0.04, G:0.19, T:0.45
Consensus pattern (26 bp):
TTAGGATCTGGAAATTTTAAAGATTT
Found at i:2120228 original size:17 final size:17
Alignment explanation
Indices: 2120202--2120240 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
2120192 AATTTTAAAG
*
2120202 ATTTTTAGGATCTTGAA
1 ATTTTAAGGATCTTGAA
* *
2120219 ATTTTAAGGATTTTGAC
1 ATTTTAAGGATCTTGAA
2120236 ATTTT
1 ATTTT
2120241 TCTATAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.51
Consensus pattern (17 bp):
ATTTTAAGGATCTTGAA
Found at i:2120631 original size:20 final size:21
Alignment explanation
Indices: 2120606--2120698 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
2120596 TTTTCCCAAT
*
2120606 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2120626 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
2120647 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2120667 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
2120688 TCGCAATGCGA
1 TCGCAATGCGA
2120699 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:2120712 original size:20 final size:20
Alignment explanation
Indices: 2120687--2120781 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
2120677 AATTGGGAAA
*
2120687 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
2120707 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
2120728 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
2120748 TTCGTAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
2120768 TTCGCAACGCGATA
1 ATCGCAACGCGATA
2120782 ATACATAATC
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
20 45 0.76
21 14 0.24
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:2120713 original size:41 final size:41
Alignment explanation
Indices: 2120606--2120698 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
2120596 TTTTCCCAAT
2120606 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
2120647 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
2120688 TCGCAATGCGA
1 TCGCAATGCGA
2120699 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:2120729 original size:41 final size:41
Alignment explanation
Indices: 2120684--2120761 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
2120674 GCGAATTGGG
* * *
2120684 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
* * *
2120725 AAAATCGCAACGAGATACTTACTTTCGTAACGCGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATA
2120762 CTGACTTTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
Found at i:2120997 original size:22 final size:22
Alignment explanation
Indices: 2120969--2121012 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2120959 CACTCTCTCA
2120969 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
2120991 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
2121013 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:2122654 original size:18 final size:18
Alignment explanation
Indices: 2122633--2122677 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
2122623 TCCACTTCGG
*
2122633 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
2122651 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
2122669 GAGCCATCA
1 GAGCCATCA
2122678 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:2123193 original size:19 final size:20
Alignment explanation
Indices: 2123139--2123205 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
2123129 TAGTTTACTT
* *
2123139 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
2123159 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
2123179 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
2123198 TCGCAACG
1 TCGCAACG
2123206 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:2123213 original size:14 final size:14
Alignment explanation
Indices: 2123194--2123251 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
2123184 ATGCGAAATG
2123194 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2123208 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
2123224 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
2123240 AAAATCGCAACG
1 AAAATCGCAACG
2123252 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2123236 original size:32 final size:33
Alignment explanation
Indices: 2123178--2123268 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
2123168 GGAAATGGCT
2123178 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
2123211 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
2123243 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
