Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 237 of 276
Found at i:78395519 original size:30 final size:30
Alignment explanation
Indices: 78395485--78395544 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
78395475 CTTTATGGGC
*
78395485 AATTTTGTAAACACGTCAGAAATGACCAAA
1 AATTTTGTAAAAACGTCAGAAATGACCAAA
*
78395515 AATTTTGTAAAAATGTCAGAAATGACCAAA
1 AATTTTGTAAAAACGTCAGAAATGACCAAA
78395545 TTGCATGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.25
Consensus pattern (30 bp):
AATTTTGTAAAAACGTCAGAAATGACCAAA
Found at i:78396480 original size:46 final size:46
Alignment explanation
Indices: 78396428--78396655 Score: 350
Period size: 46 Copynumber: 5.0 Consensus size: 46
78396418 AGTGTGCTCT
78396428 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
78396474 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
78396520 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
78396566 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
78396612 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
78396656 TCATGTCAAA
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.01
46 169 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:78402721 original size:18 final size:18
Alignment explanation
Indices: 78402698--78402751 Score: 99
Period size: 18 Copynumber: 3.0 Consensus size: 18
78402688 ATTTGGGTAA
*
78402698 AACCGAAATAATTCGGTT
1 AACCGAATTAATTCGGTT
78402716 AACCGAATTAATTCGGTT
1 AACCGAATTAATTCGGTT
78402734 AACCGAATTAATTCGGTT
1 AACCGAATTAATTCGGTT
78402752 GGGGGTCGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (18 bp):
AACCGAATTAATTCGGTT
Found at i:78403059 original size:9 final size:9
Alignment explanation
Indices: 78403045--78403119 Score: 89
Period size: 9 Copynumber: 8.4 Consensus size: 9
78403035 TTTATACAAA
78403045 TAATTCGGT
1 TAATTCGGT
*
78403054 TAATTCAGT
1 TAATTCGGT
*
78403063 TAATTCGAT
1 TAATTCGGT
* *
78403072 TAATTTGGA
1 TAATTCGGT
*
78403081 TAATTAGG-
1 TAATTCGGT
78403089 TAATTCGGT
1 TAATTCGGT
*
78403098 TAATTCGAT
1 TAATTCGGT
78403107 TAATTCGGT
1 TAATTCGGT
78403116 TAAT
1 TAAT
78403120 CTTATACTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
8 7 0.13
9 48 0.87
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:78403094 original size:35 final size:36
Alignment explanation
Indices: 78403044--78403111 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 36
78403034 TTTTATACAA
*
78403044 ATAATTCGGTTAATTCAGTTAATTCGATTAATTTGG
1 ATAATTAGGTTAATTCAGTTAATTCGATTAATTTGG
*
78403080 ATAATTAGG-TAATTCGGTTAATTCGATTAATT
1 ATAATTAGGTTAATTCAGTTAATTCGATTAATT
78403112 CGGTTAATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 22 0.73
36 8 0.27
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.44
Consensus pattern (36 bp):
ATAATTAGGTTAATTCAGTTAATTCGATTAATTTGG
Found at i:78403976 original size:42 final size:43
Alignment explanation
Indices: 78403914--78404013 Score: 132
Period size: 42 Copynumber: 2.3 Consensus size: 43
78403904 GACTTCTATT
** *
78403914 TTACATGTAAGACCATGTCTGGGACATCGGTATCG-TATCTG-A
1 TTACATGTAAGACCATGTCTGGGACAAAGGCATCGATAT-TGAA
* *
78403956 TTTCATGTAAGACCCTGTCTGGGACAAAGGCATCGATATTGAA
1 TTACATGTAAGACCATGTCTGGGACAAAGGCATCGATATTGAA
78403999 TTACATGTAAGACCA
1 TTACATGTAAGACCA
78404014 CGTTAGGAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.65
43 17 0.35
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGGACAAAGGCATCGATATTGAA
Found at i:78405991 original size:43 final size:42
Alignment explanation
Indices: 78405855--78406002 Score: 131
Period size: 43 Copynumber: 3.5 Consensus size: 42
78405845 TGAGATATCG
* * * *
78405855 TGTAAGACCGTGTCTAGGACACAGGCCTCG-ATTGATATTTACG
1 TGTAAGACCATGTCTGGGACACAGGCATCGTATTGA-A-TTACA
* * *
78405898 TATAAGACCATGTCTGGGACATC-GGTATCGTATCTG-ATTTCA
1 TGTAAGACCATGTCTGGGACA-CAGGCATCGTAT-TGAATTACA
* *
78405940 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCG-TATTGAATTACA
* *
78405983 TGTAAGACCACGTCAGGGAC
1 TGTAAGACCATGTCTGGGAC
78406003 GTCGGCATTG
Statistics
Matches: 84, Mismatches: 15, Indels: 12
0.76 0.14 0.11
Matches are distributed among these distances:
42 30 0.36
43 49 0.58
44 3 0.04
45 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACACAGGCATCGTATTGAATTACA
Found at i:78406580 original size:15 final size:16
Alignment explanation
Indices: 78406555--78406584 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
78406545 GGTTTTGGTG
78406555 TATGTTTCTAATGTGC
1 TATGTTTCTAATGTGC
78406571 TATG-TTCTAATGTG
1 TATGTTTCTAATGTG
78406585 ATTTTGTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.50
Consensus pattern (16 bp):
TATGTTTCTAATGTGC
Found at i:78410313 original size:97 final size:97
Alignment explanation
Indices: 78410147--78410406 Score: 385
Period size: 97 Copynumber: 2.7 Consensus size: 97
78410137 ACACCTGATT
* * * * * *
78410147 GCTAAACCCTAAATTTGAAATAGATTGGAGAAAAATTAGTCGGTTTCTGTTGATTTAAATGCGTT
1 GCTAAATCCTGAATTTGAAACAGATTCGAGAAAAATTAGTCGATTTCTGTTGATTTAAATGTGTT
* * *
78410212 GAAAGCCTTAATAGTTCTTTGCGAACATAATG
66 GAAAGCCTTAATAATTCTTAGCAAACATAATG
*
78410244 GCTAAATCCTGAATTTGAAACAGATTCGAGAAAAATTAGTCGATTTCTGTTGCTTTAAATGTGTT
1 GCTAAATCCTGAATTTGAAACAGATTCGAGAAAAATTAGTCGATTTCTGTTGATTTAAATGTGTT
*
78410309 GAAAGCCTTAATAATTCTTAGCAAACTTAATG
66 GAAAGCCTTAATAATTCTTAGCAAACATAATG
* * * *
78410341 GCTAAATCCTGAATTTGAAACACATTCGAGAAAAGTTAGCCGTTTTCTGTTGATTTAAATGTGTT
1 GCTAAATCCTGAATTTGAAACAGATTCGAGAAAAATTAGTCGATTTCTGTTGATTTAAATGTGTT
78410406 G
66 G
78410407 TGATATCGAT
Statistics
Matches: 147, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
97 147 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.35
Consensus pattern (97 bp):
GCTAAATCCTGAATTTGAAACAGATTCGAGAAAAATTAGTCGATTTCTGTTGATTTAAATGTGTT
GAAAGCCTTAATAATTCTTAGCAAACATAATG
Found at i:78417625 original size:18 final size:18
Alignment explanation
Indices: 78417604--78417638 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
78417594 TTTATTTTTA
78417604 TAATAAAATTAATTAATT
1 TAATAAAATTAATTAATT
**
78417622 TAATATCATTAATTAAT
1 TAATAAAATTAATTAAT
78417639 CTAAGTATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATAAAATTAATTAATT
Found at i:78423173 original size:5 final size:5
Alignment explanation
Indices: 78423163--78423265 Score: 52
Period size: 5 Copynumber: 19.4 Consensus size: 5
78423153 TAAGATAAAC
* *
78423163 ATTAA ATTAA ATTAAA TATTAA ATCT-T ATTAA ATT-A ATAGAA TATTAA
1 ATTAA ATTAA ATT-AA -ATTAA AT-TAA ATTAA ATTAA AT-TAA -ATTAA
* *
78423211 ATTAA ATTTAA TATTAA ATT-A A-TAA ATTACT ATTAA GATTAGT ATTAA
1 ATTAA A-TTAA -ATTAA ATTAA ATTAA ATTA-A ATTAA -ATTA-A ATTAA
78423259 ATTAA AT
1 ATTAA AT
78423266 ATATTAAAAC
Statistics
Matches: 76, Mismatches: 8, Indels: 28
0.68 0.07 0.25
Matches are distributed among these distances:
3 1 0.01
4 8 0.11
5 33 0.43
6 28 0.37
7 6 0.08
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (5 bp):
ATTAA
Found at i:78423225 original size:17 final size:17
Alignment explanation
Indices: 78423125--78423232 Score: 67
Period size: 16 Copynumber: 6.9 Consensus size: 17
78423115 AAGTTTATAC
78423125 TTTAATATTAAATT-AA
1 TTTAATATTAAATTAAA
* *
78423141 TATAATATT-TATTAAGA
1 TTTAATATTAAATTAA-A
* *
78423158 -TAAACATTAAATTAAA
1 TTTAATATTAAATTAAA
78423174 -TTAA-A-T--ATTAAA
1 TTTAATATTAAATTAAA
*
78423186 TCT--TATTAAATT-AA
1 TTTAATATTAAATTAAA
**
78423200 TAGAATATTAAATTAAA
1 TTTAATATTAAATTAAA
78423217 TTTAATATTAAATTAA
1 TTTAATATTAAATTAA
78423233 TAAATTACTA
Statistics
Matches: 69, Mismatches: 12, Indels: 21
0.68 0.12 0.21
Matches are distributed among these distances:
12 7 0.10
13 2 0.03
14 4 0.06
15 7 0.10
16 27 0.39
17 22 0.32
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
TTTAATATTAAATTAAA
Found at i:78423258 original size:43 final size:42
Alignment explanation
Indices: 78423163--78423267 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 42
78423153 TAAGATAAAC
* *
78423163 ATTAAATTAAATTAAATATTAAATCTTATTAAATTAATAGAAT
1 ATTAAATTAAATTAAATATTAAA-CTTAATAAATTAATAGAAG
* * *
78423206 ATTAAATTAAATTTAATATTAAA-TTAATAAATTACTATTAAG
1 ATTAAATTAAATTAAATATTAAACTTAATAAATTAATA-GAAG
*
78423248 ATTAGTATTAAATTAAATAT
1 ATTA-AATTAAATTAAATAT
78423268 ATTAAAACAA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 12 0.23
42 6 0.11
43 35 0.66
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (42 bp):
ATTAAATTAAATTAAATATTAAACTTAATAAATTAATAGAAG
Found at i:78428702 original size:20 final size:20
Alignment explanation
Indices: 78428677--78428715 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
78428667 GGGACAATTG
*
78428677 AATCAATTTGATTAAAATCA
1 AATCAAATTGATTAAAATCA
*
78428697 AATCAAATTGATTAGAATC
1 AATCAAATTGATTAAAATC
78428716 TAATTCAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (20 bp):
AATCAAATTGATTAAAATCA
Found at i:78430069 original size:15 final size:15
Alignment explanation
Indices: 78430049--78430079 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
78430039 GACGGTTCCG
*
78430049 TGTGCTCTGATTCAT
1 TGTGCTCTAATTCAT
78430064 TGTGCTCTAATTCAT
1 TGTGCTCTAATTCAT
78430079 T
1 T
78430080 ACTGATACAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.48
Consensus pattern (15 bp):
TGTGCTCTAATTCAT
Found at i:78430864 original size:22 final size:23
Alignment explanation
Indices: 78430804--78430888 Score: 79
Period size: 22 Copynumber: 3.8 Consensus size: 23
78430794 CTAAACAGAT
*
78430804 AAGTGCTAAGAAAAGAGCATCGA
1 AAGTGCTAAGCAAAGAGCATCGA
* ** *
78430827 AA-TGCTGATTAGAGAGCA-CGA
1 AAGTGCTAAGCAAAGAGCATCGA
78430848 AAGTGCTAAGCAAAGAGCATCG-
1 AAGTGCTAAGCAAAGAGCATCGA
*
78430870 AAGTGTTCAA-CAAAGAGCA
1 AAGTGCT-AAGCAAAGAGCA
78430889 CCAAAGTACT
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
21 5 0.10
22 39 0.78
23 6 0.12
ACGTcount: A:0.44, C:0.15, G:0.26, T:0.15
Consensus pattern (23 bp):
AAGTGCTAAGCAAAGAGCATCGA
Found at i:78430887 original size:44 final size:44
Alignment explanation
Indices: 78430804--78430900 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 44
78430794 CTAAACAGAT
* ** * *
78430804 AAGTGCTAAGAAAAGAGCATCGAAATGCTGATTAGAGAGCACGA
1 AAGTGCTAAGAAAAGAGCATCGAAATGCTCAACAAAGAGCACCA
* * *
78430848 AAGTGCTAAGCAAAGAGCATCGAAGTGTTCAACAAAGAGCACCA
1 AAGTGCTAAGAAAAGAGCATCGAAATGCTCAACAAAGAGCACCA
*
78430892 AAGTACTAA
1 AAGTGCTAA
78430901 ACTAGTACAC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.44, C:0.16, G:0.24, T:0.15
Consensus pattern (44 bp):
AAGTGCTAAGAAAAGAGCATCGAAATGCTCAACAAAGAGCACCA
Found at i:78430895 original size:22 final size:22
Alignment explanation
Indices: 78430804--78430900 Score: 63
Period size: 22 Copynumber: 4.4 Consensus size: 22
78430794 CTAAACAGAT
* *
78430804 AAGTGCTAAGAAAAGAGCATCGA
1 AAGTGCTAAGCAAAGAGCA-CCA
* ** * *
78430827 AA-TGCTGATTAGAGAGCACGA
1 AAGTGCTAAGCAAAGAGCACCA
* *
78430848 AAGTGCTAAGCAAAGAGCATCG
1 AAGTGCTAAGCAAAGAGCACCA
*
78430870 AAGTGTTCAA-CAAAGAGCACCA
1 AAGTGCT-AAGCAAAGAGCACCA
*
78430892 AAGTACTAA
1 AAGTGCTAA
78430901 ACTAGTACAC
Statistics
Matches: 56, Mismatches: 16, Indels: 6
0.72 0.21 0.08
Matches are distributed among these distances:
21 7 0.12
22 45 0.80
23 4 0.07
ACGTcount: A:0.44, C:0.16, G:0.24, T:0.15
