Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008724.1 Hibiscus syriacus cultivar Beakdansim tig00111783_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: 5289199
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 23
Found at i:4546871 original size:2 final size:2
Alignment explanation
Indices: 4546864--4546893 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4546854 TTTTATAACC
4546864 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
4546894 TTCTTAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4555806 original size:84 final size:84
Alignment explanation
Indices: 4555665--4555833 Score: 338
Period size: 84 Copynumber: 2.0 Consensus size: 84
4555655 TCAAAGCAAT
4555665 CTGTTCTATATCAGAAAGATGTTGATGTTAGTAAACACAAGGAAACAGAAAATGGCTTGCATCCC
1 CTGTTCTATATCAGAAAGATGTTGATGTTAGTAAACACAAGGAAACAGAAAATGGCTTGCATCCC
4555730 CTGGGTTATGATGATAAGA
66 CTGGGTTATGATGATAAGA
4555749 CTGTTCTATATCAGAAAGATGTTGATGTTAGTAAACACAAGGAAACAGAAAATGGCTTGCATCCC
1 CTGTTCTATATCAGAAAGATGTTGATGTTAGTAAACACAAGGAAACAGAAAATGGCTTGCATCCC
4555814 CTGGGTTATGATGATAAGA
66 CTGGGTTATGATGATAAGA
4555833 C
1 C
4555834 ACACGGCAGA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (84 bp):
CTGTTCTATATCAGAAAGATGTTGATGTTAGTAAACACAAGGAAACAGAAAATGGCTTGCATCCC
CTGGGTTATGATGATAAGA
Found at i:4560606 original size:2 final size:2
Alignment explanation
Indices: 4560599--4560633 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4560589 ATTATGCCTC
4560599 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4560634 AAAGAATGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4560862 original size:25 final size:25
Alignment explanation
Indices: 4560834--4560881 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
4560824 CAAACGCTTT
*
4560834 TAAAAAGAGATTTTTAAAAGTGTTG
1 TAAAAAGAAATTTTTAAAAGTGTTG
*
4560859 TAAAAATAAATTTTTAAAAGTGT
1 TAAAAAGAAATTTTTAAAAGTGT
4560882 CATATAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.38
Consensus pattern (25 bp):
TAAAAAGAAATTTTTAAAAGTGTTG
Found at i:4560899 original size:27 final size:25
Alignment explanation
Indices: 4560834--4560890 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
4560824 CAAACGCTTT
* * *
4560834 TAAAAAGAGATTTTTAAAAGTGTTG
1 TAAAAATAAATTTTTAAAAGTGTTA
*
4560859 TAAAAATAAATTTTTAAAAGTGTCA
1 TAAAAATAAATTTTTAAAAGTGTTA
4560884 TATAAAA
1 TA-AAAA
4560891 GTGTATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.51, C:0.02, G:0.12, T:0.35
Consensus pattern (25 bp):
TAAAAATAAATTTTTAAAAGTGTTA
Found at i:4561099 original size:21 final size:21
Alignment explanation
Indices: 4561070--4561157 Score: 115
Period size: 21 Copynumber: 4.2 Consensus size: 21
4561060 ATTCTGACTA
* *
4561070 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTTCCTAAT
*
4561091 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCTAAT
* * *
4561112 TCACATTGCGATTTACGTAA-
1 TCGCATTGCGATTTTCCTAAT
4561132 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCTAAT
4561153 TCGCA
1 TCGCA
4561158 ACGAGATTCT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
20 17 0.30
21 39 0.70
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCTAAT
Found at i:4561141 original size:41 final size:42
Alignment explanation
Indices: 4561073--4561154 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 42
4561063 CTGACTATCG
* *
4561073 CATTGCGATTTCCCAAATTCGCGTTGCGATTTTCCTAATTCA
1 CATTGCGATTTACCAAATTCGCATTGCGATTTTCCTAATTCA
**
4561115 CATTGCGATTTACGTAA-TCGCATTGCGATTTTCCTAATTC
1 CATTGCGATTTACCAAATTCGCATTGCGATTTTCCTAATTC
4561155 GCAACGAGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 22 0.61
42 14 0.39
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (42 bp):
CATTGCGATTTACCAAATTCGCATTGCGATTTTCCTAATTCA
Found at i:4564599 original size:19 final size:17
Alignment explanation
Indices: 4564564--4564674 Score: 81
Period size: 19 Copynumber: 6.4 Consensus size: 17
4564554 CTTAATATCT
*
4564564 ATCGCAACGCGGAAATGA
1 ATCGCAATGC-GAAATGA
4564582 CTATCGCAATGCGAAATGAAA
1 --ATCGCAATGCGAAATG--A
*
4564603 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
4564617 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
4564636 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
4564650 ATCGCAATGCGAAATGAA
1 ATCGCAATGCGAAATG-A
4564668 ATCGCAA
1 ATCGCAA
4564675 CGAGGGAATC
Statistics
Matches: 75, Mismatches: 5, Indels: 24
0.72 0.05 0.23
Matches are distributed among these distances:
14 16 0.21
16 10 0.13
17 10 0.13
18 8 0.11
19 21 0.28
20 9 0.12
21 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (17 bp):
ATCGCAATGCGAAATGA
Found at i:4564621 original size:14 final size:14
Alignment explanation
Indices: 4564602--4564684 Score: 58
Period size: 14 Copynumber: 5.3 Consensus size: 14
4564592 GCGAAATGAA
4564602 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
4564616 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
4564635 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
4564649 AATCGCAATGCGAAATG
1 AATCGCAA--CGAGA-G
*
4564666 AAATCGCAACGAGGG
1 -AATCGCAACGAGAG
4564681 AATC
1 AATC
4564685 ACAAGCGAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 18
0.71 0.06 0.23
Matches are distributed among these distances:
14 22 0.40
15 2 0.04
16 9 0.16
17 3 0.05
18 9 0.16
19 10 0.18
ACGTcount: A:0.43, C:0.19, G:0.25, T:0.12
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:4564675 original size:32 final size:33
Alignment explanation
Indices: 4564584--4564708 Score: 218
Period size: 33 Copynumber: 3.8 Consensus size: 33
4564574 GGAAATGACT
4564584 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
4564617 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
4564650 ATCGCAATGCGAAATG-AAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
4564682 ATCACAA-GCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
4564709 CGAATTAGTT
Statistics
Matches: 89, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
31 8 0.09
32 32 0.36
33 49 0.55
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:4564737 original size:19 final size:19
Alignment explanation
Indices: 4564713--4564750 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4564703 GCAACGCGAA
4564713 TTAGTTTCGCGTTGCGATT
1 TTAGTTTCGCGTTGCGATT
4564732 TTAGTTTCGCGTTGCGATT
1 TTAGTTTCGCGTTGCGATT
4564751 CTCTCGTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.16, G:0.26, T:0.47
Consensus pattern (19 bp):
TTAGTTTCGCGTTGCGATT
Found at i:4564781 original size:19 final size:19
Alignment explanation
Indices: 4564717--4564782 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
4564707 CGCGAATTAG
4564717 TTTCGCGTTGCGATTTT-A
1 TTTCGCGTTGCGATTTTCA
4564735 GTTTCGCGTTGCGA--TTC-
1 -TTTCGCGTTGCGATTTTCA
*
4564752 --TCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
4564769 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
4564783 AGTCATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
14 10 0.26
16 3 0.08
17 2 0.05
19 23 0.61
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.45
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:4564906 original size:14 final size:15
Alignment explanation
Indices: 4564889--4564924 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
4564879 CATCAATTAA
4564889 ACAAATCAAAT-TTT
1 ACAAATCAAATCTTT
4564903 ACAAATC--ATCTTT
1 ACAAATCAAATCTTT
4564916 ACAAATCAA
1 ACAAATCAA
4564925 TTAAACAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
12 2 0.11
13 10 0.53
14 7 0.37
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (15 bp):
ACAAATCAAATCTTT
Found at i:4566205 original size:168 final size:165
Alignment explanation
Indices: 4565887--4566219 Score: 607
Period size: 168 Copynumber: 2.0 Consensus size: 165
4565877 ATATTAGTAA
4565887 CTTACATAATTTAAAAAAAATAATCAATTGAAATATAAGCAAAATATAAGACTTACCCTCCATCG
1 CTTACATAATTTAAAAAAAATAATCAATTGAAATATAAGCAAAATATAAGACTTACCCTCCATCG
4565952 AATAGCCATTGTCTTCGACCCCTAATAATACGCCCCACCAGACCGATCAAGCAACATATATATAT
66 AATAGCCATTGTCTTCGACCCCTAATAATACGCCCCACCAGACCGATCAAGCAACATATATATAT
4566017 AATCGTTGAGCTAGCATATGTCAGTGAAACACCCC
131 AATCGTTGAGCTAGCATATGTCAGTGAAACACCCC
4566052 CTTACATAAATTT-AAAAAAATAATCAAATTGAAATATAAG-AAAATATAAGACTTACCCCTCCA
1 CTTACAT-AATTTAAAAAAAATAATC-AATTGAAATATAAGCAAAATATAAGACTTA-CCCTCCA
4566115 TCGAAATAGCCATTGTCTTCGACCCCTAATAATACGCCCCACCAAGACCGATCAAGCAACATATA
63 TCG-AATAGCCATTGTCTTCGACCCCTAATAATACGCCCCACC-AGACCGATCAAGCAACATATA
4566180 TATATAATCGTTGAGCTAGCATATGTCAGTGAAACACCCC
126 TATATAATCGTTGAGCTAGCATATGTCAGTGAAACACCCC
4566220 TGGCTCCGCT
Statistics
Matches: 163, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
165 34 0.21
166 29 0.18
167 39 0.24
168 61 0.37
ACGTcount: A:0.41, C:0.24, G:0.11, T:0.25
Consensus pattern (165 bp):
CTTACATAATTTAAAAAAAATAATCAATTGAAATATAAGCAAAATATAAGACTTACCCTCCATCG
AATAGCCATTGTCTTCGACCCCTAATAATACGCCCCACCAGACCGATCAAGCAACATATATATAT
AATCGTTGAGCTAGCATATGTCAGTGAAACACCCC
Found at i:4566471 original size:21 final size:21
Alignment explanation
Indices: 4566442--4566522 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 21
4566432 GAATGGTGGG
*
4566442 AGGGACCTCTTCAACGATGAC
1 AGGGGCCTCTTCAACGATGAC
* * * **
4566463 AGTGGCCTCTTGAACGGTGGG
1 AGGGGCCTCTTCAACGATGAC
* * *
4566484 AGGGGACTC-TCAAGGAATGAT
1 AGGGGCCTCTTCAACG-ATGAC
4566505 AGGGGCCTCTTCAACGAT
1 AGGGGCCTCTTCAACGAT
4566523 AGGAGTGGAC
Statistics
Matches: 43, Mismatches: 15, Indels: 4
0.69 0.24 0.06
Matches are distributed among these distances:
20 4 0.09
21 34 0.79
22 5 0.12
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.21
Consensus pattern (21 bp):
AGGGGCCTCTTCAACGATGAC
Found at i:4566512 original size:42 final size:41
Alignment explanation
Indices: 4566427--4566535 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 41
4566417 GTGAATTGGG
* *
4566427 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCAACGATGACAGGGGC
* *
4566469 CTCTTGAACGGTGGGAGGGGACTCTCAAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCAACG-ATGACAGGGGC
* * * *
4566511 CTCTTCAACGATAGGAGTGGACTCT
1 CTCTTGAACGGTGGGAGGGGACTCT
4566536 TGAGGGATGA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
41 5 0.09
42 48 0.84
43 4 0.07
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCAACGATGACAGGGGC
Found at i:4566983 original size:19 final size:19
Alignment explanation
Indices: 4566943--4567069 Score: 95
Period size: 19 Copynumber: 6.8 Consensus size: 19
4566933 TCTGGAACTT
*
4566943 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
** *
4566964 ACTATCGCAATGCGAAATG
1 AAAATCGCAACGCGAAATG
*
4566983 AAAATCGCAACGAGAGAATG
1 AAAATCGCAACGCGA-AATG
4567003 AAAATCGCAACGCGAAAT-
1 AAAATCGCAACGCGAAATG
*