2123269 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:2123303 original size:13 final size:14
Alignment explanation
Indices: 2123285--2123340 Score: 60
Period size: 14 Copynumber: 3.8 Consensus size: 14
2123275 TTGTGTTTCA
2123285 CGTTGCGA-TTTGT
1 CGTTGCGATTTTGT
*
2123298 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
2123314 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
2123330 CGTTGCGATTT
1 CGTTGCGATTT
2123341 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
13 8 0.22
14 13 0.36
16 4 0.11
18 11 0.31
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:2123329 original size:32 final size:32
Alignment explanation
Indices: 2123280--2123356 Score: 129
Period size: 32 Copynumber: 2.4 Consensus size: 32
2123270 GCGATTTGTG
*
2123280 TTTCACGTTGCGA-TTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
2123311 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
*
2123343 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
2123357 AGCCATTTCC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
31 12 0.28
32 31 0.72
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.45
Consensus pattern (32 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
Found at i:2123375 original size:20 final size:19
Alignment explanation
Indices: 2123341--2123395 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
2123331 GTTGCGATTT
*
2123341 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
2123360 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
2123380 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
2123396 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:2125441 original size:19 final size:19
Alignment explanation
Indices: 2125419--2125486 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
2125409 ATCGCAACGA
2125419 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
2125438 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
2125457 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
2125471 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
2125487 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:2125562 original size:20 final size:20
Alignment explanation
Indices: 2125505--2125562 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
2125495 TCGCATTGCG
* *
2125505 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
2125525 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
2125545 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
2125563 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:2126648 original size:24 final size:24
Alignment explanation
Indices: 2126621--2126674 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2126611 GTATTCGAAA
* *
2126621 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
2126645 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
2126669 TTTGAT
1 TTTGAT
2126675 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:2126866 original size:12 final size:12
Alignment explanation
Indices: 2126849--2126873 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2126839 ATATAATCCT
2126849 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2126861 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2126873 G
1 G
2126874 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:2129187 original size:19 final size:19
Alignment explanation
Indices: 2129165--2129229 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
2129155 GGAAATTACT
2129165 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
2129184 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
2129198 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2129217 ATCGCAACGCGAA
1 ATCGCAATGCGAA
2129230 TTTAATTTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
14 9 0.25
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 21 0.58
ACGTcount: A:0.43, C:0.20, G:0.25, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2129188 original size:39 final size:33
Alignment explanation
Indices: 2129165--2129227 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
2129155 GGAAATTACT
*
2129165 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGGGA
2129198 ATCGCAATGCGAAATGAAAATCGCAACGCG
1 ATCGCAATGCGAAATGAAAATCGCAACGCG
2129228 AATTTAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.41, C:0.21, G:0.25, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGCGGGA
Found at i:2129247 original size:19 final size:20
Alignment explanation
Indices: 2129225--2129267 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