Consensus pattern (22 bp):
AAGTGCTAAGCAAAGAGCACCA
Found at i:78439999 original size:26 final size:26
Alignment explanation
Indices: 78439970--78440042 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
78439960 ACACACCAAA
* * *
78439970 ATCGCAATAAAGCTGCCAGTAATAGT
1 ATCGCAACAAAGCTGCCAGTAACAAT
* * *
78439996 ATCGCAGCAAAGCTGTCAATAACAAT
1 ATCGCAACAAAGCTGCCAGTAACAAT
*
78440022 AACGCAACAAAGCTGCCAGTA
1 ATCGCAACAAAGCTGCCAGTA
78440043 TCAGGCTAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.18
Consensus pattern (26 bp):
ATCGCAACAAAGCTGCCAGTAACAAT
Found at i:78454037 original size:45 final size:44
Alignment explanation
Indices: 78453968--78454508 Score: 226
Period size: 45 Copynumber: 12.2 Consensus size: 44
78453958 AGTTGTAGGA
*
78453968 AGCAGACTTAAAGTTAC-AGATCTTATCTCCATGTATCGGCTATGG
1 AGCAGA-TTAAAATTACGAG-TCTTATCTCCATGTATCGGCTATGG
** *
78454013 AGCAGATTGAAAATGGCGAGTCTTATCTACATGTATCGGCTATGG
1 AGCAGATT-AAAATTACGAGTCTTATCTCCATGTATCGGCTATGG
** *** * * * *
78454058 AGCAGATTTTAGCCACCAGCCTTATCTCTC-TG-AGGT-AGC-AAGAG
1 AGCAGATTAAAATTACGAGTCTTATCTC-CATGTA--TCGGCTATG-G
* * * *
78454102 AGCAGGTTGAAGATATA-G-GTCTTATCTTCC-TGAAGT-TG-TA-GG
1 AGCAGATT-AAAAT-TACGAGTCTTATC-TCCATGTA-TCGGCTATGG
* *
78454144 AAGCAGACTAAAAATTAC-AGATCTTATCTCCATGTATTGGCTATGG
1 -AGCAGA-TTAAAATTACGAG-TCTTATCTCCATGTATCGGCTATGG
* * ** *
78454190 AGCATATCAGAAATGGCGAGTCTTATCTCCATGTATTGGCTATGG
1 AGCAGATTA-AAATTACGAGTCTTATCTCCATGTATCGGCTATGG
* ** *** * * *
78454235 AGCAAATTTTAGCCACAAGTCTTATCTTCC-TGAAGT-TGC-A-GG
1 AGCAGATTAAAATTACGAGTCTTATC-TCCATGTA-TCGGCTATGG
* *
78454277 AAGCAGACTGAAAATTAC-AGATCTTATCTCTATGTATCGGCTATGG
1 -AGCAGA-TTAAAATTACGAG-TCTTATCTCCATGTATCGGCTATGG
* *
78454323 AGCAGATCAGAAATGACGAGTCTTATCTCCATGTATCGGCTATGG
1 AGCAGATTA-AAATTACGAGTCTTATCTCCATGTATCGGCTATGG
** *** * * *
78454368 AGCAGATTTTAGCCACAAGTCTTATCTTCC-TGAAGT-TGC-A-GG
1 AGCAGATTAAAATTACGAGTCTTATC-TCCATGTA-TCGGCTATGG
* * *
78454410 AAGCAAACTGAAAATTAC-AGATCTTATCTCCATATATCGGCTATGG
1 -AGCAGA-TTAAAATTACGAG-TCTTATCTCCATGTATCGGCTATGG
* * *
78454456 AGCAGATTAGAAATTGCGAGTCTCATCTCCATGTATCAGCTATGG
1 AGCAGATTA-AAATTACGAGTCTTATCTCCATGTATCGGCTATGG
78454501 AGCAGATT
1 AGCAGATT
78454509 TTAACCACAA
Statistics
Matches: 369, Mismatches: 83, Indels: 88
0.68 0.15 0.16
Matches are distributed among these distances:
42 7 0.02
43 41 0.11
44 121 0.33
45 185 0.50
46 15 0.04
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (44 bp):
AGCAGATTAAAATTACGAGTCTTATCTCCATGTATCGGCTATGG
Found at i:78454278 original size:133 final size:133
Alignment explanation
Indices: 78454120--78454573 Score: 764
Period size: 133 Copynumber: 3.4 Consensus size: 133
78454110 GAAGATATAG
* * *
78454120 GTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATTGGC
1 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGC
* * *
78454185 TATGGAGCATATCAGAAATGGCGAGTCTTATCTCCATGTATTGGCTATGGAGCAAATTTTAGCCA
66 TATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA
78454250 CAA
131 CAA
*
78454253 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCTATGTATCGGC
1 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGC
*
78454318 TATGGAGCAGATCAGAAATGACGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA
66 TATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA
78454383 CAA
131 CAA
* *
78454386 GTCTTATCTTCCTGAAGTTGCAGGAAGCAAACTGAAAATTACAGATCTTATCTCCATATATCGGC
1 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGC
* * * * *
78454451 TATGGAGCAGATTAGAAATTGCGAGTCTCATCTCCATGTATCAGCTATGGAGCAGATTTTAACCA
66 TATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA
78454516 CAA
131 CAA
*
78454519 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTGCAGATCTTATCTCC
1 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCC
78454574 TAAGTAGTAG
Statistics
Matches: 302, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
133 302 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (133 bp):
GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGC
TATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCA
CAA
Found at i:78454304 original size:177 final size:177
Alignment explanation
Indices: 78453808--78454374 Score: 722
Period size: 177 Copynumber: 3.2 Consensus size: 177
78453798 TGAAAGTTGA
* * * *
78453808 AGATCTTATCTCCATGTGTCGGCTATGGAGCGGATCGAAAATGGCCAGTCTTATCTCCATATATC
1 AGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATC
* *
78453873 GGCTATGGATCAGATTTTAGCCACCAGCCTTATCTCTCT-AAGGTAGCAAGAGAGTAGGTTGAAG
66 GGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAA-GTAGCAAGAGAGCAGGTTGAAG
* *
78453937 ATACAGGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTTAAAGTTAC
130 ATACAGGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTAAAAATTAC
* *
78453985 AGATCTTATCTCCATGTATCGGCTATGGAGCAGATTGAAAATGGCGAGTCTTATCTACATGTATC
1 AGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATC
*
78454050 GGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA
66 GGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGCAAGAGAGCAGGTTGAAGA
*
78454115 TATAGGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTAAAAATTAC
131 TACAGGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTAAAAATTAC
* *
78454162 AGATCTTATCTCCATGTATTGGCTATGGAGCATATC-AGAAATGGCGAGTCTTATCTCCATGTAT
1 AGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGA-AAATGGCGAGTCTTATCTCCATGTAT
* * * * * * **
78454226 TGGCTATGGAGCAAATTTTAGCCACAAGTCTTATCT-TCCTGAAGTTGCAGGA-AGCAGACTGAA
65 CGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCT-CTGAAGTAGCAAGAGAGCAGGTTGAA
* * * * *
78454289 AATTACAGATCTTATC-T-CT-ATGTATCGGCTATGG-AGCAGA-TCAGAAATGAC
129 GA-TACAGGTCTTATCTTCCTGAAGT-T--G-TA-GGAAGCAGACT-AAAAATTAC
78454340 -GAGTCTTATCTCCATGTATCGGCTATGGAGCAGAT
1 AGA-TCTTATCTCCATGTATCGGCTATGGAGCAGAT
78454375 TTTAGCCACA
Statistics
Matches: 346, Mismatches: 33, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
174 3 0.01
175 3 0.01
176 13 0.04
177 279 0.81
178 46 0.13
179 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.30
Consensus pattern (177 bp):
AGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATC
GGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGCAAGAGAGCAGGTTGAAGA
TACAGGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTAAAAATTAC
Found at i:78460231 original size:24 final size:24
Alignment explanation
Indices: 78460204--78460258 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
78460194 CCTAAAATCT
*
78460204 CTCCATAATACTCT-CATTGATTTC
1 CTCCACAATACTCTAC-TTGATTTC
* *
78460228 CTCCCCAATCCTCTACTTGATTTC
1 CTCCACAATACTCTACTTGATTTC
78460252 CTCCACA
1 CTCCACA
78460259 TAACACTCCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.22, C:0.38, G:0.04, T:0.36
Consensus pattern (24 bp):
CTCCACAATACTCTACTTGATTTC
Found at i:78461873 original size:55 final size:54
Alignment explanation
Indices: 78461786--78462040 Score: 269
Period size: 55 Copynumber: 4.8 Consensus size: 54
78461776 ATTAGGGTTT
*
78461786 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * ** * *
78461841 AAGGAAATCATGTAAGACCATGTTAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
78461896 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
78461949 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
78461998 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
78462041 GTACCCGCGT
Statistics
Matches: 170, Mismatches: 23, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
49 40 0.24
52 7 0.04
53 41 0.24
54 12 0.07
55 66 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:78461992 original size:108 final size:110
Alignment explanation
Indices: 78461793--78461993 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
78461783 TTTAAGGATA
*
78461793 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
* *
78461858 CCATGTTAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
78461903 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
78461965 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
78461994 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:78462253 original size:16 final size:16
Alignment explanation
Indices: 78462232--78462262 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
78462222 ATAAATTTGA
78462232 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
78462248 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
78462263 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:78465940 original size:49 final size:49
Alignment explanation
Indices: 78465858--78465954 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 49
78465848 TTATGCTATG
* * * *
78465858 CATTTCTAAACTTGGTCTCCCACTGTCTGCACTCTTATCACTATTTATA
1 CATTACTAAACTTAGTCTCCCACTGTCTACACTCTTATCACTACTTATA
* * *
78465907 CATTACTAAACTTAGTCTTCCACTGTTTACACTCTTATCCCTACTTAT
1 CATTACTAAACTTAGTCTCCCACTGTCTACACTCTTATCACTACTTAT
78465955 CCCTTCTATA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.24, C:0.29, G:0.06, T:0.41
Consensus pattern (49 bp):
CATTACTAAACTTAGTCTCCCACTGTCTACACTCTTATCACTACTTATA
Found at i:78470139 original size:213 final size:213
Alignment explanation
Indices: 78469230--78470216 Score: 1123
Period size: 211 Copynumber: 4.7 Consensus size: 213
78469220 TTTTTTTTAA
* * * *
78469230 TATTCCAGGAAGCT-C--CTCAGAATAAAAAACCTGTAGTTTCTAAAAATGGCCCTGTTCCAGCT
1 TATTCCAGGAAGCTCCTGCTCAGAAGAAAAAACCTGTAGTTGCTAAAACTGGCTCTGTTCCAGCT
* * *
78469292 GCCAAGACAGTGAAAGCTGATAGTAGTTCTGAGTCTAGCAGTGAGGAAGATTCATCCTCTGACGA
66 GCTAAGACAGTGAAAGCTGATAGTAGTTCTGAGTCTAGTAGTGAGGAAGATTCATCCTCTGATGA
* * * *
78469357 AGTGAGTATCATGCTCATGCTTGTAATA-TAGCATGGTTGGTAATATTCTTTT-CTATGATTTTT
131 AGTGAGTATTATGCTCATGCTTATAATATTAGCATGGTTGGGAATATTCTTTTGC-ATGATTGTT
78469420 GATGTTCAATATTTTGTTT
195 GATGTTCAATATTTTGTTT
* ** *
78469439 TA-TCCAGGAAGCTCCTGCTCAGAAGAAAAATCCTGTAGTTGCTAAAAAGGGCTGTGTTCCAGCT
1 TATTCCAGGAAGCTCCTGCTCAGAAGAAAAAACCTGTAGTTGCTAAAACTGGCTCTGTTCCAGCT
* * *
78469503 GCCAAGACAGTGAAAGCTGATAGCAGTTCT---TCAAGTAGTGAGGAAGATTCATCCTCTGATGA
66 GCTAAGACAGTGAAAGCTGATAGTAGTTCTGAGTCTAGTAGTGAGGAAGATTCATCCTCTGATGA
* * * * ** * * *
78469565 AGTGAGTATTATGCTCTTGCTAGTTAAAACATTCGCATAATT-GG-ACATTCTTTTGTATAATTG
131 AGTGAGTATTATGCTCATGC---TTATAATATTAGCATGGTTGGGAATATTCTTTTGCATGATTG
*
78469628 TTAATGTTCAAT-TTTT-TTT
193 TTGATGTTCAATATTTTGTTT
* * * * **
78469647 T-TT-CAGGAAGCTCCTGCTCAGAATAAAAAACCTGTAGCTGCAAAAACTGGCTCTATTCTGGCT
1 TATTCCAGGAAGCTCCTGCTCAGAAGAAAAAACCTGTAGTTGCTAAAACTGGCTCTGTTCCAGCT
* * * * * *
78469710 GCTAAGACTGTTAAAGCTGGTAATAGTTCTGAGTCTAGTAGTGAAGAAGACTCATCCTCTGATGA
66 GCTAAGACAGTGAAAGCTGATAGTAGTTCTGAGTCTAGTAGTGAGGAAGATTCATCCTCTGATGA
* * * * *
78469775 AGTGAGTAATATG-T-ATGCTTATATTTTTAGTATGGTTGGGAGTATTCTTTTGCATGATTGTTG
131 AGTGAGTATTATGCTCATGCTTATAATATTAGCATGGTTGGGAATATTCTTTTGCATGATTGTTG
*
78469838 ATGTTCAATATTTTGTCT
196 ATGTTCAATATTTTGTTT
* * * * *** ** *
78469856 TATCCCAGGAAGCTACTGCACAGAA-TAAAAACTCTGTAGCCACTAAAACTGTATCTGTTCCAGA
1 TATTCCAGGAAGCTCCTGCTCAGAAGAAAAAAC-CTGTAGTTGCTAAAACTGGCTCTGTTCCAGC
* * * *
78469920 TGCTAAGGCTGTGAAAGCTGATAGTAGTTCTGAGTCTAGTAGTGAGGAAGGTTCATCCTCTGACG
