Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 64 of 175
Found at i:18961082 original size:40 final size:40
Alignment explanation
Indices: 18961005--18961097 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 40
18960995 TTGACCACAT
** *
18961005 TACTGGTAGCTTTTCTACATTACTAACAGTTTATCTGCAA
1 TACTGGTAGCTTGGCTACATTACTAACAGCTTATCTGCAA
* ** * *
18961045 TACTGGTCGCTTGGCTACATTACTGGCAGCTTGTCTGCAG
1 TACTGGTAGCTTGGCTACATTACTAACAGCTTATCTGCAA
* *
18961085 TTCTGGTGGCTTG
1 TACTGGTAGCTTG
18961098 TCCACAAATT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.38
Consensus pattern (40 bp):
TACTGGTAGCTTGGCTACATTACTAACAGCTTATCTGCAA
Found at i:18966233 original size:6 final size:6
Alignment explanation
Indices: 18966222--18966257 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
18966212 GTTGAAATTA
18966222 ATGCAG ATGCAG ATGCAG ATGCAG ATGCAG ATGCAG
1 ATGCAG ATGCAG ATGCAG ATGCAG ATGCAG ATGCAG
18966258 TCCTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (6 bp):
ATGCAG
Found at i:18966921 original size:18 final size:17
Alignment explanation
Indices: 18966893--18966927 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18966883 ATTATTAAGA
*
18966893 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
18966910 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
18966928 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:18967175 original size:45 final size:44
Alignment explanation
Indices: 18967087--18967181 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
18967077 TTACACCTCT
*
18967087 ATTACATTCAACCAAACACAGGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
* *** *
18967131 ATTACATTCAATCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGGA-TTACTATTACACCTCTATTCC
18967176 ATTACA
1 ATTACA
18967182 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 19 0.43
45 25 0.57
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
Found at i:18967181 original size:16 final size:16
Alignment explanation
Indices: 18967162--18967213 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
18967152 GATTTGCTAT
* *
18967162 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
18967178 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18967194 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18967210 TACA
1 TACA
18967214 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:18970202 original size:18 final size:19
Alignment explanation
Indices: 18970179--18970215 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
18970169 TAAGTGCACT
18970179 TTAATTATTTTTT-GACAA
1 TTAATTATTTTTTCGACAA
18970197 TTAATTATTTTTTCGACAA
1 TTAATTATTTTTTCGACAA
18970216 GAATTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.54
Consensus pattern (19 bp):
TTAATTATTTTTTCGACAA
Found at i:18970220 original size:18 final size:18
Alignment explanation
Indices: 18970181--18970220 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
18970171 AGTGCACTTT
*
18970181 AATTATTTTTTGACAATT
1 AATTATTTTTTGACAATG
18970199 AATTATTTTTTCGACAA-G
1 AATTATTTTTT-GACAATG
18970217 AATT
1 AATT
18970221 TTATTAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.50
Consensus pattern (18 bp):
AATTATTTTTTGACAATG
Found at i:18971966 original size:11 final size:11
Alignment explanation
Indices: 18971943--18971972 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
18971933 TTTAGTTATG
18971943 TTTTCTT-ACA
1 TTTTCTTAACA
18971953 TTTTCTTAACA
1 TTTTCTTAACA
18971964 TTTTCTTAA
1 TTTTCTTAA
18971973 ACTCAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.37
11 12 0.63
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTCTTAACA
Found at i:18974600 original size:12 final size:12
Alignment explanation
Indices: 18974583--18974612 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
18974573 CCCGAACTCG
18974583 AATATCAACCTA
1 AATATCAACCTA
18974595 AATATCAACCTA
1 AATATCAACCTA
18974607 ATATAT
1 A-ATAT
18974613 AGAAACCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (12 bp):
AATATCAACCTA
Found at i:18976935 original size:13 final size:13
Alignment explanation
Indices: 18976919--18976944 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18976909 ATACTTTAAA
18976919 AACACATTCATTC
1 AACACATTCATTC
18976932 AACACATTCATTC
1 AACACATTCATTC
18976945 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:18978969 original size:29 final size:29
Alignment explanation
Indices: 18978927--18979185 Score: 205
Period size: 29 Copynumber: 8.9 Consensus size: 29
18978917 GTGTGCTAAA
* * *
18978927 CGATGGTCGTAACCGTCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
18978956 CGATGGTCGAAACCATCCCTTTTCATTAAT
1 CGATGGTCGAAACCATCCCTTTTCA-TAAT
** *
18978986 CGATGGTCGTCACCATCCCTTTTCATAGT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* * *
18979015 TGATGGTC-ATCACCATCCTTTTTCATAAT
1 CGATGGTCGA-AACCATCCCTTTTCATAAT
* * * *
18979044 CGATAGCCGAAACTATCCCTTTCCATAAT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* ** * *
18979073 CGATCGTCGAGGCTATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
** **
18979102 CGATGGTCGTCACCATCCCTTTTCATTGT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* * ** *
18979131 TGATAGTCGTCACCATCCCTCTTCATAAT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* * * * *
18979160 CAATAGCCGAAGCTATCCCTTTTCAT
1 CGATGGTCGAAACCATCCCTTTTCAT
18979186 TGGTCGATGA
Statistics
Matches: 184, Mismatches: 43, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
29 157 0.85
30 27 0.15
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.35
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATAAT
Found at i:18979107 original size:87 final size:87
Alignment explanation
Indices: 18978927--18979194 Score: 272
Period size: 87 Copynumber: 3.1 Consensus size: 87
18978917 GTGTGCTAAA
* * * * *
18978927 CGATGGTCGTAACCGTCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATTAATCGATGG
1 CGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCGAAACCATCCC-TTTCA-TAATCGATAG
* *
18978992 TCGTCA-CCATCCCTTTTCATAGTT
64 TCG-AAGCTATCCCTTTTCATAGTT
* * * * *
18979016 -GATGGTCATCACCATCCTTTTTCATAATCGATAGCCGAAACTATCCCTTTCCATAATCGATCGT
1 CGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCGAAACCATCCCTTT-CATAATCGATAGT
*
18979080 CGAGGCTATCCCTTTTCATA-TT
65 CGAAGCTATCCCTTTTCATAGTT
** * ** * *
18979102 CGATGGTCGTCACCATCCCTTTTCATTGTTGATAGTCGTCACCATCCCTCTTCATAATCAATAGC
1 CGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCGAAACCATCCCT-TTCATAATCGATAGT
* *
18979167 CGAAGCTATCCCTTTTCATTGGT
65 CGAAGCTATCCCTTTTCATAGTT
18979190 CGATG
1 CGATG
18979195 ATCGCCGATA
Statistics
Matches: 147, Mismatches: 27, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
86 2 0.01
87 96 0.65
88 49 0.33
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (87 bp):
CGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCGAAACCATCCCTTTCATAATCGATAGTC
GAAGCTATCCCTTTTCATAGTT
Found at i:18985045 original size:20 final size:20
Alignment explanation
Indices: 18985020--18985057 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
18985010 CCATTGGTGG
18985020 CTTGTCTACATTACTGGCTA
1 CTTGTCTACATTACTGGCTA
18985040 CTTGTCTACATTACTGGC
1 CTTGTCTACATTACTGGC
18985058 AGTTTATCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.26, G:0.16, T:0.39
Consensus pattern (20 bp):
CTTGTCTACATTACTGGCTA
Found at i:18985074 original size:20 final size:20
Alignment explanation
Indices: 18985051--18985117 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
18985041 TTGTCTACAT
*
18985051 TACTGGCAGTTTATCTGCAA
1 TACTGGTAGTTTATCTGCAA
* * ** *
18985071 TACTGGTAGCTTGTCTATAG
1 TACTGGTAGTTTATCTGCAA
*
18985091 TACTGGTAGTTTATCTGCAT
1 TACTGGTAGTTTATCTGCAA
18985111 TACTGGT
1 TACTGGT
18985118 GGCTTGATCA
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.40
Consensus pattern (20 bp):
TACTGGTAGTTTATCTGCAA
Found at i:18985086 original size:40 final size:40
Alignment explanation
Indices: 18985028--18985165 Score: 156
Period size: 40 Copynumber: 3.5 Consensus size: 40
18985018 GGCTTGTCTA
*
18985028 CATTACTGGCTA-CTTGTCTACATTACTGGCAGTTTATCTG
1 CATTACTGG-TAGCTTGTCTATATTACTGGCAGTTTATCTG
* * *
18985068 CAATACTGGTAGCTTGTCTATAGTACTGGTAGTTTATCTG
1 CATTACTGGTAGCTTGTCTATATTACTGGCAGTTTATCTG
* *
18985108 CATTACTGGTGGCTTGATC-ATATTATTGGCAGCTTT-TCTG
1 CATTACTGGTAGCTTG-TCTATATTACTGGCAG-TTTATCTG
* *
18985148 CATTTCTGGTGGCTTGTC
1 CATTACTGGTAGCTTGTC
18985166 CACAAATTGG
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
39 4 0.05
40 76 0.89
41 5 0.06
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.41
Consensus pattern (40 bp):
CATTACTGGTAGCTTGTCTATATTACTGGCAGTTTATCTG
Found at i:18987948 original size:40 final size:40
Alignment explanation
Indices: 18987886--18987965 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
18987876 AACTATTGTA
* *
18987886 TGAATGCACATACATGCACCTATTTATACTTCGGTACCCC
1 TGAATGCACATACATGCACCTATTCATACTTCAGTACCCC
* * *
18987926 TGAATGCACATACTTGCCCCTATTCGTACTTCAGTACCCC
1 TGAATGCACATACATGCACCTATTCATACTTCAGTACCCC
18987966 GAACACTCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.25, C:0.33, G:0.12, T:0.30
Consensus pattern (40 bp):
TGAATGCACATACATGCACCTATTCATACTTCAGTACCCC
Found at i:18990171 original size:25 final size:25
Alignment explanation
Indices: 18990143--18990190 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
18990133 TCTCCACTAA
* * *
18990143 ATTTAGTTTATATACCTTAATTAAG
1 ATTTAATTAATATAACTTAATTAAG
*
18990168 ATTTAATTAATCTAACTTAATTA
1 ATTTAATTAATATAACTTAATTA
18990191 GCTTAATCGT
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:18993199 original size:24 final size:24
Alignment explanation
Indices: 18993172--18993295 Score: 97
