Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 41 of 85
Found at i:13889970 original size:27 final size:27
Alignment explanation
Indices: 13889932--13889983 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
13889922 TTCCTAGTTT
13889932 CCTTGTTAAGCTTGCAATAGTCTATTG
1 CCTTGTTAAGCTTGCAATAGTCTATTG
*
13889959 CCTTGTTAAGCTTGCGATAGTCTAT
1 CCTTGTTAAGCTTGCAATAGTCTAT
13889984 GCATACTCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (27 bp):
CCTTGTTAAGCTTGCAATAGTCTATTG
Found at i:13890158 original size:15 final size:15
Alignment explanation
Indices: 13890134--13890164 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13890124 CATCAAGCCA
*
13890134 CTTGATAACTTCTTT
1 CTTGACAACTTCTTT
13890149 CTTGACAACTTCTTT
1 CTTGACAACTTCTTT
13890164 C
1 C
13890165 ATGATCGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.26, G:0.06, T:0.48
Consensus pattern (15 bp):
CTTGACAACTTCTTT
Found at i:13890514 original size:50 final size:50
Alignment explanation
Indices: 13890455--13890731 Score: 277
Period size: 50 Copynumber: 5.4 Consensus size: 50
13890445 TATCCAAGAT
* ** * * *
13890455 ATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTAGGTGCCAACGCCATGTCCCAGAC
** * *
13890505 ATGGTCTTACGGGGGACCTCTCATCTTGGAGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTAGGTGCCAACGCCATGTCCCAGAC
* *
13890555 ATGGTCTTACATGGGACCTCTCATCTCA-GTGCCAACACCGTGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCT-AGGTGCCAACGCCATGTCCCAGAC
* * * *
13890605 ATGGTCTTACATGGGACCTCTCATCTTGGTGCCAATGCCCTATCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTAGGTGCCAACGCCATGTCCCAGAC
* * * * * *
13890655 ATGGTCTTACATGAGACCTTTCATCTCGGTGGTGATGCCAATGTCATGACCCAGAC
1 ATGGTCTTACATGGGACCTCTCA--TC--TAG-G-TGCCAACGCCATGTCCCAGAC
*
13890711 ATGGTCTTACATGGGATCTCT
1 ATGGTCTTACATGGGACCTCT
13890732 TTACCCAAAT
Statistics
Matches: 188, Mismatches: 31, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
50 148 0.79
52 2 0.01
54 2 0.01
55 1 0.01
56 35 0.19
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATCTAGGTGCCAACGCCATGTCCCAGAC
Found at i:13890656 original size:150 final size:154
Alignment explanation
Indices: 13890455--13890731 Score: 364
Period size: 150 Copynumber: 1.8 Consensus size: 154
13890445 TATCCAAGAT
** * * * *
13890455 ATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGG
1 ATGGTCTTACATGAGACCTCTCATATAGGTGCCAATGCCATATCCCAGACATGGTCTTACAGGAG
*
13890520 ACCTCTCATCT-T-G-GA-GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT
66 ACCTCTCATCTGTGGTGATGCCAACGCCATGACCCAGACATGGTCTTACATGGGACCTCTCATCT
13890581 CAGTGCCAACACCGTGTCCCAGAC
131 CAGTGCCAACACCGTGTCCCAGAC
* * * * *
13890605 ATGGTCTTACATGGGACCTCTCATCTTGGTGCCAATGCCCTATCCCAGACATGGTCTTACATGAG
1 ATGGTCTTACATGAGACCTCTCATATAGGTGCCAATGCCATATCCCAGACATGGTCTTACAGGAG
* * * *
13890670 ACCTTTCATCTCGGTGGTGATGCCAATGTCATGACCCAGACATGGTCTTACATGGGATCTCT
66 ACCTCTCATCT--GTGGTGATGCCAACGCCATGACCCAGACATGGTCTTACATGGGACCTCT
13890732 TTACCCAAAT
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
150 64 0.61
153 1 0.01
154 1 0.01
155 2 0.02
156 37 0.35
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (154 bp):
ATGGTCTTACATGAGACCTCTCATATAGGTGCCAATGCCATATCCCAGACATGGTCTTACAGGAG
ACCTCTCATCTGTGGTGATGCCAACGCCATGACCCAGACATGGTCTTACATGGGACCTCTCATCT
CAGTGCCAACACCGTGTCCCAGAC
Found at i:13890679 original size:100 final size:100
Alignment explanation
Indices: 13890443--13890681 Score: 309
Period size: 100 Copynumber: 2.4 Consensus size: 100
13890433 CTGCAAATGT
* * ** * * ** *
13890443 CATATCCAAGATATGGTCTTACATGAGAGTTCTCATAT-AGGTGCCCATGCCATGTCCCAGACAT
1 CATATCCCAGACATGGTCTTACATGAGACCTCTCATCTCA-GTGCCAACACCGTGTCCCAGACAT
*
13890507 GGTCTTACGGGGGACCTCTCATCTTGGAGCCAACGC
65 GGTCTTACAGGGGACCTCTCATCTTGGAGCCAACGC
* *
13890543 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACACCGTGTCCCAGACATG
1 CATATCCCAGACATGGTCTTACATGAGACCTCTCATCTCAGTGCCAACACCGTGTCCCAGACATG
* * *
13890608 GTCTTACATGGGACCTCTCATCTTGGTGCCAATGC
66 GTCTTACAGGGGACCTCTCATCTTGGAGCCAACGC
* *
13890643 CCTATCCCAGACATGGTCTTACATGAGACCTTTCATCTC
1 CATATCCCAGACATGGTCTTACATGAGACCTCTCATCTC
13890682 GGTGGTGATG
Statistics
Matches: 119, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
100 118 0.99
101 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (100 bp):
CATATCCCAGACATGGTCTTACATGAGACCTCTCATCTCAGTGCCAACACCGTGTCCCAGACATG
GTCTTACAGGGGACCTCTCATCTTGGAGCCAACGC
Found at i:13898886 original size:50 final size:50
Alignment explanation
Indices: 13898831--13899080 Score: 302
Period size: 50 Copynumber: 4.9 Consensus size: 50
13898821 TTCTTATATA
* * * ** *
13898831 GGTGCCCATGCCATTTCCCAGACATGGTCTTACGGGGGACCTCTCATCTT
1 GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC
*
13898881 GGTGCCAACGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTC
1 GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC
* * *
13898931 GGTGCCAACGCCATGTCCTAGACATGTTCTTACATGAGACCTCTCATCTC
1 GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC
* * *
13898981 GATGCCAACGCCATGTACCAAACATGGTCTTACATGGGACCTCTCATAATCTC
1 GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC
* * *
13899034 AATGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ---GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
13899081 TTACCCAAAT
Statistics
Matches: 173, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
50 128 0.74
53 5 0.03
56 40 0.23
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (50 bp):
GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC
Found at i:13898909 original size:100 final size:100
Alignment explanation
Indices: 13898799--13899070 Score: 274
Period size: 100 Copynumber: 2.7 Consensus size: 100
13898789 TGTCATATCT
* ** * * * *
13898799 CAGATATGGTCTTAAATGAGAGTTCTTATATAGGTGCCCATGCCATTTCCCAGACATGGTCTTAC
1 CAGACATGGTCTTAAATGAGACCTCTCATATAGGTGCCAACGCCATGTCCCAGACATGGTCTTAC
* * * * *
13898864 GGGGGACCTCTCATCTTGGTGCCAACGCCATGTCC
66 AGGAGACCTCTCATCTCGATGCCAACGCCATGTAC
* * * * * *
13898899 CAGACATGGTCTTATATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCTAGACATGTTCTTAC
1 CAGACATGGTCTTAAATGAGACCTCTCATATAGGTGCCAACGCCATGTCCCAGACATGGTCTTAC
*
13898964 ATGAGACCTCTCATCTCGATGCCAACGCCATGTAC
66 AGGAGACCTCTCATCTCGATGCCAACGCCATGTAC
* * * * *
13898999 CAAACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATGTCCCAGACATGG
1 CAGACATGGTCTTAAATGAGACCTCTCAT-A--T--A-GGTGCCAACGCCATGTCCCAGACATGG
13899064 TCTTACA
60 TCTTACA
13899071 TGGGATCTCT
Statistics
Matches: 139, Mismatches: 27, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
100 108 0.78
103 1 0.01
106 30 0.22
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (100 bp):
CAGACATGGTCTTAAATGAGACCTCTCATATAGGTGCCAACGCCATGTCCCAGACATGGTCTTAC
AGGAGACCTCTCATCTCGATGCCAACGCCATGTAC
Found at i:13901740 original size:20 final size:20
Alignment explanation
Indices: 13901715--13901761 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
13901705 AGCTCGTTTC
*
13901715 CAGCTCACTT-GAGCTCAAGT
1 CAGCTCA-TTCGAGATCAAGT
*
13901735 CAGCTCATTCGAGATCAATT
1 CAGCTCATTCGAGATCAAGT
13901755 CAGCTCA
1 CAGCTCA
13901762 ATTTTAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.26
Consensus pattern (20 bp):
CAGCTCATTCGAGATCAAGT
Found at i:13910503 original size:12 final size:12
Alignment explanation
Indices: 13910486--13910523 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
13910476 GACATCACCA
13910486 AAATAAATGTCC
1 AAATAAATGTCC
13910498 AAATAAATGTCC
1 AAATAAATGTCC
13910510 AAATAAATGTCC
1 AAATAAATGTCC
13910522 AA
1 AA
13910524 TGTCCATTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.53, C:0.16, G:0.08, T:0.24
Consensus pattern (12 bp):
AAATAAATGTCC
Found at i:13916938 original size:23 final size:23
Alignment explanation
Indices: 13916907--13916982 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
13916897 AGTGTTATTG
*
13916907 ATCAGTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
13916930 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
13916953 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
13916976 ATCAGTG
1 ATCAGTG
13916983 TGACACTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:13924184 original size:21 final size:21
Alignment explanation
Indices: 13924160--13924202 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
13924150 ATTTTCAAGA
*
13924160 ACGAAAATTCTTTTACTAGGG
1 ACGAAAATTCCTTTACTAGGG
13924181 ACGAAAATTCCTTTACTAGGG
1 ACGAAAATTCCTTTACTAGGG
13924202 A
1 A
13924203 GGGTTGTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (21 bp):
ACGAAAATTCCTTTACTAGGG
Found at i:13928013 original size:20 final size:20
Alignment explanation
Indices: 13927980--13928064 Score: 66
Period size: 20 Copynumber: 4.2 Consensus size: 20
13927970 ATCATTAGTG
* * *
13927980 GCTTGACCATATTACTGGTA
1 GCTTGACTACATTACTGGCA
**
13928000 GCTTGACTACATTACTAACA
1 GCTTGACTACATTACTGGCA
* * *
13928020 G-TTTATCTGCAATACTGGTC-
1 GCTTGA-CTACATTACTGG-CA
13928040 GCTTGACTACATTACTGGCA
1 GCTTGACTACATTACTGGCA
13928060 GCTTG
1 GCTTG
13928065 TCTGCAGTTC
Statistics
Matches: 48, Mismatches: 13, Indels: 8
0.70 0.19 0.12
Matches are distributed among these distances:
19 4 0.08
20 40 0.83
21 4 0.08
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (20 bp):
GCTTGACTACATTACTGGCA
Found at i:13928069 original size:40 final size:40
Alignment explanation
Indices: 13927992--13928084 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
13927982 TTGACCATAT
*
13927992 TACTGGTAGCTTGACTACATTACTAACAGTTTATCTGCAA
1 TACTGGTAGCTTGACTACATTACTAACAGCTTATCTGCAA
* ** * *
13928032 TACTGGTCGCTTGACTACATTACTGGCAGCTTGTCTGCAG
1 TACTGGTAGCTTGACTACATTACTAACAGCTTATCTGCAA
* *
13928072 TTCTGGTGGCTTG
1 TACTGGTAGCTTG
13928085 TCCACAAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (40 bp):
TACTGGTAGCTTGACTACATTACTAACAGCTTATCTGCAA
Found at i:13929904 original size:26 final size:22
Alignment explanation
Indices: 13929843--13929901 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 22
13929833 ATTAAAACCG
*
13929843 AAATTATTAATAAAATATTTTA
1 AAATTATTATTAAAATATTTTA
*
13929865 AAATAAATTATTAAATATAATTTTA
1 AAAT-TATTATTAAA-AT-ATTTTA
13929890 TAAATTATTATT
1 -AAATTATTATT
13929902 TAATTTAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 4 0.13
23 8 0.27
24 2 0.07
25 12 0.40
26 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATTATTATTAAAATATTTTA
Found at i:13940055 original size:13 final size:13
Alignment explanation
Indices: 13940039--13940064 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13940029 ATACTTTAAA
