Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 11 of 203
Found at i:3788120 original size:34 final size:34
Alignment explanation
Indices: 3788079--3788147 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
3788069 AAAAGAGAAG
*
3788079 TCTGTGTGACAGGAGTATCTCGTTGCAGATCGTA
1 TCTGTGTGACAGGAGTATCTCGTTGCAGACCGTA
*
3788113 TCTGTGTGACAGGAGTATCTCTTTGCAGACCGTA
1 TCTGTGTGACAGGAGTATCTCGTTGCAGACCGTA
3788147 T
1 T
3788148 ATGAGAGCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (34 bp):
TCTGTGTGACAGGAGTATCTCGTTGCAGACCGTA
Found at i:3788130 original size:17 final size:17
Alignment explanation
Indices: 3788079--3788132 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
3788069 AAAAGAGAAG
3788079 TCTGTGTGACAGGAGTA
1 TCTGTGTGACAGGAGTA
3788096 TCTCGT-TG-CA-GATCGTA
1 TCT-GTGTGACAGGA--GTA
3788113 TCTGTGTGACAGGAGTA
1 TCTGTGTGACAGGAGTA
3788130 TCT
1 TCT
3788133 CTTTGCAGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
15 2 0.06
16 4 0.13
17 19 0.61
18 4 0.13
19 2 0.06
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (17 bp):
TCTGTGTGACAGGAGTA
Found at i:3794043 original size:149 final size:149
Alignment explanation
Indices: 3793890--3794182 Score: 523
Period size: 149 Copynumber: 2.0 Consensus size: 149
3793880 TTTTATATTG
3793890 TAGATAAACATTCTATTATTTTAATAAGATTTTATATTAAATTTAATCTAATATTTGTCTTGATA
1 TAGATAAACATTCTATTATTTTAATAAGATTTTATATTAAATTTAATCTAATATTTGTCTTGATA
** * *
3793955 AATATTATATTAATTTAATATTAAAGTGGTTAAGTTTAATCATAGTTGAGTTCTCTAAACTCTTC
66 AATATTATATTAATTTAATATTAAAGTAATTAAGTTTAATCATAGTTGAGCTCTCTAAACTCTCC
*
3794020 CTATATAAATAGAGCCTTA
131 CTATATAAAGAGAGCCTTA
*
3794039 TAGATAAACATTCTATTATTTTAATAAGATTTTATATTAAATTTAATCTAATCTTTGTCTTGATA
1 TAGATAAACATTCTATTATTTTAATAAGATTTTATATTAAATTTAATCTAATATTTGTCTTGATA
*
3794104 AATATTATATTAATTTAATATTAAAGTAATTAAGTTTAATCATAGTTGAGCTCTTTAAACTCTCC
66 AATATTATATTAATTTAATATTAAAGTAATTAAGTTTAATCATAGTTGAGCTCTCTAAACTCTCC
3794169 CTATATAAAGAGAG
131 CTATATAAAGAGAG
3794183 TCTTGAGTCA
Statistics
Matches: 137, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
149 137 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (149 bp):
TAGATAAACATTCTATTATTTTAATAAGATTTTATATTAAATTTAATCTAATATTTGTCTTGATA
AATATTATATTAATTTAATATTAAAGTAATTAAGTTTAATCATAGTTGAGCTCTCTAAACTCTCC
CTATATAAAGAGAGCCTTA
Found at i:3797863 original size:20 final size:20
Alignment explanation
Indices: 3797835--3797893 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
3797825 AATCATTTAT
* *
3797835 AAATGATTTTAACTTGATTG
1 AAATCATTTTAACTTGATTA
* *
3797855 AAATCATTTTGACTTGGTTA
1 AAATCATTTTAACTTGATTA
**
3797875 AAATCATTTGCACTTGATT
1 AAATCATTTTAACTTGATT
3797894 TTAAAATTGT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (20 bp):
AAATCATTTTAACTTGATTA
Found at i:3798128 original size:16 final size:16
Alignment explanation
Indices: 3798107--3798137 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3798097 AGGGTTGAAA
*
3798107 AAATTATTTAATTAAG
1 AAATTAATTAATTAAG
3798123 AAATTAATTAATTAA
1 AAATTAATTAATTAA
3798138 TTTTAATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AAATTAATTAATTAAG
Found at i:3806004 original size:24 final size:24
Alignment explanation
Indices: 3805972--3806025 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
3805962 TCCATATTTA
* *
3805972 AATGCTTGTCCAAA-TTGTAGAATT
1 AATGTTTGTCAAAATTTGTA-AATT
*
3805996 AATGTTTGTCAAAATTTGTATATT
1 AATGTTTGTCAAAATTTGTAAATT
3806020 AATGTT
1 AATGTT
3806026 GTCTGATTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (24 bp):
AATGTTTGTCAAAATTTGTAAATT
Found at i:3806143 original size:130 final size:130
Alignment explanation
Indices: 3805964--3806223 Score: 511
Period size: 130 Copynumber: 2.0 Consensus size: 130
3805954 TATGTTTTTC
*
3805964 CATATTTAAATGCTTGTCCAAATTGTAGAATTAATGTTTGTCAAAATTTGTATATTAATGTTGTC
1 CATATTTAAATGCTTGCCCAAATTGTAGAATTAATGTTTGTCAAAATTTGTATATTAATGTTGTC
3806029 TGATTTCTAACGTTTAAATTGATTGAGCATTTGATGTATACATGCTACTTATTTTTAATGGTTAA
66 TGATTTCTAACGTTTAAATTGATTGAGCATTTGATGTATACATGCTACTTATTTTTAATGGTTAA
3806094 CATATTTAAATGCTTGCCCAAATTGTAGAATTAATGTTTGTCAAAATTTGTATATTAATGTTGTC
1 CATATTTAAATGCTTGCCCAAATTGTAGAATTAATGTTTGTCAAAATTTGTATATTAATGTTGTC
3806159 TGATTTCTAACGTTTAAATTGATTGAGCATTTGATGTATACATGCTACTTATTTTTAATGGTTAA
66 TGATTTCTAACGTTTAAATTGATTGAGCATTTGATGTATACATGCTACTTATTTTTAATGGTTAA
3806224 GATGTCCAAA
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 129 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.45
Consensus pattern (130 bp):
CATATTTAAATGCTTGCCCAAATTGTAGAATTAATGTTTGTCAAAATTTGTATATTAATGTTGTC
TGATTTCTAACGTTTAAATTGATTGAGCATTTGATGTATACATGCTACTTATTTTTAATGGTTAA
Found at i:3807547 original size:42 final size:42
Alignment explanation
Indices: 3807496--3807740 Score: 404
Period size: 42 Copynumber: 5.8 Consensus size: 42
3807486 GTTTACAAAC
* *
3807496 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
3807538 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
*
3807580 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-AA
3807622 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* *
3807664 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA-A
*
3807706 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
3807741 TTTTTTTTCT
Statistics
Matches: 192, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
41 4 0.02
42 185 0.96
43 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
Found at i:3807644 original size:126 final size:126
Alignment explanation
Indices: 3807496--3807827 Score: 443
Period size: 126 Copynumber: 2.6 Consensus size: 126
3807486 GTTTACAAAC
* *
3807496 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
3807561 TCTTTAGCGGCGCTT-AGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTAA
66 TCTTTAGCGGCGCTTAAG-AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTAA
*
3807622 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
** * **
3807687 TCTTTAGCGGCGCTTAAGGGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTT
66 TCTTTAGCGGCGCTTAAGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG-TTTGTAA
** * * * * **** * *
3807749 CTAATCGCCGCTAAAGAACATGTTCTTTAGTGGC-ATTTTTTACAAACGCCGCAAAAGAACATGT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
*
3807813 TCTTTAGTGGCGCTT
66 TCTTTAGCGGCGCTT
3807828 TTATACAAAA
Statistics
Matches: 183, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
126 148 0.81
127 35 0.19
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (126 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
TCTTTAGCGGCGCTTAAGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTAA
Found at i:3807796 original size:84 final size:82
Alignment explanation
Indices: 3807496--3807827 Score: 369
Period size: 84 Copynumber: 4.0 Consensus size: 82
3807486 GTTTACAAAC
* * * **
3807496 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC-ATT-TTAAAAAACGCCGCTAAAGATCATGT
3807561 TCTTTAGCGGCGCTTAGAA
64 TCTTTAGCGGCGCTTAGAA
* *
3807580 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTAAAAAAACGCCGCTAAAGATCATGT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCATTT-T-AAAAAACGCCGCTAAAGATCATGT
3807645 TCTTTAGCGGCGCTTAGAA
64 TCTTTAGCGGCGCTTAGAA
**
3807664 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGC-GCTTAAGGGAAAACGCCGCTAAAGATCATG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCATTTTAA---AAAACGCCGCTAAAGATCATG
* ****
3807728 TTCTTTAGCGGCGTTTTTTTT
63 TTCTTTAGCGGCG-CTTAGAA
** * * * * * *
3807749 CTAATCGCCGCTAAAGAACATGTTCTTTAGTGGCATTTTTTACAAACGCCGCAAAAGAACATGTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCA-TTTTAAAAAACGCCGCTAAAGATCATGTT
*
3807814 CTTTAGTGGCGCTT
65 CTTTAGCGGCGCTT
3807828 TTATACAAAA
Statistics
Matches: 215, Mismatches: 25, Indels: 17
0.84 0.10 0.07
Matches are distributed among these distances:
81 2 0.01
82 1 0.00
83 5 0.02
84 172 0.80
85 32 0.15
87 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (82 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCATTTTAAAAAACGCCGCTAAAGATCATGTTC
TTTAGCGGCGCTTAGAA
Found at i:3807918 original size:14 final size:14
Alignment explanation
Indices: 3807895--3807928 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
3807885 GCCCTCCTGT
*
3807895 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
3807909 AGCAACATTTCAAA
1 AGCAACATTTCAAA
3807923 AGCAAC
1 AGCAAC
3807929 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:3808220 original size:21 final size:21
Alignment explanation
Indices: 3808152--3808222 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
3808142 TTTTGCTCTG
* *
3808152 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
3808173 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
3808194 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
3808215 CTCTGCTT
1 CTCTGCTT
3808223 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:3813721 original size:11 final size:9
Alignment explanation
Indices: 3813673--3814036 Score: 74
Period size: 7 Copynumber: 42.0 Consensus size: 9
3813663 AATTGCAATG
3813673 GTAAGTTAT
1 GTAAGTTAT
3813682 GTAAGTTAT
1 GTAAGTTAT
3813691 GTAAGTTAAAT
1 GTAAGTT--AT
3813702 GT-A-TTAT
1 GTAAGTTAT
3813709 GTAAGTTAAAT
1 GTAAGTT--AT
3813720 GTAAG-T-T
1 GTAAGTTAT
3813727 GTAAGTTAT
1 GTAAGTTAT
*
3813736 -TATGTATTAT
1 GTAAG--TTAT
3813746 GTAAG-T-T
1 GTAAGTTAT
3813753 GTAAGTTAAAT
1 GTAAGTT--AT
*
3813764 GT-A-TTGT
1 GTAAGTTAT
3813771 GTAAG-T-T
1 GTAAGTTAT
*
3813778 GCAAGTTAAAT
1 GTAAGTT--AT
3813789 GT-A-TTAT
1 GTAAGTTAT
3813796 GTAAG-T-T
1 GTAAGTTAT
3813803 GTAAGTTAT
1 GTAAGTTAT
*
3813812 -TATGTATTAT
1 GTAAG--TTAT
3813822 GTAAG-T-T
1 GTAAGTTAT
3813829 GTAAGTTAT
1 GTAAGTTAT
*
3813838 -TATGTATTAT
1 GTAAG--TTAT
3813848 GTAAG-T-T
1 GTAAGTTAT
3813855 GTAAGTTAT
1 GTAAGTTAT
*
3813864 -TATGTATTAT
1 GTAAG--TTAT
3813874 GTAAG-T-T
1 GTAAGTTAT
3813881 GTAAGTTAT
1 GTAAGTTAT
* *
3813890 -TATGTATTGT
1 GTAAG--TTAT
3813900 GTAAG-T-T
1 GTAAGTTAT
3813907 GTAAGTTAAAT
1 GTAAGTT--AT
3813918 GT-A-TTAT
1 GTAAGTTAT
* *
3813925 GTCAGTCAAAT
1 GTAAGT--TAT
3813936 GT-A-TTAT
1 GTAAGTTAT
3813943 GTAAG-T-T
1 GTAAGTTAT
3813950 GTAAGTTAAAT
1 GTAAGTT--AT
3813961 GT-A-TTAT
1 GTAAGTTAT
3813968 GTAAG-T-T
1 GTAAGTTAT
3813975 GTAAGTTAT
1 GTAAGTTAT
*
3813984 -TATGTATTAT
1 GTAAG--TTAT
*
3813994 GTAAGTAAT
1 GTAAGTTAT
3814003 GTAAGTTAAAT
1 GTAAGTT--AT
3814014 GT-A-TTAT
1 GTAAGTTAT
3814021 GTAAG-T-T
1 GTAAGTTAT
3814028 GTAAGTTAT
1 GTAAGTTAT
3814037 TATGTATTAT
Statistics
Matches: 265, Mismatches: 20, Indels: 140
0.62 0.05 0.33
Matches are distributed among these distances:
7 92 0.35
8 46 0.17
9 48 0.18
10 31 0.12
11 48 0.18
ACGTcount: A:0.34, C:0.01, G:0.20, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:3813752 original size:26 final size:26
Alignment explanation
Indices: 3813718--3814046 Score: 459
Period size: 26 Copynumber: 13.1 Consensus size: 26
3813708 TGTAAGTTAA
3813718 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
3813744 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* * *
3813769 GTGTAAGTTGCAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
3813794 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
3813820 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
3813846 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
