Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 71 of 168
Found at i:20806949 original size:3 final size:3
Alignment explanation
Indices: 20806941--20806966 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
20806931 TTTTCATAGG
20806941 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
20806967 GTAAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:20813982 original size:27 final size:27
Alignment explanation
Indices: 20813925--20813986 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
20813915 AAAAGTTACA
20813925 AAAATTCAAAATATTTATAAAAATTTC
1 AAAATTCAAAATATTTATAAAAATTTC
* * *
20813952 AAAATT-AATATATTTTTAAAAGATTATA
1 AAAATTCAAAATATTTATAAAA-ATT-TC
20813980 AAAATTC
1 AAAATTC
20813987 TAATATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 13 0.45
27 9 0.31
28 7 0.24
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (27 bp):
AAAATTCAAAATATTTATAAAAATTTC
Found at i:20813992 original size:28 final size:28
Alignment explanation
Indices: 20813915--20813997 Score: 75
Period size: 28 Copynumber: 3.0 Consensus size: 28
20813905 CTCTCTCAAC
*
20813915 AAAAG-TTACAAAAATTCAAAATATTTAT
1 AAAAGATTATAAAAATTC-AAATATTTAT
* *
20813943 AAAA-ATT-TCAAAATT-AATATATTTTT
1 AAAAGATTATAAAAATTCAA-ATATTTAT
* *
20813969 AAAAGATTATAAAAATTCTAATATATAT
1 AAAAGATTATAAAAATTCAAATATTTAT
20813997 A
1 A
20813998 TATATATATA
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
25 2 0.05
26 11 0.26
27 9 0.21
28 20 0.47
29 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.37
Consensus pattern (28 bp):
AAAAGATTATAAAAATTCAAATATTTAT
Found at i:20813996 original size:2 final size:2
Alignment explanation
Indices: 20813989--20814015 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
20813979 AAAAATTCTA
20813989 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
20814016 AGTAATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20815949 original size:10 final size:9
Alignment explanation
Indices: 20815917--20815986 Score: 52
Period size: 10 Copynumber: 7.1 Consensus size: 9
20815907 ATTTAGAATC
20815917 TATAAAAAA
1 TATAAAAAA
20815926 -ATAATTAAAA
1 TATAA--AAAA
*
20815936 TATAAAAACT
1 TATAAAAA-A
20815946 TATAAAAAA
1 TATAAAAAA
20815955 TATAAAAAAA
1 TAT-AAAAAA
*
20815965 TTGTAAAAATA
1 -TATAAAAA-A
20815976 TATAAGAAAA
1 TATAA-AAAA
20815986 T
1 T
20815987 TATGGAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
8 4 0.08
9 6 0.12
10 29 0.59
11 10 0.20
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (9 bp):
TATAAAAAA
Found at i:20815963 original size:21 final size:20
Alignment explanation
Indices: 20815917--20815989 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 20
20815907 ATTTAGAATC
* *
20815917 TATAAAAAAATAAT-TAAAA
1 TATAAAAAAATTATAAAAAA
*
20815936 TAT-AAAAACTTATAAAAAA
1 TATAAAAAAATTATAAAAAA
*
20815955 TATAAAAAAATTGTAAAAATA
1 TATAAAAAAATTATAAAAA-A
*
20815976 TATAAGAAAATTAT
1 TATAAAAAAATTAT
20815990 GGAAAATATT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
18 8 0.18
19 10 0.23
20 13 0.30
21 13 0.30
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (20 bp):
TATAAAAAAATTATAAAAAA
Found at i:20815963 original size:28 final size:27
Alignment explanation
Indices: 20815899--20815963 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
20815889 AAATGAATAT
* * *
20815899 TATAAAAAATTTAGAATCTATAAAAAA
1 TATAAAAAATATAAAAACTATAAAAAA
20815926 -ATAATTAAAATATAAAAACTTATAAAAAA
1 TATAA--AAAATATAAAAAC-TATAAAAAA
20815955 TATAAAAAA
1 TATAAAAAA
20815964 ATTGTAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
26 4 0.13
28 14 0.45
29 9 0.29
30 4 0.13
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.28
Consensus pattern (27 bp):
TATAAAAAATATAAAAACTATAAAAAA
Found at i:20815972 original size:19 final size:19
Alignment explanation
Indices: 20815917--20815989 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 19
20815907 ATTTAGAATC
* *
20815917 TATAAAAAAATAATTAAAA
1 TATAAAAAAATTATAAAAA
*
20815936 TAT-AAAAACTTATAAAAAA
1 TATAAAAAAATTAT-AAAAA
*
20815955 TATAAAAAAATTGTAAAAA
1 TATAAAAAAATTATAAAAA
20815974 TATATAAGAAAATTAT
1 TATA-AA-AAAATTAT
20815990 GGAAAATATT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
18 8 0.18
19 19 0.43
20 10 0.23
21 7 0.16
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (19 bp):
TATAAAAAAATTATAAAAA
Found at i:20816275 original size:19 final size:19
Alignment explanation
Indices: 20816247--20816304 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 19
20816237 TTTAAAAAAA
20816247 TATTAGAAATTATTAAAATGT
1 TATTA-AAATTATTAAAA-GT
20816268 TA-TAAAA-TATTATATAAGT
1 TATTAAAATTATTA-A-AAGT
20816287 TATTAAATATTATTAAAA
1 TATTAAA-ATTATTAAAA
20816305 AAATTAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
18 5 0.16
19 8 0.25
20 10 0.31
21 4 0.12
22 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (19 bp):
TATTAAAATTATTAAAAGT
Found at i:20816413 original size:32 final size:33
Alignment explanation
Indices: 20816377--20816454 Score: 97
Period size: 32 Copynumber: 2.4 Consensus size: 33
20816367 TATAATCCTT
* *
20816377 AAAAATCATTTAA-CCCTCCTAAAATAATTAAA
1 AAAAATCAATTAAGCCCTCATAAAATAATTAAA
* *
20816409 AAAAATCAATTAAGTCCTCATAAAATAATT-TA
1 AAAAATCAATTAAGCCCTCATAAAATAATTAAA
*
20816441 AAGAATCAATTAAG
1 AAAAATCAATTAAG
20816455 GTTTGATGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
32 26 0.65
33 14 0.35
ACGTcount: A:0.54, C:0.14, G:0.04, T:0.28
Consensus pattern (33 bp):
AAAAATCAATTAAGCCCTCATAAAATAATTAAA
Found at i:20817943 original size:126 final size:126
Alignment explanation
Indices: 20817718--20817970 Score: 488
Period size: 126 Copynumber: 2.0 Consensus size: 126
20817708 TTTCTTCTAC
20817718 TTTCTCTTTTTTCAGTCTATAACAACATTATTTATACTATGAAAAGGAATAAGTCAGAAATTTCA
1 TTTCTCTTTTTTCAGTCTATAACAACATTATTTATACTATGAAAAGGAATAAGTCAGAAATTTCA
*
20817783 ATATTTTAGTTGTTACATGAATATATAGATGATAGATATTTCAATCATTGCTCCAACATTA
66 ATATTTTAGCTGTTACATGAATATATAGATGATAGATATTTCAATCATTGCTCCAACATTA
20817844 TTTCTCTTTTTTCAGTCTATAACAACATTATTTATACTATGAAAAGGAATAAGTCAGAAATTTCA
1 TTTCTCTTTTTTCAGTCTATAACAACATTATTTATACTATGAAAAGGAATAAGTCAGAAATTTCA
*
20817909 ATCTTTTAGCTGTTACATGAATATATAGATGATAGATATTTCAATCATTGCTCCAACATTA
66 ATATTTTAGCTGTTACATGAATATATAGATGATAGATATTTCAATCATTGCTCCAACATTA
20817970 T
1 T
20817971 GGTTTATTTT
Statistics
Matches: 125, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 125 1.00
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.40
Consensus pattern (126 bp):
TTTCTCTTTTTTCAGTCTATAACAACATTATTTATACTATGAAAAGGAATAAGTCAGAAATTTCA
ATATTTTAGCTGTTACATGAATATATAGATGATAGATATTTCAATCATTGCTCCAACATTA
Found at i:20819604 original size:18 final size:18
Alignment explanation
Indices: 20819581--20819628 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
20819571 AAAATATGAG
*
20819581 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
20819599 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
20819617 AAATGATGTTCA
1 AAATGATGTTCA
20819629 AATTGATGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:20820206 original size:72 final size:72
Alignment explanation
Indices: 20820052--20820224 Score: 233
Period size: 72 Copynumber: 2.4 Consensus size: 72
20820042 AACAACAATG
* * * *
20820052 CTAAACTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTA
1 CTAAATTAGTTTTATCAATAGTTATTTATGTTTGGTCTTTAGATATTGAATTTATATTCTACTTA
20820117 TTTATGT
66 TTTATGT
* * *
20820124 GT-AATCTAGTTTTATTAAAAGTTATTTATGTTTGGTCTTTAGATATTGAATTTATATTCTACTT
1 CTAAAT-TAGTTTTATCAATAGTTATTTATGTTTGGTCTTTAGATATTGAATTTATATTCTACTT
*
20820188 ATTT-TTT
65 ATTTATGT
*
20820195 ACTAAATTAGTTTTATCAATAGTTGTTTAT
1 -CTAAATTAGTTTTATCAATAGTTATTTAT
20820225 ATGTGATTTT
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
71 4 0.05
72 79 0.92
73 3 0.03
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.54
Consensus pattern (72 bp):
CTAAATTAGTTTTATCAATAGTTATTTATGTTTGGTCTTTAGATATTGAATTTATATTCTACTTA
TTTATGT
Found at i:20830810 original size:15 final size:13
Alignment explanation
Indices: 20830788--20830822 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
20830778 ATCAAATTAT
20830788 ATTAAAAAATTAAA
1 ATTAAAAAA-TAAA
20830802 ATATAAAAAATAAA
1 AT-TAAAAAATAAA
20830816 ATTAAAA
1 ATTAAAA
20830823 TTTAAACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 5 0.25
14 8 0.40
15 7 0.35
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
ATTAAAAAATAAA
Found at i:20831467 original size:123 final size:123
Alignment explanation
Indices: 20831267--20831614 Score: 624
Period size: 123 Copynumber: 2.8 Consensus size: 123
20831257 TAATTTCGAG
* * *
20831267 TTGACGTTTGTGATCAAATAGTACAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* *
20831332 AAATCGCACCCTCGTGGACGCGCTTTTACTACAGTAGGTCATGGAAGAAATAATTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTT
20831390 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
20831455 AAATCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTT
*
20831513 TTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
20831578 AAATCGTGCCCTCGTGGACGCGCTTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
20831615 CATGTTTGGG
Statistics
Matches: 216, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 216 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (123 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTT
Found at i:20834140 original size:25 final size:25
Alignment explanation
Indices: 20834102--20834184 Score: 148
Period size: 25 Copynumber: 3.3 Consensus size: 25
20834092 TCAAAATAAC
* *
20834102 TCAAAAAAATTTCTATTTTATTACA
1 TCAAATAAACTTCTATTTTATTACA
20834127 TCAAATAAACTTCTATTTTATTACA
1 TCAAATAAACTTCTATTTTATTACA
20834152 TCAAATAAACTTCTATTTTATTACA
1 TCAAATAAACTTCTATTTTATTACA
20834177 TCAAATAA
1 TCAAATAA
20834185 TATCAAAATA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.42
Consensus pattern (25 bp):
TCAAATAAACTTCTATTTTATTACA
Found at i:20834231 original size:45 final size:44
Alignment explanation
Indices: 20834078--20834239 Score: 164
Period size: 45 Copynumber: 3.5 Consensus size: 44
20834068 CTCATGTTAG
* *
20834078 TACATCGAGTAATATCAAAATAACTCAAAAAAATTTCTATTTTAT
1 TACATCAAATAATATCAAAATAACTC-AAAAAATTTCTATTTTAT
** * *
20834123 TACATCAAATAA-ACTTCTATTTTATTACATCAAATAAACTTCTATTTTAT
1 TACATCAAATAATA--TC-A--AAATAAC-TCAAA-AAATTTCTATTTTAT
*
20834173 TACATCAAATAATATCAAAATAACTCTAAAAAATTTCTTTTTTAT
1 TACATCAAATAATATCAAAATAACTC-AAAAAATTTCTATTTTAT
*
20834218 TACATAAAATAATATCAAAATA
1 TACATCAAATAATATCAAAATA
20834240 TTCAAAATAT
Statistics