2129215 AAATCGCAAC
2129225 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* * *
2129244 GCGATTTTCATTTTCTCGTT
1 GCGAATTTCAATTTCGCGTT
2129264 GCGA
1 GCGA
2129268 TTCTCTCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.16, C:0.19, G:0.21, T:0.44
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:2129252 original size:14 final size:14
Alignment explanation
Indices: 2129253--2129286 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
2129243 TGCGATTTTC
2129253 ATTTTCTCGTTGCG
1 ATTTTCTCGTTGCG
*
2129267 ATTCTCTCGTTGCG
1 ATTTTCTCGTTGCG
2129281 ATTTTC
1 ATTTTC
2129287 ATTTCGCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.09, C:0.24, G:0.18, T:0.50
Consensus pattern (14 bp):
ATTTTCTCGTTGCG
Found at i:2129427 original size:14 final size:14
Alignment explanation
Indices: 2129408--2129444 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2129398 CATCAATTAA
2129408 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2129422 ACAAATCACCTTTT
1 ACAAATCAACTTTT
2129436 ACAAATCAA
1 ACAAATCAA
2129445 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2132967 original size:33 final size:33
Alignment explanation
Indices: 2132910--2133006 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 33
2132900 ACGAGATAAT
*
2132910 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
2132944 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
2132977 GATAATCGCAACGCGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGACTATCGCAA
2133007 ACGCGAAATA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 43 0.75
34 14 0.25
ACGTcount: A:0.40, C:0.24, G:0.24, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:2133002 original size:19 final size:19
Alignment explanation
Indices: 2132884--2133069 Score: 167
Period size: 19 Copynumber: 10.1 Consensus size: 19
2132874 TCTTTTGGTT
*
2132884 GAAATGAAAAATCGCAACGA
1 GAAATG-AAAATCGCAACGC
*
2132904 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
2132924 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
2132942 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
2132958 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
2132976 ---A-GATAATCGCAACGC
1 GAAATGAAAATCGCAACGC
2132991 GAAATGAAAATCGCAAACGC
1 GAAATGAAAATCGC-AACGC
*
2133011 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
2133030 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
2133049 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
2133068 GA
1 GA
2133070 TTGCGATTTT
Statistics
Matches: 137, Mismatches: 16, Indels: 27
0.76 0.09 0.15
Matches are distributed among these distances:
14 18 0.13
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 60 0.44
20 43 0.31
21 6 0.04
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:2133023 original size:39 final size:38
Alignment explanation
Indices: 2132980--2133069 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 38
2132970 GCGACCAGAT
2132980 AATCGCAACGCGAAATGAAAATCGCAAACGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGC-AACGCGAAATAAA
*
2133019 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
*
2133057 AATCGCAATGCGA
1 AATCGCAACGCGA
2133070 TTGCGATTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 24 0.49
39 25 0.51
ACGTcount: A:0.48, C:0.21, G:0.20, T:0.11
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:2133675 original size:20 final size:20
Alignment explanation
Indices: 2133650--2133702 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
2133640 GCGCTATGTA
2133650 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
2133670 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
2133690 TATCTCGTTGCGA
1 AATCGCGTTGCGA
2133703 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:2133762 original size:21 final size:21
Alignment explanation
Indices: 2133733--2133825 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
2133723 ATAGTAAGTA
2133733 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
2133754 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
2133774 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
2133795 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
2133815 TCGCATTGCGA
1 TCGCATTGCGA
2133826 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:2133763 original size:41 final size:41
Alignment explanation
Indices: 2133672--2133806 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
2133662 AAAGTCAGAA
* * * * ** *
2133672 TCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