3813872 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
3813898 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
3813923 ATGTCA---GTCA---A--ATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
3813941 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
3813966 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
3813992 ATGTAAGTAATGTAAGTTA-AATGTATT
1 ATGTAAGT--TGTAAGTTATTATGTATT
3814019 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
3814045 AT
1 AT
3814047 TTAATAAAAT
Statistics
Matches: 275, Mismatches: 16, Indels: 24
0.87 0.05 0.08
Matches are distributed among these distances:
18 12 0.04
19 1 0.00
21 3 0.01
22 3 0.01
24 1 0.00
25 89 0.32
26 142 0.52
27 15 0.05
28 9 0.03
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.47
Consensus pattern (26 bp):
ATGTAAGTTGTAAGTTATTATGTATT
Found at i:3813946 original size:147 final size:151
Alignment explanation
Indices: 3813718--3814046 Score: 526
Period size: 147 Copynumber: 2.2 Consensus size: 151
3813708 TGTAAGTTAA
3813718 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTGTGTAAGTTGCAAG
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTA-T-TGTAAGTTGCAAG
* *
3813783 TTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTAT
64 TCAAATGTATTATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATTAT
*
3813848 GTAAGT-TGTAAGTTATTATGTATT
128 GTAAGTATGTAAGTTA-AATGTATT
* *
3813872 ATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAAGTTAAATGTA-T-TATG-T-C-AGTC
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTGTAAGTTGCAAGTC
3813932 AAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTA
66 AAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTA
3813997 AGTAATGTAAGTTAAATGTATT
131 AGT-ATGTAAGTTAAATGTATT
3814019 ATGTAAGTTGTAAGTTATTATGTATTAT
1 ATGTAAGTTGTAAGTTATTATGTATTAT
3814047 TTAATAAAAT
Statistics
Matches: 167, Mismatches: 6, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
146 41 0.25
147 63 0.38
148 10 0.06
149 1 0.01
150 3 0.02
151 1 0.01
154 48 0.29
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.47
Consensus pattern (151 bp):
ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTGTAAGTTGCAAGTC
AAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTA
AGTATGTAAGTTAAATGTATT
Found at i:3814039 original size:19 final size:19
Alignment explanation
Indices: 3813816--3814042 Score: 93
Period size: 19 Copynumber: 12.5 Consensus size: 19
3813806 AGTTATTATG
3813816 TATTATGTAAGTTGTAAGT
1 TATTATGTAAGTTGTAAGT
*
3813835 TATTATGT-ATTATGTAAG-
1 TATTATGTAAGT-TGTAAGT
* *
3813853 ---T-TGTAAGTTATTA-T
1 TATTATGTAAGTTGTAAGT
3813867 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
3813887 TATTATGT-A-TTGT--GT
1 TATTATGTAAGTTGTAAGT
* * *
3813902 AAGT-TGTAAG-T-TAAAT
1 TATTATGTAAGTTGTAAGT
* * *
3813918 GTATTATGTCAG-T-CAAAT
1 -TATTATGTAAGTTGTAAGT
3813936 GTATTATGTAAGTTGTAAGTTAAAT
1 -TATTATGTAAGTTGTAAG-----T
3813961 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
*
3813981 TATTATGT-ATTATGTAAG-
1 TATTATGTAAGT-TGTAAGT
*
3813999 TA--ATGTAAG-T-TAAAT
1 TATTATGTAAGTTGTAAGT
3814014 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
3814034 TATTATGTA
1 TATTATGTA
3814043 TTATTTAATA
Statistics
Matches: 158, Mismatches: 20, Indels: 60
0.66 0.08 0.25
Matches are distributed among these distances:
14 13 0.08
15 10 0.06
16 7 0.04
17 7 0.04
18 36 0.23
19 57 0.36
20 8 0.05
25 20 0.13
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (19 bp):
TATTATGTAAGTTGTAAGT
Found at i:3814240 original size:74 final size:74
Alignment explanation
Indices: 3814083--3814230 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
3814073 ACATTACTAA
3814083 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
3814148 TATTTTTTT
66 TATTTTTTT
3814157 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
3814222 TATTTTTTT
66 TATTTTTTT
3814231 ATATTTTATT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (74 bp):
TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
TATTTTTTT
Found at i:3814398 original size:13 final size:13
Alignment explanation
Indices: 3814380--3814450 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
3814370 ATTTATAATT
3814380 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
3814393 ATTTAAGTAACAT
1 ATTTAAGTAATAA
3814406 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
3814419 ATTTAAGTAACAT
1 ATTTAAGTAATAA
3814432 ATTTAAGTAATAA
1 ATTTAAGTAATAA
3814445 ATTTAA
1 ATTTAA
3814451 ACAAATTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAAGTAATAA
Found at i:3814409 original size:26 final size:26
Alignment explanation
Indices: 3814379--3814450 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
3814369 TATTTATAAT
3814379 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
3814405 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
3814431 TATTTAAGTAATAAATTTAA
1 TATTTAAGTAATAAATTTAA
3814451 ACAAATTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (26 bp):
TATTTAAGTAATAAATTTAAGTAACA
Found at i:3814477 original size:17 final size:17
Alignment explanation
Indices: 3814455--3814814 Score: 207
Period size: 17 Copynumber: 20.6 Consensus size: 17
3814445 ATTTAAACAA
3814455 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
3814472 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
3814489 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
3814506 AAACAAATTTTAGTAAGTAATGT
1 ------ATTTTAGTAAGTAATGT
* * *
3814529 ATTTAAGTAATTAAT-A
1 ATTTTAGTAAGTAATGT
* *
3814545 AATTTA--AA-CAA---
1 ATTTTAGTAAGTAATGT
3814556 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
3814573 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
3814590 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
3814607 AAACAAATTTTAGTAAGTAATGT
1 ------ATTTTAGTAAGTAATGT
* * *
3814630 ATTTAAGTAATTAAT-A
1 ATTTTAGTAAGTAATGT
* *
3814646 AATTTA--AA-CAA---
1 ATTTTAGTAAGTAATGT
3814657 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
3814674 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
3814691 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
*
3814708 AAACAAATTTAAGTAAGTAATGT
1 ------ATTTTAGTAAGTAATGT
3814731 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
3814748 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
3814765 AAACAAATTTTAGTAAGTAATGT
1 ------ATTTTAGTAAGTAATGT
3814788 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
3814805 ATTTTAGTAA
1 ATTTTAGTAA
3814815 TAAATTTAAC
Statistics
Matches: 273, Mismatches: 26, Indels: 88
0.71 0.07 0.23
Matches are distributed among these distances:
11 10 0.04
13 8 0.03
14 8 0.03
16 12 0.04
17 176 0.64
23 55 0.20
24 4 0.01
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (17 bp):
ATTTTAGTAAGTAATGT
Found at i:3814501 original size:57 final size:57
Alignment explanation
Indices: 3814422--3814823 Score: 500
Period size: 57 Copynumber: 7.5 Consensus size: 57
3814412 GTAATAAATT
** *
3814422 TAAGTAACATATTTAAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
3814479 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTA--TT--
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
* * *
3814532 TAAGTAAT-TA----A-T-A-AATTTAAACA-AATTTT-AGTAAGTAATGTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAA-ACAAATTTTAGTAAGTAATGTATTTTAG
3814580 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTA--TT--
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
* * *
3814633 TAAGTAAT-TA----A-T-A-AATTTAAACA-AATTTT-AGTAAGTAATGTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAA-ACAAATTTTAGTAAGTAATGTATTTTAG
*
3814681 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTAAGTAAGTAATGTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
3814738 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
3814795 TAAGTAATGTATTTTAGTAATAAATTTAA
1 TAAGTAATGTATTTTAGTAATAAATTTAA
3814824 CATTCAATCG
Statistics
Matches: 299, Mismatches: 16, Indels: 60
0.80 0.04 0.16
Matches are distributed among these distances:
44 26 0.09
45 22 0.07
46 8 0.03
47 2 0.01
48 18 0.06
49 4 0.01
52 4 0.01
53 18 0.06
54 2 0.01
55 8 0.03
56 22 0.07
57 165 0.55
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (57 bp):
TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
Found at i:3814525 original size:44 final size:44
Alignment explanation
Indices: 3814472--3814688 Score: 217
Period size: 44 Copynumber: 4.7 Consensus size: 44
3814462 TAAGTAATGT
*
3814472 ATTTTAGTAAGTAATGTAT-T---TTAGTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATGTAAGTAAGTAATAAATTTAAACAA
* *
3814512 ATTTTAGTAAGTAATGTATTTAAGTAATTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATGTAAGTAAGTAATAAATTTAAACAA
*
3814556 ATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTA---T-GTAAGTAA-GTA----A-T-A-AATT-TAAACAA
* *
3814613 ATTTTAGTAAGTAATGTATTTAAGTAATTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATGTAAGTAAGTAATAAATTTAAACAA
* *
3814657 ATTTTAGTAAGTAATGTATTTTAGTAAGTAAT
1 ATTTTAGTAAGTAATGTATGTAAGTAAGTAAT
3814689 GTATTTTAGT
Statistics
Matches: 150, Mismatches: 10, Indels: 30
0.79 0.05 0.16
Matches are distributed among these distances:
40 19 0.13
41 1 0.01
44 73 0.49
45 3 0.02
46 1 0.01
47 2 0.01
48 8 0.05
49 2 0.01
52 2 0.01
53 8 0.05
54 2 0.01
55 1 0.01
56 3 0.02
57 25 0.17
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (44 bp):
ATTTTAGTAAGTAATGTATGTAAGTAAGTAATAAATTTAAACAA
Found at i:3814558 original size:101 final size:101
Alignment explanation
Indices: 3814439--3814823 Score: 644
Period size: 101 Copynumber: 3.7 Consensus size: 101
3814429 CATATTTAAG
3814439 TAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAAT
1 TAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAAT
3814504 TTAAACAAATTTTAGTAAGTAATGTATTTAAGTAAT
66 TTAAACAAATTTTAGTAAGTAATGTATTTAAGTAAT
3814540 TAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAAT
1 TAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAAT
3814605 TTAAACAAATTTTAGTAAGTAATGTATTTAAGTAAT
66 TTAAACAAATTTTAGTAAGTAATGTATTTAAGTAAT
3814641 TAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAAT
1 TAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAAT
*
3814706 TTAAACAAATTTAAGTAAGTAATGTATTTTAGTAAGTAATGTATTTT
66 TTAAACAAATTTTAGTAAGTAATGTA--TT--TAAGT-A---A---T
3814753 AGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAA
1 --TAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAA
3814818 ATTTAA
64 ATTTAA
3814824 CATTCAATCG
Statistics
Matches: 270, Mismatches: 1, Indels: 13
0.95 0.00 0.05
Matches are distributed among these distances:
101 191 0.71
103 2 0.01
105 5 0.02
106 1 0.00
109 1 0.00
112 1 0.00
114 69 0.26
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (101 bp):
TAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAAT
TTAAACAAATTTTAGTAAGTAATGTATTTAAGTAAT
Found at i:3814620 original size:40 final size:40
Alignment explanation
Indices: 3814573--3814797 Score: 199
Period size: 40 Copynumber: 5.7 Consensus size: 40
3814563 TAAGTAATGT
3814573 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
*
3814613 ATTTTAGTAAGTAATGTATTTAAGTAATTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTT---T-AGTAATAAATTTAAACAA
*
3814657 ATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAA
1 ATTTTAGTAAGTAATGTATTTTAGTAA-TAA---A-TTTA--AACAA
* * *
3814704 A-TTTA--AA-CAA---ATTTAAGTAAGT-AATGT------
1 ATTTTAGTAAGTAATGTATTTTAGTAA-TAAATTTAAACAA
3814731 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
3814771 ATTTTAGTAAGTAATGTATTTTAGTAA
1 ATTTTAGTAAGTAATGTATTTTAGTAA
3814798 GTAATGTATT
Statistics
Matches: 151, Mismatches: 9, Indels: 50
0.72 0.04 0.24
Matches are distributed among these distances:
27 1 0.01
28 4 0.03
30 2 0.01
31 2 0.01
33 1 0.01
34 13 0.09
35 2 0.01
36 1 0.01
39 1 0.01
40 63 0.42
41 4 0.03
43 3 0.02
44 41 0.27
45 4 0.03
46 4 0.03
47 5 0.03
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.43
Consensus pattern (40 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
Found at i:3816173 original size:11 final size:11
Alignment explanation
Indices: 3816157--3816196 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
3816147 GATGATAATA
3816157 CATTAGTTACC
1 CATTAGTTACC
3816168 CATTAGTTACC
1 CATTAGTTACC
*
3816179 CACTAGTTACC
1 CATTAGTTACC
3816190 CA-TAGTT
1 CATTAGTT
3816197 TGAGATATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 5 0.18
11 23 0.82
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (11 bp):
CATTAGTTACC
Found at i:3817493 original size:85 final size:85
Alignment explanation
Indices: 3817396--3817596 Score: 343
Period size: 84 Copynumber: 2.4 Consensus size: 85
3817386 ATTAACACCG
*
3817396 TTTTGTGGCGTTTTTGGTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTT
1 TTTTGTGGCGTTTTTAGTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTT
3817461 TCGTGGTCTGGAATTGCATT
66 TCGTGGTCTGGAATTGCATT
3817481 TTTTGTGGCGTTTTTAG-AAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTT
1 TTTTGTGGCGTTTTTAGTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTT
3817545 TCGTGGTCTGGAATTGCATT
66 TCGTGGTCTGGAATTGCATT
* * **
3817565 ATTTGTGGC-ATTTTCCTAAAAACGCCACTAAA
1 TTTTGTGGCGTTTTTAGTAAAAACGCCACTAAA
3817597 AGTTTAACTA
Statistics
Matches: 110, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
83 4 0.04
84 90 0.82
85 16 0.15
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (85 bp):
TTTTGTGGCGTTTTTAGTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTT
TCGTGGTCTGGAATTGCATT
Found at i:3819515 original size:112 final size:112
Alignment explanation
Indices: 3819270--3820083 Score: 1416
Period size: 112 Copynumber: 7.3 Consensus size: 112
3819260 AACACCTAGA
* *
3819270 TTAGCGGCGCTTTACAAAAAACGCCACTAA-TGCCCCCCCAAAGGACACAAAACGGCACCGTCTG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGT-CCCCCCCAAAGGCCACAAAACGGCACCGTCTG
* * * * * ** *
3819334 GGAGTATTATTTGCGGCATTTTTTTATAAGCGCTGCTAATGTTCACTCT
65 GGTGTATTATTTGCGGC-GTTATCTATAAACGCCACTAATGCTCACTCT
3819383 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
* *
3819448 GTGTATTATTTGCGGCGTTATTTATAAACGCCACTAATGCTTACTCT
66 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
3819495 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
* *
3819560 GTGTATTATGTGCGGCGTTATCTATGAACGCCACTAATGCTCACTCT
66 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
*
3819607 TTAGCGGCGCTTTACAATAAACGCCACTAAGT-CCCCCCAAAGGCCACAAAACGGCACCGTTTGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
*
3819671 GTGTATTACTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
66 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
*
3819718 TTAGCGACGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
*
3819783 GTGTATTATTTGCGGCGTTATTTATAAACGCCACTAATGCTCACTCT
66 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
3819830 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
3819895 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
66 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
3819942 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
3820007 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
66 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
* *
3820054 TTAGCGGCGCTTTACATTAAACGCCGCTAA
1 TTAGCGGCGCTTTACAATAAACGCCACTAA
3820084 TGCTCACTCT
Statistics
Matches: 673, Mismatches: 26, Indels: 5
0.96 0.04 0.01
Matches are distributed among these distances:
111 106 0.16
112 490 0.73
113 76 0.11
114 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (112 bp):
TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
Found at i:3820076 original size:40 final size:40
Alignment explanation
Indices: 3820031--3820106 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
3820021 GCGTTATCTA
3820031 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTACAT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTACAT
*
3820071 TAAACGCCGCTAATGCTCACTCTTTAGCGGCGCTTT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTT
3820107 TGCTCCAAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.30
Consensus pattern (40 bp):
TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTACAT
Found at i:3828213 original size:13 final size:14
Alignment explanation
Indices: 3828190--3828218 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
3828180 AAGTACAAAA
3828190 CAAAAAGGAAAATC
1 CAAAAAGGAAAATC
3828204 CAAAAA-GAAAATC
1 CAAAAAGGAAAATC
3828217 CA
1 CA
3828219 TACGAGTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.66, C:0.17, G:0.10, T:0.07
Consensus pattern (14 bp):
CAAAAAGGAAAATC
Found at i:3835545 original size:19 final size:19
Alignment explanation
Indices: 3835503--3835550 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
3835493 AAATTCTTTT
*
3835503 TATAAATATAATATTTGAA
1 TATAAATATAATATTTAAA
*
3835522 TATAAATATATTA-TTAAA
1 TATAAATATAATATTTAAA
3835540 TA-ATAATATAA
1 TATA-AATATAA
3835551 CACGTGACGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 1 0.04
18 12 0.48
19 12 0.48
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
TATAAATATAATATTTAAA
Found at i:3840278 original size:19 final size:20
Alignment explanation
Indices: 3840240--3840285 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
3840230 AATTGTATAG
*
3840240 AAATAATATAAACAATAAAT
1 AAATAAAATAAACAATAAAT
*
3840260 AAATAAAATTAAC-ATAAAT
1 AAATAAAATAAACAATAAAT
*
3840279 AGATAAA
1 AAATAAA
3840286 CGCGGACATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (20 bp):
AAATAAAATAAACAATAAAT
Found at i:3840752 original size:18 final size:18
Alignment explanation
Indices: 3840729--3840774 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
3840719 AAAATATGCG
**
3840729 TATATATATGGAAATAAA
1 TATATATATAAAAATAAA
*
3840747 TATATACATAAAAATAAA
1 TATATATATAAAAATAAA
*
3840765 TATACATATA
1 TATATATATA
3840775 TATATAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (18 bp):
TATATATATAAAAATAAA
Found at i:3849512 original size:19 final size:20
Alignment explanation
Indices: 3849474--3849519 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
3849464 AATTGTGTAG
*
3849474 AAATAATATAAACAATAAAT
1 AAATAAAATAAACAATAAAT
*
3849494 AAATAAAATTAAC-ATAAAT
1 AAATAAAATAAACAATAAAT
*
3849513 AGATAAA
1 AAATAAA
3849520 CGCGGACATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (20 bp):
AAATAAAATAAACAATAAAT
Found at i:3849986 original size:18 final size:18
Alignment explanation
Indices: 3849963--3850008 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
3849953 AAAATATGCG
**
3849963 TATATATATGGAAATAAA
1 TATATATATAAAAATAAA
*
3849981 TATATACATAAAAATAAA
1 TATATATATAAAAATAAA
*
3849999 TATACATATA
1 TATATATATA
3850009 TATATAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (18 bp):
TATATATATAAAAATAAA
Found at i:3852045 original size:44 final size:43
Alignment explanation
Indices: 3851995--3852116 Score: 158
Period size: 44 Copynumber: 2.8 Consensus size: 43
3851985 ATCTGCTATT
**
3851995 TTCAACCTACCCCACTGTTGCTCAGGGAGATAGGA-TTCACAATC
1 TTCAACCTATTCCACTGTTGC-CAGGGAGATAGGACTT-ACAATC
*
3852039 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGTTG-CCAGGGAGATAGGACTTACAATC
3852083 TTCAACCTATTCCACTGCTAT-CCAGGGAGATAGG
1 TTCAACCTATTCCACTG-T-TGCCAGGGAGATAGG
3852117 GCTAGGGCCA
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
44 66 0.94
45 3 0.04
46 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (43 bp):
TTCAACCTATTCCACTGTTGCCAGGGAGATAGGACTTACAATC
Found at i:3852341 original size:88 final size:88
Alignment explanation
Indices: 3852127--3852341 Score: 342
Period size: 88 Copynumber: 2.4 Consensus size: 88
3852117 GCTAGGGCCA
* *
3852127 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTACTATTTTTAACCTGCTTCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
3852192 CTAGGAAGGCAAGGCTGGTGTCT
66 CCAGGAAGGCAAGGCTGGTGTCT
* *
3852215 TCGATCTGCTTTGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
3852280 CCAGGGAGGCAAGG-TCGGTGTCT
66 CCAGGAAGGCAAGGCT-GGTGTCT
* *
3852303 TCGATCTACTTCGCTGTCGGTGCAGAAAGGCAAGATCTG
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
3852342 TTATCTTCAC
Statistics
Matches: 116, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
87 1 0.01
88 115 0.99
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
CCAGGAAGGCAAGGCTGGTGTCT
Found at i:3853588 original size:25 final size:25
Alignment explanation
Indices: 3853541--3853588 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
3853531 TCACCGTGGC
* *
3853541 CTCTCTATTTTCTTTCTTCTTTTCT
1 CTCTCTATTTTCTTTCATATTTTCT
* *
3853566 CTCTCTCTTTTTTTTCATATTTT
1 CTCTCTATTTTCTTTCATATTTT
3853589 GAAATATTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (25 bp):
CTCTCTATTTTCTTTCATATTTTCT
Found at i:3854573 original size:25 final size:25
Alignment explanation
Indices: 3854522--3854591 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 25
3854512 AAGAAAATCC
* **
3854522 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAAT-ATTAGCTCA
*
3854548 AAAAGAATGAAAAAATATTGGCTCA
1 AAAAGAATGAAAAAATATTAGCTCA
* *
3854573 AAAATGAATGCAAAGATAT
1 AAAA-GAATGAAAAAATAT
3854592 ATTTTATTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
25 10 0.27
26 27 0.73
ACGTcount: A:0.57, C:0.06, G:0.14, T:0.23
Consensus pattern (25 bp):
AAAAGAATGAAAAAATATTAGCTCA
Found at i:3858296 original size:15 final size:16
Alignment explanation
Indices: 3858269--3858298 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3858259 AATTGTATAG
3858269 AAATAATATAAACAAT
1 AAATAATATAAACAAT
3858285 AAATAA-ATAAACAA
1 AAATAATATAAACAA
3858299 ATTAACATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (16 bp):
AAATAATATAAACAAT
Found at i:3859283 original size:13 final size:13
Alignment explanation
Indices: 3859265--3859297 Score: 52
Period size: 11 Copynumber: 2.7 Consensus size: 13
3859255 TTTTCATCTT
3859265 TTCAAAAAAAAAC
1 TTCAAAAAAAAAC
3859278 TTC--AAAAAAAC
1 TTCAAAAAAAAAC
3859289 TTCAAAAAA
1 TTCAAAAAA
3859298 GCTCTCCCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
11 11 0.61
13 7 0.39
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.18
Consensus pattern (13 bp):
TTCAAAAAAAAAC
Found at i:3859284 original size:11 final size:11
Alignment explanation
Indices: 3859270--3859297 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
3859260 ATCTTTTCAA
3859270 AAAAAAACTTC
1 AAAAAAACTTC
3859281 AAAAAAACTTC
1 AAAAAAACTTC
3859292 AAAAAA
1 AAAAAA
3859298 GCTCTCCCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAAACTTC
Found at i:3863649 original size:35 final size:36