Period size: 24 Copynumber: 5.2 Consensus size: 24
18993162 TTTACTACAA
*
18993172 TATTAAGTGGCTTGGCCACAACGC
1 TATTGAGTGGCTTGGCCACAACGC
* *
18993196 TATTGAGTGGCTTGTCCACAACGT
1 TATTGAGTGGCTTGGCCACAACGC
* ** **
18993220 TATTGTGTGGCTTGAACACAACAA
1 TATTGAGTGGCTTGGCCACAACGC
** ** *
18993244 TGCTGAGTGGCTTTTCCACAATG-
1 TATTGAGTGGCTTGGCCACAACGC
* *
18993267 TGATTGAGTGGCTTGACTACAACGC
1 T-ATTGAGTGGCTTGGCCACAACGC
18993292 TATT
1 TATT
18993296 AAGTTCTAAC
Statistics
Matches: 76, Mismatches: 22, Indels: 4
0.75 0.22 0.04
Matches are distributed among these distances:
23 1 0.01
24 74 0.97
25 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (24 bp):
TATTGAGTGGCTTGGCCACAACGC
Found at i:18997317 original size:27 final size:25
Alignment explanation
Indices: 18997253--18997321 Score: 86
Period size: 25 Copynumber: 2.7 Consensus size: 25
18997243 TGTACATATA
*
18997253 TGCTCACACGAGCTATGAATAAGTG
1 TGCTCACACGAGCTATGAATAAGTC
*
18997278 TGCTCACATGAGCTATGAA-AATGGGTC
1 TGCTCACACGAGCTATGAATAA---GTC
18997305 TGCTCACACGAGCTATG
1 TGCTCACACGAGCTATG
18997322 GGTCGGAATG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 2 0.05
25 18 0.47
27 18 0.47
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (25 bp):
TGCTCACACGAGCTATGAATAAGTC
Found at i:18997786 original size:29 final size:29
Alignment explanation
Indices: 18997743--18997801 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
18997733 TCATTCAATC
*
18997743 TATTAATTTAGATAGTAAAACAATGTATT
1 TATTAATTTAGATAGTAAAACAACGTATT
*
18997772 TATTAATTTATATAGTAAAACAACGTATT
1 TATTAATTTAGATAGTAAAACAACGTATT
18997801 T
1 T
18997802 TATGCAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.42
Consensus pattern (29 bp):
TATTAATTTAGATAGTAAAACAACGTATT
Found at i:18999920 original size:24 final size:24
Alignment explanation
Indices: 18999794--18999911 Score: 119
Period size: 24 Copynumber: 4.9 Consensus size: 24
18999784 TGTAGGTTGG
*
18999794 CCACAATGCTATTGAGTGGCTTGT
1 CCACAATGCTATTGAGTGGCTTGA
*** * *
18999818 CCACAACATTATTGTGTGACTTGA
1 CCACAATGCTATTGAGTGGCTTGA
* * * **
18999842 TCACAACGCTACTGAGTGGCTTTT
1 CCACAATGCTATTGAGTGGCTTGA
* *
18999866 CCACAATGTTATTAAGTGGCTTGA
1 CCACAATGCTATTGAGTGGCTTGA
18999890 CCACAATGCTATTGAGTGGCTT
1 CCACAATGCTATTGAGTGGCTT
18999912 TGGCACAATT
Statistics
Matches: 71, Mismatches: 23, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (24 bp):
CCACAATGCTATTGAGTGGCTTGA
Found at i:18999926 original size:24 final size:24
Alignment explanation
Indices: 18999793--18999928 Score: 98
Period size: 24 Copynumber: 5.7 Consensus size: 24
18999783 ATGTAGGTTG
*
18999793 GCCACAATGCTATTGAGTGGC-TT
1 GCCACAATGTTATTGAGTGGCTTT
** * *
18999816 GTCCACAACATTATTGTGTGAC-TT
1 G-CCACAATGTTATTGAGTGGCTTT
* * * *
18999840 GATCACAACGCTACTGAGTGGCTTT
1 G-CCACAATGTTATTGAGTGGCTTT
* *
18999865 TCCACAATGTTATTAAGTGGC-TT
1 GCCACAATGTTATTGAGTGGCTTT
*
18999888 GACCACAATGCTATTGAGTGGCTTT
1 G-CCACAATGTTATTGAGTGGCTTT
* *
18999913 GGCACAATTTTATTGA
1 GCCACAATGTTATTGA
18999929 CTGGTTTCAC
Statistics
Matches: 85, Mismatches: 24, Indels: 7
0.73 0.21 0.06
Matches are distributed among these distances:
23 3 0.04
24 77 0.91
25 5 0.06
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (24 bp):
GCCACAATGTTATTGAGTGGCTTT
Found at i:18999941 original size:48 final size:48
Alignment explanation
Indices: 18999794--18999943 Score: 158
Period size: 48 Copynumber: 3.1 Consensus size: 48
18999784 TGTAGGTTGG
* * *
18999794 CCACAATGCTATTGAGTGGC-TTGTCCACAACATTATTGTGTGACTTGA
1 CCACAATGCTATTGAGTGGCTTTG-CCACAATATTATTGAGTGGCTTGA
* * * * * *
18999842 TCACAACGCTACTGAGTGGCTTTTCCACAATGTTATTAAGTGGCTTGA
1 CCACAATGCTATTGAGTGGCTTTGCCACAATATTATTGAGTGGCTTGA
* * * * *
18999890 CCACAATGCTATTGAGTGGCTTTGGCACAATTTTATTGACTGGTTTCA
1 CCACAATGCTATTGAGTGGCTTTGCCACAATATTATTGAGTGGCTTGA
18999938 CCACAA
1 CCACAA
18999944 CGAGTAGCTT
Statistics
Matches: 82, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
48 80 0.98
49 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (48 bp):
CCACAATGCTATTGAGTGGCTTTGCCACAATATTATTGAGTGGCTTGA
Found at i:19003255 original size:148 final size:148
Alignment explanation
Indices: 19003003--19003279 Score: 410
Period size: 148 Copynumber: 1.9 Consensus size: 148
19002993 AGCTAACGAA
* *
19003003 AAATAATTTTCCCAGCTACCTTCGAACTCAATTACGCAAAACTATAACATATCTTCCAGAATCTG
1 AAATAATTTTCCCAGCTACCTTCGAACTCAATTACACAAAACCATAACATATCTTCCAGAATCTG
* *
19003068 TATTACTCGTTCAGACTAGCCATTCATTTGTGAATGAAAGGCGGTATTGAAATTCAATCTGGAGT
66 TATTACTCGTTCAGAATAGCCATTCATTTGTGAATGAAAGGAGGTATTGAAATTCAATCTGGAGT
19003133 GCAAACTCAGCTAACAGC
131 GCAAACTCAGCTAACAGC
* * * * * * *
19003151 AAATACTTTTCCCAGCTACCTTTGAACTCAGTTACATAACACCATAACATATCTTTCAGGATCTG
1 AAATAATTTTCCCAGCTACCTTCGAACTCAATTACACAAAACCATAACATATCTTCCAGAATCTG
* * * * *
19003216 TATTACTTGTTCAGAATGGCTATTCATTTGTGGATGAAAGGAGGTTTTGAAATTCAATCTGGAG
66 TATTACTCGTTCAGAATAGCCATTCATTTGTGAATGAAAGGAGGTATTGAAATTCAATCTGGAG
19003280 CCCAAAGCCT
Statistics
Matches: 113, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
148 113 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (148 bp):
AAATAATTTTCCCAGCTACCTTCGAACTCAATTACACAAAACCATAACATATCTTCCAGAATCTG
TATTACTCGTTCAGAATAGCCATTCATTTGTGAATGAAAGGAGGTATTGAAATTCAATCTGGAGT
GCAAACTCAGCTAACAGC
Found at i:19007953 original size:19 final size:20
Alignment explanation
Indices: 19007928--19007971 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
19007918 AAACCATACT
19007928 TCATACTTGCAAACAAGCTA
1 TCATACTTGCAAACAAGCTA
*
19007948 -CATACTTGCATACAAGCTA
1 TCATACTTGCAAACAAGCTA
19007967 TCATA
1 TCATA
19007972 TTAAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (20 bp):
TCATACTTGCAAACAAGCTA
Found at i:19009810 original size:13 final size:13
Alignment explanation
Indices: 19009792--19009816 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19009782 AGTTACGATG
19009792 GCGACAGCAATGT
1 GCGACAGCAATGT
19009805 GCGACAGCAATG
1 GCGACAGCAATG
19009817 GTGGAGTGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.32, T:0.12
Consensus pattern (13 bp):
GCGACAGCAATGT
Found at i:19012904 original size:50 final size:50
Alignment explanation
Indices: 19012791--19012985 Score: 201
Period size: 50 Copynumber: 3.8 Consensus size: 50
19012781 ATTTGGGTAA
* *
19012791 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* **
19012847 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** * * *
19012897 AGCGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
19012947 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTG
19012986 TCAGTACAAA
Statistics
Matches: 116, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
50 74 0.64
53 3 0.03
55 1 0.01
56 38 0.33
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:19013253 original size:12 final size:12
Alignment explanation
Indices: 19013236--19013274 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
19013226 ATGAGTTATT
19013236 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
19013248 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
19013260 TAAGTGAGTAAG
1 TAAGTAAGCAAG
19013272 TAA
1 TAA
19013275 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:19019310 original size:39 final size:39
Alignment explanation
Indices: 19019266--19019344 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
19019256 ATATGGTAAG
* *
19019266 TATGAATTAAATGTGGCGTTGTTTAAGTTTGTAAATAAA
1 TATGAATTAAATATGGCGTTGCTTAAGTTTGTAAATAAA
*
19019305 TATGAATTAAATATGGTGTTGCTTAAGTTTGTAAATAAA
1 TATGAATTAAATATGGCGTTGCTTAAGTTTGTAAATAAA
19019344 T
1 T
19019345 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:19020387 original size:36 final size:37
Alignment explanation
Indices: 19020340--19020417 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
19020330 AAATATATAT
19020340 ATTTTATTTTTA-TTTTTTAATTTTAATTTTAAAATA
1 ATTTTATTTTTATTTTTTTAATTTTAATTTTAAAATA
* *
19020376 ATTTTATTTTTATTTTTTTATTTTTATTTTTAAAATA
1 ATTTTATTTTTATTTTTTTAATTTTAATTTTAAAATA
19020413 ATTTT
1 ATTTT
19020418 TAATGTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 12 0.31
37 27 0.69
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (37 bp):
ATTTTATTTTTATTTTTTTAATTTTAATTTTAAAATA
Found at i:19020396 original size:14 final size:14
Alignment explanation
Indices: 19020377--19020406 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
19020367 TTTAAAATAA
19020377 TTTTATTTTTATTT
1 TTTTATTTTTATTT
19020391 TTTTATTTTTATTT
1 TTTTATTTTTATTT
19020405 TT
1 TT
19020407 AAAATAATTT
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:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTATTTTTATTT
Found at i:19020417 original size:25 final size:25
Alignment explanation
Indices: 19020389--19020437 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
19020379 TTATTTTTAT
* * *
19020389 TTTTTTATTTTTATTTTTAAAATAA
1 TTTTTAATGTTTATTTTAAAAATAA
19020414 TTTTTAATGTTTATTTTAAAAATA
1 TTTTTAATGTTTATTTTAAAAATA
19020438 GGCCGCGCCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTTTAATGTTTATTTTAAAAATAA
Found at i:19021832 original size:326 final size:326
Alignment explanation
Indices: 19021239--19021891 Score: 1306
Period size: 326 Copynumber: 2.0 Consensus size: 326
19021229 AAGTAACTCA
19021239 TGAAAATTTGATAAGAGATGGGGACTATTAATGATATTTGACCATGTTTTAATTGAGCTCAAAAA
1 TGAAAATTTGATAAGAGATGGGGACTATTAATGATATTTGACCATGTTTTAATTGAGCTCAAAAA
19021304 GAATTATACAGAAGTCAGCACTTGGAGGTGCCAACTTTGAAACTCGAATCTTCAAGAAAAAAAAA
66 GAATTATACAGAAGTCAGCACTTGGAGGTGCCAACTTTGAAACTCGAATCTTCAAGAAAAAAAAA
19021369 AGCCTATGTATTTAAATGAAATTGGAAGTAAATATTTTTATTATTTTCGTAATTAAAAGTCAAGT
131 AGCCTATGTATTTAAATGAAATTGGAAGTAAATATTTTTATTATTTTCGTAATTAAAAGTCAAGT