65 TGCTAAGACAGTGAAAGCTGATAGTAGTTCTGAGTCTAGTAGTGAGGAAGATTCATCCTCTGATG
* *
78469985 AAGTGAGTATTATACTCATGCTTATAATATTATCATGGTTGGGAATATTCTTTTGCATGATTGTT
130 AAGTGAGTATTATGCTCATGCTTATAATATTAGCATGGTTGGGAATATTCTTTTGCATGATTGTT
78470050 -ATTGTTCAAT-TGTTTGTTT
195 GA-TGTTCAATAT-TTTGTTT
* ** * * *
78470069 TATTCCAGGAAGTTCCTGCTCAGAAGAAAAAACCCATAGTTGCTAAAAGTGGCTCTATACCAGCT
1 TATTCCAGGAAGCTCCTGCTCAGAAGAAAAAACCTGTAGTTGCTAAAACTGGCTCTGTTCCAGCT
* * *
78470134 GCTAAGACAGTGAAGGCTGATAGTAGTTCAGAGTCTAGTAGTGAGGAAGATTCATCCTCCGATGA
66 GCTAAGACAGTGAAAGCTGATAGTAGTTCTGAGTCTAGTAGTGAGGAAGATTCATCCTCTGATGA
*
78470199 AGTAAGTATTATGCTCAT
131 AGTGAGTATTATGCTCAT
78470217 ATTATATTAA
Statistics
Matches: 641, Mismatches: 113, Indels: 44
0.80 0.14 0.06
Matches are distributed among these distances:
205 11 0.02
206 2 0.00
207 100 0.16
208 70 0.11
209 11 0.02
210 73 0.11
211 185 0.29
212 10 0.02
213 173 0.27
214 6 0.01
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (213 bp):
TATTCCAGGAAGCTCCTGCTCAGAAGAAAAAACCTGTAGTTGCTAAAACTGGCTCTGTTCCAGCT
GCTAAGACAGTGAAAGCTGATAGTAGTTCTGAGTCTAGTAGTGAGGAAGATTCATCCTCTGATGA
AGTGAGTATTATGCTCATGCTTATAATATTAGCATGGTTGGGAATATTCTTTTGCATGATTGTTG
ATGTTCAATATTTTGTTT
Found at i:78475751 original size:5 final size:5
Alignment explanation
Indices: 78475741--78475780 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
78475731 TCATTAAATT
78475741 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
78475781 CTTTTATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:78477413 original size:12 final size:12
Alignment explanation
Indices: 78477396--78477429 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
78477386 CGACTCGCCC
78477396 ATATTAATTTTT
1 ATATTAATTTTT
*
78477408 ATATTATTTTTT
1 ATATTAATTTTT
78477420 ATA-TAATTTT
1 ATATTAATTTT
78477430 AAAAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:78477452 original size:19 final size:18
Alignment explanation
Indices: 78477430--78477476 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
78477420 ATATAATTTT
*
78477430 AAAAAATATATAAACCATC
1 AAAAAATATA-AAAACATC
78477449 -AAAAATACTAAAAACATC
1 AAAAAATA-TAAAAACATC
78477467 AAATAAATAT
1 AAA-AAATAT
78477477 TTCTCAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 14 0.58
19 5 0.21
20 5 0.21
ACGTcount: A:0.66, C:0.13, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAAAATATAAAAACATC
Found at i:78477454 original size:18 final size:18
Alignment explanation
Indices: 78477431--78477469 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
78477421 TATAATTTTA
*
78477431 AAAAATA-TATAAACCATC
1 AAAAATACTA-AAAACATC
78477449 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
78477467 AAA
1 AAA
78477470 TAAATATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:78487650 original size:262 final size:262
Alignment explanation
Indices: 78487175--78487655 Score: 746
Period size: 262 Copynumber: 1.8 Consensus size: 262
78487165 AATTAAATGG
* * * *
78487175 GCCATTAACCTCAATTTAATATTTTTTCTTTTAATTCCAAGCAAAATTTGAAGAGATAAGTTTTG
1 GCCATTAACATCAATTTAATATTTGTCCTTTTAATTCCAAGCAAAATTTGAAGAGATAAGTTCTG
* *
78487240 CTGAGAAAAATAAAATTACATATTAGGCTAAAATATCCGCAAGCCTAAAAGAGCTTGACATTTTG
66 CTAAGAAAAATAAAATTACATATTAAGCTAAAATATCCGCAAGCCTAAAAGAGCTTGACATTTTG
* * * * *
78487305 CATCGCCCATGTCGTTGATCATTGTGGTCGTGCTATTGCCCTACTCATCCCATTGTTGTATATCT
131 CATCGCCCATGTCATTGATCACTATAGTCGTGCTACTGCCCTACTCATCCCATTGTTGTATATCT
*
78487370 TTTCCTGCAAATTATTTGGTTTTAGAAATTTTGACTAATGGAGCTAATAACATCTGTGAATTAAG
196 TTTCCTGCAAACTATTTGGTTTTAGAAATTTTGACTAATGGAGCTAATAACATCTGTGAATTAAG
78487435 GA
261 GA
78487437 GCCATTAACATCAATTTAATATTTGTCCTTTTAATTCCAAGCAAAATTTGAAGAGATAAGTTCTG
1 GCCATTAACATCAATTTAATATTTGTCCTTTTAATTCCAAGCAAAATTTGAAGAGATAAGTTCTG
* ** *
78487502 CTAAGGAAAATAAAATTACATATTAAGCTAAAATATTTGCAAGCCTAAAAGGGCTTGACATTTTG
66 CTAAGAAAAATAAAATTACATATTAAGCTAAAATATCCGCAAGCCTAAAAGAGCTTGACATTTTG
* * * * * *
78487567 TATCGCTCATGTCATTGATCACTATAGTCGTGCTACTGCCGTGCTCATCTCATTGTTGTGTATCT
131 CATCGCCCATGTCATTGATCACTATAGTCGTGCTACTGCCCTACTCATCCCATTGTTGTATATCT
* *
78487632 TTTCCTGTAGACTATTTGGTTTTA
196 TTTCCTGCAAACTATTTGGTTTTA
78487656 AATAAAATTA
Statistics
Matches: 195, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
262 195 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.37
Consensus pattern (262 bp):
GCCATTAACATCAATTTAATATTTGTCCTTTTAATTCCAAGCAAAATTTGAAGAGATAAGTTCTG
CTAAGAAAAATAAAATTACATATTAAGCTAAAATATCCGCAAGCCTAAAAGAGCTTGACATTTTG
CATCGCCCATGTCATTGATCACTATAGTCGTGCTACTGCCCTACTCATCCCATTGTTGTATATCT
TTTCCTGCAAACTATTTGGTTTTAGAAATTTTGACTAATGGAGCTAATAACATCTGTGAATTAAG
GA
Found at i:78488014 original size:316 final size:315
Alignment explanation
Indices: 78487426--78488362 Score: 1466
Period size: 316 Copynumber: 3.0 Consensus size: 315
78487416 ATAACATCTG
* * *
78487426 TGAATTAAGGAGCCATTAACATCAATTTAATATTTGTCCTTTTAATTCCAAGCAAAATTTGAAGA
1 TGAATTAATGAGCCTTTAACATCAATTTAATATTTGTCCTTTTAATTCCAAGCAGAATTTGAAGA
* * ** *
78487491 GATAAGTTCTGCTAAGGAAAATAAAATTACATATTAAGCTAAAATATTTGCAAGCCTAAAAGGGC
66 GATAAGTTCTGCTGAGGAAAATAAAATTACATATTAGGCTAAAATATCCGCAAGCCTAAAAGAGC
* * *
78487556 TTGACATTTTGTATCGCTCATGTCATTGATCACTATAGTCGTGCTACTGCCGTGCTCATCTCATT
131 TTGACATTTTGTATCGCCCATGTCATTGATCACTGTAGTCGTGCTTCTGCCGTGCTCATCTCATT
* * * * *
78487621 GTTGTGTATCTTTTCCTGTAGACTATTTGGTTTTAAATAAAATTAAAAAATTAAAAGAACTTTTG
196 GTTGTATATCTTTTCCTGCATATTATTTGGTTTTAAATAAAATTCAAAAATTAAAAGAACTTTTG
* * * *
78487686 GAAATTTTGACTAATTGAGCTAATAACATTTGTGAATTAAGGAGTCATTAGCTTC
261 AAAATTTTGACTAATTGAGCTAATAACATCTGTGAATTAAGGAGCCATTAACTTC
78487741 TGAATTAAATGAGCCTTTAACATCAATTTAATATTTGTCCTTTTAATTCCAAGCAGAATTTGAAG
1 TGAATT-AATGAGCCTTTAACATCAATTTAATATTTGTCCTTTTAATTCCAAGCAGAATTTGAAG
**
78487806 AGATAAACTCTGCTGAGGAAAATAAAATTACATATTAGGCTAAAATATCCGCAAGCCTAAAAGAG
65 AGATAAGTTCTGCTGAGGAAAATAAAATTACATATTAGGCTAAAATATCCGCAAGCCTAAAAGAG
* * * * * * *
78487871 CTTGACATTTTGCATCGCCCACGTCGTTGGTCATTGTAGTCGTGCTTCTGCCGTGTTTATCTCAT
130 CTTGACATTTTGTATCGCCCATGTCATTGATCACTGTAGTCGTGCTTCTGCCGTGCTCATCTCAT
78487936 TGTTGTATATCTTTTCCTGCATATTATTTGGTTTTAAATAAAATTCAAAAATTAAAAGAACTTTT
195 TGTTGTATATCTTTTCCTGCATATTATTTGGTTTTAAATAAAATTCAAAAATTAAAAGAACTTTT
*
78488001 GAAAATTTTGACTAATGGAGCTAATAACATCTGTGAATTAAGGAGCCATTAACTTC
260 GAAAATTTTGACTAATTGAGCTAATAACATCTGTGAATTAAGGAGCCATTAACTTC
*
78488057 TGAAATTAATGAG-CTATTAACTTCAATTTAATATTTGTCCTTTTAATTCCAAGCAGAATTTGAA
1 TG-AATTAATGAGCCT-TTAACATCAATTTAATATTTGTCCTTTTAATTCCAAGCAGAATTTGAA
78488121 GAGATAAGTTCTGCTGAGGAAAATAAAATTACATATTAGGCTAAAATATCCGCAAGCCTAAAA-A
64 GAGATAAGTTCTGCTGAGGAAAATAAAATTACATATTAGGCTAAAATATCCGCAAGCCTAAAAGA
* * * *
78488185 GGCTTGACATTTTGTGTCACCCATGTCATTGATCACTGTAGTCATGC-TATGCCGTGCTCATCTC
129 -GCTTGACATTTTGTATCGCCCATGTCATTGATCACTGTAGTCGTGCTTCTGCCGTGCTCATCTC
* *
78488249 ATTATTGTATATCTTTTCCTACATATTATTTGGTTTTAAATAAAATTCAAAAATTAAAAGAACTT
193 ATTGTTGTATATCTTTTCCTGCATATTATTTGGTTTTAAATAAAATTCAAAAATTAAAAGAACTT
* *
78488314 TTGAAAATTTTGACTAATTGAGCTAATAACATCTATGAATTAAGAAGCC
258 TTGAAAATTTTGACTAATTGAGCTAATAACATCTGTGAATTAAGGAGCC
78488363 TTTATTTCAA
Statistics
Matches: 569, Mismatches: 49, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
315 132 0.23
316 433 0.76
317 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (315 bp):
TGAATTAATGAGCCTTTAACATCAATTTAATATTTGTCCTTTTAATTCCAAGCAGAATTTGAAGA
GATAAGTTCTGCTGAGGAAAATAAAATTACATATTAGGCTAAAATATCCGCAAGCCTAAAAGAGC
TTGACATTTTGTATCGCCCATGTCATTGATCACTGTAGTCGTGCTTCTGCCGTGCTCATCTCATT
GTTGTATATCTTTTCCTGCATATTATTTGGTTTTAAATAAAATTCAAAAATTAAAAGAACTTTTG
AAAATTTTGACTAATTGAGCTAATAACATCTGTGAATTAAGGAGCCATTAACTTC
Found at i:78488053 original size:25 final size:24
Alignment explanation
Indices: 78488025--78488077 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
78488015 ATGGAGCTAA
*
78488025 TAACATCTGTGAATTAAGGAGCCAT
1 TAACATCTG-AAATTAAGGAGCCAT
* * *
78488050 TAACTTCTGAAATTAATGAGCTAT
1 TAACATCTGAAATTAAGGAGCCAT
78488074 TAAC
1 TAAC
78488078 TTCAATTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (24 bp):
TAACATCTGAAATTAAGGAGCCAT
Found at i:78497876 original size:15 final size:15
Alignment explanation
Indices: 78497828--78497889 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
78497818 TTAACGGCTC
78497828 AATAACTAAAATATTA
1 AATAACTAAAATA-TA
*
78497844 CAAT-AC-AACAACATA
1 -AATAACTAA-AATATA
*
78497859 AATAATTAAAATATA
1 AATAACTAAAATATA
*
78497874 AATAGCTAAAATATA
1 AATAACTAAAATATA
78497889 A
1 A
78497890 TCTAAATAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
14 3 0.08
15 24 0.65
16 7 0.19
17 3 0.08
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.26
Consensus pattern (15 bp):
AATAACTAAAATATA
Found at i:78513784 original size:78 final size:77
Alignment explanation
Indices: 78513649--78513804 Score: 276
Period size: 78 Copynumber: 2.0 Consensus size: 77
78513639 ACAATGAGCG
*
78513649 TGCTAATTAGCATGATTAAACATGTTCCAAGGGTTATTCATTTTACTCTTTCCCTTAGAGAATGT
1 TGCTAATTAGCATGATTAAACATGTTCCAAGGGTTATTCATTTTACTCTTTCACTTAGAGAATGT
78513714 ATTACTTTTTAT
66 ATTACTTTTTAT
* *
78513726 TNGCTACTTAGCATGATTAAACATGTTCCGAGGGTTATTCATTTTACTCTTTCACTTAGAGAATG
1 T-GCTAATTAGCATGATTAAACATGTTCCAAGGGTTATTCATTTTACTCTTTCACTTAGAGAATG
78513791 TATTACTTTTTAT
65 TATTACTTTTTAT
78513804 T
1 T
78513805 TATTTATCAA
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 1 0.01
78 74 0.99
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.44
Consensus pattern (77 bp):
TGCTAATTAGCATGATTAAACATGTTCCAAGGGTTATTCATTTTACTCTTTCACTTAGAGAATGT
ATTACTTTTTAT
Found at i:78514007 original size:51 final size:51
Alignment explanation
Indices: 78513942--78514052 Score: 199
Period size: 51 Copynumber: 2.2 Consensus size: 51
78513932 TTTTTGTAAA
*
78513942 TCTTTCTCATGCGTTTGAGAGTAGTGTCATTATTTTTACCTTCCATAAGTC
1 TCTTCCTCATGCGTTTGAGAGTAGTGTCATTATTTTTACCTTCCATAAGTC
78513993 TCTTCCTCATGCGTTTGAGAGTAGTGTCATTATTTTTACCTTCCATAAGTC
1 TCTTCCTCATGCGTTTGAGAGTAGTGTCATTATTTTTACCTTCCATAAGTC
78514044 T-TTCC-CATG
1 TCTTCCTCATG
78514053 TGTCTGGAAG
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
49 4 0.07
50 4 0.07
51 51 0.86
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (51 bp):
TCTTCCTCATGCGTTTGAGAGTAGTGTCATTATTTTTACCTTCCATAAGTC
Found at i:78514688 original size:14 final size:13
Alignment explanation
Indices: 78514651--78514692 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
78514641 ATGATTAGTG
78514651 ATTAA-TTAATTA
1 ATTAAGTTAATTA
78514663 TGATTAAGTTAATTA
1 --ATTAAGTTAATTA
78514678 ATTAAGTTTAATTA
1 ATTAAG-TTAATTA
78514692 A
1 A
78514693 AACTAAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.23
14 13 0.50
15 7 0.27
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
ATTAAGTTAATTA
Found at i:78514688 original size:19 final size:18
Alignment explanation
Indices: 78514651--78514692 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
78514641 ATGATTAGTG
*
78514651 ATTAATTAATTATGATTA
1 ATTAATTAATTAAGATTA
*
78514669 AGTTAATTAATTAAGTTTA
1 A-TTAATTAATTAAGATTA
78514688 ATTAA
1 ATTAA
78514693 AACTAAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (18 bp):
ATTAATTAATTAAGATTA
Found at i:78516184 original size:25 final size:25