Alignment explanation
Indices: 3863586--3863654 Score: 113
Period size: 35 Copynumber: 1.9 Consensus size: 36
3863576 TGTGAAAGAG
*
3863586 AATATGTGGGCATGTTATTCATGCCATGTGACAACA
1 AATATGTGGGCATGTTATTCATACCATGTGACAACA
*
3863622 AATATGTGGGTATGTT-TTCATACCATGTGACAA
1 AATATGTGGGCATGTTATTCATACCATGTGACAA
3863655 TGATTATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 16 0.52
36 15 0.48
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (36 bp):
AATATGTGGGCATGTTATTCATACCATGTGACAACA
Found at i:3876649 original size:587 final size:574
Alignment explanation
Indices: 3875378--3876699 Score: 1565
Period size: 577 Copynumber: 2.3 Consensus size: 574
3875368 TCTCCCAACC
* * *
3875378 TCGTCTTGCCTATGATAACTTCCTAGGGTTGTCAAGCCTAGTAGTTTAAGCATACATAATGCATA
1 TCGTCTTGCCTATGATAACTTCCTAGGGTTGTCAAGCTTAGGA-TTTAAGCATACATAATTCATA
* * * *
3875443 CTAACTAATCCCTTTCAAGAAACCTTAAATCCTCTATTAATCATATTCCCATCCACTCATTAATC
65 CTAACTAATCCCTCTCAGGAAACCCTAAATCCTCTATTAATCACATTCCCATCCACTCATTAATC
* * * *
3875508 TCCCCTAAGAGATTTAGCCACTCATATTATTCATAATCTCTTTCTCGATTGAATAAATTAGGTGA
130 T-CCCTAAGGGATTTAGCCACTCATGTTATTCACAATCTCTTTCTCGATTGAATAAATCAGGTGA
* ** * *
3875573 AGAAAACGATCAATTCAAAAGAGAAAAGAGAATGGATAATTGTGGATTTGATCGCGAAGTGCAAT
194 AGAAAACAATCAATTCAAAAGAGAAAAGAGAATGGATAATAATAGATTGGATCGCGAAGTGCAAT
* * * * * * **
3875638 CAACACCTCTTTTCCCCTAACAACCACGATAGAGATCGTCTCGCCGCCCTGCTAGTGATTCTCCC
259 CAACACCTCTTTGCCCCTAACAACCACAAGAGAGATCATCTCACCACCCTGCTAGCAATTCTCCC
* **
3875703 TAACTTTCAGGAAGGCATAGGATTCATAAACTACTAGGTCAACCGCCAGTTCGGTCGGGAAATTT
324 TAACTTTCAGGAAGGCATAGGATTCATAAACTACTACGTCAACCGCCAGTTCGGTCGCAAAATTT
* * ** *
3875768 GTTCCAATGATGGAACTGTACCAACTCCCATATTTCATCGTAAGCAGTCATGGTGGGATCGAACC
389 GATCCAATAATGGAACTGTACCAACTCCCATATTTCATCGTAAAAAGTCATGGTGGGATCAAACC
* * * *
3875833 CCATGTTCTTGTATAAATGATCGTCTACTCATTTAAACAAAAAACCGTTCGACTTTCTTATTATG
454 CCA-GTTCTTATATAAATGATCGTCCACTCATTTAAACAAAAAACAGTTCGACTTTCGTATTATG
* * ** * * *
3875898 GAAGCGATTGGTATTGATATTACTCAATGCTTGAGTGGATCGTTGTTGTTTTCATGG
518 GAAGCGATTAGCATCAAGATTAATCAATGCTTGAGTGGATAGTTGTTGTTTTCATGG
* * * * * * *
3875955 TCATCTTACCTATAATAAATTCCTAGGGTTGTCAAGCTTAGTGGTTTAAGCATTCGTAATTCATA
1 TCGTCTTGCCTATGATAACTTCCTAGGGTTGTCAAGCTTAG-GATTTAAGCATACATAATTCATA
** * *
3876020 CTAACTAATCCCTCTTGGGAAACCCTAAATCCTCTGTTAATCACATTCTCATCCACTCATTAATC
65 CTAACTAATCCCTCTCAGGAAACCCTAAATCCTCTATTAATCACATTCCCATCCACTCATTAATC
*
3876085 TCCTCTAAGGGATTTAGCCACTCATGTTATTCACGATCTCTTTCTCGATTGAATAAATCAGGTGA
130 TCC-CTAAGGGATTTAGCCACTCATGTTATTCACAATCTCTTTCTCGATTGAATAAATCAGGTGA
** * *
3876150 AGAAAACAATCGGTTCAGAAGAGAAAAGAGAATGGAATAATAATAGATTGGATCGCGAGGTGCAA
194 AGAAAACAATCAATTCAAAAGAGAAAAGAGAATGG-ATAATAATAGATTGGATCGCGAAGTGCAA
* ** *
3876215 TCGACACCTCTTTGCCCCTAACAACCACAAGAGAGATCATCTCACCACGTTGCTAGCAATTCTTC
258 TCAACACCTCTTTGCCCCTAACAACCACAAGAGAGATCATCTCACCACCCTGCTAGCAATTCTCC
* * * * *
3876280 TTATCTTTCTA-GAAGGCGTAGGATTCGTAAACTACTACGTCAACTGCCAGTTCAGTTGAGGTTG
323 CTAACTTTC-AGGAAGGCATAGGATTCATAAACTACTACGTCAACCGCCAGTTC------GG-T-
* *
3876344 CGCAAAATTTGATCCAATAATGGAACTGTACCAACTCTCATATTTCATGGTAAAAAGTCATGGTG
379 CGCAAAATTTGATCCAATAATGGAACTGTACCAACTCCCATATTTCATCGTAAAAAGTCATGGTG
* * **
3876409 GGATCAAACCCACA-TTCTTATATAAATGGTTGTCCACTCATTTGTTAAA-AAAAAA-AGTTTTT
444 GGATCAAACCC-CAGTTCTTATATAAATGATCGTCCACTCA--T-TTAAACAAAAAACAG-TTCG
* ***
3876471 ACTTTCGTATTATGGAAGTGATTAGCATCAAGATTAATTGGTGCTTGAGTGGATAGTTGTTGTTT
504 ACTTTCGTATTATGGAAGCGATTAGCATCAAGATTAATCAATGCTTGAGTGGATAGTTGTTGTTT
**
3876536 TTGTGG
569 TCATGG
* * * *
3876542 TCGTATTGCTTATGGTAACTTCTTAGGGTTGTCAAGCTTAGCGATTTAAGCATACATAATTCATA
1 TCGTCTTGCCTATGATAACTTCCTAGGGTTGTCAAGCTTAG-GATTTAAGCATACATAATTCATA
* * * * * * **
3876607 CTAACTAATCTCACTCAGGAAACCCTAAATACTCCATTAATCACATCCCCATCCATTTGTTAATC
65 CTAACTAATCCCTCTCAGGAAACCCTAAATCCTCTATTAATCACATTCCCATCCACTCATTAATC
*
3876672 TCCCTTAAGCGG-CTTAGCCACTCATGTT
130 TCCC-TAAG-GGATTTAGCCACTCATGTT
3876700 GTAGAGCCCA
Statistics
Matches: 621, Mismatches: 105, Indels: 28
0.82 0.14 0.04
Matches are distributed among these distances:
576 2 0.00
577 199 0.32
578 122 0.20
579 1 0.00
584 2 0.00
585 23 0.04
586 69 0.11
587 196 0.32
588 7 0.01
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (574 bp):
TCGTCTTGCCTATGATAACTTCCTAGGGTTGTCAAGCTTAGGATTTAAGCATACATAATTCATAC
TAACTAATCCCTCTCAGGAAACCCTAAATCCTCTATTAATCACATTCCCATCCACTCATTAATCT
CCCTAAGGGATTTAGCCACTCATGTTATTCACAATCTCTTTCTCGATTGAATAAATCAGGTGAAG
AAAACAATCAATTCAAAAGAGAAAAGAGAATGGATAATAATAGATTGGATCGCGAAGTGCAATCA
ACACCTCTTTGCCCCTAACAACCACAAGAGAGATCATCTCACCACCCTGCTAGCAATTCTCCCTA
ACTTTCAGGAAGGCATAGGATTCATAAACTACTACGTCAACCGCCAGTTCGGTCGCAAAATTTGA
TCCAATAATGGAACTGTACCAACTCCCATATTTCATCGTAAAAAGTCATGGTGGGATCAAACCCC
AGTTCTTATATAAATGATCGTCCACTCATTTAAACAAAAAACAGTTCGACTTTCGTATTATGGAA
GCGATTAGCATCAAGATTAATCAATGCTTGAGTGGATAGTTGTTGTTTTCATGG
Found at i:3877895 original size:28 final size:26
Alignment explanation
Indices: 3877848--3877908 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 26
3877838 TTTACGTACA
*
3877848 TATATATACCTATATACATACATTTTTT
1 TATATATACATATATACAT--ATTTTTT
* * *
3877876 TGTATATACATATTTTCATATTTTTT
1 TATATATACATATATACATATTTTTT
3877902 TATATAT
1 TATATAT
3877909 TTAACAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 13 0.46
28 15 0.54
ACGTcount: A:0.33, C:0.10, G:0.02, T:0.56
Consensus pattern (26 bp):
TATATATACATATATACATATTTTTT
Found at i:3879608 original size:24 final size:23
Alignment explanation
Indices: 3879567--3879616 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
3879557 GGGATGGAAG
* *
3879567 ATATTTATTTATGTAATATTGAT
1 ATATTTATGTATGTAATATTAAT
*
3879590 ATATTATATGTATTTAATATTAAT
1 ATATT-TATGTATGTAATATTAAT
3879614 ATA
1 ATA
3879617 AAATTTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (23 bp):
ATATTTATGTATGTAATATTAAT
Found at i:3879927 original size:31 final size:31
Alignment explanation
Indices: 3879865--3879929 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
3879855 TATAACGTGA
* *
3879865 GTGCTTAAATTGTAATTTTTTTTAATTTTAG
1 GTGCTTAAAATGTAATTTTTTTTAATGTTAG
3879896 GTGCTTAAAATG-AGATTTTTTTT-ATAGTTAG
1 GTGCTTAAAATGTA-ATTTTTTTTAAT-GTTAG
3879927 GTG
1 GTG
3879930 AGTACCTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 3 0.10
31 27 0.90
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.52
Consensus pattern (31 bp):
GTGCTTAAAATGTAATTTTTTTTAATGTTAG
Found at i:3882323 original size:19 final size:17
Alignment explanation
Indices: 3882286--3882329 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 17
3882276 TATATTCCGG
*
3882286 AATTAAAAATTAAGCTT
1 AATTAAAAATTAAGATT
3882303 AATTAAGAAAGTTAAGATT
1 AATTAA-AAA-TTAAGATT
3882322 AATTAAAA
1 AATTAAAA
3882330 CTAAAACATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 6 0.25
18 5 0.21
19 13 0.54
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (17 bp):
AATTAAAAATTAAGATT
Found at i:3886293 original size:23 final size:24
Alignment explanation
Indices: 3886267--3886320 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
3886257 TTTGATAAAG
*
3886267 AAATAATAA-AATATTG-AGTAATT
1 AAATAATAATAAAATTGAAGTAA-T
*
3886290 AAATAA-AATAAAATTGAATTAAT
1 AAATAATAATAAAATTGAAGTAAT
3886313 AAATAATA
1 AAATAATA
3886321 TTATTAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 2 0.08
23 19 0.73
24 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (24 bp):
AAATAATAATAAAATTGAAGTAAT
Found at i:3889476 original size:16 final size:16
Alignment explanation
Indices: 3889455--3889522 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
3889445 TTTGGTTCGC
3889455 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
3889471 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
3889487 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
3889503 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
3889519 TGTA
1 TGTA
3889523 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:3889778 original size:16 final size:16
Alignment explanation
Indices: 3889738--3889792 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
3889728 TTAATCATAT
*
3889738 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
3889754 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
3889769 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
3889787 -TAAAAT
1 TTAAAAT
3889793 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:3889785 original size:18 final size:17
Alignment explanation
Indices: 3889758--3889792 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3889748 TTTTTATTAA
*
3889758 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
3889776 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
3889793 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:3889905 original size:18 final size:17
Alignment explanation
Indices: 3889878--3889912 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3889868 TTACTATTAA
*
3889878 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
3889896 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
3889913 TCTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:3889958 original size:61 final size:60
Alignment explanation
Indices: 3889773--3889963 Score: 155
Period size: 61 Copynumber: 3.2 Consensus size: 60
3889763 TTTTAATTAA
* *
3889773 AATATATAATTTAATAAAATTCTTAATAATT-AATATTCTTATATTAATTTACTGAAATCAT
1 AATATATAATTTAATAAAATTCTTAAT-ATTAAATATTCTTATATAAATTTTCT-AAATCAT
* * * * * *
3889834 AATATATGATACT-GTAAAA-T-ATAA-ATTAACATAATTAC-TAT-TAAATATATT-TTAATTA
1 AATATATAAT-TTAATAAAATTCTTAATATTAA-AT-ATT-CTTATATAAAT-T-TTCTAAATCA
*
3889892 A
60 T
*
3889893 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTTCT-AAATCAT
3889954 AATATATAAT
1 AATATATAAT
3889964 ACTATGAAAT
Statistics
Matches: 98, Mismatches: 17, Indels: 30
0.68 0.12 0.21
Matches are distributed among these distances:
57 3 0.03
58 2 0.02
59 30 0.31
60 18 0.18
61 39 0.40
62 6 0.06
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTTCTAAATCAT
Found at i:3890041 original size:120 final size:120
Alignment explanation
Indices: 3889736--3890019 Score: 446
Period size: 120 Copynumber: 2.4 Consensus size: 120
3889726 ATTTAATCAT
*
3889736 ATTTAAACATAATTTTTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAAT-
* * * *
3889801 ATT-AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATA
64 ATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
* *
3889857 AATTAACATAATTACTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
* *
3889922 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATGAAATATA
66 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
*
3889977 ATTTAACATAATTATTATTAAATATAATTTAA-TAAAATATATA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATA
3890020 TTTTCAATTA
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
119 14 0.09
120 133 0.89
121 3 0.02
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
Found at i:3894826 original size:22 final size:22
Alignment explanation
Indices: 3894801--3894851 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
3894791 TAAAGAACCG
3894801 AAATATAATTTT-ACTATATATT
1 AAATATAATTTTCACTATATA-T
* *
3894823 AAAT-TAAATTTTCATTATTTAT
1 AAATAT-AATTTTCACTATATAT
3894845 AAATATA
1 AAATATA
3894852 TTACATTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
