Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_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: 10629029
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 51
Found at i:3705353 original size:25 final size:25
Alignment explanation
Indices: 3705322--3705374 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
3705312 TTTAACCGCA
* * *
3705322 AAGTATCATATTTTGCTTCAACTTC
1 AAGTATCATACTATACTTCAACTTC
3705347 AAGTATCATACTATACTTCAACTTC
1 AAGTATCATACTATACTTCAACTTC
3705372 AAG
1 AAG
3705375 AAACAAACCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.38
Consensus pattern (25 bp):
AAGTATCATACTATACTTCAACTTC
Found at i:3708335 original size:18 final size:18
Alignment explanation
Indices: 3708312--3708356 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
3708302 TACTTCTTTA
3708312 TATTATATTTATT-TACAT
1 TATTAT-TTTATTCTACAT
* *
3708330 TATTATTTTTTTCTATAT
1 TATTATTTTATTCTACAT
3708348 TATTATTTT
1 TATTATTTT
3708357 TCCCTCCCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTATTTTATTCTACAT
Found at i:3718992 original size:13 final size:13
Alignment explanation
Indices: 3718974--3718999 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3718964 GTCCTAAGTT
3718974 GAAAAAAAAAAAA
1 GAAAAAAAAAAAA
3718987 GAAAAAAAAAAAA
1 GAAAAAAAAAAAA
3719000 AACTTTTTTG
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
GAAAAAAAAAAAA
Found at i:3719562 original size:1 final size:1
Alignment explanation
Indices: 3719556--3719588 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
3719546 GAGCATCTTC
3719556 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3719589 TCATCAAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:3720159 original size:105 final size:105
Alignment explanation
Indices: 3719938--3720511 Score: 827
Period size: 105 Copynumber: 5.6 Consensus size: 105
3719928 ATATCGTGGC
* * * *
3719938 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGCTGGTTGTCAACAAAC--TTCT-C
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-AAACAATTTTCC
*
3719999 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65 CATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
3720040 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-AAACAATTTTCC
*
3720105 CATTTCAGAGCCAATTTCAACTTCAC-ACAAAGGATATTGG
65 CATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
3720145 ACTCCAGACAACGCAAGTTC-ACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAA-CTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAACAATTTTCCC
*
3720208 AATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 -ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
3720249 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAACAATTTTCCC
* *
3720314 ATCTCAGAGCCAATTTCAACTTCACAACGGAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
3720354 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTC-ACAA-AA-TTT--C
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAACAATTTTCCC
3720414 A-TTCAGAGCCAATTTCAACTTCACAACGAAGGA-ATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
3720452 ACTCCAGACAGCGCAAGTTCAACTTCGCGACGAA-GGACCGCTGGTTGTCAATAAACAATT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-AAACAATT
3720512 ACCCAATTTC
Statistics
Matches: 436, Mismatches: 24, Indels: 25
0.90 0.05 0.05
Matches are distributed among these distances:
97 14 0.03
98 38 0.09
99 32 0.07
100 3 0.01
101 1 0.00
102 43 0.10
103 48 0.11
104 67 0.15
105 160 0.37
106 30 0.07
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (105 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAACAATTTTCCC
ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:3720242 original size:209 final size:209
Alignment explanation
Indices: 3719938--3720511 Score: 909
Period size: 209 Copynumber: 2.8 Consensus size: 209
3719928 ATATCGTGGC
* * *
3719938 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGCTGGTTGTCAAC-AAACTTCTCAA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAACTTCTCAA
3720001 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
66 -TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* *
3720066 ACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCCCATTTCAGAGCCAATTTCAACTTCAC
130 ACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCCAATCTCAGAGCCAATTTCAACTTCAC
3720131 -ACAAAGGATATTGG
195 AACAAAGGATATTGG
*
3720145 ACTCCAGACAACGCAAGTTC-ACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAA-AACTTCTCA
*
3720209 ATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTT
65 AT-TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
* * *
3720274 CACGACGAAGGGACCGCTGCTTGTCAA-CAACAACTTTCCAATCTCAGAGCCAATTTCAACTTCA
129 CACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCCAATCTCAGAGCCAATTTCAACTTCA
**
3720338 CAACGGAGGATATTGG
194 CAACAAAGGATATTGG
*
3720354 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTC-ACAAAA-TT-TC-A
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAACTTCTCAA
* *
3720415 TTCAGAGCCAATTTCAACTTCACAACGAAGGA-ATTGGACTCCAGACAGCGCAAGTTCAACTTCG
66 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
3720479 CGACGAA-GGACCGCTGGTTGTCAATAAACAATT
131 CGACGAAGGGACCGCTGGTTGTCAATAAACAATT
3720512 ACCCAATTTC
Statistics
Matches: 340, Mismatches: 20, Indels: 18
0.90 0.05 0.05
Matches are distributed among these distances:
202 16 0.05
203 42 0.12
204 31 0.09
205 2 0.01
206 17 0.05
207 34 0.10
208 38 0.11
209 132 0.39
210 28 0.08
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (209 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAACTTCTCAA
TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCCAATCTCAGAGCCAATTTCAACTTCACA
ACAAAGGATATTGG
Found at i:3728440 original size:16 final size:16
Alignment explanation
Indices: 3728419--3728465 Score: 94
Period size: 16 Copynumber: 2.9 Consensus size: 16
3728409 AATTAAGCGC
3728419 TGAATGATTCAAATGT
1 TGAATGATTCAAATGT
3728435 TGAATGATTCAAATGT
1 TGAATGATTCAAATGT
3728451 TGAATGATTCAAATG
1 TGAATGATTCAAATG
3728466 CTCTGTATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.36
Consensus pattern (16 bp):
TGAATGATTCAAATGT
Found at i:3729041 original size:16 final size:16
Alignment explanation
Indices: 3729020--3729058 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
3729010 GGTATTACCC
*
3729020 GACCTGTTTTCAACCT
1 GACCTGTTATCAACCT
*
3729036 GACCTGTTATGAACCT
1 GACCTGTTATCAACCT
3729052 GACCTGT
1 GACCTGT
3729059 AATTAACTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (16 bp):
GACCTGTTATCAACCT
Found at i:3729918 original size:26 final size:26
Alignment explanation
Indices: 3729889--3729938 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
3729879 AAAATAGCCA
*
3729889 GAGTGCATCAATGCATCAAATGCACT
1 GAGTGCATCAATGCATAAAATGCACT
* *
3729915 GAGTGTATCGATGCATAAAATGCA
1 GAGTGCATCAATGCATAAAATGCA
3729939 TTCGATATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (26 bp):
GAGTGCATCAATGCATAAAATGCACT
Found at i:3730409 original size:19 final size:20
Alignment explanation
Indices: 3730372--3730412 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
3730362 TAAATTTAGT
*
3730372 TTTTATATTAATTCCAATTC
1 TTTTATATTAATTACAATTC
*
3730392 TTTT-TATTAATTATAATTC
1 TTTTATATTAATTACAATTC
3730411 TT
1 TT
3730413 ATATTATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTATATTAATTACAATTC
Found at i:3731071 original size:22 final size:23
Alignment explanation
Indices: 3731026--3731072 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
3731016 TCAATGTACC
*
3731026 AATTCAGCAAGCATCATTGCATT
1 AATTCAGCAAGCATCACTGCATT
*
3731049 AATTCAGCAATCATC-CTGCATT
1 AATTCAGCAAGCATCACTGCATT
3731071 AA
1 AA
3731073 GAAAACATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (23 bp):
AATTCAGCAAGCATCACTGCATT
Found at i:3731181 original size:20 final size:20
Alignment explanation
Indices: 3731156--3731206 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
3731146 AACCCTTACA
** *
3731156 AATATCAAGTAGAAGCAAGC
1 AATATCAAACAGAAGCAAAC
3731176 AATATCAAACAGAAGCAAAC
1 AATATCAAACAGAAGCAAAC
*
3731196 AATATAAAACA
1 AATATCAAACA
3731207 TAATAAAGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.59, C:0.16, G:0.12, T:0.14
Consensus pattern (20 bp):
AATATCAAACAGAAGCAAAC
Found at i:3734632 original size:24 final size:24
Alignment explanation
Indices: 3734595--3734682 Score: 70
Period size: 24 Copynumber: 3.7 Consensus size: 24
3734585 TATATCAAAA
* * *
3734595 ATCAAAACATAATTCAATTAAGAT
1 ATCAGAACAGAATTCAAGTAAGAT
* *
3734619 ATCAGAATAGAATTCAGGTAAGAT
1 ATCAGAACAGAATTCAAGTAAGAT
* * * *
3734643 ATTAGAACAGAA-TCCAGATCAGGT
1 ATCAGAACAGAATTCAAG-TAAGAT
*
3734667 ATCATAACAGAATTCA
1 ATCAGAACAGAATTCA
3734683 GGTCAAAAAT
Statistics
Matches: 48, Mismatches: 14, Indels: 3
0.74 0.22 0.05
Matches are distributed among these distances:
23 3 0.06
24 43 0.90
25 2 0.04
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.25
Consensus pattern (24 bp):
ATCAGAACAGAATTCAAGTAAGAT
Found at i:3739897 original size:6 final size:6
Alignment explanation
Indices: 3739888--3740033 Score: 62
Period size: 6 Copynumber: 24.3 Consensus size: 6
3739878 ATAGTTTGAA
* * * * * * * *
3739888 TTTGGG TTT-GG ATTGAG TTTAGG TTAGGG TTTAGA TTTGGG TTCGAG
1 TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG
* * * * * *
3739935 TTTGGG TTTGGG TCTAGG TTCT-GG TTTAGG TTTAGGG TTTAGT TTTAGG
1 TTTGGG TTTGGG TTTGGG TT-TGGG TTTGGG TTT-GGG TTTGGG TTTGGG
*** * * * **
3739984 TTCAAG TTTGGG TTTGGG TTTTGG TTAGGG TTTTGG TTCAGG TTTGGG
1 TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG
3740032 TT
1 TT
3740034 AGAAAAGATG
Statistics
Matches: 99, Mismatches: 37, Indels: 8
0.69 0.26 0.06
Matches are distributed among these distances:
5 5 0.05
6 88 0.89
7 6 0.06
ACGTcount: A:0.11, C:0.03, G:0.38, T:0.48
Consensus pattern (6 bp):
TTTGGG
Found at i:3740003 original size:18 final size:18
Alignment explanation
Indices: 3739923--3740033 Score: 75
Period size: 18 Copynumber: 6.1 Consensus size: 18
3739913 AGGGTTTAGA
3739923 TTTGGGTTC-GAGTTTGGG
1 TTTGGGTTCAG-GTTTGGG
3739941 TTTGGG-TCTAGGTTCT-GG
1 TTTGGGTTC-AGGTT-TGGG
* * * *
3739959 TTTAGGTTTAGGGTTTAGT
1 TTTGGGTTCA-GGTTTGGG
* *
3739978 TTTAGGTTCAAGTTTGGG
1 TTTGGGTTCAGGTTTGGG
** *
3739996 TTTGGGTTTTGGTTAGGG
1 TTTGGGTTCAGGTTTGGG
*
3740014 TTTTGGTTCAGGTTTGGG
1 TTTGGGTTCAGGTTTGGG
3740032 TT
1 TT
3740034 AGAAAAGATG
Statistics
Matches: 71, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
17 2 0.03
18 52 0.73
19 17 0.24
ACGTcount: A:0.09, C:0.05, G:0.38, T:0.49
Consensus pattern (18 bp):
TTTGGGTTCAGGTTTGGG
Found at i:3740443 original size:113 final size:113
Alignment explanation
Indices: 3740215--3740423 Score: 291
Period size: 113 Copynumber: 1.9 Consensus size: 113
3740205 GTTTGGGGAA