Alignment explanation
Indices: 78516151--78516201 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
78516141 ATGAGCAATT
* * *
78516151 AAATCAATTTGATTAAAATCAAATC
1 AAATCAATTGGAATAAAATAAAATC
*
78516176 AAATTAATTGGAATAAAATAAAATC
1 AAATCAATTGGAATAAAATAAAATC
78516201 A
1 A
78516202 GGATAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.57, C:0.08, G:0.06, T:0.29
Consensus pattern (25 bp):
AAATCAATTGGAATAAAATAAAATC
Found at i:78521464 original size:46 final size:46
Alignment explanation
Indices: 78521408--78521502 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
78521398 TAAATAGATG
78521408 ATTGCCATGAAACATGAATAGTATGATGTTAATAGTATATGGTATA
1 ATTGCCATGAAACATGAATAGTATGATGTTAATAGTATATGGTATA
78521454 ATTGCCATGAAACATGAATAGTATGATGTTAATAGTATATGGTATA
1 ATTGCCATGAAACATGAATAGTATGATGTTAATAGTATATGGTATA
78521500 ATT
1 ATT
78521503 ACATAAATAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.36
Consensus pattern (46 bp):
ATTGCCATGAAACATGAATAGTATGATGTTAATAGTATATGGTATA
Found at i:78524657 original size:316 final size:313
Alignment explanation
Indices: 78524085--78524665 Score: 726
Period size: 316 Copynumber: 1.8 Consensus size: 313
78524075 ATTTGTCGTC
*
78524085 TCATAGATGAAATGAAATAGCAACAAGTTTTTTCGAATATTAATCTTTTATCTATTGTTTGGCTT
1 TCATAGATGAAATGAAATAGCAACAAGTTTTTTCGAATATGAATCTTTTATCTATTGTTTGGCTT
** * * * * *
78524150 TGAACATATATACCTTTGGGATATCTGTTGTTTGACTTCCATTGTATATGCTGCTGGTCTTGAGT
66 CCAACATACATACCTTCGAGATATC--TTGTTTGACTTCCAATCTATATGCTGCTGGTCTTGAGT
* * * *
78524215 TTCCACTTTGTATAACAGAGATTAGAGGAAGGCCATTCTGCTGCTGATGTTCTTTTCGGTTCTAA
129 TTCCACTTTGTATAACAGAGATTAAAGGAAGGCCATGCTGCTGATGATGTTCTCTTCGGTTCTAA
* * * *
78524280 CTATTGATGGTTTTTCAGTCCAGATGCTCCTAAGATAAGGCCATTAAAATGTACCGAACTCTCAC
194 CTATTGATGGTTTTTCAGTCCAGATGCTCCCAAGACAAGGCCATTAAAACGCACCGAACTCTCAC
78524345 AGAGGCCATTAAAAATGTCCCAATGATGTCCTTGGTTCTGACTATTGATGATTTG
259 AGAGGCCATTAAAAATGTCCCAATGATGTCCTTGGTTCTGACTATTGATGATTTG
* * *
78524400 TCATAGATGAAATGAAATAGCAACATGTTTTTTCGAATATGAATCTTTTTATGTGTTGTTTGGCT
1 TCATAGATGAAATGAAATAGCAACAAGTTTTTTCGAATATGAATC-TTTTATCTATTGTTTGGCT
* * * * * *
78524465 TCCATCGTACATGCCTTCGAGATATC-TGTTTGGCTT-TAATCTATGTG-T-CATCGGTCTTGAG
65 TCCAACATACATACCTTCGAGATATCTTGTTTGACTTCCAATCTATATGCTGC-T-GGTCTTGAG
* * *
78524526 TTTCCACTTTGTACTAATAATAGTAGTGATTAAAGGAAGGCCCTGCTGTTGATGATG-TC-CTT-
128 TTTCCACTTTG---T-ATAACAG-A--GATTAAAGGAAGGCCATGCTGCTGATGATGTTCTCTTC
* * *
78524588 GGTTTTAACTATTGATGGTTTTTCAGTGCAGATGTTCCCAAGACAAGGCCATTAAAACGCACCGA
186 GGTTCTAACTATTGATGGTTTTTCAGTCCAGATGCTCCCAAGACAAGGCCATTAAAACGCACCGA
78524653 ACTCTCACAGAGG
251 ACTCTCACAGAGG
78524666 TTGAAGGATT
Statistics
Matches: 225, Mismatches: 31, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
310 1 0.00
311 2 0.01
312 27 0.12
313 9 0.04
315 44 0.20
316 112 0.50
317 3 0.01
318 2 0.01
319 25 0.11
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (313 bp):
TCATAGATGAAATGAAATAGCAACAAGTTTTTTCGAATATGAATCTTTTATCTATTGTTTGGCTT
CCAACATACATACCTTCGAGATATCTTGTTTGACTTCCAATCTATATGCTGCTGGTCTTGAGTTT
CCACTTTGTATAACAGAGATTAAAGGAAGGCCATGCTGCTGATGATGTTCTCTTCGGTTCTAACT
ATTGATGGTTTTTCAGTCCAGATGCTCCCAAGACAAGGCCATTAAAACGCACCGAACTCTCACAG
AGGCCATTAAAAATGTCCCAATGATGTCCTTGGTTCTGACTATTGATGATTTG
Found at i:78526336 original size:21 final size:20
Alignment explanation
Indices: 78526301--78526350 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
78526291 ATATACACAT
* *
78526301 TAAAAATATAAAAATAGAAA
1 TAAATATATAAAAATACAAA
*
78526321 TAAATATATAAAAAATTCAAA
1 TAAATATAT-AAAAATACAAA
*
78526342 AAAATATAT
1 TAAATATAT
78526351 TTAAAATCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (20 bp):
TAAATATATAAAAATACAAA
Found at i:78526355 original size:23 final size:23
Alignment explanation
Indices: 78526324--78526406 Score: 59
Period size: 23 Copynumber: 3.6 Consensus size: 23
78526314 ATAGAAATAA
*
78526324 ATATATAAAAAATTCAAAAAAAT
1 ATATTTAAAAAATTCAAAAAAAT
78526347 ATATTT--AAAA-TCTAAAAAAAT
1 ATATTTAAAAAATTC-AAAAAAAT
*
78526368 ATAAATTATAAAAAATTTTAAAATAAA-
1 AT--ATT-TAAAAAA-TTCAAAA-AAAT
78526395 AT-TTTAAAAAAT
1 ATATTTAAAAAAT
78526407 ACGATAATTG
Statistics
Matches: 49, Mismatches: 2, Indels: 19
0.70 0.03 0.27
Matches are distributed among these distances:
20 2 0.04
21 14 0.29
22 1 0.02
23 15 0.31
24 3 0.06
26 4 0.08
27 6 0.12
28 4 0.08
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
ATATTTAAAAAATTCAAAAAAAT
Found at i:78526356 original size:21 final size:21
Alignment explanation
Indices: 78526322--78526370 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
78526312 AAATAGAAAT
78526322 AAATATATAAAAAAT-TCAAAA
1 AAATATATAAAAAATCT-AAAA
**
78526343 AAATATATTTAAAATCTAAAA
1 AAATATATAAAAAATCTAAAA
78526364 AAATATA
1 AAATATA
78526371 AATTATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (21 bp):
AAATATATAAAAAATCTAAAA
Found at i:78526407 original size:15 final size:13
Alignment explanation
Indices: 78526379--78526403 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78526369 TAAATTATAA
78526379 AAAATTTTAAAAT
1 AAAATTTTAAAAT
78526392 AAAATTTTAAAA
1 AAAATTTTAAAA
78526404 AATACGATAA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAATTTTAAAAT
Found at i:78526472 original size:18 final size:18
Alignment explanation
Indices: 78526449--78526486 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
78526439 ATATTATTAC
78526449 AAAAATGA-AGAAAAATGT
1 AAAAATGATA-AAAAATGT
*
78526467 AAAAATTATAAAAAATGT
1 AAAAATGATAAAAAATGT
78526485 AA
1 AA
78526487 TTTCTTTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (18 bp):
AAAAATGATAAAAAATGT
Found at i:78526562 original size:19 final size:20
Alignment explanation
Indices: 78526535--78526586 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
78526525 TAAAATACTT
78526535 TTTTTAATTTTTATA-A-CA
1 TTTTTAATTTTTATATATCA
*
78526553 TTTTTCAATTTTTATATATTA
1 TTTTT-AATTTTTATATATCA
78526574 TTTTTAATTTTTA
1 TTTTTAATTTTTA
78526587 AAATTTATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 5 0.17
19 10 0.33
20 9 0.30
21 6 0.20
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTAATTTTTATATATCA
Found at i:78526565 original size:20 final size:20
Alignment explanation
Indices: 78526535--78526586 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
78526525 TAAAATACTT
78526535 TTTTTAA-TTTT-TATAACA
1 TTTTTAATTTTTATATAACA
**
78526553 TTTTTCAATTTTTATATATTA
1 TTTTT-AATTTTTATATAACA
78526574 TTTTTAATTTTTA
1 TTTTTAATTTTTA
78526587 AAATTTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 5 0.17
19 2 0.07
20 12 0.41
21 10 0.34
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTAATTTTTATATAACA
Found at i:78526594 original size:20 final size:20
Alignment explanation
Indices: 78526535--78526594 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
78526525 TAAAATACTT
* *
78526535 TTTTTAATTTTTATAA--CA
1 TTTTTAATTTTTAAAATTTA
*
78526553 TTTTTCAATTTTT-ATATATTA
1 TTTTT-AATTTTTAAAAT-TTA
78526574 TTTTTAATTTTTAAAATTTA
1 TTTTTAATTTTTAAAATTTA
78526594 T
1 T
78526595 AATTATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
18 6 0.18
19 7 0.21
20 11 0.33
21 9 0.27
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTAATTTTTAAAATTTA
Found at i:78542433 original size:13 final size:14
Alignment explanation
Indices: 78542414--78542455 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
78542404 AAAACTATCG
78542414 AGAGAGAAAAAGAT
1 AGAGAGAAAAAGAT
*
78542428 -GAGAG-AAAACAT
1 AGAGAGAAAAAGAT
78542440 AGAGAGAAAATAGAT
1 AGAGAGAAAA-AGAT
78542455 A
1 A
78542456 AATTGTAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
12 6 0.26
13 10 0.43
14 3 0.13
15 4 0.17
ACGTcount: A:0.62, C:0.02, G:0.26, T:0.10
Consensus pattern (14 bp):
AGAGAGAAAAAGAT
Found at i:78542704 original size:22 final size:22
Alignment explanation
Indices: 78542678--78542722 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
78542668 TAACTCGTAC
78542678 CAAGCTTATTCAAGTTCTCTAA
1 CAAGCTTATTCAAGTTCTCTAA
78542700 CAAGCTTATTCAAGTTCTCTAA
1 CAAGCTTATTCAAGTTCTCTAA
78542722 C
1 C
78542723 TTTGAAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (22 bp):
CAAGCTTATTCAAGTTCTCTAA
Found at i:78543195 original size:97 final size:96
Alignment explanation
Indices: 78543066--78543246 Score: 258
Period size: 97 Copynumber: 1.9 Consensus size: 96
78543056 CCTTACATAG
* *
78543066 TGGTTTCAAGATTGGAAAGAAAAGACAATTTCACTCGGCTTTGACACATGTCTTTTATATATCAT
1 TGGTTTCAAGATT-GAAAGAAAAGACAATTTCACCCGGCTTTGACACATGTCATTTATA-AT-AT
*
78543131 ATAAATATTTTTATTTTAAAAGTTCCCCCTTGTA
63 AAAAATATTTTTATTTTAAAAGTTCCCCCTTGTA
* * *
78543165 TGGTTTCAAGATAT-AAA-AAAAGACAGTTTCACCCGGCTTTGACACGTGTCATTTCTAATATAA
1 TGGTTTCAAGAT-TGAAAGAAAAGACAATTTCACCCGGCTTTGACACATGTCATTTATAATATAA
78543228 AAATATTTTTATTTTAAAA
65 AAATATTTTTATTTTAAAA
78543247 AATGCCCTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
95 22 0.29
96 2 0.03
97 35 0.47
98 3 0.04
99 12 0.16
100 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (96 bp):
TGGTTTCAAGATTGAAAGAAAAGACAATTTCACCCGGCTTTGACACATGTCATTTATAATATAAA
AATATTTTTATTTTAAAAGTTCCCCCTTGTA
Found at i:78545026 original size:49 final size:49
Alignment explanation
Indices: 78544973--78545070 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
78544963 TTCAACAAGT
78544973 AAGTAAAAGAAATGACATGGTATCTATACAAACGAAATGGTTCATGATC
1 AAGTAAAAGAAATGACATGGTATCTATACAAACGAAATGGTTCATGATC
*
78545022 AAGTAAAGGAAATGACATGGTATCTATACAAACGAAATGGTTCATGATC
1 AAGTAAAAGAAATGACATGGTATCTATACAAACGAAATGGTTCATGATC
78545071 TTATGAAAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.24
Consensus pattern (49 bp):
AAGTAAAAGAAATGACATGGTATCTATACAAACGAAATGGTTCATGATC
Found at i:78545059 original size:25 final size:25
Alignment explanation
Indices: 78544981--78545060 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 25
78544971 GTAAGTAAAA
78544981 GAAATGACATGGTATCTATACAAAC
1 GAAATGACATGGTATCTATACAAAC
* * *
78545006 GAAATGGTTCAT-G-ATC-A-AGTAAAG
1 GAAAT-G-ACATGGTATCTATA-CAAAC
78545030 GAAATGACATGGTATCTATACAAAC
1 GAAATGACATGGTATCTATACAAAC
78545055 GAAATG
1 GAAATG
78545061 GTTCATGATC
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
22 3 0.07
23 3 0.07
24 12 0.29
25 18 0.43
26 3 0.07
27 3 0.07
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.24
Consensus pattern (25 bp):
GAAATGACATGGTATCTATACAAAC
Found at i:78545071 original size:25 final size:25
Alignment explanation
Indices: 78544994--78545071 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
78544984 ATGACATGGT
78544994 ATCTATACAAACGAAATGGTTCATG
1 ATCTATACAAACGAAATGGTTCATG
* * *
78545019 ATC-A-AGTAAAGGAAAT-G-ACATGG
1 ATCTATA-CAAACGAAATGGTTCAT-G
78545042 TATCTATACAAACGAAATGGTTCATG
1 -ATCTATACAAACGAAATGGTTCATG
78545068 ATCT
1 ATCT
78545072 TATGAAAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 3 0.08
23 3 0.08
24 12 0.30
25 16 0.40
26 3 0.08
27 3 0.08
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (25 bp):
ATCTATACAAACGAAATGGTTCATG
Found at i:78549117 original size:35 final size:34
Alignment explanation
Indices: 78549025--78549122 Score: 118
Period size: 29 Copynumber: 3.0 Consensus size: 34
78549015 GGAATGTTGG