19021434 TGACTTAATATCATATAACTGATGTTTAGACCATACAGAATCTTAACCGTTAAGCTGATGGAAAC
196 TGACTTAATATCATATAACTGATGTTTAGACCATACAGAATCTTAACCGTTAAGCTGATGGAAAC
19021499 TCAACCGACTAATGGACACCTCAAACTCACCGGCCCCCATTCCTGCAATAGTTTAGTGAAGATTT
261 TCAACCGACTAATGGACACCTCAAACTCACCGGCCCCCATTCCTGCAATAGTTTAGTGAAGATTT
19021564 T
326 T
19021565 TGAAAATTTGATAAGAGATGGGGACTATTAATGATATTTGACCATGTTTTAATTGAGCTCAAAAA
1 TGAAAATTTGATAAGAGATGGGGACTATTAATGATATTTGACCATGTTTTAATTGAGCTCAAAAA
19021630 GAATTATACAGAAGTCAGCACTTGGAGGTGCCAACTTTGAAACTCGAATCTTCAAGAAAAAAAAA
66 GAATTATACAGAAGTCAGCACTTGGAGGTGCCAACTTTGAAACTCGAATCTTCAAGAAAAAAAAA
19021695 AGCCTATGTATTTAAATGAAATTGGAAGTAAATATTTTTATTATTTTCGTAATTAAAAGTCAAGT
131 AGCCTATGTATTTAAATGAAATTGGAAGTAAATATTTTTATTATTTTCGTAATTAAAAGTCAAGT
19021760 TGACTTAATATCATATAACTGATGTTTAGACCATACAGAATCTTAACCGTTAAGCTGATGGAAAC
196 TGACTTAATATCATATAACTGATGTTTAGACCATACAGAATCTTAACCGTTAAGCTGATGGAAAC
19021825 TCAACCGACTAATGGACACCTCAAACTCACCGGCCCCCATTCCTGCAATAGTTTAGTGAAGATTT
261 TCAACCGACTAATGGACACCTCAAACTCACCGGCCCCCATTCCTGCAATAGTTTAGTGAAGATTT
19021890 T
326 T
19021891 T
1 T
19021892 AATTGAAGTT
Statistics
Matches: 327, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
326 327 1.00
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.31
Consensus pattern (326 bp):
TGAAAATTTGATAAGAGATGGGGACTATTAATGATATTTGACCATGTTTTAATTGAGCTCAAAAA
GAATTATACAGAAGTCAGCACTTGGAGGTGCCAACTTTGAAACTCGAATCTTCAAGAAAAAAAAA
AGCCTATGTATTTAAATGAAATTGGAAGTAAATATTTTTATTATTTTCGTAATTAAAAGTCAAGT
TGACTTAATATCATATAACTGATGTTTAGACCATACAGAATCTTAACCGTTAAGCTGATGGAAAC
TCAACCGACTAATGGACACCTCAAACTCACCGGCCCCCATTCCTGCAATAGTTTAGTGAAGATTT
T
Found at i:19024332 original size:22 final size:22
Alignment explanation
Indices: 19024292--19024349 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
19024282 GTCATATTAA
*
19024292 TAAATTTTAAA-ATATAAAAAT
1 TAAATTTTAAATGTATAAAAAT
19024313 TAAATTTTAAATGTATAAAAAT
1 TAAATTTTAAATGTATAAAAAT
* *
19024335 GACATTTTAACATGT
1 TAAATTTTAA-ATGT
19024350 GTTTTTCCCC
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:19030750 original size:22 final size:23
Alignment explanation
Indices: 19030723--19030767 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
19030713 AGGTATCTAC
*
19030723 AAATCAAATC-TCTAATATTACA
1 AAATCAAATCTTCTAAGATTACA
*
19030745 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
19030768 TATCATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:19030772 original size:22 final size:22
Alignment explanation
Indices: 19030720--19030777 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
19030710 AAAAGGTATC
* *
19030720 TACAAATCAAATC-TCTAATAT
1 TACAAATCATATCTTCTAAGAT
19030741 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
19030764 TACATATCATATCT
1 TACAAATCATATCT
19030778 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.59
23 10 0.31
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:19036473 original size:27 final size:27
Alignment explanation
Indices: 19036443--19036494 Score: 88
Period size: 26 Copynumber: 1.9 Consensus size: 27
19036433 GTTAATAAAA
19036443 TTCTCTTTGAGTTTTCTTTT-GAAGAAT
1 TTCTC-TTGAGTTTTCTTTTAGAAGAAT
19036470 TTCTCTTGAGTTTTCTTTTAGAAGA
1 TTCTCTTGAGTTTTCTTTTAGAAGA
19036495 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:19038820 original size:26 final size:26
Alignment explanation
Indices: 19038751--19038821 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
19038741 CATTCTAACC
**
19038751 CACAGCTCGTGTGAGCAGGCCCATTT
1 CACAGCTCGTGTGAGCATACCCATTT
* * *
19038777 CATAGCTCGTGTGAGCATACTCTTTT
1 CACAGCTCGTGTGAGCATACCCATTT
19038803 CACAGCTCGTGTGAGCATA
1 CACAGCTCGTGTGAGCATA
19038822 TATGTAAAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCATACCCATTT
Found at i:19043014 original size:27 final size:27
Alignment explanation
Indices: 19042984--19043045 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
19042974 ACCTAAATCC
19042984 AAATGTAAAAACCTTACAGTTTCATTA
1 AAATGTAAAAACCTTACAGTTTCATTA
* **
19043011 AAATATAAAAACCTTATGGTTTCATTA
1 AAATGTAAAAACCTTACAGTTTCATTA
19043038 AAATGTAA
1 AAATGTAA
19043046 CACTTACTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (27 bp):
AAATGTAAAAACCTTACAGTTTCATTA
Found at i:19043896 original size:19 final size:19
Alignment explanation
Indices: 19043872--19043964 Score: 79
Period size: 19 Copynumber: 5.1 Consensus size: 19
19043862 AATAAATTAC
*
19043872 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
19043891 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
* * *
19043910 T--GC-TAGAATAAATT-A-C
1 TCATCTTAG--TTAATTAAGT
* *
19043926 TCATCTAAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
19043945 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
19043964 T
1 T
19043965 GTTGGAATAA
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
16 4 0.07
17 7 0.12
18 7 0.12
19 39 0.68
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:19044019 original size:54 final size:54
Alignment explanation
Indices: 19043853--19044001 Score: 253
Period size: 54 Copynumber: 2.8 Consensus size: 54
19043843 ATAAGTATTT
*
19043853 AGTTCCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
* *
19043907 AGTTGCTAGAATAAATTACTCATCTAAGTTAATTGAGTTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
* *
19043961 AGTTGTTGGAATAAATTACTCATCTTAGTTAATTAAGTTCA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCA
19044002 ACCTAGTTCA
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 88 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (54 bp):
AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
Found at i:19045348 original size:17 final size:18
Alignment explanation
Indices: 19045316--19045349 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19045306 GTGCATAGTT
19045316 TTTTGTGGCTTTCTATTC
1 TTTTGTGGCTTTCTATTC
*
19045334 TTTTGTGTC-TTCTATT
1 TTTTGTGGCTTTCTATT
19045350 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:19054148 original size:36 final size:35
Alignment explanation
Indices: 19054045--19054169 Score: 115
Period size: 36 Copynumber: 3.5 Consensus size: 35
19054035 CCCTCTTCTA
* * ** *
19054045 GTGTGTTTCGGTTGGACTAGTTCTTCGGAGCAACT
1 GTGTGTTTCGGGTGGACTAGCTCTTATGAGCATCT
* *
19054080 GGTGTGTTATCGGGTGGACTGGCTCGTATGAGCATCT
1 -GTGTGTT-TCGGGTGGACTAGCTCTTATGAGCATCT
* * *
19054117 CGTGTGTTTTGGGTGGATTAGCTCTTTTGAGCATCT
1 -GTGTGTTTCGGGTGGACTAGCTCTTATGAGCATCT
*
19054153 GTTGTGTTTCGGTTGGA
1 G-TGTGTTTCGGGTGGA
19054170 ATATCATTGT
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
35 1 0.01
36 43 0.60
37 28 0.39
ACGTcount: A:0.12, C:0.14, G:0.34, T:0.39
Consensus pattern (35 bp):
GTGTGTTTCGGGTGGACTAGCTCTTATGAGCATCT
Found at i:19060601 original size:21 final size:21
Alignment explanation
Indices: 19060577--19060619 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
19060567 AAATGGTAAG
19060577 AATAAACATTTCTTCATTTTT
1 AATAAACATTTCTTCATTTTT
19060598 AATAAACATTTCTTCATTTTT
1 AATAAACATTTCTTCATTTTT
19060619 A
1 A
19060620 CTTCTCCTAT
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:19064150 original size:18 final size:18
Alignment explanation
Indices: 19064127--19064161 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
19064117 AAACTAACTC
19064127 AGTTTTCCTCAGCCACAG
1 AGTTTTCCTCAGCCACAG
19064145 AGTTTTCCTCAGCCACA
1 AGTTTTCCTCAGCCACA
19064162 AATGTGGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (18 bp):
AGTTTTCCTCAGCCACAG
Found at i:19067777 original size:23 final size:23
Alignment explanation
Indices: 19067746--19067796 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
19067736 ACCTACTTTC
* *
19067746 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
19067769 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
19067792 TTACA
1 TTACA
19067797 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:19073739 original size:40 final size:40
Alignment explanation
Indices: 19073656--19073918 Score: 302
Period size: 40 Copynumber: 6.6 Consensus size: 40
19073646 TTGAATGCTG
* * * * * *
19073656 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
19073696 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
19073736 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
19073776 TCCGGGTTAAGTCCCGAAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCG-AAGGCATTCGTGCGAGTTATTAAA
*
19073817 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
19073857 TCCGGGTTATGTCCCGAAGGCATT--TGTGAGTTACTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TTAAA
* *
19073896 T-CGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
19073919 TGAACGAGGA
Statistics
Matches: 200, Mismatches: 18, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
38 28 0.14
39 6 0.03
40 118 0.59
41 48 0.24
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:19073830 original size:81 final size:79
Alignment explanation
Indices: 19073656--19073918 Score: 300
Period size: 81 Copynumber: 3.3 Consensus size: 79
19073646 TTGAATGCTG
* * * * * * *
19073656 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGG-CA
* *
19073719 TTGTGCGAGATACTAAA
63 TTGTGCGAGTTATTAAA
*
19073736 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCG-AAGGCATT
19073801 CGTGCGAGTTATTAAA
65 -GTGCGAGTTATTAAA
* * *
19073817 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
* *
19073881 TGTGAGTTACTAAAA
66 TGCGAGTTA-TTAAA
*
19073896 T-CGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
19073919 TGAACGAGGA
Statistics
Matches: 162, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
78 28 0.17
79 6 0.04
80 51 0.31
81 77 0.48
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
TGCGAGTTATTAAA
Found at i:19073871 original size:121 final size:120
Alignment explanation