*
2133712 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
2133754 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
2133795 TCGCGTTGCGAT
1 TCGCGTTGCGAT
2133807 TTACTTATTC
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:2133807 original size:41 final size:41
Alignment explanation
Indices: 2133733--2133825 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
2133723 ATAGTAAGTA
2133733 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
2133774 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
2133815 TCGCATTGCGA
1 TCGCATTGCGA
2133826 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:2138306 original size:23 final size:23
Alignment explanation
Indices: 2138276--2138323 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
2138266 ATGAAACAGC
2138276 TAATAACTACCTTGATTGGGAGG
1 TAATAACTACCTTGATTGGGAGG
2138299 TAATAACTACCTTGATTGGGAGG
1 TAATAACTACCTTGATTGGGAGG
2138322 TA
1 TA
2138324 TGTAATTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (23 bp):
TAATAACTACCTTGATTGGGAGG
Found at i:2142364 original size:4 final size:4
Alignment explanation
Indices: 2142355--2142379 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2142345 TTTGGTAGAA
2142355 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
2142380 TCTTTGAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:2144486 original size:16 final size:19
Alignment explanation
Indices: 2144449--2144487 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
2144439 GTATGGTCTC
2144449 AGTCCAAACTTATTATAGT
1 AGTCCAAACTTATTATAGT
2144468 AGTCCAAACTTATTATAGT
1 AGTCCAAACTTATTATAGT
2144487 A
1 A
2144488 CCAAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (19 bp):
AGTCCAAACTTATTATAGT
Found at i:2146580 original size:23 final size:23
Alignment explanation
Indices: 2146554--2146601 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
2146544 ATAAAGTACA
*
2146554 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
2146577 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
2146600 AT
1 AT
2146602 TGACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:2147113 original size:183 final size:183
Alignment explanation
Indices: 2146803--2147660 Score: 1506
Period size: 183 Copynumber: 4.7 Consensus size: 183
2146793 TTTCATTTGC
*
2146803 ACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAT
1 ACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAG
2146868 GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
66 GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
*
2146933 TAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTTATACCGGTTATATT
131 TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATATT
* *
2146986 ATAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAA
1 ACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAG
*
2147051 GTATCGACACATTTTTCTTCCAATCTGGATATAAAGTACCGACACAATATTAAAAAGTGTCGATA
66 GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
*
2147116 TAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTTATACCGGTTATATT
131 TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATATT
*
2147169 ACAAAATTATCTATTACACTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAG
1 ACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAG
2147234 GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
66 GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
* *
2147299 TAGGTTGTATACATATTCGCTCATAAAACCGGTATATTTATACCGGTTATATT
131 TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATATT
2147352 ACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAG
1 ACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAG
*
2147417 GTATCGATACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
66 GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
* * *
2147482 TAGATTGTAGATCTATTCGCTCATAAAACCAGTATATTTATACCGGTTATATT
131 TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATATT
* *
2147535 ACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTTTTTTCAA--TCGACACTTTTTGA-
1 ACAAAATTATCTATTACATTATAATTCTGGGTTCCGATG---TGTAAATGTCGACACTTTTTGAC
* *
2147597 AATGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACAGACACAATATTAAAAAGTGT
63 AA-GGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
2147661 GAAAACTTTG
Statistics
Matches: 649, Mismatches: 22, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
183 573 0.88
184 72 0.11
186 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (183 bp):
ACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAG
GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATATT
Found at i:2148968 original size:12 final size:12
Alignment explanation
Indices: 2148871--2148976 Score: 140
Period size: 12 Copynumber: 8.8 Consensus size: 12
2148861 CTTGTTTGGA
* *
2148871 TCATCATCATCA
1 TCATCGTCATCT
* *
2148883 TCATCATCATCA
1 TCATCGTCATCT
2148895 TCATCGTCATCT
1 TCATCGTCATCT
2148907 TCATCGTCATCT
1 TCATCGTCATCT
*
2148919 TCATCGTCAGCT
1 TCATCGTCATCT
*
2148931 TCATCGTCATCA
1 TCATCGTCATCT
2148943 TCATCGTCATCT
1 TCATCGTCATCT
*
2148955 TCATCGTCAGCT
1 TCATCGTCATCT
*
2148967 TCATCTTCAT
1 TCATCGTCAT
2148977 TGACCGCTTG
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 85 1.00
ACGTcount: A:0.22, C:0.33, G:0.08, T:0.38
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:2148976 original size:6 final size:6
Alignment explanation
Indices: 2148871--2148963 Score: 96
Period size: 6 Copynumber: 15.5 Consensus size: 6
2148861 CTTGTTTGGA
* * * * * *
2148871 TCATCA TCATCA TCATCA TCATCA TCATCG TCATCT TCATCG TCATCT
1 TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG
* * * *
2148919 TCATCG TCAGCT TCATCG TCATCA TCATCG TCATCT TCATCG TCA
1 TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCA
2148964 GCTTCATCTT
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.23, C:0.33, G:0.08, T:0.37
Consensus pattern (6 bp):
TCATCG
Found at i:2148985 original size:18 final size:18
Alignment explanation
Indices: 2148913--2148976 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
2148903 ATCTTCATCG
*
2148913 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGACAGCT
* * *
2148931 TCATCGTCATC-ATCATCG
1 TCATCTTCATCGA-CAGCT
*
2148949 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGACAGCT
2148967 TCATCTTCAT
1 TCATCTTCAT
2148977 TGACCGCTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.19, C:0.33, G:0.09, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCGACAGCT
Found at i:2150817 original size:200 final size:200
Alignment explanation
Indices: 2150474--2151437 Score: 1741
Period size: 200 Copynumber: 4.8 Consensus size: 200
2150464 AATATTAAAC
* * *
2150474 AGTGTCGATACA-TATTATATACCAATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTG
1 AGTGTCGACACATTATT-TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTG
* *
2150538 AAAAATTACCTATTACATTATACTTATGGTTTTCGATGTTTATGGGATCGACACTTTTTATATAT
65 AAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTATGGGATCGACACTTTTTATATAT
2150603 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
130 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
2150668 TACAAA
195 TACAAA
*
2150674 AGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
2150739 AAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* *
2150804 GATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAATT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
2150869 ACAAA
196 ACAAA
2150874 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
2150939 AAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* *
2151004 GATCGACACTTTATGGTTTCACCCTGTTTGCCATTCATTCTGGACCAGAAATATCGACACAAACT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
2151069 ACAAA
196 ACAAA
2151074 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
2151139 AAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* * * *
2151204 GATCGACACTGTATGGTTGCACCATGTTTGCCATTCATTCTGGACCAGAAATATCGACACAAAGT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
2151269 ACAAA
196 ACAAA
* *
2151274 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGA
1 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* * *
2151339 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACATTTTTTATATATG
66 AAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTATGGGATCGACACTTTTTATATATG
2151404 GATCGACACTTTATGGTTGCACCCTGTTTGCCAT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCAT
2151438 ATTGTAAATT
Statistics
Matches: 739, Mismatches: 24, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
200 735 0.99
201 4 0.01
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (200 bp):
AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
AAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTATGGGATCGACACTTTTTATATATG
GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
ACAAA
Found at i:2151561 original size:18 final size:18
Alignment explanation
Indices: 2151538--2151598 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
2151528 TCTCATTCAT