*
78549025 GGGTCTATACCTAACATTGAGATTTCTACTTGTAT
1 GGGTCTGTA-CTAACATTGAGATTTCTACTTGTAT
78549060 GGGT-TG--C-AAGC--TGAGATTTCTACTTGTAT
1 GGGTCTGTACTAA-CATTGAGATTTCTACTTGTAT
78549089 GGGTCTGTACTTAACATTGAGATTTCTACTTGTA
1 GGGTCTGTAC-TAACATTGAGATTTCTACTTGTA
78549123 CAAGTACCAA
Statistics
Matches: 54, Mismatches: 1, Indels: 16
0.76 0.01 0.23
Matches are distributed among these distances:
29 22 0.41
30 4 0.07
31 2 0.04
32 1 0.02
33 1 0.02
34 3 0.06
35 21 0.39
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.40
Consensus pattern (34 bp):
GGGTCTGTACTAACATTGAGATTTCTACTTGTAT
Found at i:78550936 original size:5 final size:5
Alignment explanation
Indices: 78550926--78550952 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
78550916 TTAGATAGAC
78550926 ATCTA ATCTA ATCTA ATCTA ATCTA AT
1 ATCTA ATCTA ATCTA ATCTA ATCTA AT
78550953 GATTGTAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (5 bp):
ATCTA
Found at i:78552988 original size:7 final size:7
Alignment explanation
Indices: 78552976--78553002 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
78552966 AATCTGAGTA
78552976 TAACATT
1 TAACATT
78552983 TAACATT
1 TAACATT
78552990 TAACATT
1 TAACATT
78552997 TAACAT
1 TAACAT
78553003 GTTTTGTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (7 bp):
TAACATT
Found at i:78553757 original size:32 final size:32
Alignment explanation
Indices: 78553721--78553944 Score: 376
Period size: 32 Copynumber: 7.0 Consensus size: 32
78553711 TATAACTATA
78553721 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
78553753 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
78553785 CAACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
78553817 CTATTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
78553849 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
78553881 CAACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
78553913 CTATTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
78553945 ATTTTTTGTG
Statistics
Matches: 177, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 177 1.00
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.46
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:78553889 original size:96 final size:96
Alignment explanation
Indices: 78553725--78553944 Score: 440
Period size: 96 Copynumber: 2.3 Consensus size: 96
78553715 ACTATACTAC
78553725 TTTTTTATATGTAAAACTAATGTATGATCTACTTTTTTATATGCAAAACTAATGTATGATCAACT
1 TTTTTTATATGTAAAACTAATGTATGATCTACTTTTTTATATGCAAAACTAATGTATGATCAACT
78553790 TTTTTATATGTAAACCTAATGTATGATCTAT
66 TTTTTATATGTAAACCTAATGTATGATCTAT
78553821 TTTTTTATATGTAAAACTAATGTATGATCTACTTTTTTATATGCAAAACTAATGTATGATCAACT
1 TTTTTTATATGTAAAACTAATGTATGATCTACTTTTTTATATGCAAAACTAATGTATGATCAACT
78553886 TTTTTATATGTAAACCTAATGTATGATCTAT
66 TTTTTATATGTAAACCTAATGTATGATCTAT
78553917 TTTTTTATATGTAAAACTAATGTATGAT
1 TTTTTTATATGTAAAACTAATGTATGAT
78553945 ATTTTTTGTG
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 124 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.46
Consensus pattern (96 bp):
TTTTTTATATGTAAAACTAATGTATGATCTACTTTTTTATATGCAAAACTAATGTATGATCAACT
TTTTTATATGTAAACCTAATGTATGATCTAT
Found at i:78555989 original size:21 final size:21
Alignment explanation
Indices: 78555938--78555991 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
78555928 ACCATTGTTT
*
78555938 CTAATCTCACCGTTACAGTAT
1 CTAATCTCACCGTTACAGTAA
* *
78555959 CCAATCTCACGGTTACAGTAA
1 CTAATCTCACCGTTACAGTAA
*
78555980 CTAATGTCACCG
1 CTAATCTCACCG
78555992 CCACCGCTGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.28
Consensus pattern (21 bp):
CTAATCTCACCGTTACAGTAA
Found at i:78557721 original size:30 final size:30
Alignment explanation
Indices: 78557685--78557743 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
78557675 TACAATTTCA
* *
78557685 TTTTATTTTTATTTTAATTTGGACCTAATC
1 TTTTATTTTTATTTCAATTTAGACCTAATC
* *
78557715 TTTTATTTTTGTTTCAATTTAGTCCTAAT
1 TTTTATTTTTATTTCAATTTAGACCTAAT
78557744 GGCCATTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.22, C:0.10, G:0.07, T:0.61
Consensus pattern (30 bp):
TTTTATTTTTATTTCAATTTAGACCTAATC
Found at i:78557993 original size:17 final size:19
Alignment explanation
Indices: 78557973--78558016 Score: 65
Period size: 17 Copynumber: 2.4 Consensus size: 19
78557963 GTAAAAATAG
*
78557973 TATATATTATTTTTA-T-T
1 TATATATTATTTATATTAT
78557990 TATATATTATTTATATTAT
1 TATATATTATTTATATTAT
78558009 TATATATT
1 TATATATT
78558017 CTATTTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 14 0.58
18 1 0.04
19 9 0.38
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TATATATTATTTATATTAT
Found at i:78558014 original size:21 final size:19
Alignment explanation
Indices: 78557973--78558058 Score: 63
Period size: 20 Copynumber: 4.5 Consensus size: 19
78557963 GTAAAAATAG
78557973 TATATATTA-TTTTTATT-
1 TATATATTATTTTTTATTA
78557990 TATATATTATTTATATTATTA
1 TATATATTATTT-T-TTATTA
** *
78558011 TATAT-TCTATTTATAAATTT
1 TATATAT-TATTT-TTTATTA
*
78558031 TAT-TATATATCTTTTATTA
1 TATATAT-TATTTTTTATTA
78558050 TATATATTA
1 TATATATTA
78558059 ACCCCTACAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
17 9 0.17
18 2 0.04
19 11 0.20
20 20 0.37
21 12 0.22
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
TATATATTATTTTTTATTA
Found at i:78558021 original size:12 final size:12
Alignment explanation
Indices: 78557983--78558054 Score: 62
Period size: 14 Copynumber: 6.1 Consensus size: 12
78557973 TATATATTAT
78557983 TTTTATT-TATA
1 TTTTATTATATA
*
78557994 TATTATT-TATA
1 TTTTATTATATA
78558005 --TTATTATATA
1 TTTTATTATATA
* *
78558015 TTCTATTTATAAA
1 TTTTA-TTATATA
78558028 TTTTATTATATA
1 TTTTATTATATA
78558040 TCTTTTATTATATA
1 --TTTTATTATATA
78558054 T
1 T
78558055 ATTAACCCCT
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
9 5 0.10
10 4 0.08
11 10 0.20
12 9 0.18
13 10 0.20
14 12 0.24
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTTATTATATA
Found at i:78558022 original size:32 final size:30
Alignment explanation
Indices: 78557986--78558058 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 30
78557976 ATATTATTTT
78557986 TATTTATATATTATTTATATTATTATATATTC
1 TATTTATATATTATTT-TATTA-TATATATTC
* *
78558018 TATTTATA-A--ATTTTATTATATATCTTT
1 TATTTATATATTATTTTATTATATATATTC
78558045 TATTATATATATTA
1 TATT-TATATATTA
78558059 ACCCCTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
27 11 0.31
28 9 0.26
29 5 0.14
31 2 0.06
32 8 0.23
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (30 bp):
TATTTATATATTATTTTATTATATATATTC
Found at i:78558057 original size:23 final size:24
Alignment explanation
Indices: 78558000--78558058 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
78557990 TATATATTAT
78558000 TTATATTATTATATATTCTATTTA
1 TTATATTATTATATATTCTATTTA
* *
78558024 TAAATTTTATTATATA-TCT-TTTA
1 T-TATATTATTATATATTCTATTTA
78558047 TTATATATATTA
1 TTATAT-TATTA
78558059 ACCCCTACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
22 3 0.10
23 10 0.34
24 4 0.14
25 12 0.41
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (24 bp):
TTATATTATTATATATTCTATTTA
Found at i:78558094 original size:15 final size:15
Alignment explanation
Indices: 78558074--78558108 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
78558064 TACATTATTT
78558074 TTATTTTATTATATA
1 TTATTTTATTATATA
*
78558089 TTATTTTATTATTTA
1 TTATTTTATTATATA
78558104 TTATT
1 TTATT
78558109 AGTATATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTTTATTATATA
Found at i:78558562 original size:14 final size:14
Alignment explanation
Indices: 78558543--78558569 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
78558533 TTTGCATAAA
78558543 ATATTGTTATATTT
1 ATATTGTTATATTT
78558557 ATATTGTTATATT
1 ATATTGTTATATT
78558570 CATTGTTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (14 bp):
ATATTGTTATATTT
Found at i:78558640 original size:64 final size:62
Alignment explanation
Indices: 78558558--78558678 Score: 179
Period size: 64 Copynumber: 1.9 Consensus size: 62
78558548 GTTATATTTA
* * *
78558558 TATTGTTATATTCATTGTTTTCCATGTTATATTTTGCATGAAATGTTATTATGTATGTAATTAG
1 TATTATTATATTCATTGTTTTCCATGATATATCTTGCATGAAATGTTA--ATGTATGTAATTAG
* *
78558622 TATTATTATATTCATTGTTTTCTATGATGTATCTTGCATGAAATGTTAATGTATGTA
1 TATTATTATATTCATTGTTTTCCATGATATATCTTGCATGAAATGTTAATGTATGTA
78558679 TATTTAGGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
62 9 0.17
64 43 0.83
ACGTcount: A:0.27, C:0.07, G:0.14, T:0.52
Consensus pattern (62 bp):
TATTATTATATTCATTGTTTTCCATGATATATCTTGCATGAAATGTTAATGTATGTAATTAG
Found at i:78558876 original size:5 final size:5
Alignment explanation
Indices: 78558866--78558898 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
78558856 TTCATGTGAA
78558866 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
78558899 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:78563331 original size:5 final size:5
Alignment explanation
Indices: 78563321--78563357 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
78563311 CAATTTGTGA
78563321 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
78563358 GAACACACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:78563341 original size:15 final size:14
Alignment explanation
Indices: 78563321--78563357 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
78563311 CAATTTGTGA
78563321 AAAATAAAATAAAAT
1 AAAATAAAAT-AAAT
78563336 AAAATAAAATAAAT
1 AAAATAAAATAAAT
78563350 AAAATAAA
1 AAAATAAA
78563358 GAACACACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:78566423 original size:29 final size:30
Alignment explanation
Indices: 78566373--78566454 Score: 78
Period size: 30 Copynumber: 2.7 Consensus size: 30
78566363 TTTTAATAGT
* *
78566373 CTATACTTTTATAATTTTTTAAAAGAT-TAAA
1 CTATAATTTTAT--TTTTTTAAAAGATCAAAA
*
78566404 CTA-AATTTTTATTTTTTTAAGAGATCAAAA
1 CTATAA-TTTTATTTTTTTAAAAGATCAAAA
*
78566434 GTATAATTTTATTTTTATTAA
1 CTATAATTTTATTTTT-TTAA
78566455 TTTAAAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
29 12 0.28
30 16 0.37
31 15 0.35
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (30 bp):
CTATAATTTTATTTTTTTAAAAGATCAAAA
Found at i:78567789 original size:4 final size:4
Alignment explanation
Indices: 78567780--78567817 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
78567770 GCTTTATGTC
78567780 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
78567818 TATATATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:78570139 original size:117 final size:117
Alignment explanation
Indices: 78569933--78570172 Score: 435
Period size: 117 Copynumber: 2.1 Consensus size: 117
78569923 ATAATGCATG
* * *
78569933 GGCACCTTCATCTGGTGTTCTTCCAAACGGGGTTCCTATAGGAGATGATACACCTAATGAGGGAT
1 GGCACCTTCATCTGGTGTTCTTCCAAACAGGGTTCCTATAGCAAATGATACACCTAATGAGGGAT
* *
78569998 TTGGTGATTTAGATGAACATAGTAATGAGAATGAAGGTATTCCTCCTAATGA
66 TTGGTGATTCAGATGAACATAGTAATGAGAATGAAGATATTCCTCCTAATGA
78570050 GGCACCTTCATCTGGTGTTCTTCCAAACAGGGTTCCTATAGCAAATGATACACCTAATGAGGGAT
1 GGCACCTTCATCTGGTGTTCTTCCAAACAGGGTTCCTATAGCAAATGATACACCTAATGAGGGAT
78570115 TTGGTGATTCAGATGAACATAGTAATGAGAATGAAGATATTCCTCCTAATGA