4567021 ATAAATCTCAA--CG--A-G
1 A-AAATCGCAACGCGAAATG
* * *
4567036 AGAATCGCAATGCGAAATT
1 AAAATCGCAACGCGAAATG
4567055 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
4567070 TAGTTCGCGT
Statistics
Matches: 83, Mismatches: 15, Indels: 18
0.72 0.13 0.16
Matches are distributed among these distances:
14 7 0.08
15 2 0.02
16 2 0.02
17 2 0.02
18 2 0.02
19 40 0.48
20 18 0.22
21 10 0.12
ACGTcount: A:0.46, C:0.19, G:0.20, T:0.15
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:4567012 original size:39 final size:36
Alignment explanation
Indices: 4566942--4567066 Score: 114
Period size: 39 Copynumber: 3.4 Consensus size: 36
4566932 TTCTGGAACT
* *
4566942 TAAAATCGCAACGTGAAAAATGACTATCGCAATGCGAAA
1 TAAAATCGCAACG-G-AGAATGA-AATCGCAATGCGAAA
*
4566981 TGAAAATCGCAACGAGAGAATGAAAATCGCAACGCGAAA
1 T-AAAATCGCAACG-GAGAATG-AAATCGCAATGCGAAA
*
4567020 TATAAATCTCAAC-GAG-A-G-AATCGCAATGCGAAA
1 TA-AAATCGCAACGGAGAATGAAATCGCAATGCGAAA
4567053 TTAAAATCGCAACG
1 -TAAAATCGCAACG
4567067 CGATAGTTCG
Statistics
Matches: 74, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
33 23 0.31
34 2 0.03
35 1 0.01
36 1 0.01
37 3 0.04
38 1 0.01
39 29 0.39
40 14 0.19
ACGTcount: A:0.46, C:0.18, G:0.19, T:0.16
Consensus pattern (36 bp):
TAAAATCGCAACGGAGAATGAAATCGCAATGCGAAA
Found at i:4567136 original size:19 final size:18
Alignment explanation
Indices: 4567073--4567198 Score: 90
Period size: 19 Copynumber: 7.2 Consensus size: 18
4567063 AACGCGATAG
*
4567073 TTCGCGTTGCGATTTTTGGT
1 TTCGCGTTGCGA-TTTT-CT
* *
4567093 TTCCCGTTGCGATTTT-G
1 TTCGCGTTGCGATTTTCT
4567110 TT---GTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTC-T
4567126 TTCGCGTTGCGA--TTC-
1 TTCGCGTTGCGATTTTCT
*
4567141 -TCTCGTTGCGATTTTCGT
1 TTCGCGTTGCGATTTTC-T
4567159 TTCGCGTTGCGATTTT-T
1 TTCGCGTTGCGATTTTCT
*
4567176 TCTCTCGTTGCGATTTTCAT
1 T-TCGCGTTGCGATTTTC-T
4567196 TTC
1 TTC
4567199 AACCAAAAGA
Statistics
Matches: 87, Mismatches: 6, Indels: 27
0.73 0.05 0.22
Matches are distributed among these distances:
14 21 0.24
16 5 0.06
17 7 0.08
18 14 0.16
19 27 0.31
20 13 0.15
ACGTcount: A:0.07, C:0.21, G:0.22, T:0.50
Consensus pattern (18 bp):
TTCGCGTTGCGATTTTCT
Found at i:4567139 original size:33 final size:33
Alignment explanation
Indices: 4567078--4567198 Score: 134
Period size: 33 Copynumber: 3.5 Consensus size: 33
4567068 GATAGTTCGC
** * *
4567078 GTTGCGATTTTTGGTTTCCCGTTGCGATTTTGTT
1 GTTGCGA-TTTTCATTTCGCGTTGCGATTTTCTT
* *
4567112 GTTGCGATTTTCATTTCGCGTTGCGATTCTCTC
1 GTTGCGATTTTCATTTCGCGTTGCGATTTTCTT
*
4567145 GTTGCGATTTTCGTTTCGCGTTGCGATTTTTTCTCT
1 GTTGCGATTTTCATTTCGCGTTGCGA--TTTTCT-T
4567181 CGTTGCGATTTTCATTTC
1 -GTTGCGATTTTCATTTC
4567199 AACCAAAAGA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
33 45 0.62
34 7 0.10
35 5 0.07
37 16 0.22
ACGTcount: A:0.07, C:0.20, G:0.22, T:0.50
Consensus pattern (33 bp):
GTTGCGATTTTCATTTCGCGTTGCGATTTTCTT
Found at i:4567186 original size:18 final size:19
Alignment explanation
Indices: 4567138--4567193 Score: 80
Period size: 18 Copynumber: 3.0 Consensus size: 19
4567128 CGCGTTGCGA
4567138 TTCTCTCGTTGCGATTTTC
1 TTCTCTCGTTGCGATTTTC
*
4567157 GTT-TCGCGTTGCGATTTT-
1 -TTCTCTCGTTGCGATTTTC
4567175 TTCTCTCGTTGCGATTTTC
1 TTCTCTCGTTGCGATTTTC
4567194 ATTTCAACCA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 2 0.06
18 14 0.44
19 14 0.44
20 2 0.06
ACGTcount: A:0.05, C:0.23, G:0.20, T:0.52
Consensus pattern (19 bp):
TTCTCTCGTTGCGATTTTC
Found at i:4567547 original size:91 final size:88
Alignment explanation
Indices: 4567285--4567645 Score: 366
Period size: 93 Copynumber: 4.0 Consensus size: 88
4567275 AATGGATTGC
* * *
4567285 ATTACTTCAACCAAAAGATAAAACAAAGACAATACTAACTTCAGAGTATT-AAGAATACACAG-T
1 ATTACTTC-ACCAAAAGACAAAACAAAGACAATACTAACTTCACAGTGTTAAAGAAT--ACAGTT
* ** *
4567348 TAGCAGAATTGACAGCAAATGAACAC
63 TAGCAGAATTGGCAGCAACCGAACAA
* *
4567374 ATTACTTTCACCAAAAGACAAAAAAAAAAAGAAAATACTAACTTCACAGTGTTAAAGAATACA-T
1 ATTAC-TTCACCAAAAGAC---AAAACAAAGACAATACTAACTTCACAGTGTTAAAGAATACAGT
4567438 AGTTAGCAGAATTGGCAGCAACCGAACAA
62 --TTAGCAGAATTGGCAGCAACCGAACAA
*
4567467 ATTACTTTCAACCAAAAGACAAAACAAAGACAATACTAATCACTTC-CAGTTTTAAAGAAT-CAG
1 ATTAC-TTC-ACCAAAAGACAAAACAAAGACAATACT-A--ACTTCACAGTGTTAAAGAATACAG
*
4567530 TTTAGCAGAATTGGCAGCAACCGAATAA
61 TTTAGCAGAATTGGCAGCAACCGAACAA
*
4567558 ATTTACTT---C-AAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTT-AATAA-ACAGTT
1 A-TTACTTCACCAAAAGACAAAAC-AAAGAC-AATACTAACTTCACAGTGTTAAAGAATACAGTT
* *
4567617 TAGCAGTATTGGCAGCAACCGAATAA
63 TAGCAGAATTGGCAGCAACCGAACAA
4567643 ATT
1 ATT
4567646 TACTAAGCAA
Statistics
Matches: 238, Mismatches: 16, Indels: 41
0.81 0.05 0.14
Matches are distributed among these distances:
84 2 0.01
85 40 0.17
86 17 0.07
87 8 0.03
88 6 0.03
89 14 0.06
90 3 0.01
91 47 0.20
92 34 0.14
93 52 0.22
94 15 0.06
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (88 bp):
ATTACTTCACCAAAAGACAAAACAAAGACAATACTAACTTCACAGTGTTAAAGAATACAGTTTAG
CAGAATTGGCAGCAACCGAACAA
Found at i:4567645 original size:85 final size:86
Alignment explanation
Indices: 4567296--4567649 Score: 300
Period size: 91 Copynumber: 4.0 Consensus size: 86
4567286 TTACTTCAAC
* * *
4567296 CAAAAGATAAAAC-AAAGAC-AATACTAACTTCAGAGTATTAAGAATACACAG-TTAGCAGAATT
1 CAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTT-A-AA-A-ACAGTTTAGCAGAATT
* ** * *
4567358 GACAGCAAATGAACACA-TTACTTTCA
62 GGCAGCAACCGAATAAATTTAC-TT-A
*
4567384 CCAAAAGACAAAAAAAAAAAGA-AAATACTAACTTCACAGTGTTAAAGAATACA-TAGTTAGCAG
1 -CAAAAGAC--AAAACAAAAGACAAATACTAACTTCACAGTGTT-AA-AA-ACAGT--TTAGCAG
*
4567447 AATTGGCAGCAACCGAACAAA-TTACTTTCAA
58 AATTGGCAGCAACCGAATAAATTTAC-TT--A
*
4567478 CCAAAAGACAAAAC-AAAGAC-AATACTAATCACTTC-CAGTTTTAAAGAATCAGTTTAGCAGAA
1 -CAAAAGACAAAACAAAAGACAAATACT-A--ACTTCACAGTGTTAAA-AA-CAGTTTAGCAGAA
4567540 TTGGCAGCAACCGAATAAATTTACTT-
60 TTGGCAGCAACCGAATAAATTTACTTA
*
4567566 C-AAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAGTATTGGC
1 CAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAA-AAACAGTTTAGCAGAATTGGC
4567630 AGCAACCGAATAAATTTACT
65 AGCAACCGAATAAATTTACT
4567650 AAGCAATCTA
Statistics
Matches: 229, Mismatches: 15, Indels: 46
0.79 0.05 0.16
Matches are distributed among these distances:
85 42 0.18
86 21 0.09
87 9 0.04
88 6 0.03
89 7 0.03
91 51 0.22
92 40 0.17
93 38 0.17
94 15 0.07
ACGTcount: A:0.48, C:0.18, G:0.13, T:0.22
Consensus pattern (86 bp):
CAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAAACAGTTTAGCAGAATTGGCA
GCAACCGAATAAATTTACTTA
Found at i:4569341 original size:20 final size:20
Alignment explanation
Indices: 4569316--4569411 Score: 91
Period size: 20 Copynumber: 5.2 Consensus size: 20
4569306 TTTTGGTTGA
4569316 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
*
4569336 AATGAAAATCGCAACGCG-G
1 AATGAAAATCGCAACGAGAG
**
4569355 AAATGACTATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
4569374 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
4569389 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
4569409 AAT
1 AAT
4569412 CGCAAGCGAA
Statistics
Matches: 62, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
14 8 0.13
16 4 0.06
17 2 0.03
18 1 0.02
19 14 0.23
20 33 0.53
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:4569382 original size:14 final size:14
Alignment explanation
Indices: 4569363--4569435 Score: 56
Period size: 14 Copynumber: 4.6 Consensus size: 14
4569353 GGAAATGACT
4569363 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
4569377 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
4569396 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
4569410 ATCGCAAGCGAAATGAA
1 ATCGCAA-CGAGA-G-A
4569427 ATCGCAACG
1 ATCGCAACG
4569436 CGAAATGAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
14 17 0.35
15 5 0.10
16 5 0.10
17 10 0.21
18 1 0.02
19 10 0.21
ACGTcount: A:0.44, C:0.22, G:0.25, T:0.10
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:4569400 original size:33 final size:33
Alignment explanation
Indices: 4569314--4569435 Score: 149
Period size: 33 Copynumber: 3.5 Consensus size: 33
4569304 TCTTTTGGTT
4569314 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAAC--GAG-A-G--AATCGCAACGC
**
4569353 GGAAATGACTATCGCAACGAGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAGAATCGCAACGC
4569387 GAAATGAAAATCGCAACGAGAGAATCGCAA-GC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
4569419 GAAATG-AAATCGCAACG
1 GAAATGAAAATCGCAACG
4569436 CGAAATGAAA
Statistics
Matches: 78, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
31 11 0.14
32 8 0.10
33 28 0.36
34 11 0.14
36 1 0.01
37 1 0.01
38 3 0.04
40 15 0.19
ACGTcount: A:0.45, C:0.20, G:0.25, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:4570158 original size:61 final size:60
Alignment explanation
Indices: 4570065--4570181 Score: 189
Period size: 61 Copynumber: 1.9 Consensus size: 60
4570055 CGATAGTCAG
* *
4570065 ATTCACGTTGCGATTTACGTATTCGCATTGCGAATTAGGAAAATCACAACGCGAATACGT
1 ATTCACGTTGCGATTTACCTATTCGCAATGCGAATTAGGAAAATCACAACGCGAATACGT
* *
4570125 ATTCACGTTGCGATTTTCCTAATTCGCAATGCGAATTAGGAAAATCGCAACGCGAAT
1 ATTCACGTTGCGATTTACCT-ATTCGCAATGCGAATTAGGAAAATCACAACGCGAAT
4570182 TTGGGAAATC
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
60 18 0.35
61 34 0.65
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (60 bp):
ATTCACGTTGCGATTTACCTATTCGCAATGCGAATTAGGAAAATCACAACGCGAATACGT
Found at i:4570172 original size:21 final size:21
Alignment explanation
Indices: 4570148--4570200 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
4570138 TTTTCCTAAT
4570148 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* * *
4570169 TCGCAACGCGAATTTGGGAAA
1 TCGCAATGCGAATTAGGAAAA
4570190 TCGCAATGCGA
1 TCGCAATGCGA
4570201 TAGTCAGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:4571837 original size:2 final size:2
Alignment explanation
Indices: 4571830--4571871 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
4571820 TTCGAACAAG
4571830 AT 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 AT
4571872 TTGATTCATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4573835 original size:24 final size:24
Alignment explanation
Indices: 4573796--4573842 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
4573786 TTTTTACATA
*
4573796 TAATAATATTACATATTTAATTAT
1 TAATAATATTACATATTAAATTAT
* *
4573820 TAATAATTTTATATATTAAATTA
1 TAATAATATTACATATTAAATTA
4573843 AGCTAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
TAATAATATTACATATTAAATTAT
Found at i:4574916 original size:2 final size:2
Alignment explanation
Indices: 4574909--4574936 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4574899 TCGAACAAGA