Matches: 96, Mismatches: 12, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
44 1 0.01
45 46 0.48
46 9 0.09
47 1 0.01
48 1 0.01
49 9 0.09
50 28 0.29
51 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.01, T:0.38
Consensus pattern (44 bp):
TACATCAAATAATATCAAAATAACTCAAAAAATTTCTATTTTAT
Found at i:20834696 original size:18 final size:18
Alignment explanation
Indices: 20834658--20834697 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
20834648 GACTCGAAAA
* *
20834658 AGGATACATATAAGGGTT
1 AGGATACATATAAAGGCT
*
20834676 AGGATACATTTAAAGGCT
1 AGGATACATATAAAGGCT
20834694 AGGA
1 AGGA
20834698 AACTCACCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.28, T:0.25
Consensus pattern (18 bp):
AGGATACATATAAAGGCT
Found at i:20836403 original size:12 final size:12
Alignment explanation
Indices: 20836380--20836421 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
20836370 TTTTTACGAC
20836380 TTAAAAAA-ATT
1 TTAAAAAATATT
20836391 TTAAAAAATATT
1 TTAAAAAATATT
* *
20836403 TTTAAAATTA-T
1 TTAAAAAATATT
20836414 TTAAAAAA
1 TTAAAAAA
20836422 AGGGAGTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
TTAAAAAATATT
Found at i:20838838 original size:7 final size:7
Alignment explanation
Indices: 20838825--20838864 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
20838815 TAGTCGATTC
20838825 GTATTTA
1 GTATTTA
*
20838832 ATATTTA
1 GTATTTA
20838839 GTATTTA
1 GTATTTA
20838846 GTATTTA
1 GTATTTA
20838853 GTATTTA
1 GTATTTA
20838860 GTATT
1 GTATT
20838865 ATGTATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.57
Consensus pattern (7 bp):
GTATTTA
Found at i:20845148 original size:126 final size:125
Alignment explanation
Indices: 20844931--20845189 Score: 428
Period size: 126 Copynumber: 2.1 Consensus size: 125
20844921 GGAACTATTA
* * *
20844931 TAGCAAAAGAGCGTTCACGTGGGAGCTTCTTTCACTTCTTTTGTTGACATTACATCCTGCTTGAA
1 TAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCACTACTTTTGCTGACATTACATCCTGCTTGAA
*
20844996 GCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAGAAACTACTG
66 GCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTA-TTTTTCAAAAACTACTG
* * * *
20845057 TAGCAAAAGAGCGTCCATGTGGGAGCTTGTTTCAGTACTTTTGCTGACATTGCATCCTGCTTGAA
1 TAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCACTACTTTTGCTGACATTACATCCTGCTTGAA
*
20845122 GCGTTTTTGACACTATTTGCTCAGAAACATCTTCTTAAAATTATTTTTCAAAAACTACTG
66 GCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTCAAAAACTACTG
20845182 TAGCAAAA
1 TAGCAAAA
20845190 CGTCTACATG
Statistics
Matches: 124, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
125 24 0.19
126 100 0.81
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36
Consensus pattern (125 bp):
TAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCACTACTTTTGCTGACATTACATCCTGCTTGAA
GCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTCAAAAACTACTG
Found at i:20845352 original size:195 final size:195
Alignment explanation
Indices: 20845020--20845400 Score: 762
Period size: 195 Copynumber: 2.0 Consensus size: 195
20845010 ATTTGCTCAG
20845020 AAACATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGCAAAAGAGCGTCCATGTGGGAGCTT
1 AAACATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGCAAAAGAGCGTCCATGTGGGAGCTT
20845085 GTTTCAGTACTTTTGCTGACATTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCTCAGAAAC
66 GTTTCAGTACTTTTGCTGACATTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCTCAGAAAC
20845150 ATCTTCTTAAAATTATTTTTCAAAAACTACTGTAGCAAAACGTCTACATGAGAGCTACTGTAGCA
131 ATCTTCTTAAAATTATTTTTCAAAAACTACTGTAGCAAAACGTCTACATGAGAGCTACTGTAGCA
20845215 AAACATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGCAAAAGAGCGTCCATGTGGGAGCTT
1 AAACATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGCAAAAGAGCGTCCATGTGGGAGCTT
20845280 GTTTCAGTACTTTTGCTGACATTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCTCAGAAAC
66 GTTTCAGTACTTTTGCTGACATTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCTCAGAAAC
20845345 ATCTTCTTAAAATTATTTTTCAAAAACTACTGTAGCAAAACGTCTACATGAGAGCT
131 ATCTTCTTAAAATTATTTTTCAAAAACTACTGTAGCAAAACGTCTACATGAGAGCT
20845401 TCTTTTAGTA
Statistics
Matches: 186, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
195 186 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (195 bp):
AAACATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGCAAAAGAGCGTCCATGTGGGAGCTT
GTTTCAGTACTTTTGCTGACATTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCTCAGAAAC
ATCTTCTTAAAATTATTTTTCAAAAACTACTGTAGCAAAACGTCTACATGAGAGCTACTGTAGCA
Found at i:20845452 original size:122 final size:123
Alignment explanation
Indices: 20845215--20845527 Score: 403
Period size: 122 Copynumber: 2.5 Consensus size: 123
20845205 TACTGTAGCA
** *
20845215 AAACATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGCAAAAGAGCGTCCATGTGGGAGCTT
1 AAACATCTTCTCAAAATTA-TTTTTCAGAAACTACTGTAGC-AAA-AGCGTCCACATGAGAGCTT
* * * * * *
20845280 GTTTCAGTACTTTTGCTGACATTGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCTCAG
63 CTTTCAGTACTTTTGCTGACAATGCATCCTGCTTAAAGCATTTATAACACTATTTGCTCAG
* * *
20845341 AAACATCTTCTTAAAATTATTTTTCAAAAACTACTGTAGCAAAA-CGTCTACATGAGAGCTTCTT
1 AAACATCTTCTCAAAATTATTTTTCAGAAACTACTGTAGCAAAAGCGTCCACATGAGAGCTTCTT
*
20845405 TTAGTACTTTTGCTGACAATGCATCCTGCTTAAAGCATTTATAACACTATTTGCTCAG
66 TCAGTACTTTTGCTGACAATGCATCCTGCTTAAAGCATTTATAACACTATTTGCTCAG
** * * *
20845463 AAACGCCTTCTCAAAATTATTTATTCAGGAACTACTATAGCAAAAGAACGTCCACGTGAGAGCTT
1 AAACATCTTCTCAAAATTATTT-TTCAGAAACTACTGTAGCAAAAG--CGTCCACATGAGAGCTT
20845528 TTTTAAATTA
Statistics
Matches: 162, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
122 86 0.53
123 20 0.12
124 3 0.02
125 20 0.12
126 33 0.20
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (123 bp):
AAACATCTTCTCAAAATTATTTTTCAGAAACTACTGTAGCAAAAGCGTCCACATGAGAGCTTCTT
TCAGTACTTTTGCTGACAATGCATCCTGCTTAAAGCATTTATAACACTATTTGCTCAG
Found at i:20845525 original size:321 final size:321
Alignment explanation
Indices: 20844931--20845526 Score: 876
Period size: 321 Copynumber: 1.9 Consensus size: 321
20844921 GGAACTATTA
* * *
20844931 TAGCAAAAGAGCGTTCACGTGGGAGCTTCTTTCACTTCTTTTGTTGACATTACATCCTGCTTGAA
1 TAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCACTACTTTTGCTGACATTACATCCTGCTTGAA
*
20844996 GCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGC
66 GCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAAAAACTACTGTAGC
** * * * * *
20845061 AAAAGAGCGTCCATGTGGGAGCTTGTTTCAGTACTTTTGCTGACATTGCATCCTGCTTGAAGCGT
131 AAAAGAGCGTCCACATGAGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCCTGCTTAAAGCAT
* * * * *
20845126 TTTTGACACTATTTGCTCAGAAACATCTTCTTAAAATTATTTTTCAAAAACTACTGTAGCAAAAC
196 TTATAACACTATTTGCTCAGAAACACCTTCTCAAAATTATTTTTCAAAAACTACTATAGCAAAAC
*
20845191 GTCTACATGAGAGCTACTGTAGCAAAACATCTTCTCAAAATTATTTTTTCAGAAACTACTG
261 GTCCACATGAGAGCTACTGTAGCAAAACATCTTCTCAAAATTATTTTTTCAGAAACTACTG
* * * *
20845252 TAGCAAAAGAGCGTCCATGTGGGAGCTTGTTTCAGTACTTTTGCTGACATTGCATCCTGCTTGAA
1 TAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCACTACTTTTGCTGACATTACATCCTGCTTGAA
*
20845317 GCGTTTTTGACACTATTTGCTCAGAAACATCTTCTTAAAATTA-TTTTTCAAAAACTACTGTAGC
66 GCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAAAAACTACTGTAGC
* *
20845381 -AAA-A-CGTCTACATGAGAGCTTCTTTTAGTACTTTTGCTGACAATGCATCCTGCTTAAAGCAT
131 AAAAGAGCGTCCACATGAGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCCTGCTTAAAGCAT
* **
20845443 TTATAACACTATTTGCTCAGAAACGCCTTCTCAAAATTATTTATTCAGGAACTACTATAGCAAAA
196 TTATAACACTATTTGCTCAGAAACACCTTCTCAAAATTATTT-TTCAAAAACTACTATAGC--AA
*
20845508 GAACGTCCACGTGAGAGCT
258 -AACGTCCACATGAGAGCT
20845527 TTTTTAAATT
Statistics
Matches: 243, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
317 86 0.35
318 16 0.07
319 3 0.01
320 22 0.09
321 116 0.48
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (321 bp):
TAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCACTACTTTTGCTGACATTACATCCTGCTTGAA
GCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAAAAACTACTGTAGC
AAAAGAGCGTCCACATGAGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCCTGCTTAAAGCAT
TTATAACACTATTTGCTCAGAAACACCTTCTCAAAATTATTTTTCAAAAACTACTATAGCAAAAC
GTCCACATGAGAGCTACTGTAGCAAAACATCTTCTCAAAATTATTTTTTCAGAAACTACTG
Found at i:20845708 original size:7 final size:7
Alignment explanation
Indices: 20845696--20845732 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
20845686 TTTTCCTTAA
20845696 AAACCCT
1 AAACCCT
20845703 AAACCCT
1 AAACCCT
20845710 AAACCCT
1 AAACCCT
20845717 AAACCCT
1 AAACCCT
20845724 AAACCCT
1 AAACCCT
20845731 AA
1 AA
20845733 TCTAATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.46, C:0.41, G:0.00, T:0.14
Consensus pattern (7 bp):
AAACCCT
Found at i:20845816 original size:111 final size:110
Alignment explanation
Indices: 20845599--20845818 Score: 282
Period size: 111 Copynumber: 2.0 Consensus size: 110
20845589 TTTTCCTTAA
* * * *
20845599 AAACCTTAAACCCTAAACCCTAGTCTAATTTTTTTAAAATTTATAATTAATTTATTTAAGTAACC
1 AAACCCTAAACCCTAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTAACC
**** *
20845664 CCAAACCCTAATTTATTTAAATTTTTCCTTAAAAACCCTAAACCCT
66 CCAAACCCTAATTTATTTAAAAAAATCCTT-AAAACACTAAACCCT
20845710 AAACCCTAAACCCTAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTAACC
1 AAACCCTAAACCCTAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTAACC
** *
20845775 TTAAACCCTAATTTATTTTTAAAAAAAATGC-T-AAACACTAAACC
66 CCAAACCCTAATTTA--TTT-AAAAAAATCCTTAAAACACTAAACC
20845819 TTAATCTAAT
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
111 85 0.90
113 4 0.04
114 5 0.05
ACGTcount: A:0.41, C:0.21, G:0.02, T:0.36
Consensus pattern (110 bp):
AAACCCTAAACCCTAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTAACC
CCAAACCCTAATTTATTTAAAAAAATCCTTAAAACACTAAACCCT
Found at i:20845818 original size:90 final size:90
Alignment explanation
Indices: 20845715--20845882 Score: 300
Period size: 90 Copynumber: 1.9 Consensus size: 90
20845705 ACCCTAAACC
* *
20845715 CTAAACCCTAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCTTAAA
1 CTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAA
20845780 CCCTAATTTATTTTTAAAAAAAATG
66 CCCTAATTTATTTTTAAAAAAAATG
* *
20845805 CTAAACACTAAACCTTAATCTAATTTTTTTAAAATTTATAATTATTTTACTCAAGTAACCCTAAA
1 CTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAA
20845870 CCCTAATTTATTT
66 CCCTAATTTATTT
20845883 GATTTTTTTC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 74 1.00
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.40
Consensus pattern (90 bp):
CTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAA
CCCTAATTTATTTTTAAAAAAAATG
Found at i:20846166 original size:40 final size:41
Alignment explanation
Indices: 20846071--20846147 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 41
20846061 AAAGCGCTTT
*
20846071 CTCAAGGAAGCG--CTTTGTCCACGTGGACACAAAGTGCGCC
1 CTCAAGGAAGCGTTTTTTGTCCACGTGGA-ACAAAGTGCGCC
*
20846111 CTCAAGGACGCGTTTTTTGTCCACGTGG-ACAAAGTGC
1 CTCAAGGAAGCGTTTTTTGTCCACGTGGAACAAAGTGC
20846148 TTCCTTGAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 20 0.61
42 13 0.39
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.22
Consensus pattern (41 bp):
CTCAAGGAAGCGTTTTTTGTCCACGTGGAACAAAGTGCGCC
Found at i:20857309 original size:147 final size:149
Alignment explanation
Indices: 20857038--20857342 Score: 375
Period size: 147 Copynumber: 2.1 Consensus size: 149
20857028 ACGACTTTAA
*** * *
20857038 CAATTTCAACAATTATTAATAACAAAGAATCCAACATTTTTATTAACAACTTACTAAAATTTCAA
1 CAATTTCAACAATTATTAATAACAAAGAATCCAACAAAATTATCAACAACTTACTAAAATTGCAA
* *
20857103 CCATAAACAATAACAAAACTTCCTTATAACATGCATAAAACATATTCAAAAAATGTAACAACAAT
66 CCATAAACAATAACAAAACTTCCTTATAACATACATAAAACATATTCAAAAAATCTAACAACAAT
20857168 AATA-AAATAACAATTCTAAT
131 AA-AGAAATAACAATTCT-AT
* * **
20857188 -AATTTCAACAATTGTTAATAACAAAGAATCCAACAAAATTA-CACCAACTTACTTCAA-TGCAA
1 CAATTTCAACAATTATTAATAACAAAGAATCCAACAAAATTATCAACAACTTACTAAAATTGCAA
* * * * ** * **
20857250 CCATCAATAATAACACAACTTCCTTATATCATATGTAGAGTATATTCAAAAAATCTAACAACAAT
66 CCATAAACAATAACAAAACTTCCTTATAACATACATAAAACATATTCAAAAAATCTAACAACAAT
*
20857315 AAAGACATAACAATTCTAT
131 AAAGAAATAACAATTCTAT
20857334 CAATTTCAA
1 CAATTTCAA
20857343 AATAAATTAA
Statistics
Matches: 132, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
146 3 0.02
147 80 0.61
148 12 0.09
149 37 0.28
ACGTcount: A:0.50, C:0.19, G:0.03, T:0.28
Consensus pattern (149 bp):
CAATTTCAACAATTATTAATAACAAAGAATCCAACAAAATTATCAACAACTTACTAAAATTGCAA
CCATAAACAATAACAAAACTTCCTTATAACATACATAAAACATATTCAAAAAATCTAACAACAAT
AAAGAAATAACAATTCTAT
Found at i:20858613 original size:37 final size:37
Alignment explanation
Indices: 20858566--20858642 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
20858556 CAAACAGACT
20858566 ACACTCAGACTAATAACTTTAGCTAGCCATTACTTAC
1 ACACTCAGACTAATAACTTTAGCTAGCCATTACTTAC
20858603 ACACTCAGACTAATAACTTTAGCTAGCCATTACTTAC
1 ACACTCAGACTAATAACTTTAGCTAGCCATTACTTAC
20858640 ACA
1 ACA
20858643 AATATTTTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.36, C:0.27, G:0.08, T:0.29
Consensus pattern (37 bp):
ACACTCAGACTAATAACTTTAGCTAGCCATTACTTAC
Found at i:20861537 original size:32 final size:32
Alignment explanation
Indices: 20861496--20861557 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
20861486 TCTTAATGAG
20861496 TCTATTTTCAATAGAAACAAACAGGAACATAA
1 TCTATTTTCAATAGAAACAAACAGGAACATAA
*
20861528 TCTATTTTCAATAGAAACAAACATGAACAT
1 TCTATTTTCAATAGAAACAAACAGGAACAT
20861558 CATTCAAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.27
Consensus pattern (32 bp):
TCTATTTTCAATAGAAACAAACAGGAACATAA
Found at i:20864061 original size:50 final size:49
Alignment explanation
Indices: 20863986--20864173 Score: 250
Period size: 50 Copynumber: 3.8 Consensus size: 49
20863976 ATTTGGGTAA
*
20863986 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC-TTGGCACCGAGATG
* *
20864036 AGAGGTCCCATGTAAGACCATGTCTGTGACATGGCATTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC-TTGGCACCGAGATG
** * *
20864086 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGACACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCTTGG-CACCGAGATG
** *
20864136 AGAACATCCCATGTAAGACCATGTTTGGGACATGGCTT
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCTT
20864174 TGACATGTTA
Statistics
Matches: 120, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
49 3 0.03
50 88 0.73
51 29 0.24
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.22
Consensus pattern (49 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCTTGGCACCGAGATG
Found at i:20867514 original size:15 final size:15
Alignment explanation
Indices: 20867494--20867523 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20867484 TTACAGTCTC
*
20867494 CCTTATGTGTTTTAT
1 CCTTATGTGGTTTAT
20867509 CCTTATGTGGTTTAT
1 CCTTATGTGGTTTAT
20867524 TTGGGTTTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.13, G:0.17, T:0.57
Consensus pattern (15 bp):
CCTTATGTGGTTTAT
Found at i:20869962 original size:89 final size:88
Alignment explanation
Indices: 20869804--20870065 Score: 224
Period size: 88 Copynumber: 3.0 Consensus size: 88
20869794 GGTATAGGGT
* * ** * * * * *
20869804 ATATATAATATTATTTGTTGGTTTCACCAAGC-AGTGTTGGACACACACATATATATTATTTATT
1 ATATAT-ATAATATTTGTTAGTTTCACTGA-CTAGTGTTGGGCACATATATATATAATATTTATC
* *
20869868 GGTTTCACCAACTAGTGCTGGACACAC
64 AGTTTCACCAACCAGTGCTGG--ACAC
*
20869895 ATATATATAATATTTGTT-GTTTCACTGACTAGTGTTGGGCACATATATATATAATATTTGTCAG
1 ATATATATAATATTTGTTAGTTTCACTGACTAGTGTTGGGCACATATATATATAATATTTATCAG
* *
20869959 TTTCATCAACCAGTGCTGGGCAC
66 TTTCACCAACCAGTGCTGGACAC
* * * * * * * *
20869982 ATATATATAGTAATTGTTAATTTC-TTCGACTAGTGCTGGGCATATATTTATATAATATTTTTCA
1 ATATATATAATATTTGTTAGTTTCACT-GACTAGTGTTGGGCACATATATATATAATATTTATCA
* * * *
20870046 ATTTCATCGACCAGTCCTGG
65 GTTTCACCAACCAGTGCTGG
20870066 GCATAAAACT
Statistics
Matches: 144, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
87 20 0.14
88 55 0.38
89 52 0.36
90 11 0.08
91 6 0.04
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (88 bp):
ATATATATAATATTTGTTAGTTTCACTGACTAGTGTTGGGCACATATATATATAATATTTATCAG
TTTCACCAACCAGTGCTGGACAC
Found at i:20869983 original size:45 final size:45
Alignment explanation
Indices: 20869803--20870068 Score: 202
Period size: 45 Copynumber: 6.0 Consensus size: 45
20869793 AGGTATAGGG
* * * * * *
20869803 TATATATAATATTATTTGTTGGTTTCACCAAGCAGTGTTGGACACA
1 TATATAT-ATAATATTTGTTAGTTTCATCAACCAGTGCTGGGCACA
* * * * * * * *
20869849 CACATATATATTATTTATTGGTTTCACCAACTAGTGCTGGACACA
1 TATATATATAATATTTGTTAGTTTCATCAACCAGTGCTGGGCACA
* * * *
20869894 CATATATATAATATTTGTT-GTTTCA-CTGACTAGTGTTGGGCACA
1 TATATATATAATATTTGTTAGTTTCATC-AACCAGTGCTGGGCACA
*
20869938 TATATATATAATATTTGTCAGTTTCATCAACCAGTGCTGGGCACA
1 TATATATATAATATTTGTTAGTTTCATCAACCAGTGCTGGGCACA
* * * * *
20869983 TATATATAGT-A-A-TTGTTAATTTCTTCGACTAGTGCTGGGCATA
1 TATATATA-TAATATTTGTTAGTTTCATCAACCAGTGCTGGGCACA
* * * *
20870026 TATTTATATAATATTT-TTCAATTTCATCGACCAGTCCTGGGCA
1 TATATATATAATATTTGTT-AGTTTCATCAACCAGTGCTGGGCA
20870069 TAAAACTTTA
Statistics
Matches: 185, Mismatches: 27, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
42 1 0.01
43 34 0.18
44 41 0.22
45 102 0.55
46 7 0.04
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (45 bp):
TATATATATAATATTTGTTAGTTTCATCAACCAGTGCTGGGCACA
Found at i:20870017 original size:43 final size:41
Alignment explanation
Indices: 20869878--20870037 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 41
20869868 GGTTTCACCA
* * *
20869878 ACTAGTGCTGGACACACATATATATAATATTTGTT-GTTTCACTG
1 ACTAGTGCTGG--GCACATATATAT-ATAATTGTTAGTTTCTC-G
* * *
20869922 ACTAGTGTTGGGCACATATATATATAATATTTGTCAGTTTCATCA
1 ACTAGTGCTGGGCACATATATATAT-A-A-TTGTTAGTTTC-TCG
* *
20869967 ACCAGTGCTGGGCACATATATATAGTAATTGTTAATTTCTTCG
1 ACTAGTGCTGGGCACATATATATA-TAATTGTTAGTTTC-TCG
* *
20870010 ACTAGTGCTGGGCATATATTTATATAAT
1 ACTAGTGCTGGGCACATATATATATAAT
20870038 ATTTTTCAAT
Statistics
Matches: 95, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
41 2 0.02
42 16 0.17
43 32 0.34
44 15 0.16
45 28 0.29
46 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (41 bp):
ACTAGTGCTGGGCACATATATATATAATTGTTAGTTTCTCG
Found at i:20870041 original size:88 final size:87
Alignment explanation
Indices: 20869869--20870068 Score: 231
Period size: 88 Copynumber: 2.3 Consensus size: 87
20869859 TTATTTATTG
* * * * * *
20869869 GTTTCACCAACTAGTGCTGGACACACATATATATAATATTTGTTGTTTCACTGACTAGTGTTGGG
1 GTTTCATCAACCAGTGCTGG--GCACATATATATAATAATTGTTATTTCACTGACTAGTGCTGGG
20869934 CACATATATATATAATATTTGTCA
64 CACATATATATATAATATTTGTCA
* *
20869958 GTTTCATCAACCAGTGCTGGGCACATATATATAGTAATTGTTAATTTC-TTCGACTAGTGCTGGG
1 GTTTCATCAACCAGTGCTGGGCACATATATATAATAATTGTT-ATTTCACT-GACTAGTGCTGGG
* * *
20870022 CATATATTTATATAATATTTTTCA
64 CACATATATATATAATATTTGTCA
* * *
20870046 ATTTCATCGACCAGTCCTGGGCA
1 GTTTCATCAACCAGTGCTGGGCA
20870069 TAAAACTTTA
Statistics
Matches: 95, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
87 20 0.21
88 57 0.60
89 18 0.19
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (87 bp):
GTTTCATCAACCAGTGCTGGGCACATATATATAATAATTGTTATTTCACTGACTAGTGCTGGGCA
CATATATATATAATATTTGTCA
Found at i:20878462 original size:4 final size:4
Alignment explanation
Indices: 20878453--20878504 Score: 77
Period size: 4 Copynumber: 12.5 Consensus size: 4
20878443 AACCCAATTA
*
20878453 TTAT TTAT TTAT TTGT ATTAT TTAT TTAT TTAT TTAT TTAT TTATT TTAT
1 TTAT TTAT TTAT TTAT -TTAT TTAT TTAT TTAT TTAT TTAT TTA-T TTAT
20878503 TT
1 TT
20878505 GCATGTTAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
4 37 0.84
5 7 0.16
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (4 bp):
TTAT
Found at i:20878473 original size:17 final size:16
Alignment explanation
Indices: 20878450--20878503 Score: 83
Period size: 17 Copynumber: 3.3 Consensus size: 16
20878440 GGCAACCCAA
20878450 TTATTATTTATTTATT
1 TTATTATTTATTTATT
20878466 TGTATTATTTATTTA-T
1 T-TATTATTTATTTATT
20878482 TTATTTATTTATTTATT
1 TTA-TTATTTATTTATT
20878499 TTATT
1 TTATT
20878504 TGCATGTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
15 2 0.06
16 16 0.46
17 17 0.49
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (16 bp):
TTATTATTTATTTATT
Found at i:20881104 original size:93 final size:92
Alignment explanation
Indices: 20880933--20881106 Score: 233
Period size: 93 Copynumber: 1.9 Consensus size: 92
20880923 AAGAGTGTGT
* * * * * *
20880933 TGGGCTGAGTAACCGGGGTGGGGTGCTTGGGTTGTCATCCCTCTTCGTGCCAAAAGGTTCGATAC
1 TGGGCTGAGTAACCGGGGTGGGATGATTGGGTTGTCAT-CATCTTCGCGCCAAAAGGATCAATAC
*
20880998 ATTCTTAAGAAATAAATTAGGAGCATGA
65 ATTCTTAAAAAATAAATTAGGAGCATGA
* *
20881026 TGGGCTGAGTAACTGGGGTGGGATGATTGGGTTGTCAT-ATCTTCGCGTCAAAAGGATCAATACA
1 TGGGCTGAGTAACCGGGGTGGGATGATTGGGTTGTCATCATCTTCGCGCCAAAAGGATCAATACA
20881090 TTCCATTAAAAAATAAA
66 TT-C-TTAAAAAATAAA
20881107 AAAATAAAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
91 23 0.33
92 1 0.01
93 46 0.66
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (92 bp):