21 1 0.04
22 16 0.67
23 7 0.29
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATATAATTTTCACTATATAT
Found at i:3894976 original size:11 final size:11
Alignment explanation
Indices: 3894956--3895033 Score: 76
Period size: 11 Copynumber: 7.4 Consensus size: 11
3894946 TTTAAATTAA
3894956 AAAAATTATTTT
1 AAAAA-TATTTT
3894968 AAAAATATTTT
1 AAAAATATTTT
3894979 --AAA-A--TT
1 AAAAATATTTT
* * *
3894985 AAAAAAAATTA
1 AAAAATATTTT
3894996 AAAAAGTATTTT
1 AAAAA-TATTTT
3895008 AAAAATATTTT
1 AAAAATATTTT
3895019 AAAAATATTTT
1 AAAAATATTTT
3895030 AAAA
1 AAAA
3895034 TTAAAAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
6 2 0.04
8 4 0.07
9 4 0.07
11 33 0.59
12 13 0.23
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:3895019 original size:51 final size:53
Alignment explanation
Indices: 3894956--3895077 Score: 194
Period size: 51 Copynumber: 2.3 Consensus size: 53
3894946 TTTAAATTAA
3894956 AAAAATTATTTTAAAAATATTTTAAAATTAAAAAAAA-TT-AAAAAAGTATTTT
1 AAAAA-TATTTTAAAAATATTTTAAAATTAAAAAAAATTTAAAAAAAGTATTTT
3895008 AAAAATATTTTAAAAATATTTTAAAATTAAAAAAAATTTAAAAAAAAAGTATTTT
1 AAAAATATTTTAAAAATATTTTAAAATTAAAAAAAATTT--AAAAAAAGTATTTT
*
3895063 AAAAGTATTTTAAAA
1 AAAAATATTTTAAAA
3895078 TTAAAAAATA
Statistics
Matches: 65, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
51 31 0.48
52 7 0.11
55 27 0.42
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (53 bp):
AAAAATATTTTAAAAATATTTTAAAATTAAAAAAAATTTAAAAAAAGTATTTT
Found at i:3895040 original size:40 final size:39
Alignment explanation
Indices: 3894938--3895086 Score: 113
Period size: 40 Copynumber: 3.6 Consensus size: 39
3894928 GGGCCTGGGC
* *
3894938 AAAAAT-TTTTTAAATTAAAAAAATTATTTTAAAAATATTTT
1 AAAAATATTTTAAAATT-AAAAAA-T-TTATAAAAATATTTT
* *** *
3894979 AAAATTA-AAAAAAATTAAAAAAGTATTTTAAAAATATTTT
1 AAAAATATTTTAAAATTAAAAAA-T-TTATAAAAATATTTT
*
3895019 AAAAATATTTTAAAATTAAAAAAAATTTAAAAAAAAAGTATTTT
1 AAAAATATTTTAAAATT--AAAAAATTT--ATAAAAA-TATTTT
*
3895063 AAAAGTATTTTAAAATTAAAAAAT
1 AAAAATATTTTAAAATTAAAAAAT
3895087 AAAAATATTT
Statistics
Matches: 88, Mismatches: 13, Indels: 13
0.77 0.11 0.11
Matches are distributed among these distances:
40 29 0.33
41 18 0.20
42 8 0.09
43 11 0.12
44 22 0.25
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (39 bp):
AAAAATATTTTAAAATTAAAAAATTTATAAAAATATTTT
Found at i:3895066 original size:11 final size:11
Alignment explanation
Indices: 3895052--3895077 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3895042 AATTTAAAAA
3895052 AAAAGTATTTT
1 AAAAGTATTTT
3895063 AAAAGTATTTT
1 AAAAGTATTTT
3895074 AAAA
1 AAAA
3895078 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:3899931 original size:22 final size:22
Alignment explanation
Indices: 3899885--3899931 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
3899875 ACATATATGA
** *
3899885 GATAATCTTGTTTAATGTATTG
1 GATAATCTTGTTTAATACATGG
3899907 GATAATCTTGTTTAATACATGG
1 GATAATCTTGTTTAATACATGG
3899929 GAT
1 GAT
3899932 GATTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.30, C:0.06, G:0.19, T:0.45
Consensus pattern (22 bp):
GATAATCTTGTTTAATACATGG
Found at i:3904047 original size:144 final size:146
Alignment explanation
Indices: 3903773--3904185 Score: 383
Period size: 153 Copynumber: 2.8 Consensus size: 146
3903763 ATCGTTACAA
* * * * * *
3903773 TTGTTGAATATGTTCTACGCACGATATAAAGAAGTTGTGTTATTATGTATGGTTGTCATTGTAA-
1 TTGTTGAATATGTTCTACGTATGATATAAA-AAGTTCTATTTTTAT-TATGGTTGCCATTG-AAG
* * * * * *
3903837 TAAAGTTAGTGTTACTTTTGTTGGATTATTTCTTACTAAGAATTGTTGAAATTGCTAG-AAT-TA
63 T-AAGTTAGTATTAATTTTATTGGATTCTTTTTTATTAAGAATTGTTGAAATTGCTAGAAATATA
3903900 TTATG-A-TATTATTGTT-T
127 TTATGTAGTATTATTGTTAT
* * *
3903917 TTGTTGAATATGTTCTACGTATGGTATGAAAAAGATCTATTTTTATATATGGTTGCCATTGCAGT
1 TTGTTGAATATGTTCTACGTATGATAT-AAAAAGTTCTATTTTTAT-TATGGTTGCCATTGAAGT
* *
3903982 AAGTTGGTATTAATTTTATTGGATTCTTTTTTATTAAAAATTGTTGAAATTG-TACGTTAAA-AT
64 AAGTTAGTATTAATTTTATTGGATTCTTTTTTATTAAGAATTGTTGAAATTGCTA-G--AAATA-
*
3904045 TATTATGTTAGTATTTTTGTTACAT
125 TATTATG-TAGTATTATTGTT--AT
* * * ** *
3904070 TTGTTGAATATGCTCTACATATGTTATTAGCAAGTTCTATTTTTATTCATGGTTGCCATTAAAGT
1 TTGTTGAATATGTTCTACGTATGATA-TAAAAAGTTCTATTTTTATT-ATGGTTGCCATTGAAGT
* * *
3904135 AAGCTAGTATTAATTTTATTGAATTCTCTTTTTATTAAGAATTATTGAAAT
64 AAGTTAGTATTAATTTTATTGGATTCT-TTTTTATTAAGAATTGTTGAAAT
3904186 CGTTAAAATT
Statistics
Matches: 220, Mismatches: 32, Indels: 24
0.80 0.12 0.09
Matches are distributed among these distances:
142 2 0.01
143 46 0.21
144 49 0.22
145 3 0.01
146 2 0.01
147 7 0.03
149 1 0.00
150 9 0.04
152 1 0.00
153 78 0.35
154 22 0.10
ACGTcount: A:0.29, C:0.07, G:0.16, T:0.47
Consensus pattern (146 bp):
TTGTTGAATATGTTCTACGTATGATATAAAAAGTTCTATTTTTATTATGGTTGCCATTGAAGTAA
GTTAGTATTAATTTTATTGGATTCTTTTTTATTAAGAATTGTTGAAATTGCTAGAAATATATTAT
GTAGTATTATTGTTAT
Found at i:3914570 original size:25 final size:24
Alignment explanation
Indices: 3914500--3914571 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 24
3914490 ATGAGTTGTG
* *
3914500 AATTGGTATGCTCACTCGAGCTAA
1 AATTCGTATGCTCACACGAGCTAA
** *
3914524 AGA-TCGGTATGCTTTCATGAGCTATA
1 A-ATTC-GTATGCTCACACGAGCTA-A
3914550 AATTCGTATGCTCACACGAGCT
1 AATTCGTATGCTCACACGAGCT
3914572 GTGAGTCGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
24 2 0.06
25 30 0.83
26 4 0.11
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (24 bp):
AATTCGTATGCTCACACGAGCTAA
Found at i:3918978 original size:28 final size:28
Alignment explanation
Indices: 3918936--3918996 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
3918926 CTATTCAGTA
*
3918936 ACAGT-ACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
*
3918963 ACAGTAACAATGTGGGCCTTAGCTCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
3918991 ACAGTA
1 ACAGTA
3918997 TCAGTACCGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 5 0.16
28 26 0.84
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:3919133 original size:26 final size:26
Alignment explanation
Indices: 3919104--3919157 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
3919094 AACACACCAA
*
3919104 TATCGCAG-GAAAGCTGCCAGTAATAG
1 TATCGCAGTG-AAGCTGCCAGTAACAG
*
3919130 TATCGCAGTGAAGCTGTCAGTAACAG
1 TATCGCAGTGAAGCTGCCAGTAACAG
3919156 TA
1 TA
3919158 AATGTGGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (26 bp):
TATCGCAGTGAAGCTGCCAGTAACAG
Found at i:3923392 original size:23 final size:24
Alignment explanation
Indices: 3923353--3923397 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
3923343 TCAGTTCTTG
3923353 AATACACCAAGATACCG-TCTATA
1 AATACACCAAGATACCGATCTATA
*
3923376 AATACCACCACGA-ACCGATCTA
1 AATA-CACCAAGATACCGATCTA
3923398 GGTAGGGCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.42, C:0.31, G:0.09, T:0.18
Consensus pattern (24 bp):
AATACACCAAGATACCGATCTATA
Found at i:3926864 original size:27 final size:27
Alignment explanation
Indices: 3926744--3926864 Score: 145
Period size: 27 Copynumber: 4.5 Consensus size: 27
3926734 ATTCATCTCC
** *
3926744 TAGGGGTATTTTAGTCATTTTACCTTA
1 TAGGGGTATTTCGGTCATTTTACCCTA
* *** *
3926771 TAGTGGTATTTAAATCATTTTACTCTA
1 TAGGGGTATTTCGGTCATTTTACCCTA
3926798 T-GAGGGTATTTCGGTCATTTTACCCTA
1 TAG-GGGTATTTCGGTCATTTTACCCTA
3926825 TAGGGGTATTTCGGTCATTTTACCCTA
1 TAGGGGTATTTCGGTCATTTTACCCTA
*
3926852 TGGGGGTATTTCG
1 TAGGGGTATTTCG
3926865 ATAATTTATT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 79 0.98
28 1 0.01
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.44
Consensus pattern (27 bp):
TAGGGGTATTTCGGTCATTTTACCCTA
Found at i:3927780 original size:19 final size:19
Alignment explanation
Indices: 3927753--3927792 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
3927743 AAGAGAGAGA
*
3927753 AGGGTAATATTCGAAAAAT
1 AGGGCAATATTCGAAAAAT
3927772 AGGGCAATATTCGAAAAAT
1 AGGGCAATATTCGAAAAAT
3927791 AG
1 AG
3927793 TTGATCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.47, C:0.07, G:0.23, T:0.23
Consensus pattern (19 bp):
AGGGCAATATTCGAAAAAT
Found at i:3932618 original size:12 final size:12
Alignment explanation
Indices: 3932601--3932625 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3932591 TCAACTACAC
3932601 TCATTTTATTAG
1 TCATTTTATTAG
3932613 TCATTTTATTAG
1 TCATTTTATTAG
3932625 T
1 T
3932626 TTCTTCAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
TCATTTTATTAG
Found at i:3937002 original size:20 final size:21
Alignment explanation
Indices: 3936977--3937015 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
3936967 CATAAAATTA
3936977 ATTTTTCT-AAATA-TATTTTT
1 ATTTTT-TGAAATATTATTTTT
3936997 ATTTTTTGAAATATTATTT
1 ATTTTTTGAAATATTATTT
3937016 ACTGATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 11 0.65
21 5 0.29
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (21 bp):
ATTTTTTGAAATATTATTTTT
Found at i:3937471 original size:27 final size:27
Alignment explanation
Indices: 3937441--3937499 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
3937431 TTAAGAGTGC
*
3937441 GCCACAAAGGCG-TTCTTTACGGAGTTT
1 GCCACAAAGGCGTTTC-TGACGGAGTTT
**
3937468 GCCATGAAGGCGTTTCTGACGGAGTTT
1 GCCACAAAGGCGTTTCTGACGGAGTTT
3937495 GCCAC
1 GCCAC
3937500 TAAGACATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 24 0.89
28 3 0.11
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (27 bp):
GCCACAAAGGCGTTTCTGACGGAGTTT
Found at i:3937510 original size:27 final size:27
Alignment explanation
Indices: 3937459--3937511 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
3937449 GGCGTTCTTT
* *
3937459 ACGGAGTTTGCCATGAAGGCGTTTCTG
1 ACGGAGTTTGCCATGAAGACATTTCTG
3937486 ACGGAGTTTGCCACT-AAGACATTTCT
1 ACGGAGTTTGCCA-TGAAGACATTTCT
3937512 TTCATATTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (27 bp):
ACGGAGTTTGCCATGAAGACATTTCTG
Found at i:3937538 original size:26 final size:26
Alignment explanation
Indices: 3937507--3937618 Score: 152
Period size: 26 Copynumber: 4.3 Consensus size: 26
3937497 CACTAAGACA
*
3937507 TTTCTTTCATATTTCGCCACAAAGGC
1 TTTCTTTCATATTACGCCACAAAGGC
** *
3937533 TTTCTTTCATATTACTTCACAAAGGT
1 TTTCTTTCATATTACGCCACAAAGGC
* *
3937559 TTTCTTTCATATTATGCCACAAAAGC
1 TTTCTTTCATATTACGCCACAAAGGC
* *
3937585 TTTCTTTCATATTACGCCATAAAGAC
1 TTTCTTTCATATTACGCCACAAAGGC
3937611 TTTCTTTC
1 TTTCTTTC
3937619 CTAACGTGTT
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.43
Consensus pattern (26 bp):
TTTCTTTCATATTACGCCACAAAGGC
Found at i:3941116 original size:36 final size:36
Alignment explanation
Indices: 3941064--3941135 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
3941054 TGATTCCCTA
* *
3941064 CAAAAGTGAAACCTTTGAGAAATTTAAAGAGTTTTG
1 CAAAAGTGAAACCTTTGACAAATTCAAAGAGTTTTG
*
3941100 CAAATGTGAAACCTTTGACAAATTCAAAGAGTTTTG
1 CAAAAGTGAAACCTTTGACAAATTCAAAGAGTTTTG
3941136 TGTGAAAGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (36 bp):
CAAAAGTGAAACCTTTGACAAATTCAAAGAGTTTTG
Found at i:3941121 original size:18 final size:18
Alignment explanation
Indices: 3941063--3941122 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
3941053 ATGATTCCCT
*
3941063 ACAAAAGTGAAACCTTTG
1 ACAAATGTGAAACCTTTG
* * * **
3941081 AGAAATTTAAAGAGTTTTG
1 ACAAATGTGAA-ACCTTTG
3941100 -CAAATGTGAAACCTTTG
1 ACAAATGTGAAACCTTTG
3941117 ACAAAT
1 ACAAAT
3941123 TCAAAGAGTT
Statistics