13940039 AACACATTCATTC
1 AACACATTCATTC
13940052 AACACATTCATTC
1 AACACATTCATTC
13940065 CAAATACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (13 bp):
AACACATTCATTC
Found at i:13942087 original size:29 final size:29
Alignment explanation
Indices: 13942045--13942303 Score: 178
Period size: 29 Copynumber: 8.9 Consensus size: 29
13942035 GTGTGCTAAA
* * *
13942045 CGATGGTCGTAACCGTCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
13942074 CGATGGTCGAAACCATCCCTTTTCATTAAT
1 CGATGGTCGAAACCATCCCTTTTCA-TAAT
* * ** *
13942104 CGATAGTGGTCACCATCCCTTTTCATAGT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* * *
13942133 TGATGGTC-ATCACCATCCTTTTTCATAAT
1 CGATGGTCGA-AACCATCCCTTTTCATAAT
* * * * *
13942162 CAATAGCCGAAACTATCCCTTTCCATAAT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* ** * *
13942191 CGATCGTCGAGGCTATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
** **
13942220 CGATGGTCGTCACCATCCCTTTTCATTGT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* * ** *
13942249 TGATAGTCGTCACCATCCCTCTTCATAAT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* * * * *
13942278 CAATAGCCGAAGCTATCCCTTTTCAT
1 CGATGGTCGAAACCATCCCTTTTCAT
13942304 TGGTCGATGA
Statistics
Matches: 178, Mismatches: 49, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
29 153 0.86
30 25 0.14
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.35
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATAAT
Found at i:13942182 original size:58 final size:58
Alignment explanation
Indices: 13942055--13942303 Score: 205
Period size: 58 Copynumber: 4.3 Consensus size: 58
13942045 CGATGGTCGT
* * * ** *
13942055 AACCGTCCCTTTTCATA-TTCGATGGTCGAAACCATCCCTTTTCATTAATCGATAGTGGT
1 AACCATCCCTTTTCATAGTT-GATGGTCGACACCATCCCTTTTCA-TAATCAATAGCCGA
* *
13942114 CACCATCCCTTTTCATAGTTGATGGTC-ATCACCATCCTTTTTCATAATCAATAGCCGA
1 AACCATCCCTTTTCATAGTTGATGGTCGA-CACCATCCCTTTTCATAATCAATAGCCGA
* * * * * ** * * * * * *
13942172 AACTATCCCTTTCCATAATCGATCGTCGAGGCTATCCCTTTTCATATTCGATGGTCGT
1 AACCATCCCTTTTCATAGTTGATGGTCGACACCATCCCTTTTCATAATCAATAGCCGA
* * * * *
13942230 CACCATCCCTTTTCATTGTTGATAGTCGTCACCATCCCTCTTCATAATCAATAGCCGA
1 AACCATCCCTTTTCATAGTTGATGGTCGACACCATCCCTTTTCATAATCAATAGCCGA
* *
13942288 AGCTATCCCTTTTCAT
1 AACCATCCCTTTTCAT
13942304 TGGTCGATGA
Statistics
Matches: 144, Mismatches: 43, Indels: 7
0.74 0.22 0.04
Matches are distributed among these distances:
58 106 0.74
59 36 0.25
60 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.35
Consensus pattern (58 bp):
AACCATCCCTTTTCATAGTTGATGGTCGACACCATCCCTTTTCATAATCAATAGCCGA
Found at i:13942267 original size:87 final size:86
Alignment explanation
Indices: 13942045--13942318 Score: 257
Period size: 87 Copynumber: 3.1 Consensus size: 86
13942035 GTGTGCTAAA
* * *
13942045 CGATGGTCGTAACCGTCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATTAATCGATAG
1 CGATGGTCGTCACCATCCCTTTTCAT-TTCGATAGTCGAAACCATCCC-TTTCA-TAATCGATAG
* * *
13942110 TGGTCA-CCATCCCTTTTCATAGTT
63 TCG-AAGCTATCCCTTTTCATAGTT
* * * * * * *
13942134 -GATGGTCATCACCATCCTTTTTCATAATCAATAGCCGAAACTATCCCTTTCCATAATCGATCGT
1 CGATGGTCGTCACCATCCCTTTTCAT-TTCGATAGTCGAAACCATCCCTTT-CATAATCGATAGT
*
13942198 CGAGGCTATCCCTTTTCATA-TT
64 CGAAGCTATCCCTTTTCATAGTT
* ** * *
13942220 CGATGGTCGTCACCATCCCTTTTCATTGTTGATAGTCGTCACCATCCCTCTTCATAATCAATAGC
1 CGATGGTCGTCACCATCCCTTTTCATT-TCGATAGTCGAAACCATCCCT-TTCATAATCGATAGT
* *
13942285 CGAAGCTATCCCTTTTCATTGGT
64 CGAAGCTATCCCTTTTCATAGTT
*
13942308 CGATGATCGTC
1 CGATGGTCGTC
13942319 GATACGCTGT
Statistics
Matches: 149, Mismatches: 30, Indels: 13
0.78 0.16 0.07
Matches are distributed among these distances:
86 2 0.01
87 94 0.63
88 53 0.36
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (86 bp):
CGATGGTCGTCACCATCCCTTTTCATTTCGATAGTCGAAACCATCCCTTTCATAATCGATAGTCG
AAGCTATCCCTTTTCATAGTT
Found at i:13949465 original size:40 final size:40
Alignment explanation
Indices: 13949403--13949482 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
13949393 AACTATTGTA
*
13949403 TGAATGCACATACATGCACCTATTTATACTTCGGTACCCC
1 TGAATGCACATACATGCACCTATTCATACTTCGGTACCCC
* * *
13949443 TGAATGCACATACTTGCCCCTATTCGTACTTCGGTACCCC
1 TGAATGCACATACATGCACCTATTCATACTTCGGTACCCC
13949483 GAACACTCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.30
Consensus pattern (40 bp):
TGAATGCACATACATGCACCTATTCATACTTCGGTACCCC
Found at i:13951638 original size:25 final size:25
Alignment explanation
Indices: 13951610--13951657 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
13951600 TCTCCACTAA
* * *
13951610 ATTTAGTTTATATACCTTAATTAAG
1 ATTTAATTAATATAACTTAATTAAG
*
13951635 ATTTAATTAATCTAACTTAATTA
1 ATTTAATTAATATAACTTAATTA
13951658 GCTTAATCAT
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:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (25 bp):
ATTTAATTAATATAACTTAATTAAG
Found at i:13954667 original size:24 final size:24
Alignment explanation
Indices: 13954640--13954759 Score: 127
Period size: 24 Copynumber: 5.0 Consensus size: 24
13954630 TTTACTACAA
*
13954640 TATTGAGTGGCTTGGCCACAACGC
1 TATTGAGTGGCTTGACCACAACGC
* *
13954664 TATTGAGTGGCTTGTCCACAACGT
1 TATTGAGTGGCTTGACCACAACGC
* * **
13954688 TATTGTGTGGCTTGAACACAACAA
1 TATTGAGTGGCTTGACCACAACGC
* *
13954712 TGTTGAGTGGCTTTG-CCACAATG-
1 TATTGAGTGGC-TTGACCACAACGC
13954735 TGATTGAGTGGCTTGACCACAACGC
1 T-ATTGAGTGGCTTGACCACAACGC
13954760 AATTAAGTTC
Statistics
Matches: 78, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
23 4 0.05
24 71 0.91
25 3 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCACAACGC
Found at i:13962504 original size:56 final size:51
Alignment explanation
Indices: 13962437--13962620 Score: 183
Period size: 50 Copynumber: 3.5 Consensus size: 51
13962427 GGGTANNNNN
* ** *
13962437 GTAAGACCATGTCTGGGGCATGGCATTGGCATCATTGAGATTATGAGAGGTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCA--ACCGAG---ATGAGAGGTCCCAC
* *
13962493 GTAAGACCATGTCTGGGACATGGCGTTGG-AACCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCAACCGAGATGAGAGGTCCCAC
* * ** *
13962543 GTAAGACCATGTCTGGGACATGGCATGGGC-ACCGATATGAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCAACCGAGATGAGAGGTCCCAC
* * *
13962593 GTAAGACCATATTTGGGATATGGCATTG
1 GTAAGACCATGTCTGGGACATGGCATTG
13962621 TCAGTACAGA
Statistics
Matches: 110, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
50 78 0.71
53 4 0.04
55 1 0.01
56 27 0.25
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (51 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCAACCGAGATGAGAGGTCCCAC
Found at i:13962889 original size:12 final size:12
Alignment explanation
Indices: 13962872--13962910 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
13962862 ATTAGTTATT
13962872 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
13962884 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
13962896 TAAGTGAGTAAG
1 TAAGTAAGCAAG
13962908 TAA
1 TAA
13962911 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:13966026 original size:32 final size:32
Alignment explanation
Indices: 13965985--13966048 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
13965975 TTGAACTCGC
13965985 ATAGTGAGTTCACCTTTCTGCACATCAATTAA
1 ATAGTGAGTTCACCTTTCTGCACATCAATTAA
13966017 ATAGTGAGTTCACCTTTCTGCACATCAATTAA
1 ATAGTGAGTTCACCTTTCTGCACATCAATTAA
13966049 CATTCTTCCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (32 bp):
ATAGTGAGTTCACCTTTCTGCACATCAATTAA
Found at i:13968974 original size:39 final size:39
Alignment explanation
Indices: 13968930--13969008 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
13968920 ATATGGTAAG
* *
13968930 TATGAATTAAATGTGGCGTTGTTTAAGTTTGTAAATAAA
1 TATGAATTAAATATGGCGTTGCTTAAGTTTGTAAATAAA
*
13968969 TATGAATTAAATATGGTGTTGCTTAAGTTTGTAAATAAA
1 TATGAATTAAATATGGCGTTGCTTAAGTTTGTAAATAAA
13969008 T
1 T
13969009 CAAGTCAGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.37, C:0.03, G:0.19, T:0.42
Consensus pattern (39 bp):
TATGAATTAAATATGGCGTTGCTTAAGTTTGTAAATAAA
Found at i:13971813 original size:23 final size:26
Alignment explanation
Indices: 13971787--13971833 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
13971777 ATAAATAAAA
13971787 ATAT-TAAAT-TAAA-AATAATATAC
1 ATATATAAATATAAATAATAATATAC
*
13971810 ATATATATATATAAATAATAATAT
1 ATATATAAATATAAATAATAATAT
13971834 GGACAAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 4 0.20
25 4 0.20
26 8 0.40
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
ATATATAAATATAAATAATAATATAC
Found at i:13971833 original size:14 final size:14
Alignment explanation
Indices: 13971777--13971833 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
13971767 TATAGTTTTA
13971777 ATAAATAAAAATAT
1 ATAAATAAAAATAT
13971791 -TAAATTAAAAATAAT
1 ATAAA-TAAAAAT-AT
* * *
13971806 ATACATATATATAT
1 ATAAATAAAAATAT
*
13971820 ATAAATAATAATAT
1 ATAAATAAAAATAT
13971834 GGACAAGTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
13 4 0.12
14 19 0.58
15 7 0.21
16 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAAATAAAAATAT
Found at i:13973225 original size:22 final size:22
Alignment explanation
Indices: 13973185--13973242 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
13973175 GTCATATTAA
*
13973185 TAAATTTTAAA-ATATAAAAAT
1 TAAATTTTAAATGTATAAAAAT
13973206 TAAATTTTAAATGTATAAAAAT
1 TAAATTTTAAATGTATAAAAAT
* *
13973228 GACATTTTAACATGT
1 TAAATTTTAA-ATGT
13973243 GTCTTTCCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 11 0.34
22 17 0.53
23 4 0.12
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (22 bp):
TAAATTTTAAATGTATAAAAAT
Found at i:13979671 original size:23 final size:22
Alignment explanation
Indices: 13979626--13979683 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
13979616 AAAAGGTATC
* * *
13979626 TACAAATCAAAT-ATCTAATAT
1 TACAAATCATATCTTCTAAGAT
13979647 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
13979670 TACATATCATATCT
1 TACAAATCATATCT
13979684 AAGATTGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:13979681 original size:22 final size:23
Alignment explanation
Indices: 13979639--13979683 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
13979629 AAATCAAATA
*
13979639 TCTAATATTACAAAATCATATCT
1 TCTAAGATTACAAAATCATATCT
*
13979662 TCTAAGATTAC-ATATCATATCT
1 TCTAAGATTACAAAATCATATCT
13979684 AAGATTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.40, C:0.18, G:0.02, T:0.40
Consensus pattern (23 bp):
TCTAAGATTACAAAATCATATCT
Found at i:13985393 original size:27 final size:27
Alignment explanation