Indices: 19073656--19073918 Score: 311
Period size: 121 Copynumber: 2.2 Consensus size: 120
19073646 TTGAATGCTG
* * *
19073656 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* *
19073720 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT--TGCGAGTTACTAAAA
* * * * *
19073776 TCCGGGTTAAGTCCCGAAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCG-AAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
19073839 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTTGTGAGTTACTAAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTTGCGAGTTACTAAAA
*
19073896 T-CGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
19073919 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 8 0.07
119 20 0.16
120 21 0.17
121 67 0.55
122 6 0.05
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTTGCGAGTTACTAAAA
Found at i:19073938 original size:78 final size:80
Alignment explanation
Indices: 19073733--19073943 Score: 207
Period size: 81 Copynumber: 2.7 Consensus size: 80
19073723 GCGAGATACT
* ** * *
19073733 AAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TTAAATCCGGGTTAAGTCCCGAAAGG
1 AAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCTAAATCCGGGTTAAGTCCCGAAAGG
*
19073797 CATTCGTGCGAGTTATT
65 CATTC-TGCGAGTTATA
* ** ** * *
19073814 AAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCG-AAGGC
1 AAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCCGGGTTAAGTCCCGAAAGGC
*
19073878 ATT-TGTGAGTTACTA
66 ATTCTGCGAGTTA-TA
* * *
19073893 AAAT-CGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAA
1 AAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCCGGGTTAA
19073944 ATCCGAAGGT
Statistics
Matches: 114, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
77 5 0.04
78 40 0.35
79 5 0.04
80 9 0.08
81 55 0.48
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (80 bp):
AAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCCGGGTTAAGTCCCGAAAGGC
ATTCTGCGAGTTATA
Found at i:19092977 original size:79 final size:81
Alignment explanation
Indices: 19092841--19093025 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
19092831 TTGAATGATG
* *
19092841 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
19092905 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
19092920 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
19092982 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
19093000 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19093026 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:19093039 original size:40 final size:41
Alignment explanation
Indices: 19092841--19093025 Score: 222
Period size: 40 Copynumber: 4.6 Consensus size: 41
19092831 TTGAATGATG
* * *
19092841 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
19092881 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
19092921 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
19092960 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
19093001 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19093026 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:19093056 original size:79 final size:79
Alignment explanation
Indices: 19092880--19093058 Score: 195
Period size: 79 Copynumber: 2.3 Consensus size: 79
19092870 AAGTGACCAT
* * *
19092880 ATCCGGACTAAGA-TCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATT
1 ATCCGGATTAA-ATTCCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATT
**
19092944 TGTGCGAGTTACTAA
65 TGAACGAGTTACTAA
* * * * *
19092959 ATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 ATCCGGATTAAATTCCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
19093023 TTGAACGAG-TAGCTAT
64 TTGAACGAGTTA-CTAA
19093039 ATCC-GATTAAATTCCGAAGG
1 ATCCGGATTAAATTCCGAAGG
19093059 TACGTGATTT
Statistics
Matches: 82, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
78 2 0.02
79 55 0.67
80 25 0.30
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
ATCCGGATTAAATTCCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTT
GAACGAGTTACTAA
Found at i:19098965 original size:29 final size:29
Alignment explanation
Indices: 19098933--19098990 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
19098923 GTAATTCAGA
* *
19098933 TTAATGATTTTAATTATATTTAAAATGAT
1 TTAATGATTTAAATAATATTTAAAATGAT
* *
19098962 TTAATTATTTAAATAATATTTAAACTGAT
1 TTAATGATTTAAATAATATTTAAAATGAT
19098991 ATATTATTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (29 bp):
TTAATGATTTAAATAATATTTAAAATGAT
Found at i:19098973 original size:28 final size:28
Alignment explanation
Indices: 19098939--19098999 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
19098929 CAGATTAATG
* * *
19098939 ATTTTAATTATATTTAAAATGATTTAATT
1 ATTTAAATAATATTTAAAATGATAT-ATT
*
19098968 ATTTAAATAATATTTAAACTGATATATT
1 ATTTAAATAATATTTAAAATGATATATT
19098996 ATTT
1 ATTT
19099000 CGATCCTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 7 0.25
29 21 0.75
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (28 bp):
ATTTAAATAATATTTAAAATGATATATT
Found at i:19099850 original size:21 final size:20
Alignment explanation
Indices: 19099795--19099866 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 20
19099785 ATTTTTTTAA
**
19099795 AATAGTATGGTAAAA-AA-T
1 AATAGTATTTTAAAATAATT
*
19099813 AATAGTAATTT--AATAATT
1 AATAGTATTTTAAAATAATT
19099831 GAATAGT-TTTGTAAAATAATT
1 -AATAGTATTT-TAAAATAATT
19099852 AATAGTATTTTAAAA
1 AATAGTATTTTAAAA
19099867 CATAATTACT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
16 2 0.05
17 2 0.05
18 11 0.26
19 7 0.16
20 11 0.26
21 10 0.23
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (20 bp):
AATAGTATTTTAAAATAATT
Found at i:19099857 original size:20 final size:21
Alignment explanation
Indices: 19099824--19099866 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
19099814 ATAGTAATTT
19099824 AATAATTGAATAGT-TTTGTAA
1 AATAATTGAATAGTATTT-TAA
19099845 AATAATT-AATAGTATTTTAA
1 AATAATTGAATAGTATTTTAA
19099865 AA
1 AA
19099867 CATAATTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (21 bp):
AATAATTGAATAGTATTTTAA
Found at i:19101212 original size:35 final size:34
Alignment explanation
Indices: 19101109--19101233 Score: 112
Period size: 35 Copynumber: 3.6 Consensus size: 34
19101099 AACTCGACTC
*
19101109 AAAAGATGTTAGGGTAGAACCGTCTAAGGA-AACCT
1 AAAAGATGTTAGGGTAG-ACTGTCTAA-GACAACCT
* * * *
19101144 AAAAAATGTTGGGGTAGACTCGTCCAAGGCAACCT
1 AAAAGATGTTAGGGTAGACT-GTCTAAGACAACCT
* *
19101179 AAAAGAGGTTAGGGTAGATCTGTTTAAGACAACCAT
1 AAAAGATGTTAGGGTAGA-CTGTCTAAGACAACC-T
19101215 AAAA-ATGTT-GGCGTAGACT
1 AAAAGATGTTAGG-GTAGACT
19101234 CACCTAAATT
Statistics
Matches: 73, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
34 7 0.10
35 59 0.81
36 7 0.10
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (34 bp):
AAAAGATGTTAGGGTAGACTGTCTAAGACAACCT
Found at i:19101659 original size:18 final size:18
Alignment explanation
Indices: 19101628--19101663 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
19101618 TGTTCTCTTT
* *
19101628 CTTTATTTTTTTATTATA
1 CTTTAATTTATTATTATA
19101646 CTTTAATTTATTATTATA
1 CTTTAATTTATTATTATA
19101664 ATATAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (18 bp):
CTTTAATTTATTATTATA
Found at i:19102929 original size:52 final size:52
Alignment explanation
Indices: 19102867--19102970 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 52
19102857 AGGTTGTTAG
* **
19102867 AAGTTCTTCGGCAATTTAAGAGGGCATTGGGATGGACACTAGCTAATATAAA
1 AAGTTCTTCGGCAATTTAAAAGGGCATTAAGATGGACACTAGCTAATATAAA
** * * *
19102919 AAGTTCTTCGGGGATTTAAAAGGGCATTAAGATGGACCCTGGCTGATATAAA
1 AAGTTCTTCGGCAATTTAAAAGGGCATTAAGATGGACACTAGCTAATATAAA
19102971 GGGAATTAGC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (52 bp):
AAGTTCTTCGGCAATTTAAAAGGGCATTAAGATGGACACTAGCTAATATAAA
Found at i:19108247 original size:24 final size:25
Alignment explanation
Indices: 19108201--19108263 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 25
19108191 CTAAGGAGCC
* *
19108201 CACTCAAGTTGCTACTAAAGCAC-T
1 CACTCAACTTGCTACCAAAGCACAT
* *
19108225 CACTCAACTTGCTACCGAGGCACAT
1 CACTCAACTTGCTACCAAAGCACAT
19108250 -ACTCAAAC-TGCTAC
1 CACTC-AACTTGCTAC
19108264 TTAAGAGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 29 0.88
25 4 0.12
ACGTcount: A:0.32, C:0.33, G:0.13, T:0.22
Consensus pattern (25 bp):
CACTCAACTTGCTACCAAAGCACAT
Found at i:19110937 original size:25 final size:26
Alignment explanation
Indices: 19110889--19110940 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
19110879 GTTCGCTTGA
19110889 TTATTCTTGTAATTGCCATTGCATTT
1 TTATTCTTGTAATTGCCATTGCATTT
*
19110915 TTATTCTTG-ATTTGCC-TTAGCATTT
1 TTATTCTTGTAATTGCCATT-GCATTT
19110940 T
1 T
19110941 CCAATATTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 2 0.08
25 13 0.54
26 9 0.38
ACGTcount: A:0.17, C:0.15, G:0.12, T:0.56
Consensus pattern (26 bp):
TTATTCTTGTAATTGCCATTGCATTT
Found at i:19111628 original size:23 final size:23
Alignment explanation
Indices: 19111598--19111644 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
19111588 TGCAAAGCAG
19111598 AATAAAATATTAAATTTTTGCTA
1 AATAAAATATTAAATTTTTGCTA
19111621 AATAAAATATTAAATTTTTGCTA
1 AATAAAATATTAAATTTTTGCTA
19111644 A
1 A
19111645 GTCCTGACAA
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:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (23 bp):
AATAAAATATTAAATTTTTGCTA
Found at i:19123667 original size:26 final size:26
Alignment explanation
Indices: 19123638--19123689 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
19123628 ATATAATTTC
19123638 CAAATCATGTATC-TATATATCATGTA
1 CAAATCAT-TATCATATATATCATGTA
* *
19123664 CAAATCATTTTCATATATCTCATGTA
1 CAAATCATTATCATATATATCATGTA