TGGGCTGAGTAACCGGGGTGGGATGATTGGGTTGTCATCATCTTCGCGCCAAAAGGATCAATACA
TTCTTAAAAAATAAATTAGGAGCATGA
Found at i:20881122 original size:16 final size:17
Alignment explanation
Indices: 20881096--20881133 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
20881086 TACATTCCAT
20881096 TAAAA-AATAAAAA-AA
1 TAAAATAATAAAAATAA
20881111 TAAAATAATAAAAATAA
1 TAAAATAATAAAAATAA
20881128 -AAAATA
1 TAAAATA
20881134 TATATTGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.24
16 14 0.67
17 2 0.10
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAAATAATAAAAATAA
Found at i:20885914 original size:18 final size:17
Alignment explanation
Indices: 20885891--20885924 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20885881 ACTCTCAAGA
20885891 AAAACTAGAAATTTAAAT
1 AAAACT-GAAATTTAAAT
*
20885909 AAAACTGTAATTTAAA
1 AAAACTGAAATTTAAA
20885925 ACTAGTTCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (17 bp):
AAAACTGAAATTTAAAT
Found at i:20888245 original size:18 final size:17
Alignment explanation
Indices: 20888222--20888255 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20888212 AACTCTCAAG
20888222 AAAACCAGAAATTTAAAT
1 AAAACCA-AAATTTAAAT
*
20888240 AAAACCATAATTTAAA
1 AAAACCAAAATTTAAA
20888256 AGCAATTCGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.24
Consensus pattern (17 bp):
AAAACCAAAATTTAAAT
Found at i:20890281 original size:43 final size:43
Alignment explanation
Indices: 20890212--20890351 Score: 208
Period size: 43 Copynumber: 3.3 Consensus size: 43
20890202 TTATAGAAAT
*
20890212 AAACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCTAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCTAC
* * *
20890255 AAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTATTCCCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCTAC
** * *
20890298 AAACGTTGCTAAAGGTCATGTTCTTTCGCGGCGCTTTTTCTAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCTAC
20890341 AAACGCCGCTA
1 AAACGCCGCTA
20890352 TTATTTGGTG
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 84 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCTAC
Found at i:20890375 original size:44 final size:44
Alignment explanation
Indices: 20890320--20890447 Score: 132
Period size: 44 Copynumber: 2.9 Consensus size: 44
20890310 AGGTCATGTT
* * *
20890320 CTTTCGCGGCGCTTTTTCTACAAACGCCGCTATTATTTGGTGAC
1 CTTTAGCGGCGCTTTTTCCACAAACGCCACTATTATTTGGTGAC
* * * *
20890364 CTTTAGCGGCGCTTTTCCCACAAACGCCATTATTGTTTTGTGAC
1 CTTTAGCGGCGCTTTTTCCACAAACGCCACTATTATTTGGTGAC
* * * * *
20890408 CTTTAGCGGAGATTTTTCAAAAAACACCACTAATT-TTTGG
1 CTTTAGCGGCGCTTTTTCCACAAACGCCACT-ATTATTTGG
20890448 ATTTTTGTAA
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
44 65 0.96
45 3 0.04
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (44 bp):
CTTTAGCGGCGCTTTTTCCACAAACGCCACTATTATTTGGTGAC
Found at i:20890774 original size:21 final size:21
Alignment explanation
Indices: 20890744--20890793 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
20890734 TTTTGCTCTG
*
20890744 CTCTGTTTCCCTCACTGCAGC
1 CTCTGCTTCCCTCACTGCAGC
* *
20890765 CTCTGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCACTGCAGC
20890786 CTCTGCTT
1 CTCTGCTT
20890794 TAATTAAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.04, C:0.46, G:0.16, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCACTGCAGC
Found at i:20893354 original size:21 final size:21
Alignment explanation
Indices: 20893330--20893426 Score: 70
Period size: 21 Copynumber: 4.4 Consensus size: 21
20893320 TTACTGTTGA
20893330 AACCCTAAACCCTAAATCCCT
1 AACCCTAAACCCTAAATCCCT
*
20893351 AACCCTTAACCCCTAAATCCCCCT
1 AACCC-TAAACCCTAAAT--CCCT
* * *
20893375 AACCCTTAAAGCAT-AACCCCT
1 AACCC-TAAACCCTAAATCCCT
* * * *
20893396 AACCCCTGAACCTTAAATCTCA
1 AA-CCCTAAACCCTAAATCCCT
20893418 AACCCTAAA
1 AACCCTAAA
20893427 TCCATACCCC
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
21 22 0.37
22 20 0.34
23 2 0.03
24 15 0.25
ACGTcount: A:0.37, C:0.41, G:0.02, T:0.20
Consensus pattern (21 bp):
AACCCTAAACCCTAAATCCCT
Found at i:20893367 original size:22 final size:23
Alignment explanation
Indices: 20893330--20893414 Score: 79
Period size: 21 Copynumber: 3.8 Consensus size: 23
20893320 TTACTGTTGA
20893330 AACCC-TAAACCCTAAAT-CCCT
1 AACCCTTAAACCCTAAATCCCCT
*
20893351 AACCCTTAACCCCTAAATCCCCCT
1 AACCCTTAAACCCTAAAT-CCCCT
* *
20893375 AACCCTTAAAGCAT-AA-CCCCT
1 AACCCTTAAACCCTAAATCCCCT
* * *
20893396 AACCCCTGAACCTTAAATC
1 AACCCTTAAACCCTAAATC
20893415 TCAAACCCTA
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
21 20 0.39
22 13 0.25
23 3 0.06
24 15 0.29
ACGTcount: A:0.35, C:0.42, G:0.02, T:0.20
Consensus pattern (23 bp):
AACCCTTAAACCCTAAATCCCCT
Found at i:20894605 original size:17 final size:15
Alignment explanation
Indices: 20894573--20894623 Score: 59
Period size: 17 Copynumber: 3.3 Consensus size: 15
20894563 CCGTTGAAAT
20894573 CCTAAACCCCTAACC
1 CCTAAACCCCTAACC
20894588 CCTAAATCCCCTTAACC
1 CCTAAA-CCCC-TAACC
* *
20894605 CCTAAA-GCATAACC
1 CCTAAACCCCTAACC
20894619 CCTAA
1 CCTAA
20894624 CCCTTAAACC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 10 0.31
15 7 0.22
16 4 0.12
17 11 0.34
ACGTcount: A:0.35, C:0.45, G:0.02, T:0.18
Consensus pattern (15 bp):
CCTAAACCCCTAACC
Found at i:20895189 original size:41 final size:38
Alignment explanation
Indices: 20895139--20895380 Score: 232
Period size: 41 Copynumber: 5.9 Consensus size: 38
20895129 TTTTTTTATT
* *
20895139 ATTAGCGGCGCTTTCTCAAAAATGTCGATAAAGGCCCATGC
1 ATTAGCGGCGCTTT-TCAAAAACG-CGCTAAAGGCCCA-GC
*
20895180 ATTAACGGCGCTATTTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCT-TTTCAAAAACG-CGCTAAAGGCCC-AGC
* * * *
20895221 ATTAGCGGTGCTTTTTCAAAAACGCCACTAAAGGAACAAGC
1 ATTAGCGGCGC-TTTTCAAAAACG-CGCTAAAGG-CCCAGC
*
20895262 ATTAGCGGCGCATTTTCAAAAACGCCGCTAAAGGCCTGAGC
1 ATTAGCGGCGC-TTTTCAAAAACG-CGCTAAAGGCC-CAGC
* *
20895303 ATTAGCGGCGCTTCTTCAAAAATGCAGCTAAAGGCCCGATC
1 ATTAGCGGCGCTT-TTCAAAAACGC-GCTAAAGGCCC-AGC
*
20895344 ATTAGCGGCGCTTTTTCAAAAACGACGCTAAAAGCCC
1 ATTAGCGGCGC-TTTTCAAAAACG-CGCTAAAGGCCC
20895381 CAAAAACTCA
Statistics
Matches: 172, Mismatches: 19, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
40 4 0.02
41 160 0.93
42 8 0.05
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
ATTAGCGGCGCTTTTCAAAAACGCGCTAAAGGCCCAGC
Found at i:20895279 original size:82 final size:81
Alignment explanation
Indices: 20895139--20895380 Score: 265
Period size: 82 Copynumber: 3.0 Consensus size: 81
20895129 TTTTTTTATT
* * ** * *
20895139 ATTAGCGGCGCTT-TCTCAAAAATGTC-GATAAAGGCCCATGCATTAACGGCGCTATTTCAAAAA
1 ATTAGCGGCGCTTCT-TCAAAAACG-CAGCTAAAGGAACAAGCATTAGCGGCGCT-TTTCAAAAA
20895202 CGCCGCTAAAGGCCCGAGC
63 CGCCGCTAAAGGCCCGAGC
* *
20895221 ATTAGCGGTGCTTTTTCAAAAACGCCA-CTAAAGGAACAAGCATTAGCGGCGCATTTTCAAAAAC
1 ATTAGCGGCGCTTCTTCAAAAACG-CAGCTAAAGGAACAAGCATTAGCGGCGC-TTTTCAAAAAC
*
20895285 GCCGCTAAAGGCCTGAGC
64 GCCGCTAAAGGCCCGAGC
* ** * *
20895303 ATTAGCGGCGCTTCTTCAAAAATGCAGCTAAAGGCCCGATCATTAGCGGCGCTTTTTCAAAAACG
1 ATTAGCGGCGCTTCTTCAAAAACGCAGCTAAAGGAACAAGCATTAGCGGCGC-TTTTCAAAAACG
* *
20895368 ACGCTAAAAGCCC
65 CCGCTAAAGGCCC
20895381 CAAAAACTCA
Statistics
Matches: 136, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
81 2 0.01
82 132 0.97
83 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (81 bp):
ATTAGCGGCGCTTCTTCAAAAACGCAGCTAAAGGAACAAGCATTAGCGGCGCTTTTCAAAAACGC
CGCTAAAGGCCCGAGC
Found at i:20895358 original size:123 final size:123
Alignment explanation
Indices: 20895139--20895367 Score: 329
Period size: 123 Copynumber: 1.9 Consensus size: 123
20895129 TTTTTTTATT
* *
20895139 ATTAGCGGCGCTTTCTCAAAAATGTCGATAAAGGCCCATGCATTAACGGCGCTATTTCAAAAACG
1 ATTAGCGGCGCTTTCTCAAAAACGCCGATAAAGGCCCATGCATTAACGGCGCTATTTCAAAAACG
* *
20895204 CCGCTAAAGGCCCGAGCATTAGCGGTGCTTTTTCAAAAACGCCACTAAAGGAACAAGC
66 CAGCTAAAGGCCCGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGGAACAAGC
* * *
20895262 ATTAGCGGCGCATTT-TCAAAAACGCCGCTAAAGGCCTGA-GCATTAGCGGCGCT-TCTTCAAAA
1 ATTAGCGGCGC-TTTCTCAAAAACGCCGATAAAGGCC-CATGCATTAACGGCGCTAT-TTCAAAA
* *
20895324 ATGCAGCTAAAGGCCCGATCATTAGCGGCGCTTTTTCAAAAACG
63 ACGCAGCTAAAGGCCCGAGCATTAGCGGCGCTTTTTCAAAAACG
20895368 ACGCTAAAAG
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
122 1 0.01
123 89 0.95
124 4 0.04
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (123 bp):
ATTAGCGGCGCTTTCTCAAAAACGCCGATAAAGGCCCATGCATTAACGGCGCTATTTCAAAAACG
CAGCTAAAGGCCCGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGGAACAAGC
Found at i:20895524 original size:40 final size:40
Alignment explanation
Indices: 20895473--20895550 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
20895463 GCATTTTCCA
20895473 AAAAGCACCGCTAATGCTCCATCTTTAGCGGCGTTTTTAG
1 AAAAGCACCGCTAATGCTCCATCTTTAGCGGCGTTTTTAG
* ** * *
20895513 AAAAGCGCCGCTAATGCTTGATTTTTAGTGGCGTTTTT
1 AAAAGCACCGCTAATGCTCCATCTTTAGCGGCGTTTTT
20895551 TATCCAAACG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (40 bp):
AAAAGCACCGCTAATGCTCCATCTTTAGCGGCGTTTTTAG
Found at i:20928917 original size:13 final size:13
Alignment explanation
Indices: 20928899--20928951 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
20928889 CTCACTTATT
20928899 ATTTAATCAATTA
1 ATTTAATCAATTA
*
20928912 ATTTAATTAATTA
1 ATTTAATCAATTA
* *
20928925 AGTTAACTAAATTA
1 ATTTAA-TCAATTA
*
20928939 ATTT-TTCAATTA
1 ATTTAATCAATTA
20928951 A
1 A
20928952 ATAATTTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
12 7 0.21
13 17 0.52
14 9 0.27
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (13 bp):
ATTTAATCAATTA
Found at i:20934898 original size:14 final size:15
Alignment explanation
Indices: 20934860--20934913 Score: 53
Period size: 14 Copynumber: 3.8 Consensus size: 15
20934850 ATCAAGATGA
20934860 CTAATTAATTT-AATT
1 CTAATT-ATTTAAATT
20934875 CTAATT-TTTAAATT
1 CTAATTATTTAAATT
20934889 C-AATTATTT-AATT
1 CTAATTATTTAAATT
* *
20934902 ATAATTAATTAA
1 CTAATTATTTAA
20934914 TAATAATTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 11 0.33
14 15 0.45
15 7 0.21
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.52
Consensus pattern (15 bp):
CTAATTATTTAAATT
Found at i:20938835 original size:27 final size:26
Alignment explanation
Indices: 20938805--20938855 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
20938795 ATGAAATTCT
* *
20938805 TACAAACAATATGATTGATTAACAATA
1 TACAAACAAAATGA-TGAATAACAATA
*
20938832 TACAAAGAAAATGATGAATAACAA
1 TACAAACAAAATGATGAATAACAA
20938856 ATTAATTCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 9 0.43
27 12 0.57