4574909 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
4574937 TTGATTCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4576902 original size:24 final size:24
Alignment explanation
Indices: 4576863--4576909 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
4576853 TTTTTACATA
*
4576863 TAATAATATTACATATTTAATTAT
1 TAATAATATTACATATTAAATTAT
* *
4576887 TAATAATTTTATATATTAAATTA
1 TAATAATATTACATATTAAATTA
4576910 AGCTAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
TAATAATATTACATATTAAATTAT
Found at i:4579342 original size:24 final size:24
Alignment explanation
Indices: 4579303--4579349 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
4579293 TTTTTACATA
*
4579303 TAATAATATTACATATTTAATTAT
1 TAATAATATTACATATTAAATTAT
* *
4579327 TAATAATTTTATATATTAAATTA
1 TAATAATATTACATATTAAATTA
4579350 AGCTAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
TAATAATATTACATATTAAATTAT
Found at i:4586817 original size:27 final size:27
Alignment explanation
Indices: 4586763--4586818 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
4586753 CCGCCATCAC
* *
4586763 CACTTTGAACTTGAAACTCCATAGCAT
1 CACTTTGAACTTGAAACTCCACAACAT
*
4586790 CACTTTGAACTTGAAAGTCCACAACAT
1 CACTTTGAACTTGAAACTCCACAACAT
4586817 CA
1 CA
4586819 AGATCTTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.27, G:0.11, T:0.27
Consensus pattern (27 bp):
CACTTTGAACTTGAAACTCCACAACAT
Found at i:4588661 original size:3 final size:3
Alignment explanation
Indices: 4588649--4588679 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
4588639 AATCTGAGTC
4588649 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4588680 TTTTTTATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4589301 original size:20 final size:19
Alignment explanation
Indices: 4589270--4589314 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
4589260 TAAAAAATTA
4589270 TAAAATATTTCTTATATTTT
1 TAAAATATTTCTTA-ATTTT
4589290 TGAAAA-ATTTCTTAATTTT
1 T-AAAATATTTCTTAATTTT
4589309 TAAAAT
1 TAAAAT
4589315 TAATTGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 4 0.17
19 6 0.26
20 9 0.39
21 4 0.17
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (19 bp):
TAAAATATTTCTTAATTTT
Found at i:4591435 original size:21 final size:25
Alignment explanation
Indices: 4591409--4591457 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 25
4591399 ATAATAGTTT
4591409 TAATAATTT-A-TTT-TTTT-AAAA
1 TAATAATTTAAGTTTCTTTTGAAAA
4591430 TAATAATTTAAGTTTCTTTTGAAAA
1 TAATAATTTAAGTTTCTTTTGAAAA
4591455 TAA
1 TAA
4591458 AAGTTGTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.38
22 1 0.04
23 3 0.12
24 4 0.17
25 7 0.29
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (25 bp):
TAATAATTTAAGTTTCTTTTGAAAA
Found at i:4595965 original size:164 final size:165
Alignment explanation
Indices: 4595694--4596022 Score: 651
Period size: 164 Copynumber: 2.0 Consensus size: 165
4595684 GATTGCATTA
4595694 CTTCACCAATCGTACTAGGTTCACTGACACCAGTTGGTGCACAGTGAACCAAATAGCTTTTCGGC
1 CTTCACCAATCGTACTAGGTTCACTGACACCAGTTGGTGCACAGTGAACCAAATAGCTTTTCGGC
4595759 TCAAAAAGTTCATGCTTTCTTCTAGTAATCTTGTGATGACCATTCTGAGGTAGAACTGAAGACAC
66 TCAAAAAGTTCATGCTTTCTTCTAGTAATCTTGTGATGACCATTCTGAGGTAGAACTGAAGACAC
4595824 ATGAACTTCCTCAACATT-GCTGAATTTGCATCCC
131 ATGAACTTCCTCAACATTAGCTGAATTTGCATCCC
4595858 CTTCACCAATCGTACTAGGTTCACTGACACCAGTTGGTGCACAGTGAACCAAATAGCTTTTCGGC
1 CTTCACCAATCGTACTAGGTTCACTGACACCAGTTGGTGCACAGTGAACCAAATAGCTTTTCGGC
4595923 TCAAAAAGTTCATGCTTTCTTCTAGTAATCTTGTGATGACCATTCTGAGGTAGAACTGAAGACAC
66 TCAAAAAGTTCATGCTTTCTTCTAGTAATCTTGTGATGACCATTCTGAGGTAGAACTGAAGACAC
4595988 ATGAACTTCCTCAACATTAGCTGAATTTGCATCCC
131 ATGAACTTCCTCAACATTAGCTGAATTTGCATCCC
4596023 ACGCACTACC
Statistics
Matches: 164, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
164 148 0.90
165 16 0.10
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (165 bp):
CTTCACCAATCGTACTAGGTTCACTGACACCAGTTGGTGCACAGTGAACCAAATAGCTTTTCGGC
TCAAAAAGTTCATGCTTTCTTCTAGTAATCTTGTGATGACCATTCTGAGGTAGAACTGAAGACAC
ATGAACTTCCTCAACATTAGCTGAATTTGCATCCC
Found at i:4596595 original size:41 final size:41
Alignment explanation
Indices: 4596467--4596720 Score: 171
Period size: 41 Copynumber: 6.1 Consensus size: 41
4596457 TTAGCGGTAT
* * *
4596467 TTTTTCAACAAACGCCGCAATAGATTGGTAATATAACGGCG
1 TTTTTCAACAAACGCCACAATAGATTAGTAATATAGCGGCG
* * * * *
4596508 TTTAT-AACTCAAACACCAGAATAGAGTT-GT-TTATAGTGGCG
1 TTTTTCAA--CAAACGCCACAATAGA-TTAGTAATATAGCGGCG
4596549 TTTTTTCAACAAACGCCACAATAGATTAGTAACT-TAGCGGCG
1 -TTTTTCAACAAACGCCACAATAGATTAGTAA-TATAGCGGCG
* *
4596591 TTTTT-ATACAAACGCCGCAATAGATTAGAAATATAGCGGCG
1 TTTTTCA-ACAAACGCCACAATAGATTAGTAATATAGCGGCG
* ** * *
4596632 TTTATCAAACAAACGCCGTAATAGGATT-GT-TTATAGTGGCG
1 TTTTTC-AACAAACGCCACAATA-GATTAGTAATATAGCGGCG
* * ** * * * *
4596673 TTTGTACAAAAAACGCTGCAATAGAGTAATAATTTAGCGGTG
1 TTT-TTCAACAAACGCCACAATAGATTAGTAATATAGCGGCG
4596715 TTTTTC
1 TTTTTC
4596721 GAAAAAACAC
Statistics
Matches: 166, Mismatches: 31, Indels: 32
0.72 0.14 0.14
Matches are distributed among these distances:
40 9 0.05
41 95 0.57
42 52 0.31
43 10 0.06
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (41 bp):
TTTTTCAACAAACGCCACAATAGATTAGTAATATAGCGGCG
Found at i:4596624 original size:124 final size:124
Alignment explanation
Indices: 4596474--4596719 Score: 318
Period size: 124 Copynumber: 2.0 Consensus size: 124
4596464 TATTTTTTCA
* * *
4596474 ACAAACGCCGCAATAGATTGGTAATATAACGGCGTTTAT-AACTCAAACACCAG-AATA-GAGTT
1 ACAAACGCCGCAATAGATTAGAAATATAACGGCGTTTATCAA-ACAAACACC-GTAATAGGA-TT
* * * * *
4596536 GTTTATAGTGGCGTTTTTTCAACAAACGCCACAATAGATTAGTAACTTAGCGGCGTTTTTAT
63 GTTTATAGTGGCGTTTGTACAAAAAACGCCACAATAGAGTAATAACTTAGCGGCGTTTTTAT
* *
4596598 ACAAACGCCGCAATAGATTAGAAATATAGCGGCGTTTATCAAACAAACGCCGTAATAGGATTGTT
1 ACAAACGCCGCAATAGATTAGAAATATAACGGCGTTTATCAAACAAACACCGTAATAGGATTGTT
** * *
4596663 TATAGTGGCGTTTGTACAAAAAACGCTGCAATAGAGTAATAATTTAGCGGTGTTTTT
66 TATAGTGGCGTTTGTACAAAAAACGCCACAATAGAGTAATAACTTAGCGGCGTTTTT
4596720 CGAAAAAACA
Statistics
Matches: 105, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
123 1 0.01
124 100 0.95
125 4 0.04
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (124 bp):
ACAAACGCCGCAATAGATTAGAAATATAACGGCGTTTATCAAACAAACACCGTAATAGGATTGTT
TATAGTGGCGTTTGTACAAAAAACGCCACAATAGAGTAATAACTTAGCGGCGTTTTTAT
Found at i:4596626 original size:83 final size:82
Alignment explanation
Indices: 4596466--4596648 Score: 187
Period size: 83 Copynumber: 2.2 Consensus size: 82
4596456 TTTAGCGGTA
* *
4596466 TTTTTTCAACAAACGCCGCAATAGATTGGTAATATAACGGCGTTTATAACTCAAACACCAGAATA
1 TTTTTTCAACAAACGCCACAATAGATTAGTAATATAACGGCGTTTATAAC-CAAACACCAGAATA
** *
4596531 GAGTTGTTTATAGTGGCG
65 GAGTTGAATATAGCGGCG
* * *
4596549 TTTTTTCAACAAACGCCACAATAGATTAGTAACT-TAGCGGCGTTTTTATA-CAAACGCC-GCAA
1 TTTTTTCAACAAACGCCACAATAGATTAGTAA-TATAACGGCGTTTATA-ACCAAACACCAG-AA
4596611 TAGA-TTAGAAATATAGCGGCG
63 TAGAGTT-G-AATATAGCGGCG
*
4596632 -TTTATCAAACAAACGCC
1 TTTTTTC-AACAAACGCC
4596649 GTAATAGGAT
Statistics
Matches: 85, Mismatches: 9, Indels: 12
0.80 0.08 0.11
Matches are distributed among these distances:
81 3 0.04
82 19 0.22
83 61 0.72
84 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (82 bp):
TTTTTTCAACAAACGCCACAATAGATTAGTAATATAACGGCGTTTATAACCAAACACCAGAATAG
AGTTGAATATAGCGGCG
Found at i:4597197 original size:22 final size:22
Alignment explanation
Indices: 4597166--4597214 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
4597156 AGTGATTTCT
*
4597166 GCTTTTGAATAGAAAAATAATA
1 GCTTTCGAATAGAAAAATAATA
*
4597188 GCTTTCGAATAGGAAAATAATA
1 GCTTTCGAATAGAAAAATAATA
4597210 GCTTT
1 GCTTT
4597215 TGAAAACGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (22 bp):
GCTTTCGAATAGAAAAATAATA
Found at i:4598519 original size:41 final size:41
Alignment explanation
Indices: 4598474--4598669 Score: 230
Period size: 41 Copynumber: 4.8 Consensus size: 41
4598464 AGGCATATAA
* * * *
4598474 TTTAGTGGCGTTTGTGAGAAAATGCCGCAATAGCCTTGTAC
1 TTTAGCGGCGTTTGTGAAAAAATGCCGCAATATCCATGTAC
* ** *
4598515 TTTAGTGGCGTTTGTGACCAAATGTCGCAATATCCATGTAC
1 TTTAGCGGCGTTTGTGAAAAAATGCCGCAATATCCATGTAC
* *
4598556 TTTAGCGGCGTTTGTGAAAAAACGCCGTAATATCCATGTAC
1 TTTAGCGGCGTTTGTGAAAAAATGCCGCAATATCCATGTAC
** * * * *
4598597 TTTAGCAACGTTTGTAAAAAAACGCTGTAATATCCATGTAC
1 TTTAGCGGCGTTTGTGAAAAAATGCCGCAATATCCATGTAC
* *
4598638 TTTAGCGGCGTTTATAAAAAAATGCCGCAATA
1 TTTAGCGGCGTTTGTGAAAAAATGCCGCAATA
4598670 GTTTTGTCCT
Statistics
Matches: 134, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 134 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTGTGAAAAAATGCCGCAATATCCATGTAC
Found at i:4598596 original size:82 final size:82
Alignment explanation
Indices: 4598474--4598691 Score: 242
Period size: 82 Copynumber: 2.7 Consensus size: 82
4598464 AGGCATATAA
* * * * ** *
4598474 TTTAGTGGCGTTTGTGAGAAAATGCCGCAATAGCCTTGTACTTTAGTGGCGTTTGTGACCAAATG
1 TTTAGCGGCGTTTGTGAAAAAATGCCGCAATATCCTTGTACTTTAGTGGCGTTTGTAAAAAAACG
4598539 -TCGCAATATCCATGTAC
66 CT-GCAATATCCATGTAC
* * * ***
4598556 TTTAGCGGCGTTTGTGAAAAAACGCCGTAATATCCATGTACTTTAGCAACGTTTGTAAAAAAACG
1 TTTAGCGGCGTTTGTGAAAAAATGCCGCAATATCCTTGTACTTTAGTGGCGTTTGTAAAAAAACG
*
4598621 CTGTAATATCCATGTAC
66 CTGCAATATCCATGTAC
* * * *
4598638 TTTAGCGGCGTTTATAAAAAAATGCCGCAATAGT-TTTGTCCTTTAGTGGCGTTT
1 TTTAGCGGCGTTTGTGAAAAAATGCCGCAATA-TCCTTGTACTTTAGTGGCGTTT
4598692 CTTTAATAAA
Statistics
Matches: 110, Mismatches: 24, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
82 108 0.98
83 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (82 bp):
TTTAGCGGCGTTTGTGAAAAAATGCCGCAATATCCTTGTACTTTAGTGGCGTTTGTAAAAAAACG
CTGCAATATCCATGTAC
Found at i:4598682 original size:41 final size:42
Alignment explanation
Indices: 4598637--4598725 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
4598627 TATCCATGTA
*
4598637 CTTTAGCGGCGTTT-ATAAAAAAATGCCGCAATAGTTTTGTC
1 CTTTAGCGGCGTTTCATAAAAAAACGCCGCAATAGTTTTGTC
* * * * * *
4598678 CTTTAGTGGCGTTTCTTTAATAAACGTCGCAGTAGTTTTGTC
1 CTTTAGCGGCGTTTCATAAAAAAACGCCGCAATAGTTTTGTC
4598720 CTTTAG
1 CTTTAG
4598726 GGGCATTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 13 0.32
42 27 0.68
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (42 bp):
CTTTAGCGGCGTTTCATAAAAAAACGCCGCAATAGTTTTGTC
Found at i:4598722 original size:42 final size:42
Alignment explanation
Indices: 4598663--4598744 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
4598653 AAAAAAATGC
* *
4598663 CGCAATAGTTTTGTCCTTTAGTGGCGTTTCTT-TAATAAACGT
1 CGCAATAGTTTTGTCCTTTAGGGGCATTT-TTGTAATAAACGT
*
4598705 CGCAGTAGTTTTGTCCTTTAGGGGCATTTTTGTAATAAAC
1 CGCAATAGTTTTGTCCTTTAGGGGCATTTTTGTAATAAAC
4598745 ACCGTGGAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 2 0.06