19123690 AATACCTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (26 bp):
CAAATCATTATCATATATATCATGTA
Found at i:19123910 original size:50 final size:50
Alignment explanation
Indices: 19123831--19123958 Score: 156
Period size: 50 Copynumber: 2.6 Consensus size: 50
19123821 GTACATGTGT
* *
19123831 GCTCATACGAGCTG--TAAATGGTAAGCTCCTCTAAGCTGAA-TA-ACGATAA
1 GCTCATACGAGCTGAATAAA-GGTAAGCTCCTCCAAGATGAATTATA-G-TAA
* **
19123880 GCTCGTACGAGCTGAATAGCGGTAAGCTCCTCCAAGATGAATTATAGTAA
1 GCTCATACGAGCTGAATAAAGGTAAGCTCCTCCAAGATGAATTATAGTAA
19123930 GCTCATACGAGCTGAATAAAGGTAAGCTC
1 GCTCATACGAGCTGAATAAAGGTAAGCTC
19123959 ATAAGAGCTG
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
49 13 0.19
50 48 0.72
51 5 0.07
52 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (50 bp):
GCTCATACGAGCTGAATAAAGGTAAGCTCCTCCAAGATGAATTATAGTAA
Found at i:19123945 original size:25 final size:24
Alignment explanation
Indices: 19123831--19123970 Score: 88
Period size: 25 Copynumber: 5.7 Consensus size: 24
19123821 GTACATGTGT
19123831 GCTCATACGAGCTG--TAAATGGTAA
1 GCTCATACGAGCTGAATAAA--GTAA
* * *
19123855 GCTCCT-CTAAGCTGAATAACGATAA
1 GCTCATAC-GAGCTGAATAAAG-TAA
* **
19123880 GCTCGTACGAGCTGAATAGCGGTAA
1 GCTCATACGAGCTGAATA-AAGTAA
* * * * *
19123905 GCTCCTCCAAGATGAATTATAGTAA
1 GCTCATACGAGCTGAA-TAAAGTAA
19123930 GCTCATACGAGCTGAATAAAGGTAA
1 GCTCATACGAGCTGAATAAA-GTAA
*
19123955 GCTCATAAGAGCTGAA
1 GCTCATACGAGCTGAA
19123971 ATCAGTAACC
Statistics
Matches: 89, Mismatches: 19, Indels: 15
0.72 0.15 0.12
Matches are distributed among these distances:
23 1 0.01
24 14 0.16
25 67 0.75
26 7 0.08
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (24 bp):
GCTCATACGAGCTGAATAAAGTAA
Found at i:19127123 original size:40 final size:40
Alignment explanation
Indices: 19127064--19127149 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
19127054 TTTTCGTGTT
*
19127064 TCCACACCCCTAAAATTATTTCATTACTCGTCCTGAGTAA
1 TCCACACCCCTAAAATTATTTCATTACTCATCCTGAGTAA
* * *
19127104 TCCACA-CCCTCAAACTTATTTCATTAGTCATCTTGAGTAA
1 TCCACACCCCT-AAAATTATTTCATTACTCATCCTGAGTAA
*
19127144 TGCACA
1 TCCACA
19127150 AATTTGAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.10
40 36 0.90
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (40 bp):
TCCACACCCCTAAAATTATTTCATTACTCATCCTGAGTAA
Found at i:19151913 original size:22 final size:22
Alignment explanation
Indices: 19151879--19151922 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
19151869 TTTTCACTTA
* *
19151879 AATTATTAATATATTTAATTTT
1 AATTATTAATATAATAAATTTT
**
19151901 AATTATTTGTATAATAAATTTT
1 AATTATTAATATAATAAATTTT
19151923 CACAAATTTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
AATTATTAATATAATAAATTTT
Found at i:19160751 original size:50 final size:50
Alignment explanation
Indices: 19160638--19160878 Score: 268
Period size: 50 Copynumber: 4.7 Consensus size: 50
19160628 GGTAAAAAGA
* *
19160638 TCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCCTTAAGATCATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-CA--AGAGG
*
19160694 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACAAGATG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACAAGAGG
* * **
19160744 TCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACAAGAGG
* * ** **
19160794 TCTCC-TGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACAAGAGG
* * *
19160844 TCCCATGTAAGACCATATCTGGGATATGGAATTGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGG
19160879 TAGTATAAGA
Statistics
Matches: 165, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
49 2 0.01
50 118 0.72
51 2 0.01
52 2 0.01
53 3 0.02
55 2 0.01
56 36 0.22
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACAAGAGG
Found at i:19160822 original size:100 final size:103
Alignment explanation
Indices: 19160638--19160878 Score: 301
Period size: 100 Copynumber: 2.3 Consensus size: 103
19160628 GGTAAAAAGA
*
19160638 TCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCCTTAAGATCATGAGAGGTCCCATGTA
1 TCCCATGTAAGACCATGTCTAGGACATGGAATTGGCATCC---AGATCATGAGAGGTCCCATGTA
* **
19160703 AGACCATGTCTGGGACATGGCATTGGCACCGAGACAAGATG
63 AGACCATGTCTGGGACATGGCATGGGCACCGAGACAAGAAC
** *
19160744 TCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCTCC-TGTAAG
1 TCCCATGTAAGACCATGTCTAGGACATGGAATTGGCATCCAGATCATGAGAGGTC-CCATGTAAG
* **
19160805 ACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
65 ACCATGTCTGGGACATGGCATGGGCACCGAGACAAGAAC
* * *
19160844 TCCCATGTAAGACCATATCTGGGATATGGAATTGG
1 TCCCATGTAAGACCATGTCTAGGACATGGAATTGG
19160879 TAGTATAAGA
Statistics
Matches: 119, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
100 79 0.66
101 4 0.03
105 2 0.02
106 34 0.29
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (103 bp):
TCCCATGTAAGACCATGTCTAGGACATGGAATTGGCATCCAGATCATGAGAGGTCCCATGTAAGA
CCATGTCTGGGACATGGCATGGGCACCGAGACAAGAAC
Found at i:19174236 original size:50 final size:50
Alignment explanation
Indices: 19174169--19174340 Score: 281
Period size: 50 Copynumber: 3.4 Consensus size: 50
19174159 ATTTGGGTAA
*
19174169 AGAGCTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
* * *
19174219 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
*
19174269 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
**
19174319 AGAGGTCCCCCGTAAGACCATG
1 AGAGGTCCCATGTAAGACCATG
19174341 GCATGGGCAC
Statistics
Matches: 112, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 112 1.00
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
Found at i:19181044 original size:50 final size:50
Alignment explanation
Indices: 19180969--19181101 Score: 257
Period size: 50 Copynumber: 2.7 Consensus size: 50
19180959 ATTTGGGTAA
*
19180969 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
19181019 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
19181069 AGAGGTCCCATGTAAGACCATGTCTGGGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATG
19181102 TAGCGCATTT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 82 1.00
ACGTcount: A:0.26, C:0.22, G:0.32, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:19184560 original size:14 final size:15
Alignment explanation
Indices: 19184533--19184562 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19184523 TTATTAACCC
19184533 TTTTAAAACTCCTTT
1 TTTTAAAACTCCTTT
19184548 TTTTAAAAC-CCTTT
1 TTTTAAAACTCCTTT
19184562 T
1 T
19184563 CTTTGAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.27, C:0.20, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTTAAAACTCCTTT
Found at i:19190077 original size:50 final size:50
Alignment explanation
Indices: 19189990--19190169 Score: 148
Period size: 50 Copynumber: 3.5 Consensus size: 50
19189980 CAATGCTATA
* ** * * *
19189990 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCA-TGCCATG
1 TCCCAGAAATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACT-CCATG
* * *
19190040 TCCTAGACATGGTCTTACGA-GGGACCTCTTATCTCGGTGCCAACTTCATG
1 TCCCAGAAATGGTCTTAC-ATGGGACCTCTTATCTCGGTGCCAACTCCATG
* * *
19190090 TCCCAGAAATGGTCTTACATGGGACCTCTCGTAATCTAAATGATGCCAATTCCATG
1 TCCCAGAAATGGTCTTACATGGGACCTCT--T-ATCT---CGGTGCCAACTCCATG
* *
19190146 TCTCAGACATGGTCTTACATGGGA
1 TCCCAGAAATGGTCTTACATGGGA
19190170 TCTCATTCCC
Statistics
Matches: 105, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
49 1 0.01
50 63 0.60
51 2 0.02
52 1 0.01
53 4 0.04
56 34 0.32
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (50 bp):
TCCCAGAAATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACTCCATG
Found at i:19200377 original size:22 final size:21
Alignment explanation
Indices: 19200352--19200395 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
19200342 TGATAAACTT
19200352 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
19200374 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
19200395 T
1 T
19200396 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:19204840 original size:20 final size:20
Alignment explanation
Indices: 19204817--19204855 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19204807 CATCTCTAAA
19204817 TTCTCTATT-CATTCTCCTTT
1 TTCTCTATTCCATT-TCCTTT
*
19204837 TTCTCTCTTCCATTTCCTT
1 TTCTCTATTCCATTTCCTT
19204856 CCTTATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.08, C:0.33, G:0.00, T:0.59
Consensus pattern (20 bp):
TTCTCTATTCCATTTCCTTT
Found at i:19208703 original size:16 final size:16
Alignment explanation
Indices: 19208682--19208716 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
19208672 TTTTAGATGA
19208682 TTTAATTGAGGAAGAG
1 TTTAATTGAGGAAGAG
*
19208698 TTTAATTGAGGAGGAG
1 TTTAATTGAGGAAGAG
19208714 TTT
1 TTT
19208717 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:19224857 original size:9 final size:10
Alignment explanation
Indices: 19224833--19224866 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
19224823 AGACATATAA
19224833 ATTTTTAATG
1 ATTTTTAATG
19224843 ATTTTTAATG
1 ATTTTTAATG
19224853 ATTTTTAATG
1 ATTTTTAATG
19224863 ATTT
1 ATTT
19224867 CCTAAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (10 bp):
ATTTTTAATG
Found at i:19225498 original size:20 final size:20
Alignment explanation
Indices: 19225473--19225512 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
19225463 TACTTTCTTC
19225473 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
19225493 TTTACTTACTTGCTTACTTG
1 TTTACTTACTTGCTTACTTG
19225513 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:19225837 original size:50 final size:50
Alignment explanation
Indices: 19225766--19225891 Score: 153
Period size: 50 Copynumber: 2.5 Consensus size: 50
19225756 TTGTACTGCA
* * * * **
19225766 AATGTCATATCCCATATATGGTCTTACATGAGAGTTCTCATATCGATGCC
1 AATGTCATGTCCCAGACATGGTCTTACAAGAGACCTCTCATATCGATGCC