Matches: 29, Mismatches: 11, Indels: 4
0.66 0.25 0.09
Matches are distributed among these distances:
17 5 0.17
18 19 0.66
19 5 0.17
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (18 bp):
ACAAATGTGAAACCTTTG
Found at i:3944881 original size:26 final size:26
Alignment explanation
Indices: 3944824--3944885 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
3944814 ACTTATTTTC
* *
3944824 TCAAAATTTTACTTAGGGCAAAATCG
1 TCAAAATTTTACCTAGGGCAAAATCA
* * *
3944850 TTAAAATTTTACCTAGGGTAAAATTA
1 TCAAAATTTTACCTAGGGCAAAATCA
3944876 TCAAAATTTT
1 TCAAAATTTT
3944886 GTTGGAGGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (26 bp):
TCAAAATTTTACCTAGGGCAAAATCA
Found at i:3945793 original size:497 final size:492
Alignment explanation
Indices: 3944857--3945839 Score: 1597
Period size: 497 Copynumber: 2.0 Consensus size: 492
3944847 TCGTTAAAAT
* * *
3944857 TTTACCTAGGGTAAAATTATCAAAATTTTGTTGGAGGAAAATAGGGATGAGAAAATTGTTTTATA
1 TTTACCAAGGGTAAAATTATCAAAATTTTGTTGGAGGAAAATAAGGATGAGAAAATTATTTTATA
* * *
3944922 TATGAATATTAAAGGTTATTTTGGGGAAAAAAATGAATCGAGTTGGATCACATTACAAAGTACTA
66 TATGAAGATTAAAGGTTATTTTGGAGAAAAAAATAAATCGAGTTGGATCACATTACAAAGTACTA
* *
3944987 GGTAAAAAAGGCTCAAGTACTCGTAATTGGACTCAATGTGAGAAAGGCACAAAAACCCCTCATGG
131 GGTAAAAAAGGCTCAAGTACTCGTAATTGGACTAAATGTGAGAAAGGCACAAAAACACCTCATGG
** ** * *
3945052 ACATGAAGGGGGCCGTAACCTTAGTAGGAATACTAGGTTGTGCCATCCACTCTAGTCCTATTTTA
196 ACATGAAGGGGGCCACAACCTTAGTAGGAATACTAGCCTGTGCCATCCACTCTAGTACTATTCTA
* *
3945117 AGTAAGATGTTGTTTTTCCATTTGAAATAAGCCACTGTTGCCACTAGTGGTTGAGTTTTCATCTT
261 AGTAAGATGTTGTTTTTCCATTTGAAATAAGCCACCGTTGCCACTAGTGGTTGAGTTTTCATATT
* *
3945182 CTTTTCTTTTAGATCTCTTCCATCTCCTTTAGTGATCAAACCTACTCCACTCTCCTACTTGAATT
326 CTTTTCTTTTAGATCTCTTCCATCTCCTCTAATGATCAAACCTACTCCACTCTCCTACTTGAATT
* * *
3945247 CCTTACTTTGTATTTTAGACTCACTGATCAAATGATTCTTGTAGATCACTAAACTTCTTCATTCC
391 CCTTACTTTGTATTTTAGACTCACCGATCAAATGATTCTTGTAGATCACTAAAATTCTCCATTCC
3945312 TTCACCAAGTCGAATCATCAATTTTGTCGTGGTAAAG
456 TTCACCAAGTCGAATCATCAATTTTGTCGTGGTAAAG
*
3945349 TTTACCAAGGGTAAAATTGTCAAAATTTTGTTGGAGGAAAATAAGGATGAGAAAATTATTTTATA
1 TTTACCAAGGGTAAAATTATCAAAATTTTGTTGGAGGAAAATAAGGATGAGAAAATTATTTTATA
*
3945414 TATGAAGATTAAAGTTTATTTTTGGAAAAAGAAAAAAATAAATCGAGTTGGATCACATTACAAAG
66 TATGAAGATTAAAGGTTA-TTTTGG----AGAAAAAAATAAATCGAGTTGGATCACATTACAAAG
* *
3945479 TACTAGGTAAAAAAGGCTCAAGTACTCGTAATTGGACTAAATGTGAGAGAGGCCCAAAAACACCT
126 TACTAGGTAAAAAAGGCTCAAGTACTCGTAATTGGACTAAATGTGAGAAAGGCACAAAAACACCT
* * *
3945544 CATGGACATGAAGGGGGCTACAACCTTAGTTGGAATACTAGCCTGTGTCATCCACTCTAGTACTA
191 CATGGACATGAAGGGGGCCACAACCTTAGTAGGAATACTAGCCTGTGCCATCCACTCTAGTACTA
* * *
3945609 TTCTAAGTAGGATGTTGTTTTTCCATTTGAAATAAGCCACCGTTGCCGCTTGTGGTTGAGTTTTC
256 TTCTAAGTAAGATGTTGTTTTTCCATTTGAAATAAGCCACCGTTGCCACTAGTGGTTGAGTTTTC
*
3945674 ATATTCTTTTCTTTTAGATCTCTTCCGTCTCCTCTAATGATCAAACCTACTCCACTCTCCTACTT
321 ATATTCTTTTCTTTTAGATCTCTTCCATCTCCTCTAATGATCAAACCTACTCCACTCTCCTACTT
* *
3945739 TAGTTCCTTACTTTGTATTTTAGACTCACCGATCAAATGATTCTTGTAGATCACTAAAATTCTCC
386 GAATTCCTTACTTTGTATTTTAGACTCACCGATCAAATGATTCTTGTAGATCACTAAAATTCTCC
* *
3945804 ATTCCTTCACCAATTCGAATCATCGATTTTGTCGTG
451 ATTCCTTCACCAAGTCGAATCATCAATTTTGTCGTG
3945840 TTAATTGAGT
Statistics
Matches: 450, Mismatches: 36, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
492 77 0.17
493 6 0.01
497 367 0.82
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (492 bp):
TTTACCAAGGGTAAAATTATCAAAATTTTGTTGGAGGAAAATAAGGATGAGAAAATTATTTTATA
TATGAAGATTAAAGGTTATTTTGGAGAAAAAAATAAATCGAGTTGGATCACATTACAAAGTACTA
GGTAAAAAAGGCTCAAGTACTCGTAATTGGACTAAATGTGAGAAAGGCACAAAAACACCTCATGG
ACATGAAGGGGGCCACAACCTTAGTAGGAATACTAGCCTGTGCCATCCACTCTAGTACTATTCTA
AGTAAGATGTTGTTTTTCCATTTGAAATAAGCCACCGTTGCCACTAGTGGTTGAGTTTTCATATT
CTTTTCTTTTAGATCTCTTCCATCTCCTCTAATGATCAAACCTACTCCACTCTCCTACTTGAATT
CCTTACTTTGTATTTTAGACTCACCGATCAAATGATTCTTGTAGATCACTAAAATTCTCCATTCC
TTCACCAAGTCGAATCATCAATTTTGTCGTGGTAAAG
Found at i:3946753 original size:49 final size:49
Alignment explanation
Indices: 3946700--3946829 Score: 161
Period size: 49 Copynumber: 2.7 Consensus size: 49
3946690 TATGGTAGTC
* **
3946700 TATTTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTTAAGTGGTTGTT
1 TATTTACAAATCAGTGGTGGCTTGTCCACAAAGTGTTTAAGTGGCAGTT
* * ** * *
3946749 TATTTTCAAATCAATGGTGGCTTGTCCTTAAAGTTTTTTAGTGGCAGTT
1 TATTTACAAATCAGTGGTGGCTTGTCCACAAAGTGTTTAAGTGGCAGTT
* *
3946798 TATCTACAAATTAGTGGTGGCTTGTCCACAAA
1 TATTTACAAATCAGTGGTGGCTTGTCCACAAA
3946830 TGGTGTTTCG
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 67 1.00
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (49 bp):
TATTTACAAATCAGTGGTGGCTTGTCCACAAAGTGTTTAAGTGGCAGTT
Found at i:3952530 original size:22 final size:22
Alignment explanation
Indices: 3952492--3952536 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
3952482 GGTGATGGGT
*
3952492 ATAATGTTTTATAAAAATTTGC
1 ATAATGTTTTATAAAAAATTGC
*
3952514 ATAATTGTTTTA-CAAAAATTGC
1 ATAA-TGTTTTATAAAAAATTGC
3952536 A
1 A
3952537 CTGTCATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (22 bp):
ATAATGTTTTATAAAAAATTGC
Found at i:3952607 original size:15 final size:15
Alignment explanation
Indices: 3952587--3952619 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
3952577 TAAGTATGTG
*
3952587 CTTATTTTTATTTAA
1 CTTATTGTTATTTAA
3952602 CTTATTGTTATTTAA
1 CTTATTGTTATTTAA
3952617 CTT
1 CTT
3952620 GTTATAAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.09, G:0.03, T:0.64
Consensus pattern (15 bp):
CTTATTGTTATTTAA
Found at i:3963894 original size:96 final size:97
Alignment explanation
Indices: 3963766--3963947 Score: 242
Period size: 96 Copynumber: 1.9 Consensus size: 97
3963756 ACGTCATACT
* * * * **
3963766 AAAAAAAAAATGATTGATGGAATTGGAAGTTCAATCGCTGAATTAATAACATTAAAAA-C-CTTC
1 AAAAAAAAAATGATCGATGCAATTGGAAGTTCAATCACTAAAAAAATAACATTAAAAACCTCTTC
3963829 ATTTAATACAAAATGTTGGTCGCCATACTTCC
66 ATTTAATACAAAATGTTGGTCGCCATACTTCC
* * * *
3963861 AAAAATAAACATGATCGATGCACTTGGAAGTTCAATTACTAAAAAAATGACATTAAAAACCTTCT
1 AAAAA-AAAAATGATCGATGCAATTGGAAGTTCAATCACTAAAAAAATAACATTAAAAACC-TCT
3963926 TCATTTAATACAAAATGTTGGT
64 TCATTTAATACAAAATGTTGGT
3963948 TGGGACAATA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
95 5 0.07
96 43 0.59
97 1 0.01
99 24 0.33
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (97 bp):
AAAAAAAAAATGATCGATGCAATTGGAAGTTCAATCACTAAAAAAATAACATTAAAAACCTCTTC
ATTTAATACAAAATGTTGGTCGCCATACTTCC
Found at i:3967963 original size:26 final size:27
Alignment explanation
Indices: 3967912--3967982 Score: 92
Period size: 26 Copynumber: 2.7 Consensus size: 27
3967902 TTACAGAGTT
* *
3967912 TGCCACAAAGACTTACCTTTCATATT-C
1 TGCCACAAAGGCTT-TCTTTCATATTAC
3967939 TGCCACAAAGGCTTTCTTTCATATTAC
1 TGCCACAAAGGCTTTCTTTCATATTAC
*
3967966 -ACCACAAAGGCTTTCTT
1 TGCCACAAAGGCTTTCTT
3967983 CCCCAACGTG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 26 0.65
27 14 0.35
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (27 bp):
TGCCACAAAGGCTTTCTTTCATATTAC
Found at i:3971072 original size:95 final size:95
Alignment explanation
Indices: 3970904--3971184 Score: 377
Period size: 95 Copynumber: 3.0 Consensus size: 95
3970894 ATGAGCTGTG
* * * * * *
3970904 AATC-AGACATTAACCATTACACAATGTTCCTCACACGAGCTATGAAGAA-TCTGCAACACATGC
1 AATCGAGACATTAACCATTACACGATGTTACTCACACGAGCTGTGAAGAATTCT-TAATATATGC
*
3970967 AGAATCTTAACCATCAGTAAGGTATCCAGAA
65 AGGATCTTAACCATCAGTAAGGTATCCAGAA
* * *
3970998 AATCGGGACATTAACCATTACACGATGCTGCTCACACGAGCTGTGAAGAATTCTTAATATATGCA
1 AATCGAGACATTAACCATTACACGATGTTACTCACACGAGCTGTGAAGAATTCTTAATATATGCA
*
3971063 GGATCTTAACCATCAGTAAGGTATCCAGTA
66 GGATCTTAACCATCAGTAAGGTATCCAGAA
* * * *
3971093 AATCGAGACATTAACTATTACACGATGTTACCCACACGAGCTGTGAAGAATCCGTAATATATGCA
1 AATCGAGACATTAACCATTACACGATGTTACTCACACGAGCTGTGAAGAATTCTTAATATATGCA
* * *
3971158 GGATCTTAGCCATCGGTGAGGTATCCA
66 GGATCTTAACCATCAGTAAGGTATCCA
3971185 CCACCAGTAC
Statistics
Matches: 165, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
94 4 0.02
95 158 0.96
96 3 0.02
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (95 bp):
AATCGAGACATTAACCATTACACGATGTTACTCACACGAGCTGTGAAGAATTCTTAATATATGCA
GGATCTTAACCATCAGTAAGGTATCCAGAA
Found at i:3977625 original size:14 final size:14
Alignment explanation
Indices: 3977606--3977637 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
3977596 AGGTCATTTA
3977606 GCCCAACCAAACTG
1 GCCCAACCAAACTG
3977620 GCCCAACCAAACTG
1 GCCCAACCAAACTG
3977634 GCCC
1 GCCC
3977638 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:3982752 original size:14 final size:14
Alignment explanation
Indices: 3982733--3982762 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
3982723 GTCATTTAGG
3982733 CCAACCAAACTGGC
1 CCAACCAAACTGGC
3982747 CCAACCAAACTGGC
1 CCAACCAAACTGGC
3982761 CC
1 CC
3982763 GGTGATTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.47, G:0.13, T:0.07
Consensus pattern (14 bp):
CCAACCAAACTGGC
Found at i:3991417 original size:14 final size:14
Alignment explanation
Indices: 3991398--3991501 Score: 102
Period size: 14 Copynumber: 7.4 Consensus size: 14
3991388 TTCTTTTCAA
* *
3991398 CTCAATACTCAATC
1 CTCAATCCTCAATT
*
3991412 CTCAATCCT-AAAT
1 CTCAATCCTCAATT
*
3991425 CTTCAATCTTCAATT
1 C-TCAATCCTCAATT
* * *
3991440 TTTAATCATCAATT
1 CTCAATCCTCAATT
*
3991454 CTCAATTCTCAATT
1 CTCAATCCTCAATT
* *
3991468 CTCAATTCTCAATC
1 CTCAATCCTCAATT
3991482 CTCAATCCTCAATT
1 CTCAATCCTCAATT
3991496 CTCAAT
1 CTCAAT
3991502 TCTGAAATTT
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
13 3 0.04
14 67 0.92
15 3 0.04
ACGTcount: A:0.32, C:0.30, G:0.00, T:0.38
Consensus pattern (14 bp):
CTCAATCCTCAATT
Found at i:3991418 original size:7 final size:7
Alignment explanation
Indices: 3991398--3991501 Score: 91
Period size: 7 Copynumber: 14.9 Consensus size: 7
3991388 TTCTTTTCAA
*
3991398 CTCAATA
1 CTCAATC
3991405 CTCAATC
1 CTCAATC
3991412 CTCAATC
1 CTCAATC
*
3991419 CTAAATC
1 CTCAATC
*
3991426 TTCAATC
1 CTCAATC
* *
3991433 TTCAATT
1 CTCAATC
* *
3991440 TTTAATC
1 CTCAATC
* *
3991447 ATCAATT
1 CTCAATC
*
3991454 CTCAATT
1 CTCAATC
*
3991461 CTCAATT
1 CTCAATC
*
3991468 CTCAATT
1 CTCAATC
3991475 CTCAATC
1 CTCAATC
3991482 CTCAATC
1 CTCAATC
*
3991489 CTCAATT
1 CTCAATC
3991496 CTCAAT
1 CTCAAT
3991502 TCTGAAATTT
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 84 1.00
ACGTcount: A:0.32, C:0.30, G:0.00, T:0.38
Consensus pattern (7 bp):
CTCAATC
Found at i:3991502 original size:7 final size:7
Alignment explanation
Indices: 3991448--3991504 Score: 96
Period size: 7 Copynumber: 8.1 Consensus size: 7
3991438 TTTTTAATCA
3991448 TCAATTC
1 TCAATTC
3991455 TCAATTC
1 TCAATTC
3991462 TCAATTC
1 TCAATTC
3991469 TCAATTC
1 TCAATTC
*
3991476 TCAATCC
1 TCAATTC
*
3991483 TCAATCC
1 TCAATTC
3991490 TCAATTC
1 TCAATTC
3991497 TCAATTC
1 TCAATTC
3991504 T
1 T
3991505 GAAATTTATC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.28, C:0.32, G:0.00, T:0.40
Consensus pattern (7 bp):
TCAATTC
Found at i:4005092 original size:34 final size:34
Alignment explanation
Indices: 4005054--4005150 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 34
4005044 TAAAGTCATG
4005054 CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
1 CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
* *