Indices: 13985363--13985414 Score: 88
Period size: 26 Copynumber: 1.9 Consensus size: 27
13985353 GTTAATAAAA
13985363 TTCTCTTTGAGTTTTCTTTT-GAAGAAT
1 TTCTC-TTGAGTTTTCTTTTAGAAGAAT
13985390 TTCTCTTGAGTTTTCTTTTAGAAGA
1 TTCTCTTGAGTTTTCTTTTAGAAGA
13985415 GTTTTAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.19, C:0.12, G:0.15, T:0.54
Consensus pattern (27 bp):
TTCTCTTGAGTTTTCTTTTAGAAGAAT
Found at i:13991913 original size:27 final size:27
Alignment explanation
Indices: 13991883--13991944 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
13991873 ACCTAAATCC
13991883 AAATGTAAAAACCTTACAGTTTCATTA
1 AAATGTAAAAACCTTACAGTTTCATTA
* * **
13991910 AAATATAAAAACTTTATGGTTTCATTA
1 AAATGTAAAAACCTTACAGTTTCATTA
13991937 AAATGTAA
1 AAATGTAA
13991945 CACTTACTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (27 bp):
AAATGTAAAAACCTTACAGTTTCATTA
Found at i:13992441 original size:15 final size:16
Alignment explanation
Indices: 13992412--13992450 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
13992402 TGATAGGCCT
*
13992412 AAAAAGGAAAGAAGAA
1 AAAAAAGAAAGAAGAA
13992428 AAAAAAGAAA-AAGAA
1 AAAAAAGAAAGAAGAA
13992443 AAATAAAG
1 AAA-AAAG
13992451 GTCTCAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (16 bp):
AAAAAAGAAAGAAGAA
Found at i:13992795 original size:19 final size:19
Alignment explanation
Indices: 13992771--13992863 Score: 77
Period size: 19 Copynumber: 5.1 Consensus size: 19
13992761 AATAAATTAC
*
13992771 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
13992790 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
** * * *
13992809 TGC-T-GGAATAAATT-A-C
1 T-CATCTTAGTTAATTAAGT
* *
13992825 TCATCTAAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
13992844 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
13992863 T
1 T
13992864 GTTGGAATAA
Statistics
Matches: 56, Mismatches: 13, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
15 1 0.02
16 2 0.04
17 7 0.12
18 7 0.12
19 38 0.68
20 1 0.02
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:13992820 original size:54 final size:54
Alignment explanation
Indices: 13992752--13992928 Score: 275
Period size: 54 Copynumber: 3.3 Consensus size: 54
13992742 ATAAGTATTT
*
13992752 AGTTCCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
*
13992806 AGTTGCTGGAATAAATTACTCATCTAAGTTAATTGAGTTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
* * * *
13992860 AGTTGTTGGAATAAATTACTCATCTTAGTTAATTAAGTTCAACTTAGTTCACTT-
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTT-AATTA
*
13992914 AGTTGCTGGATTAAA
1 AGTTGCTGGAATAAA
13992929 CTTTTAATGT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 110 0.97
55 3 0.03
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (54 bp):
AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
Found at i:13994246 original size:17 final size:18
Alignment explanation
Indices: 13994214--13994247 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13994204 GTGCATAGTT
13994214 TTTTGTGGCTTTCTATTC
1 TTTTGTGGCTTTCTATTC
*
13994232 TTTTGTGTC-TTCTATT
1 TTTTGTGGCTTTCTATT
13994248 GGCTAGAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.06, C:0.15, G:0.15, T:0.65
Consensus pattern (18 bp):
TTTTGTGGCTTTCTATTC
Found at i:13998054 original size:33 final size:33
Alignment explanation
Indices: 13998009--13998079 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
13997999 ATCCCTCCAG
*
13998009 CACACTAATGCTCAGAAGAGCTAATACAACCAA
1 CACACTAATGCTCAGAAGAGATAATACAACCAA
* * *
13998042 CACAC-AAGTGCTCATAAGAGATAGTCCAACCAA
1 CACACTAA-TGCTCAGAAGAGATAATACAACCAA
13998075 CACAC
1 CACAC
13998080 CAAACAGAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 2 0.06
33 31 0.94
ACGTcount: A:0.44, C:0.30, G:0.13, T:0.14
Consensus pattern (33 bp):
CACACTAATGCTCAGAAGAGATAATACAACCAA
Found at i:14003045 original size:36 final size:35
Alignment explanation
Indices: 14002939--14003059 Score: 109
Period size: 36 Copynumber: 3.3 Consensus size: 35
14002929 ACTCCCTCTT
* *
14002939 CTAGTGTGTTTCGGTTGGACTAGCTCTTCGAAGCAA
1 CTAGTGTGTTTCGGGTGGACTAGCTCTTTG-AGCAA
* **
14002975 CTAGTGTGTTATCGGGTGGACTGGCTCGCATGAGCAA
1 CTAGTGTGTT-TCGGGTGGACTAGCTC-TTTGAGCAA
* * * *
14003012 CTCGTGTGTTTTGGGTGGATTAGCTCTTTTGAGCAT
1 CTAGTGTGTTTCGGGTGGACTAGCTC-TTTGAGCAA
14003048 CT-GCTGTGTTTC
1 CTAG-TGTGTTTC
14003060 AGTTGGAATA
Statistics
Matches: 68, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
35 1 0.01
36 38 0.56
37 28 0.41
38 1 0.01
ACGTcount: A:0.15, C:0.18, G:0.31, T:0.36
Consensus pattern (35 bp):
CTAGTGTGTTTCGGGTGGACTAGCTCTTTGAGCAA
Found at i:14009440 original size:21 final size:21
Alignment explanation
Indices: 14009416--14009458 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
14009406 AAATGGTAAG
14009416 AATAAACATTTCTTCATTTTT
1 AATAAACATTTCTTCATTTTT
14009437 AATAAACATTTCTTCATTTTT
1 AATAAACATTTCTTCATTTTT
14009458 A
1 A
14009459 CTTCTCCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (21 bp):
AATAAACATTTCTTCATTTTT
Found at i:14012916 original size:18 final size:18
Alignment explanation
Indices: 14012893--14012929 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
14012883 AAACTAACTC
14012893 AGTTTTCCTCAGCCACAG
1 AGTTTTCCTCAGCCACAG
14012911 AGTTTTCCTCAGCCACAG
1 AGTTTTCCTCAGCCACAG
14012929 A
1 A
14012930 TGTGGTTGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.27
Consensus pattern (18 bp):
AGTTTTCCTCAGCCACAG
Found at i:14016553 original size:23 final size:23
Alignment explanation
Indices: 14016522--14016572 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
14016512 ACCTACTTTC
* *
14016522 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
14016545 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
14016568 TTACA
1 TTACA
14016573 TTTGTCTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:14041115 original size:50 final size:50
Alignment explanation
Indices: 14041010--14041301 Score: 264
Period size: 50 Copynumber: 5.7 Consensus size: 50
14041000 GGTAAAAAGA
*
14041010 TCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCCTTAAGATCATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC-TAA-A-CA--AGAGG
*
14041066 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCTAAACAAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAAACAAGAGG
* * * **
14041116 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAAACAAGAGG
* * * * ** **
14041166 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAAACAAGAGG
** * * * * * * **
14041216 TCCCATGTAAGATGATATCTGGGATATGGAATTGGTA-GTACAAGAA-ACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTA-AACAAGAGG
* *
14041265 TCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
14041302 TGTTATTATC
Statistics
Matches: 198, Mismatches: 37, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
49 31 0.16
50 124 0.63
52 2 0.01
53 1 0.01
54 3 0.02
55 2 0.01
56 35 0.18
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAAACAAGAGG
Found at i:14058371 original size:89 final size:89
Alignment explanation
Indices: 14058217--14058482 Score: 460
Period size: 89 Copynumber: 3.0 Consensus size: 89
14058207 TTGAGTTTCA
* ****
14058217 TGTAGGTGGGGGGAAAATAGGGTATTTTTAAAAAAACTTTGTGGTACTCTCAACTTTAACTCGTT
1 TGTAGGTGGGGGGAAAATAGGGCATTTTT---TTCCCTTTGTGGTACTCTCAACTTTAACTCGTT
14058282 TTTCAAAATAGTCCACACTTTAACTCG
63 TTTCAAAATAGTCCACACTTTAACTCG
14058309 TGTAGGTGGGGGGAAAATAGGGCATTTTTTTCCCTTTGTGGTACTCTCAACTTTAACTCGTTTTT
1 TGTAGGTGGGGGGAAAATAGGGCATTTTTTTCCCTTTGTGGTACTCTCAACTTTAACTCGTTTTT
14058374 CAAAATAGTCCACACTTTAACTCG
66 CAAAATAGTCCACACTTTAACTCG
14058398 TGTAGGTGGGGGGAAAATAGGGCATTTTTTTCCCTTTGTGGTACTCTCAACTTTAACTCGTTTTT
1 TGTAGGTGGGGGGAAAATAGGGCATTTTTTTCCCTTTGTGGTACTCTCAACTTTAACTCGTTTTT
14058463 CAAAATAGTCCACACTTTAA
66 CAAAATAGTCCACACTTTAA
14058483 AATTAAAGGT
Statistics
Matches: 169, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
89 141 0.83
92 28 0.17
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.36
Consensus pattern (89 bp):
TGTAGGTGGGGGGAAAATAGGGCATTTTTTTCCCTTTGTGGTACTCTCAACTTTAACTCGTTTTT
CAAAATAGTCCACACTTTAACTCG
Found at i:14058960 original size:18 final size:17
Alignment explanation
Indices: 14058939--14058987 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
14058929 CTATTTTTCA
14058939 TTTTAGTTTATTTTTGG
1 TTTTAGTTTATTTTTGG
* *
14058956 TTTTTA-TCTTTTTTTTTG
1 -TTTTAGT-TTATTTTTGG
14058974 TTTTAGTTTATTTT
1 TTTTAGTTTATTTT
14058988 CGGACAAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.78
Consensus pattern (17 bp):
TTTTAGTTTATTTTTGG
Found at i:14061861 original size:50 final size:50
Alignment explanation
Indices: 14061786--14062003 Score: 373
Period size: 50 Copynumber: 4.4 Consensus size: 50
14061776 ATTTGGGTAA
*
14061786 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
14061836 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
14061886 AGAGGTCCCTTGTAAGACCATGTCTGGGACATGGCTTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
14061936 AGAGGTCCCATGTAAGACCATGTATGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
**
14061986 AGAGGTCCCCGGTAAGAC
1 AGAGGTCCCATGTAAGAC
14062004 ATAGACGCTG
Statistics
Matches: 159, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 159 1.00
ACGTcount: A:0.25, C:0.22, G:0.33, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:14065283 original size:27 final size:27
Alignment explanation
Indices: 14065253--14065309 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
14065243 TTGGTTCCAG
*
14065253 GTACAACTCCCATTTCTATTGGCCCTT
1 GTACAACTCCCATTTCTATTGCCCCTT
14065280 GTACAACTCCCATTTCTATTGCCCCTT
1 GTACAACTCCCATTTCTATTGCCCCTT
14065307 GTA
1 GTA
14065310 GAATGACCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.19, C:0.33, G:0.11, T:0.37
Consensus pattern (27 bp):
GTACAACTCCCATTTCTATTGCCCCTT
Found at i:14068496 original size:50 final size:50
Alignment explanation
Indices: 14068414--14068546 Score: 230
Period size: 50 Copynumber: 2.7 Consensus size: 50
14068404 ATTTGGGTAA
* * *
14068414 AGAGGTCCCATGTAAGACCATGTCTAGAACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
14068464 AGAGGTCCCTTGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
14068514 AGAGGTCCCATGTAAGACCATGTCTGGGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATG
14068547 TAGCGCATTT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 78 1.00
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:14076873 original size:56 final size:50
Alignment explanation
Indices: 14076664--14076906 Score: 168