* *
3740215 GAACAAGGATGAACAATGGATGAACTTTTGGGCGTTTGATCGAAAAAAATAGGAATGAGTTTAGG
1 GAACAAGGATGAACAACGGATGAACTTTTGGGCGTTTGATCGAAAAAAATAGAAATGAGTTTAGG
*
3740280 TTTTGGTGTTTGTGAAGATCAAATAATGGTTTAGGGAAGAACTCAGAT
66 TTTTGGTGTTTGTGAAGATCAAATAAGGGTTTAGGGAAGAACTCAGAT
* * * *
3740328 GAACACGGATGAAC-ACGAGATGAATTTTTGGGTGTTTGATCGAAAAAAATACGAAATG-GTTTG
1 GAACAAGGATGAACAACG-GATGAACTTTTGGGCGTTTGATCGAAAAAAATA-GAAATGAGTTTA
*
3740391 GGTTTTGGTGTTT-TGAATATCAAA-AGAGGGTTT
64 GGTTTTGGTGTTTGTGAAGATCAAATA-AGGGTTT
3740424 TTGGGATGAA
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
111 1 0.01
112 18 0.21
113 61 0.72
114 5 0.06
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (113 bp):
GAACAAGGATGAACAACGGATGAACTTTTGGGCGTTTGATCGAAAAAAATAGAAATGAGTTTAGG
TTTTGGTGTTTGTGAAGATCAAATAAGGGTTTAGGGAAGAACTCAGAT
Found at i:3740733 original size:61 final size:60
Alignment explanation
Indices: 3740650--3740790 Score: 210
Period size: 61 Copynumber: 2.3 Consensus size: 60
3740640 TGTCTCCTAG
*
3740650 TTTTAAATTTGTTCAATTTAGTCCAAATTTAATGATGCAATATATTAATTTAAGCTTCAT
1 TTTTAAATTTGTTCAATTTAGTCCAAATTTAATGATACAATATATTAATTTAAGCTTCAT
* * * *
3740710 TTTTCAAATTTCTTTAATTTAGTCCAAATTTAATGTTACAATTTATTAATTTAAGCTTCAT
1 TTTT-AAATTTGTTCAATTTAGTCCAAATTTAATGATACAATATATTAATTTAAGCTTCAT
*
3740771 ATTTAAAATTTGTTCAATTT
1 -TTTTAAATTTGTTCAATTT
3740791 GATCCTTATA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
60 4 0.06
61 64 0.90
62 3 0.04
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.50
Consensus pattern (60 bp):
TTTTAAATTTGTTCAATTTAGTCCAAATTTAATGATACAATATATTAATTTAAGCTTCAT
Found at i:3740854 original size:26 final size:26
Alignment explanation
Indices: 3740818--3740915 Score: 83
Period size: 26 Copynumber: 3.5 Consensus size: 26
3740808 CAATTATTTC
3740818 AATTAATATATATGTTTATATTAATA
1 AATTAATATATATGTTTATATTAATA
*
3740844 AATTAATATATAGGTTATATATACTAATGA
1 AATTAATATATATGTT-TATAT--TAAT-A
*
3740874 ACTATATAATATATA-GTTTATATAAACT-
1 A--AT-TAATATATATGTTTATATTAA-TA
3740902 AATTAACTATATAT
1 AATTAA-TATATAT
3740916 AATGTATAGT
Statistics
Matches: 60, Mismatches: 2, Indels: 19
0.74 0.02 0.23
Matches are distributed among these distances:
25 3 0.05
26 23 0.38
27 5 0.08
28 1 0.02
29 6 0.10
30 3 0.05
31 5 0.08
32 5 0.08
33 9 0.15
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (26 bp):
AATTAATATATATGTTTATATTAATA
Found at i:3740884 original size:33 final size:32
Alignment explanation
Indices: 3740847--3740997 Score: 180
Period size: 32 Copynumber: 4.6 Consensus size: 32
3740837 ATTAATAAAT
*
3740847 TAATATATAGGTTATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAAT-AACTATA
*
3740880 TAATATATAGTTTATATAAACTAATTAACTATATA
1 TAATATATAGTTTATATATACTAA-TAAC--TATA
*
3740915 TAATGTATAGTTTATATATACTAATAACTATA
1 TAATATATAGTTTATATATACTAATAACTATA
* * *
3740947 TAATATATAGTTTGTATATAC-CATATACTTTA
1 TAATATATAGTTTATATATACTAATA-ACTATA
*
3740979 T-ATATATAGTTTTTATATA
1 TAATATATAGTTTATATATA
3740998 TAGTTCATAT
Statistics
Matches: 105, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
31 20 0.19
32 29 0.28
33 25 0.24
34 5 0.05
35 26 0.25
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (32 bp):
TAATATATAGTTTATATATACTAATAACTATA
Found at i:3740888 original size:35 final size:33
Alignment explanation
Indices: 3740849--3740997 Score: 173
Period size: 33 Copynumber: 4.5 Consensus size: 33
3740839 TAATAAATTA
*
3740849 ATATATAGGTTATATATACTAATGAACTATATA-
1 ATATATAGTTTATATATACTAAT-AACTATATAT
*
3740882 ATATATAGTTTATATAAACTAATTAACTATATAT
1 ATATATAGTTTATATATACTAA-TAACTATATAT
*
3740916 AATGTATAGTTTATATATACTAATAACTATATA-
1 -ATATATAGTTTATATATACTAATAACTATATAT
* *
3740949 ATATATAGTTTGTATATAC-CATATACT-T-TAT
1 ATATATAGTTTATATATACTAATA-ACTATATAT
*
3740980 ATATATAGTTTTTATATA
1 ATATATAGTTTATATATA
3740998 TAGTTCATAT
Statistics
Matches: 103, Mismatches: 8, Indels: 12
0.84 0.07 0.10
Matches are distributed among these distances:
30 2 0.02
31 21 0.20
32 20 0.19
33 29 0.28
34 11 0.11
35 20 0.19
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (33 bp):
ATATATAGTTTATATATACTAATAACTATATAT
Found at i:3741000 original size:13 final size:13
Alignment explanation
Indices: 3740969--3741007 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
3740959 TGTATATACC
*
3740969 ATATACTTTATAT
1 ATATAGTTTATAT
*
3740982 ATATAGTTTTTAT
1 ATATAGTTTATAT
*
3740995 ATATAGTTCATAT
1 ATATAGTTTATAT
3741008 GTAAACTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (13 bp):
ATATAGTTTATAT
Found at i:3741046 original size:18 final size:18
Alignment explanation
Indices: 3740994--3741048 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 18
3740984 ATAGTTTTTA
*
3740994 TATATAGTTCATATGTAAAC
1 TATATAG-T-ATATATAAAC
3741014 TATATAGTATATATAAAC
1 TATATAGTATATATAAAC
3741032 TATATATGTAGTATATA
1 TATATA-GTA-TATATA
3741049 CTATATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 15 0.47
19 4 0.12
20 13 0.41
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (18 bp):
TATATAGTATATATAAAC
Found at i:3741051 original size:18 final size:17
Alignment explanation
Indices: 3741011--3741154 Score: 60
Period size: 18 Copynumber: 8.5 Consensus size: 17
3741001 TTCATATGTA
3741011 AACTATATAGTATATAT
1 AACTATATAGTATATAT
3741028 AAACTATATATGTAGTATAT
1 -AACTATATA-GTA-TATAT
*
3741048 -ACTATATAAATCGTTTAT-T
1 AACTATAT--A--GTATATAT
*
3741067 AACTA-AT-GTAT-T-C
1 AACTATATAGTATATAT
3741080 AACTATATAGTAT-TCAT
1 AACTATATAGTATAT-AT
*
3741097 -AC-ATATAATATATAT
1 AACTATATAGTATATAT
3741112 AAACTATATA-T-TATAT
1 -AACTATATAGTATATAT
* *
3741128 AGTCCAT-TAGTATATAT
1 A-ACTATATAGTATATAT
3741145 AACCTATATA
1 AA-CTATATA
3741155 TTAATTTATT
Statistics
Matches: 97, Mismatches: 10, Indels: 38
0.67 0.07 0.26
Matches are distributed among these distances:
13 6 0.06
14 5 0.05
15 18 0.19
16 12 0.12
17 12 0.12
18 23 0.24
19 6 0.06
20 13 0.13
21 2 0.02
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.41
Consensus pattern (17 bp):
AACTATATAGTATATAT
Found at i:3741310 original size:18 final size:18
Alignment explanation
Indices: 3741248--3741389 Score: 97
Period size: 18 Copynumber: 7.2 Consensus size: 18
3741238 AGTTTATATA
3741248 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
*
3741266 TAGAGTTCATATGTAAATATCAAC
1 TATAGTTCATATG----TA--AAC
*
3741290 TATAGTTTATATGTAAAC
1 TATAGTTCATATGTAAAC
* *
3741308 TATAGTTCGTATATAAAC
1 TATAGTTCATATGTAAAC
*
3741326 TATATAGTTTCACTATAGTTTATA-
1 --TATAG-TTCA-TAT-G--TAAAC
3741350 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
* *
3741368 TATAGTTCATATATCAAC
1 TATAGTTCATATGTAAAC
3741386 TATA
1 TATA
3741390 TAATTTATAT
Statistics
Matches: 98, Mismatches: 12, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
17 3 0.03
18 50 0.51
19 1 0.01
20 10 0.10
21 7 0.07
22 10 0.10
24 14 0.14
25 3 0.03
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.41
Consensus pattern (18 bp):
TATAGTTCATATGTAAAC
Found at i:3741354 original size:60 final size:57
Alignment explanation
Indices: 3741290--3741527 Score: 231
Period size: 60 Copynumber: 4.1 Consensus size: 57
3741280 AAATATCAAC
* *
3741290 TATAGTTTATATGTAAACTATAGTTCGTATATAAACTATATAGTTTCACTATAGTTTATA
1 TATAGTTCATATGTAAA-TATAGTTCATATATAAACTATATAGTTT-A-TATAGTTTATA
* *
3741350 TATAGTTCATATGTAAACTATAGTTCATATATCAACTATATAATTTATATAGTTTATA
1 TATAGTTCATATGTAAA-TATAGTTCATATATAAACTATATAGTTTATATAGTTTATA
*
3741408 TATAGATATCAACTATAGT--ATATAGTTTATATATAAAC--TATAGTTTATATAGTTTTTATA
1 TATAG-T-TC-A-TAT-GTAAATATAGTTCATATATAAACTATATAGTTTATATAG--TTTATA
* * * *
3741468 TATAGTTCATATGTAAAT-T-GTAC-TATATATACTATATAGTTTTTATA-TATAATA
1 TATAGTTCATATGTAAATATAGTTCATATATAAACTATATAGTTTATATAGT-TTATA
3741522 TATAGT
1 TATAGT
3741528 ATATAAATAT
Statistics
Matches: 154, Mismatches: 12, Indels: 30
0.79 0.06 0.15
Matches are distributed among these distances:
53 1 0.01
54 18 0.12
55 4 0.03
56 16 0.10
57 3 0.02
58 31 0.20
59 3 0.02
60 71 0.46
61 2 0.01
62 3 0.02
63 2 0.01
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (57 bp):
TATAGTTCATATGTAAATATAGTTCATATATAAACTATATAGTTTATATAGTTTATA
Found at i:3741447 original size:25 final size:26
Alignment explanation
Indices: 3741348--3741469 Score: 83
Period size: 27 Copynumber: 4.7 Consensus size: 26
3741338 CTATAGTTTA
* *
3741348 TATATAGTTCATATGTAAACTATAGT
1 TATATAGTTTATATATAAACTATAGT
**
3741374 TCATATA-TCAACTATATAATTTA-TATAGT
1 T-ATATAGTTTA-TATATAA---ACTATAGT
* * *
3741403 T-TATA-TATAGATATCAACTATAG-
1 TATATAGTTTATATATAAACTATAGT
3741426 TATATAGTTTATATATAAACTATAGTT
1 TATATAGTTTATATATAAACTATAG-T
*
3741453 TATATAGTTTTTATATA
1 TATATAGTTTATATATA
3741470 TAGTTCATAT
Statistics
Matches: 75, Mismatches: 11, Indels: 19
0.71 0.10 0.18
Matches are distributed among these distances:
23 2 0.03
24 9 0.12
25 15 0.20
26 8 0.11
27 33 0.44
29 7 0.09
30 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (26 bp):
TATATAGTTTATATATAAACTATAGT
Found at i:3741537 original size:20 final size:20
Alignment explanation
Indices: 3741494--3741600 Score: 54
Period size: 20 Copynumber: 5.0 Consensus size: 20
3741484 ATTGTACTAT
* * * *
3741494 ATATACTATATAGTTTTTAT
1 ATATAATATATAGTATATAA
3741514 ATATAATATATAGTATATAA
1 ATATAATATATAGTATATAA
3741534 ATATCAACTATAGTTTGTAGTATATAA
1 ATAT-AA-TATA-----TAGTATATAA
* * *
3741561 ATATAA-ACTAAAGTTTATAT
1 ATATAATA-TATAGTATATAA
* *
3741581 ATATAGTATATACTATATAA
1 ATATAATATATAGTATATAA
3741601 TTAGTTTATA
Statistics
Matches: 66, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
20 40 0.61
21 3 0.05
22 4 0.06
24 1 0.02
25 2 0.03
26 2 0.03
27 14 0.21
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.43
Consensus pattern (20 bp):
ATATAATATATAGTATATAA
Found at i:3741545 original size:27 final size:27
Alignment explanation
Indices: 3741515--3741570 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
3741505 AGTTTTTATA
*
3741515 TATAATATATAGTATATAAATATCAAC
1 TATAATATATAGTATATAAATATAAAC
* * *
3741542 TATAGTTTGTAGTATATAAATATAAAC
1 TATAATATATAGTATATAAATATAAAC
3741569 TA
1 TA
3741571 AAGTTTATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.39
Consensus pattern (27 bp):
TATAATATATAGTATATAAATATAAAC
Found at i:3741592 original size:27 final size:27
Alignment explanation
Indices: 3741522--3741585 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
3741512 ATATATAATA
* *
3741522 TATAGTATATAAATATCAACTATAGTT
1 TATAGTATATAAATATAAACTAAAGTT
*
3741549 TGTAGTATATAAATATAAACTAAAGTT
1 TATAGTATATAAATATAAACTAAAGTT
3741576 TATA-TATATA
1 TATAGTATATA
3741586 GTATATACTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 6 0.18
27 27 0.82
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.41
Consensus pattern (27 bp):
TATAGTATATAAATATAAACTAAAGTT
Found at i:3741926 original size:9 final size:9