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.24
Consensus pattern (26 bp):
TACAAACAAAATGATGAATAACAATA
Found at i:20948984 original size:21 final size:21
Alignment explanation
Indices: 20948955--20948999 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
20948945 ATGATTATGT
20948955 GGATAATATCTAACCCATAAA
1 GGATAATATCTAACCCATAAA
*
20948976 GGATGATATCTAACCCATAAA
1 GGATAATATCTAACCCATAAA
20948997 GGA
1 GGA
20949000 AGATCATATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (21 bp):
GGATAATATCTAACCCATAAA
Found at i:20954365 original size:36 final size:36
Alignment explanation
Indices: 20954325--20954427 Score: 118
Period size: 36 Copynumber: 2.8 Consensus size: 36
20954315 TCGGATCTTT
*
20954325 CCAAGCTCCTAAATGAGATATCAAGTTTTCTCAATC
1 CCAAGATCCTAAATGAGATATCAAGTTTTCTCAATC
* * *
20954361 CCAAGATCCTTAACGAGATATCAAGTCTTCTCAATC
1 CCAAGATCCTAAATGAGATATCAAGTTTTCTCAATC
** *
20954397 TGAAGAT-CTCAAATGAGATATCGAGTCTTTC
1 CCAAGATCCT-AAATGAGATATCAAGT-TTTC
20954428 CAACTTCTTG
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
35 2 0.04
36 50 0.91
37 3 0.05
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (36 bp):
CCAAGATCCTAAATGAGATATCAAGTTTTCTCAATC
Found at i:20954444 original size:30 final size:30
Alignment explanation
Indices: 20954408--20954499 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
20954398 GAAGATCTCA
* *
20954408 AATGAGATATCGAGTCTT-TCCAA-CTTCTTG
1 AATGAGATATAGAGTCTTCT-CAAGC-TCCTG
*
20954438 AATGAGATATAGGGTCTTCTCAAGCTCCTG
1 AATGAGATATAGAGTCTTCTCAAGCTCCTG
* *
20954468 AATGAGATATAGGGTCTTCTCAAGTTCCTG
1 AATGAGATATAGAGTCTTCTCAAGCTCCTG
20954498 AA
1 AA
20954500 CATCCCCGTA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
30 54 0.96
31 2 0.04
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (30 bp):
AATGAGATATAGAGTCTTCTCAAGCTCCTG
Found at i:20959156 original size:40 final size:41
Alignment explanation
Indices: 20959077--20959158 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 41
20959067 CTAGAAAAAT
* *
20959077 AAAAAATTTAAAAAGAGGAGAAGATAATCTTGGTTTGTTGAA
1 AAAAAATTTAAAAAGAGGAGAAGATAAACATGG-TTGTTGAA
*
20959119 AAAATAATTTTAAAAGAGGAGAAGATAAACATGTGTTGTT
1 AAAA-AATTTAAAAAGAGGAGAAGATAAACATG-GTTGTT
20959159 AGATTTACCG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
42 4 0.11
43 30 0.86
44 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.21, T:0.29
Consensus pattern (41 bp):
AAAAAATTTAAAAAGAGGAGAAGATAAACATGGTTGTTGAA
Found at i:20961642 original size:58 final size:58
Alignment explanation
Indices: 20961552--20961667 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
20961542 AGAGATCCTT
20961552 AGGCAACAATAGAAGGTAGCGACTAAGTAGAGACGGAAAGAGTAAGACGAAAGCAGTC
1 AGGCAACAATAGAAGGTAGCGACTAAGTAGAGACGGAAAGAGTAAGACGAAAGCAGTC
20961610 AGGCAACAATAGAAGGTAGCGACTAAGTAGAGACGGAAAGAGTAAGACGAAAGCAGTC
1 AGGCAACAATAGAAGGTAGCGACTAAGTAGAGACGGAAAGAGTAAGACGAAAGCAGTC
20961668 CCTTTCAACC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.45, C:0.14, G:0.31, T:0.10
Consensus pattern (58 bp):
AGGCAACAATAGAAGGTAGCGACTAAGTAGAGACGGAAAGAGTAAGACGAAAGCAGTC
Found at i:20963370 original size:28 final size:27
Alignment explanation
Indices: 20963326--20963389 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
20963316 CTGGACTTTG
* * *
20963326 GACATCATTAAAGCATGTAATAAAATTA
1 GACA-CATTAAAACATGCAATAAAATAA
*
20963354 GACACATTAATAACATGCATTAAAATAA
1 GACACATTAA-AACATGCAATAAAATAA
*
20963382 AACACATT
1 GACACATT
20963390 TATCACAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 6 0.20
28 24 0.80
ACGTcount: A:0.52, C:0.14, G:0.08, T:0.27
Consensus pattern (27 bp):
GACACATTAAAACATGCAATAAAATAA
Found at i:20967584 original size:18 final size:18
Alignment explanation
Indices: 20967561--20967595 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
20967551 GAGTTAAACG
20967561 AATCGAGTTATTCGAATT
1 AATCGAGTTATTCGAATT
*
20967579 AATCGAGTTATTTGAAT
1 AATCGAGTTATTCGAAT
20967596 CAACTCGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (18 bp):
AATCGAGTTATTCGAATT
Found at i:20967735 original size:21 final size:21
Alignment explanation
Indices: 20967711--20967751 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20967701 CCCAAACTCC
*
20967711 CAAACCTTTCTACTT-TTCCCT
1 CAAAACTTT-TACTTCTTCCCT
20967732 CAAAACTTTTACTTCTTCCC
1 CAAAACTTTTACTTCTTCCC
20967752 ACTTTCCCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.37, G:0.00, T:0.41
Consensus pattern (21 bp):
CAAAACTTTTACTTCTTCCCT
Found at i:20967921 original size:30 final size:31
Alignment explanation
Indices: 20967887--20967946 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
20967877 AAACATTTTA
*
20967887 TTTTCTCCC-AAAATTTTTACTCCC-TCCCAC
1 TTTTC-CCCTAAAACTTTTACTCCCTTCCCAC
*
20967917 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
20967947 TCTCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 18 0.69
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:20973377 original size:26 final size:26
Alignment explanation
Indices: 20973341--20973394 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
20973331 ACATTTTTTT
20973341 TTCTTTTTAGTACAAAGTAAGAAAGG
1 TTCTTTTTAGTACAAAGTAAGAAAGG
20973367 TTCTTTTTAGTACAAAGTAAGAAAGG
1 TTCTTTTTAGTACAAAGTAAGAAAGG
20973393 TT
1 TT
20973395 AAGGTCATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (26 bp):
TTCTTTTTAGTACAAAGTAAGAAAGG
Found at i:20979238 original size:30 final size:28
Alignment explanation
Indices: 20979202--20979284 Score: 94
Period size: 30 Copynumber: 2.9 Consensus size: 28
20979192 ATAGTGTGGA
* * *
20979202 CCTTAGCCCATTATAGTAATAGTGTGTAGG
1 CCTTAGCCCAATAAAGTAATAGTGGGT--G
* *
20979232 CCTTAGCCCAATACAGTAACAGTGGGTG
1 CCTTAGCCCAATAAAGTAATAGTGGGTG
20979260 CCTTAGCCCAATAAAGTAATTAGTG
1 CCTTAGCCCAATAAAGTAA-TAGTG
20979285 CAATGCAGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 19 0.41
29 4 0.09
30 23 0.50
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (28 bp):
CCTTAGCCCAATAAAGTAATAGTGGGTG
Found at i:20979425 original size:26 final size:26
Alignment explanation
Indices: 20979396--20979462 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 26
20979386 TATCGTAGCC
* * *
20979396 AAGCTGCCAGTAATAGCGATGCAGCA
1 AAGCTGCCAGTAACAGCAACGCAGCA
* * *
20979422 AAGCTGCTAGTAACAGTAACGTAGCA
1 AAGCTGCCAGTAACAGCAACGCAGCA
20979448 AAGCTGCCAGTAACA
1 AAGCTGCCAGTAACA
20979463 ATATATGTGG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
AAGCTGCCAGTAACAGCAACGCAGCA
Found at i:20979658 original size:92 final size:92
Alignment explanation
Indices: 20979501--20979686 Score: 363
Period size: 92 Copynumber: 2.0 Consensus size: 92
20979491 ATACGTCCCC
20979501 TATATCAAAATCTCAACCCTATGCAGTATGTCAAGTCATAAATCATACGTGTATGCAGTATGTCA
1 TATATCAAAATCTCAACCCTATGCAGTATGTCAAGTCATAAATCATACGTGTATGCAGTATGTCA
20979566 TACTCAGTAACAATCATATAAATAACA
66 TACTCAGTAACAATCATATAAATAACA
*
20979593 TATATCAGAATCTCAACCCTATGCAGTATGTCAAGTCATAAATCATACGTGTATGCAGTATGTCA
1 TATATCAAAATCTCAACCCTATGCAGTATGTCAAGTCATAAATCATACGTGTATGCAGTATGTCA
20979658 TACTCAGTAACAATCATATAAATAACA
66 TACTCAGTAACAATCATATAAATAACA
20979685 TA
1 TA
20979687 GAACAAATCG
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 93 1.00
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (92 bp):
TATATCAAAATCTCAACCCTATGCAGTATGTCAAGTCATAAATCATACGTGTATGCAGTATGTCA
TACTCAGTAACAATCATATAAATAACA
Found at i:20979750 original size:27 final size:27
Alignment explanation
Indices: 20979732--20979892 Score: 189
Period size: 27 Copynumber: 6.0 Consensus size: 27
20979722 GGGTATAACA
*
20979732 GTCATTTTACCCTTTAAGGGTATTTCG
1 GTCATTTTACCCTTTGAGGGTATTTCG
* * *
20979759 ATCATTTTA-CCTTTCGGGGGTATTTCA
1 GTCATTTTACCCTTT-GAGGGTATTTCG
* * *
20979786 GTCATTTTAGCCTTCGGGGGTATTTCG
1 GTCATTTTACCCTTTGAGGGTATTTCG
* *
20979813 GTCAGTTTACCCTTTGAGGGTATTTTG
1 GTCATTTTACCCTTTGAGGGTATTTCG
* *
20979840 GTCGTTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTTGAGGGTATTTCG
* *
20979867 GTCATTCTACCCTTTAAGGGTATTTC
1 GTCATTTTACCCTTTGAGGGTATTTC
20979893 AGTTATTTGC
Statistics
Matches: 112, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 5 0.04
27 103 0.92
28 4 0.04
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTTTGAGGGTATTTCG
Found at i:20979807 original size:54 final size:54
Alignment explanation
Indices: 20979721--20979900 Score: 209
Period size: 54 Copynumber: 3.3 Consensus size: 54
20979711 TCAATTTCAA
** ** *
20979721 AGGGTATAACAGTCATTTTACCCTTTAAGGGTATTTCGATCATTTTA-CCTTTCG
1 AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTT-G
* * * *
20979775 GGGGTATTTCAGTCATTTTAGCCTTCGGGGGTATTTCGGTCAGTTTACCCTTTG
1 AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTG
** * * *
20979829 AGGGTATTTTGGTCGTTTTACCCTTCGAGGGTATTTCGGTCATTCTACCCTTTA
1 AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTG
*
20979883 AGGGTATTTCAGTTATTT
1 AGGGTATTTCAGTCATTT
20979901 GCCCATGAAT
Statistics
Matches: 103, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
54 98 0.95
55 5 0.05
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (54 bp):
AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTG
Found at i:20980586 original size:35 final size:37
Alignment explanation
Indices: 20980547--20980633 Score: 99
Period size: 40 Copynumber: 2.4 Consensus size: 37
20980537 TGACAAGGAC
*
20980547 ATTCGACCAAAGA-AAAAGAAGA-GAAGAGAAAAGTG
1 ATTCGACCAAAGAGAAAAGAAGAGGAAGAGAAAAGGG
* *
20980582 ATTCGACTCAGCAGAGAAGAGAAGAGGGAAGAGAAAAGGG
1 ATTCGAC-CA-AAGAGAAAAGAAGA-GGAAGAGAAAAGGG
20980622 ATTCGA-CAAAGA
1 ATTCGACCAAAGA
20980634 TAGAATTCGG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
35 7 0.16
36 2 0.05
37 6 0.14
38 10 0.23
40 18 0.42
ACGTcount: A:0.51, C:0.10, G:0.30, T:0.09
Consensus pattern (37 bp):
ATTCGACCAAAGAGAAAAGAAGAGGAAGAGAAAAGGG
Found at i:20982696 original size:18 final size:19
Alignment explanation
Indices: 20982661--20982699 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
20982651 TAAAATATAT
*
20982661 AAAAATAAAACATTAAACA
1 AAAAATAAAACATCAAACA
*
20982680 AAAAATAATA-ATCAAACA
1 AAAAATAAAACATCAAACA
20982698 AA
1 AA
20982700 CAACATAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.15
Consensus pattern (19 bp):
AAAAATAAAACATCAAACA
Found at i:20990910 original size:21 final size:21
Alignment explanation
Indices: 20990864--20990910 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
20990854 TACAAAAATG
* *
20990864 ATTTTCTTTTCTCTTTTCTCT
1 ATTTTCTTTTCTCTTTTATAT
*
20990885 TTTTTCTTTTGCT-TTTTATAT
1 ATTTTCTTTT-CTCTTTTATAT
20990906 ATTTT
1 ATTTT