* * *
19225816 CATGTCATGTCCCAGACATGGTCTTACAAGGGACCTCTCATCTCGATGCC
1 AATGTCATGTCCCAGACATGGTCTTACAAGAGACCTCTCATATCGATGCC
* *
19225866 AACGCCATGTCCCAGACATGGTCTTA
1 AATGTCATGTCCCAGACATGGTCTTA
19225892 TGTGGGACCT
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 64 1.00
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (50 bp):
AATGTCATGTCCCAGACATGGTCTTACAAGAGACCTCTCATATCGATGCC
Found at i:19225899 original size:50 final size:50
Alignment explanation
Indices: 19225783--19225907 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 50
19225773 TATCCCATAT
* * ** * * *
19225783 ATGGTCTTACATGAGAGTTCTCATATCGATGCCCATGTCATGTCCCAGAC
1 ATGGTCTTACAAGGGACCTCTCATATCGATGCCAACGCCATGTCCCAGAC
*
19225833 ATGGTCTTACAAGGGACCTCTCATCTCGATGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACAAGGGACCTCTCATATCGATGCCAACGCCATGTCCCAGAC
***
19225883 ATGGTCTTATGTGGGACCTCTCATA
1 ATGGTCTTACAAGGGACCTCTCATA
19225908 ACCTCAATAA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACAAGGGACCTCTCATATCGATGCCAACGCCATGTCCCAGAC
Found at i:19245071 original size:25 final size:25
Alignment explanation
Indices: 19245037--19245107 Score: 133
Period size: 25 Copynumber: 2.8 Consensus size: 25
19245027 CAGGCCCATT
19245037 TTCACAGCTCATGTGAGCATACTTA
1 TTCACAGCTCATGTGAGCATACTTA
*
19245062 TTCATAGCTCATGTGAGCATACTTA
1 TTCACAGCTCATGTGAGCATACTTA
19245087 TTCACAGCTCATGTGAGCATA
1 TTCACAGCTCATGTGAGCATA
19245108 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:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (25 bp):
TTCACAGCTCATGTGAGCATACTTA
Found at i:19252003 original size:20 final size:20
Alignment explanation
Indices: 19251967--19252004 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19251957 ATCTCTCAAT
*
19251967 TCTCTCTTTATTCTCCTTTC
1 TCTCTCTTTAGTCTCCTTTC
19251987 TCTCTCTTCTAGT-TCCTT
1 TCTCTCTT-TAGTCTCCTT
19252005 CCTTGTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.05, C:0.34, G:0.03, T:0.58
Consensus pattern (20 bp):
TCTCTCTTTAGTCTCCTTTC
Found at i:19255321 original size:20 final size:20
Alignment explanation
Indices: 19255200--19255326 Score: 94
Period size: 20 Copynumber: 6.3 Consensus size: 20
19255190 TTGTGTGGGA
*
19255200 TTTGCACTTTGGTGCCCCTA
1 TTTGCACTTTGGTGCCCCTG
* * *
19255220 TTTTCACTTTGATGCCTCTG
1 TTTGCACTTTGGTGCCCCTG
* * * * * *
19255240 TATACACTTCGGTGTCTCTA
1 TTTGCACTTTGGTGCCCCTG
** **
19255260 TTCACACTACGGTGCCCCTG
1 TTTGCACTTTGGTGCCCCTG
*
19255280 TTTGCACATTT-GTGCCCTTG
1 TTTGCAC-TTTGGTGCCCCTG
19255300 TTTGCACTTTGGTGCCCCTG
1 TTTGCACTTTGGTGCCCCTG
19255320 TTATGCA
1 TT-TGCA
19255327 TCTATGATGC
Statistics
Matches: 82, Mismatches: 22, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
19 3 0.04
20 74 0.90
21 5 0.06
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.40
Consensus pattern (20 bp):
TTTGCACTTTGGTGCCCCTG
Found at i:19257239 original size:40 final size:40
Alignment explanation
Indices: 19257148--19257317 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
19257138 TCCTCGTTCA
* * * * *
19257148 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
19257187 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
19257227 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
19257267 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
19257307 AAGGCCTTCGG
1 AATGCCTTCGG
19257318 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:19262201 original size:17 final size:19
Alignment explanation
Indices: 19262161--19262202 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
19262151 ATATGATTCT
*
19262161 TGATGTGAGTTTTGAATCG
1 TGATGAGAGTTTTGAATCG
*
19262180 AGATGAGAGTTTTG-AT-G
1 TGATGAGAGTTTTGAATCG
19262197 TGATGA
1 TGATGA
19262203 TTTTTACTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 6 0.30
18 2 0.10
19 12 0.60
ACGTcount: A:0.26, C:0.02, G:0.33, T:0.38
Consensus pattern (19 bp):
TGATGAGAGTTTTGAATCG
Found at i:19263977 original size:20 final size:19
Alignment explanation
Indices: 19263954--19263992 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
19263944 CGCACTACAT
*
19263954 TGCCCCTGTTTGCACATTTG
1 TGCCCCTGTCTGCAC-TTTG
19263974 TGCCCCTGTCTGCACTTTG
1 TGCCCCTGTCTGCACTTTG
19263993 GGGCCTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.08, C:0.33, G:0.21, T:0.38
Consensus pattern (19 bp):
TGCCCCTGTCTGCACTTTG
Found at i:19267593 original size:29 final size:28
Alignment explanation
Indices: 19267557--19267634 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
19267547 TCATGAGATT
19267557 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
19267587 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
19267614 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
19267635 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:19267852 original size:174 final size:174
Alignment explanation
Indices: 19267587--19268088 Score: 941
Period size: 174 Copynumber: 2.9 Consensus size: 174
19267577 AAATTGTACA
19267587 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
19267652 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
*
19267717 TTTTGGACAGCAGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
19267761 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
19267826 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
19267891 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
19267935 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
* * * *
19268000 TGTGCGAACCCGATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
19268065 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
19268089 ACCTTGAGTT
Statistics
Matches: 321, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 321 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:19271689 original size:51 final size:51
Alignment explanation
Indices: 19271630--19271750 Score: 138
Period size: 51 Copynumber: 2.4 Consensus size: 51
19271620 ATGTGTACTG
* *
19271630 CTATGTGCAGGCTACTATGCGTA-CTGGATAGT-TTCGATCACGTATGTAGTA
1 CTATGTGCAGGCTACTATGCGTATC-GGATAGTAAT-GATCACATATGTAGTA
*** * * *
19271681 CTATGTGCAGGCTACTACATGTATCGGATGGTAATGGTCACATGTGTAGTA
1 CTATGTGCAGGCTACTATGCGTATCGGATAGTAATGATCACATATGTAGTA
19271732 CTATGTGCAGGCTACTATG
1 CTATGTGCAGGCTACTATG
19271751 TGAACCGAAC
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
51 56 0.97
52 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (51 bp):
CTATGTGCAGGCTACTATGCGTATCGGATAGTAATGATCACATATGTAGTA
Found at i:19278622 original size:22 final size:24
Alignment explanation
Indices: 19278596--19278658 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 24
19278586 TAATGAACAA
19278596 AGAGCACTGAA-GTGCT-AT-ACAG
1 AGAGCA-TGAATGTGCTAATCACAG
19278618 AGAGCATGAATGTGCTAATCAC--
1 AGAGCATGAATGTGCTAATCACAG
19278640 AGAGCA-GTAATGTGCTAAT
1 AGAGCATG-AATGTGCTAAT
19278659 AATTGGAGAG
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:19296671 original size:17 final size:16
Alignment explanation
Indices: 19296641--19296675 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
19296631 AATTAATTTA
19296641 AATTAATTAATTTCTC
1 AATTAATTAATTTCTC
*
19296657 AATTCAATTATTTTCTC
1 AATT-AATTAATTTCTC
19296674 AA
1 AA
19296676 CCTAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (16 bp):
AATTAATTAATTTCTC
Found at i:19309900 original size:15 final size:16
Alignment explanation
Indices: 19309875--19309907 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
19309865 GTTCAAATAT
19309875 ATAGAAAAATAATTAC
1 ATAGAAAAATAATTAC
19309891 ATAG-AAAATAATTAC
1 ATAGAAAAATAATTAC
19309906 AT
1 AT
19309908 GTTTACTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (16 bp):
ATAGAAAAATAATTAC
Found at i:19341473 original size:22 final size:22
Alignment explanation
Indices: 19341443--19341485 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
19341433 ACACCAAAAC
*
19341443 AGGCTTTTAGCGCCGCTTTTTT
1 AGGCCTTTAGCGCCGCTTTTTT
*
19341465 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGCCGCTTTTT
19341486 AGCGTCGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.23, G:0.26, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGCCGCTTTTTT
Found at i:19341593 original size:43 final size:43
Alignment explanation
Indices: 19341545--19341687 Score: 126
Period size: 43 Copynumber: 3.3 Consensus size: 43
19341535 TTCTAGAAAT
*
19341545 AAATGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTAACCAC
1 AAATGCCGCTAAAGACCAAGACCTTCAGCGGCGCTTTAACCAC
* * * ** **
19341588 AAATGCCGCTGAAGGCCATGGTCTTCAGCGGCGCTTTTCCCAC
1 AAATGCCGCTAAAGACCAAGACCTTCAGCGGCGCTTTAACCAC
* ** * ** **
19341631 AAACGCCGCTAAAGGTCATGGTCTTCAGCGGCGCTTTTCCCAC
1 AAATGCCGCTAAAGACCAAGACCTTCAGCGGCGCTTTAACCAC
19341674 AAACT-CCGCTAAAG
1 AAA-TGCCGCTAAAG
19341688 GTCATGCTCT
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 87 1.00
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.21
Consensus pattern (43 bp):
AAATGCCGCTAAAGACCAAGACCTTCAGCGGCGCTTTAACCAC
Found at i:19341769 original size:43 final size:44
Alignment explanation
Indices: 19341567--19341936 Score: 233
Period size: 43 Copynumber: 8.6 Consensus size: 44
19341557 AGACCAAGAC
* * *
19341567 CTTTAGCGGCGCTTTA-ACCACAAATGCCGCTGAAGGCCATGGT
1 CTTTAGCGGCGCTTTACACCACAAACGCCGCTAAAGGTCATGGT
* *
19341610 CTTCAGCGGCGCTTTTC-CCACAAACGCCGCTAAAGGTCATGGT
1 CTTTAGCGGCGCTTTACACCACAAACGCCGCTAAAGGTCATGGT
* * * *
19341653 CTTCAGCGGCGCTTTTC-CCACAAACTCCGCTAAAGGTCATGCT
1 CTTTAGCGGCGCTTTACACCACAAACGCCGCTAAAGGTCATGGT
* * * * **
19341696 CTTTAGCGGCACTTT-TACGAAAAATACCGCTAAAGGTCATGGT
1 CTTTAGCGGCGCTTTACACCACAAACGCCGCTAAAGGTCATGGT
* ** * * * **
19341739 TTTTAGCGGCGC-TTACAAAACAAACGCCGCTAACGATAATGAC
1 CTTTAGCGGCGCTTTACACCACAAACGCCGCTAAAGGTCATGGT