66 TTGGTGATTCAGATGAACATAGTAATGAGAATGAAGATATTCCTCCTAATGA
78570167 GGCACC
1 GGCACC
78570173 ATCAAGCCCT
Statistics
Matches: 118, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 118 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (117 bp):
GGCACCTTCATCTGGTGTTCTTCCAAACAGGGTTCCTATAGCAAATGATACACCTAATGAGGGAT
TTGGTGATTCAGATGAACATAGTAATGAGAATGAAGATATTCCTCCTAATGA
Found at i:78572721 original size:21 final size:21
Alignment explanation
Indices: 78572684--78572731 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
78572674 CACCATTGTT
*
78572684 TCTAATCTCACCACTATAGTA
1 TCTAATCTCACCACTATAATA
**
78572705 TCTAATCTCACTGCTATAATA
1 TCTAATCTCACCACTATAATA
*
78572726 ACTAAT
1 TCTAAT
78572732 ATTACCGTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.35
Consensus pattern (21 bp):
TCTAATCTCACCACTATAATA
Found at i:78574784 original size:90 final size:90
Alignment explanation
Indices: 78574618--78574784 Score: 214
Period size: 90 Copynumber: 1.9 Consensus size: 90
78574608 ATGTAAATCA
*** * * *
78574618 ATTTTAGTCCATATTATTTGTTGGTTGAAATTTATAATTTTGTATATCAGTTTTGTAAATTTTTG
1 ATTTTAGTCCATATTATTTACCGGTTGAAATTTATAATTTTGTATACCAGTTTTGAAAATGTTTG
*
78574683 TATTATTTTTTGGATCCGTAAAAAT
66 TATTATATTTTGGATCCGTAAAAAT
*
78574708 ATTTTAGTCCATATTATTTACCGGTTGAATTTTAT-ATTTTAGTATACCAAGTTTCT-AAAATGT
1 ATTTTAGTCCATATTATTTACCGGTTGAAATTTATAATTTT-GTATACC-AGTTT-TGAAAATGT
78574771 TTGTATTA-ATTTTG
63 TTGTATTATATTTTG
78574785 TATATACATA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
89 5 0.08
90 42 0.64
91 18 0.27
92 1 0.02
ACGTcount: A:0.28, C:0.07, G:0.13, T:0.52
Consensus pattern (90 bp):
ATTTTAGTCCATATTATTTACCGGTTGAAATTTATAATTTTGTATACCAGTTTTGAAAATGTTTG
TATTATATTTTGGATCCGTAAAAAT
Found at i:78580755 original size:30 final size:30
Alignment explanation
Indices: 78580721--78580781 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
78580711 TCCTTAACTC
78580721 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
78580751 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
78580781 A
1 A
78580782 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:78582580 original size:20 final size:22
Alignment explanation
Indices: 78582543--78582583 Score: 59
Period size: 20 Copynumber: 1.9 Consensus size: 22
78582533 CCTTCTCCAT
78582543 TTTCAGTTTTTTAATTAAATTTA
1 TTTCAGTTTTTT-ATTAAATTTA
78582566 TTTCA-TTTTTT-TTAAATT
1 TTTCAGTTTTTTATTAAATT
78582584 AGCCTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
22 6 0.33
23 5 0.28
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTCAGTTTTTTATTAAATTTA
Found at i:78582708 original size:27 final size:27
Alignment explanation
Indices: 78582666--78582731 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
78582656 TATAATTTAT
78582666 TTATT-TT-AAAAA-ACTATACATATA
1 TTATTATTAAAAAATACTATACATATA
**
78582690 TTATTATTAAAAAATACTATTTATATA
1 TTATTATTAAAAAATACTATACATATA
*
78582717 TT-TATATAAAAAAAT
1 TTAT-TATTAAAAAAT
78582732 TTATTTATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 5 0.14
25 2 0.06
26 6 0.17
27 22 0.63
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (27 bp):
TTATTATTAAAAAATACTATACATATA
Found at i:78582714 original size:25 final size:25
Alignment explanation
Indices: 78582660--78582750 Score: 73
Period size: 25 Copynumber: 3.6 Consensus size: 25
78582650 TATATATATA
78582660 ATTTAT-TTATT-TTAAAAAACTAT
1 ATTTATATTATTATTAAAAAACTAT
**
78582683 ACATATATTATTATTAAAAAA-TACT
1 ATTTATATTATTATTAAAAAACTA-T
* *
78582708 ATTTATA-TATTTATATAAAAAAATTT
1 ATTTATATTA-TTAT-TAAAAAACTAT
78582734 ATTTATCATATATTATT
1 ATTTAT-AT-TATTATT
78582751 TTCCTATATA
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
23 4 0.07
24 9 0.17
25 18 0.33
26 14 0.26
27 3 0.06
28 4 0.07
29 2 0.04
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTTATATTATTATTAAAAAACTAT
Found at i:78582744 original size:27 final size:29
Alignment explanation
Indices: 78582684--78582749 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 29
78582674 AAAAACTATA
*
78582684 CATATATTATTATTAAAAAATACTATTTAT
1 CATATATTA-TATAAAAAAATACTATTTAT
*
78582714 -ATAT-TTATATAAAAAAAT-TTATTTAT
1 CATATATTATATAAAAAAATACTATTTAT
78582740 CATATATTAT
1 CATATATTAT
78582750 TTTCCTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 7 0.22
27 14 0.44
28 7 0.22
29 4 0.12
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (29 bp):
CATATATTATATAAAAAAATACTATTTAT
Found at i:78582749 original size:14 final size:14
Alignment explanation
Indices: 78582732--78582872 Score: 83
Period size: 14 Copynumber: 9.9 Consensus size: 14
78582722 ATAAAAAAAT
*
78582732 TTATTTATCATATA
1 TTATTTATTATATA
78582746 TTATTT-TCCTATATA
1 TTATTTAT--TATATA
* * *
78582761 TT-TATATTAGATT
1 TTATTTATTATATA
* *
78582774 TTATTATATAACAT-
1 TTATT-TATTATATA
* *
78582788 TTATTATATTTTTTA
1 TTATT-TATTATATA
78582803 TT-TTTATTATATA
1 TTATTTATTATATA
*
78582816 TTACTTATTATATA
1 TTATTTATTATATA
*
78582830 TTTTTTATTATATA
1 TTATTTATTATATA
**
78582844 TTATGTATATCGTATA
1 TTAT-T-TATTATATA
*
78582860 TTATCTATTATAT
1 TTATTTATTATAT
78582873 TATTTATGTT
Statistics
Matches: 96, Mismatches: 22, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
13 16 0.17
14 52 0.54
15 17 0.18
16 11 0.11
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (14 bp):
TTATTTATTATATA
Found at i:78582806 original size:7 final size:7
Alignment explanation
Indices: 78582788--78582879 Score: 51
Period size: 7 Copynumber: 12.1 Consensus size: 7
78582778 TATATAACAT
78582788 TTATTATA
1 TTATT-TA
*
78582796 TTTTTTA
1 TTATTTA
78582803 TT-TTTA
1 TTATTTA
*
78582809 TTATATA
1 TTATTTA
*
78582816 TTACTTA
1 TTATTTA
*
78582823 TTATATA
1 TTATTTA
*
78582830 TTTTTTA
1 TTATTTA
*
78582837 TTATATA
1 TTATTTA
78582844 TTATGTATA
1 TTAT-T-TA
78582853 TCGTATATTA
1 T--TAT-TTA
78582863 TCTATTATA
1 T-TATT-TA
78582872 TTATTTA
1 TTATTTA
78582879 T
1 T
78582880 GTTTTATATT
Statistics
Matches: 65, Mismatches: 13, Indels: 13
0.71 0.14 0.14
Matches are distributed among these distances:
6 6 0.09
7 34 0.52
8 9 0.14
9 9 0.14
10 3 0.05
11 4 0.06
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.64
Consensus pattern (7 bp):
TTATTTA
Found at i:78582813 original size:32 final size:33
Alignment explanation
Indices: 78582772--78582852 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 33
78582762 TTATATTAGA
78582772 TTTTATTATATA-ACAT-TTATTATATTTTTTAT
1 TTTTATTATATATACATATTA-TATATTTTTTAT
*
78582804 TTTTATTATATATTACTTATTATATATTTTTTAT
1 TTTTATTATATA-TACATATTATATATTTTTTAT
* *
78582838 TATATATTATGTATA
1 T-TTTATTATATATA
78582853 TCGTATATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
32 12 0.29
34 18 0.43
35 12 0.29
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.64
Consensus pattern (33 bp):
TTTTATTATATATACATATTATATATTTTTTAT
Found at i:78586629 original size:10 final size:10
Alignment explanation
Indices: 78586570--78586631 Score: 56
Period size: 10 Copynumber: 6.0 Consensus size: 10
78586560 TTTCTGACCA
*
78586570 TTCTTCCTTC
1 TTCTTCTTTC
78586580 -TCTTCCTTTC
1 TTCTT-CTTTC
78586590 TT-TTCTTTTC
1 TTCTTC-TTTC
78586600 TTCTTCTCTTC
1 TTCTTCT-TTC
*
78586611 ATCTATCTTTC
1 TTCT-TCTTTC
78586622 TTCTTCTTTC
1 TTCTTCTTTC
78586632 CTCCATTGCC
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
9 5 0.12
10 19 0.44
11 16 0.37
12 3 0.07
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (10 bp):
TTCTTCTTTC
Found at i:78586856 original size:151 final size:151
Alignment explanation
Indices: 78586582--78586883 Score: 586
Period size: 151 Copynumber: 2.0 Consensus size: 151
78586572 CTTCCTTCTC
*
78586582 TTCCTTTCTTTTCTTTTCTTCTTCTCTTCATCTATCTTTCTTCTTCTTTCCTCCATTGCCGAACC
1 TTCCTTTCTTTTCTTTTCTTCTTCTCTCCATCTATCTTTCTTCTTCTTTCCTCCATTGCCGAACC
78586647 TTCCTACCATCTTGTTCATCTCCATTTTTCTCTTCAACCGTTTCAAAACCTTCATAGTCTGTGGC
66 TTCCTACCATCTTGTTCATCTCCATTTTTCTCTTCAACCGTTTCAAAACCTTCATAGTCTGTGGC
*
78586712 CATAAAAAGCCGAAATCCCGA
131 CATAAAAAGCAGAAATCCCGA
78586733 TTCCTTTCTTTTCTTTTCTTCTTCTCTCCATCTATCTTTCTTCTTCTTTCCTCCATTGCCGAACC
1 TTCCTTTCTTTTCTTTTCTTCTTCTCTCCATCTATCTTTCTTCTTCTTTCCTCCATTGCCGAACC
78586798 TTCCTACCATCTTGTTCATCTCCATTTTTCTCTTCAACCGTTTCAAAACCTTCATAGTCTGTGGC
66 TTCCTACCATCTTGTTCATCTCCATTTTTCTCTTCAACCGTTTCAAAACCTTCATAGTCTGTGGC
78586863 CATAAAAAGCAGAAATCCCGA
131 CATAAAAAGCAGAAATCCCGA
78586884 AAGCTTGATT
Statistics
Matches: 149, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 149 1.00
ACGTcount: A:0.18, C:0.32, G:0.07, T:0.43
Consensus pattern (151 bp):
TTCCTTTCTTTTCTTTTCTTCTTCTCTCCATCTATCTTTCTTCTTCTTTCCTCCATTGCCGAACC
TTCCTACCATCTTGTTCATCTCCATTTTTCTCTTCAACCGTTTCAAAACCTTCATAGTCTGTGGC
CATAAAAAGCAGAAATCCCGA
Found at i:78587589 original size:8 final size:8
Alignment explanation
Indices: 78587576--78587607 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
78587566 CTAGATCGGC
78587576 AAAAGCCG
1 AAAAGCCG
78587584 AAAAGCCG
1 AAAAGCCG
*
78587592 AAATGCCG
1 AAAAGCCG
78587600 AAAAGCCG
1 AAAAGCCG
78587608 GTATTTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:78587894 original size:28 final size:28
Alignment explanation
Indices: 78587854--78587918 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
78587844 ATGTACTAGA
*
78587854 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
78587882 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
78587910 ATACCCCTA
1 ATACCCCTA
78587919 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:78588082 original size:27 final size:27
Alignment explanation
Indices: 78588024--78588113 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
78588014 AGGAAGCGTC
78588024 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
78588052 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
78588079 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
78588108 CTGGTG
1 CTGGTG
78588114 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:78588132 original size:55 final size:56
Alignment explanation
Indices: 78588024--78588138 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
78588014 AGGAAGCGTC
* *
78588024 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
78588079 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
78588135 CTGG
1 CTGG
78588139 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:78589293 original size:10 final size:11
Alignment explanation
Indices: 78589278--78589315 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
78589268 TTGCTATAAT
78589278 TATTA-ATTAA
1 TATTATATTAA
78589288 TATTAATATTAA
1 TATT-ATATTAA
78589300 TATTATATT-A
1 TATTATATTAA
78589310 TATTAT
1 TATTAT
78589316 GAAATAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 11 0.42
11 6 0.23
12 9 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TATTATATTAA
Found at i:78589294 original size:6 final size:6
Alignment explanation
Indices: 78589283--78589314 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
78589273 ATAATTATTA
78589283 ATTAAT ATTAAT ATTAAT ATT-AT ATT-AT ATTA
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTA
78589315 TGAAATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
ATTAAT