Period size: 50 Copynumber: 4.8 Consensus size: 50
14076654 AAATAGAAAT
* ** * *
14076664 ATGCCAAAGCCATGTCATAGACATGGTCTTACATGGGA--TGTT-TCTTG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCG
* * * * * * ** * *
14076711 TACTGCCAATGCTATATCCCAGATATAGTCTTACACGGGAGTTCTCATATCG
1 -A-TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCG
* * * * **
14076763 GTGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTTATCTCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCG
*
14076813 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTAAATG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT--T-ATCT---CG
** *
14076869 ATGCCAATTCCATGTCTCAGACATGGTCTTACATGGGA
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
14076907 TCTCATTCCC
Statistics
Matches: 150, Mismatches: 35, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
48 1 0.01
49 29 0.19
50 74 0.49
51 2 0.01
52 4 0.03
53 4 0.03
56 36 0.24
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.29
Consensus pattern (50 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCG
Found at i:14084206 original size:50 final size:53
Alignment explanation
Indices: 14084152--14084280 Score: 156
Period size: 56 Copynumber: 2.4 Consensus size: 53
14084142 GTGCCCATGT
* * * *
14084152 CATGTCCTAGACATGGTCTTACGGGGGACCTCT-T-ATCTC-GGTGCCAACGC
1 CATGTCCCAGACATGGTCTTACAGGCGACCTCTATAATCTCAGATGCCAACGC
* *
14084202 CATGTCCCAGACATGGTCTTACATGCGACCTCTCATAATCTCAATGATGCCAATGC
1 CATGTCCCAGACATGGTCTTACAGGCGACCTCT-ATAATCTC-A-GATGCCAACGC
14084258 CATGTCCCAGACATGGTCTTACA
1 CATGTCCCAGACATGGTCTTACA
14084281 TGGGATCTCA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
50 29 0.43
52 1 0.01
53 5 0.07
56 32 0.48
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.26
Consensus pattern (53 bp):
CATGTCCCAGACATGGTCTTACAGGCGACCTCTATAATCTCAGATGCCAACGC
Found at i:14085339 original size:17 final size:18
Alignment explanation
Indices: 14085317--14085351 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
14085307 AACTTTTTCA
14085317 CTTTTTAC-AATTTAGTT
1 CTTTTTACAAATTTAGTT
14085334 CTTTTTACTAAATTTAGT
1 CTTTTTAC-AAATTTAGT
14085352 CCCCAAACGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (18 bp):
CTTTTTACAAATTTAGTT
Found at i:14091060 original size:33 final size:33
Alignment explanation
Indices: 14091023--14091085 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
14091013 AAGAAGAAAA
14091023 TGGCCTAATTGTTCTAAGTAAAAGAGGACTAAG
1 TGGCCTAATTGTTCTAAGTAAAAGAGGACTAAG
14091056 TGGCCTAATTGTTCTAAGTAAAAGAGGACT
1 TGGCCTAATTGTTCTAAGTAAAAGAGGACT
14091086 GATCTAACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.29
Consensus pattern (33 bp):
TGGCCTAATTGTTCTAAGTAAAAGAGGACTAAG
Found at i:14091432 original size:20 final size:21
Alignment explanation
Indices: 14091395--14091437 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
14091385 CGTCTCTAAA
14091395 TTCTCTATTCATTCTCC-TCT
1 TTCTCTATTCATTCTCCTTCT
*
14091415 TTCTCTCTTCCATT-TCCTTCT
1 TTCTCTATT-CATTCTCCTTCT
14091436 TT
1 TT
14091438 ATTTTACTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.07, C:0.35, G:0.00, T:0.58
Consensus pattern (21 bp):
TTCTCTATTCATTCTCCTTCT
Found at i:14099370 original size:16 final size:16
Alignment explanation
Indices: 14099349--14099383 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
14099339 TTCTAGATGA
14099349 TTTAATTGAGGAAGAG
1 TTTAATTGAGGAAGAG
*
14099365 TTTAATTGAGGAGGAG
1 TTTAATTGAGGAAGAG
14099381 TTT
1 TTT
14099384 GCAGTGGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.37
Consensus pattern (16 bp):
TTTAATTGAGGAAGAG
Found at i:14113057 original size:56 final size:50
Alignment explanation
Indices: 14112954--14113088 Score: 164
Period size: 56 Copynumber: 2.6 Consensus size: 50
14112944 GCTGCCCATG
* *
14112954 CCATGTCCCTA-ACATGGTCTTACGGGGGACCTCTCACCTCAGTGCCAACA
1 CCATGTCCC-AGACATGGTCTTACGTGGGACCTCTCACCTCAATGCCAACA
**
14113004 CCATGTCCCAGACATGGTCTTACGTGGGACCTCTCAGAACCTCAATAATGCCAATG
1 CCATGTCCCAGACATGGTCTTACGTGGGACCTCTC---ACCTC---AATGCCAACA
14113060 CCATGTCCCAGACATGGTCTTACGTGGGA
1 CCATGTCCCAGACATGGTCTTACGTGGGA
14113089 TCTCATTCCC
Statistics
Matches: 74, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
49 1 0.01
50 32 0.43
53 5 0.07
56 36 0.49
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACGTGGGACCTCTCACCTCAATGCCAACA
Found at i:14120305 original size:20 final size:20
Alignment explanation
Indices: 14120280--14120319 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
14120270 TACTTTCTTC
14120280 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
14120300 TTTACTTACTTGCTTACTTG
1 TTTACTTACTTGCTTACTTG
14120320 AATAACTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.15, C:0.23, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:14132574 original size:14 final size:14
Alignment explanation
Indices: 14132557--14132585 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14132547 AGGCATACTT
14132557 ACTGAGTCATACAA
1 ACTGAGTCATACAA
14132571 ACTGAGTCATACAA
1 ACTGAGTCATACAA
14132585 A
1 A
14132586 TTCTTTCTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.21
Consensus pattern (14 bp):
ACTGAGTCATACAA
Found at i:14139747 original size:25 final size:25
Alignment explanation
Indices: 14139715--14139785 Score: 124
Period size: 25 Copynumber: 2.8 Consensus size: 25
14139705 CAGGCCCATT
*
14139715 TTCATAGCTCAAGTGAGCATACTTA
1 TTCATAGCTCATGTGAGCATACTTA
14139740 TTCATAGCTCATGTGAGCATACTTA
1 TTCATAGCTCATGTGAGCATACTTA
*
14139765 TTCACAGCTCATGTGAGCATA
1 TTCATAGCTCATGTGAGCATA
14139786 TATGTAAAGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (25 bp):
TTCATAGCTCATGTGAGCATACTTA
Found at i:14149985 original size:20 final size:20
Alignment explanation
Indices: 14149864--14149990 Score: 85
Period size: 20 Copynumber: 6.3 Consensus size: 20
14149854 TTGTGTGGGA
*
14149864 TTTGCACTTTGGTGCCCCTA
1 TTTGCACTTTGGTGCCCCTG
* *
14149884 TTTGCACTTTGATGCCTCTG
1 TTTGCACTTTGGTGCCCCTG
* * * * *** *
14149904 TATACACTTCGGCGTTTCTA
1 TTTGCACTTTGGTGCCCCTG
** **
14149924 TTCACACTACGGTGCCCCTG
1 TTTGCACTTTGGTGCCCCTG
*
14149944 TTTGCACATTT-GTGCCCTTG
1 TTTGCAC-TTTGGTGCCCCTG
14149964 TTTGCACTTTGGTGCCCCTG
1 TTTGCACTTTGGTGCCCCTG
14149984 TTATGCA
1 TT-TGCA
14149991 TCTATGATGC
Statistics
Matches: 79, Mismatches: 25, Indels: 5
0.72 0.23 0.05
Matches are distributed among these distances:
19 3 0.04
20 71 0.90
21 5 0.06
ACGTcount: A:0.13, C:0.28, G:0.20, T:0.39
Consensus pattern (20 bp):
TTTGCACTTTGGTGCCCCTG
Found at i:14153762 original size:17 final size:19
Alignment explanation
Indices: 14153723--14153763 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
14153713 TATGAGTCTT
* *
14153723 GATGTGAGTTTTGAATCGG
1 GATGAGAGTTTTGAATCGC
14153742 GATGAGAGTTTTG-AT-GC
1 GATGAGAGTTTTGAATCGC
14153759 GATGA
1 GATGA
14153764 TTTTTACTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 6 0.30
18 2 0.10
19 12 0.60
ACGTcount: A:0.24, C:0.05, G:0.37, T:0.34
Consensus pattern (19 bp):
GATGAGAGTTTTGAATCGC
Found at i:14155534 original size:20 final size:19
Alignment explanation
Indices: 14155511--14155550 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
14155501 TCGCACTACG
*
14155511 GTGCCCATGTTTGCACATTT
1 GTGCCCATGTCTGCAC-TTT
*
14155531 GTGCCCCTGTCTGCACTTT
1 GTGCCCATGTCTGCACTTT
14155550 G
1 G
14155551 GGGCCTTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.10, C:0.30, G:0.23, T:0.38
Consensus pattern (19 bp):
GTGCCCATGTCTGCACTTT
Found at i:14159769 original size:51 final size:49
Alignment explanation
Indices: 14159644--14159821 Score: 157
Period size: 51 Copynumber: 3.5 Consensus size: 49
14159634 GATGGTCACG
*
14159644 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAATGATA-GTCGCA
* * *
14159694 TGTGTAGTGCTATGTGCAGGCTACTATGCGTACCGG-AT-AGT-TTCGATCA
1 TGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAATGA-TAGTCG--CA
** * * *
14159743 TGTATGTAGTACTATGTGCAGGCTACTACATGTATCGG-ATGGTAATGGTCACA
1 TG--TGTAGTACTATGTGCAGGCTACTACGCGTACCGGAAT-G--ATAGTCGCA
*
14159796 TGTGTAGTTCTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
14159822 TGTGAACCGA
Statistics
Matches: 106, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
47 3 0.03
48 1 0.01
49 7 0.07
50 33 0.31
51 54 0.51
53 4 0.04
54 1 0.01
55 3 0.03
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGAATGATAGTCGCA
Found at i:14166885 original size:22 final size:24
Alignment explanation
Indices: 14166859--14166921 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 24
14166849 TAATGAACAA
14166859 AGAGCACTGAA-GTGCT-AT-ACAG
1 AGAGCA-TGAATGTGCTAATCACAG
14166881 AGAGCATGAATGTGCTAATCAC--
1 AGAGCATGAATGTGCTAATCACAG
14166903 AGAGCA-GTAATGTGCTAAT
1 AGAGCATG-AATGTGCTAAT
14166922 AATTAGAGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
21 5 0.14
22 28 0.76
23 2 0.05
24 2 0.05
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (24 bp):
AGAGCATGAATGTGCTAATCACAG
Found at i:14184209 original size:15 final size:15
Alignment explanation
Indices: 14184189--14184217 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14184179 CTCAAAATTC
14184189 AGCTTGCTTTGTTGA
1 AGCTTGCTTTGTTGA
14184204 AGCTTGCTTTGTTG
1 AGCTTGCTTTGTTG
14184218 TCGCGACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.14, G:0.28, T:0.48
Consensus pattern (15 bp):
AGCTTGCTTTGTTGA
Found at i:14187159 original size:77 final size:77
Alignment explanation
Indices: 14187032--14187177 Score: 229
Period size: 77 Copynumber: 1.9 Consensus size: 77
14187022 TCACCTTGTC
* ***
14187032 CTTAATCTCTTTGGGAGAATATTTTTTCTCCCAATATGCTCCTATTTTATCTCATGGTAACCATT
1 CTTAATCTCTTTGGGACAATATACATTCTCCCAATATGCTCCTATTTTATCTCATGGTAACCATT
14187097 ACATAGAATATT
66 ACATAGAATATT
* **
14187109 CTTAATCTCTTTGGGACAATATACATTCTTCCAATATGCTCCTATTTTATCTCATGGTAGTCATT
1 CTTAATCTCTTTGGGACAATATACATTCTCCCAATATGCTCCTATTTTATCTCATGGTAACCATT
14187174 ACAT
66 ACAT
14187178 CTTCCTTCAT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
77 62 1.00
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (77 bp):
CTTAATCTCTTTGGGACAATATACATTCTCCCAATATGCTCCTATTTTATCTCATGGTAACCATT
ACATAGAATATT
Found at i:14189337 original size:15 final size:15
Alignment explanation
Indices: 14189317--14189348 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
14189307 GTTCAAATAT
14189317 ATAGAAAATAATTAC
1 ATAGAAAATAATTAC
14189332 ATAGAAAATAATTAC
1 ATAGAAAATAATTAC
14189347 AT
1 AT
14189349 GTTTACTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.28
Consensus pattern (15 bp):
ATAGAAAATAATTAC