* * ** * *
19341782 CTTTAGCGGCGC-TT-CTCCAGAAAACGCCGCTAAAGACCCTGAT
1 CTTTAGCGGCGCTTTACACCA-CAAACGCCGCTAAAGGTCATGGT
* * * * ** * *
19341825 CGTTAGCGGTGCCTTT-C-CAACAAACGCCACTAAAGCCCCTGAT
1 CTTTAGCGGCG-CTTTACACCACAAACGCCGCTAAAGGTCATGGT
* * * ** *
19341868 CTTTAGCGGCG-TTTTC-CTCTCAAACGCCGCTGAAGACCATGAT
1 CTTTAGCGGCGCTTTACAC-CACAAACGCCGCTAAAGGTCATGGT
*
19341911 CTTTAGCGGCGCTTTTC-CCACAAACG
1 CTTTAGCGGCGCTTTACACCACAAACG
19341937 GCACTAATTT
Statistics
Matches: 265, Mismatches: 53, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
41 3 0.01
42 6 0.02
43 244 0.92
44 9 0.03
45 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (44 bp):
CTTTAGCGGCGCTTTACACCACAAACGCCGCTAAAGGTCATGGT
Found at i:19341812 original size:129 final size:129
Alignment explanation
Indices: 19341567--19341816 Score: 279
Period size: 129 Copynumber: 1.9 Consensus size: 129
19341557 AGACCAAGAC
* * * * * **
19341567 CTTTAGCGGCGCTTTAACCACAAATGCCGCTGAAGGCCATGGTCTTCAGCGGCGCTTTTCCCACA
1 CTTTAGCGGCACTTTAACCAAAAATACCGCTAAAGGCCATGGTCTTCAGCGGCGCTTTACAAACA
* * ** * * *
19341632 AACGCCGCTAAAGGTCATGGTCTTCAGCGGCGCTTTTCCCACAAACTCCGCTAAAGGTCATGCT
66 AACGCCGCTAAAGATAATGACCTTCAGCGGCGCTTCTCCCAAAAACGCCGCTAAAGGTCATGCT
* * * * *
19341696 CTTTAGCGGCACTTTTACGAAAAATACCGCTAAAGGTCATGGTTTTTAGCGGCGC-TTACAAAAC
1 CTTTAGCGGCACTTTAACCAAAAATACCGCTAAAGGCCATGGTCTTCAGCGGCGCTTTAC-AAAC
* *
19341760 AAACGCCGCTAACGATAATGACCTTTAGCGGCGCTTCT-CCAGAAAACGCCGCTAAAG
65 AAACGCCGCTAAAGATAATGACCTTCAGCGGCGCTTCTCCCA-AAAACGCCGCTAAAG
19341817 ACCCTGATCG
Statistics
Matches: 98, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
128 6 0.06
129 92 0.94
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (129 bp):
CTTTAGCGGCACTTTAACCAAAAATACCGCTAAAGGCCATGGTCTTCAGCGGCGCTTTACAAACA
AACGCCGCTAAAGATAATGACCTTCAGCGGCGCTTCTCCCAAAAACGCCGCTAAAGGTCATGCT
Found at i:19342317 original size:21 final size:21
Alignment explanation
Indices: 19342262--19342319 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
19342252 TTTTACGCTG
*
19342262 CTCTACTTCCCTCACTACAGC
1 CTCTACTTCCCTCGCTACAGC
* *
19342283 CCCTACTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTACAGC
*
19342304 CTCTACTTCTCTCGCT
1 CTCTACTTCCCTCGCT
19342320 CCCGCATCTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.12, C:0.48, G:0.09, T:0.31
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTACAGC
Found at i:19342329 original size:21 final size:21
Alignment explanation
Indices: 19342263--19342332 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
19342253 TTTACGCTGC
* * *
19342263 TCTACTTCCCTCACTACAGCC
1 TCTACTTCCCTCGCTCCAGCA
* * *
19342284 CCTACTTCCCTCGCTGCAGCC
1 TCTACTTCCCTCGCTCCAGCA
* *
19342305 TCTACTTCTCTCGCTCCCGCA
1 TCTACTTCCCTCGCTCCAGCA
19342326 TCTACTT
1 TCTACTT
19342333 TAAGCTGCTG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.13, C:0.47, G:0.09, T:0.31
Consensus pattern (21 bp):
TCTACTTCCCTCGCTCCAGCA
Found at i:19342466 original size:66 final size:66
Alignment explanation
Indices: 19342324--19342472 Score: 187
Period size: 66 Copynumber: 2.3 Consensus size: 66
19342314 CTCGCTCCCG
* * * *
19342324 CATCTACTTTAAGCTGCT-GCTAGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGT
1 CATCTACTTTAAGTTG-TAGTTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGT
19342388 TA
65 TA
*
19342390 CATCTACTTTAAGTTGTAGTTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGT
1 CATCTACTTTAAGTTGTAGTTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATGT
*
19342454 TG
65 TA
*
19342456 CCTCCT-CTTTAAGTTGT
1 CAT-CTACTTTAAGTTGT
19342473 GTAATTTGCT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
65 1 0.01
66 66 0.90
67 6 0.08
ACGTcount: A:0.17, C:0.24, G:0.15, T:0.43
Consensus pattern (66 bp):
CATCTACTTTAAGTTGTAGTTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGTT
A
Found at i:19347919 original size:9 final size:9
Alignment explanation
Indices: 19347902--19348247 Score: 112
Period size: 9 Copynumber: 40.9 Consensus size: 9
19347892 TAAGTATAAT
*
19347902 TAAGCTATG
1 TAAGTTATG
19347911 TAAGTTATG
1 TAAGTTATG
*
19347920 TAAGTTATA
1 TAAGTTATG
*
19347929 TAAGTTGTG
1 TAAGTTATG
*
19347938 T-A-TAATG
1 TAAGTTATG
19347945 TAAGTTATG
1 TAAGTTATG
*
19347954 AAAGTTATG
1 TAAGTTATG
19347963 T-A-TTATG
1 TAAGTTATG
19347970 TAAGTTACT-
1 TAAGTTA-TG
*
19347979 TAAGTTGTG
1 TAAGTTATG
*
19347988 T-A-TTATA
1 TAAGTTATG
*
19347995 TAAGTCATG
1 TAAGTTATG
* *
19348004 TAGGCTATG
1 TAAGTTATG
19348013 T-A-TTATG
1 TAAGTTATG
19348020 TAAGTTA--
1 TAAGTTATG
*
19348027 TAA--TAAG
1 TAAGTTATG
19348034 TAAGTTATG
1 TAAGTTATG
* *
19348043 AAAGTTATATA
1 TAAG-T-TATG
*
19348054 TAAGTTTATATA
1 TAAG--T-TATG
19348066 TAAGTTATG
1 TAAGTTATG
*
19348075 TAAATTA--
1 TAAGTTATG
19348082 T-A--TATG
1 TAAGTTATG
19348088 TAAGTTATG
1 TAAGTTATG
*
19348097 T--GTTGTG
1 TAAGTTATG
*
19348104 TAAGTTTATATA
1 TAAG--T-TATG
*
19348116 TAAATTTTAT-
1 T-AA-GTTATG
19348126 TCAAGTTATG
1 T-AAGTTATG
19348136 --A---ATG
1 TAAGTTATG
19348140 TAAGTTATG
1 TAAGTTATG
*
19348149 TAAGTTGTG
1 TAAGTTATG
*
19348158 T--GTAATG
1 TAAGTTATG
19348165 TAAGTTATG
1 TAAGTTATG
19348174 T-A-TTATG
1 TAAGTTATG
*
19348181 TAAGTTATT
1 TAAGTTATG
*
19348190 TAAGTTATT
1 TAAGTTATG
*
19348199 TAAGTTGTG
1 TAAGTTATG
19348208 T-A-TTATG
1 TAAGTTATG
*
19348215 TAAGTCATG
1 TAAGTTATG
* *
19348224 TAGGCTATG
1 TAAGTTATG
19348233 T--GTTATG
1 TAAGTTATG
19348240 TAAGTTAT
1 TAAGTTAT
19348248 TATAAGTAAG
Statistics
Matches: 250, Mismatches: 44, Indels: 86
0.66 0.12 0.23
Matches are distributed among these distances:
4 5 0.02
5 2 0.01
6 3 0.01
7 56 0.22
8 12 0.05
9 139 0.56
10 6 0.02
11 10 0.04
12 15 0.06
13 2 0.01
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:19347949 original size:25 final size:25
Alignment explanation
Indices: 19347915--19348254 Score: 138
Period size: 25 Copynumber: 13.8 Consensus size: 25
19347905 GCTATGTAAG
*
19347915 TTATGTAAGTTATATAAGTTGTGTA
1 TTATGTAAGTTATATAAGTTATGTA
*
19347940 TAATGTAAGTTATGA-AAGTTATGTA
1 TTATGTAAGTTAT-ATAAGTTATGTA
*
19347965 TTATGTAAGTTACT-TAAGTTGTGTA
1 TTATGTAAGTTA-TATAAGTTATGTA
* * * * *
19347990 TTATATAAGTCATGTAGGCTATGTA
1 TTATGTAAGTTATATAAGTTATGTA
*
19348015 TTATGTAAGTTATAATAAG-TAAG--
1 TTATGTAAGTTAT-ATAAGTTATGTA
*
19348038 TTATGAAAGTTATATATAAG-T-T-TA
1 TTATGTAAG-T-TATATAAGTTATGTA
* * *
19348062 -TATATAAGTTATGTAAATTA--TA
1 TTATGTAAGTTATATAAGTTATGTA
* ** * *
19348084 -TATGTAAGTTATGTGTTGTGTAAGTT
1 TTATGTAAGTTATAT-AAGT-TATGTA
* * *
19348110 TATATATAAATTTTATTCAAGTTATG-A
1 T-TATGTAAGTTATA-T-AAGTTATGTA
* * *
19348137 --ATGTAAGTTATGTAAGTTGTGTG
1 TTATGTAAGTTATATAAGTTATGTA
* *
19348160 TAATGTAAGTTATGT-A-TTATGTAA
1 TTATGTAAGTTATATAAGTTATGT-A
* * *
19348184 GTTATTTAAGTTATTTAAGTTGTGTA
1 -TTATGTAAGTTATATAAGTTATGTA
* * * * *
19348210 TTATGTAAGTCATGTAGGCTATGTG
1 TTATGTAAGTTATATAAGTTATGTA
19348235 TTATGTAAGTTATTATAAGT
1 TTATGTAAGTTA-TATAAGT
19348255 AAGTTATGAA
Statistics
Matches: 232, Mismatches: 57, Indels: 51
0.68 0.17 0.15
Matches are distributed among these distances:
21 6 0.03
22 24 0.10
23 21 0.09
24 19 0.08
25 130 0.56
26 12 0.05
27 5 0.02
28 12 0.05
29 3 0.01
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.46
Consensus pattern (25 bp):
TTATGTAAGTTATATAAGTTATGTA
Found at i:19347970 original size:50 final size:50
Alignment explanation
Indices: 19347903--19348034 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 50
19347893 AAGTATAATT
* *
19347903 AAGCTATGTAAGTTATGTAAGTTATATAAGTTGTGTATAATGTAAGTTATGA
1 AAGCTATGT-A-TTATGTAAGTTATATAAGTTGTGTATAATATAAGTCATGA
* * *
19347955 AAGTTATGTATTATGTAAGTTACT-TAAGTTGTGTATTATATAAGTCATGT
1 AAGCTATGTATTATGTAAGTTA-TATAAGTTGTGTATAATATAAGTCATGA
*
19348005 AGGCTATGTATTATGTAAGTTATAATAAGT
1 AAGCTATGTATTATGTAAGTTAT-ATAAGT
19348035 AAGTTATGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
49 1 0.01
50 54 0.77
51 7 0.10
52 8 0.11
ACGTcount: A:0.35, C:0.03, G:0.20, T:0.42
Consensus pattern (50 bp):
AAGCTATGTATTATGTAAGTTATATAAGTTGTGTATAATATAAGTCATGA
Found at i:19348058 original size:34 final size:34
Alignment explanation
Indices: 19348019--19348095 Score: 90
Period size: 32 Copynumber: 2.3 Consensus size: 34
19348009 TATGTATTAT
19348019 GTAAGTTATA-ATAAGTAAGTTATG-AAAGTTATATA
1 GTAAGTTATATAT-A-TAAGTTATGTAAA-TTATATA
19348054 -TAAGTT-TATATATAAGTTATGTAAATTATATA
1 GTAAGTTATATATATAAGTTATGTAAATTATATA
19348086 TGTAAGTTAT
1 -GTAAGTTAT
19348096 GTGTTGTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
32 16 0.43
33 6 0.16
34 14 0.38
35 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (34 bp):
GTAAGTTATATATATAAGTTATGTAAATTATATA
Found at i:19348065 original size:10 final size:11
Alignment explanation
Indices: 19348044--19348086 Score: 54
Period size: 12 Copynumber: 4.0 Consensus size: 11
19348034 TAAGTTATGA
19348044 AAGTTATATAT
1 AAGTTATATAT
19348055 AAGTTTATATAT
1 AAG-TTATATAT
*
19348067 AAGTTATGTA-
1 AAGTTATATAT
19348077 AA-TTATATAT
1 AAGTTATATAT
19348087 GTAAGTTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 6 0.21
10 2 0.07
11 9 0.32
12 11 0.39
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (11 bp):
AAGTTATATAT
Found at i:19348167 original size:16 final size:16
Alignment explanation
Indices: 19348146--19348225 Score: 61
Period size: 16 Copynumber: 4.9 Consensus size: 16
19348136 AATGTAAGTT
* *
19348146 ATGTAAGTTGTGTGTA
1 ATGTAAGTTATGTATA
*
19348162 ATGTAAGTTATGTATT
1 ATGTAAGTTATGTATA
* *
19348178 ATGTAAGTTATTTAAGTT
1 ATGTAAGTTATGT-A-TA
* * *
19348196 ATTTAAGTTGTGTATT
1 ATGTAAGTTATGTATA
*
19348212 ATGTAAGTCATGTA
1 ATGTAAGTTATGTA
19348226 GGCTATGTGT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
16 38 0.73
17 2 0.04
18 12 0.23
ACGTcount: A:0.30, C:0.01, G:0.21, T:0.47