42 34 0.94
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (42 bp):
CGCAATAGTTTTGTCCTTTAGGGGCATTTTTGTAATAAACGT
Found at i:4598757 original size:42 final size:42
Alignment explanation
Indices: 4598669--4598757 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 42
4598659 ATGCCGCAAT
* * ** *
4598669 AGTTTTGTCCTTTAGTGGCGTTTCTTTAATAAACGTCGCAGT
1 AGTTTTGTCCTTTAGGGGCATTTCTTTAATAAACACCGCAGA
**
4598711 AGTTTTGTCCTTTAGGGGCATTT-TTGTAATAAACACCGTGGA
1 AGTTTTGTCCTTTAGGGGCATTTCTT-TAATAAACACCGCAGA
4598753 AGTTT
1 AGTTT
4598758 GGTTCCTTAG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 2 0.05
42 37 0.95
ACGTcount: A:0.21, C:0.15, G:0.22, T:0.42
Consensus pattern (42 bp):
AGTTTTGTCCTTTAGGGGCATTTCTTTAATAAACACCGCAGA
Found at i:4605157 original size:44 final size:44
Alignment explanation
Indices: 4605109--4605259 Score: 173
Period size: 43 Copynumber: 3.5 Consensus size: 44
4605099 CATATGTATT
* *
4605109 TTGCGGCGTTTATGGGAAAAAACACCGCTAAATCTCAACGCCTA
1 TTGCGGCGTTTGTGGGAAAAAACACCGCTAAATCTCAACACCTA
* * *
4605153 TTGCGGTG-TT-TGCGATAAAAACGCCGCTAAATCTCAACACCTA
1 TTGCGGCGTTTGTGGGA-AAAAACACCGCTAAATCTCAACACCTA
* * * * *
4605196 CTGCGGCATTTGT-GAAAAAAACTCCGCTCAATCTCAACACCTA
1 TTGCGGCGTTTGTGGGAAAAAACACCGCTAAATCTCAACACCTA
*
4605239 TTGCAGCGTTTGTGGGAAAAA
1 TTGCGGCGTTTGTGGGAAAAA
4605260 TGTCGCTATA
Statistics
Matches: 88, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 4 0.05
43 67 0.76
44 16 0.18
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (44 bp):
TTGCGGCGTTTGTGGGAAAAAACACCGCTAAATCTCAACACCTA
Found at i:4609211 original size:54 final size:54
Alignment explanation
Indices: 4609147--4609264 Score: 155
Period size: 54 Copynumber: 2.2 Consensus size: 54
4609137 ATTAAACCGA
* * *
4609147 AGTGCCGAAATGAAAATTCAAAAACTCATTATGAATTCTATGGGTTGCACACAT
1 AGTGCCGAAATGAAAATTCAAAAACACATTATGAATACCATGGGTTGCACACAT
*** * **
4609201 AGTGCCGAAATGGTTATTCATAAACACATTATGAATACCATGGGTTGCACATTT
1 AGTGCCGAAATGAAAATTCAAAAACACATTATGAATACCATGGGTTGCACACAT
4609255 AGTGCCGAAA
1 AGTGCCGAAA
4609265 ATGCACCATT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (54 bp):
AGTGCCGAAATGAAAATTCAAAAACACATTATGAATACCATGGGTTGCACACAT
Found at i:4615850 original size:25 final size:26
Alignment explanation
Indices: 4615798--4615859 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 26
4615788 TGTTTCAAAA
** *
4615798 ATAA-AATAAAACATTTTTTGATATC
1 ATAATAATAAAACATTCATTGATAAC
4615823 ATAATAATAAAACATTCATTG-TAAC
1 ATAATAATAAAACATTCATTGATAAC
* *
4615848 ATATTAAAAAAA
1 ATAATAATAAAA
4615860 TGATAAGGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 17 0.55
26 14 0.45
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (26 bp):
ATAATAATAAAACATTCATTGATAAC
Found at i:4616306 original size:54 final size:54
Alignment explanation
Indices: 4616219--4616321 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
4616209 CGAAATGAAA
* **
4616219 ATTCAAAAACTCATTATGAATTTCATGGATTGCACACATAGTGCCGAAATGGTT
1 ATTCAAAAACACATTATGAATACCATGGATTGCACACATAGTGCCGAAATGGTT
* * **
4616273 ATTCATAAACACATTATGAATACCAT-GAGTTGCATATTTAGTGCCGAAA
1 ATTCAAAAACACATTATGAATACCATGGA-TTGCACACATAGTGCCGAAA
4616322 ATGCACTATT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 2 0.05
54 39 0.95
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (54 bp):
ATTCAAAAACACATTATGAATACCATGGATTGCACACATAGTGCCGAAATGGTT
Found at i:4617052 original size:22 final size:22
Alignment explanation
Indices: 4617026--4617067 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
4617016 TCGGTACCCC
*
4617026 TACTATGGTATCGATACTTCTA
1 TACTATGGTACCGATACTTCTA
4617048 TACTATGGTACCGATACTTC
1 TACTATGGTACCGATACTTC
4617068 CTTCAGTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.38
Consensus pattern (22 bp):
TACTATGGTACCGATACTTCTA
Found at i:4622487 original size:26 final size:26
Alignment explanation
Indices: 4622457--4622576 Score: 108
Period size: 26 Copynumber: 4.8 Consensus size: 26
4622447 GTTAAATTTC
**
4622457 ATTTTATTTATTTCATCCTTTCATGT
1 ATTTTATTTATGGCATCCTTTCATGT
4622483 ATTTTATTTATGGCATCCTTTCATG-
1 ATTTTATTTATGGCATCCTTTCATGT
** * * *
4622508 -CCTTA---AT-GCGTCATTTCATGC
1 ATTTTATTTATGGCATCCTTTCATGT
* *
4622529 ATTTTATTTATGGCATCCTTTAATGC
1 ATTTTATTTATGGCATCCTTTCATGT
*
4622555 ATTTTATTTATGACATCCTTTC
1 ATTTTATTTATGGCATCCTTTC
4622577 TTGCCATAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
20 11 0.15
21 2 0.03
22 3 0.04
24 3 0.04
25 2 0.03
26 54 0.72
ACGTcount: A:0.21, C:0.18, G:0.09, T:0.52
Consensus pattern (26 bp):
ATTTTATTTATGGCATCCTTTCATGT
Found at i:4622526 original size:46 final size:45
Alignment explanation
Indices: 4622475--4622678 Score: 179
Period size: 46 Copynumber: 4.4 Consensus size: 45
4622465 TATTTCATCC
* *
4622475 TTTCATGTATTTTATTTATGGCATCCTTTCATGCCTTAATGCGTCA
1 TTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATGCAT-A
* *
4622521 TTTCATGCATTTTATTTATGGCATCCTTTAATGCATT--T---TA
1 TTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATGCATA
* * * *
4622561 TTT-ATGACATCCTTTCTTGCCATAAT-GCATCATATCATGCCTTAATACATA
1 TTTCATG-CAT--TTTATT----T-ATGGCATCCTTTCATGCCTTAATGCATA
*
4622612 CTTTCATGCATTTTATTTATGGCATCCTTTCTTGCCTTAATGCATCA
1 -TTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATGCAT-A
4622659 TTTCATGCATTTTATTTATG
1 TTTCATGCATTTTATTTATG
4622679 TATTCAGTTT
Statistics
Matches: 128, Mismatches: 13, Indels: 34
0.73 0.07 0.19
Matches are distributed among these distances:
39 3 0.02
40 7 0.05
41 1 0.01
42 5 0.04
44 1 0.01
45 2 0.02
46 89 0.70
47 3 0.02
48 1 0.01
50 5 0.04
51 2 0.02
52 6 0.05
53 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.48
Consensus pattern (45 bp):
TTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATGCATA
Found at i:4622657 original size:66 final size:69
Alignment explanation
Indices: 4622474--4622667 Score: 250
Period size: 66 Copynumber: 2.8 Consensus size: 69
4622464 TTATTTCATC
* * * *
4622474 CTTTCATGTATTTTATTTATGGCATCCTTTCATGCCTTAATGCGTCATTTCATGCATTTTATTTA
1 CTTTCATGCATTTTATTTATGGCATCCTTTCTTGCCTTAATGCATCATTTCATGCA-CTTA--TA
* *
4622539 TGGCATC
63 TGACATA
* * * *
4622546 CTTTAATGCATTTTATTTATGACATCCTTTCTTGCCATAATGCATCATATCATGC-CTTA-AT-A
1 CTTTCATGCATTTTATTTATGGCATCCTTTCTTGCCTTAATGCATCATTTCATGCACTTATATGA
4622608 CATA
66 CATA
4622612 CTTTCATGCATTTTATTTATGGCATCCTTTCTTGCCTTAATGCATCATTTCATGCA
1 CTTTCATGCATTTTATTTATGGCATCCTTTCTTGCCTTAATGCATCATTTCATGCA
4622668 TTTTATTTAT
Statistics
Matches: 107, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
66 54 0.50
67 2 0.02
70 3 0.03
72 48 0.45
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (69 bp):
CTTTCATGCATTTTATTTATGGCATCCTTTCTTGCCTTAATGCATCATTTCATGCACTTATATGA
CATA
Found at i:4623127 original size:22 final size:22
Alignment explanation
Indices: 4623101--4623153 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
4623091 TACTACCCTG
4623101 GTACCGATACTTCTATACTATT
1 GTACCGATACTTCTATACTATT
4623123 GTACCGATACTTCTATACTATT
1 GTACCGATACTTCTATACTATT
4623145 GTACCGATA
1 GTACCGATA
4623154 TCCCCTTCCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (22 bp):
GTACCGATACTTCTATACTATT
Found at i:4627230 original size:17 final size:17
Alignment explanation
Indices: 4627179--4627284 Score: 74
Period size: 17 Copynumber: 6.1 Consensus size: 17
4627169 TGTTAAAAGT
* *
4627179 TAGTTTAATAAATGAAT
1 TAGTTTAATTAATGAAC
* * *
4627196 TAGTTTGATGAATAAAC
1 TAGTTTAATTAATGAAC
4627213 TAGTTTAATTAATGAAC
1 TAGTTTAATTAATGAAC
*
4627230 TAACTTT-ATTCAATGAAC
1 T-AGTTTAATT-AATGAAC
*
4627248 T--TGTAATCTTGAATGAAC
1 TAGTTTAA--TT-AATGAAC
*
4627266 TAGTTTAATCAATGAAC
1 TAGTTTAATTAATGAAC
4627283 TA
1 TA
4627285 CTTAGTTAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
15 2 0.03
16 1 0.01
17 40 0.57
18 23 0.33
20 4 0.06
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (17 bp):
TAGTTTAATTAATGAAC
Found at i:4628148 original size:63 final size:63
Alignment explanation
Indices: 4628049--4628236 Score: 342
Period size: 63 Copynumber: 3.0 Consensus size: 63
4628039 TTTCTTACCA
* *
4628049 ATATACT-TGCCATTTATACCATAAGCTCGTAAGCTTATTTGCCAATTTATCATTTATTAACCG
1 ATATACTGT-CCATTTAAACCATAAGCTCGTAAGCTTATTTGCCAGTTTATCATTTATTAACCG
4628112 ATATACTGTCCATTTAAACCATAAGCTCGTAAGCTTATTTGCCAGTTTATCATTTATTAACCG
1 ATATACTGTCCATTTAAACCATAAGCTCGTAAGCTTATTTGCCAGTTTATCATTTATTAACCG
4628175 ATATACTGTCCATTTAAACCATAAGCTCGTAAGCTTATTTGCCAGTTTATCATTTATTAACC
1 ATATACTGTCCATTTAAACCATAAGCTCGTAAGCTTATTTGCCAGTTTATCATTTATTAACC
4628237 AATAAACCAT
Statistics
Matches: 122, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
63 121 0.99
64 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (63 bp):
ATATACTGTCCATTTAAACCATAAGCTCGTAAGCTTATTTGCCAGTTTATCATTTATTAACCG
Found at i:4628390 original size:40 final size:39
Alignment explanation
Indices: 4628333--4628442 Score: 184
Period size: 40 Copynumber: 2.7 Consensus size: 39
4628323 ACCGTAGTGC
*
4628333 TACACATAAGGTTGTGCCCACCATATACAGCGAAGTGTAT
1 TACACATAAGG-TGTGCCCACCATATACACCGAAGTGTAT
4628373 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGT-GTGCCCACCATATACACCGAAGTGTAT
4628413 TACACATAAGGTGTTGCCCACCATATACAC
1 TACACATAAGGTG-TGCCCACCATATACAC
4628443 TTATTGTCCT
Statistics
Matches: 67, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
39 2 0.03
40 65 0.97
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (39 bp):
TACACATAAGGTGTGCCCACCATATACACCGAAGTGTAT
Found at i:4632294 original size:8 final size:8
Alignment explanation
Indices: 4632281--4632396 Score: 65
Period size: 9 Copynumber: 13.4 Consensus size: 8
4632271 CTCTCATCTT
4632281 TTTTTCTC
1 TTTTTCTC
4632289 TTTTTCTC
1 TTTTTCTC
*
4632297 TTTTTTCCTT
1 -TTTTT-CTC
4632307 TTTTTCCTC
1 TTTTT-CTC
4632316 TTTTT-TCC
1 TTTTTCT-C
4632324 TTTTTGTCTTC
1 -TTTT-TC-TC
*
4632335 TTTTTTGTC
1 -TTTTTCTC
4632344 TTCTTT-TC
1 TT-TTTCTC
*
4632352 TTTTTCTA
1 TTTTTCTC
*
4632360 TTTTTTTC
1 TTTTTCTC
*
4632368 TTTTTCTA
1 TTTTTCTC
4632376 TTTTTCTTC
1 TTTTTC-TC
*
4632385 TTCTTCTTC
1 TTTTTC-TC
4632394 TTT
1 TTT
4632397 CTTTATTCTT
Statistics
Matches: 87, Mismatches: 11, Indels: 19
0.74 0.09 0.16
Matches are distributed among these distances:
7 4 0.05
8 34 0.39
9 38 0.44
10 4 0.05
11 6 0.07
12 1 0.01
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.76
Consensus pattern (8 bp):
TTTTTCTC
Found at i:4632301 original size:9 final size:9
Alignment explanation
Indices: 4632280--4632372 Score: 81
Period size: 9 Copynumber: 10.6 Consensus size: 9
4632270 TCTCTCATCT
4632280 TTTTTTCTC
1 TTTTTTCTC
4632289 -TTTTTCTC
1 TTTTTTCTC
4632297 TTTTTTC-C
1 TTTTTTCTC
4632305 TTTTTTTCCTC
1 -TTTTTT-CTC
4632316 TTTTTTC-C
1 TTTTTTCTC
4632324 TTTTTGTCTTC
1 TTTTT-TC-TC
*
4632335 TTTTTTGTC