Found at i:14208533 original size:22 final size:22
Alignment explanation
Indices: 14208503--14208545 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
14208493 ACACCAAGAC
*
14208503 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
14208525 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
14208546 AGCGCCGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:14208664 original size:43 final size:43
Alignment explanation
Indices: 14208623--14208964 Score: 267
Period size: 43 Copynumber: 8.0 Consensus size: 43
14208613 AATAAATGCT
* * ** *
14208623 GCTAAAGACCAAGATCTTTAGCGGCGCTTTAACCACAAATGCC
1 GCTAAAGACCATGGTCTTTAGCGGCGCTTTTCCCACAAACGCC
* *
14208666 GCTGAAGGCCATGGTCTTTAGCGGCGCTTTTCCCACAAACGCC
1 GCTAAAGACCATGGTCTTTAGCGGCGCTTTTCCCACAAACGCC
** *
14208709 GCTAAAGGTCATGGTCTTCAGCGGCGCTTTTCCCACAAACGCC
1 GCTAAAGACCATGGTCTTTAGCGGCGCTTTTCCCACAAACGCC
* * * * * * *** *
14208752 GCTAAAGATCACGCTCTTTAACGACACTTTTATGACAAACACC
1 GCTAAAGACCATGGTCTTTAGCGGCGCTTTTCCCACAAACGCC
** * * **
14208795 GCTAAAGGTCATGGTCTTTAGCGGCAC-TTACAAAACAAACGCC
1 GCTAAAGACCATGGTCTTTAGCGGCGCTTTTC-CCACAAACGCC
* ** * * *
14208838 GCTAACGATAATGATCTTTAGCGGCGCTTCT-CCAGAAAACGCC
1 GCTAAAGACCATGGTCTTTAGCGGCGCTTTTCCCA-CAAACGCC
* * * * * *
14208881 GCTAAAGACCCTGATCGTTAGCGGTGCCTTT-CCAGAAAACGCC
1 GCTAAAGACCATGGTCTTTAGCGGCGCTTTTCCCA-CAAACGCC
* * *
14208924 GCTGAAGACCATGATCTTTAGCGGCACTTTTCCCACAAACG
1 GCTAAAGACCATGGTCTTTAGCGGCGCTTTTCCCACAAACG
14208965 GTACTAATTT
Statistics
Matches: 239, Mismatches: 56, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
42 3 0.01
43 232 0.97
44 4 0.02
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (43 bp):
GCTAAAGACCATGGTCTTTAGCGGCGCTTTTCCCACAAACGCC
Found at i:14208962 original size:129 final size:129
Alignment explanation
Indices: 14208657--14208964 Score: 313
Period size: 129 Copynumber: 2.4 Consensus size: 129
14208647 CGCTTTAACC
* * * *
14208657 ACAAATGCCGCTGAAGGCCATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGGTCATG
1 ACAAACGCCGCTGAAGGCCATGGTCTTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGATAATG
* * * * * *
14208722 GTCTTCAGCGGCGCTTTTCCCACAAACGCCGCTAAAGATCACGCTCTTTAACGACACTTTTATG
66 ATCTTCAGCGGCGCTTCTCCCAAAAACGCCGCTAAAGATCACGATCGTTAACGACACTTTCATG
* * * * ** *
14208786 ACAAACACCGCTAAAGGTCATGGTCTTTAGCGGCAC-TTACAAAACAAACGCCGCTAACGATAAT
1 ACAAACGCCGCTGAAGGCCATGGTCTTTAGCGGCACTTTTC-CCACAAACGCCGCTAAAGATAAT
* * * *
14208850 GATCTTTAGCGGCGCTTCT-CCAGAAAACGCCGCTAAAGA-CCCTGATCGTTAGCGGTGC-CTTT
65 GATCTTCAGCGGCGCTTCTCCCA-AAAACGCCGCTAAAGATCAC-GATCGTTAAC-G-ACACTTT
14208912 CCA-G
126 -CATG
* *
14208916 A-AAACGCCGCTGAAGACCATGATCTTTAGCGGCACTTTTCCCACAAACG
1 ACAAACGCCGCTGAAGGCCATGGTCTTTAGCGGCACTTTTCCCACAAACG
14208965 GTACTAATTT
Statistics
Matches: 143, Mismatches: 29, Indels: 14
0.77 0.16 0.08
Matches are distributed among these distances:
128 8 0.06
129 123 0.86
130 10 0.07
131 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (129 bp):
ACAAACGCCGCTGAAGGCCATGGTCTTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGATAATG
ATCTTCAGCGGCGCTTCTCCCAAAAACGCCGCTAAAGATCACGATCGTTAACGACACTTTCATG
Found at i:14209321 original size:21 final size:21
Alignment explanation
Indices: 14209292--14209351 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
14209282 TTTTATGCTG
* *
14209292 CTCTGCTTCCCTCACTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
*
14209313 CTCTACTTCCCTCGCTCCAGC
1 CTCTACTTCCCTCGCTGCAGC
*
14209334 CTCTACTTCTCTCGCTGC
1 CTCTACTTCCCTCGCTGC
14209352 CGCATCTGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.08, C:0.48, G:0.12, T:0.32
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGCAGC
Found at i:14209423 original size:66 final size:66
Alignment explanation
Indices: 14209353--14209477 Score: 173
Period size: 66 Copynumber: 1.9 Consensus size: 66
14209343 TCTCGCTGCC
*
14209353 GCATCTGCTTTAAGCTGCT-GCTAGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTTGCT
1 GCATCTACTTTAAGCTG-TAGCTAGAGTTCTTCATATCTTT-GTTGAACCTCAGCTTCTCTTGCT
14209416 ATT
64 ATT
* * * *
14209419 GCATCTACTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTCCGCTTCTCT
1 GCATCTACTTTAAGCTGTAGCTAGAGTTCTTCATATCTTTGTTGAACCTCAGCTTCTCT
14209478 CGATGTTGCC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
65 1 0.02
66 47 0.90
67 4 0.08
ACGTcount: A:0.17, C:0.25, G:0.16, T:0.42
Consensus pattern (66 bp):
GCATCTACTTTAAGCTGTAGCTAGAGTTCTTCATATCTTTGTTGAACCTCAGCTTCTCTTGCTAT
T
Found at i:14209496 original size:66 final size:66
Alignment explanation
Indices: 14209353--14209502 Score: 171
Period size: 66 Copynumber: 2.3 Consensus size: 66
14209343 TCTCGCTGCC
* * * * *
14209353 GCATCTGCTTTAAGCTGCT-GCTAGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTTGCTA
1 GCATCTACTTTAAGTTG-TAGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATA
14209417 TT
65 TT
* * *
14209419 GCATCTACTTTAAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTGAACCTCCGCTTCTCTCGATG
1 GCATCTACTTTAAGTTGTAGCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATA
14209483 TT
65 TT
*
14209485 GCCTCCT-CTTTAAGTTGT
1 GCAT-CTACTTTAAGTTGT
14209503 GTAATTTGCT
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
65 1 0.01
66 65 0.90
67 6 0.08
ACGTcount: A:0.16, C:0.25, G:0.17, T:0.43
Consensus pattern (66 bp):
GCATCTACTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATAT
T
Found at i:14214923 original size:9 final size:9
Alignment explanation
Indices: 14214906--14215251 Score: 119
Period size: 9 Copynumber: 40.9 Consensus size: 9
14214896 TAAGTATAAT
*
14214906 TAAGCTATG
1 TAAGTTATG
14214915 TAAGTTATG
1 TAAGTTATG
*
14214924 TAAGTTATA
1 TAAGTTATG
*
14214933 TAAGTTGTG
1 TAAGTTATG
*
14214942 T-A-TAATG
1 TAAGTTATG
14214949 TAAGTTATG
1 TAAGTTATG
*
14214958 AAAGTTATG
1 TAAGTTATG
14214967 T-A-TTATG
1 TAAGTTATG
*
14214974 TAAGTTATT
1 TAAGTTATG
*
14214983 TAAGTTGTG
1 TAAGTTATG
14214992 T-A-TTATG
1 TAAGTTATG
*
14214999 TAAGTCATG
1 TAAGTTATG
* *
14215008 TAGGCTATG
1 TAAGTTATG
14215017 T--GTTATG
1 TAAGTTATG
14215024 TAAGTTAT-
1 TAAGTTATG
*
14215032 T-A--TAAG
1 TAAGTTATG
14215038 TAAGTTATG
1 TAAGTTATG
* *
14215047 AAAGTTATATA
1 TAAG-T-TATG
*
14215058 TAAGTTTATATA
1 TAAG--T-TATG
14215070 TAAGTTATG
1 TAAGTTATG
14215079 TAAGTTA--
1 TAAGTTATG
14215086 T-A--TATG
1 TAAGTTATG
*
14215092 TAAGCTATG
1 TAAGTTATG
*
14215101 T--GTTGTG
1 TAAGTTATG
*
14215108 TAAGTTTATATA
1 TAAG--T-TATG
*
14215120 TAAATTTTAT-
1 T-AA-GTTATG
14215130 TCAAGTTATG
1 T-AAGTTATG
14215140 --A---ATG
1 TAAGTTATG
14215144 TAAGTTATG
1 TAAGTTATG
*
14215153 TAAGTTGTG
1 TAAGTTATG
*
14215162 T--GTAATG
1 TAAGTTATG
*
14215169 TAAGCTATG
1 TAAGTTATG
14215178 T-A-TTATG
1 TAAGTTATG
*
14215185 TAAGTTATT
1 TAAGTTATG
*
14215194 TAAGTTATT
1 TAAGTTATG
*
14215203 TAAGTTGTG
1 TAAGTTATG
14215212 T-A-TTATG
1 TAAGTTATG
*
14215219 TAAGTCATG
1 TAAGTTATG
* *
14215228 TAGGGTATG
1 TAAGTTATG
14215237 T--GTTATG
1 TAAGTTATG
14215244 TAAGTTAT
1 TAAGTTAT
14215252 TATAAGTAAG
Statistics
Matches: 250, Mismatches: 46, Indels: 82
0.66 0.12 0.22
Matches are distributed among these distances:
4 5 0.02
5 2 0.01
6 4 0.02
7 52 0.21
8 11 0.04
9 144 0.58
10 5 0.02
11 10 0.04
12 15 0.06
13 2 0.01
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:14214953 original size:25 final size:25
Alignment explanation
Indices: 14214919--14215038 Score: 134
Period size: 25 Copynumber: 4.8 Consensus size: 25
14214909 GCTATGTAAG
14214919 TTATGTAAGTTATATAAGTTGTGTA
1 TTATGTAAGTTATATAAGTTGTGTA
* *
14214944 TAATGTAAGTTATGA-AAGTTATGTA
1 TTATGTAAGTTAT-ATAAGTTGTGTA
*
14214969 TTATGTAAGTTATTTAAGTTGTGTA
1 TTATGTAAGTTATATAAGTTGTGTA
* * * * * *
14214994 TTATGTAAGTCATGTAGGCTATGTG
1 TTATGTAAGTTATATAAGTTGTGTA
14215019 TTATGTAAGTTATTATAAGT
1 TTATGTAAGTTA-TATAAGT
14215039 AAGTTATGAA
Statistics
Matches: 77, Mismatches: 15, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
25 72 0.94
26 5 0.06
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.46
Consensus pattern (25 bp):
TTATGTAAGTTATATAAGTTGTGTA
Found at i:14214974 original size:50 final size:50
Alignment explanation
Indices: 14214907--14215038 Score: 174
Period size: 50 Copynumber: 2.6 Consensus size: 50
14214897 AAGTATAATT
*
14214907 AAGCTATGTAAGTTATGTAAGTTATATAAGTTGTGTATAATGTAAGTTATGA
1 AAGCTATGT-A-TTATGTAAGTTATATAAGTTGTGTATAATGTAAGTCATGA
* * * *
14214959 AAGTTATGTATTATGTAAGTTATTTAAGTTGTGTATTATGTAAGTCATGT
1 AAGCTATGTATTATGTAAGTTATATAAGTTGTGTATAATGTAAGTCATGA
* *
14215009 AGGCTATGTGTTATGTAAGTTATTATAAGT
1 AAGCTATGTATTATGTAAGTTA-TATAAGT
14215039 AAGTTATGAA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
50 55 0.79
51 7 0.10
52 8 0.11
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (50 bp):
AAGCTATGTATTATGTAAGTTATATAAGTTGTGTATAATGTAAGTCATGA
Found at i:14215051 original size:23 final size:24
Alignment explanation
Indices: 14215018--14215062 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
14215008 TAGGCTATGT
*
14215018 GTTATGTAAGTTAT-TATAAGTAA
1 GTTATGAAAGTTATATATAAGTAA
14215041 GTTATGAAAGTTATATATAAGT
1 GTTATGAAAGTTATATATAAGT
14215063 TTATATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.42
Consensus pattern (24 bp):
GTTATGAAAGTTATATATAAGTAA
Found at i:14215069 original size:10 final size:11
Alignment explanation
Indices: 14215048--14215090 Score: 54
Period size: 12 Copynumber: 4.0 Consensus size: 11
14215038 TAAGTTATGA
14215048 AAGTTATATAT
1 AAGTTATATAT
14215059 AAGTTTATATAT
1 AAG-TTATATAT
*
14215071 AAG-T-TATGT
1 AAGTTATATAT
14215080 AAGTTATATAT
1 AAGTTATATAT
14215091 GTAAGCTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
11 7 0.26
12 11 0.41
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.47
Consensus pattern (11 bp):
AAGTTATATAT
Found at i:14215136 original size:52 final size:51
Alignment explanation
Indices: 14215058--14215162 Score: 126
Period size: 52 Copynumber: 2.0 Consensus size: 51
14215048 AAGTTATATA
14215058 TAAGTTTATATATAAGTTATGTAAGTTAT-ATATGTAAGCTATGT-GTTGTG
1 TAAGTTTATATATAAGTTATGTAAGTTATGA-ATGTAAGCTATGTAGTTGTG
* *
14215108 TAAGTTTATATATAAATTTTAT-TCAAGTTATGAATGTAAGTTATGTAAGTTGTG
1 TAAGTTTATATAT-AA-GTTATGT-AAGTTATGAATGTAAGCTATGT-AGTTGTG
14215162 T
1 T
14215163 GTAATGTAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
50 13 0.28
51 3 0.06
52 23 0.49
53 1 0.02
54 7 0.15
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (51 bp):
TAAGTTTATATATAAGTTATGTAAGTTATGAATGTAAGCTATGTAGTTGTG
Found at i:14215223 original size:16 final size:16
Alignment explanation
Indices: 14215148--14215229 Score: 74