4005088 CATTA---AAC--T-AAGTCATGTT-AGTTT--A-
1 CATTATGTAACTTTCATGTTA-GTTAAGTTTGCAT
4005113 -ATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
1 CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
*
4005146 TATTA
1 CATTA
4005151 AATTAAGTCA
Statistics
Matches: 47, Mismatches: 4, Indels: 24
0.63 0.05 0.32
Matches are distributed among these distances:
24 4 0.09
26 1 0.02
27 3 0.06
28 9 0.19
29 8 0.17
30 9 0.19
31 3 0.06
32 1 0.02
34 9 0.19
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.46
Consensus pattern (34 bp):
CATTATGTAACTTTCATGTTAGTTAAGTTTGCAT
Found at i:4006897 original size:28 final size:28
Alignment explanation
Indices: 4006849--4006925 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
4006839 AGTAATAGGA
* *
4006849 AATTCCATTA-GTTATCTTAGACTAATT
1 AATTTCATTAGGTTATTTTAGACTAATT
*
4006876 AATTTCATTAGGTTATTTTAGATTAATT
1 AATTTCATTAGGTTATTTTAGACTAATT
* *
4006904 GATTTAATTAGGTTAATTTTAG
1 AATTTCATTAGGTT-ATTTTAG
4006926 GTTAAGTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 9 0.21
28 27 0.63
29 7 0.16
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.49
Consensus pattern (28 bp):
AATTTCATTAGGTTATTTTAGACTAATT
Found at i:4006939 original size:29 final size:29
Alignment explanation
Indices: 4006882--4006948 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
4006872 AATTAATTTC
* * *
4006882 ATTAGGTT-ATTTTAGATTAATTGATTTA
1 ATTAGGTTAATTTTAGATTAAGTAAATTA
*
4006910 ATTAGGTTAATTTTAGGTTAAGTAAATTA
1 ATTAGGTTAATTTTAGATTAAGTAAATTA
*
4006939 ATTAGTTTAA
1 ATTAGGTTAA
4006949 CTAATATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
28 8 0.24
29 25 0.76
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (29 bp):
ATTAGGTTAATTTTAGATTAAGTAAATTA
Found at i:4011887 original size:37 final size:37
Alignment explanation
Indices: 4011837--4011910 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
4011827 GTTGGTTGTT
4011837 GATAGCTAGACAATTAAATAGTTTTATTTTATTTTTC
1 GATAGCTAGACAATTAAATAGTTTTATTTTATTTTTC
4011874 GATAGCTAGACAATTAAATAGTTTTATTTTATTTTTC
1 GATAGCTAGACAATTAAATAGTTTTATTTTATTTTTC
4011911 TTTGTAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.49
Consensus pattern (37 bp):
GATAGCTAGACAATTAAATAGTTTTATTTTATTTTTC
Found at i:4012525 original size:28 final size:29
Alignment explanation
Indices: 4012493--4012576 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
4012483 ATTAGTTACC
*
4012493 TTAGACTAATTAATTTCATTAGGTT-ATT
1 TTAGATTAATTAATTTCATTAGGTTAATT
4012521 TTAGATTAATTAA-TTCAATTAGGTTAATT
1 TTAGATTAATTAATTTC-ATTAGGTTAATT
* * * *
4012550 TTAGTTTAAGTAATTTAATTAGTTTAA
1 TTAGATTAATTAATTTCATTAGGTTAA
4012577 CTAATATTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
27 3 0.06
28 20 0.42
29 23 0.48
30 2 0.04
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.50
Consensus pattern (29 bp):
TTAGATTAATTAATTTCATTAGGTTAATT
Found at i:4021775 original size:22 final size:22
Alignment explanation
Indices: 4021751--4021792 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
4021741 GTTCTTGCGT
4021751 TTTTTATTTTC-TTTATTTTTC
1 TTTTTATTTTCTTTTATTTTTC
*
4021772 TTTTTCTTTTCTTTTATTTTT
1 TTTTTATTTTCTTTTATTTTT
4021793 GTTTGTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTTATTTTCTTTTATTTTTC
Found at i:4021792 original size:16 final size:16
Alignment explanation
Indices: 4021751--4021792 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
4021741 GTTCTTGCGT
4021751 TTTTTA-TTTTCTTTA
1 TTTTTATTTTTCTTTA
*
4021766 TTTTTCTTTTTCTTT-
1 TTTTTATTTTTCTTTA
4021781 TCTTTTATTTTT
1 T-TTTTATTTTT
4021793 GTTTGTTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTATTTTTCTTTA
Found at i:4022693 original size:16 final size:17
Alignment explanation
Indices: 4022674--4022705 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
4022664 TACTTACATT
4022674 TTTATATAC-TATATAA
1 TTTATATACATATATAA
4022690 TTTATATACATATATA
1 TTTATATACATATATA
4022706 CATATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTATATACATATATAA
Found at i:4027718 original size:54 final size:55
Alignment explanation
Indices: 4027660--4028118 Score: 339
Period size: 54 Copynumber: 8.5 Consensus size: 55
4027650 CAATTCGCTG
* * * * * *
4027660 CTTACAAGATTTTTCT-AGTCTTACGGCTGGCTAATTTAATATCTCAACCTTATA
1 CTTACAAGATTTTTCTGAATCTTGCGGCTTGCTGATTTAAGATCGCAACCTTATA
* * * * * * *
4027714 CTTACAGGATTTTCCCG-ATCTTACAGTTTGCTAATTTAAGATCGCAACCTTATA
1 CTTACAAGATTTTTCTGAATCTTGCGGCTTGCTGATTTAAGATCGCAACCTTATA
* * * * ***
4027768 CTTATAAGATTTTT-TAAATCTTGCGGCTGGCCGATTTAAGATCGTTGCCTTATA
1 CTTACAAGATTTTTCTGAATCTTGCGGCTTGCTGATTTAAGATCGCAACCTTATA
* * **
4027822 CTTACAGGA-TTTTCTGAATCTTGC-GATTTTTCGATTTAAGATCGCAACCTTATA
1 CTTACAAGATTTTTCTGAATCTTGCGGCTTGCT-GATTTAAGATCGCAACCTTATA
* * * *
4027876 CTTACAAGA-TTTTCTGAATCTTGCAGCTCGCTGATTTAAGATCGAAACATTATA
1 CTTACAAGATTTTTCTGAATCTTGCGGCTTGCTGATTTAAGATCGCAACCTTATA
* * * * * *
4027930 CTTATAAGATTTTT-TGAATCTTGTGGGTTACCGATTTAAGATCTCAACCTTATA
1 CTTACAAGATTTTTCTGAATCTTGCGGCTTGCTGATTTAAGATCGCAACCTTATA
** ** ** **
4027984 CTTACAAGA-TTTTCCAAATCTTGTTGCTCACCAATTTAAGATCGCAACCTGCCTTATA
1 CTTACAAGATTTTTCTGAATCTTGCGGCTTGCTGATTTAAGATCGCAA----CCTTATA
* * * * * * *
4028042 CTTGCAAGA-TTTTATGAATCTTGTGGCTCGC-CATTTAAGATCCCAGCCTTATA
1 CTTACAAGATTTTTCTGAATCTTGCGGCTTGCTGATTTAAGATCGCAACCTTATA
4028095 CTTACAAGA--TTTCTAGAATCTTGC
1 CTTACAAGATTTTTCT-GAATCTTGC
4028119 AGTTTTCAAT
Statistics
Matches: 322, Mismatches: 71, Indels: 25
0.77 0.17 0.06
Matches are distributed among these distances:
52 4 0.01
53 33 0.10
54 234 0.73
55 7 0.02
57 12 0.04
58 32 0.10
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.38
Consensus pattern (55 bp):
CTTACAAGATTTTTCTGAATCTTGCGGCTTGCTGATTTAAGATCGCAACCTTATA
Found at i:4027859 original size:108 final size:108
Alignment explanation
Indices: 4027705--4028120 Score: 392
Period size: 108 Copynumber: 3.8 Consensus size: 108
4027695 TTAATATCTC
* * **
4027705 AACCTTATACTTACAGGATTTTCCCG-ATCTTAC-AGTTTGCTAATTTAAGATCGCAACCTTATA
1 AACCTTATACTTACAGGATTTT-CTGAATCTTGCGAGTTT-CCGATTTAAGATCGCAACCTTATA
* * * * *
4027768 CTTATAAGATTTTTTAAATCTTGCGGCTGGCCGATTTAAGATCGT
64 CTTACAAGATTTTCTAAATCTTGCAGCTCGCCGATTTAAGATCGA
** * *
4027813 TGCCTTATACTTACAGGATTTTCTGAATCTTGCGATTTTTCGATTTAAGATCGCAACCTTATACT
1 AACCTTATACTTACAGGATTTTCTGAATCTTGCGAGTTTCCGATTTAAGATCGCAACCTTATACT
* *
4027878 TACAAGATTTTCTGAATCTTGCAGCTCGCTGATTTAAGATCGA
66 TACAAGATTTTCTAAATCTTGCAGCTCGCCGATTTAAGATCGA
* * * * * * * *
4027921 AACATTATACTTATAAGATTTTTTGAATCTTGTGGGTTACCGATTTAAGATCTCAACCTTATACT
1 AACCTTATACTTACAGGATTTTCTGAATCTTGCGAGTTTCCGATTTAAGATCGCAACCTTATACT
* ** * *
4027986 TACAAGATTTTCCAAATCTTGTTGCTCACCAATTTAAGATCGCA
66 TACAAGATTTTCTAAATCTTGCAGCTCGCCGATTTAAGATCG-A
* * * * * * * * *
4028030 ACCTGCCTTATACTTGCAAGATTTTATGAATCTTGTG-G-CTCGCCATTTAAGATCCCAGCCTTA
1 A---ACCTTATACTTACAGGATTTTCTGAATCTTGCGAGTTTC-CGATTTAAGATCGCAACCTTA
4028093 TACTTACAAGA-TTTCTAGAATCTTGCAG
62 TACTTACAAGATTTTCTA-AATCTTGCAG
4028121 TTTTCAATTT
Statistics
Matches: 253, Mismatches: 47, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
107 2 0.01
108 173 0.68
109 6 0.02
110 6 0.02
111 38 0.15
112 28 0.11
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (108 bp):
AACCTTATACTTACAGGATTTTCTGAATCTTGCGAGTTTCCGATTTAAGATCGCAACCTTATACT
TACAAGATTTTCTAAATCTTGCAGCTCGCCGATTTAAGATCGA
Found at i:4027971 original size:162 final size:162
Alignment explanation
Indices: 4027692--4028118 Score: 439
Period size: 162 Copynumber: 2.6 Consensus size: 162
4027682 ACGGCTGGCT
* * * * * * *
4027692 AATTTAATATCTCAACCTTATACTTACAGGATTTTCCCG-ATCTTACAGTTTGCTAATTTAAGAT
1 AATTTAAGATCGCAACCTTATACTTACAAGATTTT-CTGAATCTTGCAGCTCGCTAATTTAAGAT
* * **
4027756 CGCAACCTTATACTTATAAGATTTTTTAAATCTTGCGGCTGGCCGATTTAAGATCGT-TGCCTTA
65 CGCAACCTTATACTTATAAGATTTTTTGAATCTTGCGGCTGACCGATTTAAGATC-TCAACCTTA
* ** * ***
4027820 TACTTACAGGATTTTCTGAATCTTG-CGATTTTTC
129 TACTTACAAGATTTTCCAAATCTTGTCG-CTCACC
* *
4027854 GATTTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATCTTGCAGCTCGCTGATTTAAGATC
1 AATTTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATCTTGCAGCTCGCTAATTTAAGATC
* * * * *
4027919 GAAACATTATACTTATAAGATTTTTTGAATCTTGTGGGTTACCGATTTAAGATCTCAACCTTATA
66 GCAACCTTATACTTATAAGATTTTTTGAATCTTGCGGCTGACCGATTTAAGATCTCAACCTTATA
*
4027984 CTTACAAGATTTTCCAAATCTTGTTGCTCACC
131 CTTACAAGATTTTCCAAATCTTGTCGCTCACC
* * ** *
4028016 AATTTAAGATCGCAACCTGCCTTATACTTGCAAGATTTTATGAATCTTGTGGCTCGC-CATTTAA
1 AATTTAAGATCGCAA----CCTTATACTTACAAGATTTTCTGAATCTTGCAGCTCGCTAATTTAA
* * * * *
4028080 GATCCCAGCCTTATACTTACAAGATTTCTAGAATCTTGC
62 GATCGCAACCTTATACTTATAAGATTTTTTGAATCTTGC
4028119 AGTTTTCAAT
Statistics
Matches: 218, Mismatches: 40, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
161 3 0.01
162 143 0.66
163 1 0.00
165 37 0.17
166 34 0.16
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (162 bp):
AATTTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATCTTGCAGCTCGCTAATTTAAGATC
GCAACCTTATACTTATAAGATTTTTTGAATCTTGCGGCTGACCGATTTAAGATCTCAACCTTATA
CTTACAAGATTTTCCAAATCTTGTCGCTCACC
Found at i:4028277 original size:23 final size:23
Alignment explanation
Indices: 4028212--4028278 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
4028202 TTTCGGTACA
* * *
4028212 ATTCGCAATATTTTTGCAACACT
1 ATTCTCAATATTTTTACAATACT
*
4028235 ATTCTCATTATTTTTACAATACT
1 ATTCTCAATATTTTTACAATACT
*
4028258 ATT-TACAATATTTTCACAATA
1 ATTCT-CAATATTTTTACAATA
4028279 AAGCTAGCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
22 1 0.03
23 36 0.97
ACGTcount: A:0.34, C:0.18, G:0.03, T:0.45
Consensus pattern (23 bp):
ATTCTCAATATTTTTACAATACT
Found at i:4028904 original size:13 final size:13
Alignment explanation
Indices: 4028881--4028914 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
4028871 TACACATGTA
4028881 AGGATACCTCTCTG
1 AGGA-ACCTCTCTG
*
4028895 AGGAACCTCTTTG
1 AGGAACCTCTCTG
4028908 AGGAACC
1 AGGAACC
4028915 CTTCAGAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (13 bp):
AGGAACCTCTCTG
Found at i:4029374 original size:27 final size:27
Alignment explanation
Indices: 4029296--4029374 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 27
4029286 TCTAACCTAT
* * *
4029296 TAATTTATATTTCTAATTATCTTCACTA
1 TAATTTAAACTTCTAATTATCTT-AATA
* * *
4029324 -AATTAAAACTT-TAATTTTCATAATA
1 TAATTTAAACTTCTAATTATCTTAATA
4029349 TAATTTAAACTTCTAATTATCTTAAT
1 TAATTTAAACTTCTAATTATCTTAAT
4029375 TTACACAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
25 3 0.08
26 18 0.45
27 19 0.47
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.49
Consensus pattern (27 bp):
TAATTTAAACTTCTAATTATCTTAATA
Found at i:4031077 original size:50 final size:50
Alignment explanation
Indices: 4031009--4031238 Score: 244
Period size: 50 Copynumber: 4.6 Consensus size: 50
4030999 CTGCAAATGT
* * * * *
4031009 CATATCCTAGATATGGTCTTACATGGAAGATCTCATATTGGTGCCCATGC
1 CATATCCCAGATATGGTCTTACATGGAACATCTCATATCGGTGCCAACGC
* ** * * *
4031059 CATATCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGC
1 CATATCCCAGATATGGTCTTACATGGAACATCTCATATCGGTGCCAACGC
* * * * *
4031109 CATGTCCCAGATATGGTCTTACATGGAAGATCTCATATTGGTGCCCATGC
1 CATATCCCAGATATGGTCTTACATGGAACATCTCATATCGGTGCCAACGC
* ** * * *
4031159 CATATCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGC
1 CATATCCCAGATATGGTCTTACATGGAACATCTCATATCGGTGCCAACGC
*
4031209 CATGTCCCAGATATGGTCTTACATGAGAAC
1 CATATCCCAGATATGGTCTTACATG-GAAC
4031239 TCATCCCCTA
Statistics
Matches: 141, Mismatches: 38, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
50 138 0.98
51 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
CATATCCCAGATATGGTCTTACATGGAACATCTCATATCGGTGCCAACGC
Found at i:4031139 original size:100 final size:100
Alignment explanation
Indices: 4031017--4031233 Score: 434
Period size: 100 Copynumber: 2.2 Consensus size: 100
4031007 GTCATATCCT
4031017 AGATATGGTCTTACATGGAAGATCTCATATTGGTGCCCATGCCATATCCCAGACATGGTCTTACG
1 AGATATGGTCTTACATGGAAGATCTCATATTGGTGCCCATGCCATATCCCAGACATGGTCTTACG
4031082 GGGGACCTCTCATCTCGGTGCCAACGCCATGTCCC
66 GGGGACCTCTCATCTCGGTGCCAACGCCATGTCCC
4031117 AGATATGGTCTTACATGGAAGATCTCATATTGGTGCCCATGCCATATCCCAGACATGGTCTTACG
1 AGATATGGTCTTACATGGAAGATCTCATATTGGTGCCCATGCCATATCCCAGACATGGTCTTACG
4031182 GGGGACCTCTCATCTCGGTGCCAACGCCATGTCCC
66 GGGGACCTCTCATCTCGGTGCCAACGCCATGTCCC
4031217 AGATATGGTCTTACATG
1 AGATATGGTCTTACATG
4031234 AGAACTCATC
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 117 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.27
Consensus pattern (100 bp):
AGATATGGTCTTACATGGAAGATCTCATATTGGTGCCCATGCCATATCCCAGACATGGTCTTACG
GGGGACCTCTCATCTCGGTGCCAACGCCATGTCCC
Found at i:4034071 original size:18 final size:18
Alignment explanation
Indices: 4034050--4034089 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4034040 GATTGAGAGT
* * *
4034050 GAAAAGGAATGTGAAACA
1 GAAAAGAAAAGTGAAAAA
4034068 GAAAAGAAAAGTGAAAAA
1 GAAAAGAAAAGTGAAAAA
4034086 GAAA
1 GAAA
4034090 TTGAAGAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.65, C:0.03, G:0.25, T:0.07
Consensus pattern (18 bp):
GAAAAGAAAAGTGAAAAA
Found at i:4035524 original size:25 final size:25
Alignment explanation
Indices: 4035479--4035526 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
4035469 GTTTAAGTGC
*
4035479 AGAATTCTCTTTGAGTTTTTCTTCA
1 AGAATTCTCTTTGAGGTTTTCTTCA
4035504 AGAATTCTCTCTTG-GGTTTTCTT
1 AGAATTCTCT-TTGAGGTTTTCTT
4035527 TAGAAGTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.52
Consensus pattern (25 bp):
AGAATTCTCTTTGAGGTTTTCTTCA
Found at i:4040546 original size:18 final size:18
Alignment explanation
Indices: 4040503--4040546 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4040493 GATGAAATTT
*
4040503 ATATGAAAATCCCAGAAGG
1 ATAT-AAAATCCCAGAAAG
*
4040522 ATTTAAAATCCCAGAAAG
1 ATATAAAATCCCAGAAAG
4040540 ATATAAA
1 ATATAAA
4040547 GTTTATCGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.20
Consensus pattern (18 bp):
ATATAAAATCCCAGAAAG
Found at i:4041966 original size:26 final size:26
Alignment explanation
Indices: 4041937--4041990 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
4041927 AGGGGGAGCG
*
4041937 TTATGAATATCAAGATCAAGATAAGT
1 TTATGAACATCAAGATCAAGATAAGT
**
4041963 TTATGTCCATCAAGATCAAGATAAGT
1 TTATGAACATCAAGATCAAGATAAGT
4041989 TT
1 TT
4041991 TGATGTACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (26 bp):
TTATGAACATCAAGATCAAGATAAGT
Found at i:4043102 original size:41 final size:41
Alignment explanation
Indices: 4043034--4043367 Score: 454
Period size: 41 Copynumber: 8.1 Consensus size: 41
4043024 ATTTCGGGGT
* * * *
4043034 TTTAGCGGCGTTTTTTTGCAAACGCGCCGCTAATGATTAGGGC
1 TTTAGCGGCG-TTTTTGGGAAA-GCGCCGCTAATGCTCAGGGC
* * *
4043077 TTTAGCGGCGCTTTTGGGAAAGCGCCACTAATGCTCAGGCC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGC
* * *
4043118 TTTAGCGGCGTTTGTGGGAAAGCGCCGCTAATGCTCTGGGA
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGC
*
4043159 TTTAGCGGCGTTTTTGGGAAAGCGCCTCTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGC
* *
4043200 TTTAGCGGCGTTTTTATGG-AAGCGCCGCTAATGCTCAGGGA
1 TTTAGCGGCGTTTTT-GGGAAAGCGCCGCTAATGCTCAGGGC
*
4043241 TTTAGCGGCGTTTTTGGTAAAGCGCCGCTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGC
* *
4043282 TTTAGCGGCATTTTTGGGAAAGCGCCGCTAATGCTTAGGGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGC
* ** *
4043323 TTTAGCGGCGTTTTTTGTTAAGCGCCGCTAATGCTCAGGGA
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGC
4043364 TTTA
1 TTTA
4043368 AAATAATCTA
Statistics
Matches: 257, Mismatches: 32, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
40 1 0.00
41 236 0.92
42 10 0.04
43 10 0.04
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.30
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGC
Found at i:4043934 original size:22 final size:22
Alignment explanation
Indices: 4043878--4043934 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
4043868 TATGAATTAA
*
4043878 GGTTTATGGTTTAGGGGTTAGG
1 GGTTTATAGTTTAGGGGTTAGG
*
4043900 GGTTTAAAGTTTAGGGGTTAGG
1 GGTTTATAGTTTAGGGGTTAGG
*
4043922 GGTTTATATTTTA
1 GGTTTATAGTTTA
4043935 TGATTTTGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (22 bp):
GGTTTATAGTTTAGGGGTTAGG
Found at i:4044683 original size:14 final size:14
Alignment explanation
Indices: 4044666--4044692 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4044656 TGTAAAGAAA
4044666 AGGGGGGAAAGATG
1 AGGGGGGAAAGATG
4044680 AGGGGGGAAAGAT
1 AGGGGGGAAAGAT
4044693 ATTTCAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.56, T:0.07
Consensus pattern (14 bp):
AGGGGGGAAAGATG
Found at i:4049051 original size:43 final size:42
Alignment explanation
Indices: 4048981--4049137 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
4048971 AAAAATGTGT
*
4048981 CGCTAAAGATCATATT-TTTAGCGGCGTTTGTGGGTGAAGCGC
1 CGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGG-GAAGCGC
* *
4049023 CGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGCAAAGCGC
1 CGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGG-GAAGCGC
* * *
4049066 CGCTAAA-AGT-ACGACTCTTTAG-GGTGTTTGTGGGGAAAGCGC
1 CGCTAAAGA-TCATG-TTCTTTAGCGGCGTTTGTGGGG-AAGCGC
* *
4049108 CGCTAAAGATCATGGTCTTTAGCGACGTTT
1 CGCTAAAGATCATGTTCTTTAGCGGCGTTT
4049138 TTTAGAAAAG
Statistics
Matches: 95, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
42 48 0.51
43 47 0.49
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (42 bp):
CGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGGAAGCGC
Found at i:4049095 original size:85 final size:86
Alignment explanation
Indices: 4048997--4049157 Score: 227
Period size: 85 Copynumber: 1.9 Consensus size: 86
4048987 AGATCATATT
* * * * *
4048997 TTTAGCGGCGTTTGTGGGTG-AAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGCAA
1 TTTAGCGGCGTTTGTGGG-GAAAGCGCCGCTAAAGATCATGGTCTTTAGCGACGTTTGTGAGAAA
4049061 AGCGCCGCTAAAAGTACGACTC
65 AGCGCCGCTAAAAGTACGACTC
* * *
4049083 TTTAG-GGTGTTTGTGGGGAAAGCGCCGCTAAAGATCATGGTCTTTAGCGACGTTTTTTAGAAAA
1 TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATCATGGTCTTTAGCGACGTTTGTGAGAAAA
4049147 GCGCCGCTAAA
66 GCGCCGCTAAA
4049158 GTTAGTGACG
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
84 1 0.02
85 60 0.91
86 5 0.08
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (86 bp):
TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATCATGGTCTTTAGCGACGTTTGTGAGAAAA
GCGCCGCTAAAAGTACGACTC
Found at i:4049127 original size:42 final size:43
Alignment explanation
Indices: 4048981--4049158 Score: 186
Period size: 43 Copynumber: 4.2 Consensus size: 43
4048971 AAAAATGTGT
*
4048981 CGCTAAAGATCAT-ATTTTTAGCGGCGTTTGTGGGTG-AAGCGC
1 CGCTAAAGATCATGATCTTTAGCGGCGTTTGTGGG-GAAAGCGC
* * *
4049023 CGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGCAAAGCGC
1 CGCTAAAGATCATGATCTTTAGCGGCGTTTGTGGGGAAAGCGC
* *
4049066 CGCTAAA-AGT-ACGACTCTTTAG-GGTGTTTGTGGGGAAAGCGC
1 CGCTAAAGA-TCATGA-TCTTTAGCGGCGTTTGTGGGGAAAGCGC
* * * ** *
4049108 CGCTAAAGATCATGGTCTTTAGCGACGTTTTTTAGAAAAGCGC
1 CGCTAAAGATCATGATCTTTAGCGGCGTTTGTGGGGAAAGCGC
4049151 CGCTAAAG
1 CGCTAAAG
4049159 TTAGTGACGC
Statistics
Matches: 112, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
42 47 0.42
43 65 0.58
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.28
Consensus pattern (43 bp):
CGCTAAAGATCATGATCTTTAGCGGCGTTTGTGGGGAAAGCGC
Found at i:4050719 original size:34 final size:34
Alignment explanation
Indices: 4050680--4050748 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
4050670 TAGATAATTT
*
4050680 TAAAGAGTTTTATTAGGGTTCAATTACTCTTGTA
1 TAAAGAATTTTATTAGGGTTCAATTACTCTTGTA
4050714 TAAAGAATTTTATTAGGGTTCAATTACTCTTGTA
1 TAAAGAATTTTATTAGGGTTCAATTACTCTTGTA
4050748 T
1 T
4050749 TTTGCCTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (34 bp):
TAAAGAATTTTATTAGGGTTCAATTACTCTTGTA
Found at i:4054366 original size:11 final size:11
Alignment explanation
Indices: 4054350--4054374 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4054340 ATCTATTATT
4054350 ACATCAATTTC
1 ACATCAATTTC
4054361 ACATCAATTTC
1 ACATCAATTTC
4054372 ACA
1 ACA
4054375 ATTTATACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.28, G:0.00, T:0.32
Consensus pattern (11 bp):
ACATCAATTTC
Found at i:4056588 original size:23 final size:23
Alignment explanation
Indices: 4056562--4056608 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
4056552 ATATTTAATT
4056562 TTAAAAAGTTATATAATTAAATC
1 TTAAAAAGTTATATAATTAAATC
4056585 TTAAAAAGTTATATAATTAAATC
1 TTAAAAAGTTATATAATTAAATC
4056608 T
1 T
4056609 AACAATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (23 bp):
TTAAAAAGTTATATAATTAAATC
Found at i:4061635 original size:16 final size:16
Alignment explanation
Indices: 4061598--4061639 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
4061588 TTAATCATAT
*
4061598 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
4061614 TT-AAATATATTATAA
1 TTAAAATATATTATAA
4061629 TTAAAATATAT
1 TTAAAATATAT
4061640 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:4061646 original size:14 final size:15
Alignment explanation
Indices: 4061607--4061648 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4061597 TTTAAACATA
*
4061607 ATTATTATTAAATAT
1 ATTATAATTAAATAT
4061622 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
4061636 A-TATAATTTAATA
1 ATTATAATTAAATA
4061649 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:4061698 original size:61 final size:61
Alignment explanation
Indices: 4061633--4061940 Score: 271
Period size: 61 Copynumber: 5.1 Consensus size: 61
4061623 TTATAATTAA
4061633 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
4061694 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
4061753 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
4061814 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
*
4061873 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
4061934 AATATAT
1 AATATAT
4061941 GATACTATAA
Statistics
Matches: 186, Mismatches: 41, Indels: 40
0.70 0.15 0.15
Matches are distributed among these distances:
58 6 0.03
59 60 0.32
60 47 0.25
61 67 0.36
62 6 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:4061766 original size:14 final size:15
Alignment explanation
Indices: 4061717--4061768 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
4061707 ATAAAATATA
4061717 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
4061732 TATTAAATATATTAT
1 AATTAAATATATTAT
4061747 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
4061760 AATTTAATA
1 AATTAAATA
4061769 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Done.