Found at i:78589474 original size:31 final size:32
Alignment explanation
Indices: 78589433--78589495 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
78589423 TTATTTATAA
*
78589433 AAGATATTTAT-TAATTAAATAT-TTATATTAT
1 AAGATATTTATGTAA-TAAATATATTAAATTAT
*
78589464 AAGATTTTTATGTAATAAATATATTAAATTAT
1 AAGATATTTATGTAATAAATATATTAAATTAT
78589496 GACAAGTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 17 0.61
32 11 0.39
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (32 bp):
AAGATATTTATGTAATAAATATATTAAATTAT
Found at i:78589622 original size:15 final size:16
Alignment explanation
Indices: 78589597--78589649 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 16
78589587 AAAGTAAAAC
78589597 AAAAGAAAAAGAAATG
1 AAAAGAAAAAGAAATG
*
78589613 AAAA-AAAAAGATA-G
1 AAAAGAAAAAGAAATG
*
78589627 AAAAGAAACAG-AATG
1 AAAAGAAAAAGAAATG
*
78589642 AAACGAAA
1 AAAAGAAA
78589650 CAGAGAGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
14 6 0.19
15 21 0.68
16 4 0.13
ACGTcount: A:0.74, C:0.04, G:0.17, T:0.06
Consensus pattern (16 bp):
AAAAGAAAAAGAAATG
Found at i:78591370 original size:40 final size:40
Alignment explanation
Indices: 78591272--78591534 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
78591262 TCCTCGTTCA
* * * * *
78591272 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
78591311 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
78591351 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
78591391 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
78591431 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
78591471 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
78591511 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
78591535 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:78591543 original size:41 final size:41
Alignment explanation
Indices: 78591466--78591543 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
78591456 TTAGTATCTC
* * *
78591466 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
78591507 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
78591544 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:78594257 original size:15 final size:17
Alignment explanation
Indices: 78594237--78594272 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
78594227 AATTGAAAAA
78594237 AAAATAT-AATTAATT-
1 AAAATATGAATTAATTG
78594252 AAAATATGAATTAATTG
1 AAAATATGAATTAATTG
78594269 AAAA
1 AAAA
78594273 CTGAAAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 8 0.42
17 4 0.21
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (17 bp):
AAAATATGAATTAATTG
Found at i:78595578 original size:14 final size:16
Alignment explanation
Indices: 78595559--78595595 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
78595549 CGATGTCCTT
78595559 TTTGCAT-TCAT-GCA
1 TTTGCATCTCATAGCA
78595573 TTTGCATCTCATAGCA
1 TTTGCATCTCATAGCA
78595589 TTT-CATC
1 TTTGCATC
78595596 GCATCGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (16 bp):
TTTGCATCTCATAGCA
Found at i:78595595 original size:15 final size:15
Alignment explanation
Indices: 78595559--78595608 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
78595549 CGATGTCCTT
78595559 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
78595573 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
* *
78595589 TTT-CATCGCAT-CG
1 TTTGCATCTCATGCA
78595602 TTTGCAT
1 TTTGCAT
78595609 TCAAAGTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 4 0.13
14 10 0.32
15 11 0.35
16 6 0.19
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:78607988 original size:175 final size:175
Alignment explanation
Indices: 78607628--78608363 Score: 762
Period size: 175 Copynumber: 4.2 Consensus size: 175
78607618 CTTCGACGAC
* * * *
78607628 GAGCAAATTGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATA
1 GAGCAAATCGAAGACATAGCAGATTTGACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGATA
* * * * * * *
78607693 ACAGATCTGG-AGTCTTCATATTCGACGAACAGCAGACACATAGCAGATATAACCTTTAGATGTT
66 ACAGATCTGGCA-TCTCCAT-TTCAACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTT
* * *
78607757 TATACTGAAACAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAG
129 TATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAG
* * *
78607804 AAACAAATCGAAGACATAGCAGATTTGACTTTC-GTATGTTCTCACACCAAAGCAGGTCCAAGAT
1 GAGCAAATCGAAGACATAGCAGATTTGACTTTCAG-ATGTTCTCACACCAAAGCAGATCCAAGAT
* * *
78607868 AACAGATTTGGGATCTCCATTTCAACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGACT
65 AACAGATCTGGCATCTCCATTTCAACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATG-TT
* *
78607933 T-TACTGAAGCAAATCCAAAATGATTTGGCATCCTTGTGTTCACAAG
129 TATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAG
* * * * * * **
78607979 GAGCAAATCGGAGACACATAGTAGATCTAACCTTCAGATGTT-T-ATACTGAAGCAGATCCAAGA
1 GAGCAAATC-GA-AGACATAGCAGATTTGACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGA
* *** * *
78608042 T----GATTTGGCATCCTTGTGTTTACAA--GA-AGCAAATTGAAGGCATAGCAGGTCTAACCTT
64 TAACAGATCTGGCAT-C-TCCATTT-CAACGGAGAGCAGA-T--A--CATAGCAGATCTAACCTT
* * *
78608100 CAGATGTTTATACTGAAGCAGATCCAAGATGATTCGACATTCTTGTGCTT-ACAAG
121 CAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTG-TTCACAAG
* * *
78608155 GAACAAATCGAAGATATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATA
1 GAGCAAATCGAAGACATAGCAGATTTGACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGATA
* * * *
78608220 ACAGATCTAGCATCTCCATTTCGACGGAGGGCAGATACATAGCAGATCTAACTTTCAGATGATTT
66 ACAGATCTGGCATCTCCATTTCAACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATG-TTT
* *
78608285 -TACTGAAGTAGATCTAAGATGATTTGGCATCCTTGTGTTCACAAG
130 ATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAG
* * * *
78608330 GAGCAAATCAAAGACACAGTAGATTTGGCTTTCA
1 GAGCAAATCGAAGACATAGCAGATTTGACTTTCA
78608364 CGTGTTTACG
Statistics
Matches: 456, Mismatches: 77, Indels: 55
0.78 0.13 0.09
Matches are distributed among these distances:
171 14 0.03
172 4 0.01
173 4 0.01
174 28 0.06
175 192 0.42
176 165 0.36
177 28 0.06
178 5 0.01
179 4 0.01
180 12 0.03
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (175 bp):
GAGCAAATCGAAGACATAGCAGATTTGACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGATA
ACAGATCTGGCATCTCCATTTCAACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTTA
TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAG
Found at i:78608194 original size:87 final size:87
Alignment explanation
Indices: 78607730--78608178 Score: 407
Period size: 87 Copynumber: 5.1 Consensus size: 87
78607720 AACAGCAGAC
* * *
78607730 ACATAGCAGATATAACCTTTAGATGTTTATACTGAAACAGATCCAAGATGATTTGGCATTCTTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
*
78607795 GTTTACAAGAAACAAATCGAAG
66 GTTTACAAGGAACAAATCGAAG
* * * * ** * *
78607817 ACATAGCAGATTTGACTTTC-GTATGTTCTCACACCAAAGCAGGTCCAAGATAACAGATTTGGGA
1 ACATAGCAGATCTAACCTTCAG-ATGTT-T-ATACTGAAGCAGATCCAAGAT----GATTTGGCA
*** *
78607881 -TC-TCCATTT-CAACGGAGAGC--A--G-AT
59 TTCTTGTGTTTACAA-GGA-A-CAAATCGAAG
* * * *
78607905 ACATAGCAGATCTAACCTTCAGATGACTT-TACTGAAGCAAATCCAAAATGATTTGGCATCCTTG
1 ACATAGCAGATCTAACCTTCAGATG-TTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTG
* * *
78607969 TGTTCACAAGGAGCAAATCGGAGAC
65 TGTTTACAAGGAACAAATC-GA-AG
* *
78607994 ACATAGTAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
*
78608059 GTTTACAA-GAAGCAAATTGAAG
66 GTTTACAAGGAA-CAAATCGAAG
* * * *
78608081 GCATAGCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTCGACATTCTTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
*
78608146 GCTTACAAGGAACAAATCGAAG
66 GTTTACAAGGAACAAATCGAAG
*
78608168 ATATAGCAGAT
1 ACATAGCAGAT
78608179 TTGACTTTCG
Statistics
Matches: 285, Mismatches: 52, Indels: 50
0.74 0.13 0.13
Matches are distributed among these distances:
82 9 0.03
83 1 0.00
84 7 0.02
85 3 0.01
86 15 0.05
87 106 0.37
88 32 0.11
89 90 0.32
90 3 0.01
91 7 0.02
92 3 0.01
93 9 0.03
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (87 bp):
ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
GTTTACAAGGAACAAATCGAAG
Found at i:78608271 original size:351 final size:349
Alignment explanation
Indices: 78607731--78608402 Score: 1022
Period size: 351 Copynumber: 1.9 Consensus size: 349
78607721 ACAGCAGACA
* * *
78607731 CATAGCAGATATAACCTTTAGATGTTTATACTGAAACAGATCCAAGATGATTTGGCATTCTTGTG
1 CATAGCAGATATAACCTTCAGATGTTTATACTGAAACAGATCCAAGATGATTCGACATTCTTGTG
* * *
78607796 TTTACAAGAAACAAATCGAAGACATAGCAGATTTGACTTTCGTATGTTCTCACACCAAAGCAGGT
66 CTTACAAGAAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGAT
* * *
78607861 CCAAGATAACAGATTTGGGATCTCCATTTCAACGGAGAGCAGATACATAGCAGATCTAACCTTCA
131 CCAAGATAACAGATCTAGCATCTCCATTTCAACGGAGAGCAGATACATAGCAGATCTAACCTTCA
**
78607926 GATGACTTTACTGAAGCAAATCCAAAATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGGA
196 GATGACTTTACTGAAGCAAATCCAAAATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCAAA
*
78607991 GACACATAGTAGATCTAACCTTCA-GATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCC
261 GACAC--AGTAGATCTAACCTTCACG-TGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCC
78608055 TTGTGTTTACAAGAAGCAAATTGAAGG
323 TTGTGTTTACAAGAAGCAAATTGAAGG
* * *
78608082 CATAGCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTCGACATTCTTGTG
1 CATAGCAGATATAACCTTCAGATGTTTATACTGAAACAGATCCAAGATGATTCGACATTCTTGTG
* *
78608147 CTTACAAGGAACAAATCGAAGATATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGAT
66 CTTACAAGAAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGAT
* * *
78608212 CCAAGATAACAGATCTAGCATCTCCATTTCGACGGAGGGCAGATACATAGCAGATCTAACTTTCA
131 CCAAGATAACAGATCTAGCATCTCCATTTCAACGGAGAGCAGATACATAGCAGATCTAACCTTCA
* * * * *
78608277 GATGATTTTACTGAAGTAGATCTAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCAAA
196 GATGACTTTACTGAAGCAAATCCAAAATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCAAA
* ** * * * *
78608342 GACACAGTAGATTTGGCTTTCACGTGTTTACGCTGAAGTAGATCTAAGATGATTTGGCATC
261 GACACAGTAGATCTAACCTTCACGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATC
78608403 TCTGTATTGT
Statistics
Matches: 288, Mismatches: 32, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
349 46 0.16
350 1 0.00
351 241 0.84
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (349 bp):
CATAGCAGATATAACCTTCAGATGTTTATACTGAAACAGATCCAAGATGATTCGACATTCTTGTG
CTTACAAGAAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGAT
CCAAGATAACAGATCTAGCATCTCCATTTCAACGGAGAGCAGATACATAGCAGATCTAACCTTCA
GATGACTTTACTGAAGCAAATCCAAAATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCAAA
GACACAGTAGATCTAACCTTCACGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCCTTG
TGTTTACAAGAAGCAAATTGAAGG
Found at i:78609898 original size:26 final size:25
Alignment explanation
Indices: 78609834--78609900 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
78609824 ATATATAATT
*
78609834 TATTTATTTTAAAAAACTATACATA
1 TATTTATATTAAAAAACTATACATA
**
78609859 TA-TTATTATTAAAAATACTATTTATA
1 TATTTA-TATTAAAAA-ACTATACATA
*
78609885 TATTTATATAAAAAAA
1 TATTTATATTAAAAAA
78609901 TTTATTTATC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
24 3 0.09