Period size: 16 Copynumber: 5.0 Consensus size: 16
14215138 TGAATGTAAG
* *
14215148 TTATGTAAGTTGTGTG
1 TTATGTAAGTTATGTA
* *
14215164 TAATGTAAGCTATGTA
1 TTATGTAAGTTATGTA
*
14215180 TTATGTAAGTTATTTAA
1 TTATGTAAGTTATGT-A
* *
14215197 GTTATTTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
*
14215214 TTATGTAAGTCATGTA
1 TTATGTAAGTTATGTA
14215230 GGGTATGTGT
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
16 37 0.73
17 2 0.04
18 12 0.24
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.48
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:14215287 original size:32 final size:32
Alignment explanation
Indices: 14215251--14215412 Score: 106
Period size: 32 Copynumber: 5.0 Consensus size: 32
14215241 ATGTAAGTTA
*
14215251 TTATAAGTAAGTTGTGAAAGTTATATATAAGT
1 TTATAAGTAAGTTGTGTAAGTTATATATAAGT
* * *
14215283 TTATATA-TAAGTTATGTAAGTTATTGTGTAAG-
1 TTATA-AGTAAGTTGTGTAAGTTA-TATATAAGT
*
14215315 TTAT--GT--GTTGTGTAAGTTTATATATAAACT
1 TTATAAGTAAGTTGTGTAAG-TTATATAT-AAGT
* *
14215345 TTATTTAAGTTA-TGTATGTAAGTTATATATAAGT
1 TTA--TAAGTAAGT-TGTGTAAGTTATATATAAGT
* *
14215379 TTATATA-TAAGTTATGTAAGTTATTATGTAAGT
1 TTATA-AGTAAGTTGTGTAAGTTA-TATATAAGT
14215412 T
1 T
14215413 ATGTGTTGTG
Statistics
Matches: 102, Mismatches: 12, Indels: 31
0.70 0.08 0.21
Matches are distributed among these distances:
28 12 0.12
29 5 0.05
30 4 0.04
32 39 0.38
33 18 0.18
34 8 0.08
35 9 0.09
36 7 0.07
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.48
Consensus pattern (32 bp):
TTATAAGTAAGTTGTGTAAGTTATATATAAGT
Found at i:14215289 original size:10 final size:11
Alignment explanation
Indices: 14215268--14215297 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
14215258 TAAGTTGTGA
14215268 AAGTTATATAT
1 AAGTTATATAT
14215279 AAGTTTATATAT
1 AAG-TTATATAT
14215291 AAGTTAT
1 AAGTTAT
14215298 GTAAGTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (11 bp):
AAGTTATATAT
Found at i:14215303 original size:220 final size:219
Alignment explanation
Indices: 14214921--14215373 Score: 757
Period size: 220 Copynumber: 2.1 Consensus size: 219
14214911 TATGTAAGTT
*
14214921 ATGTAAGTTATATAAGTTGTGTATAATGTAAGTTATGAAAGTTATGTATTATGTAAGTTATTTAA
1 ATGTAAGTTATATAAGTTGTGTATAATGTAAGCTATGAAAGTTATGTATTATGTAAGTTATTTAA
14214986 GTTGTGTATTATGTAAGTCATGTAGGCTATGTGTTATGTAAGTTATTATAAGTAAGTTATGAAAG
66 GTTGTGTATTATGTAAGTCATGTAGGCTATGTGTTATGTAAGTTATTATAAGTAAGTTATGAAAG
14215051 TTATATATAAGTTTATATATAAGTTATGTAAGTTATATATGTAAGCTATGTGTTGTGTAAGTTTA
131 TTATATATAAGTTTATATATAAGTTATGTAAGTTAT-TATGTAAGCTATGTGTTGTGTAAGTTTA
*
14215116 TATATAAATTTTATTCAAGTTATGA
195 TATATAAACTTTATTCAAGTTATGA
* * * *
14215141 ATGTAAGTTATGTAAGTTGTGTGTAATGTAAGCTATG-TA-TTATGTAAGTTATTTAAGTTATTT
1 ATGTAAGTTATATAAGTTGTGTATAATGTAAGCTATGAAAGTTATGT-A-TTATGTAAGTTATTT
* *
14215204 AAGTTGTGTATTATGTAAGTCATGTAGGGTATGTGTTATGTAAGTTATTATAAGTAAGTTGTGAA
64 AAGTTGTGTATTATGTAAGTCATGTAGGCTATGTGTTATGTAAGTTATTATAAGTAAGTTATGAA
* *
14215269 AGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTAAGTTATGTGTTGTGTAAGTTT
129 AGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTAAGCTATGTGTTGTGTAAGTTT
* *
14215334 ATATATAAACTTTATTTAAGTTATGT
194 ATATATAAACTTTATTCAAGTTATGA
14215360 ATGTAAGTTATATA
1 ATGTAAGTTATATA
14215374 TAAGTTTATA
Statistics
Matches: 218, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
218 6 0.03
219 63 0.29
220 149 0.68
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (219 bp):
ATGTAAGTTATATAAGTTGTGTATAATGTAAGCTATGAAAGTTATGTATTATGTAAGTTATTTAA
GTTGTGTATTATGTAAGTCATGTAGGCTATGTGTTATGTAAGTTATTATAAGTAAGTTATGAAAG
TTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTAAGCTATGTGTTGTGTAAGTTTAT
ATATAAACTTTATTCAAGTTATGA
Found at i:14215304 original size:21 final size:21
Alignment explanation
Indices: 14215278--14215416 Score: 66
Period size: 21 Copynumber: 6.0 Consensus size: 21
14215268 AAGTTATATA
14215278 TAAGTTTATATATAAGTTATG
1 TAAGTTTATATATAAGTTATG
* *
14215299 TAAG-TTATTGTGTAAGTTATGTGTTG
1 TAAGTTTA-TATATAAGTTA-----TG
* *
14215325 TGTAAGTTTATATATAAACTTTATT
1 --TAAGTTTATATAT-AA-GTTATG
* * *
14215350 TAAGTTATGTATGTAAGTTATATA
1 TAAGTT-TATATATAAG-T-TATG
14215374 TAAGTTTATATATAAGTTATG
1 TAAGTTTATATATAAGTTATG
*
14215395 TAAG-TTATTATGTAAGTTATG
1 TAAGTTTA-TATATAAGTTATG
14215416 T
1 T
14215417 GTTGTGTAGT
Statistics
Matches: 89, Mismatches: 14, Indels: 30
0.67 0.11 0.23
Matches are distributed among these distances:
20 6 0.07
21 33 0.37
22 1 0.01
23 17 0.19
24 14 0.16
25 1 0.01
26 2 0.02
28 7 0.08
29 5 0.06
30 3 0.03
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.49
Consensus pattern (21 bp):
TAAGTTTATATATAAGTTATG
Found at i:14215354 original size:96 final size:96
Alignment explanation
Indices: 14215248--14215436 Score: 312
Period size: 96 Copynumber: 2.0 Consensus size: 96
14215238 GTTATGTAAG
*
14215248 TTATTATAAG-TAAGT-TGTGAAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTG
1 TTATTATAAGTTAAGTATGT--AAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTATG
14215311 TAAGTTATGTGTTGTGTAAGTTTATATATAAACT
64 TAAGTTATGTGTTGTGT-AGTTTATATATAAACT
*
14215345 TTATT-TAAGTTATGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTA
1 TTATTATAAGTTAAGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTA
14215409 AGTTATGTGTTGTGTAGTTTATATATAA
66 AGTTATGTGTTGTGTAGTTTATATATAA
14215437 TATATATATT
Statistics
Matches: 88, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
95 13 0.15
96 63 0.72
97 9 0.10
98 3 0.03
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.48
Consensus pattern (96 bp):
TTATTATAAGTTAAGTATGTAAGTTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTA
AGTTATGTGTTGTGTAGTTTATATATAAACT
Found at i:14215390 original size:36 final size:36
Alignment explanation
Indices: 14215325--14215396 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
14215315 TTATGTGTTG
*
14215325 TGTAAGTTTATATATAAACTTTATTTAAGTTATGTA
1 TGTAAGTTTATATATAAACTTTATATAAGTTATGTA
**
14215361 TGTAAG-TTATATATAAGTTTATATATAAGTTATGTA
1 TGTAAGTTTATATATAAACTT-TATATAAGTTATGTA
14215397 AGTTATTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 12 0.38
36 20 0.62
ACGTcount: A:0.38, C:0.01, G:0.12, T:0.49
Consensus pattern (36 bp):
TGTAAGTTTATATATAAACTTTATATAAGTTATGTA
Found at i:14215391 original size:23 final size:23
Alignment explanation
Indices: 14215327--14215393 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
14215317 ATGTGTTGTG
* *
14215327 TAAGTTTATATATAAACTT-TATT
1 TAAGTTTATATAT-AAGTTATATA
* *
14215350 TAAGTTATGTATGTAAGTTATATA
1 TAAGTT-TATATATAAGTTATATA
14215374 TAAGTTTATATATAAGTTAT
1 TAAGTTTATATATAAGTTAT
14215394 GTAAGTTATT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
23 22 0.61
24 14 0.39
ACGTcount: A:0.39, C:0.01, G:0.10, T:0.49
Consensus pattern (23 bp):
TAAGTTTATATATAAGTTATATA
Found at i:14215405 original size:12 final size:12
Alignment explanation
Indices: 14215345--14215414 Score: 60
Period size: 12 Copynumber: 6.1 Consensus size: 12
14215335 TATATAAACT
*
14215345 TTATTTAAGTTA
1 TTATGTAAGTTA
14215357 TGTATGTAAGTTA
1 T-TATGTAAGTTA
*
14215370 -TATATAAGTT-
1 TTATGTAAGTTA
*
14215380 TATATATAAG---
1 T-TATGTAAGTTA
14215390 TTATGTAAGTTA
1 TTATGTAAGTTA
14215402 TTATGTAAGTTA
1 TTATGTAAGTTA
14215414 T
1 T
14215415 GTGTTGTGTA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
9 7 0.14
10 1 0.02
11 9 0.18
12 22 0.45
13 10 0.20
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (12 bp):
TTATGTAAGTTA
Found at i:14215468 original size:96 final size:95
Alignment explanation
Indices: 14215271--14215470 Score: 289
Period size: 96 Copynumber: 2.1 Consensus size: 95
14215261 GTTGTGAAAG
*
14215271 TTATATATAAGTTTATATATAAGTTATGTAAGTTATTGTGTAAGTTATGTGTTGTGTAAGTTTAT
1 TTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTAAGTTATGTGTTGTGTAAGTTTAT
* * * *
14215336 ATATAAACTTTATTTAAGTTATGTATGTAAG
66 ATATAAACTATATTTAAG-AATGTATATAAA
14215367 TTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTAAGTTATGTGTTGTGT-AGTTTAT
1 TTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTAAGTTATGTGTTGTGTAAGTTTAT
14215431 ATATAATA-TATATATTAA-AACTGTATATAAA
66 ATATAA-ACTATAT-TTAAGAA-TGTATATAAA
14215462 TATATATAT
1 T-TATATAT
14215471 CAAAGATGTT
Statistics
Matches: 95, Mismatches: 5, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
94 1 0.01
95 26 0.27
96 68 0.72
ACGTcount: A:0.36, C:0.01, G:0.14, T:0.48
Consensus pattern (95 bp):
TTATATATAAGTTTATATATAAGTTATGTAAGTTATTATGTAAGTTATGTGTTGTGTAAGTTTAT
ATATAAACTATATTTAAGAATGTATATAAA
Found at i:14218554 original size:46 final size:46
Alignment explanation
Indices: 14218485--14218801 Score: 463
Period size: 46 Copynumber: 6.9 Consensus size: 46
14218475 AATCTTCAAC
* * * *
14218485 CTACTCCACTACCAAATACAGGAAGACAAGATCTACTATCTATGAT
1 CTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTACGAT
* * * * *
14218531 CTACTCCGTTGCCAAATATAGGAAGATAAGATCTGCTATCTTCAAT
1 CTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTACGAT
* * * *
14218577 CTACTTCACTGCCAAATACAGGAAGACAATATCTGCTATCTCCGAT
1 CTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTACGAT
* * *
14218623 CTACTCCGCTGCCAAAAATAGGAAGACAAGATCTGCTATCTACAAT
1 CTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTACGAT
14218669 CTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTACGAT
1 CTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTACGAT
* *
14218715 CTACTCCTCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGAT
1 CTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTACGAT
*
14218761 CTACTCCACTGCCAAATACAGGAAGACAAGATCTGCTATCT
1 CTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCT
14218802 TTAATCTGTT
Statistics
Matches: 241, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 241 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.25
Consensus pattern (46 bp):
CTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTACGAT
Found at i:14218626 original size:92 final size:92
Alignment explanation
Indices: 14218476--14218801 Score: 510
Period size: 92 Copynumber: 3.5 Consensus size: 92
14218466 AGAATCTGTA
* * * *
14218476 ATCTTCAACCTACTCCACTACCAAATACAGGAAGACAAGATCTACTATCTATGATCTACTCCGTT
1 ATCTTCAATCTACTCCACTGCCAAATACAGGAAGACAAGATCTGCTATCTACGATCTACTCCGTT
*
14218541 GCCAAATATAGGAAGATAAGATCTGCT
66 GCCAAATATAGGAAGACAAGATCTGCT
* * * *
14218568 ATCTTCAATCTACTTCACTGCCAAATACAGGAAGACAATATCTGCTATCTCCGATCTACTCCGCT
1 ATCTTCAATCTACTCCACTGCCAAATACAGGAAGACAAGATCTGCTATCTACGATCTACTCCGTT
*
14218633 GCCAAAAATAGGAAGACAAGATCTGCT
66 GCCAAATATAGGAAGACAAGATCTGCT
* *