Alignment explanation
Indices: 3741914--3741967 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
3741904 ATTAATAAAC
3741914 TATATAATA
1 TATATAATA
*
3741923 TATACAATA
1 TATATAATA
3741932 TATAT--TA
1 TATATAATA
*
3741939 TTTATAATTA
1 TATATAA-TA
*
3741949 TACATAATA
1 TATATAATA
3741958 TATA-AATA
1 TATATAATA
3741966 TA
1 TA
3741968 AATTTTATAG
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
7 6 0.17
8 6 0.17
9 17 0.47
10 7 0.19
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (9 bp):
TATATAATA
Found at i:3742005 original size:9 final size:10
Alignment explanation
Indices: 3741929--3742030 Score: 54
Period size: 11 Copynumber: 9.9 Consensus size: 10
3741919 AATATATACA
3741929 ATATAT-ATT
1 ATATATAATT
*
3741938 ATTTATAATT
1 ATATATAATT
*
3741948 ATACATAATAT
1 ATATATAAT-T
3741959 ATAAATATAAATT
1 AT--ATAT-AATT
*
3741972 -T-TATAGTTT
1 ATATATA-ATT
3741981 ATATATAATT
1 ATATATAATT
3741991 CATATATAATTT
1 -ATATATAA-TT
3742003 ATATATAA--
1 ATATATAATT
3742011 ACTATATAAGTT
1 A-TATATAA-TT
3742023 ATAT-TAAT
1 ATATATAAT
3742031 AAACTATGTA
Statistics
Matches: 73, Mismatches: 6, Indels: 28
0.68 0.06 0.26
Matches are distributed among these distances:
8 2 0.03
9 18 0.25
10 16 0.22
11 26 0.36
12 4 0.05
13 4 0.05
14 3 0.04
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (10 bp):
ATATATAATT
Found at i:3742008 original size:13 final size:11
Alignment explanation
Indices: 3741973--3742010 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
3741963 ATATAAATTT
*
3741973 TATAGTTTATA
1 TATAATTTATA
*
3741984 TATAATTCATA
1 TATAATTTATA
3741995 TATAATTTATA
1 TATAATTTATA
3742006 TATAA
1 TATAA
3742011 ACTATATAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (11 bp):
TATAATTTATA
Found at i:3742107 original size:2 final size:2
Alignment explanation
Indices: 3742100--3742266 Score: 153
Period size: 2 Copynumber: 81.5 Consensus size: 2
3742090 TTATACATGG
* *
3742100 TA TA TA TA GTT TA TA CA TA -A 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
* *
3742142 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GTT TA TA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * * *
3742185 GTA TA TA TA T- TA TA AA CTA TA TA AA CTA TA TA GTT TA TA TT TA
1 -TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA TA TA TA TA
*
3742228 TA T- TA T- TA TA TA CTA TA TA TA CA CTA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA T
3742267 TAGTTGTTTC
Statistics
Matches: 135, Mismatches: 18, Indels: 24
0.76 0.10 0.14
Matches are distributed among these distances:
1 4 0.03
2 122 0.90
3 9 0.07
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:3742192 original size:22 final size:20
Alignment explanation
Indices: 3741847--3742266 Score: 132
Period size: 22 Copynumber: 19.7 Consensus size: 20
3741837 ACCTTAAACC
* *
3741847 ATATATACTATATATATAAAA
1 ATATATA-TTTATATATAAAT
3741868 ACTATATAGTTTATATTAATAAACT
1 A-TATATA-TTTATA-T-ATAAA-T
*
3741893 ATATA-GTTTATAT-T-AAT
1 ATATATATTTATATATAAAT
* *
3741910 AAACTATA-TAATATATACAAT
1 ATA-TATATTTATATATA-AAT
*
3741931 ATATATTATTTATAATTATACAT
1 ATATA-TATTTAT-A-TATAAAT
*
3741954 A-ATATA--TAAATATAAAT
1 ATATATATTTATATATAAAT
* *
3741971 -TTTATAGTTTATATATAATT
1 ATATATA-TTTATATATAAAT
3741991 CATATATAATTTATATATAAACT
1 -ATATAT-ATTTATATATAAA-T
*
3742014 ATATA-AGTTATATTAATAAACT
1 ATATATATTTATA-T-ATAAA-T
* * *
3742036 ATGTA-GTTTATATAT-AGT
1 ATATATATTTATATATAAAT
*
3742054 -TCA-ATAGTTCATATATAAACT
1 AT-ATATA-TTTATATATAAA-T
* *
3742075 ATATAATATTATAGTTTATACATGGT
1 ATAT-ATATT-TA-TATATA-A--AT
*
3742101 ATATATAGTTTATACATAATAT
1 ATATATA-TTTATATATAA-AT
*
3742123 ATATATATATATATATATATAT
1 ATATATAT-T-TATATATAAAT
* *
3742145 ATATATATATATATATATAT
1 ATATATATTTATATATAAAT
3742165 ATATATAGTTTATATATAAAGT
1 ATATATA-TTTATATATAAA-T
3742187 ATATATATTATAAACTATATAAACT
1 ATATATATT-T--A-TATATAAA-T
* * *
3742212 ATATA-GTTTATATTTATAT
1 ATATATATTTATATATAAAT
* *
3742231 -TATTATATACTATATATACACT
1 ATA-TATAT-TTATATATA-AAT
*
3742253 ATATATATATATAT
1 ATATATATTTATAT
3742267 TAGTTGTTTC
Statistics
Matches: 301, Mismatches: 48, Indels: 100
0.67 0.11 0.22
Matches are distributed among these distances:
17 15 0.05
18 13 0.04
19 16 0.05
20 45 0.15
21 41 0.14
22 96 0.32
23 22 0.07
24 25 0.08
25 21 0.07
26 7 0.02
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (20 bp):
ATATATATTTATATATAAAT
Found at i:3742740 original size:216 final size:216
Alignment explanation
Indices: 3742366--3742870 Score: 929
Period size: 216 Copynumber: 2.3 Consensus size: 216
3742356 TTTATCCCTT
*
3742366 TGTGTTGTTTAATTTATTTAAATTTTTATTTGAAATTTCATATTTGTTCAATTTAGTCCTTAAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTTAAAA
* * *
3742431 TTATATTTGTATCTGAAATTGGCCCATACTTATTACTTATTTATATTTTTTAATTGGCCTATAAC
66 TTATATTTGCATATGAAATTGGCCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATAAC
3742496 TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTT
131 TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTT
3742561 CGATTTGATCCCTCATCAATG
196 CGATTTGATCCCTCATCAATG
3742582 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTTAAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTTAAAA
3742647 TTATATTTGCATATGAAATTGGCCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATAAC
66 TTATATTTGCATATGAAATTGGCCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATAAC
*
3742712 TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTT
131 TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTT
3742777 CGATTTGATCCCTCATCAATG
196 CGATTTGATCCCTCATCAATG
* * * *
3742798 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTATTCAATTTAGTTCTTAAAT
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTTAAAA
3742863 TTATATTT
66 TTATATTT
3742871 TTCATAAAAT
Statistics
Matches: 280, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
216 280 1.00
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.51
Consensus pattern (216 bp):
TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTTAAAA
TTATATTTGCATATGAAATTGGCCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATAAC
TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTT
CGATTTGATCCCTCATCAATG
Found at i:3743884 original size:16 final size:16
Alignment explanation
Indices: 3743854--3743899 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
3743844 TAAATTATTT
*
3743854 ATTAACATTATTTTAAA
1 ATTAA-ATTAATTTAAA
3743871 ATTAAATTAATTTAAA
1 ATTAAATTAATTTAAA
* *
3743887 TTTAAATTGATTT
1 ATTAAATTAATTT
3743900 TTTCTCATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 21 0.81
17 5 0.19
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (16 bp):
ATTAAATTAATTTAAA
Found at i:3744294 original size:24 final size:24
Alignment explanation
Indices: 3744267--3744312 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
3744257 AGATATATAA
* *
3744267 TTTTTATATTTGT-AGTTATGTAT
1 TTTTTTTATTTATAAGTTATGTAT
*
3744290 TTTTTTTCTTTATAAGTTATGTA
1 TTTTTTTATTTATAAGTTATGTA
3744313 AAATGAACAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.22, C:0.02, G:0.11, T:0.65
Consensus pattern (24 bp):
TTTTTTTATTTATAAGTTATGTAT
Found at i:3747522 original size:88 final size:88
Alignment explanation
Indices: 3747422--3747584 Score: 272
Period size: 88 Copynumber: 1.9 Consensus size: 88
3747412 ATTTTTAATT
* * *
3747422 ATATTAAAAGAGTTATATTCATATTTATAATTGAAATTAAGTAAAAATGTTCTGCTAACTAAATG
1 ATATTAAAAGAGTTACATTCATATTTATAATTGAAATTAAGTAAAAATGTTATACTAACTAAATG
*
3747487 ATATTTCAGTAAAATTTATCAAA
66 AAATTTCAGTAAAATTTATCAAA
* *
3747510 ATATTCAAAGAGTTGCATTCATATTTATAATTGAAATTAAGTAAAAATGTTATACTAACTAAATG
1 ATATTAAAAGAGTTACATTCATATTTATAATTGAAATTAAGTAAAAATGTTATACTAACTAAATG
3747575 AAATTTCAGT
66 AAATTTCAGT
3747585 GTAATTAATG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 69 1.00
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (88 bp):
ATATTAAAAGAGTTACATTCATATTTATAATTGAAATTAAGTAAAAATGTTATACTAACTAAATG
AAATTTCAGTAAAATTTATCAAA
Found at i:3748326 original size:3 final size:3
Alignment explanation
Indices: 3748318--3748389 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
3748308 ATTTATTTCA
3748318 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3748366 AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
3748390 GGGTCAATAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:3748611 original size:27 final size:27
Alignment explanation
Indices: 3748548--3748627 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
3748538 TAAAATTATA
* * *
3748548 AAATTTTA-AAAAATATAAAATTA-AT
1 AAATTATATAAAAATATAAAAATATCT
3748573 -AATTATTGATAAAAATATAAAAATATCT
1 AAATTA-T-ATAAAAATATAAAAATATCT
**
3748601 AAATTATATAAAAA-ATTTAAATATCT
1 AAATTATATAAAAATATAAAAATATCT
3748627 A
1 A
3748628 TAGAATTTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
24 4 0.09
25 1 0.02
26 12 0.27
27 21 0.47
28 2 0.04
29 5 0.11
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (27 bp):
AAATTATATAAAAATATAAAAATATCT
Found at i:3752076 original size:13 final size:13
Alignment explanation
Indices: 3752055--3752089 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
3752045 CTCATCTTCT
*
3752055 CCAGGTGCTCCAA
1 CCAGATGCTCCAA
3752068 CCAGATGCTCCAA
1 CCAGATGCTCCAA
3752081 CCAGATGCT
1 CCAGATGCT
3752090 GCCACGCCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.26, C:0.37, G:0.20, T:0.17
Consensus pattern (13 bp):
CCAGATGCTCCAA
Found at i:3752481 original size:23 final size:23
Alignment explanation
Indices: 3752427--3752481 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
3752417 TAGTAACCGA
*
3752427 CGGTGGT--GAATAGTGATCGAC
1 CGGTGGTCGGAATAATGATCGAC
* * *
3752448 CGTTGGCCGGAATAATGATCGGC
1 CGGTGGTCGGAATAATGATCGAC
3752471 CGGTGGTCGGA
1 CGGTGGTCGGA
3752482 GCTCCCTCCG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 5 0.19
23 21 0.81
ACGTcount: A:0.20, C:0.18, G:0.40, T:0.22
Consensus pattern (23 bp):
CGGTGGTCGGAATAATGATCGAC
Found at i:3763247 original size:137 final size:137
Alignment explanation
Indices: 3762997--3763788 Score: 899
Period size: 137 Copynumber: 5.8 Consensus size: 137
3762987 TAGGAAACAT
*
3762997 CATCCTTAGATAACCAGACGTCCTCATCACTAAGGAACCGTGTTATCTCAAATATCTTTAAAGAT
1 CATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAGAT
** * * * *
3763062 GATCAGATGTCCTCATCACGAATGAACAATGTCATCCACCGATCAGAACTCCTCATCATGAAGGA
66 GGCCAGACGTCCTCATCACAAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAAGGA
3763127 GTCGCGA
131 GTCGCGA
* * * * ** * * *
3763134 CATTCTTAGATAACCATACGTCTTCATCATGAAGGAACTATGTTATCTTACATATCTTCAAAGAT
1 CATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAGAT
* * * * * *
3763199 GGCCAGATGTCCTTATCACAAAGGAACAATGTCATCTACCAATCAGAACTCCTTATCATGAAGGA
66 GGCCAGACGTCCTCATCACAAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAAGGA
* *
3763264 GTCGTGT
131 GTCGCGA
* ** *
3763271 TATCCTTAGATAACCAGACGTCCTCATCACGAAGGAAATGTTTTATCTCAAATATCTTTAAAGAT
1 CATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAGAT
* ** * * *
3763336 GGCCAAATTTCCTCATAACGAAGGAACAATGTCATCTACCGATCAGAACTCCTCCTCATCACGAA
66 GGCCAGACGTCCTCATCACAAAGGAACAATGTCATCCACCGATCAGAA---CTCCTCATCACGAA
* *
3763401 GGA-ACAAC-A
128 GGAGTC-GCGA
* * *
3763410 TCATCCTTAGATAGCCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTATAAAGA
1 -CATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAGA
** *
3763475 TGGCCAGACGTTTTCATCACAAAGGAACAATTTCATCCACCGATCAGAACTCCTCATCACGAAGG
65 TGGCCAGACGTCCTCATCACAAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAAGG
*
3763540 AGTAGC-A
130 AGTCGCGA
* * * *
3763547 TCATCCTTAGATAGCCAGATGTCCTCATAACGAAGGAACCATGTTATCTCAAATATCTTTAAAGA
1 -CATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAGA
* * * * ** * * *
3763612 TGTCTAGACATCCTCATCACAAAGGAATAATGTCA-CCACTAACCAGAACTCATCATCACGTAGG
65 TGGCCAGACGTCCTCATCACAAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAAGG
* * *
3763676 AGCCGAGT
130 AGTCGCGA
* * *
3763684 CATCCTTAGATAACCAGACATCCTCATCACAAAGGAACCGTGTTATCTCAAATATCTTCAAAGAT
1 CATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAGAT
* * ** *
3763749 GGCCAGACATCCTCATCACGATTGAACAATGTCATACACC
66 GGCCAGACGTCCTCATCACAAAGGAACAATGTCATCCACC
3763789 AGTTGGATCT
Statistics
Matches: 551, Mismatches: 96, Indels: 16
0.83 0.14 0.02
Matches are distributed among these distances:
136 113 0.21
137 325 0.59
139 1 0.00
140 112 0.20
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (137 bp):
CATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAGAT
GGCCAGACGTCCTCATCACAAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAAGGA
GTCGCGA
Found at i:3763555 original size:277 final size:272
Alignment explanation
Indices: 3762994--3763789 Score: 920
Period size: 277 Copynumber: 2.9 Consensus size: 272
3762984 TTTTAGGAAA
* **
3762994 CATCATCCTTAGATAACCAGACGTCCTCATCACTAAGGAACCGTGTTATCTCAAATATCTTTAAA
1 CATCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAAATGT-TTATCTCAAATATCTTTAAA
* * * *
3763059 GATGATCAGATGTCCTCATCACGAATGAACAATGTCATCCACCGATCAGAACTCCTCATCATGAA
65 GATGACCAGATATCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAA
* * * * * ** * *
3763124 GGAGTCGCGA-CATTCTTAGATAACCATACGTCTTCATCATGAAGGAACTATGTTATCTTACATA
130 GGA-AC-CGATCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATA
* * *
3763188 TCTTCAAAGATGGCCAGATGTCCTTATCACAAAGGAACAATGTCATCTACCAATCAGAACTCCTT
193 TCTTCAAAGATGGCCAGACGTCCTTATCACAAAGGAACAATGTCATCCACCAATCAGAACTCCTC
* *
3763253 ATCATGAAGGAGTCG
258 ATCACGAAGGAGTAG
** *
3763268 TGTTATCCTTAGATAACCAGACGTCCTCATCACGAAGGAAATGTTTTATCTCAAATATCTTTAAA
1 CATCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAAATG-TTTATCTCAAATATCTTTAAA
* * * * *
3763333 GATGGCCAAATTTCCTCATAACGAAGGAACAATGTCATCTACCGATCAGAACTCCTCCTCATCAC
65 GATGACCAGATATCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAA---CTCCTCATCAC
* *
3763398 GAAGGAACAAC-ATCATCCTTAGATAGCCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAA
127 GAAGGAAC--CGATCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAA
* * *
3763462 ATATCTAT-AAAGATGGCCAGACGT-TTTCATCACAAAGGAACAATTTCATCCACCGATCAGAAC
190 ATATCT-TCAAAGATGGCCAGACGTCCTT-ATCACAAAGGAACAATGTCATCCACCAATCAGAAC
3763525 TCCTCATCACGAAGGAGTAG
253 TCCTCATCACGAAGGAGTAG
* * *
3763545 CATCATCCTTAGATAGCCAGATGTCCTCATAACGAAGGAACCATG-TTATCTCAAATATCTTTAA
1 CATCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAA--ATGTTTATCTCAAATATCTTTAA
* * * * * ** * * *
3763609 AGATGTCTAGACATCCTCATCACAAAGGAATAATGTCA-CCACTAACCAGAACTCATCATCACGT
64 AGATGACCAGATATCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGA
* * *
3763673 AGGAGCCGAGTCATCCTTAGATAACCAGACATCCTCATCACAAAGGAACCGTGTTATCTCAAATA
129 AGGAACCGA-TCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATA
* * * ** *
3763738 TCTTCAAAGATGGCCAGACATCCTCATCACGATTGAACAATGTCATACACCA
193 TCTTCAAAGATGGCCAGACGTCCTTATCACAAAGGAACAATGTCATCCACCA
3763790 GTTGGATCTC
Statistics
Matches: 440, Mismatches: 68, Indels: 29
0.82 0.13 0.05
Matches are distributed among these distances:
271 1 0.00
272 2 0.00
273 106 0.24
274 102 0.23
275 1 0.00
276 13 0.03
277 211 0.48
278 1 0.00
279 3 0.01
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (272 bp):
CATCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAAATGTTTATCTCAAATATCTTTAAAG
ATGACCAGATATCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAAG
GAACCGATCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCT
TCAAAGATGGCCAGACGTCCTTATCACAAAGGAACAATGTCATCCACCAATCAGAACTCCTCATC
ACGAAGGAGTAG
Found at i:3764230 original size:3 final size:3
Alignment explanation
Indices: 3764222--3764257 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
3764212 ATTTATTCCA
3764222 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3764258 GGGTCAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:3764441 original size:25 final size:24
Alignment explanation
Indices: 3764390--3764461 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 24
3764380 AAATCATATA
**
3764390 AAAATTTTAAAGAGGATAAAATTAT
1 AAAATTTTAAA-AATATAAAATTAT
3764415 AAAATTTTAAAAATATAAAATTAAT
1 AAAATTTTAAAAATATAAAATT-AT
* *
3764440 AATTATTGATAAAAATATAAAA
1 AA-AATT-TTAAAAATATAAAA
3764462 ATATCTAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.22
25 15 0.38
26 3 0.08
27 13 0.32
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (24 bp):
AAAATTTTAAAAATATAAAATTAT
Found at i:3764465 original size:8 final size:8
Alignment explanation
Indices: 3764405--3764461 Score: 51
Period size: 8 Copynumber: 6.8 Consensus size: 8
3764395 TTTAAAGAGG
3764405 ATAAAATT
1 ATAAAATT
3764413 ATAAAATT
1 ATAAAATT
* *
3764421 TTAAAAAT
1 ATAAAATT
3764429 ATAAAATT
1 ATAAAATT
*
3764437 AATAATTATT
1 -ATAA-AATT
*
3764447 GATAAAAAT
1 -ATAAAATT
3764456 ATAAAA
1 ATAAAA
3764462 ATATCTAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
8 26 0.67
9 6 0.15
10 7 0.18
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (8 bp):
ATAAAATT
Found at i:3764479 original size:27 final size:25
Alignment explanation
Indices: 3764420--3764481 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 25
3764410 ATTATAAAAT
*
3764420 TTTAAAAATATAAAATTAATAATTA
1 TTTAAAAATATAAAAATAATAATTA
*
3764445 TTGATAAAAATATAAAAATATCTAAATTA
1 TT--TAAAAATATAAAAATA-AT-AATTA
3764474 TTTAAAAA
1 TTTAAAAA
3764482 AAATTAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
25 2 0.06
27 21 0.68
28 1 0.03
29 7 0.23
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
TTTAAAAATATAAAAATAATAATTA
Found at i:3766211 original size:2 final size:2
Alignment explanation
Indices: 3766204--3766236 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3766194 TTGATGTGTA
3766204 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3766237 CACACACACA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3767785 original size:3 final size:3
Alignment explanation
Indices: 3767777--3767802 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3767767 GAGACTATCA
3767777 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
3767803 CAAAATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:3768833 original size:17 final size:15
Alignment explanation
Indices: 3768817--3768866 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
3768807 TTAATCTTAT
3768817 TTTTTAATTTATTTTA
1 TTTTTAA-TTATTTTA
3768833 -TTTTAATT-TTTTA
1 TTTTTAATTATTTTA
* *
3768846 ATTATAATTATTTTA
1 TTTTTAATTATTTTA
3768861 TTTTTA
1 TTTTTA
3768867 TAATTGTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 5 0.17
14 9 0.31
15 15 0.52
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTTAATTATTTTA
Found at i:3768841 original size:23 final size:23
Alignment explanation
Indices: 3768815--3768897 Score: 73
Period size: 23 Copynumber: 3.6 Consensus size: 23
3768805 AATTAATCTT
3768815 ATTTTTTAATTTATTTTATTTTA
1 ATTTTTTAATTTATTTTATTTTA
*
3768838 ATTTTTTAA-TTATAATTATTTT-
1 ATTTTTTAATTTAT-TTTATTTTA
* *
3768860 ATTTTTATAATTGTCTTTT-TTTAA
1 ATTTTT-TAATT-TATTTTATTTTA
*
3768884 ATACTTTTAATTTA
1 AT-TTTTTAATTTA
3768898 GTCTTTAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
22 10 0.21
23 23 0.48
24 10 0.21
25 5 0.10
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.67
Consensus pattern (23 bp):
ATTTTTTAATTTATTTTATTTTA
Found at i:3768871 original size:17 final size:14
Alignment explanation
Indices: 3768818--3768864 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
3768808 TAATCTTATT
3768818 TTTTAATTTATTTTA
1 TTTTAA-TTATTTTA
3768833 TTTTAATT-TTTTAA
1 TTTTAATTATTTT-A
*
3768847 TTATAATTATTTTA
1 TTTTAATTATTTTA
3768861 TTTT
1 TTTT
3768865 TATAATTGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 4 0.14
14 14 0.50
15 10 0.36
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTAATTATTTTA
Found at i:3768881 original size:17 final size:17
Alignment explanation
Indices: 3768813--3768871 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 17
3768803 TAAATTAATC
3768813 TTATTTTT-TAATTTATT
1 TTATTTTTATAA-TTATT
3768830 TTA--TTT-TAATT-TT
1 TTATTTTTATAATTATT
*
3768843 TTA--ATTATAATTATT
1 TTATTTTTATAATTATT
3768858 TTATTTTTATAATT
1 TTATTTTTATAATT
3768872 GTCTTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
13 7 0.19
14 7 0.19
15 11 0.31
17 11 0.31
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTTTTATAATTATT
Found at i:3768952 original size:2 final size:2
Alignment explanation
Indices: 3768945--3768984 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
3768935 TTAATCTTAG
3768945 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3768985 GAAAATTGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3785525 original size:20 final size:19
Alignment explanation
Indices: 3785498--3785763 Score: 184
Period size: 20 Copynumber: 13.5 Consensus size: 19
3785488 ATGACCAACT
3785498 AATTCGCAACGCGAATTCCA
1 AATTCGCAACGCGAATT-CA
* * *
3785518 ATTTCGCAAC-CCAGTTTCCA
1 AATTCGCAACGCGA-ATT-CA
* *
3785538 ATTTCGCAACGCGAATATGTA
1 AATTCGCAACGCGAAT-T-CA
**
3785559 AA-TCGCATTGCGATATTCTA
1 AATTCGCAACGCGA-ATTC-A
*
3785579 AATTCGCAACGCGATAGTCA
1 AATTCGCAACGCGA-ATTCA
* *
3785599 AATTCTCAACGCGATAGTCA
1 AATTCGCAACGCGA-ATTCA
*
3785619 AATTCGCAACGCGATAGTCA
1 AATTCGCAACGCGA-ATTCA
*
3785639 AATTCGCAACGCGATAGTCA
1 AATTCGCAACGCGA-ATTCA
*
3785659 AATTCGCAAC-TGAATTTCA
1 AATTCGCAACGCGAA-TTCA
*
3785678 AATTCGCAAC-TGAATTTCA
1 AATTCGCAACGCGAA-TTCA
*
3785697 AATTCGCAAC-TGAATTTCA
1 AATTCGCAACGCGAA-TTCA
*
3785716 AATTCGCAAC-TGAATTTCA
1 AATTCGCAACGCGAA-TTCA
* *
3785735 AATTCACAACGCGAATTTA
1 AATTCGCAACGCGAATTCA
*
3785754 ATTTCGCAAC
1 AATTCGCAAC