20990911 TACATAAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.09, C:0.15, G:0.02, T:0.74
Consensus pattern (21 bp):
ATTTTCTTTTCTCTTTTATAT
Found at i:20991282 original size:10 final size:11
Alignment explanation
Indices: 20991256--20991281 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
20991246 AAATAATTTT
20991256 AAAAATTTAAA
1 AAAAATTTAAA
20991267 AAAAATTTAAA
1 AAAAATTTAAA
20991278 AAAA
1 AAAA
20991282 TCAATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAATTTAAA
Found at i:20991446 original size:24 final size:25
Alignment explanation
Indices: 20991405--20991461 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
20991395 ATAACTTTTT
* *
20991405 TTATTTTTTAAAATATTATAATTTC
1 TTATTTTTGAAAATATTACAATTTC
20991430 TTATTTTTGAAAA-ATTACAATTTC
1 TTATTTTTGAAAATATTACAATTTC
*
20991454 TAATTTTT
1 TTATTTTT
20991462 ATTTAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 17 0.59
25 12 0.41
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (25 bp):
TTATTTTTGAAAATATTACAATTTC
Found at i:20992299 original size:40 final size:40
Alignment explanation
Indices: 20992255--20992335 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
20992245 TGTATAAAAC
20992255 TATGATTATTTTCAAGTACACTACTACTGAGCAATAAGGT
1 TATGATTATTTTCAAGTACACTACTACTGAGCAATAAGGT
20992295 TATGATTATTTTCAAGTACACTACTACTGAGCAATAAGGT
1 TATGATTATTTTCAAGTACACTACTACTGAGCAATAAGGT
20992335 T
1 T
20992336 TTTTTTCCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (40 bp):
TATGATTATTTTCAAGTACACTACTACTGAGCAATAAGGT
Found at i:20994578 original size:24 final size:24
Alignment explanation
Indices: 20994545--20994601 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
20994535 AAACCTAATT
* *
20994545 CTAATTAATGTCAAATATATTATG
1 CTAATAAATGTCAAATATATTATA
*
20994569 CTAATAAATGTTAAATATATTATA
1 CTAATAAATGTCAAATATATTATA
20994593 CTAATAAAT
1 CTAATAAAT
20994602 ATTAAATCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.40
Consensus pattern (24 bp):
CTAATAAATGTCAAATATATTATA
Found at i:20994606 original size:24 final size:24
Alignment explanation
Indices: 20994557--20994608 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
20994547 AATTAATGTC
* *
20994557 AAATATATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATATT
20994581 AAATATATTATACTAATAAATATT
1 AAATATATTATACTAATAAATATT
20994605 AAAT
1 AAAT
20994609 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (24 bp):
AAATATATTATACTAATAAATATT
Found at i:21021377 original size:25 final size:25
Alignment explanation
Indices: 21021349--21021397 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
21021339 TACAGTCCAT
*
21021349 CTATAGTAGTCTCAGTATATACTAC
1 CTATAGTAGTCTCAGGATATACTAC
*
21021374 CTATAGTAGTTTCAGGATATACTA
1 CTATAGTAGTCTCAGGATATACTA
21021398 TCAAAAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (25 bp):
CTATAGTAGTCTCAGGATATACTAC
Found at i:21032267 original size:64 final size:64
Alignment explanation
Indices: 21032194--21032545 Score: 193
Period size: 67 Copynumber: 5.4 Consensus size: 64
21032184 GTTGATACTA
* * *
21032194 TTAATGTTAGCTTATTTAAGATCGCAACCTAAGTTCATTTGATTTAATATCATCAACAATTTTAT
1 TTAA-GTTAGCTTATTTAAGATCACAACCTAAATTCATTTGATTTAAGATCATCAACAATTTTAT
* * * ** * * * * ** *
21032259 TTGAGTTAGCTGATTTAATATCGTAACTTCGAACAACTCA-CTGATTTAAGATC-GCATATGATG
1 TTAAGTTAGCTTATTTAAGATCACAAC--C-TA-AATTCATTTGATTTAAGATCATCA-ACAATT
21032322 TTA-
61 TTAT
* * * ** *
21032325 TTAACATTAGCTAATTTAATATCACAACCTAAATTCATTTGATTTAAGATCATGGAGAATTTTAT
1 TTAA-GTTAGCTTATTTAAGATCACAACCTAAATTCATTTGATTTAAGATCATCAACAATTTTAT
* * * * * *
21032390 TTAAGTTAG-TTGATTTAAGATTACAACTCCGAACAACTCA-TTGATTTAATAT--TGCAGCTGA
1 TTAAGTTAGCTT-ATTTAAGATCACAA--CC-TA-AATTCATTTGATTTAAGATCAT-CAAC-AA
*
21032451 TATTA-
59 TTTTAT
* * *
21032456 TTAACATTAGCTTA-TTAAGATCACAACCTAAGTTCATTTGATTT-AGATCATGAACAATTTTAT
1 TTAA-GTTAGCTTATTTAAGATCACAACCTAAATTCATTTGATTTAAGATCATCAACAATTTTAT
* * *
21032519 TTGAGTTAGCTGATTTAAGATCGCAAC
1 TTAAGTTAGCTTATTTAAGATCACAAC
21032546 TCTGAACAGC
Statistics
Matches: 210, Mismatches: 54, Indels: 48
0.67 0.17 0.15
Matches are distributed among these distances:
62 19 0.09
63 31 0.15
64 58 0.28
65 9 0.04
66 23 0.11
67 59 0.28
68 11 0.05
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (64 bp):
TTAAGTTAGCTTATTTAAGATCACAACCTAAATTCATTTGATTTAAGATCATCAACAATTTTAT
Found at i:21032353 original size:131 final size:131
Alignment explanation
Indices: 21032110--21032777 Score: 644
Period size: 131 Copynumber: 5.1 Consensus size: 131
21032100 CTATTTTATC
* * * * * * *
21032110 TATCATGAACAATTTTATTTAAGATAACTGATTTAAGATCACAACTCCGAATAGCTCGCTGATTT
1 TATCATGAACAATTTTATTTAAGTTAGCTGATTTAAGATCGCAACTTCGAACAACTCACTGATTT
* * * * ** *
21032175 AATATCGTAGTTGATACTATTAATGTTAGCTTATTTAAGATCGCAACCTAAGTTCATTTGATTTA
66 AAGATCGCAGCTGATATTATTAACATTAGCTTATTTAAGATCACAACCTAAGTTCATTTGATTTA
21032240 A
131 A
* * * *
21032241 TATCATCAACAATTTTATTTGAGTTAGCTGATTTAATATCGTAACTTCGAACAACTCACTGATTT
1 TATCATGAACAATTTTATTTAAGTTAGCTGATTTAAGATCGCAACTTCGAACAACTCACTGATTT
** * * * *
21032306 AAGATCGCATATGATGTTATTAACATTAGCTAATTTAATATCACAACCTAAATTCATTTGATTTA
66 AAGATCGCAGCTGATATTATTAACATTAGCTTATTTAAGATCACAACCTAAGTTCATTTGATTTA
21032371 A
131 A
* * * * ** * *
21032372 GATCATGGAGAATTTTATTTAAGTTAGTTGATTTAAGATTACAACTCCGAACAACTCATTGATTT
1 TATCATGAACAATTTTATTTAAGTTAGCTGATTTAAGATCGCAACTTCGAACAACTCACTGATTT
* *
21032437 AATATTGCAGCTGATATTATTAACATTAGCTTA-TTAAGATCACAACCTAAGTTCATTTGATTT-
66 AAGATCGCAGCTGATATTATTAACATTAGCTTATTTAAGATCACAACCTAAGTTCATTTGATTTA
21032500 A
131 A
* * * *
21032501 GATCATGAACAATTTTATTTGAGTTAGCTGATTTAAGATCGCAAC-TCTGAACAGCTCGCTGATT
1 TATCATGAACAATTTTATTTAAGTTAGCTGATTTAAGATCGCAACTTC-GAACAACTCACTGATT
* * ** * * *** *
21032565 TAAGATCGTAGCTGGTATTATTAAGGTTAGCTGATTTAATATTGTAACCTATGTTCATTTGATTT
65 TAAGATCGCAGCTGATATTATTAACATTAGCTTATTTAAGATCACAACCTAAGTTCATTTGATTT
21032630 AA
130 AA
** * * * * * * * * ***
21032632 TATCATGATTAATTTTATTTTAGCTAGTTGATTTAAGATTGTAACTTCTAATAGCTTGTTGATTT
1 TATCATGAACAATTTTATTTAAGTTAGCTGATTTAAGATCGCAACTTCGAACAACTCACTGATTT
* ** ** * * *
21032697 AATATCATAGCTGATATTATTAAGGTT--CATTGGTTTAAGATCGCAACCTATGTTCATTTGATT
66 AAGATCGCAGCTGATATTATTAACATTAGC-TT-ATTTAAGATCACAACCTAAGTTCATTTGATT
21032760 TAA
129 TAA
*
21032763 GATCATGAACAATTT
1 TATCATGAACAATTT
21032778 CTCTCGTGTT
Statistics
Matches: 443, Mismatches: 88, Indels: 12
0.82 0.16 0.02
Matches are distributed among these distances:
128 1 0.00
129 81 0.18
130 54 0.12
131 305 0.69
132 2 0.00
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (131 bp):
TATCATGAACAATTTTATTTAAGTTAGCTGATTTAAGATCGCAACTTCGAACAACTCACTGATTT
AAGATCGCAGCTGATATTATTAACATTAGCTTATTTAAGATCACAACCTAAGTTCATTTGATTTA
A
Found at i:21032604 original size:260 final size:261
Alignment explanation
Indices: 21032111--21032777 Score: 797
Period size: 260 Copynumber: 2.6 Consensus size: 261
21032101 TATTTTATCT
* ** * *
21032111 ATCATGAACAATTTTATTTAAGATAACTGATTTAAGATCACAACTCCGAATAGCTCGCTGATTTA
1 ATCATGGACAATTTTATTTAAGATAGTTGATTTAAGATTACAACTCCGAATAGCTCGTTGATTTA
* * **
21032176 ATATCGTAGTTGATACTATTAATGTTAGCTTATTTAAGATCGCAACCTAAGTTCATTTGATTTAA
66 ATATCGTAGCTGATATTATTAACATTAGCTTA-TTAAGATCGCAACCTAAGTTCATTTGATTTAA
* * * *
21032241 TATCATCAACAATTTTATTTGAGTTAGCTGATTTAATATCGTAACTTCGAACAACTCACTGATTT
130 GATCATGAACAATTTTATTTGAGTTAGCTGATTTAAGATCGCAACTTCGAACAACTCACTGATTT
* *
21032306 AAGATCGCATATGATGTTATTAACATTAGCTAATTTAATATCACAACCTAAATTCATTTGATTTA
195 AAGATCGCAGATGATATTATTAACATTAGCTAATTTAATATCACAACCTAAATTCATTTGATTTA
21032371 AG
260 AG
* * * * *
21032373 ATCATGGAGAATTTTATTTAAGTTAGTTGATTTAAGATTACAACTCCGAACAACTCATTGATTTA
1 ATCATGGACAATTTTATTTAAGATAGTTGATTTAAGATTACAACTCCGAATAGCTCGTTGATTTA
* * *
21032438 ATATTGCAGCTGATATTATTAACATTAGCTTATTAAGATCACAACCTAAGTTCATTTGATTT-AG
66 ATATCGTAGCTGATATTATTAACATTAGCTTATTAAGATCGCAACCTAAGTTCATTTGATTTAAG
* *
21032502 ATCATGAACAATTTTATTTGAGTTAGCTGATTTAAGATCGCAAC-TCTGAACAGCTCGCTGATTT
131 ATCATGAACAATTTTATTTGAGTTAGCTGATTTAAGATCGCAACTTC-GAACAACTCACTGATTT
* * * ** * *** **
21032566 AAGATCGTAGCTGGTATTATTAAGGTTAGCTGATTTAATATTGTAACCTATGTTCATTTGATTTA
195 AAGATCGCAGATGATATTATTAACATTAGCTAATTTAATATCACAACCTAAATTCATTTGATTTA
*
21032631 AT
260 AG
* * * ** * * *
21032633 ATCAT-GATTAATTTTATTTTAGCTAGTTGATTTAAGATTGTAACTTCTAATAGCTTGTTGATTT
1 ATCATGGA-CAATTTTATTTAAGATAGTTGATTTAAGATTACAACTCCGAATAGCTCGTTGATTT
* * *
21032697 AATATCATAGCTGATATTATTAAGGTTCATT-G-GT-TTAAGATCGCAACCTATGTTCATTTGAT
65 AATATCGTAGCTGATATTATTAA----CATTAGCTTATTAAGATCGCAACCTAAGTTCATTTGAT
21032759 TTAAGATCATGAACAATTT
126 TTAAGATCATGAACAATTT
21032778 CTCTCGTGTT
Statistics
Matches: 344, Mismatches: 54, Indels: 14
0.83 0.13 0.03
Matches are distributed among these distances:
259 4 0.01
260 180 0.52
261 57 0.17
262 98 0.28
263 1 0.00
264 4 0.01
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (261 bp):
ATCATGGACAATTTTATTTAAGATAGTTGATTTAAGATTACAACTCCGAATAGCTCGTTGATTTA
ATATCGTAGCTGATATTATTAACATTAGCTTATTAAGATCGCAACCTAAGTTCATTTGATTTAAG
ATCATGAACAATTTTATTTGAGTTAGCTGATTTAAGATCGCAACTTCGAACAACTCACTGATTTA
AGATCGCAGATGATATTATTAACATTAGCTAATTTAATATCACAACCTAAATTCATTTGATTTAA
G
Found at i:21034417 original size:27 final size:28
Alignment explanation
Indices: 21034331--21034406 Score: 118
Period size: 28 Copynumber: 2.8 Consensus size: 28
21034321 ATGACATAAA
21034331 TGAAAAGAATAGCCTTTATGGCGAACTC
1 TGAAAAGAATAGCCTTTATGGCGAACTC
*
21034359 TGAAAAGAATAGCCTTTATGGCGAACTT
1 TGAAAAGAATAGCCTTTATGGCGAACTC
* *
21034387 TGAAAGGGAT-GCCTTTATGG
1 TGAAAAGAATAGCCTTTATGG
21034407 AAAAATCTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
27 10 0.22
28 35 0.78
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (28 bp):
TGAAAAGAATAGCCTTTATGGCGAACTC
Found at i:21039217 original size:10 final size:10
Alignment explanation
Indices: 21039202--21039226 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
21039192 TTTATATATA
21039202 TTTTAGATTT
1 TTTTAGATTT
21039212 TTTTAGATTT
1 TTTTAGATTT
21039222 TTTTA
1 TTTTA
21039227 AGAATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (10 bp):
TTTTAGATTT
Found at i:21039271 original size:19 final size:19
Alignment explanation
Indices: 21039245--21039330 Score: 63
Period size: 20 Copynumber: 4.5 Consensus size: 19
21039235 TTTTAAAATT
21039245 TAAA-ATTTGAAATTTTTA
1 TAAATATTTGAAATTTTTA
*
21039263 TAAATATTTTAAA-TTTTA
1 TAAATATTTGAAATTTTTA
* * *
21039281 AAAATTATTTTAAAAATTTTA
1 TAAA-TA-TTTGAAATTTTTA
*
21039302 -AAATTATTGTGAAATTTTTG
1 TAAA-TATT-TGAAATTTTTA
21039322 T-AATATTTG