1 TTTTTTCTC
*
4632344 TTCTTT-TC
1 TTTTTTCTC
*
4632352 -TTTTTCTA
1 TTTTTTCTC
4632360 TTTTTT-TC
1 TTTTTTCTC
4632368 TTTTT
1 TTTTT
4632373 CTATTTTTCT
Statistics
Matches: 70, Mismatches: 5, Indels: 19
0.74 0.05 0.20
Matches are distributed among these distances:
7 4 0.06
8 24 0.34
9 27 0.39
10 8 0.11
11 7 0.10
ACGTcount: A:0.01, C:0.19, G:0.02, T:0.77
Consensus pattern (9 bp):
TTTTTTCTC
Found at i:4632307 original size:16 final size:16
Alignment explanation
Indices: 4632280--4632380 Score: 75
Period size: 16 Copynumber: 6.3 Consensus size: 16
4632270 TCTCTCATCT
4632280 TTTTTTCTCTTTTTCTC
1 TTTTTTC-CTTTTTCTC
4632297 TTTTTTCCTTTTTTTCCTC
1 TTTTTTCC--TTTTT-CTC
*
4632316 TTTTTTCCTTTTTGTC
1 TTTTTTCCTTTTTCTC
* *
4632332 TTCTTT--TTTGTCT-
1 TTTTTTCCTTTTTCTC
* *
4632345 TCTTTT-CTTTTTCTA
1 TTTTTTCCTTTTTCTC
* *
4632360 TTTTTTTCTTTTTCTA
1 TTTTTTCCTTTTTCTC
4632376 TTTTT
1 TTTTT
4632381 CTTCTTCTTC
Statistics
Matches: 70, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
13 4 0.06
14 11 0.16
15 5 0.07
16 22 0.31
17 12 0.17
18 5 0.07
19 11 0.16
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTTTTCCTTTTTCTC
Found at i:4632339 original size:12 final size:12
Alignment explanation
Indices: 4632324--4632350 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4632314 TCTTTTTTCC
4632324 TTTTTGTCTTCT
1 TTTTTGTCTTCT
4632336 TTTTTGTCTTCT
1 TTTTTGTCTTCT
4632348 TTT
1 TTT
4632351 CTTTTTCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.15, G:0.07, T:0.78
Consensus pattern (12 bp):
TTTTTGTCTTCT
Found at i:4632385 original size:17 final size:17
Alignment explanation
Indices: 4632277--4632391 Score: 80
Period size: 17 Copynumber: 6.7 Consensus size: 17
4632267 GTATCTCTCA
*
4632277 TCTT-TTTTTCTCTTTT
1 TCTTCTTTTTCTATTTT
*
4632293 TC-TCTTTTTTCCTTTTTT
1 TCTTC-TTTTT-CTATTTT
*
4632311 TCCTCTTTTTTCCT-TTTT
1 TCTTC-TTTTT-CTATTTT
*
4632329 GTCTTCTTTTT-TGTCTTCT
1 -TCTTCTTTTTCTAT-TT-T
4632348 T-TTCTTTTTCTATTTT
1 TCTTCTTTTTCTATTTT
4632364 T-TTCTTTTTCTATTTT
1 TCTTCTTTTTCTATTTT
*
4632380 TCTTCTTCTTCT
1 TCTTCTTTTTCT
4632392 TCTTTCTTTA
Statistics
Matches: 85, Mismatches: 4, Indels: 19
0.79 0.04 0.18
Matches are distributed among these distances:
15 1 0.01
16 21 0.25
17 25 0.29
18 22 0.26
19 16 0.19
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.76
Consensus pattern (17 bp):
TCTTCTTTTTCTATTTT
Found at i:4635146 original size:63 final size:63
Alignment explanation
Indices: 4635047--4635171 Score: 214
Period size: 63 Copynumber: 2.0 Consensus size: 63
4635037 TTTCTTACCA
* * *
4635047 ATATACTTTCTATTTATGCCATAAGCTAGTAAGCTTATTTGCCAGTTTATCATTTATTAACCG
1 ATATACTTGCCATTTATACCATAAGCTAGTAAGCTTATTTGCCAGTTTATCATTTATTAACCG
*
4635110 ATATACTTGCCATTTATACCATAAGCTCGTAAGCTTATTTGCCAGTTTATCATTTATTAACC
1 ATATACTTGCCATTTATACCATAAGCTAGTAAGCTTATTTGCCAGTTTATCATTTATTAACC
4635172 AGTAAACCAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (63 bp):
ATATACTTGCCATTTATACCATAAGCTAGTAAGCTTATTTGCCAGTTTATCATTTATTAACCG
Found at i:4635379 original size:40 final size:40
Alignment explanation
Indices: 4635254--4635363 Score: 202
Period size: 40 Copynumber: 2.8 Consensus size: 40
4635244 ACCGTAGTGA
*
4635254 TACAAATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
4635294 TACACATAAGGTTGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
4635334 TACACATAAGGTCGTGCCCACCATATACAC
1 TACACATAAGGTCGTGCCCACCATATACAC
4635364 TTAGTGTCCT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:4635711 original size:24 final size:24
Alignment explanation
Indices: 4635679--4635727 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
4635669 AGTCTTCTTG
4635679 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
4635703 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
4635727 A
1 A
4635728 ATGTCATGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (24 bp):
ATGATGTATAAAACATCTATGTAC
Found at i:4641143 original size:17 final size:17
Alignment explanation
Indices: 4641041--4641146 Score: 90
Period size: 17 Copynumber: 6.1 Consensus size: 17
4641031 AATTAAGAGT
*
4641041 TAGTTTAATAAATGAAC
1 TAGTTTAATCAATGAAC
* *
4641058 TAGTTTTATGAATGAAC
1 TAGTTTAATCAATGAAC
*
4641075 TAGTTTAATTAATGAAC
1 TAGTTTAATCAATGAAC
* * *
4641092 TAACTTCATTCAATGAAC
1 T-AGTTTAATCAATGAAC
*
4641110 T--TGTAATCTTGAATGAAC
1 TAGTTTAATC---AATGAAC
4641128 TAGTTTAATCAATGAAC
1 TAGTTTAATCAATGAAC
4641145 TA
1 TA
4641147 CTTAGTTAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 12
0.75 0.13 0.13
Matches are distributed among these distances:
15 4 0.06
17 40 0.56
18 21 0.30
20 6 0.08
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (17 bp):
TAGTTTAATCAATGAAC
Found at i:4641158 original size:17 final size:17
Alignment explanation
Indices: 4641138--4641181 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
4641128 TAGTTTAATC
* *
4641138 AATGAACTACTTAGTTA
1 AATGAACTACATAGCTA
*
4641155 AATGAACTGCATAGCTA
1 AATGAACTACATAGCTA
4641172 AATGAACTAC
1 AATGAACTAC
4641182 GTTTAAATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (17 bp):
AATGAACTACATAGCTA
Found at i:4642371 original size:16 final size:16
Alignment explanation
Indices: 4642331--4642372 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
4642321 ATTTCTGTCA
*
4642331 TCCACTC-TCTCATTT
1 TCCACTCTTTTCATTT
*
4642346 T-CATTCTTTTCATTT
1 TCCACTCTTTTCATTT
4642361 TCCACTCTTTTC
1 TCCACTCTTTTC
4642373 TTCCATGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 4 0.18
15 9 0.41
16 9 0.41
ACGTcount: A:0.12, C:0.33, G:0.00, T:0.55
Consensus pattern (16 bp):
TCCACTCTTTTCATTT
Found at i:4644979 original size:17 final size:17
Alignment explanation
Indices: 4644877--4644982 Score: 86
Period size: 17 Copynumber: 6.1 Consensus size: 17
4644867 AATTAAGAGT
*
4644877 TAGTTTAATAAATGAAC
1 TAGTTTAATCAATGAAC
* *
4644894 TAGTTTGATGAATGAAC
1 TAGTTTAATCAATGAAC
*
4644911 TAGTTTAATTAATGAACC
1 TAGTTTAATCAATGAA-C
* *
4644929 AAGTTTATTCAATGAAC
1 TAGTTTAATCAATGAAC
* * ** *
4644946 TTGTGATCTTGAATGAAC
1 TAGT-TTAATCAATGAAC
*
4644964 TTGTTTAATCAATGAAC
1 TAGTTTAATCAATGAAC
4644981 TA
1 TA
4644983 CTTAGTTAAA
Statistics
Matches: 70, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
17 42 0.60
18 28 0.40
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (17 bp):
TAGTTTAATCAATGAAC
Found at i:4651820 original size:12 final size:12
Alignment explanation
Indices: 4651794--4651826 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4651784 TTACTGTTCA
4651794 TGCTACAGT-AC
1 TGCTACAGTAAC
*
4651805 TGCTATAGTAAC
1 TGCTACAGTAAC
4651817 TGCTACAGTA
1 TGCTACAGTA
4651827 TCTTCCGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (12 bp):
TGCTACAGTAAC
Found at i:4652284 original size:47 final size:45
Alignment explanation
Indices: 4652209--4652318 Score: 141
Period size: 47 Copynumber: 2.4 Consensus size: 45
4652199 TACAAAATCC
*
4652209 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATCCCATAAGCTCATAAGCTTATTTTACCAAAATA
* * *
4652254 CTTACCATTTAAATTCCATAAGCTCATAAGCTTATTTTATCAATATA
1 CTTACCATTT--ATCCCATAAGCTCATAAGCTTATTTTACCAAAATA
* *
4652301 CTTGCCA-TTATTCCATAA
1 CTTACCATTTATCCCATAA
4652319 CCATATACCA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
44 9 0.16
45 10 0.17
46 2 0.03
47 37 0.64
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (45 bp):
CTTACCATTTATCCCATAAGCTCATAAGCTTATTTTACCAAAATA
Found at i:4656623 original size:2 final size:2
Alignment explanation
Indices: 4656616--4656645 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4656606 TAAATTTCAA
*
4656616 AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4656646 CCATTATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4660280 original size:78 final size:78
Alignment explanation
Indices: 4660151--4660296 Score: 256
Period size: 78 Copynumber: 1.9 Consensus size: 78
4660141 ATCAAGAACA
* *
4660151 ATATTCACATTCTTATTGGTGAACGTCTTTTCAAATCTTGAGAATTCTACCAATTCATCACTCCG
1 ATATTCACATTCTTATTGGTGAACGTATTTACAAATCTTGAGAATTCTACCAATTCATCACTCCG
4660216 AACTGATGAGACT
66 AACTGATGAGACT
* *
4660229 ATATTCACCTTCTTATTGGTGAATGTATTTACAAATCTTGAGAATTCTACCAATTCATCACTCCG
1 ATATTCACATTCTTATTGGTGAACGTATTTACAAATCTTGAGAATTCTACCAATTCATCACTCCG
4660294 AAC
66 AAC
4660297 AGTACCACTT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 64 1.00
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (78 bp):
ATATTCACATTCTTATTGGTGAACGTATTTACAAATCTTGAGAATTCTACCAATTCATCACTCCG
AACTGATGAGACT
Found at i:4664948 original size:10 final size:10
Alignment explanation
Indices: 4664933--4664991 Score: 53
Period size: 10 Copynumber: 6.7 Consensus size: 10
4664923 TATTTAATAA
4664933 ATAAACGAAC
1 ATAAACGAAC
*
4664943 ATAAACAAAC
1 ATAAACGAAC
4664953 AT----GAAC
1 ATAAACGAAC
4664959 ATAAACGAAC
1 ATAAACGAAC
4664969 ----ACGAAC
1 ATAAACGAAC
4664975 ATAAACGAAC
1 ATAAACGAAC
4664985 ATAAACG
1 ATAAACG
4664992 TTGGAGACCC
Statistics
Matches: 39, Mismatches: 2, Indels: 16
0.68 0.04 0.28
Matches are distributed among these distances:
6 11 0.28
10 28 0.72
ACGTcount: A:0.59, C:0.20, G:0.10, T:0.10
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:4664960 original size:16 final size:16
Alignment explanation
Indices: 4664939--4664986 Score: 78
Period size: 16 Copynumber: 3.0 Consensus size: 16
4664929 ATAAATAAAC
*
4664939 GAACATAAACAAACAT
1 GAACATAAACGAACAT
*
4664955 GAACATAAACGAACAC
1 GAACATAAACGAACAT
4664971 GAACATAAACGAACAT
1 GAACATAAACGAACAT
4664987 AAACGTTGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.58, C:0.21, G:0.10, T:0.10
Consensus pattern (16 bp):
GAACATAAACGAACAT
Found at i:4664969 original size:26 final size:26
Alignment explanation
Indices: 4664933--4664991 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
4664923 TATTTAATAA
* *
4664933 ATAAACGAACATAAACA-AACATGAAC
1 ATAAACGAACACAAACATAA-ACGAAC
*
4664959 ATAAACGAACACGAACATAAACGAAC
1 ATAAACGAACACAAACATAAACGAAC
4664985 ATAAACG
1 ATAAACG
4664992 TTGGAGACCC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 27 0.93
27 2 0.07
ACGTcount: A:0.59, C:0.20, G:0.10, T:0.10
Consensus pattern (26 bp):
ATAAACGAACACAAACATAAACGAAC
Found at i:4666102 original size:14 final size:14
Alignment explanation
Indices: 4666085--4666115 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4666075 AATGAACATA
*
4666085 AACGAACATAACCG
1 AACGAACATAAACG
4666099 AACGAACATAAACG
1 AACGAACATAAACG
4666113 AAC
1 AAC
4666116 ATAACTGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.26, G:0.13, T:0.06
Consensus pattern (14 bp):
AACGAACATAAACG
Found at i:4666105 original size:24 final size:24
Alignment explanation
Indices: 4666078--4666126 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