Consensus pattern (16 bp):
ATGTAAGTTATGTATA
Found at i:19348267 original size:23 final size:24
Alignment explanation
Indices: 19348234--19348278 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
19348224 TAGGCTATGT
*
19348234 GTTATGTAAGTTAT-TATAAGTAA
1 GTTATGAAAGTTATATATAAGTAA
19348257 GTTATGAAAGTTATATATAAGT
1 GTTATGAAAGTTATATATAAGT
19348279 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:19348284 original size:12 final size:12
Alignment explanation
Indices: 19348267--19348366 Score: 78
Period size: 12 Copynumber: 8.1 Consensus size: 12
19348257 GTTATGAAAG
19348267 TTATATATAAGT
1 TTATATATAAGT
19348279 TTATATATAAGTT
1 TTATATATAAG-T
* * *
19348292 ATGTGTTGTGTAAGT
1 -T-T-ATATATAAGT
*
19348307 TTATATATAAAT
1 TTATATATAAGT
*
19348319 TT-TATTTAAGT
1 TTATATATAAGT
* *
19348330 TATGTATGTAAG-
1 T-TATATATAAGT
19348342 TTATATATAAGT
1 TTATATATAAGT
19348354 TTATATATAAGT
1 TTATATATAAGT
19348366 T
1 T
19348367 ATGTAAGTTA
Statistics
Matches: 69, Mismatches: 12, Indels: 14
0.73 0.13 0.15
Matches are distributed among these distances:
11 16 0.23
12 34 0.49
13 9 0.13
14 2 0.03
15 2 0.03
16 6 0.09
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (12 bp):
TTATATATAAGT
Found at i:19348285 original size:10 final size:11
Alignment explanation
Indices: 19348264--19348389 Score: 67
Period size: 12 Copynumber: 10.6 Consensus size: 11
19348254 TAAGTTATGA
19348264 AAGTTATATAT
1 AAGTTATATAT
19348275 AAGTTTATATAT
1 AAG-TTATATAT
* *
19348287 AAGTTATGTGTTGTGT
1 AAGTTA-----TATAT
19348303 AAGTTTATATAT
1 AAG-TTATATAT
* * *
19348315 AAATTTTATTT
1 AAGTTATATAT
*
19348326 AAGTTATGTATGT
1 AAGTTA--TATAT
19348339 AAGTTATATAT
1 AAGTTATATAT
19348350 AAGTTTATATAT
1 AAG-TTATATAT
*
19348362 AAG-T-TATGT
1 AAGTTATATAT
*
19348371 AAGTTATTATGT
1 AAGTTA-TATAT
19348383 AAGTTAT
1 AAGTTAT
19348390 GTGTTGTGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 26
0.70 0.09 0.20
Matches are distributed among these distances:
9 7 0.08
10 2 0.02
11 24 0.27
12 38 0.42
13 10 0.11
16 6 0.07
17 3 0.03
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (11 bp):
AAGTTATATAT
Found at i:19348380 original size:12 final size:12
Alignment explanation
Indices: 19348235--19348389 Score: 62
Period size: 12 Copynumber: 13.1 Consensus size: 12
19348225 AGGCTATGTG
19348235 TTATGTAAGTTA
1 TTATGTAAGTTA
*
19348247 TTA--TAAGTAA
1 TTATGTAAGTTA
*
19348257 GTTATGAAAGTTA
1 -TTATGTAAGTTA
*
19348270 -TATATAAGTT-
1 TTATGTAAGTTA
*
19348280 TATATATAAGTTA
1 T-TATGTAAGTTA
*
19348293 TGTGTTGTGTAAGTT-
1 ----TTATGTAAGTTA
* *
19348308 TATATATAAATT-
1 T-TATGTAAGTTA
*
19348320 TTATTTAAGTTA
1 TTATGTAAGTTA
19348332 TGTATGTAAGTTA
1 T-TATGTAAGTTA
*
19348345 -TATATAAGTT-
1 TTATGTAAGTTA
*
19348355 TATATATAAG---
1 T-TATGTAAGTTA
19348365 TTATGTAAGTTA
1 TTATGTAAGTTA
19348377 TTATGTAAGTTA
1 TTATGTAAGTTA
19348389 T
1 T
19348390 GTGTTGTGTA
Statistics
Matches: 110, Mismatches: 15, Indels: 36
0.68 0.09 0.22
Matches are distributed among these distances:
9 7 0.06
10 7 0.06
11 29 0.26
12 43 0.39
13 15 0.14
16 8 0.07
17 1 0.01
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (12 bp):
TTATGTAAGTTA
Found at i:19348490 original size:19 final size:19
Alignment explanation
Indices: 19348451--19348512 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
19348441 GATATGATTG
*
19348451 ATAAATTTTTCAA-ATATAT
1 ATAAAATTTT-AATATATAT
19348470 ATAAAATTTTAATATATAT
1 ATAAAATTTTAATATATAT
* *
19348489 ATTAAAATTGTATATAAATAT
1 A-TAAAATTTTA-ATATATAT
19348510 ATA
1 ATA
19348513 TCAAAGATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.05
19 16 0.43
20 11 0.30
21 8 0.22
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAAAATTTTAATATATAT
Found at i:19350564 original size:45 final size:45
Alignment explanation
Indices: 19350515--19350700 Score: 122
Period size: 45 Copynumber: 4.0 Consensus size: 45
19350505 AATATCTGCT
19350515 ATCTTCAGTCTATTCTACTGCAACCTCAGTGAGATAAGACTTGTA
1 ATCTTCAGTCTATTCTACTGCAACCTCAGTGAGATAAGACTTGTA
* ** ** * * * * **
19350560 ATCTTTAACCTGCTCCACTGCAACTTCGGGGAGATAAGGTTTG-A
1 ATCTTCAGTCTATTCTACTGCAACCTCAGTGAGATAAGACTTGTA
** * * ** * * *
19350604 TATGATAAGATCTAATTCGACCTACTGCAACTTCAAAGAGATGAGATTTGTT
1 -ATCTTCAG-TCT-ATT----CTACTGCAACCTCAGTGAGATAAGACTTGTA
19350656 ATCTTCAGTCTATTCTACTGCAACCTCAGTGAGATAAGACTTGTA
1 ATCTTCAGTCTATTCTACTGCAACCTCAGTGAGATAAGACTTGTA
19350701 GCCTCAATAA
Statistics
Matches: 99, Mismatches: 34, Indels: 16
0.66 0.23 0.11
Matches are distributed among these distances:
44 1 0.01
45 61 0.62
46 2 0.02
47 1 0.01
49 3 0.03
50 3 0.03
51 28 0.28
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (45 bp):
ATCTTCAGTCTATTCTACTGCAACCTCAGTGAGATAAGACTTGTA
Found at i:19351803 original size:46 final size:46
Alignment explanation
Indices: 19351448--19351787 Score: 475
Period size: 46 Copynumber: 7.4 Consensus size: 46
19351438 TTCTTAGGGT
* * * *
19351448 GACAAAATCTG-TAATCTTCAACCTACTCCACTGCCAAATACAGGAA
1 GACAAGATCTGCT-ATCTTCGATCTACTCCGCTGCCAAATACAGGAA
* * *
19351494 GACAAGATCTACTATCTACGATCTACTCCACTGCCAAATACAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAA
* **
19351540 GACAAGATCTGCTATCTTCAATCTACTTTGCTGCCAAATACAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAA
* * *
19351586 GACAATATCTGCTATCTTCGATCTACTCCGCTGCCAAAAATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAA
* *
19351632 GACAAGATCTGCTATCTACAATCTACTCCGCTGCCAAATACAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAA
* * * * *
19351678 GGCAAGATCTGTTATCTACGATCTACTCCTCTACCAAATACAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAA
*
19351724 GAAAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAA
19351770 GACAAGATCTGCTATCTT
1 GACAAGATCTGCTATCTT
19351788 TAATCTGTTC
Statistics
Matches: 259, Mismatches: 34, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
46 258 1.00
47 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (46 bp):
GACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAA
Found at i:19353308 original size:13 final size:12
Alignment explanation
Indices: 19353287--19353341 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
19353277 AGGCCTCTCC
19353287 TTTTT-TTTTCT
1 TTTTTCTTTTCT
19353298 TCTTTTCTTTTCT
1 T-TTTTCTTTTCT
*
19353311 TTTTTCCTTT-T
1 TTTTTCTTTTCT
19353322 TTTTTC--TTCT
1 TTTTTCTTTTCT
*
19353332 TTTTTGTTTT
1 TTTTTCTTTT
19353342 TTTAACATTC
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
9 2 0.05
10 6 0.16
11 8 0.22
12 14 0.38
13 7 0.19
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.84
Consensus pattern (12 bp):
TTTTTCTTTTCT
Found at i:19353313 original size:18 final size:18
Alignment explanation
Indices: 19353286--19353334 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
19353276 TAGGCCTCTC
*
19353286 CTTTT-TTTTTCTTCTTTT
1 CTTTTCTTTTT-TCCTTTT
19353304 CTTTTCTTTTTTCCTTTT
1 CTTTTCTTTTTTCCTTTT
*
19353322 TTTTTCTTCTTTT
1 CTTTTCTT-TTTT
19353335 TTGTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 18 0.67
19 9 0.33
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (18 bp):
CTTTTCTTTTTTCCTTTT
Found at i:19353323 original size:10 final size:11
Alignment explanation
Indices: 19353284--19353336 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 11
19353274 CCTAGGCCTC
19353284 TCCTT-TTTTT
1 TCCTTCTTTTT
*
19353294 TTCTTCTTTTCT
1 TCCTTCTTTT-T
19353306 T--TTCTTTTT
1 TCCTTCTTTTT
19353315 TCCTT-TTTTT
1 TCCTTCTTTTT
*
19353325 TTCTTCTTTTT
1 TCCTTCTTTTT
19353336 T
1 T
19353337 GTTTTTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
9 2 0.06
10 20 0.56
11 12 0.33
12 2 0.06
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
TCCTTCTTTTT
Found at i:19353342 original size:21 final size:20
Alignment explanation
Indices: 19353290--19353344 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
19353280 CCTCTCCTTT
*
19353290 TTTTTTCTTCTTTTCTTTTC
1 TTTTTTCTTTTTTTCTTTTC
19353310 TTTTTTCCTTTTTTT-TTCTTC
1 TTTTTT-CTTTTTTTCTT-TTC
*
19353331 TTTTTTGTTTTTTT
1 TTTTTTCTTTTTTT
19353345 AACATTCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.84
Consensus pattern (20 bp):
TTTTTTCTTTTTTTCTTTTC
Found at i:19355656 original size:12 final size:12
Alignment explanation
Indices: 19355625--19355658 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
19355615 CTTTTCTAGT
19355625 TGTTCTTGCATC
1 TGTTCTTGCATC
**
19355637 TGGGCTTGCATC
1 TGTTCTTGCATC
19355649 TGTTCTTGCA
1 TGTTCTTGCA
19355659 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:19355824 original size:19 final size:20
Alignment explanation
Indices: 19355800--19355846 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
19355790 TGTGAAAATC
*
19355800 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGCAATG
*
19355819 TAATGCAAATGCATGGAATG
1 TAATGCAAATGCATGCAATG
19355839 -AATGCAAA
1 TAATGCAAA
19355847 AAAGAAAGAG
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:19359154 original size:30 final size:29
Alignment explanation
Indices: 19359120--19359217 Score: 85
Period size: 30 Copynumber: 3.2 Consensus size: 29
19359110 ACCTTTCATC
19359120 TGTTTTCTATTTTGTATTTGTTTCTCTTAA
1 TGTTTTCTATTTT-TATTTGTTTCTCTTAA
* *
19359150 TGTTTT-T-TTTTTCTTT-TTTACCACCTTTCATA
1 TGTTTTCTATTTTTATTTGTTT--C-TC-TT-A-A
19359182 TGTTTTCTATTTTATATTTGTTTCTCTTAA
1 TGTTTTCTATTTT-TATTTGTTTCTCTTAA
19359212 TGTTTT
1 TGTTTT
19359218 TTTTCTTTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 20
0.69 0.05 0.26
Matches are distributed among these distances:
26 3 0.06
27 4 0.07
28 5 0.09
29 2 0.04
30 15 0.28
31 2 0.04
32 9 0.17
33 2 0.04
34 5 0.09
35 4 0.07
36 3 0.06
ACGTcount: A:0.13, C:0.12, G:0.07, T:0.67
Consensus pattern (29 bp):
TGTTTTCTATTTTTATTTGTTTCTCTTAA
Done.