*
2151538 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
2151556 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
2151575 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
2151594 AATTA
1 AATTA
2151599 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:2151574 original size:19 final size:19
Alignment explanation
Indices: 2151550--2151598 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
2151540 TTATATTCAC
2151550 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
2151569 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
2151588 ATACAAAATTA
1 ATACAAAATTA
2151599 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:2155521 original size:20 final size:21
Alignment explanation
Indices: 2155496--2155535 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
2155486 GTAACGTTTT
2155496 ACCGGTTTTATCAT-TTTGTC
1 ACCGGTTTTATCATATTTGTC
2155516 ACCGGTTTTATCATATTTGT
1 ACCGGTTTTATCATATTTGT
2155536 ACCTGGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.50
Consensus pattern (21 bp):
ACCGGTTTTATCATATTTGTC
Found at i:2155591 original size:181 final size:180
Alignment explanation
Indices: 2155278--2155750 Score: 651
Period size: 181 Copynumber: 2.6 Consensus size: 180
2155268 CGTACTTACG
* * * *
2155278 AAAGTATCGACACTTTCAATATATCCTGTATCATTTTACCGGTTTTATCATTTTGATACTGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTG-TACCGGTTT
* * * * *
2155343 TATCATATTTTTACCTATTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGATACATTAT
65 TATCATA-TTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
2155408 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
129 AGGAGCTAAAAATGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
*
2155459 AAAGTATCGACACTTTCAATATATACGGTAACGTTTTACCGGTTTTATCATTTTGTCACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGT-ACCGGTTT
* *
2155524 TATCATATTTGTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
65 TATCATATTT-TACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
2155589 AGGATTTAAAAATGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
129 AGGAGCTAAAAATGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * * **
2155641 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGTACCGGTTT
* *
2155706 TGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TATCATA-TTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
2155751 AATTTGGATC
Statistics
Matches: 259, Mismatches: 28, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
180 4 0.02
181 157 0.61
182 94 0.36
183 4 0.02
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (180 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTACCGGTTTT
ATCATATTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTATAG
GAGCTAAAAATGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:2157406 original size:22 final size:22
Alignment explanation
Indices: 2157378--2157419 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
2157368 TGTCGAGTTT
*
2157378 CTATGTATGTACATTCTTTGAA
1 CTATGTATGTACATACTTTGAA
2157400 CTATGTATGTACATACTTTG
1 CTATGTATGTACATACTTTG
2157420 TACATTCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.45
Consensus pattern (22 bp):
CTATGTATGTACATACTTTGAA
Found at i:2161048 original size:29 final size:29
Alignment explanation
Indices: 2161006--2161067 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
2160996 TTTGGTTAAA
2161006 TTATCCCTAATATTTGGTTAAATTATAAG
1 TTATCCCTAATATTTGGTTAAATTATAAG
*
2161035 TTATCCTTAATATTTGGTTAAATTATAAG
1 TTATCCCTAATATTTGGTTAAATTATAAG
2161064 TTAT
1 TTAT
2161068 ATCTTATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.34, C:0.08, G:0.10, T:0.48
Consensus pattern (29 bp):
TTATCCCTAATATTTGGTTAAATTATAAG
Found at i:2161894 original size:32 final size:31
Alignment explanation
Indices: 2161833--2161897 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
2161823 GTATTTGGGT
2161833 TTTTGGGTTTAATTTTCTTCAATATTTATTA
1 TTTTGGGTTTAATTTTCTTCAATATTTATTA
* *
2161864 TTTTGGGTTTGATTTTTTTCTAATATTTATTA
1 TTTTGGGTTTAATTTTCTTC-AATATTTATTA
2161896 TT
1 TT
2161898 AGAGGACGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 18 0.58
32 13 0.42
ACGTcount: A:0.20, C:0.05, G:0.11, T:0.65
Consensus pattern (31 bp):
TTTTGGGTTTAATTTTCTTCAATATTTATTA
Found at i:2172436 original size:33 final size:33
Alignment explanation
Indices: 2172398--2172463 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2172388 TGTTCGGATT
* *
2172398 TTTCATTTTTCTTGCAAGTATTTGTATTCAACA
1 TTTCATTTTCCTTGCAAGTATTTATATTCAACA