4666068 ATAAATGAAT
4666078 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
*
4666102 GAACATAAACGAACATAACTGAAC
1 GAACATAAACGAACATAACCGAAC
4666126 G
1 G
4666127 TTCACGAACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.22, G:0.14, T:0.10
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:4669457 original size:16 final size:16
Alignment explanation
Indices: 4669433--4669470 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
4669423 ATCTATATAA
4669433 TATAAATAT-TAAT-T
1 TATAAATATATAATAT
4669447 TATAAATATATAATAT
1 TATAAATATATAATAT
*
4669463 TCTAAATA
1 TATAAATA
4669471 AAATTATAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.43
15 4 0.19
16 8 0.38
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TATAAATATATAATAT
Found at i:4670356 original size:2 final size:2
Alignment explanation
Indices: 4670349--4670373 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4670339 TAATAATTTA
4670349 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 A
4670374 AATTTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4674084 original size:45 final size:45
Alignment explanation
Indices: 4674033--4674310 Score: 274
Period size: 45 Copynumber: 6.2 Consensus size: 45
4674023 CATGTACCAT
*
4674033 TATGCATTTTAAACTATAACAT-CTTTTCTGTTGATAATGCACCCA
1 TATGCA-TTTCAACTATAACATACTTTTCTGTTGATAATGCACCCA
* *
4674078 TATGCATTTCAACTATAATATACTTTTCTGTTGATAATGTACCCA
1 TATGCATTTCAACTATAACATACTTTTCTGTTGATAATGCACCCA
* * **
4674123 TATACATTTCAACCATAGTATACTTTTCTGTTGATAATGCACCCA
1 TATGCATTTCAACTATAACATACTTTTCTGTTGATAATGCACCCA
* ** ** *
4674168 TATGCATTTCAACTCTGGCATACTTTTAAGTTGATAATGTACCCA
1 TATGCATTTCAACTATAACATACTTTTCTGTTGATAATGCACCCA
* * * * *
4674213 TATACATTTCAACTA-AAGTATGCTTTTCTGTTAATAATGTACCCA
1 TATGCATTTCAACTATAA-CATACTTTTCTGTTGATAATGCACCCA
** ** * * * *
4674258 TACACATTTCAACTATGGCAT-CATTTCATGCTAATAACGCACCCA
1 TATGCATTTCAACTATAACATACTTTTC-TGTTGATAATGCACCCA
4674303 TATGCATT
1 TATGCATT
4674311 ATTCTTTTAT
Statistics
Matches: 195, Mismatches: 34, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
44 18 0.09
45 177 0.91
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (45 bp):
TATGCATTTCAACTATAACATACTTTTCTGTTGATAATGCACCCA
Found at i:4674277 original size:90 final size:90
Alignment explanation
Indices: 4674055--4674278 Score: 331
Period size: 90 Copynumber: 2.5 Consensus size: 90
4674045 ACTATAACAT
*** **
4674055 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAATATACTTTTCTGTTGATAATGTAC
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATGGCATACTTTTAAGTTGATAATGTAC
*
4674120 CCATATACATTTCAACCATAGTATA
66 CCATATACATTTCAACCAAAGTATA
*
4674145 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTGGCATACTTTTAAGTTGATAATGTAC
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATGGCATACTTTTAAGTTGATAATGTAC
* *
4674210 CCATATACATTTCAACTAAAGTATG
66 CCATATACATTTCAACCAAAGTATA
* * **
4674235 CTTTTCTGTTAATAATGTACCCATACACATTTCAACTATGGCAT
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATGGCAT
4674279 CATTTCATGC
Statistics
Matches: 120, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 120 1.00
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (90 bp):
CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATGGCATACTTTTAAGTTGATAATGTAC
CCATATACATTTCAACCAAAGTATA
Found at i:4674300 original size:135 final size:135
Alignment explanation
Indices: 4674062--4674310 Score: 358
Period size: 135 Copynumber: 1.8 Consensus size: 135
4674052 CATCTTTTCT
* * *
4674062 GTTGATAATGCACCCATATGCATTTCAACTATAATATACTTTTCTGTTGATAATGTACCCATATA
1 GTTGATAATGCACCCATATACATTTCAACTATAATATACTTTTCTGTTAATAATGTACCCATACA
* * * * *
4674127 CATTTCAACCATAGTATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTGGCATACT
66 CATTTCAACCATAGCATACATTTCTGCTAATAACGCACCCATATGCATTTCAACTCTGGCATACT
4674192 TTTAA
131 TTTAA
* *
4674197 GTTGATAATGTACCCATATACATTTCAACTA-AAGTATGCTTTTCTGTTAATAATGTACCCATAC
1 GTTGATAATGCACCCATATACATTTCAACTATAA-TATACTTTTCTGTTAATAATGTACCCATAC
* *
4674261 ACATTTCAACTATGGCAT-CATTTCATGCTAATAACGCACCCATATGCATT
65 ACATTTCAACCATAGCATACATTTC-TGCTAATAACGCACCCATATGCATT
4674311 ATTCTTTTAT
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
134 7 0.07
135 93 0.93
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.37
Consensus pattern (135 bp):
GTTGATAATGCACCCATATACATTTCAACTATAATATACTTTTCTGTTAATAATGTACCCATACA
CATTTCAACCATAGCATACATTTCTGCTAATAACGCACCCATATGCATTTCAACTCTGGCATACT
TTTAA
Found at i:4674302 original size:90 final size:90
Alignment explanation
Indices: 4674055--4674310 Score: 309
Period size: 90 Copynumber: 2.8 Consensus size: 90
4674045 ACTATAACAT
*** *
4674055 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAATATACTTTTC-TGTTGATAATGTA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATGGCAT-CATTTCATGTTGATAATGTA
*
4674119 CCCATATACATTTCAACCATAGTATA
65 CCCATATACATTTCAACCAAAGTATA
* * *
4674145 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTGGCAT-ACTTTTAAGTTGATAATGTA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATGGCATCA-TTTCATGTTGATAATGTA
* *
4674209 CCCATATACATTTCAACTAAAGTATG
65 CCCATATACATTTCAACCAAAGTATA
* * ** * * * *
4674235 CTTTTCTGTTAATAATGTACCCATACACATTTCAACTATGGCATCATTTCATGCTAATAACGCAC
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATGGCATCATTTCATGTTGATAATGTAC
*
4674300 CCATATGCATT
66 CCATATACATT
4674311 ATTCTTTTAT
Statistics
Matches: 141, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
89 3 0.02
90 137 0.97
91 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.38
Consensus pattern (90 bp):
CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATGGCATCATTTCATGTTGATAATGTAC
CCATATACATTTCAACCAAAGTATA
Found at i:4674339 original size:34 final size:34
Alignment explanation
Indices: 4674291--4674579 Score: 132
Period size: 34 Copynumber: 7.6 Consensus size: 34
4674281 TTTCATGCTA
*
4674291 ATAACGCACCCATATGCATTATTCTTTTATACTG
1 ATAATGCACCCATATGCATTATTCTTTTATACTG
****
4674325 ATAATGCACCCATATGCATTTCAGCTATGTCATCCTTTCATGGCA
1 ATAATGCACCCATATGCA--T----TAT-TC-T--TTT-ATACTG
* *
4674370 ATAATGCACCCATATGCATTATTATCTTATACTG
1 ATAATGCACCCATATGCATTATTCTTTTATACTG
* * **
4674404 ATAATG--CCCATATGTATTTCAGCTATGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCA-TT-A--T-T--C-T--TTT-ATACTG
4674447 ATAATGCACCCATATGCATTATTCTTTTATACTG
1 ATAATGCACCCATATGCATTATTCTTTTATACTG
* **
4674481 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCA-TT-A--T-T--C-T--TTT-ATACTG
*
4674526 ATAATGCACCCATATGCATTGTTCTTTTATACTG
1 ATAATGCACCCATATGCATTATTCTTTTATACTG
4674560 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
4674580 TCAGCTATGG
Statistics
Matches: 192, Mismatches: 28, Indels: 70
0.66 0.10 0.24
Matches are distributed among these distances:
32 9 0.05
33 2 0.01
34 70 0.36
35 10 0.05
36 3 0.02
37 4 0.02
38 4 0.02
39 4 0.02
40 6 0.03
41 5 0.03
42 4 0.02
43 11 0.06
44 10 0.05
45 50 0.26
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.36
Consensus pattern (34 bp):
ATAATGCACCCATATGCATTATTCTTTTATACTG
Found at i:4674366 original size:79 final size:79
Alignment explanation
Indices: 4674246--4674607 Score: 593
Period size: 79 Copynumber: 4.6 Consensus size: 79
4674236 TTTTCTGTTA
* ** * * * *
4674246 ATAATGTACCCATACACATTTCAACTATGGCATCATTTCATGCTAATAACGCACCCATATGCATT
1 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
4674311 ATTCTTTTATACTG
66 ATTCTTTTATACTG
* *
4674325 ATAATGCACCCATATGCATTTCAGCTATGTCATCCTTTCATGGCAATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
* *
4674390 ATTATCTTATACTG
66 ATTCTTTTATACTG
*
4674404 ATAATG--CCCATATGTATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
4674467 ATTCTTTTATACTG
66 ATTCTTTTATACTG
4674481 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
*
4674546 GTTCTTTTATACTG
66 ATTCTTTTATACTG
4674560 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATA
1 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATA
4674608 TTCACACACA
Statistics
Matches: 263, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
77 72 0.27
79 191 0.73
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (79 bp):
ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
ATTCTTTTATACTG
Found at i:4674532 original size:45 final size:45
Alignment explanation
Indices: 4674481--4674607 Score: 150
Period size: 45 Copynumber: 3.1 Consensus size: 45
4674471 TTTTATACTG
4674481 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCA
* **
4674526 ATAATGCACCCATATGCA-TT--G-T-T--C-T--TTT-ATACTG
1 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCA
4674560 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCA
4674605 ATA
1 ATA
4674608 TTCACACACA
Statistics
Matches: 65, Mismatches: 6, Indels: 22
0.70 0.06 0.24
Matches are distributed among these distances:
34 21 0.32
35 5 0.08
37 2 0.03
38 2 0.03
39 1 0.02
40 1 0.02
41 2 0.03
42 2 0.03
44 5 0.08
45 24 0.37
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.34
Consensus pattern (45 bp):
ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCA
Found at i:4674538 original size:156 final size:157
Alignment explanation
Indices: 4674246--4674607 Score: 591
Period size: 156 Copynumber: 2.3 Consensus size: 157
4674236 TTTTCTGTTA
** * * *
4674246 ATAATGTACCCATACACATTTCAACTATGGCATCATTTCATGCTAATAACGCACCCATATGCATT
1 ATAATG-ACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAACGCACCCATATGCATT
* *
4674311 ATTCTTTTATACTGATAATGCACCCATATGCATTTCAGCTATGTCATCCTTTCATGGCAATAATG
65 ATTCTTTTATACTGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATG
4674376 CACCCATATGCATTATTATCTTATACTG
130 CACCCATATGCATTATTATCTTATACTG
* *
4674404 ATAATG-CCCATATGTATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTA
1 ATAATGACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAACGCACCCATATGCATTA
4674468 TTCTTTTATACTGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGC
66 TTCTTTTATACTGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGC
* * *
4674533 ACCCATATGCATTGTTCTTTTATACTG
131 ACCCATATGCATTATTATCTTATACTG
4674560 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATA
1 ATAATG-ACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATA
4674608 TTCACACACA
Statistics
Matches: 189, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
156 144 0.76
158 45 0.24
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (157 bp):
ATAATGACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAACGCACCCATATGCATTA
TTCTTTTATACTGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGC
ACCCATATGCATTATTATCTTATACTG
Found at i:4676344 original size:7 final size:7
Alignment explanation
Indices: 4676300--4676340 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