14218660 ATCTACAATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTACGATCTACTCC-TC
1 ATCTTCAATCTACTCCACTGCCAAATACAGGAAGACAAGATCTGCTATCTACGATCTACTCCGT-
*
14218724 TGCCAAATACAGGAAGACAAGATCTGCT
65 TGCCAAATATAGGAAGACAAGATCTGCT
*
14218752 ATCTTCGATCTACTCCACTGCCAAATACAGGAAGACAAGATCTGCTATCT
1 ATCTTCAATCTACTCCACTGCCAAATACAGGAAGACAAGATCTGCTATCT
14218802 TTAATCTGTT
Statistics
Matches: 212, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
92 212 1.00
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (92 bp):
ATCTTCAATCTACTCCACTGCCAAATACAGGAAGACAAGATCTGCTATCTACGATCTACTCCGTT
GCCAAATATAGGAAGACAAGATCTGCT
Found at i:14220327 original size:13 final size:12
Alignment explanation
Indices: 14220302--14220350 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 12
14220292 ATGCCTCTCC
14220302 TTTTTCTTTTTCT
1 TTTTTC-TTTTCT
14220315 TCTTTTCTTTTCT
1 T-TTTTCTTTTCT
14220328 TTTTTCCTTTTCT
1 TTTTT-CTTTTCT
*
14220341 TTTTTATTTT
1 TTTTTCTTTT
14220351 TTTCTTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
12 8 0.24
13 20 0.61
14 5 0.15
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTCTTTTCT
Found at i:14220337 original size:18 final size:19
Alignment explanation
Indices: 14220303--14220343 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
14220293 TGCCTCTCCT
*
14220303 TTTTCTTTTTCTTCTTTTC
1 TTTTCTTTTTCTCCTTTTC
14220322 TTTTCTTTTT-TCCTTTTC
1 TTTTCTTTTTCTCCTTTTC
14220340 TTTT
1 TTTT
14220344 TTATTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTCTTTTTCTCCTTTTC
Found at i:14220351 original size:13 final size:12
Alignment explanation
Indices: 14220301--14220377 Score: 64
Period size: 12 Copynumber: 6.0 Consensus size: 12
14220291 TATGCCTCTC
*
14220301 CTTTTTCTTTTT
1 CTTTTTTTTTTT
*
14220313 CTTCTTTTCTTTT
1 CTT-TTTTTTTTT
14220326 CTTTTTTCCTTTTCT
1 CTTTTTT--TTTT-T
*
14220341 TTTTTATTTTTTT
1 CTTTT-TTTTTTT
*
14220354 CTTTTTTTGTTT
1 CTTTTTTTTTTT
*
14220366 GTTTTTTTTTTT
1 CTTTTTTTTTTT
14220378 GAACATTCTT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
12 23 0.44
13 15 0.29
14 7 0.13
15 5 0.10
16 2 0.04
ACGTcount: A:0.01, C:0.13, G:0.03, T:0.83
Consensus pattern (12 bp):
CTTTTTTTTTTT
Found at i:14220370 original size:20 final size:19
Alignment explanation
Indices: 14220308--14220377 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 19
14220298 CTCCTTTTTC
*
14220308 TTTTTCTTCTTTTCTTTTCTT
1 TTTTTCTT-TTTT-TTTTATT
*
14220329 TTTTCCTTTTCTTTTTTATT
1 TTTTTCTTTT-TTTTTTATT
*
14220349 TTTTTCTTTTTTTGTTTGTT
1 TTTTTCTTTTTTT-TTTATT
14220369 TTTTT-TTTT
1 TTTTTCTTTT
14220378 GAACATTCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
19 7 0.16
20 27 0.63
21 9 0.21
ACGTcount: A:0.01, C:0.11, G:0.03, T:0.84
Consensus pattern (19 bp):
TTTTTCTTTTTTTTTTATT
Found at i:14220377 original size:33 final size:33
Alignment explanation
Indices: 14220299--14220377 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
14220289 CCTATGCCTC
* *
14220299 TCCTTTTTCTTTTTCTTCTTTTCTTTTCTTTTT
1 TCCTTTTTTTTTTTATTCTTTTCTTTTCTTTTT
* *
14220332 TCCTTTTCTTTTTTATTTTTTTCTTTT-TTTGTT
1 TCCTTTTTTTTTTTATTCTTTTCTTTTCTTT-TT
*
14220365 T-GTTTTTTTTTTT
1 TCCTTTTTTTTTTT
14220378 GAACATTCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
32 13 0.33
33 26 0.67
ACGTcount: A:0.01, C:0.14, G:0.03, T:0.82
Consensus pattern (33 bp):
TCCTTTTTTTTTTTATTCTTTTCTTTTCTTTTT
Found at i:14220378 original size:16 final size:15
Alignment explanation
Indices: 14220335--14220378 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
14220325 TCTTTTTTCC
* *
14220335 TTTTCTTTTTTATTT
1 TTTTTTTTTTTGTTT
14220350 TTTTCTTTTTTTGTTT
1 TTTT-TTTTTTTGTTT
14220366 GTTTTTTTTTTTG
1 -TTTTTTTTTTTG
14220379 AACATTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.16
16 17 0.68
17 4 0.16
ACGTcount: A:0.02, C:0.05, G:0.07, T:0.86
Consensus pattern (15 bp):
TTTTTTTTTTTGTTT
Found at i:14222688 original size:12 final size:12
Alignment explanation
Indices: 14222657--14222690 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
14222647 CTTTTCTAGT
14222657 TGTTCTTGCATC
1 TGTTCTTGCATC
**
14222669 TGGGCTTGCATC
1 TGTTCTTGCATC
14222681 TGTTCTTGCA
1 TGTTCTTGCA
14222691 ATTGCTCTAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.09, C:0.24, G:0.24, T:0.44
Consensus pattern (12 bp):
TGTTCTTGCATC
Found at i:14222856 original size:19 final size:20
Alignment explanation
Indices: 14222832--14222878 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
14222822 TGTGAAAATC
*
14222832 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGCAATG
*
14222851 TAATGCAAATGCATGGAATG
1 TAATGCAAATGCATGCAATG
14222871 -AATGCAAA
1 TAATGCAAA
14222879 AAGAAAGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGCAATG
Found at i:14229217 original size:14 final size:15
Alignment explanation
Indices: 14229200--14229232 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
14229190 CTTAAATCAG
14229200 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
14229214 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
14229229 AATC
1 AATC
14229233 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:14229602 original size:20 final size:18
Alignment explanation
Indices: 14229569--14229606 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
14229559 ATTGGAATTT
14229569 AATTAATATAAATAAACA
1 AATTAATATAAATAAACA
14229587 AATTACATAGTAAATAAACA
1 AATTA-ATA-TAAATAAACA
14229607 GATGAAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 3 0.17
20 10 0.56
ACGTcount: A:0.63, C:0.08, G:0.03, T:0.26
Consensus pattern (18 bp):
AATTAATATAAATAAACA
Found at i:14229893 original size:163 final size:164
Alignment explanation
Indices: 14229636--14229940 Score: 404
Period size: 163 Copynumber: 1.9 Consensus size: 164
14229626 GCATTTTCAA
14229636 AAACGCCGCTAAATATCGGAGCATTAGCGACGCTTTACCAAAAACATCGCTAAAGATCTGAGCAT
1 AAACGCCGCTAAATATCGGAGCATTAGCGACGCTTTACCAAAAACATCGCTAAAGATCTGAGCAT
* * * * * *
14229701 TAGCGGCGCTTTTCTATAAACGCCGCTAAAGATTTGAGCA-TCGCGGCGATTTTGA-AAAAACGC
66 TAGCGACGCTTCTCAAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGATTTT-ACAAAAACGC
*
14229764 TGAC-AAAGATCTGAGCTTTAGCGGCGCTTCTACAG
130 CG-CTAAAGATCTGAGCTTTAGCGGCGCTTCTACAG
* * * ** *
14229799 AAACGTCGCTAAATATCTGAGCATTA-CTGGCGCTTTTTCAAAAAC-GCTGCTAAAGATCTGAGC
1 AAACGCCGCTAAATATCGGAGCATTAGC-GACGCTTTACCAAAAACATC-GCTAAAGATCTGAGC
* *
14229862 ATTAGCGATGCTTCTCAAAAAACGTCGCTAAAGATCTGAGCATTAGCGGCGATTTTACAAAAACG
64 ATTAGCGACGCTTCTCAAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGATTTTACAAAAACG
14229927 CCGCTAAAGATCTG
129 CCGCTAAAGATCTG
14229941 GGAACTAGCG
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
162 2 0.02
163 90 0.74
164 30 0.25
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (164 bp):
AAACGCCGCTAAATATCGGAGCATTAGCGACGCTTTACCAAAAACATCGCTAAAGATCTGAGCAT
TAGCGACGCTTCTCAAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGATTTTACAAAAACGCC
GCTAAAGATCTGAGCTTTAGCGGCGCTTCTACAG
Found at i:14229950 original size:41 final size:41
Alignment explanation
Indices: 14229621--14229976 Score: 323
Period size: 41 Copynumber: 8.7 Consensus size: 41
14229611 AAATGTTTTT
* *
14229621 GCGGCGCATTTT-CAAAAACGCCGCTAAATATCGGAGCATTA
1 GCGGCGC-TTTTACAAAAACGCCGCTAAAGATCTGAGCATTA
* **
14229662 GCGACGC-TTTACCAAAAACATCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTA-CAAAAACGCCGCTAAAGATCTGAGCATTA
* * *
14229703 GCGGCGCTTTT-CTATAAACGCCGCTAAAGATTTGAGCA-TC
1 GCGGCGCTTTTAC-AAAAACGCCGCTAAAGATCTGAGCATTA
* * *
14229743 GCGGCGATTTTGA-AAAAACGCTGAC-AAAGATCTGAGCTTTA
1 GCGGCGCTTTT-ACAAAAACGCCG-CTAAAGATCTGAGCATTA
* * * *
14229784 GCGGCGCTTCTACAGAAACGTCGCTAAATATCTGAGCATTA
1 GCGGCGCTTTTACAAAAACGCCGCTAAAGATCTGAGCATTA
* *
14229825 -CTGGCGCTTTTTCAAAAACGCTGCTAAAGATCTGAGCATTA
1 GC-GGCGCTTTTACAAAAACGCCGCTAAAGATCTGAGCATTA
** * *
14229866 GCGATGCTTCT-CAAAAAACGTCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTAC-AAAAACGCCGCTAAAGATCTGAGCATTA
* * * *
14229907 GCGGCGATTTTACAAAAACGCCGCTAAAGATCTGGGAACTA
1 GCGGCGCTTTTACAAAAACGCCGCTAAAGATCTGAGCATTA
* ***
14229948 GCGACGCTTTTTTTTAAAACGCCGCTAAA
1 GCGGCGC-TTTTACAAAAACGCCGCTAAA
14229977 TCCCCGAAAG
Statistics
Matches: 252, Mismatches: 48, Indels: 29
0.77 0.15 0.09
Matches are distributed among these distances:
39 3 0.01
40 35 0.14
41 191 0.76
42 23 0.09
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (41 bp):
GCGGCGCTTTTACAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:14232343 original size:19 final size:19
Alignment explanation
Indices: 14232319--14232357 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14232309 AAGTCAATTA
14232319 ATAATT-TTAATTAAATATC
1 ATAATTATT-ATTAAATATC
*
14232338 ATAATTATTTTTAAATATC
1 ATAATTATTATTAAATATC
14232357 A
1 A
14232358 ATTCAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
ATAATTATTATTAAATATC
Found at i:14232598 original size:24 final size:22
Alignment explanation
Indices: 14232550--14232591 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14232540 AAAGATATCG
14232550 TTTCATTCTTTTCTCTCTCAAT
1 TTTCATTCTTTTCTCTCTCAAT
* *
14232572 TTTCATTTTTTTTTCTCTCA
1 TTTCATTCTTTTCTCTCTCA
14232592 TTCTTTTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTCATTCTTTTCTCTCTCAAT
Found at i:14234058 original size:22 final size:22
Alignment explanation
Indices: 14234033--14234077 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
14234023 TTTTTGGATG
14234033 AATGTAAATAGTTATTTATGTT
1 AATGTAAATAGTTATTTATGTT
14234055 AATGTAAATAGTTATTTATGTT
1 AATGTAAATAGTTATTTATGTT
14234077 A
1 A
14234078 TGGTTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (22 bp):
AATGTAAATAGTTATTTATGTT
Found at i:14248372 original size:27 final size:27
Alignment explanation
Indices: 14248342--14248397 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
14248332 TCTCCACTGT
14248342 CTCTCTTCTTTTTCATTCCAAAATTCC
1 CTCTCTTCTTTTTCATTCCAAAATTCC
14248369 CTCTCTTCTTTTTCATTCCAAAATTCC
1 CTCTCTTCTTTTTCATTCCAAAATTCC
14248396 CT
1 CT
14248398 TACTCTCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.18, C:0.34, G:0.00, T:0.48
Consensus pattern (27 bp):
CTCTCTTCTTTTTCATTCCAAAATTCC
Found at i:14260106 original size:22 final size:21
Alignment explanation
Indices: 14260052--14260116 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
14260042 TGCCAGTAGT
14260052 CAGAATGGCTAAGAGCCATAAA
1 CAGAATGGCTAA-AGCCATAAA
* * *
14260074 CAGGATAGCTATAAGCTATAAA
1 CAGAATGGCTA-AAGCCATAAA
*
14260096 GAGAATGGCTACAAGCCATAA
1 CAGAATGGCTA-AAGCCATAA
14260117 GTACAGTAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