*
2172431 TTTCATTTTCCTTGCAAGTATTTATATTTAACA
1 TTTCATTTTCCTTGCAAGTATTTATATTCAACA
2172464 CTAGTTTTAA
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:0.26, C:0.15, G:0.08, T:0.52
Consensus pattern (33 bp):
TTTCATTTTCCTTGCAAGTATTTATATTCAACA
Found at i:2172617 original size:29 final size:29
Alignment explanation
Indices: 2172569--2172628 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
2172559 TAAATTTTTC
* * *
2172569 TAAAACTTTCATTTAGGTCCTCCAACTTT
1 TAAAACTTTCATATAGGTCCCCCAACATT
2172598 TAAAACTTTCAATATA-GTCCCCCAACATT
1 TAAAACTTTC-ATATAGGTCCCCCAACATT
2172627 TA
1 TA
2172629 GTCCGTTTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (29 bp):
TAAAACTTTCATATAGGTCCCCCAACATT
Found at i:2172689 original size:31 final size:31
Alignment explanation
Indices: 2172607--2172681 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
2172597 TTAAAACTTT
* *
2172607 CAATATAGTCCCCCAACATTTAGTCCGTTTA
1 CAATATGGTCCCCCAACATTTAGTCCATTTA
* * *
2172638 CAATATGATCCCCCAACATTTAGTCTATTTG
1 CAATATGGTCCCCCAACATTTAGTCCATTTA
2172669 CAATATGGTCCCC
1 CAATATGGTCCCC
2172682 GACCATTTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (31 bp):
CAATATGGTCCCCCAACATTTAGTCCATTTA
Found at i:2174442 original size:20 final size:20
Alignment explanation
Indices: 2174417--2174459 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2174407 TAGAATAAAA
* *
2174417 TTTAAGACTGTGTTACAAGT
1 TTTAAGACTGTGGTACAACT
*
2174437 TTTAAGAGTGTGGTACAACT
1 TTTAAGACTGTGGTACAACT
2174457 TTT
1 TTT
2174460 TCATAATTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (20 bp):
TTTAAGACTGTGGTACAACT
Found at i:2179478 original size:13 final size:13
Alignment explanation
Indices: 2179460--2179485 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2179450 TTAGGGTTTC
2179460 CTGATGCTTCCAG
1 CTGATGCTTCCAG
2179473 CTGATGCTTCCAG
1 CTGATGCTTCCAG
2179486 AAGACCATGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.23, T:0.31
Consensus pattern (13 bp):
CTGATGCTTCCAG
Found at i:2180964 original size:14 final size:14
Alignment explanation
Indices: 2180929--2180975 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
2180919 TATTTACTTA
2180929 ATTTTTATTATTAT
1 ATTTTTATTATTAT
*
2180943 ATTCTTATTATTAT
1 ATTTTTATTATTAT
2180957 -TTATTTATTTATTAAT
1 ATT-TTTA-TTATT-AT
2180973 ATT
1 ATT
2180976 AAAGAAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 2 0.07
14 16 0.59
15 5 0.19
16 2 0.07
17 2 0.07
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTTTATTATTAT
Found at i:2181121 original size:20 final size:20
Alignment explanation
Indices: 2181079--2181125 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
2181069 TTTTTCTTAA
*
2181079 AAATATCA-GATTAAATTTG
1 AAATATCATGATTAAAATTG
2181098 AAATATCATGATTATAAATT-
1 AAATATCATGATTA-AAATTG
2181118 AAAT-TCAT
1 AAATATCAT
2181126 ATTTGAATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 12 0.48
20 9 0.36
21 4 0.16
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.38
Consensus pattern (20 bp):
AAATATCATGATTAAAATTG
Found at i:2182163 original size:46 final size:49
Alignment explanation
Indices: 2182074--2182164 Score: 118
Period size: 46 Copynumber: 1.9 Consensus size: 49
2182064 TTTATTTCAT
* * *
2182074 TTTTTCCTAAATAAATGCATGTGAACTAGAAATCATGCAGTTAGGTTAA
1 TTTTTCCTAAACAAATGCATGTGAACTAGAAAGCAAGCAGTTAGGTTAA
2182123 TTTTTCC-AAACAAA-GCATG-GAACTAGAAAGCAAG-AGGTTAGG
1 TTTTTCCTAAACAAATGCATGTGAACTAGAAAGCAAGCA-GTTAGG
2182165 ATTTATACCT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
45 1 0.03
46 19 0.50
47 5 0.13
48 6 0.16
49 7 0.18
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (49 bp):
TTTTTCCTAAACAAATGCATGTGAACTAGAAAGCAAGCAGTTAGGTTAA
Found at i:2183566 original size:43 final size:44
Alignment explanation
Indices: 2183505--2183593 Score: 144
Period size: 43 Copynumber: 2.0 Consensus size: 44
2183495 TGGCTTTAGA
*
2183505 GAAGTTAGGAGGGAAAGTTATCCCCTATATGTAAAGTTTT-TTT
1 GAAGTTAGGACGGAAAGTTATCCCCTATATGTAAAGTTTTATTT
* *
2183548 GAAGTTAGGACTGAAAGTTGTCCCCTATATGTAAAGTTTTATTT
1 GAAGTTAGGACGGAAAGTTATCCCCTATATGTAAAGTTTTATTT
2183592 GA
1 GA
2183594 TGCATGGAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 37 0.88
44 5 0.12
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.37
Consensus pattern (44 bp):
GAAGTTAGGACGGAAAGTTATCCCCTATATGTAAAGTTTTATTT
Found at i:2183774 original size:95 final size:95
Alignment explanation
Indices: 2183665--2183883 Score: 375
Period size: 95 Copynumber: 2.3 Consensus size: 95
2183655 TTTTCATACA
* * *