1 TAAATATTTG
21039331 TTAAGAGAGA
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
18 14 0.25
19 15 0.27
20 22 0.39
21 5 0.09
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (19 bp):
TAAATATTTGAAATTTTTA
Found at i:21039320 original size:20 final size:19
Alignment explanation
Indices: 21039249--21039320 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
21039239 AAAATTTAAA
21039249 ATTTGAAATTTTTATAAA-T
1 ATTTGAAATTTTTA-AAATT
* *
21039268 ATTTTAAATTTTAAAAATT
1 ATTTGAAATTTTTAAAATT
* *
21039287 ATTTTAAAAATTTTAAAATT
1 A-TTTGAAATTTTTAAAATT
21039307 ATTGTGAAATTTTT
1 ATT-TGAAATTTTT
21039321 GTAATATTTG
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
18 3 0.07
19 16 0.37
20 24 0.56
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (19 bp):
ATTTGAAATTTTTAAAATT
Found at i:21048136 original size:133 final size:133
Alignment explanation
Indices: 21047898--21048164 Score: 489
Period size: 133 Copynumber: 2.0 Consensus size: 133
21047888 ATATTCTACT
* * **
21047898 AGAGGTGTCAATTATAGTATTCTAGCAATTTAACAAAAACACATAAAAACTCAATCAAATTGGAA
1 AGAGGTGCCAATTATAGTATTCTAGAAATTTAACAAAAACACATAAAAACTCAATCAAATCAGAA
*
21047963 ATAATACTCAACTAATAATCAATTAAATAATTAATTTATACACAAATATTCATGAAAGCCCAAAT
66 ATAATACTCAACTAATAATCAATTAAATAATAAATTTATACACAAATATTCATGAAAGCCCAAAT
21048028 ATC
131 ATC
21048031 AGAGGTGCCAATTATAGTATTCTAGAAATTTAACAAAAACACATAAAAACTCAATCAAATCAGAA
1 AGAGGTGCCAATTATAGTATTCTAGAAATTTAACAAAAACACATAAAAACTCAATCAAATCAGAA
21048096 ATAATACTCAACTAATAATCAATTAAATAATAAATTTATACACAAATATTCATGAAAGCCCAAAT
66 ATAATACTCAACTAATAATCAATTAAATAATAAATTTATACACAAATATTCATGAAAGCCCAAAT
21048161 ATC
131 ATC
21048164 A
1 A
21048165 ATCTCATTAG
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
133 129 1.00
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.27
Consensus pattern (133 bp):
AGAGGTGCCAATTATAGTATTCTAGAAATTTAACAAAAACACATAAAAACTCAATCAAATCAGAA
ATAATACTCAACTAATAATCAATTAAATAATAAATTTATACACAAATATTCATGAAAGCCCAAAT
ATC
Found at i:21048961 original size:22 final size:21
Alignment explanation
Indices: 21048927--21048989 Score: 54
Period size: 23 Copynumber: 2.9 Consensus size: 21
21048917 TTAACATTTT
* *
21048927 AAAATATATAAAATTAAACGA
1 AAAATAAAAAAAATTAAACGA
* *
21048948 AGAAATAAGAAAAATTGAAAACGC
1 A-AAATAAAAAAAATT--AAACGA
*
21048972 AAATTAAAAAAAATTAAA
1 AAAATAAAAAAAATTAAA
21048990 AAAAATCATA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
21 4 0.12
22 11 0.33
23 12 0.36
24 6 0.18
ACGTcount: A:0.68, C:0.05, G:0.08, T:0.19
Consensus pattern (21 bp):
AAAATAAAAAAAATTAAACGA
Found at i:21057481 original size:17 final size:17
Alignment explanation
Indices: 21057456--21057489 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21057446 AACTGTTTGG
21057456 GGGGATTTTTTACTCGT
1 GGGGATTTTTTACTCGT
* *
21057473 GGGGTTTTTTTCCTCGT
1 GGGGATTTTTTACTCGT
21057490 ATTTTTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.15, G:0.29, T:0.50
Consensus pattern (17 bp):
GGGGATTTTTTACTCGT
Found at i:21057619 original size:31 final size:32
Alignment explanation
Indices: 21057577--21057646 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
21057567 TTATAAAAGC
*
21057577 GTCACTGAATTA-TTCGAAA-ATTTTCATTTAA
1 GTCACTAAATTACTT-GAAACATTTTCATTTAA
* *
21057608 GTCACTAAATTACTTGAAACTTTTTTATTTAA
1 GTCACTAAATTACTTGAAACATTTTCATTTAA
*
21057640 GTAACTA
1 GTCACTA
21057647 GAATGTTAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 15 0.45
32 18 0.55
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.43
Consensus pattern (32 bp):
GTCACTAAATTACTTGAAACATTTTCATTTAA
Found at i:21060362 original size:13 final size:13
Alignment explanation
Indices: 21060344--21060369 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21060334 ATTTTTTAGG
21060344 TCATTTTCATTTT
1 TCATTTTCATTTT
21060357 TCATTTTCATTTT
1 TCATTTTCATTTT
21060370 GGAAAAAACC
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:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
TCATTTTCATTTT
Found at i:21061712 original size:12 final size:12
Alignment explanation
Indices: 21061697--21061723 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
21061687 TTTAAACTAT
21061697 TTTTTATTTTAG
1 TTTTTATTTTAG
21061709 TTTTTATTTTAG
1 TTTTTATTTTAG
21061721 TTT
1 TTT
21061724 CGTAAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (12 bp):
TTTTTATTTTAG
Found at i:21062201 original size:240 final size:241
Alignment explanation
Indices: 21061737--21062316 Score: 740
Period size: 240 Copynumber: 2.4 Consensus size: 241
21061727 AAATATTATA
* * *
21061737 CATGTGTTATTA-TTATTAGTTTCAAA-TATTACATTTCATTATTTATGTTATGTTATTTATAAA
1 CATGTGTTATTATTTATTAGTTTCAAACCA-TA-ATTTCATTATTTATTTTATGTTATTTTTAAA
* * ** * *
21061800 TACA-ACTATGCAATCTAAATATGTGGTTTTCACATGCATACGCATGTGATAGAATTTCTAGTAT
64 CACACA-TTTGCGTTCTAAATTTGTGG-TTTC-CAT-CATA-GCATGTGATAGAATTTCTAGAAT
* * *
21061864 TAATAATGTATTTGATTGAGTTGGTGCCACAAGTTAACTCGGCACCAGCTCAAGATTGACGACAG
124 TAACAATGTATTTGATTGAGTTGGTGCCACAAGTTAACTCAGCACCAGCTCAAGATTGACGACAA
* * * * * **
21061929 TACTATGATTAACAGTTTAATCAAAATTTTTCATTTTAATATTTTACATATTT
189 CACCATGATAAACAATTAAATCAAAATTTTTCATTTTAATATCATACATATTT
*
21061982 CATGTGTTATTATTTATTAGTTTCAAACCATATATTTCATTAGTTATTTTATGTTATTTTTAAAC
1 CATGTGTTATTATTTATTAGTTTCAAACCATA-ATTTCATTATTTATTTTATGTTATTTTTAAAC
*
21062047 ACACATTTGCGTTCCAAATTTGTGGTTTCCAT-AT-GCATGTGATAGAATTTCTAGAATTAACAA
65 ACACATTTGCGTTCTAAATTTGTGGTTTCCATCATAGCATGTGATAGAATTTCTAGAATTAACAA
* *
21062110 TGTATTTGATTGAGTTGGTGTCACAAGTTAACTCAGCACC-GACTCAAGATTGATGACAACACCA
130 TGTATTTGATTGAGTTGGTGCCACAAGTTAACTCAGCACCAG-CTCAAGATTGACGACAACACCA
* **
21062174 TGATAAACAATTAAATTAATTTTTTTCATTTTAATATCATACATATTT
194 TGATAAACAATTAAATCAAAATTTTTCATTTTAATATCATACATATTT
* * * *
21062222 CGTGTGTTATTATTAATTAGTTTCAAACCATAGTTTCATTATTTATTTGATGTTATTTTTAAACA
1 CATGTGTTATTATTTATTAGTTTCAAACCATAATTTCATTATTTATTTTATGTTATTTTTAAACA
* * *
21062287 TACATTTGTGTTCTAAATTTGTGTTTTCCA
66 CACATTTGCGTTCTAAATTTGTGGTTTCCA
21062317 CGTGTGTAAT
Statistics
Matches: 295, Mismatches: 36, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
239 57 0.19
240 153 0.52
242 2 0.01
244 3 0.01
245 16 0.05
246 62 0.21
247 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (241 bp):
CATGTGTTATTATTTATTAGTTTCAAACCATAATTTCATTATTTATTTTATGTTATTTTTAAACA
CACATTTGCGTTCTAAATTTGTGGTTTCCATCATAGCATGTGATAGAATTTCTAGAATTAACAAT
GTATTTGATTGAGTTGGTGCCACAAGTTAACTCAGCACCAGCTCAAGATTGACGACAACACCATG
ATAAACAATTAAATCAAAATTTTTCATTTTAATATCATACATATTT
Found at i:21063971 original size:42 final size:42
Alignment explanation
Indices: 21063924--21064129 Score: 171
Period size: 42 Copynumber: 4.9 Consensus size: 42
21063914 AGCATCATCC
* * *
21063924 CTTAAGCTCGCATGGGGAGCTTCGCTGATACATAGCTTGTCA
1 CTTAAGCTCACATGGGGAGCTTCGCTGATACATAACTTATCA
* * * *
21063966 CTTAAGCTCACGTGGGGAGCTTCGTTGACACATAAGTTATCA
1 CTTAAGCTCACATGGGGAGCTTCGCTGATACATAACTTATCA
* * * * * *
21064008 ATTAAACTCACATAGGGAG-TGTCGTTGATACACAACCTATCA
1 CTTAAGCTCACATGGGGAGCT-TCGCTGATACATAACTTATCA
** * * * * * *
21064050 CTTAAGCTCATGTAGAGAGCTTCCCTGATACACAACTTCTCC
1 CTTAAGCTCACATGGGGAGCTTCGCTGATACATAACTTATCA
* ** *
21064092 CTTAAGCTCACGTTAGGAGCTTCACTGATACATAACTT
1 CTTAAGCTCACATGGGGAGCTTCGCTGATACATAACTT
21064130 GTAAAACCAT
Statistics
Matches: 131, Mismatches: 31, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
41 1 0.01
42 129 0.98
43 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (42 bp):
CTTAAGCTCACATGGGGAGCTTCGCTGATACATAACTTATCA
Found at i:21077375 original size:26 final size:26
Alignment explanation
Indices: 21077339--21077414 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 26
21077329 TCTTATCCCT
*
21077339 ATTTTACCCTTAGCAAAATTTTGACA
1 ATTTTACCCTTAGTAAAATTTTGACA
* * *
21077365 ATTTTACCCTTAATAAAATTTTAACG
1 ATTTTACCCTTAGTAAAATTTTGACA
*
21077391 ATTTTAACCC-TGGTAAAATTTTGA
1 ATTTT-ACCCTTAGTAAAATTTTGA
21077415 GAAAATATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 38 0.90
27 4 0.10
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.41
Consensus pattern (26 bp):
ATTTTACCCTTAGTAAAATTTTGACA
Found at i:21079126 original size:10 final size:10
Alignment explanation
Indices: 21079111--21079142 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
21079101 TCTTTATTCA
21079111 ACACACATAC
1 ACACACATAC
21079121 ACACACATAC
1 ACACACATAC
*
21079131 ACACACACAC
1 ACACACATAC
21079141 AC
1 AC
21079143 TTATATACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.50, C:0.44, G:0.00, T:0.06
Consensus pattern (10 bp):
ACACACATAC
Found at i:21081955 original size:23 final size:23
Alignment explanation
Indices: 21081928--21081975 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
21081918 GGGACCTAAA
21081928 TAAGTTAATTAATGATTCAAGTT
1 TAAGTTAATTAATGATTCAAGTT
21081951 TAAGTTAATTAATGATTCAAGTT
1 TAAGTTAATTAATGATTCAAGTT
21081974 TA
1 TA
21081976 TCATATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (23 bp):
TAAGTTAATTAATGATTCAAGTT
Found at i:21082792 original size:39 final size:39
Alignment explanation
Indices: 21082738--21082816 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
21082728 TTGCATAGGT
*
21082738 GATTTGTATTGAGAATTTTAGCATTTAAACTATTCATTA
1 GATTTGTATTGAGAATTTGAGCATTTAAACTATTCATTA
*
21082777 GATTTGTATTGAGAATTTGAGCATTTAATCTATTCATTA
1 GATTTGTATTGAGAATTTGAGCATTTAAACTATTCATTA
21082816 G
1 G
21082817 GAATCTGTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.46
Consensus pattern (39 bp):
GATTTGTATTGAGAATTTGAGCATTTAAACTATTCATTA
Found at i:21085387 original size:38 final size:41
Alignment explanation
Indices: 21085322--21085410 Score: 121
Period size: 38 Copynumber: 2.2 Consensus size: 41
21085312 TAAATAATAT
* * *
21085322 TTATATTAAAAAACACTACTATAAATATCATAAATATTTTA
1 TTATATTAAAAAACACTACAATAAATATAATAAATATTTAA
21085363 TTATATTAAAAAACA-TA-AAT-AATATAATAAATATTTAA
1 TTATATTAAAAAACACTACAATAAATATAATAAATATTTAA
*
21085401 TTGTATTAAA
1 TTATATTAAA
21085411 TATAATTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 25 0.57
39 2 0.05
40 2 0.05
41 15 0.34
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (41 bp):
TTATATTAAAAAACACTACAATAAATATAATAAATATTTAA
Found at i:21085849 original size:9 final size:9
Alignment explanation
Indices: 21085835--21085865 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
21085825 GTTAAACGAA
21085835 TCGAGTTAT
1 TCGAGTTAT
*
21085844 TCGAGTTAA
1 TCGAGTTAT
21085853 TCGAGTTAT
1 TCGAGTTAT
21085862 TCGA
1 TCGA
21085866 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:21085948 original size:9 final size:9