22 33 0.97
23 1 0.03
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.17
Consensus pattern (21 bp):
CAGAATGGCTAAAGCCATAAA
Found at i:14260231 original size:32 final size:32
Alignment explanation
Indices: 14260155--14260308 Score: 127
Period size: 32 Copynumber: 4.8 Consensus size: 32
14260145 AGTAGCACTG
* * * **
14260155 ATATGATCGACACACAGCCATTAGTAACAATGA
1 ATATGATCGGCACAAAGCCATCAGTAACGGT-A
14260188 A-ATGAAT-GGCACACAA-CCATC-GATAACGGTA
1 ATATG-ATCGGCACA-AAGCCATCAG-TAACGGTA
* **
14260219 ATATGATCGGCACAAATCCATCAGTAATAGTA
1 ATATGATCGGCACAAAGCCATCAGTAACGGTA
* *
14260251 CTATGATCGGCACAAAGCCATCAGTAACGGTT
1 ATATGATCGGCACAAAGCCATCAGTAACGGTA
* * *
14260283 CTATGATTGGCATAAAGCCATCAGTA
1 ATATGATCGGCACAAAGCCATCAGTA
14260309 GCATTGCAGC
Statistics
Matches: 100, Mismatches: 14, Indels: 15
0.78 0.11 0.12
Matches are distributed among these distances:
31 7 0.07
32 88 0.88
33 5 0.05
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.22
Consensus pattern (32 bp):
ATATGATCGGCACAAAGCCATCAGTAACGGTA
Found at i:14260620 original size:27 final size:27
Alignment explanation
Indices: 14260556--14260786 Score: 239
Period size: 27 Copynumber: 8.6 Consensus size: 27
14260546 ACCAGGGCAA
* * * *
14260556 TACGGTCATTTTATCCTATAAGAGTA-
1 TACGGTCATTTTACCCTACAGGGGTAT
*
14260582 TACGGTCATTTTACCCTACAGGGGCAT
1 TACGGTCATTTTACCCTACAGGGGTAT
* * *
14260609 TACAGTCATTTTACCCTAAAGGGGCAT
1 TACGGTCATTTTACCCTACAGGGGTAT
* * *
14260636 TACAGTCATTTTACCCTACAAGGGCAT
1 TACGGTCATTTTACCCTACAGGGGTAT
* ** *
14260663 TACGGTTATTTTACTTTACAAGGGTAT
1 TACGGTCATTTTACCCTACAGGGGTAT
* * *
14260690 TACAGTCATTTTACCCTATAGGGGTAC
1 TACGGTCATTTTACCCTACAGGGGTAT
**
14260717 TACGGTCATTTTACCCTGTAGGGGTAT
1 TACGGTCATTTTACCCTACAGGGGTAT
* * *
14260744 TACGGTCATTTTATCCTGCAGTGGTAT
1 TACGGTCATTTTACCCTACAGGGGTAT
*
14260771 TATGGTCATTTTACCC
1 TACGGTCATTTTACCC
14260787 ATCAAGGTTA
Statistics
Matches: 175, Mismatches: 29, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
26 21 0.12
27 154 0.88
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
TACGGTCATTTTACCCTACAGGGGTAT
Found at i:14260692 original size:81 final size:81
Alignment explanation
Indices: 14260550--14260756 Score: 263
Period size: 81 Copynumber: 2.6 Consensus size: 81
14260540 TTACCCACCA
* * *
14260550 GGGCAATACGGTCATTTTATCCTATAAGAGTA-TACGGTCATTTTACCCTACAGGGGCATTACAG
1 GGGCAATACGGTCATTTTACCCTATAAGGGTATTACGGTCATTTTACCCTACAAGGGCATTACAG
14260614 TCATTTTACCCTAAAG
66 TCATTTTACCCTAAAG
* * * * * ** *
14260630 GGGCATTACAGTCATTTTACCCTACAAGGGCATTACGGTTATTTTACTTTACAAGGGTATTACAG
1 GGGCAATACGGTCATTTTACCCTATAAGGGTATTACGGTCATTTTACCCTACAAGGGCATTACAG
*
14260695 TCATTTTACCCTATAG
66 TCATTTTACCCTAAAG
* * * *
14260711 GGGTACTACGGTCATTTTACCCTGTAGGGGTATTACGGTCATTTTA
1 GGGCAATACGGTCATTTTACCCTATAAGGGTATTACGGTCATTTTA
14260757 TCCTGCAGTG
Statistics
Matches: 106, Mismatches: 20, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
80 26 0.25
81 80 0.75
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (81 bp):
GGGCAATACGGTCATTTTACCCTATAAGGGTATTACGGTCATTTTACCCTACAAGGGCATTACAG
TCATTTTACCCTAAAG
Found at i:14273478 original size:75 final size:75
Alignment explanation
Indices: 14273354--14273511 Score: 169
Period size: 75 Copynumber: 2.1 Consensus size: 75
14273344 TGATCTGCTT
* * *** * * *
14273354 CATTATGTGTTTTGTTTGTTAAATGCATCTTTATTTAATGTTTTGCATTAGTACATTTA-CATCT
1 CATTATGTGTTTTGTTTATTAAATGCATCTTTAGTTAACACTTTACATTAATACA-TTAGCATCC
14273418 TTTAA-AATGTG
65 TTTAAGAAT-TG
* *
14273429 CATTATGT-TTCTTGTTTATTGAATGCGTCTTTAGTTAACACTTTACATTAATACATTAGCATCC
1 CATTATGTGTT-TTGTTTATTAAATGCATCTTTAGTTAACACTTTACATTAATACATTAGCATCC
*
14273493 TTTAAGACTTG
65 TTTAAGAATTG
14273504 CATTATGT
1 CATTATGT
14273512 ATGTTTCATA
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
74 5 0.07
75 62 0.90
76 2 0.03
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.49
Consensus pattern (75 bp):
CATTATGTGTTTTGTTTATTAAATGCATCTTTAGTTAACACTTTACATTAATACATTAGCATCCT
TTAAGAATTG
Found at i:14288842 original size:21 final size:21
Alignment explanation
Indices: 14288818--14288861 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
14288808 AACGAGCTTT
*
14288818 TTTACAACTACAACGAGGACG
1 TTTACAACCACAACGAGGACG
** *
14288839 TTTACCTCCACAACGAGGTCG
1 TTTACAACCACAACGAGGACG
14288860 TT
1 TT
14288862 CACCTCCACC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (21 bp):
TTTACAACCACAACGAGGACG
Found at i:14288866 original size:21 final size:21
Alignment explanation
Indices: 14288827--14288870 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
14288817 TTTTACAACT
*
14288827 ACAACGAGGACGTTTACCTCC
1 ACAACGAGGACGTTCACCTCC
*
14288848 ACAACGAGGTCGTTCACCTCC
1 ACAACGAGGACGTTCACCTCC
14288869 AC
1 AC
14288871 CTCAAGACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.27, C:0.36, G:0.18, T:0.18
Consensus pattern (21 bp):
ACAACGAGGACGTTCACCTCC
Found at i:14292877 original size:264 final size:264
Alignment explanation
Indices: 14292407--14292934 Score: 1047
Period size: 264 Copynumber: 2.0 Consensus size: 264
14292397 ATCAAATATC
*
14292407 GAACATATTATATGTACAAGGTTGTTGTACACATAATGAGAACATAGTTCTATTAATATATGAAT
1 GAACATATTATATGTACAAGGATGTTGTACACATAATGAGAACATAGTTCTATTAATATATGAAT
14292472 TTGGTTCGCATATAAATTTAAATAAATATAGTTTACTGAAATCATTCTTATAATTAATGTAATTA
66 TTGGTTCGCATATAAATTTAAATAAATATAGTTTACTGAAATCATTCTTATAATTAATGTAATTA
14292537 TAATTTTTGATTTAAAAAATTATTATATTTATTTATTTTTAATTATGATTATTATGTTCGGATAA
131 TAATTTTTGATTTAAAAAATTATTATATTTATTTATTTTTAATTATGATTATTATGTTCGGATAA
14292602 AAATTTTATATATATACCAATTAAAAAACCCTAAATATAATGTTTTTTTTTGCTTGTAAGGTCTA
196 AAATTTTATATATATACCAATTAAAAAACCCTAAATATAATGTTTTTTTTTGCTTGTAAGGTCTA
14292667 GCAG
261 GCAG
14292671 GAACATATTATATGTACAAGGATGTTGTACACATAATGAGAACATAGTTCTATTAATATATGAAT
1 GAACATATTATATGTACAAGGATGTTGTACACATAATGAGAACATAGTTCTATTAATATATGAAT
14292736 TTGGTTCGCATATAAATTTAAATAAATATAGTTTACTGAAATCATTCTTATAATTAATGTAATTA
66 TTGGTTCGCATATAAATTTAAATAAATATAGTTTACTGAAATCATTCTTATAATTAATGTAATTA
14292801 TAATTTTTGATTTAAAAAATTATTATATTTATTTATTTTTAATTATGATTATTATGTTCGGATAA
131 TAATTTTTGATTTAAAAAATTATTATATTTATTTATTTTTAATTATGATTATTATGTTCGGATAA
14292866 AAATTTTATATATATACCAATTAAAAAACCCTAAATATAATGTTTTTTTTTGCTTGTAAGGTCTA
196 AAATTTTATATATATACCAATTAAAAAACCCTAAATATAATGTTTTTTTTTGCTTGTAAGGTCTA
14292931 GCAG
261 GCAG
14292935 CCGTCAAGCA
Statistics
Matches: 263, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
264 263 1.00
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (264 bp):
GAACATATTATATGTACAAGGATGTTGTACACATAATGAGAACATAGTTCTATTAATATATGAAT
TTGGTTCGCATATAAATTTAAATAAATATAGTTTACTGAAATCATTCTTATAATTAATGTAATTA
TAATTTTTGATTTAAAAAATTATTATATTTATTTATTTTTAATTATGATTATTATGTTCGGATAA
AAATTTTATATATATACCAATTAAAAAACCCTAAATATAATGTTTTTTTTTGCTTGTAAGGTCTA
GCAG
Found at i:14303269 original size:25 final size:24
Alignment explanation
Indices: 14303238--14303292 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 24
14303228 AAATTTTAAT
14303238 TTAATTATCTAAT-TTTTCA-ATTTA
1 TTAATTAT-TAATATTTT-ATATTTA
14303262 TTGAATTATTAATATTTTATATTTA
1 TT-AATTATTAATATTTTATATTTA
14303287 TTAATT
1 TTAATT
14303293 TTTTGAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (24 bp):
TTAATTATTAATATTTTATATTTA
Found at i:14348248 original size:52 final size:52
Alignment explanation
Indices: 14348175--14348283 Score: 175
Period size: 52 Copynumber: 2.1 Consensus size: 52
14348165 AAATTTATTA
*
14348175 GTGACAATTCAATAAAGCTGTCAATTTTCAATCTCAAAAGATTACTCAATTT
1 GTGACAATTCAATAAAGCTGTCAATTTTCAAGCTCAAAAGATTACTCAATTT
* *
14348227 GTGACAATTCAA-ACAAGCTGTCAATTTTCAAGCTCAAAAGATTAGTTAATTT
1 GTGACAATTCAATA-AAGCTGTCAATTTTCAAGCTCAAAAGATTACTCAATTT
14348279 GTGAC
1 GTGAC
14348284 TATTTGGATT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
51 1 0.02
52 52 0.98
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.33
Consensus pattern (52 bp):
GTGACAATTCAATAAAGCTGTCAATTTTCAAGCTCAAAAGATTACTCAATTT
Found at i:14355094 original size:49 final size:49
Alignment explanation
Indices: 14355037--14355135 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
14355027 AACTTCAGCC
14355037 TTTGATTGTTTATAAAAAACATTGAATGATCACAATCGCTTTTGTTTAG
1 TTTGATTGTTTATAAAAAACATTGAATGATCACAATCGCTTTTGTTTAG
14355086 TTTGATTGTTTATAAAAAACATTGAATGATCACAATCGCTTTTGTTTAG
1 TTTGATTGTTTATAAAAAACATTGAATGATCACAATCGCTTTTGTTTAG
14355135 T
1 T
14355136 CCAAATTGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.43
Consensus pattern (49 bp):
TTTGATTGTTTATAAAAAACATTGAATGATCACAATCGCTTTTGTTTAG
Found at i:14358632 original size:24 final size:23
Alignment explanation
Indices: 14358571--14358626 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
14358561 AGTTACAATA
*
14358571 TTAGT-TATTGTATTTTTATATATTT
1 TTAGTATATT-TA-TTTTA-ATATTG
14358596 TTAGTATATTTATTTTAATATTG
1 TTAGTATATTTATTTTAATATTG
14358619 TTAG-ATAT
1 TTAGTATAT
14358627 GCTTATGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 4 0.14
23 9 0.31
24 5 0.17
25 7 0.24
26 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (23 bp):
TTAGTATATTTATTTTAATATTG
Found at i:14363199 original size:39 final size:39
Alignment explanation
Indices: 14363155--14363246 Score: 143
Period size: 38 Copynumber: 2.4 Consensus size: 39
14363145 TGTCCTAAAC
*
14363155 TATGACATAATTAAAAAC-CATTATTAAAGATGTTCAGAT
1 TATGACATAATTAAAAACTCA-TATTAAAGATGTTCAAAT
*
14363194 TATGACATAATT-AAAACTCATATTAATGATGTTCAAAT
1 TATGACATAATTAAAAACTCATATTAAAGATGTTCAAAT
14363232 TATGACATAATTAAA
1 TATGACATAATTAAA
14363247 GACTTAAACT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
38 33 0.67
39 16 0.33
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.35
Consensus pattern (39 bp):
TATGACATAATTAAAAACTCATATTAAAGATGTTCAAAT
Found at i:14374130 original size:14 final size:14
Alignment explanation
Indices: 14374111--14374150 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
14374101 TTGATTGCCA
14374111 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
14374125 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
14374139 GGAAAATGTTTT
1 GTAAAATGTTTT
14374151 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:14374159 original size:20 final size:20
Alignment explanation
Indices: 14374134--14374173 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14374124 CGTAAAATGA
*
14374134 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
14374154 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
14374174 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Done.