2183665 TACATTTTCATTTTGTATCTTTGCATTTTCATTTCTACTTTTATGTTTGCTTTTGTATTGCACAA
1 TACATTTGCATTTTGCATCTTTGCATTTTCATTTATACTTTTATGTTTGCTTTTGTATTGCACAA
*
2183730 TTTGCATTCTTCTTGTTACATTCACATATT
66 TTTGCATTCTTATTGTTACATTCACATATT
* *
2183760 TACATTTGCATTTTGCATCTTTTCATTTTCATTTATACTTTTATGTTTGCTTTTGTATTGCATAA
1 TACATTTGCATTTTGCATCTTTGCATTTTCATTTATACTTTTATGTTTGCTTTTGTATTGCACAA
2183825 TTTGCATTCTTATTGTTACATTCACATATT
66 TTTGCATTCTTATTGTTACATTCACATATT
*
2183855 TACATTTGCATTTTGCATTTTTGCATTTT
1 TACATTTGCATTTTGCATCTTTGCATTTT
2183884 TACGTTGTAT
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 116 1.00
ACGTcount: A:0.20, C:0.16, G:0.09, T:0.56
Consensus pattern (95 bp):
TACATTTGCATTTTGCATCTTTGCATTTTCATTTATACTTTTATGTTTGCTTTTGTATTGCACAA
TTTGCATTCTTATTGTTACATTCACATATT
Found at i:2186417 original size:123 final size:123
Alignment explanation
Indices: 2186191--2186432 Score: 378
Period size: 123 Copynumber: 2.0 Consensus size: 123
2186181 AAAAAATGTC
*
2186191 AAAAAAAGAGTCATATATTCAAAGCATGACCTTGATCGGATATTTGGCAGTTCAGTGTTTGCTCC
1 AAAAAAAGAGTCATATATTCAAAGCATGACCTTGATCGGATATTTGGCAGTTCAGTGTTTACTCC
* * * *
2186256 ACTGTGATTTTCAAGTCAAAGAAATTGTTATGAGTTGAACCCTTTAGTTAGTCCGATG
66 ACTGTGATTGTCAAGTCAAAGAAATTGTGATGACTTGAACCCTTTAATTAGTCCGATG
* *
2186314 AAAAAAAGAGTCATATATTCAAAGCATGACCTTGATCTGG-TATTTGGCAGTTCGGTGTTTATTC
1 AAAAAAAGAGTCATATATTCAAAGCATGACCTTGATC-GGATATTTGGCAGTTCAGTGTTTACTC
* * *
2186378 CACTGTGATTGTCAAGTCGAAGACATTGTGATGACTTGAACCGTTTAATTAGTCC
65 CACTGTGATTGTCAAGTCAAAGAAATTGTGATGACTTGAACCCTTTAATTAGTCC
2186433 AATAAAGGCC
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
123 106 0.98
124 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (123 bp):
AAAAAAAGAGTCATATATTCAAAGCATGACCTTGATCGGATATTTGGCAGTTCAGTGTTTACTCC
ACTGTGATTGTCAAGTCAAAGAAATTGTGATGACTTGAACCCTTTAATTAGTCCGATG
Found at i:2189649 original size:75 final size:75
Alignment explanation
Indices: 2189482--2189639 Score: 208
Period size: 75 Copynumber: 2.1 Consensus size: 75
2189472 ATTAAAAAGA
* * * *
2189482 AGCAAATGATGGAGCATGCTGAAAGCCCATTTCAATCATAATCAGGAATATTGACATATTTTGAA
1 AGCAAATGATGGAGCATGCTGAAAGCCCATTTCAATAAGAATCAAGAATATTGACACATTTTGAA
* *
2189547 CGTTTGTATT
66 CGCTTGTATC
* * * * *
2189557 AGCTAATGCTGGAGCATGCTGAAAGCCCCTTTCAATAAGAATCAAGAATGTTGACGCATTTTGAA
1 AGCAAATGATGGAGCATGCTGAAAGCCCATTTCAATAAGAATCAAGAATATTGACACATTTTGAA
*
2189622 TGCTTGTATC
66 CGCTTGTATC
2189632 AGCAAATG
1 AGCAAATG
2189640 TTAGGGCATG
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (75 bp):
AGCAAATGATGGAGCATGCTGAAAGCCCATTTCAATAAGAATCAAGAATATTGACACATTTTGAA
CGCTTGTATC
Found at i:2191017 original size:22 final size:22
Alignment explanation
Indices: 2190989--2191048 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
2190979 ATCATATCTA
2190989 CACTCTTCAAAGATGATAAATT
1 CACTCTTCAAAGATGATAAATT
* *
2191011 CACTCTTCGAAGATGATAGATT
1 CACTCTTCAAAGATGATAAATT
* *
2191033 CTCTTTTCAAAGATGA
1 CACTCTTCAAAGATGA
2191049 AAGCTTTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.33
Consensus pattern (22 bp):
CACTCTTCAAAGATGATAAATT
Found at i:2191868 original size:45 final size:45
Alignment explanation
Indices: 2191817--2192180 Score: 656
Period size: 45 Copynumber: 8.1 Consensus size: 45
2191807 TTTGATATTT
2191817 AAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC
1 AAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC
*
2191862 AAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC
1 AAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC
2191907 AAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC
1 AAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC
*
2191952 AAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATATTTTC
1 AAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC
* *
2191997 AAAACCTTCGAGTCATCTGTAAGCCCTTCAATGCATGATGTTTTC
1 AAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC
* * *
2192042 AAAATCTTCGGGTCATCTGTAAGCCTTTCAGTACATGATGTTTTC
1 AAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC
*
2192087 AAAACCTTCGGGTCATCTGTAAGCCCTTCGGTGCATGATGTTTTC
1 AAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC
2192132 AAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC
1 AAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC
2192177 AAAA
1 AAAA
2192181 AAAACCTTTG
Statistics
Matches: 303, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 303 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (45 bp):
AAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC
Done.