Alignment explanation
Indices: 21085919--21085964 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
21085909 TGAGTTTTCG
21085919 AATTCGAAT
1 AATTCGAAT
*
21085928 AACTCGAAT
1 AATTCGAAT
21085937 AATTCGAAT
1 AATTCGAAT
*
21085946 AATTCAAAT
1 AATTCGAAT
*
21085955 AATTCAAAT
1 AATTCGAAT
21085964 A
1 A
21085965 TCAAACTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:21086226 original size:30 final size:31
Alignment explanation
Indices: 21086178--21086237 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
21086168 AAACCTTTTA
*
21086178 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* * *
21086208 TTTTCTCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
21086238 TCCCACCTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:21096965 original size:18 final size:18
Alignment explanation
Indices: 21096926--21096959 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21096916 AGAAGTTGTG
21096926 ATAATTACATATTTAAAA
1 ATAATTACATATTTAAAA
*
21096944 ATAATTAGA-ATTTAAA
1 ATAATTACATATTTAAA
21096960 TTATAAGTAT
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:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
ATAATTACATATTTAAAA
Found at i:21097185 original size:9 final size:9
Alignment explanation
Indices: 21097173--21097229 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
21097163 AATTTTTAAA
21097173 AATAATTTT
1 AATAATTTT
21097182 AATAATTTT
1 AATAATTTT
* *
21097191 TATACTTTT
1 AATAATTTT
21097200 CAAATAATTTT
1 --AATAATTTT
*
21097211 AATGATTTT
1 AATAATTTT
*
21097220 TA-AATTTT
1 AATAATTTT
21097228 AA
1 AA
21097230 AAAATTAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
8 6 0.16
9 25 0.66
11 7 0.18
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (9 bp):
AATAATTTT
Found at i:21097224 original size:20 final size:20
Alignment explanation
Indices: 21097178--21097224 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
21097168 TTAAAAATAA
*
21097178 TTTT-AATAATTTTTATACT
1 TTTTAAATAATTTTAATACT
*
21097197 TTTCAAATAATTTTAATGA-T
1 TTTTAAATAATTTTAAT-ACT
21097217 TTTTAAAT
1 TTTTAAAT
21097225 TTTAAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 3 0.13
20 19 0.83
21 1 0.04
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTAAATAATTTTAATACT
Found at i:21098698 original size:20 final size:20
Alignment explanation
Indices: 21098675--21098718 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
21098665 ATATAAATTC
* * *
21098675 AAAAAATTATAAATTATTTA
1 AAAAAATTAAAAAATATATA
*
21098695 AAAATATTAAAAAATATATA
1 AAAAAATTAAAAAATATATA
21098715 AAAA
1 AAAA
21098719 GCTAAATAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAAAATTAAAAAATATATA
Found at i:21102998 original size:17 final size:17
Alignment explanation
Indices: 21102978--21103138 Score: 74
Period size: 17 Copynumber: 9.4 Consensus size: 17
21102968 TTTAGAGACT
21102978 TCGCAGTTTTGATGAGC
1 TCGCAGTTTTGATGAGC
* *
21102995 TCGCACTATTGGA-GAGC
1 TCGCAGT-TTTGATGAGC
* * * *
21103012 TTGCAGTATTGGTGAGT
1 TCGCAGTTTTGATGAGC
** *
21103029 TCGCACATTTGATAAGC
1 TCGCAGTTTTGATGAGC
* * *
21103046 TCGCAATTTTGGTGAGT
1 TCGCAGTTTTGATGAGC
* * **
21103063 TCACAGATTTGGGGAGC
1 TCGCAGTTTTGATGAGC
* *
21103080 TCGCAGTCTTGAGTGATC
1 TCGCAGTTTTGA-TGAGC
*
21103098 TCGTAGTTTTG-TAGAGC
1 TCGCAGTTTTGAT-GAGC
* ** *
21103115 TCACACATTTGGTGAGC
1 TCGCAGTTTTGATGAGC
21103132 TCGCAGT
1 TCGCAGT
21103139 CTTGCGATTA
Statistics
Matches: 98, Mismatches: 41, Indels: 10
0.66 0.28 0.07
Matches are distributed among these distances:
16 3 0.03
17 78 0.80
18 17 0.17
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (17 bp):
TCGCAGTTTTGATGAGC
Found at i:21103001 original size:34 final size:34
Alignment explanation
Indices: 21102958--21103034 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
21102948 CGCCTAATAT
* *
21102958 AGCTCGCACTTTTAGAGA-CTTCGCAGTTTTGATG
1 AGCTCGCACTATTAGAGAGCTT-GCAGTATTGATG
* *
21102992 AGCTCGCACTATTGGAGAGCTTGCAGTATTGGTG
1 AGCTCGCACTATTAGAGAGCTTGCAGTATTGATG
*
21103026 AGTTCGCAC
1 AGCTCGCAC
21103035 ATTTGATAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 34 0.92
35 3 0.08
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (34 bp):
AGCTCGCACTATTAGAGAGCTTGCAGTATTGATG
Found at i:21103081 original size:34 final size:34
Alignment explanation
Indices: 21103020--21103084 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
21103010 GCTTGCAGTA
* *
21103020 TTGGTGAGTTCGCACATTTGATAAGCTCGCAATT
1 TTGGTGAGTTCACACATTTGAGAAGCTCGCAATT
* * *
21103054 TTGGTGAGTTCACAGATTTGGGGAGCTCGCA
1 TTGGTGAGTTCACACATTTGAGAAGCTCGCA
21103085 GTCTTGAGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (34 bp):
TTGGTGAGTTCACACATTTGAGAAGCTCGCAATT
Found at i:21112686 original size:29 final size:29
Alignment explanation
Indices: 21112649--21112724 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
21112639 AAAAATTAAG
21112649 TATTA-AAAAATATTATAAGTACT-AAAAT
1 TATTATAAAAATATTATAAGTA-TAAAAAT
* * *
21112677 TCA-TATAAAATTATTAAAATTATAAAAAT
1 T-ATTATAAAAATATTATAAGTATAAAAAT
*
21112706 TATTATAAAAAAATTATAA
1 TATTATAAAAATATTATAA
21112725 AAACTTATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
28 5 0.13
29 33 0.87
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (29 bp):
TATTATAAAAATATTATAAGTATAAAAAT
Found at i:21112687 original size:11 final size:10
Alignment explanation
Indices: 21112671--21112814 Score: 72
Period size: 9 Copynumber: 14.4 Consensus size: 10
21112661 TTATAAGTAC
21112671 TAAAATTCATA
1 TAAAATT-ATA
21112682 TAAAATTAT-
1 TAAAATTATA
21112691 TAAAATTATA
1 TAAAATTATA
21112701 -AAAATTATTA
1 TAAAATTA-TA
21112711 TAAAAAAATTATA
1 T---AAAATTATA
*
21112724 -AAAACT-TA
1 TAAAATTATA
21112732 TAAAATTA-A
1 TAAAATTATA
*
21112741 TAAAACTTATT
1 TAAAA-TTATA
* *
21112752 TCAAATTTTA
1 TAAAATTATA
*
21112762 AAAAATGTAT-
1 TAAAAT-TATA
* *
21112772 TGAAATTCT-
1 TAAAATTATA
21112781 TAAAAATTATA
1 T-AAAATTATA
*
21112792 -AAAAATAT-
1 TAAAATTATA
21112800 TAAAATTGATA
1 TAAAATT-ATA
21112811 TAAA
1 TAAA
21112815 CCTAAAGAAA
Statistics
Matches: 101, Mismatches: 16, Indels: 32
0.68 0.11 0.21
Matches are distributed among these distances:
8 2 0.02
9 47 0.47
10 26 0.26
11 17 0.17
13 2 0.02
14 7 0.07
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (10 bp):
TAAAATTATA
Found at i:21112712 original size:12 final size:12
Alignment explanation
Indices: 21112695--21112732 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
21112685 AATTATTAAA
21112695 ATTATAAAAATT
1 ATTATAAAAATT
*
21112707 ATTATAAAAA-A
1 ATTATAAAAATT
21112718 ATTATAAAAACTT
1 ATTATAAAAA-TT
21112731 AT
1 AT
21112733 AAAATTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 10 0.45
12 10 0.45
13 2 0.09
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (12 bp):
ATTATAAAAATT
Found at i:21112732 original size:10 final size:10
Alignment explanation
Indices: 21112672--21112736 Score: 60
Period size: 10 Copynumber: 6.2 Consensus size: 10
21112662 TATAAGTACT
*
21112672 AAAATTCATAT
1 AAAATT-ATAA
*
21112683 AAAATTAT-T
1 AAAATTATAA
21112692 AAAATTATAA
1 AAAATTATAA
21112702 AAATTATTATAAA
1 AAA--ATTAT-AA
21112715 AAAATTATAA
1 AAAATTATAA
*
21112725 AAACTTATAA
1 AAAATTATAA
21112735 AA
1 AA
21112737 TTAATAAAAC
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
9 9 0.19
10 18 0.38
11 11 0.23
12 5 0.10
13 5 0.10
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAATTATAA
Found at i:21113308 original size:21 final size:21
Alignment explanation
Indices: 21113284--21113343 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
21113274 TTTTTATGTG
21113284 TTTTTATAAAATTTTAATACA
1 TTTTTATAAAATTTTAATACA
* *
21113305 TTTTAATAAAATTTTAA-ATA
1 TTTTTATAAAATTTTAATACA
* *
21113325 TGTTTATTAAATTTATAAT
1 TTTTTATAAAATTT-TAAT
21113344 TTTTTATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 13 0.41
21 19 0.59
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
TTTTTATAAAATTTTAATACA
Found at i:21113320 original size:11 final size:11
Alignment explanation
Indices: 21113284--21113321 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
21113274 TTTTTATGTG
*
21113284 TTTTTATAAAA
1 TTTTAATAAAA
*
21113295 TTTTAAT-ACA
1 TTTTAATAAAA
21113305 TTTTAATAAAA
1 TTTTAATAAAA
21113316 TTTTAA
1 TTTTAA
21113322 ATATGTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (11 bp):
TTTTAATAAAA
Found at i:21113356 original size:17 final size:17
Alignment explanation
Indices: 21113334--21113367 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21113324 ATGTTTATTA
*
21113334 AATTTATAATTTTTTAT
1 AATTTATAAGTTTTTAT
*
21113351 AATTTATTAGTTTTTAT
1 AATTTATAAGTTTTTAT
21113368 TAGATTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
AATTTATAAGTTTTTAT
Found at i:21113404 original size:10 final size:10
Alignment explanation
Indices: 21113285--21113408 Score: 52
Period size: 10 Copynumber: 12.8 Consensus size: 10
21113275 TTTTATGTGT
*
21113285 TTTTATAAAA
1 TTTTATAATA
21113295 TTTTAATACAT-
1 TTTT-ATA-ATA
* *
21113306 TTTAATAAAA
1 TTTTATAATA
21113316 TTTTA-AATA
1 TTTTATAATA
21113325 TGTTTATTAA-A
1 T-TTTA-TAATA
*
21113336 -TTTATAATT
1 TTTTATAATA
21113345 TTTTATAAT-
1 TTTTATAATA
* *
21113354 TTAT-TAGT-
1 TTTTATAATA
21113362 TTTTATTAGAT-
1 TTTTA-TA-ATA
21113373 TTTTATAATA
1 TTTTATAATA
* *
21113383 -TTTAAAACA
1 TTTTATAATA
21113392 TTTTATAATA
1 TTTTATAATA
21113402 -TTTATAA
1 TTTTATAA
21113409 GTTCATACAA
Statistics
Matches: 87, Mismatches: 14, Indels: 27
0.68 0.11 0.21
Matches are distributed among these distances:
8 9 0.10
9 28 0.32
10 34 0.39
11 13 0.15
12 3 0.03
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (10 bp):
TTTTATAATA
Found at i:21113491 original size:19 final size:19
Alignment explanation
Indices: 21113467--21113504 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
21113457 TTTTTGATTA
21113467 TTTTT-ATAATATTTTATGG
1 TTTTTAATAAT-TTTTATGG
21113486 TTTTTAATAATTTTTATGG
1 TTTTTAATAATTTTTATGG
21113505 ATAAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (19 bp):
TTTTTAATAATTTTTATGG
Found at i:21113636 original size:31 final size:31
Alignment explanation
Indices: 21113598--21113658 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
21113588 GATAAAAACT
*
21113598 GTTAATGAGAGGGGCTTAATTGTTTATTTTA
1 GTTAATGAGAGGGACTTAATTGTTTATTTTA
* * *
21113629 GTTAATGATAGGTACTTAATTGTTTTTTTT
1 GTTAATGAGAGGGACTTAATTGTTTATTTT
21113659 TTTTTTTTGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.03, G:0.21, T:0.51
Consensus pattern (31 bp):
GTTAATGAGAGGGACTTAATTGTTTATTTTA
Done.