25 11 0.31
26 18 0.51
27 3 0.09
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (25 bp):
TATTTATATTAAAAAACTATACATA
Found at i:78609930 original size:13 final size:14
Alignment explanation
Indices: 78609902--78610047 Score: 63
Period size: 14 Copynumber: 10.6 Consensus size: 14
78609892 ATAAAAAAAT
78609902 TTATTTATCATATA
1 TTATTTATCATATA
*
78609916 TTATTT-TCCTATA
1 TTATTTATCATATA
* *
78609929 TT-TTATATTATATT
1 TTATT-TATCATATA
* *
78609943 TTATTATATAACAT-
1 TTATT-TATCATATA
** *
78609957 TTATTATATTTTTTA
1 TTATT-TATCATATA
*
78609972 TT-TTTATTATATA
1 TTATTTATCATATA
* *
78609985 TTACTTATTATAT-
1 TTATTTATCATATA
* *
78609998 TTTTTTATTATATA
1 TTATTTATCATATA
*
78610012 TTATGTATATCGTATA
1 TTAT-T-TATCATATA
*
78610028 TTATCTAT--TATA
1 TTATTTATCATATA
78610040 TTATTTAT
1 TTATTTAT
78610048 GTTTTATATT
Statistics
Matches: 104, Mismatches: 20, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
12 13 0.12
13 29 0.28
14 39 0.38
15 12 0.12
16 11 0.11
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (14 bp):
TTATTTATCATATA
Found at i:78609982 original size:32 final size:33
Alignment explanation
Indices: 78609936--78610015 Score: 101
Period size: 32 Copynumber: 2.4 Consensus size: 33
78609926 ATATTTTATA
*
78609936 TTATATTTTATTATATAACATTTATTATATTTT
1 TTATATTTTATTATATAACACTTATTATATTTT
**
78609969 TTAT-TTTTATTATATATTACTTATTATATTTT
1 TTATATTTTATTATATAACACTTATTATATTTT
78610001 TT-TATTATATATTAT
1 TTATATT-T-TATTAT
78610016 GTATATCGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
31 1 0.02
32 29 0.71
33 5 0.12
34 6 0.15
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (33 bp):
TTATATTTTATTATATAACACTTATTATATTTT
Found at i:78609987 original size:7 final size:7
Alignment explanation
Indices: 78609925--78610040 Score: 51
Period size: 7 Copynumber: 16.4 Consensus size: 7
78609915 ATTATTTTCC
*
78609925 TATATTT
1 TATATTA
78609932 TATATTA
1 TATATTA
*
78609939 TATTTTA
1 TATATTA
*
78609946 TTATATAA
1 -TATATTA
*
78609954 CAT-TTA
1 TATATTA
*
78609960 TTATATTT
1 -TATATTA
*
78609968 TTTATT-
1 TATATTA
*
78609974 TTTATTA
1 TATATTA
78609981 TATATTA
1 TATATTA
78609988 CT-TATTA
1 -TATATTA
*
78609995 TAT-TTT
1 TATATTA
*
78610001 TTTATTA
1 TATATTA
78610008 TATATTA
1 TATATTA
**
78610015 TGTATATCG
1 --TATATTA
78610024 TATATTA
1 TATATTA
*
78610031 TCTATTA
1 TATATTA
78610038 TAT
1 TAT
78610041 TATTTATGTT
Statistics
Matches: 80, Mismatches: 20, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
6 13 0.16
7 54 0.68
8 8 0.10
9 5 0.06
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (7 bp):
TATATTA
Found at i:78610012 original size:29 final size:28
Alignment explanation
Indices: 78609931--78610012 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 28
78609921 TTCCTATATT
*
78609931 TTATATTATATTTTATTATATA-ACATTTA
1 TTATATT-T-TTTTATTATATATACACTTA
* *
78609960 TTATATTTTTTATTTTTATTATATATTACTTA
1 TTATA-TTTTT-TTATTA-TATATA-CACTTA
78609992 TTATATTTTTTTATTATATAT
1 TTATATTTTTTTATTATATAT
78610013 TATGTATATC
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
28 2 0.05
29 16 0.36
30 11 0.25
31 6 0.14
32 9 0.20
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (28 bp):
TTATATTTTTTTATTATATATACACTTA
Found at i:78610013 original size:20 final size:20
Alignment explanation
Indices: 78609956--78610015 Score: 57
Period size: 25 Copynumber: 2.8 Consensus size: 20
78609946 TTATATAACA
* *
78609956 TTTATTATATTTTTTATTTT
1 TTTATTATATATTATATTTT
78609976 TATTATATATTACTTATTATATTTT
1 T-TTAT-TA-TA--TATTATATTTT
78610001 TTTATTATATATTAT
1 TTTATTATATATTAT
78610016 GTATATCGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
20 7 0.21
21 4 0.12
22 4 0.12
23 4 0.12
24 4 0.12
25 10 0.30
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTATTATATATTATATTTT
Found at i:78610054 original size:23 final size:23
Alignment explanation
Indices: 78609957--78610054 Score: 69
Period size: 23 Copynumber: 4.0 Consensus size: 23
78609947 TATATAACAT
*
78609957 TTATTATATT-TTTTAT-TTTTA
1 TTATTATATTATTATATGTTTTA
*
78609978 TTATATATTACTTATTATATTTTTTTA
1 TTAT-TA-TA-TTATTATA-TGTTTTA
78610005 TTA-TATATTATGTATATCGTATATTA
1 TTATTATATTAT-TATAT-GT-T-TTA
78610031 TCTATTATATTATT-TATGTTTTA
1 T-TATTATATTATTATATGTTTTA
78610054 T
1 T
78610055 ATTGTTCATT
Statistics
Matches: 63, Mismatches: 2, Indels: 22
0.72 0.02 0.25
Matches are distributed among these distances:
21 4 0.06
22 2 0.03
23 11 0.17
24 10 0.16
25 9 0.14
26 8 0.13
27 11 0.17
28 8 0.13
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (23 bp):
TTATTATATTATTATATGTTTTA
Found at i:78610181 original size:19 final size:20
Alignment explanation
Indices: 78610135--78610181 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
78610125 ATTATATACA
* *
78610135 TATTTCA-TTATTATTTATT
1 TATTTCATTTATTATGTAGT
78610154 TATTT-ATTTATTATGT-GT
1 TATTTCATTTATTATGTAGT
78610172 TATTTCATTT
1 TATTTCATTT
78610182 TAAACTGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.68
Consensus pattern (20 bp):
TATTTCATTTATTATGTAGT
Found at i:78612229 original size:172 final size:170
Alignment explanation
Indices: 78611923--78612451 Score: 730
Period size: 172 Copynumber: 3.1 Consensus size: 170
78611913 TTAATTAGTT
** * * *
78611923 TTAATCTTTCGATTGATTTTTAATTAAAATTAATTAATTTAATTAATTTTTGATTTGAACTTTAA
1 TTAATCTTTAAATTGATTTTTAATTAAAATTAATAAATTTAATTAATTTTTAATTTAAACTTTAA
* *
78611988 TTATTAAGTTAAACTTTATGTATTTAA-TTTTATTTTTTAATGGAAATTATCCATACTTTAATAG
66 TTATTAAGTTAAACTTTATGTATTTAATTTTTATTTTTTAATTGAAATTATCTATACTTTAATAG
78612052 GTTTTAATCTTTTCAATTGAAATGTATTAAATTATTTTTTA
131 GTTTTAATCTTTTCAATTGAAATGTATTAAATTA-TTTTTA
* * *
78612093 TTGAATCTTTAAATTGATTTTTTAATTAAAATTAAGAAATTCAATTAATTTTTTATTTAAACTTT
1 TT-AATCTTTAAATTGA-TTTTTAATTAAAATTAATAAATTTAATTAATTTTTAATTTAAACTTT
* * *
78612158 AATTATTAAGTTAAACTTTATGCATTTAATTTTTATTTTTTAATTTAAACTATCTATAC-TTAAT
64 AATTATTAAGTTAAACTTTATGTATTTAATTTTTATTTTTTAATTGAAATTATCTATACTTTAAT
* * * *
78612222 TGGTTTTAATATTTTCAATTGAAATGTACTAAGTTATTTTTA
129 AGGTTTTAATCTTTTCAATTGAAATGTATTAAATTATTTTTA
* * *
78612264 TTTATTCTTTAAATTTATTTTTAATTAAAATTAATAAATTTAATTCATTTTTAATTTAAACTTTA
1 -TTAATCTTTAAATTGATTTTTAATTAAAATTAATAAATTTAATTAATTTTTAATTTAAACTTTA
* * * *
78612329 ATTATTAAGTTAAACTTTATTTATTTATTTATTTATTTTTTACTTGAAATTATCTCTACTTTAAT
65 ATTATTAAGTTAAACTTTATGTATTTAATT-TTTATTTTTTAATTGAAATTATCTATACTTTAAT
* *
78612394 AGGTTCTAATCTTTTCAATTGAAATTTATT--A--ATTTTT-
129 AGGTTTTAATCTTTTCAATTGAAATGTATTAAATTATTTTTA
78612431 TTAATCTTTAAATTGATTTTT
1 TTAATCTTTAAATTGATTTTT
78612452 TACTTGAAAT
Statistics
Matches: 316, Mismatches: 37, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
166 19 0.06
168 6 0.02
170 73 0.23
171 54 0.17
172 139 0.44
173 25 0.08
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (170 bp):
TTAATCTTTAAATTGATTTTTAATTAAAATTAATAAATTTAATTAATTTTTAATTTAAACTTTAA
TTATTAAGTTAAACTTTATGTATTTAATTTTTATTTTTTAATTGAAATTATCTATACTTTAATAG
GTTTTAATCTTTTCAATTGAAATGTATTAAATTATTTTTA
Found at i:78612341 original size:19 final size:19
Alignment explanation
Indices: 78612314--78612353 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
78612304 TAATTCATTT
*
78612314 TTAATTTAAACTTTAATTA
1 TTAAGTTAAACTTTAATTA
*
78612333 TTAAGTTAAACTTTATTTA
1 TTAAGTTAAACTTTAATTA
78612352 TT
1 TT
78612354 TATTTATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (19 bp):
TTAAGTTAAACTTTAATTA
Found at i:78612379 original size:84 final size:84
Alignment explanation
Indices: 78611939--78612380 Score: 267
Period size: 84 Copynumber: 5.2 Consensus size: 84
78611929 TTTCGATTGA
* * *
78611939 TTTTTAATTAAAATTAATTAATTTAATTAATTTTTGATTTGAACTTTAATTATTAAGTTAAACTT
1 TTTTTAATTAAAATTAATAAATTTAATTAATTTTTAATTTAAACTTTAATTATTAAGTTAAACTT
* *
78612004 TATGTATTTA-AT-TTTAT
66 TATTTATTTATTTATTTAT
** * ** * * *
78612021 TTTTTAATGGAAATT-ATCCATACTTTAA-TAGGTTTTAATCTTTTCAA-TTGAAATGTATTAAA
1 TTTTTAATTAAAATTAAT--A-AATTTAATTAATTTTTAA---TTTAAACTT-TAAT-TATTAAG
*** * ** *
78612083 TTATTTTTTATTGAATCTT-TAAATTGAT
58 TTAAACTTTATT-TAT-TTATTTATTTAT
* * *
78612111 TTTTTAATTAAAATTAAGAAATTCAATTAATTTTTTATTTAAACTTTAATTATTAAGTTAAACTT
1 TTTTTAATTAAAATTAATAAATTTAATTAATTTTTAATTTAAACTTTAATTATTAAGTTAAACTT
** *
78612176 TATGCATTTAATT-TTTAT
66 TATTTATTTATTTATTTAT
* * * * * ** * * * *
78612194 TTTTTAATTTAAACTATCTATACTTAATTGGTTTTAATATTTTCAA-TTGAAATGTACTAAGTT-
1 TTTTTAATTAAAATTA-ATAAATTTAATTAATTTT--TAATTTAAACTT-TAAT-TATTAAGTTA
** *
78612257 ATTTTTATTTATTCT-TTAAATTTA-
61 AACTTTATTTATT-TATT-TATTTAT
*
78612281 TTTTTAATTAAAATTAATAAATTTAATTCATTTTTAATTTAAACTTTAATTATTAAGTTAAACTT
1 TTTTTAATTAAAATTAATAAATTTAATTAATTTTTAATTTAAACTTTAATTATTAAGTTAAACTT
78612346 TATTTATTTATTTATTTAT
66 TATTTATTTATTTATTTAT
* *
78612365 TTTTTACTTGAAATTA
1 TTTTTAATTAAAATTA
78612381 TCTCTACTTT
Statistics
Matches: 259, Mismatches: 73, Indels: 54
0.67 0.19 0.14
Matches are distributed among these distances:
81 2 0.01
82 13 0.05
83 41 0.16
84 56 0.22
85 20 0.08
86 48 0.19
87 39 0.15
88 11 0.04
89 11 0.04
90 17 0.07
91 1 0.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (84 bp):
TTTTTAATTAAAATTAATAAATTTAATTAATTTTTAATTTAAACTTTAATTATTAAGTTAAACTT
TATTTATTTATTTATTTAT
Found at i:78618538 original size:28 final size:29
Alignment explanation
Indices: 78618481--78618539 Score: 68
Period size: 30 Copynumber: 2.0 Consensus size: 29
78618471 TTGATTTATA
*
78618481 TATATATATATCTTCTATTTTAAACCATTT
1 TATATAGATATCTTCTATTTTAAA-CATTT
*
78618511 TATATAGATAT-TATCTATTTTTAA-ATTT
1 TATATAGATATCT-TCTATTTTAAACATTT
78618539 T
1 T
78618540 CTACATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 5 0.19
29 1 0.04
30 20 0.77
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.56
Consensus pattern (29 bp):
TATATAGATATCTTCTATTTTAAACATTT
Found at i:78618791 original size:18 final size:19
Alignment explanation
Indices: 78618751--78618792 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
78618741 AAAATTTTTA
*
78618751 TATTATTTATTTTAAGCTCTT
1 TATTATTTATTTCAAG--CTT
78618772 TATTATTTATTTCAAG-TT
1 TATTATTTATTTCAAGCTT
78618790 TAT
1 TAT
78618793 ACATTATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 5 0.25
21 15 0.75
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.62
Consensus pattern (19 bp):
TATTATTTATTTCAAGCTT
Found at i:78630679 original size:44 final size:44
Alignment explanation
Indices: 78630607--78630769 Score: 202
Period size: 44 Copynumber: 3.7 Consensus size: 44
78630597 TTTGGCGAAT
* * **
78630607 CTTATCTTCCTGAAGTTGTAGTGAAGCAGATCGAAGCCACTAAC
1 CTTATCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGTAACTAAC
* * * * *
78630651 CTTATCTCCCTAAAGTTGCAGTGGAGCAGA-CTGAAGATGACGAAT
1 CTTATCTCCCTGAAGTTGCAGTGAAGCAGATC-GAAG-TAACTAAC
*
78630696 CTTATCTTCCTGAAGTTGCAGTGAAGCAGATCGAAGTAACTAAC
1 CTTATCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGTAACTAAC
*
78630740 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 CTTATCTCCCTGAAGTTGCAGTGAAGCAGA
78630770 CTAAAGATAG
Statistics
Matches: 100, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
43 1 0.01
44 63 0.63
45 35 0.35
46 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGAAGCAGATCGAAGTAACTAAC
Done.