4676290 GTCAAAGGAA
4676300 GTCAACG
1 GTCAACG
4676307 GTCAACG
1 GTCAACG
4676314 GTCAACG
1 GTCAACG
*
4676321 GTCAATG
1 GTCAACG
*
4676328 GTCAACA
1 GTCAACG
4676335 GTCAAC
1 GTCAAC
4676341 AGTCGGGTCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.32, C:0.27, G:0.24, T:0.17
Consensus pattern (7 bp):
GTCAACG
Found at i:4676352 original size:5 final size:5
Alignment explanation
Indices: 4676342--4676404 Score: 67
Period size: 5 Copynumber: 12.6 Consensus size: 5
4676332 ACAGTCAACA
* * *
4676342 GTCGG GTCGG GTCAACG GTCGG GTCGG GTC-A GTCGG GTCGG GTCGG GTC-A
1 GTCGG GTCGG GTC--GG GTCGG GTCGG GTCGG GTCGG GTCGG GTCGG GTCGG
4676392 GTCGG GTCGG GTC
1 GTCGG GTCGG GTC
4676405 AGACCGGTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
4 6 0.12
5 38 0.79
7 4 0.08
ACGTcount: A:0.06, C:0.22, G:0.51, T:0.21
Consensus pattern (5 bp):
GTCGG
Found at i:4676378 original size:9 final size:9
Alignment explanation
Indices: 4676364--4676399 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
4676354 CAACGGTCGG
4676364 GTCGGGTCA
1 GTCGGGTCA
*
4676373 GTCGGGTCGG
1 GTCGGGTC-A
4676383 GTCGGGTCA
1 GTCGGGTCA
4676392 GTCGGGTC
1 GTCGGGTC
4676400 GGGTCAGACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.06, C:0.22, G:0.50, T:0.22
Consensus pattern (9 bp):
GTCGGGTCA
Found at i:4676382 original size:19 final size:19
Alignment explanation
Indices: 4676342--4676404 Score: 103
Period size: 19 Copynumber: 3.4 Consensus size: 19
4676332 ACAGTCAACA
*
4676342 GTCGGGTCGGGTCA-AC-G
1 GTCGGGTCGGGTCAGTCGG
4676359 GTCGGGTCGGGTCAGTCGG
1 GTCGGGTCGGGTCAGTCGG
4676378 GTCGGGTCGGGTCAGTCGG
1 GTCGGGTCGGGTCAGTCGG
4676397 GTCGGGTC
1 GTCGGGTC
4676405 AGACCGGTCA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
17 14 0.33
18 1 0.02
19 28 0.65
ACGTcount: A:0.06, C:0.22, G:0.51, T:0.21
Consensus pattern (19 bp):
GTCGGGTCGGGTCAGTCGG
Found at i:4676453 original size:19 final size:19
Alignment explanation
Indices: 4676407--4676520 Score: 88
Period size: 19 Copynumber: 5.9 Consensus size: 19
4676397 GTCGGGTCAG
4676407 ACCGGTCAAACCGG-TTTA
1 ACCGGTCAAACCGGTTTTA
* *
4676425 GACAGATCAAACCGGTTTTA
1 -ACCGGTCAAACCGGTTTTA
* * **
4676445 ACTGGTCAAATCGGTTCGA
1 ACCGGTCAAACCGGTTTTA
*
4676464 ACCGGTCAAAACCGGTCTT-
1 ACCGGTC-AAACCGGTTTTA
* **
4676483 ACCGGTCAGAATCGGTTGAAA
1 ACCGGTCA-AACCGGTT-TTA
4676504 ACCGGTCAAACCGGTTT
1 ACCGGTCAAACCGGTTT
4676521 CCAGCCCTCC
Statistics
Matches: 72, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
18 1 0.01
19 45 0.62
20 18 0.25
21 8 0.11
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.23
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTTTA
Found at i:4676496 original size:39 final size:38
Alignment explanation
Indices: 4676407--4676518 Score: 111
Period size: 38 Copynumber: 2.9 Consensus size: 38
4676397 GTCGGGTCAG
* * * * * *
4676407 ACCGGTCAAACCGGTTTAGACAGATCAAACCGGTTTTA
1 ACCGGTCAAATCGGTTGAAACCGGTCAAACCGGTCTTA
*
4676445 ACTGGTCAAATCGGTTCG-AACCGGTCAAAACCGGTCTT-
1 ACCGGTCAAATCGGTT-GAAACCGGTC-AAACCGGTCTTA
4676483 ACCGGTCAGAATCGGTTGAAAACCGGTCAAACCGGT
1 ACCGGTCA-AATCGGTTG-AAACCGGTCAAACCGGT
4676519 TTCCAGCCCT
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
38 27 0.44
39 26 0.43
40 8 0.13
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.21
Consensus pattern (38 bp):
ACCGGTCAAATCGGTTGAAACCGGTCAAACCGGTCTTA
Found at i:4677559 original size:22 final size:20
Alignment explanation
Indices: 4677521--4677572 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
4677511 GATGTTTCAT
*
4677521 GGTATCGATACTACCTTACTAA
1 GGTATCGATACCACCTTAC--A
*
4677543 GGTATCGATACCCCCTTACA
1 GGTATCGATACCACCTTACA
4677563 -GTATCGATAC
1 GGTATCGATAC
4677573 GAAAATTAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 10 0.36
20 1 0.04
22 17 0.61
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (20 bp):
GGTATCGATACCACCTTACA
Found at i:4677623 original size:21 final size:21
Alignment explanation
Indices: 4677597--4677672 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
4677587 ATGTTCTCTA
*
4677597 GTATCGATACCCGCCATATAG
1 GTATCGATACCCGTCATATAG
*
4677618 GTATCGATACCTCTTTCATAT-G
1 GTATCGATACC-C-GTCATATAG
* *
4677640 GTATCGATA-CTGTTCATACAG
1 GTATCGATACCCG-TCATATAG
4677661 GTATCGATACCC
1 GTATCGATACCC
4677673 CATGCAACAC
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
20 5 0.11
21 22 0.50
22 12 0.27
23 5 0.11
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (21 bp):
GTATCGATACCCGTCATATAG
Found at i:4679841 original size:2 final size:2
Alignment explanation
Indices: 4679834--4679858 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4679824 CTATAAAAGC
4679834 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4679859 CTTCTTGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4682212 original size:44 final size:45
Alignment explanation
Indices: 4682121--4682327 Score: 199
Period size: 45 Copynumber: 4.6 Consensus size: 45
4682111 ATCTTTTCTA
* * * **
4682121 TTGATAATGCACCTATATGCATTTCAATTAT-GATATACTTTTATG
1 TTGATAATGTACCCATATACATTTCAACCATAG-TATACTTTTATG
* *
4682166 TTGATAATGTA-CCATATAC-TTTGCAACCATTGTATACTTTTCTG
1 TTGATAATGTACCCATATACATTT-CAACCATAGTATACTTTTATG
* * **
4682210 TTGATAATGCACCCATATGCATTTCAACTC-TAACATA-TGTTTATG
1 TTGATAATGTACCCATATACATTTCAAC-CATAGTATACT-TTTATG
* * * *
4682255 TTGATAATGTACCCATATACATTTCAACTAAAGTATTCTTTTCTG
1 TTGATAATGTACCCATATACATTTCAACCATAGTATACTTTTATG
*
4682300 TTGATAATGTACCCATATACTTTTCAAC
1 TTGATAATGTACCCATATACATTTCAAC
4682328 TATGTCATCC
Statistics
Matches: 133, Mismatches: 21, Indels: 16
0.78 0.12 0.09
Matches are distributed among these distances:
43 3 0.02
44 33 0.25
45 92 0.69
46 5 0.04
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (45 bp):
TTGATAATGTACCCATATACATTTCAACCATAGTATACTTTTATG
Found at i:4682219 original size:89 final size:90
Alignment explanation
Indices: 4682113--4682331 Score: 282
Period size: 89 Copynumber: 2.4 Consensus size: 90
4682103 ACTATAACAT
* * * *
4682113 CTTTTCTATTGATAATGCACCTATATGCATTTCAATTATGATATACT-TTTATGTTGATAATGTA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATGACATA-TGTTTATGTTGATAATGTA
**
4682177 -CCATATAC-TTTGCAACCATTGTATA
65 CCCATATACATTT-CAACCAAAGTATA
* *
4682202 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAACATATGTTTATGTTGATAATGTAC
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATGACATATGTTTATGTTGATAATGTAC
* *
4682267 CCATATACATTTCAACTAAAGTATT
66 CCATATACATTTCAACCAAAGTATA
* * *
4682292 CTTTTCTGTTGATAATGTACCCATATACTTTTCAACTATG
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATG
4682332 TCATCCTTTC
Statistics
Matches: 112, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
88 1 0.01
89 56 0.50
90 52 0.46
91 3 0.03
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (90 bp):
CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATGACATATGTTTATGTTGATAATGTAC
CCATATACATTTCAACCAAAGTATA
Found at i:4682352 original size:45 final size:45
Alignment explanation
Indices: 4682258--4682367 Score: 116
Period size: 45 Copynumber: 2.4 Consensus size: 45
4682248 GTTTATGTTG
* ***
4682258 ATAATGTACCCATATACATTTCAACTAAAGTATTCTTTTCTGTTG
1 ATAATGTACCCATATACATTTCAACTAAAGTATTCCTTTCTGCCA
* *
4682303 ATAATGTACCCATATACTTTTCAACT-ATGTCA-TCCTTTCATGCCA
1 ATAATGTACCCATATACATTTCAACTAAAGT-ATTCCTTTC-TGCCA
* *
4682348 ATAATGCACCCATATGCATT
1 ATAATGTACCCATATACATT
4682368 ATTCTTTTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
44 9 0.17
45 45 0.83
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (45 bp):
ATAATGTACCCATATACATTTCAACTAAAGTATTCCTTTCTGCCA
Found at i:4682352 original size:90 final size:91
Alignment explanation
Indices: 4682113--4682367 Score: 214
Period size: 90 Copynumber: 2.8 Consensus size: 91
4682103 ACTATAACAT
* * * * * * * ***
4682113 CTTTTCTATTGATAATGCACCTATATGCATTTCAATTATGATATACT-TTTATGTTGATAATGTA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAACATA-TGTTCATGCCAATAATGTA
**
4682177 -CCATATAC-TTTGCAACCATTGTATA
65 CCCATATACATTTGCAACCAAAGTATA
* * * ***
4682202 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAACATATGTTTATGTTGATAATGTAC
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAACATATGTTCATGCCAATAATGTAC
* *
4682267 CCATATACATTT-CAACTAAAGTATT
66 CCATATACATTTGCAACCAAAGTATA
* * ** * *
4682292 CTTTTCTGTTGATAATGTACCCATATACTTTTCAACTATGTCATCCT-TTCATGCCAATAATGCA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAACAT-ATGTTCATGCCAATAATGTA
*
4682356 CCCATATGCATT
65 CCCATATACATT
4682368 ATTCTTTTAT
Statistics
Matches: 139, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
88 1 0.01
89 56 0.40
90 78 0.56
91 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (91 bp):
CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAACATATGTTCATGCCAATAATGTAC
CCATATACATTTGCAACCAAAGTATA
Found at i:4682420 original size:79 final size:79
Alignment explanation
Indices: 4682301--4682671 Score: 503
Period size: 79 Copynumber: 4.7 Consensus size: 79
4682291 TCTTTTCTGT
* * * *
4682301 TGATAATGTACCCATATACTTTTCAACTATGTCATCCTTTCATGCCAATAATGCACCCATATGCA
1 TGATAATGCACCCATATGCATTTCAGCTATGTCATCCTTTCATGCCAATAATGCACCCATATGCA
4682366 TTATTCTTTTATAC
66 TTATTCTTTTATAC
* * * *
4682380 TGATAATGCACACATATGCATTTCAGCTATGTCATTCTTTCATGCCAATAATACACCTATATGCA
1 TGATAATGCACCCATATGCATTTCAGCTATGTCATCCTTTCATGCCAATAATGCACCCATATGCA
* *
4682445 TTCTTCTTTAATAC
66 TTATTCTTTTATAC
* * * * *
4682459 TGATAATACACCCATATGCATTTCAGCTTTGGCATCCTTTCATGCCAATAATGAACCTATATGCA
1 TGATAATGCACCCATATGCATTTCAGCTATGTCATCCTTTCATGCCAATAATGCACCCATATGCA
4682524 TTATTCTTTTATAC
66 TTATTCTTTTATAC
* * * *
4682538 TGATAATGCACCCATATGCATTTTAGTTATGAT-ATCCTTTCATGCCATTAATGTACCCATATGC
1 TGATAATGCACCCATATGCATTTCAGCTATG-TCATCCTTTCATGCCAATAATGCACCCATATGC
4682602 ATTATTCTTTTATAC
65 ATTATTCTTTTATAC
* * * *
4682617 TGATAATGCACCCATATGCATTTCATCTAT-TGAATTCTTTCATGCTAATAATGCA
1 TGATAATGCACCCATATGCATTTCAGCTATGT-CATCCTTTCATGCCAATAATGCA
4682672 TACACATGCC
Statistics
Matches: 255, Mismatches: 34, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
77 1 0.00
79 254 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.39
Consensus pattern (79 bp):
TGATAATGCACCCATATGCATTTCAGCTATGTCATCCTTTCATGCCAATAATGCACCCATATGCA
TTATTCTTTTATAC
Found at i:4682555 original size:34 final size:34
Alignment explanation
Indices: 4682506--4682638 Score: 106
Period size: 34 Copynumber: 3.6 Consensus size: 34
4682496 TTTCATGCCA
* *
4682506 ATAATGAACCTATATGCATTATTCTTTTATACTG
1 ATAATGCACCCATATGCATTATTCTTTTATACTG
* *
4682540 ATAATGCACCCATATGCATT-TTAGTTATGATATCCTTTCATG
1 ATAATGCACCCATATGCATTATT-CTT-T--TA----TAC-TG
*
4682582 CCATTAATGTACCCATATGCATTATTCTTTTATACTG