3785764 AGGTTTTAGT
Statistics
Matches: 215, Mismatches: 23, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
18 1 0.00
19 84 0.39
20 110 0.51
21 20 0.09
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (19 bp):
AATTCGCAACGCGAATTCA
Found at i:3785680 original size:19 final size:19
Alignment explanation
Indices: 3785656--3785763 Score: 173
Period size: 19 Copynumber: 5.7 Consensus size: 19
3785646 AACGCGATAG
3785656 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
3785675 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
3785694 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
3785713 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
* *
3785732 TCAAATTCACAACGCGAATT
1 TCAAATTCGCAAC-TGAATT
*
3785752 T-AATTTCGCAAC
1 TCAAATTCGCAAC
3785764 AGGTTTTAGT
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
19 78 0.93
20 6 0.07
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:3785725 original size:57 final size:57
Alignment explanation
Indices: 3785616--3785763 Score: 174
Period size: 57 Copynumber: 2.6 Consensus size: 57
3785606 AACGCGATAG
* * * * *
3785616 TCAAATTCGCAACGCGATAGTCAAATTCGCAAC-GCGATAGTCAAATTCGCAACTGAATT
1 TCAAATTCACAACGCGA-ATTTAAATTCGCAACTG-AAT-TTCAAATTCGCAACTGAATT
* *
3785675 TCAAATTCGCAAC-TGAATTTCAAATTCGCAACTGAATTTCAAATTCGCAACTGAATT
1 TCAAATTCACAACGCGAATTT-AAATTCGCAACTGAATTTCAAATTCGCAACTGAATT
*
3785732 TCAAATTCACAACGCGAATTTAATTTCGCAAC
1 TCAAATTCACAACGCGAATTTAAATTCGCAAC
3785764 AGGTTTTAGT
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
57 43 0.55
58 21 0.27
59 14 0.18
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (57 bp):
TCAAATTCACAACGCGAATTTAAATTCGCAACTGAATTTCAAATTCGCAACTGAATT
Found at i:3786598 original size:24 final size:24
Alignment explanation
Indices: 3786571--3786624 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
3786561 GTATTCGAAA
*
3786571 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGATCAATACCCGGAC
* *
3786595 TTTGATCTTGATCAATACTCGGAT
1 TTTGATCTTGATCAATACCCGGAC
3786619 TTTGAT
1 TTTGAT
3786625 GATGTGATGG
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:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGATCAATACCCGGAC
Found at i:3788931 original size:20 final size:20
Alignment explanation
Indices: 3788906--3788987 Score: 92
Period size: 20 Copynumber: 4.1 Consensus size: 20
3788896 CGCAAAATAA
3788906 GCGTTGCGAATTTGACTATC
1 GCGTTGCGAATTTGACTATC
* * * *
3788926 GCGTTGCAAATTTAACTTTT
1 GCGTTGCGAATTTGACTATC
* *
3788946 GCGTTGTGAATTTGACTTTC
1 GCGTTGCGAATTTGACTATC
* *
3788966 TCGTTACGAATTTGACTATC
1 GCGTTGCGAATTTGACTATC
3788986 GC
1 GC
3788988 AACGCTTATT
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (20 bp):
GCGTTGCGAATTTGACTATC
Found at i:3789025 original size:20 final size:20
Alignment explanation
Indices: 3788996--3789037 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
3788986 GCAACGCTTA
*
3788996 TTTCGCGTTGCGAATTTACC
1 TTTCGAGTTGCGAATTTACC
*
3789016 TTTCGAGTTGCGCATTTACC
1 TTTCGAGTTGCGAATTTACC
3789036 TT
1 TT
3789038 CAATAGGTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
TTTCGAGTTGCGAATTTACC
Found at i:3789136 original size:25 final size:25
Alignment explanation
Indices: 3789098--3789147 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
3789088 AAATCAATTA
*
3789098 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
3789123 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
3789148 GAAAAATAAT
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:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:3789560 original size:18 final size:18
Alignment explanation
Indices: 3789539--3789575 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3789529 GTAATTGGAG
3789539 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
3789557 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
3789575 T
1 T
3789576 ATAAATTTTG
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:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:3789582 original size:24 final size:24
Alignment explanation
Indices: 3789531--3789583 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
3789521 TTTCATATGT
* * *
3789531 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
3789555 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
3789579 AATTT
1 AATTT
3789584 TGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:3789885 original size:39 final size:39
Alignment explanation
Indices: 3789842--3789928 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
3789832 TCCGATGCTC
3789842 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
*
3789881 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
3789920 ATCAAAATC
1 ATCAAAATC
3789929 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:3790192 original size:20 final size:20
Alignment explanation
Indices: 3790167--3790251 Score: 143
Period size: 20 Copynumber: 4.2 Consensus size: 20
3790157 CAAATCTTAT
3790167 TTTCGCGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
3790187 TTTCGCGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
3790207 TTTCGCGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
* *
3790227 TTTCGCATTGTGAATTTGTAC
1 TTTCGCGTTGCGAATTTG-AC
3790248 TTTC
1 TTTC
3790252 AACATGTCTT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
20 56 0.90
21 6 0.10
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTGAC
Found at i:3794082 original size:20 final size:20
Alignment explanation
Indices: 3794059--3794102 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
3794049 CTTAAATTCG
*
3794059 CAACGCGAAAATGAAAATCA
1 CAACGAGAAAATGAAAATCA
*
3794079 CAACGAGAAAATGAAAATCG
1 CAACGAGAAAATGAAAATCA
3794099 CAAC
1 CAAC
3794103 ACGATTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.20, G:0.16, T:0.09
Consensus pattern (20 bp):
CAACGAGAAAATGAAAATCA
Found at i:3794417 original size:22 final size:22
Alignment explanation
Indices: 3794386--3794436 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
3794376 GATGGAGATA
3794386 GACGGATTTCGTCAGAAATGGG
1 GACGGATTTCGTCAGAAATGGG
* * *
3794408 GATGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCAGAAATGGG
3794430 GACGGAT
1 GACGGAT
3794437 GTCGCCGTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.41, T:0.24
Consensus pattern (22 bp):
GACGGATTTCGTCAGAAATGGG
Found at i:3794661 original size:20 final size:20
Alignment explanation
Indices: 3794572--3794665 Score: 66
Period size: 20 Copynumber: 4.7 Consensus size: 20
3794562 ACATTTGACT
*
3794572 TTCGCGTTGCGAATTTGGAA
1 TTCGCGTTGCGAAATTGGAA
** * **
3794592 TATCGCAATGCG-ATTTACATA
1 T-TCGCGTTGCGAAATTGGA-A
3794613 TTCGCGTTGCGAAATTGGAA
1 TTCGCGTTGCGAAATTGGAA
* * *
3794633 -ACTGAGTTGCGAAATTGTAA
1 TTC-GCGTTGCGAAATTGGAA
3794653 TTCGCGTTGCGAA
1 TTCGCGTTGCGAA
3794666 TTTGAGACCG
Statistics
Matches: 55, Mismatches: 14, Indels: 10
0.70 0.18 0.13
Matches are distributed among these distances:
19 1 0.02
20 39 0.71
21 15 0.27
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (20 bp):
TTCGCGTTGCGAAATTGGAA
Found at i:3795525 original size:21 final size:21
Alignment explanation
Indices: 3795501--3795611 Score: 82
Period size: 21 Copynumber: 5.4 Consensus size: 21
3795491 GCAAATTCGT
3795501 GTTGCGATAGTTGAAAATCGC
1 GTTGCGATAGTTGAAAATCGC
* * ** ** *
3795522 GTTGTGAT-TTTCCATTTCGA
1 GTTGCGATAGTTGAAAATCGC
3795542 GTTGCGATAGTTGAAAATCGC
1 GTTGCGATAGTTGAAAATCGC
* * ** **
3795563 GTTACGAT-TTTCCATTTCGC
1 GTTGCGATAGTTGAAAATCGC
*
3795583 GTTGCGATAGTTGAAAATAGC
1 GTTGCGATAGTTGAAAATCGC
3795604 GTTGCGAT
1 GTTGCGAT
3795612 TTTCCATTTC
Statistics
Matches: 61, Mismatches: 27, Indels: 4
0.66 0.29 0.04
Matches are distributed among these distances:
20 27 0.44
21 34 0.56
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.36
Consensus pattern (21 bp):
GTTGCGATAGTTGAAAATCGC
Found at i:3795558 original size:41 final size:41
Alignment explanation
Indices: 3795496--3795634 Score: 233
Period size: 41 Copynumber: 3.4 Consensus size: 41
3795486 CTATCGCAAA
* *
3795496 TTCGTGTTGCGATAGTTGAAAATCGCGTTGTGATTTTCCAT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
* *
3795537 TTCGAGTTGCGATAGTTGAAAATCGCGTTACGATTTTCCAT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
*
3795578 TTCGCGTTGCGATAGTTGAAAATAGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
3795619 TTCGCGTTGCGATAGT
1 TTCGCGTTGCGATAGT
3795635 CTACAGTTGT
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 92 1.00
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (41 bp):
TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
Found at i:3795584 original size:20 final size:20
Alignment explanation
Indices: 3795518--3795631 Score: 84
Period size: 20 Copynumber: 5.6 Consensus size: 20
3795508 TAGTTGAAAA
*
3795518 TCGCGTTGTGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * ** **
3795538 TCGAGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
*
3795559 TCGCGTTACGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
3795579 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
*
3795600 TAGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
3795620 TCGCGTTGCGAT
1 TCGCGTTGCGAT
3795632 AGTCTACAGT
Statistics
Matches: 65, Mismatches: 27, Indels: 4
0.68 0.28 0.04
Matches are distributed among these distances:
20 38 0.58
21 27 0.42
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:3795668 original size:19 final size:19
Alignment explanation
Indices: 3795644--3795710 Score: 107
Period size: 19 Copynumber: 3.5 Consensus size: 19
3795634 TCTACAGTTG
*
3795644 TCGTTGCGATTTTTCAAAT
1 TCGTTGCGATTTTCCAAAT
*
3795663 TCGTTGCGATTTTCCGAAT
1 TCGTTGCGATTTTCCAAAT
3795682 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
*
3795701 TCGTTACGAT
1 TCGTTGCGAT
3795711 AGTCTACATT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.43
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:3795668 original size:82 final size:81
Alignment explanation
Indices: 3795492--3795732 Score: 215
Period size: 82 Copynumber: 3.0 Consensus size: 81
3795482 TCCACTATCG
* *
3795492 CAAATTCGTGTTGCGATAGTTGAAAATCGCGTTGTGATTTTCCATTTCGAGTTGCGATAGT-TGA
1 CAAATTC--GTTGCGATAGTTGAAAAT-GCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-A
* * *
3795556 AAATCG-CGTTACGA-TTTT
62 CAATTGTCGTTGCGATTTTT
* *
3795574 CCATTTCGCGTTGCGATAGTTGAAAATAGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTAC
1 CAAATT--CGTTGCGATAGTTGAAAAT-GCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTAC
*
3795639 AGTTGTCGTTGCGATTTTT
63 AATTGTCGTTGCGATTTTT
* *** * * * *
3795658 CAAATTCGTTGCGAT-TTTCCGAATTCGTTGCGATTTTCCAAATT--CGTTACGATAGTCTACAT
1 CAAATTCGTTGCGATAGTTGAAAATGCGTTGCGATTTTCC-ATTTCGCGTTGCGATAGTCTACAA
*