1 --A-TAATGCACCCATATGCATTATTCTTTTATACTG
4682619 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
4682639 TCATCTATTG
Statistics
Matches: 78, Mismatches: 8, Indels: 26
0.70 0.07 0.23
Matches are distributed among these distances:
33 2 0.03
34 38 0.49
35 2 0.03
37 4 0.05
38 2 0.03
41 2 0.03
42 4 0.05
44 2 0.03
45 20 0.26
46 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.41
Consensus pattern (34 bp):
ATAATGCACCCATATGCATTATTCTTTTATACTG
Found at i:4686634 original size:19 final size:19
Alignment explanation
Indices: 4686596--4686635 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
4686586 TTAATAATTG
* *
4686596 AATCGAATATAATATTTTA
1 AATCGAATATAAAATCTTA
4686615 AATCGAATATAAAATCTTA
1 AATCGAATATAAAATCTTA
4686634 AA
1 AA
4686636 ATTACTTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (19 bp):
AATCGAATATAAAATCTTA
Found at i:4695139 original size:20 final size:20
Alignment explanation
Indices: 4695116--4695154 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4695106 TGATCAGTGT
*
4695116 AGTTCGAGTTGACTCAGACC
1 AGTTCGAGTTGACTAAGACC
4695136 AGTTCGAGTTGACTAAGAC
1 AGTTCGAGTTGACTAAGAC
4695155 TAATTCATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (20 bp):
AGTTCGAGTTGACTAAGACC
Found at i:4702034 original size:13 final size:13
Alignment explanation
Indices: 4702018--4702075 Score: 98
Period size: 13 Copynumber: 4.5 Consensus size: 13
4702008 CTCAATGAAT
4702018 GTCATAAATGTGC
1 GTCATAAATGTGC
*
4702031 GTCATAAATGTGT
1 GTCATAAATGTGC
*
4702044 GTCATAAATGTGT
1 GTCATAAATGTGC
4702057 GTCATAAATGTGC
1 GTCATAAATGTGC
4702070 GTCATA
1 GTCATA
4702076 GATTTATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.34
Consensus pattern (13 bp):
GTCATAAATGTGC
Found at i:4702040 original size:26 final size:26
Alignment explanation
Indices: 4702011--4702066 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
4702001 AATGACGCTC
4702011 AATGAATGTCATAAATGTGCGTCATA
1 AATGAATGTCATAAATGTGCGTCATA
** *
4702037 AATGTGTGTCATAAATGTGTGTCATA
1 AATGAATGTCATAAATGTGCGTCATA
4702063 AATG
1 AATG
4702067 TGCGTCATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (26 bp):
AATGAATGTCATAAATGTGCGTCATA
Found at i:4702058 original size:85 final size:85
Alignment explanation
Indices: 4701882--4702041 Score: 216
Period size: 85 Copynumber: 1.9 Consensus size: 85
4701872 ACGACACATG
* * * *
4701882 AATGTGTGTCATCTTTTTTAATGACGTGTGCTTCAATGACACGCAATGTAAGTCATACATGTGTG
1 AATGTGTGTCATCTTATTTAATGACGGGTGCTTCAATGACACGCAATGTAAGTCATAAATGTGCG
* *
4701947 TCATATATTTATGACACACA
66 TCATAAATGTATGACACACA
* *
4701967 AATGTGTGTCATCTTAATTT-ATGACGGGTGCTTCAATGACGCTCAATG-AATGTCATAAATGTG
1 AATGTGTGTCATCTT-ATTTAATGACGGGTGCTTCAATGACACGCAATGTAA-GTCATAAATGTG
4702030 CGTCATAAATGT
64 CGTCATAAATGT
4702042 GTGTCATAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
84 2 0.03
85 60 0.92
86 3 0.05
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (85 bp):
AATGTGTGTCATCTTATTTAATGACGGGTGCTTCAATGACACGCAATGTAAGTCATAAATGTGCG
TCATAAATGTATGACACACA
Found at i:4706177 original size:2 final size:2
Alignment explanation
Indices: 4706170--4706195 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4706160 ATACATTAAC
4706170 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
4706196 CAAGGGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4710127 original size:43 final size:43
Alignment explanation
Indices: 4710036--4710138 Score: 138
Period size: 43 Copynumber: 2.4 Consensus size: 43
4710026 CGTTTTTCGG
*
4710036 ATACAAACGTCGCAAAAGGTCTGGTATATAACAGTTTTATTGA
1 ATACAAACGCCGCAAAAGGTCTGGTATATAACAGTTTTATTGA
*
4710079 ATACAAACGCCGCAAAAGGTCTGGTATATAGCAGCATTTT-TTG-
1 ATACAAACGCCGCAAAAGGTCTGGTATATAACAG--TTTTATTGA
* *
4710122 TTACAAACACCGCAAAA
1 ATACAAACGCCGCAAAA
4710139 TATCTAAACT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
43 47 0.87
44 3 0.06
45 4 0.07
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.26
Consensus pattern (43 bp):
ATACAAACGCCGCAAAAGGTCTGGTATATAACAGTTTTATTGA
Found at i:4715956 original size:16 final size:17
Alignment explanation
Indices: 4715932--4715970 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
4715922 AGAAATAATC
*
4715932 ACTTCTAAATT-ATAAA
1 ACTTTTAAATTGATAAA
4715948 ACTTTTAAATTGATAAA
1 ACTTTTAAATTGATAAA
4715965 A-TTTTA
1 ACTTTTA
4715971 TGGGAGCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (17 bp):
ACTTTTAAATTGATAAA
Found at i:4719698 original size:20 final size:20
Alignment explanation
Indices: 4719670--4719708 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4719660 AATATAACAG
4719670 GTTTAAATTTAACAAAATCA
1 GTTTAAATTTAACAAAATCA
*
4719690 GTTTCAATTTAACAAAATC
1 GTTTAAATTTAACAAAATC
4719709 GATAAAGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.36
Consensus pattern (20 bp):
GTTTAAATTTAACAAAATCA
Found at i:4719914 original size:197 final size:197
Alignment explanation
Indices: 4719571--4720006 Score: 642
Period size: 197 Copynumber: 2.2 Consensus size: 197
4719561 TGTAGTGATA
* *
4719571 AAAGTATCGGTACTTTAGTAATTAAAAAGAATTACAATAATAATGGCTATAAAGTAGCGATACCT
1 AAAGTATCGGTACTTTAGGAATTTAAAAGAATTACAATAATAATGGCTATAAAGTAGCGATACCT
* *
4719636 TATACATATGTATCGATACATGACAATATAACAGGTTTAAATTTAACAAAATCAGTTTCAATTTA
66 TAGACACATGTATCGATACATGACAATATAACAGGTTTAAATTTAACAAAATCAGTTTCAATTTA
*
4719701 ACAAAATCGATAAAGAGCTACC-AAAATGGTTGAAATTTGTATCGATACTTGTATAAGTATATGT
131 ACAAAACCGATAAAGAGCTACCGAAAA-GGTTGAAATTTGTATCGATACTTGTATAAGTATATGT
4719765 ACC
195 ACC
** *
4719768 AAAGTATCGGTACTTTAGGAATTTAAAAGAATTACAATAATAATGGCTATAAAGTATTGATAGCT
1 AAAGTATCGGTACTTTAGGAATTTAAAAGAATTACAATAATAATGGCTATAAAGTAGCGATACCT
* * * **
4719833 TAGACACATGTATCGATACATGACAATATAACATGTTTTAGA-TTGACAAAATTGGTTTCAATTT
66 TAGACACATGTATCGATACATGACAATATAACA-GGTTTAAATTTAACAAAATCAGTTTCAATTT
* * * * * *
4719897 GACAAAACCGCTAAAGAGCTACCGGAAAGGTTGACATTTGTATCGATGCTTTTATAAGTATATGT
130 AACAAAACCGATAAAGAGCTACCGAAAAGGTTGAAATTTGTATCGATACTTGTATAAGTATATGT
4719962 ACC
195 ACC
* * *
4719965 AATGTATCAGTACTTTAGGAATTTAAAAGAATTGCAATAATA
1 AAAGTATCGGTACTTTAGGAATTTAAAAGAATTACAATAATA
4720007 GTGCCTATTT
Statistics
Matches: 215, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
197 206 0.96
198 9 0.04
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (197 bp):
AAAGTATCGGTACTTTAGGAATTTAAAAGAATTACAATAATAATGGCTATAAAGTAGCGATACCT
TAGACACATGTATCGATACATGACAATATAACAGGTTTAAATTTAACAAAATCAGTTTCAATTTA
ACAAAACCGATAAAGAGCTACCGAAAAGGTTGAAATTTGTATCGATACTTGTATAAGTATATGTA
CC
Found at i:4726207 original size:95 final size:95
Alignment explanation
Indices: 4726083--4726270 Score: 292
Period size: 95 Copynumber: 2.0 Consensus size: 95
4726073 ACCAATGAGA
* *
4726083 TAGTATCGATACCATGGTAAGGGTATCGATACCTA-GTAACATCGAA-TCTAAATTTGGTATCGA
1 TAGTATCGATACCATGGTAAGGGTATCGATACC-AGGAAACATCAAACT-TAAATTTGGTATCGA
4726146 TA-CTGGAAGGGGGTATCGGTACCATAGTATTG
64 TATC-GGAAGGGGGTATCGGTACCATAGTATTG
* *
4726178 TAGTATCGATACTATGGTAAGGGTATCGATACCAGGAAATATCAAACTTAAATTTGGTATCGATA
1 TAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCAAACTTAAATTTGGTATCGATA
4726243 TCGGAAGGGGGTATCGGTACCATAGTAT
66 TCGGAAGGGGGTATCGGTACCATAGTAT
4726271 AGAATTATCG
Statistics
Matches: 86, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
94 1 0.01
95 83 0.97
96 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (95 bp):
TAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCAAACTTAAATTTGGTATCGATA
TCGGAAGGGGGTATCGGTACCATAGTATTG
Found at i:4726280 original size:95 final size:95
Alignment explanation
Indices: 4726084--4726304 Score: 288
Period size: 95 Copynumber: 2.3 Consensus size: 95
4726074 CCAATGAGAT
* *
4726084 AGTATCGATACCATGGTAAGGGTATCGATACCTAGTAACATCGAATCTAAATTTGGTATCGATAC
1 AGTATCGATACCATGGTAAGGGTATCGATACCTAGAAACATCAAATCTAAATTTGGTATCGATAC
* *
4726149 TGGAAGGGGGTATCGGTACCATAGTATTGT
66 TGGAAGGGGGTATCGGTACCATAGTATAGA
* *
4726179 AGTATCGATACTATGGTAAGGGTATCGATACC-AGGAAATATCAAA-CTTAAATTTGGTATCGAT
1 AGTATCGATACCATGGTAAGGGTATCGATACCTA-GAAACATCAAATC-TAAATTTGGTATCGAT
4726242 A-TCGGAAGGGGGTATCGGTACCATAGTATAGA
64 ACT-GGAAGGGGGTATCGGTACCATAGTATAGA
* * * *
4726274 ATTATCGGTACCAGGGT-AGCAGTATCGATAC
1 AGTATCGATACCATGGTAAG-GGTATCGATAC
4726305 TATGGAGCTA
Statistics
Matches: 111, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
94 5 0.05
95 106 0.95
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (95 bp):
AGTATCGATACCATGGTAAGGGTATCGATACCTAGAAACATCAAATCTAAATTTGGTATCGATAC
TGGAAGGGGGTATCGGTACCATAGTATAGA
Found at i:4726701 original size:59 final size:59
Alignment explanation
Indices: 4726633--4726924 Score: 451
Period size: 59 Copynumber: 5.0 Consensus size: 59
4726623 ATGGCACTAA
* *
4726633 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATAAATTTCCGTATAGGGTACTTC
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
*
4726692 ATGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
* * * *
4726751 GTGTGCTAAAATGTTAATAAATTAATACTAAGTGTATGAATTTTCGTATAGGGTACTTC
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
* * * *
4726810 TTGTGCTAAAATGTTAAGAAATTCATATTAAGTTTATGAATTTCTGTATAGGGCACTTC
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
* * *
4726869 GTGTGCTAAAATG-TAAGAAATCCATACTAAGTGTATGAATTTCTGTATTGGGCACT
1 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACT
4726925 ATGTGTACAT
Statistics
Matches: 212, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
58 39 0.18
59 173 0.82
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (59 bp):
GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
Found at i:4727398 original size:45 final size:45
Alignment explanation
Indices: 4727334--4727424 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
4727324 GTATAACGAC
**
4727334 GTATAATAATGTATAAAAGGCTTGAAAGGATGCCATAAAT-GAAAT
1 GTATAATAATGTATAAAAGGAATGAAAGGATGCCA-AAATGGAAAT
* *
4727379 GTATAATAGTGTATAAAAGGAATGAAATGATGCCAAAATGGAAAT
1 GTATAATAATGTATAAAAGGAATGAAAGGATGCCAAAATGGAAAT
4727424 G
1 G
4727425 GCATAATGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 4 0.10
45 37 0.90
ACGTcount: A:0.47, C:0.05, G:0.22, T:0.25
Consensus pattern (45 bp):
GTATAATAATGTATAAAAGGAATGAAAGGATGCCAAAATGGAAAT
Found at i:4728854 original size:19 final size:22
Alignment explanation
Indices: 4728803--4728855 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 22
4728793 AAGTATGAAA
*
4728803 ATGTCCAAGTATTGATACTTCTT
1 ATGTCC-AGTATGGATACTTCTT
4728826 ATGTCC-GTATGGATAC-T-TT
1 ATGTCCAGTATGGATACTTCTT
4728845 AT-TCCAGTATG
1 ATGTCCAGTATG
4728856 CTTGTCAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 3 0.11
19 9 0.32
20 1 0.04
21 9 0.32
23 6 0.21
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (22 bp):
ATGTCCAGTATGGATACTTCTT
Done.