3795720 TTGTTGTTGCGAT
65 TTGTCGTTGCGAT
3795733 AGTCTACAGT
Statistics
Matches: 133, Mismatches: 20, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
79 28 0.21
80 14 0.11
81 8 0.06
82 66 0.50
83 8 0.06
84 9 0.07
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.39
Consensus pattern (81 bp):
CAAATTCGTTGCGATAGTTGAAAATGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAAT
TGTCGTTGCGATTTTT
Found at i:3795735 original size:22 final size:22
Alignment explanation
Indices: 3795701--3795754 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
3795691 TTTTCCAAAT
* *
3795701 TCGTTACGATAGTCTACATTTG
1 TCGTTGCGATAGTCTACAGTTG
*
3795723 TTGTTGCGATAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
3795745 TCGTTGCGAT
1 TCGTTGCGAT
3795755 TTTCCAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.41
Consensus pattern (22 bp):
TCGTTGCGATAGTCTACAGTTG
Found at i:3796053 original size:19 final size:19
Alignment explanation
Indices: 3796029--3796076 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
3796019 TCCCAATACT
3796029 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
3796048 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
3796067 ATCGCAACGA
1 ATCGCAACGA
3796077 CAACTGTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.19
Consensus pattern (19 bp):
ATCGCAACGAATTTGGAAA
Found at i:3796095 original size:22 final size:22
Alignment explanation
Indices: 3796067--3796187 Score: 103
Period size: 22 Copynumber: 5.7 Consensus size: 22
3796057 AATTTGGAAA
*
3796067 ATCGCAACGAC-AACTGTAGACT
1 ATCGCAACG-CGAAATGTAGACT
3796089 ATCGCAACGCGAAATGTAGACT
1 ATCGCAACGCGAAATGTAGACT
**
3796111 ATCGCAACGCGAAATG--GAAA
1 ATCGCAACGCGAAATGTAGACT
* *
3796131 ATCGCAACGCG-ATTTTCA-ACT
1 ATCGCAACGCGAAATGT-AGACT
* **
3796152 ATCGCAACGTGAAATG--GAAA
1 ATCGCAACGCGAAATGTAGACT
3796172 ATCGCAACGCGAAATG
1 ATCGCAACGCGAAATG
3796188 CAACGCGAAT
Statistics
Matches: 80, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
19 2 0.03
20 29 0.36
21 12 0.15
22 37 0.46
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (22 bp):
ATCGCAACGCGAAATGTAGACT
Found at i:3797172 original size:17 final size:16
Alignment explanation
Indices: 3797126--3797172 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
3797116 TATATTTTGG
*
3797126 TATTTATAATTTATAA
1 TATTTTTAATTTATAA
*
3797142 AATGTTTTAA-TTATAA
1 TAT-TTTTAATTTATAA
3797158 TTATTTTTAATTTAT
1 -TATTTTTAATTTAT
3797173 TTATATGTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TATTTTTAATTTATAA
Found at i:3797387 original size:20 final size:20
Alignment explanation
Indices: 3797362--3797403 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
3797352 GGTTTGGATG
3797362 TTTCT-AAAAAAATGTGGGTT
1 TTTCTAAAAAAAATGT-GGTT
3797382 TTTCTAAAAAAAATGTGGTT
1 TTTCTAAAAAAAATGTGGTT
3797402 TT
1 TT
3797404 GTGTTATTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.43
Consensus pattern (20 bp):
TTTCTAAAAAAAATGTGGTT
Found at i:3798249 original size:16 final size:17
Alignment explanation
Indices: 3798228--3798260 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3798218 ACACACTAAA
*
3798228 TCGGTT-TCGGTTTTTT
1 TCGGTTATCGATTTTTT
3798244 TCGGTTATCGATTTTTT
1 TCGGTTATCGATTTTTT
3798261 GAATCGGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.06, C:0.12, G:0.21, T:0.61
Consensus pattern (17 bp):
TCGGTTATCGATTTTTT
Found at i:3800283 original size:23 final size:23
Alignment explanation
Indices: 3800257--3800303 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
3800247 TTTAGTAATT
*
3800257 ACTTCATTTATTAGA-TTATTAAA
1 ACTTCATTAATTA-ATTTATTAAA
*
3800280 ACTTTATTAATTAATTTATTAAA
1 ACTTCATTAATTAATTTATTAAA
3800303 A
1 A
3800304 TTTTAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (23 bp):
ACTTCATTAATTAATTTATTAAA
Found at i:3801484 original size:22 final size:21
Alignment explanation
Indices: 3801459--3801508 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
3801449 TAAGCTAAGG
3801459 TAATATTAATA-TTAGAATAAAA
1 TAATATTAATATTTA-AAT-AAA
* *
3801481 TAATAATCATATTTAAATAAA
1 TAATATTAATATTTAAATAAA
3801502 TAATATT
1 TAATATT
3801509 TATGTATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 9 0.38
22 12 0.50
23 3 0.12
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
TAATATTAATATTTAAATAAA
Found at i:3801509 original size:15 final size:15
Alignment explanation
Indices: 3801489--3801586 Score: 60
Period size: 15 Copynumber: 6.3 Consensus size: 15
3801479 AATAATAATC
3801489 ATATTTAAATAAATA
1 ATATTTAAATAAATA
**
3801504 ATATTTATGTATAATGA
1 ATATTTAAATA-AAT-A
*
3801521 TATATATGATAATAAAATA
1 -ATAT-TTA-AAT-AAATA
3801540 ATA-TTAAATAAATA
1 ATATTTAAATAAATA
3801554 A-ATTTAAA-AATATA
1 ATATTTAAATAA-ATA
*
3801568 ATA-TTAATTATAATA
1 ATATTTAAATA-AATA
3801583 ATAT
1 ATAT
3801587 AAATGAATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 23
0.68 0.07 0.24
Matches are distributed among these distances:
13 3 0.05
14 19 0.30
15 20 0.31
16 6 0.09
17 1 0.02
18 7 0.11
19 3 0.05
20 4 0.06
21 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
ATATTTAAATAAATA
Found at i:3801554 original size:14 final size:14
Alignment explanation
Indices: 3801535--3801595 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
3801525 TATGATAATA
3801535 AAATAATATTAAAT
1 AAATAATATTAAAT
3801549 AAATAA-ATTTAAA-
1 AAATAATA-TTAAAT
*
3801562 AATATAATATTAATT
1 AA-ATAATATTAAAT
3801577 ATAATAATA-TAAAT
1 A-AATAATATTAAAT
*
3801591 GAATA
1 AAATA
3801596 TTCAATGTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
13 7 0.18
14 23 0.59
15 8 0.21
16 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (14 bp):
AAATAATATTAAAT
Found at i:3801589 original size:28 final size:27
Alignment explanation
Indices: 3801529--3801589 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
3801519 GATATATATG
3801529 ATAATAAAATAATATTAAATAAATAAAT
1 ATAA-AAAATAATATTAAATAAATAAAT
* *
3801557 TTAAAAATATAATATTAATTATAAT-AAT
1 ATAAAAA-ATAATATTAAATA-AATAAAT
3801585 ATAAA
1 ATAAA
3801590 TGAATATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
27 3 0.11
28 22 0.79
29 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (27 bp):
ATAAAAAATAATATTAAATAAATAAAT
Found at i:3816035 original size:23 final size:23
Alignment explanation
Indices: 3815976--3816064 Score: 101
Period size: 23 Copynumber: 4.0 Consensus size: 23
3815966 TTGGAACATA
* *
3815976 TATGTGGTCCTTAGGGATAATTC
1 TATGTGGTCCTTCGGGACAATTC
*
3815999 TATGTGGTCATTCGGGACAATTC
1 TATGTGGTCCTTCGGGACAATTC
* * *
3816022 TATGTGGTCTTTCGGAAC-A-TA
1 TATGTGGTCCTTCGGGACAATTC
*
3816043 TATATGGTCCTTCGGGACAATT
1 TATGTGGTCCTTCGGGACAATT
3816065 TTATATGCCA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
21 16 0.29
22 2 0.04
23 37 0.67
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.37
Consensus pattern (23 bp):
TATGTGGTCCTTCGGGACAATTC
Found at i:3816056 original size:21 final size:21
Alignment explanation
Indices: 3815895--3816057 Score: 107
Period size: 21 Copynumber: 7.6 Consensus size: 21
3815885 AGGGTTCTAC
*
3815895 GTGGTCCTTCGGGACATATAT
1 GTGGTCCTTCGGAACATATAT
* *
3815916 GTGATCCTTTGGAACATATAT
1 GTGGTCCTTCGGAACATATAT
* * *
3815937 GAGGTCATTCATG-ACATATAT
1 GTGGTCCTTC-GGAACATATAT
* *
3815958 TTGATCCCTT-GGAACATATAT
1 GTGGT-CCTTCGGAACATATAT
* *
3815979 GTGGTCCTTAGGGATA-ATTCTAT
1 GTGGTCCTT-CGGA-ACA-TATAT
* * *
3816002 GTGGTCATTCGGGACAATTCTAT
1 GTGGTCCTTCGGAAC-A-TATAT
*
3816025 GTGGTCTTTCGGAACATATAT
1 GTGGTCCTTCGGAACATATAT
*
3816046 ATGGTCCTTCGG
1 GTGGTCCTTCGG
3816058 GACAATTTTA
Statistics
Matches: 109, Mismatches: 24, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
20 5 0.05
21 60 0.55
22 11 0.10
23 33 0.30
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (21 bp):
GTGGTCCTTCGGAACATATAT
Found at i:3816737 original size:16 final size:17
Alignment explanation
Indices: 3816710--3816743 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
3816700 ATTTTAGTTA
3816710 TTTTGTAAAAGTAAATG
1 TTTTGTAAAAGTAAATG
*
3816727 TTTTG-AAAAGTTAATG
1 TTTTGTAAAAGTAAATG
3816743 T
1 T
3816744 GACACCTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (17 bp):
TTTTGTAAAAGTAAATG
Found at i:3819345 original size:18 final size:18
Alignment explanation
Indices: 3819322--3819357 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
3819312 ATCAACAGAT
3819322 ATAATTTTTATATAAATA
1 ATAATTTTTATATAAATA
*
3819340 ATAATTTTTATTTAAATA
1 ATAATTTTTATATAAATA
3819358 TTTAGAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATAATTTTTATATAAATA
Found at i:3824557 original size:6 final size:6
Alignment explanation
Indices: 3824546--3824575 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
3824536 TTTCTTCATC
*
3824546 GAACGG GAACGG GAATGG GAACGG GAACGG
1 GAACGG GAACGG GAACGG GAACGG GAACGG
3824576 AAGGAAGTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.33, C:0.13, G:0.50, T:0.03
Consensus pattern (6 bp):
GAACGG
Found at i:3826029 original size:3 final size:3
Alignment explanation
Indices: 3826016--3826072 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
3826006 ATTTTTTAAA
3826016 ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3826063 ATT ATT ATT A
1 ATT ATT ATT A
3826073 AGCTCAAGAC
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:3826241 original size:16 final size:16
Alignment explanation
Indices: 3826220--3826256 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
3826210 TTCCAGAACA
3826220 TCCACGAGGCGTCACC
1 TCCACGAGGCGTCACC
*
3826236 TCCACGAGGCGTCGCC
1 TCCACGAGGCGTCACC
3826252 TCCAC
1 TCCAC
3826257 ATCCAGCCGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.16, C:0.46, G:0.24, T:0.14
Consensus pattern (16 bp):
TCCACGAGGCGTCACC
Found at i:3827843 original size:30 final size:28
Alignment explanation
Indices: 3827797--3827852 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
3827787 TCCTTTTCTG
3827797 ATATTTTTAAATAAATAAATATTTTATTT
1 ATATTTTTAAATAAATAAAT-TTTTATTT
* *
3827826 ATATTTTATATATAAATATATTTTTAT
1 ATATTTT-TAAATAAATAAATTTTTAT
3827853 ATAATTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
ATATTTTTAAATAAATAAATTTTTATTT
Found at i:3827860 original size:26 final size:26
Alignment explanation
Indices: 3827811--3827861 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
3827801 TTTTAAATAA
* *
3827811 ATAAATATTTTATTTATATTTTATAT
1 ATAAATATATTATTTATATATTATAT
3827837 ATAAATATATT-TTTATATAATTATA
1 ATAAATATATTATTTATAT-ATTATA
3827862 ACTTTGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATAAATATATTATTTATATATTATAT
Found at i:3833574 original size:84 final size:82
Alignment explanation
Indices: 3833417--3834201 Score: 713
Period size: 84 Copynumber: 9.6 Consensus size: 82
3833407 TGGCTATCTG
* * * * * * * ** * *
3833417 CCAAAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGCACATTATTTATAGCATAACTCAAGG
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGT
* *
3833482 CTAGAAGGGTTATATGTCA
65 CGAGAAGGGTTATCTG-CA
* * *
3833501 CCAAAAGACCTTCGAGTTTGACTACGCTCAACTCCAAGGCATATCATTTGCAGCATAACTTAAGT
1 CC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
*
3833566 CGATAAGGGTTATCTGCCAA
65 CGAGAAGGGTTATCTG-C-A
*
3833586 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC
** **
3833651 GAGAAGGGCCAT-T-TT
66 GAGAAGGGTTATCTGCA
* * * * * * * *
3833666 CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCCCATCATTTACAGCATAACTCAATG
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAA-G
*
3833731 T-TAGAAGGGTTATCTGCGA
64 TCGAGAAGGGTTATCTGC-A
* * * *
3833750 CCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGTAACATAGCTTAAGT
1 CC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
3833815 CGAGAAGGGTTATCTG--
65 CGAGAAGGGTTATCTGCA
* * * * * * * *
3833831 CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCTAGGGCACATCATTTACAGCATAACTCAAGG
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGT
* *
3833896 CTAGAAGGGTTATATGTCA
65 CGAGAAGGGTTATCTG-CA
* * * * * *
3833915 CCAAAAGACGTTCGAGTTCGACTATGTTCAGCTCTAAGACATATCATTTGCAGC---A--T-A-T
1 CC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
*
3833973 CGAGAAGGGTTATCTACCAA
65 CGAGAAGGGTTATCT-GC-A
*
3833993 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC
*
3834058 GAGAAGGGCTATCTG--
66 GAGAAGGGTTATCTGCA
* * * * **
3834073 CCAAAGACCCTCGAGTTCGATTACACTCAGCTCAAAGGCACCATCATTTGCAGCATGGCTTAAGT
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA-CATCATTTGCAGCATAACTTAAGT
*
3834138 CGAGAAGGGCTATCTG--
65 CGAGAAGGGTTATCTGCA
* * * * *
3834154 CTAAAGACCTTCGAGTTCGATTCCACTCAGC-CCGAAGGTACATCATTT
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC-AAGGCACATCATTT
3834202 AAAGAATAGC
Statistics
Matches: 576, Mismatches: 100, Indels: 54
0.79 0.14 0.07
Matches are distributed among these distances:
77 59 0.10
78 4 0.01
80 99 0.17
81 147 0.26
82 4 0.01
83 4 0.01
84 182 0.32
85 77 0.13
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (82 bp):
CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC
GAGAAGGGTTATCTGCA
Found at i:3833722 original size:165 final size:164
Alignment explanation
Indices: 3833504--3834184 Score: 742
Period size: 165 Copynumber: 4.2 Consensus size: 164
3833494 TATGTCACCA
* * * * * * * * *
3833504 AAAGACCTTCGAGTTTGACTACGCTCAAC-TCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
1 AAAGACCCTCGAGTTCGATTACACTCAGCTTCCAGGGCACATCATTTACAGCATAACTCAAGTCG
*
3833568 ATAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
66 AGAAGGGTTATCTG-C-ACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
* * *
3833632 TTGCAGCATAGCTTAAGTCGAGAAGGGCCATTTTCC
129 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC
* *
3833668 AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCCCATCATTTACAGCATAACTCAATGT-
1 AAAGACCCTCGAGTTCGATTACACTCAGCTTCCAGGGCACATCATTTACAGCATAACTCAA-GTC
* *
3833732 TAGAAGGGTTATCTGCGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCAT
65 GAGAAGGGTTATCTGC-ACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
* * *
3833797 TTGTAACATAGCTTAAGTCGAGAAGGGTTATCTGCC
129 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC
* * *
3833833 AAAGACCCTCGAGTTCGATTACACTCAGCTTCTAGGGCACATCATTTACAGCATAACTCAAGGCT
1 AAAGACCCTCGAGTTCGATTACACTCAGCTTCCAGGGCACATCATTTACAGCATAACTCAAGTCG
* * * * * * *
3833898 AGAAGGGTTATATGTCACCAAAAGACGTTCGAGTTCGACTATGTTCAGCTCTAAGACATATCATT
66 AGAAGGGTTATCTG-CACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* *
3833963 TGCAGC--A---T-A-TCGAGAAGGGTTATCTACCAACC
130 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCT----GCC
* * * * * * *
3833995 AAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
1 AAAGACCCTCGAGTTCGATTACACTCAGCTTCCAGGGCACATCATTTACAGCATAACTCAAGTCG
* * * * *
3834059 AGAAGGGCTATCTG--CC-AAAGACCCTCGAGTTCGATTACACTCAGCTCAAAGGCACCATCATT
66 AGAAGGGTTATCTGCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA-CATCATT
* *
3834121 TGCAGCATGGCTTAAGTCGAGAAGGGCTATCTGCT
130 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC
* *
3834156 AAAGACCTTCGAGTTCGATTCCACTCAGC
1 AAAGACCCTCGAGTTCGATTACACTCAGC
3834185 CCGAAGGTAC
Statistics
Matches: 439, Mismatches: 61, Indels: 37
0.82 0.11 0.07
Matches are distributed among these distances:
157 30 0.07
158 30 0.07
159 1 0.00
160 1 0.00
161 67 0.15
162 28 0.06
163 2 0.00
164 30 0.07
165 247 0.56
166 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (164 bp):
AAAGACCCTCGAGTTCGATTACACTCAGCTTCCAGGGCACATCATTTACAGCATAACTCAAGTCG
AGAAGGGTTATCTGCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
GCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC
Found at i:3833985 original size:77 final size:77
Alignment explanation
Indices: 3833898--3834048 Score: 205
Period size: 77 Copynumber: 2.0 Consensus size: 77
3833888 ACTCAAGGCT
** * * * * *
3833898 AGAAGGGTTATATGTC-ACCAAAAGACGTTCGAGTTCGACTATGTTCAGCTCTAAGACATATCAT
1 AGAAGGGTTATATACCAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCAT
3833962 TTGCAGCATATCG
65 TTGCAGCATATCG
* *
3833975 AGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATATACCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATT
3834040 TGCAGCATA
66 TGCAGCATA
3834049 GCTTAAGTCG
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
77 61 0.95
78 3 0.05
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (77 bp):
AGAAGGGTTATATACCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATT
TGCAGCATATCG
Found at i:3834267 original size:242 final size:239
Alignment explanation
Indices: 3833408--3834216 Score: 863
Period size: 249 Copynumber: 3.3 Consensus size: 239
3833398 AGATCCATGT
* * * * * * *
3833408 GGCTATCTGCCAAAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGCACATTATTTATAGCAT
1 GGCTATATGCAAAAGACCTTCGAGTTCGATTACACTCAGC-TCGAAGGCACATCATTTACAGCAT
* * *
3833473 AACTCAAGGCTAGAAGGGTTATATGTCA-CCAAAAGACCTTCGAGTTTGACTACGCTCAACTCCA
65 -ACTCAA-G--AGAAGGGTTATCTG-CAGCC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCA
* * *
3833537 AGGCATATCATTTGCAGCATAACTTAAGTCGATAAGGGTTATCTGCCAACCAAAGACCTTCGAGT
124 AGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG----CCAAAGACCCTCGAGT
* * *
3833602 TCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAG
185 TCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAG
* * * * * * *
3833657 GGCCATTTTCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCCCATCATTTACAGCAT
1 GGCTATATGCAAAAGACCTTCGAGTTCGATTACACTCAGC-TCGAAGGCACATCATTTACAGCAT
3833722 AACTCAATGTTAGAAGGGTTATCTGC-GACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCA
65 -ACTCAA-G--AGAAGGGTTATCTGCAG-CC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCA
* *
3833786 AGGCATATCATTTGTAACATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGA
124 AGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGA
* * * * * * *
3833851 TTACACTCAGCTTCTAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAG
189 TTACACTCAGC-TCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAG
* * * *** * * * *
3833903 GGTTATATGTCACCAAAAGACGTTCGAGTTCGACTATGTTCAGCTCTAAGACATATCATTTGCAG
1 GGCTATATG----CAAAAGACCTTCGAGTTCGATTACACTCAGCTCGAAGGCACATCATTTACAG
* *
3833968 CATA-TC--GAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAG
62 CATACTCAAGAGAAGGGTTATCT-GCAGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAG
* *
3834030 GCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATT
126 GCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATT
*
3834095 ACACTCAGCTCAAAGGCACCATCATTTGCAGCATGGCTTAAGTCGAGAAG
191 ACACTCAGCTCAAAGGCA-CATCATTTGCAGCATAGCTTAAGTCGAGAAG
* * * * * * *
3834145 GGCTATCTGCTAAAGACCTTCGAGTTCGATTCCACTCAGCCCGAAGGTACATCATTTAAAGAATA
1 GGCTATATGCAAAAGACCTTCGAGTTCGATTACACTCAGCTCGAAGGCACATCATTTACAGCATA
3834210 GCTCAAG
66 -CTCAAG
3834217 GCAAGAAGGA
Statistics
Matches: 472, Mismatches: 74, Indels: 35
0.81 0.13 0.06
Matches are distributed among these distances:
238 41 0.09
240 2 0.00
241 7 0.01
242 151 0.32
243 3 0.01
244 1 0.00
245 28 0.06
246 38 0.08
247 2 0.00
248 2 0.00
249 173 0.37
250 24 0.05
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (239 bp):
GGCTATATGCAAAAGACCTTCGAGTTCGATTACACTCAGCTCGAAGGCACATCATTTACAGCATA
CTCAAGAGAAGGGTTATCTGCAGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATA
TCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACT
CAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAG
Found at i:3836933 original size:29 final size:30
Alignment explanation
Indices: 3836895--3836952 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
3836885 TGTGATAGTA
*
3836895 AAATAAATAAAA-ATC-ATATTCTAAAAATG
1 AAATAAATAAAATATCTAAATT-TAAAAATG
*
3836924 AAATATATAAAATATCTAAATTTAAAAAT
1 AAATAAATAAAATATCTAAATTTAAAAAT
3836953 ATAGAGTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 11 0.44
30 10 0.40
31 4 0.16
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (30 bp):
AAATAAATAAAATATCTAAATTTAAAAATG
Found at i:3839756 original size:18 final size:18
Alignment explanation
Indices: 3839733--3839767 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3839723 AGGACTGAAG
*
3839733 TAAATAATAAGTTTGGAT
1 TAAATAATAAGATTGGAT
3839751 TAAATAATAAGATTGGA
1 TAAATAATAAGATTGGA
3839768 CGGAAGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (18 bp):
TAAATAATAAGATTGGAT
Found at i:3845845 original size:2 final size:2
Alignment explanation
Indices: 3845838--3845869 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3845828 AACTAAAATC
3845838 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3845870 TGATTTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3847932 original size:92 final size:89
Alignment explanation
Indices: 3847770--3847950 Score: 238
Period size: 92 Copynumber: 2.0 Consensus size: 89
3847760 AGGTTGCAAC
* * * * * *
3847770 CTAAAATGTTAAATGTGGTTCAATACTTATCTGACTACAATATTGATATTTGTAACTAAGTATAG
1 CTAAAATGTTAAATATGATTCAATACTTATCTCACGACAATATCGATATTTGTAACTAAATATAG
*
3847835 GTACTTAGTTACAACATAAAATGTT
66 ATACTTAGTTACAAC-TAAAATGTT
*
3847860 CTAAAATGTTAAATAATGATTCAATACTTATTTCACGACAAGTATCGATATTTGTAA-TCAAATA
1 CTAAAATGTTAAAT-ATGATTCAATACTTATCTCACGACAA-TATCGATATTTGTAACT-AAATA
*
3847924 TCGATACTTAGTTACAACTAAAATGTT
63 TAGATACTTAGTTACAACTAAAATGTT
3847951 ATACAATCCA
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
90 14 0.18
91 31 0.39
92 34 0.43
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (89 bp):
CTAAAATGTTAAATATGATTCAATACTTATCTCACGACAATATCGATATTTGTAACTAAATATAG
ATACTTAGTTACAACTAAAATGTT
Found at i:3849027 original size:22 final size:22
Alignment explanation
Indices: 3849001--3849057 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
3848991 TATTTTAATC
**
3849001 TTTAAAATTTTATAAATT-ATT
1 TTTAAAATAATATAAATTCATT
3849022 TATTAAAATAATATAAATTCATT
1 T-TTAAAATAATATAAATTCATT
*
3849045 TTTAACATAATAT
1 TTTAAAATAATAT
3849058 TAGGTGTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 26 0.84
23 4 0.13
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTAAAATAATATAAATTCATT
Found at i:3851155 original size:18 final size:19
Alignment explanation
Indices: 3851109--3851158 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
3851099 GTAAGAATCC
*
3851109 TAGTTTGATTAAAAGTAGAG
1 TAGTTT-ATTAAAAGTAAAG
* *
3851129 AACTTTATTAAAA-TAAAG
1 TAGTTTATTAAAAGTAAAG
3851147 TAGTTTATTAAA
1 TAGTTTATTAAA
3851159 GTACTTCTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 14 0.56
19 7 0.28
20 4 0.16
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.38
Consensus pattern (19 bp):
TAGTTTATTAAAAGTAAAG
Found at i:3853440 original size:14 final size:14
Alignment explanation
Indices: 3853421--3853480 Score: 54
Period size: 14 Copynumber: 4.3 Consensus size: 14
3853411 TGGGTCTTAG
3853421 TTTATTATTATTAT
1 TTTATTATTATTAT
*
3853435 TTTATTTTTA-T-T
1 TTTATTATTATTAT
*
3853447 TTTATT-TTTTTATT
1 TTTATTATTATTA-T
3853461 TTTATTATTTATATAT
1 TTTATTA-TTAT-TAT
3853477 TTTA
1 TTTA
3853481 CATTGCTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
11 2 0.05
12 8 0.22
13 1 0.03
14 16 0.43
16 8 0.22
17 2 0.05
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTATTATTAT
Found at i:3853446 original size:20 final size:20
Alignment explanation
Indices: 3853421--3853480 Score: 84
Period size: 20 Copynumber: 2.9 Consensus size: 20
3853411 TGGGTCTTAG
3853421 TTTATTATTATTATTTTATT
1 TTTATTATTATTATTTTATT
* *
3853441 TTTATTTTTATTTTTTTATT
1 TTTATTATTATTATTTTATT
3853461 TTTATTATTTATATATTTTA
1 TTTATTA-TTAT-TATTTTA
3853481 CATTGCTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 24 0.71
21 4 0.12
22 6 0.18
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTATTATTATTATTTTATT
Found at i:3853477 original size:8 final size:7
Alignment explanation
Indices: 3853421--3853478 Score: 52
Period size: 6 Copynumber: 8.4 Consensus size: 7
3853411 TGGGTCTTAG
3853421 TTTATTA
1 TTTATTA
3853428 -TTATTA
1 TTTATTA
3853434 TTTTATT-
1 -TTTATTA
3853441 TTTATT-
1 TTTATTA
*
3853447 TTTATTTT
1 TTTA-TTA
3853455 TTTATT-
1 TTTATTA
3853461 TTTATTA
1 TTTATTA
3853468 TTTATATA
1 TTTAT-TA
3853476 TTT
1 TTT
3853479 TACATTGCTT
Statistics
Matches: 45, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
6 22 0.49
7 9 0.20
8 14 0.31
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTATTA
Found at i:3853477 original size:17 final size:16
Alignment explanation
Indices: 3853436--3853479 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
3853426 TATTATTATT
3853436 TTATTTT-TATTTTTA
1 TTATTTTATATTTTTA
3853451 TT-TTTT-TATTTTTA
1 TTATTTTATATTTTTA
3853465 TTATTTATATATTTT
1 TTATTT-TATATTTT
3853480 ACATTGCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 14 0.54
15 5 0.19
16 1 0.04
17 6 0.23
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTATTTTATATTTTTA
Found at i:3861139 original size:39 final size:39
Alignment explanation
Indices: 3861096--3861170 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
3861086 CAAAGTGTAG
** *
3861096 TCTCGCTAGAGATTGT-TTTTCTTAAAAATAAATTTTTTT
1 TCTCGCTAGAGACAGTGTTCTC-TAAAAATAAATTTTTTT
*
3861135 TCTCGCTTGAGACAGTGTTCTCTAAAAATAAATTTT
1 TCTCGCTAGAGACAGTGTTCTCTAAAAATAAATTTT
3861171 GTCTCGCTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.87
40 4 0.13
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.45
Consensus pattern (39 bp):
TCTCGCTAGAGACAGTGTTCTCTAAAAATAAATTTTTTT
Found at i:3861198 original size:37 final size:39
Alignment explanation
Indices: 3861116--3861198 Score: 91
Period size: 37 Copynumber: 2.2 Consensus size: 39
3861106 GATTGTTTTT
* * * *
3861116 CTTAAAAATAAATTTTTTTTCTCGCTTGAGACAGTGTTCT
1 CTTAAAAATAAA-TTTTTGTCTCGCTTAAGACAATGTTCC
*
3861156 C-TAAAAATAAA-TTTTGTCTCGCTTAAGGCAAT-TTCC
1 CTTAAAAATAAATTTTTGTCTCGCTTAAGACAATGTTCC
3861192 CTTAAAA
1 CTTAAAA
3861199 CAAATTTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
36 4 0.11
37 22 0.59
39 10 0.27
40 1 0.03
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.40
Consensus pattern (39 bp):
CTTAAAAATAAATTTTTGTCTCGCTTAAGACAATGTTCC
Found at i:3861315 original size:37 final size:35
Alignment explanation
Indices: 3861274--3861395 Score: 120
Period size: 36 Copynumber: 3.3 Consensus size: 35
3861264 ACAAAATTGA
*
3861274 TCTCACTTAAGATATTTTCTTAAAAAAACAAAGTTTG
1 TCTCACTTGAGATATTTTCTT--AAAAACAAAGTTTG
* *
3861311 TCTCACTTGATACAGTTTTCTTAAAAACAAAGTTTG
1 TCTCACTTGAGATA-TTTTCTTAAAAACAAAGTTTG
* * *
3861347 TCTCCCTTGAGATAGTTTCTCTT-GAAACAAGGTTTTG
1 TCTCACTTGAGATA-TTT-TCTTAAAAACAAAG-TTTG
*
3861384 TCTCCCTTGAGA
1 TCTCACTTGAGA
3861396 CAGTTTCTCT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
36 36 0.49
37 31 0.42
38 7 0.09
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (35 bp):
TCTCACTTGAGATATTTTCTTAAAAACAAAGTTTG
Found at i:3861401 original size:37 final size:36
Alignment explanation
Indices: 3861299--3861410 Score: 154
Period size: 36 Copynumber: 3.1 Consensus size: 36
3861289 TTTCTTAAAA
* * *
3861299 AAACAAAGTTTGTCTCACTTGATACAGTTT-TCTTAA
1 AAACAAAGTTTGTCTCCCTTGAGACAGTTTCTCTT-G
*
3861335 AAACAAAGTTTGTCTCCCTTGAGATAGTTTCTCTTG
1 AAACAAAGTTTGTCTCCCTTGAGACAGTTTCTCTTG
*
3861371 AAACAAGGTTTTGTCTCCCTTGAGACAGTTTCTCTTG
1 AAACAAAG-TTTGTCTCCCTTGAGACAGTTTCTCTTG
3861408 AAA
1 AAA
3861411 TATCAAACCT
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
36 34 0.50
37 34 0.50
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (36 bp):
AAACAAAGTTTGTCTCCCTTGAGACAGTTTCTCTTG
Found at i:3861471 original size:67 final size:67
Alignment explanation
Indices: 3861353--3861737 Score: 367
Period size: 67 Copynumber: 5.6 Consensus size: 67
3861343 TTTGTCTCCC
* * * *
3861353 TTGAGATAGTTTCTCTTGAAACAAGGTTTTGTCTCCCTTGAGACAGTTTCTCTTGAAATATCAAA
1 TTGAGATTGTTTCCCTTGAAACAA-GTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAATATAAAA
3861418 CCT
65 CCT
* * * *
3861421 TTGAGATTGTTTCCCTTGAAACAAGTTTTGTCTCACTTGAGA-TGATTTCTCTTGAAATATCACA
1 TTGAGATTGTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACAG-TTTCTCTTGAAATATAAAA
*
3861485 CAT
65 CCT
* * * ** * * * * * ** *
3861488 TTTAGATTGTTTCCCTCGAAACAAGCTTCATCTCGCCTGAGACAATTTATCTTTAAACCTAAAAA
1 TTGAGATTGTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAATATAAAAC
*
3861553 CA
66 CT
* * * * *
3861555 TTGAGATTGTTTTCCTTAAAACAAATTTTATCTCTCTTGAGACAGTTTCTATTGAAATATAAAAA
1 TTGAGATTGTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAATAT----A
3861620 AAACCT
62 AAACCT
* *
3861626 TTGAGATTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAAA
1 TTGAGATTGTTTCCCTTGAAAC-AAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG--A-AATATA
*
3861691 AAATCT
62 AAACCT
* *
3861697 TTGAGTTTGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGA
1 TTGAGATTGTTTCCCTTGAAAC-AAGTTTTGTCTCTCTTGA
3861738 AACAAAAAAA
Statistics
Matches: 256, Mismatches: 51, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
66 1 0.00
67 130 0.51
68 22 0.09
71 70 0.27
72 29 0.11
74 1 0.00
75 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.38
Consensus pattern (67 bp):
TTGAGATTGTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAATATAAAAC
CT
Found at i:3861736 original size:22 final size:22
Alignment explanation
Indices: 3861702--3861744 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3861692 AATCTTTGAG
*
3861702 TTTGTTTCCCTTGAAACAAAAT
1 TTTGTCTCCCTTGAAACAAAAT
*
3861724 TTTGTCTCTCTTGAAACAAAA
1 TTTGTCTCCCTTGAAACAAAA
3861745 AAATCTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.40
Consensus pattern (22 bp):
TTTGTCTCCCTTGAAACAAAAT
Found at i:3861782 original size:53 final size:55
Alignment explanation
Indices: 3861674--3861788 Score: 198
Period size: 54 Copynumber: 2.1 Consensus size: 55
3861664 TGAGACAGTT
*
3861674 TCTCTTGAAACAAAAAAAAATCTTTGAGTTTGTTTCCCTTGAAACAAAATTTTGTC
1 TCTCTTGAAAC-AAAAAAAATCTTTGAGTTTGTTTCCCTCGAAACAAAATTTTGTC
3861730 TCTCTTGAAAC-AAAAAAATCTTTGAGTTTGTTTCCCTCGAAAC-AAATTTTGTC
1 TCTCTTGAAACAAAAAAAATCTTTGAGTTTGTTTCCCTCGAAACAAAATTTTGTC
3861783 TCTCTT
1 TCTCTT
3861789 AAGACAATTT
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
53 16 0.28
54 31 0.53
56 11 0.19
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.39
Consensus pattern (55 bp):
TCTCTTGAAACAAAAAAAATCTTTGAGTTTGTTTCCCTCGAAACAAAATTTTGTC
Found at i:3862078 original size:3 final size:3
Alignment explanation
Indices: 3862070--3862127 Score: 71
Period size: 3 Copynumber: 18.7 Consensus size: 3
3862060 CTGGGTTAAA
* *
3862070 TAT TAT TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT TAA TAGT AAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA-T TAT
*
3862117 TAG TAT TAT TA
1 TAT TAT TAT TA
3862128 CACTATTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
3 43 0.91
4 4 0.09
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:3862096 original size:19 final size:19
Alignment explanation
Indices: 3862072--3862108 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
3862062 GGGTTAAATA
3862072 TTATTATTATTATTATTAT
1 TTATTATTATTATTATTAT
3862091 TTATTATTATTATTATTA
1 TTATTATTATTATTATTA
3862109 ATAGTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTATTATTATTATTAT
Found at i:3862098 original size:22 final size:22
Alignment explanation
Indices: 3862070--3862127 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
3862060 CTGGGTTAAA
* *
3862070 TATTATTATTATTATTATTATT
1 TATTATTATTATTATTAATAGT
3862092 TATTATTATTATTATTAATAGT
1 TATTATTATTATTATTAATAGT
* *
3862114 AATTAGTATTATTA
1 TATTATTATTATTA
3862128 CACTATTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.60
Consensus pattern (22 bp):
TATTATTATTATTATTAATAGT
Found at i:3870014 original size:18 final size:17
Alignment explanation
Indices: 3870002--3870044 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 17
3869992 TAACTTCATC
3870002 AAAGTAGAAAACTTTATT
1 AAAGTA-AAAACTTTATT
3870020 AAAGTAAAACACTTTATT
1 AAAGTAAAA-ACTTTATT
3870038 AAAGTAA
1 AAAGTAA
3870045 CTTTTTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.30
Consensus pattern (17 bp):
AAAGTAAAAACTTTATT
Found at i:3870265 original size:15 final size:15
Alignment explanation
Indices: 3870245--3870274 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3870235 AACCTTGATG
*
3870245 TTCTTTATTTTCTTT
1 TTCTTTATGTTCTTT
3870260 TTCTTTATGTTCTTT
1 TTCTTTATGTTCTTT
3870275 ATTTTCTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.13, G:0.03, T:0.77
Consensus pattern (15 bp):
TTCTTTATGTTCTTT
Done.