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 147 of 276
Found at i:47888883 original size:60 final size:60
Alignment explanation
Indices: 47888798--47888950 Score: 150
Period size: 60 Copynumber: 2.6 Consensus size: 60
47888788 ATATATTTTA
* ** * *
47888798 TTAATTTAATCCTAAATCTAAAAATTTC-ACAAATTTAACCATCAATATTTACAAGATTTG
1 TTAATTTAATTCTACTTCTAAAAA-TTCAACAAATTTAACCATCAACATTTACAAAATTTG
* * ** *
47888858 TT-ATTTAGTTCTACTTCTAATAAATTCAATAAATTTAGTCATGAACATTTACAAAATTTG
1 TTAATTTAATTCTACTTCTAA-AAATTCAACAAATTTAACCATCAACATTTACAAAATTTG
* * *
47888918 TTAATTTAATTCTAATTATAAAAGTT-AACAAAT
1 TTAATTTAATTCTACTTCTAAAAATTCAACAAAT
47888951 ATTTTAAAAA
Statistics
Matches: 75, Mismatches: 15, Indels: 7
0.77 0.15 0.07
Matches are distributed among these distances:
59 23 0.31
60 37 0.49
61 15 0.20
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.41
Consensus pattern (60 bp):
TTAATTTAATTCTACTTCTAAAAATTCAACAAATTTAACCATCAACATTTACAAAATTTG
Found at i:47890093 original size:66 final size:68
Alignment explanation
Indices: 47890014--47890197 Score: 201
Period size: 69 Copynumber: 2.7 Consensus size: 68
47890004 ACTAATATGG
* * * *
47890014 GATTAAAACTAACTTTCTAATAAAAATAG-T-GAAGTGAGCTATGGGAATATTCTATAGTCAATG
1 GATTAAAATTAACTTTTTAATAAAAATAGTTAGAAGTGAGCTATGAGAATATTCTATAGCCAATG
47890077 TAA
66 TAA
* ** * *
47890080 GGTTAAAATTAACTTTTTAAGGAAAATAGTTTAGAAGTGAGCTATGAGAGTATTCTCTAGCCAAT
1 GATTAAAATTAACTTTTTAATAAAAATAG-TTAGAAGTGAGCTATGAGAATATTCTATAGCCAAT
*
47890145 GTGA
65 GTAA
* * ** *
47890149 GATTAAAATTAACTTTTTAATGAAATTAGCAAAATAGTGAGCTATGAGA
1 GATTAAAATTAACTTTTTAATAAAAATAGTTAGA-AGTGAGCTATGAGA
47890198 GTTAGTCAAT
Statistics
Matches: 98, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
66 24 0.24
68 3 0.03
69 71 0.72
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (68 bp):
GATTAAAATTAACTTTTTAATAAAAATAGTTAGAAGTGAGCTATGAGAATATTCTATAGCCAATG
TAA
Found at i:47891098 original size:22 final size:20
Alignment explanation
Indices: 47891068--47891130 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
47891058 TACATATTTC
47891068 ATTATTTATATTTAATAATATA
1 ATTA-TTATATTTAATAATA-A
* *
47891090 ATTAAT-TATTTAATATTACA
1 ATTATTATATTTAATAATA-A
47891110 ATT-TTAT-TTTAATAATAA
1 ATTATTATATTTAATAATAA
47891128 ATT
1 ATT
47891131 TAACCATAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 4 0.11
19 10 0.29
20 16 0.46
21 1 0.03
22 4 0.11
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTATTATATTTAATAATAA
Found at i:47891202 original size:27 final size:27
Alignment explanation
Indices: 47891164--47891220 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
47891154 AAAAATATTC
*
47891164 TTAATATATTATTGAA-AAATATATTTA
1 TTAATATATTATT-AATAAATATATATA
*
47891191 TTAATATTTTATTAATAAATATATATA
1 TTAATATATTATTAATAAATATATATA
47891218 TTA
1 TTA
47891221 CAAATTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (27 bp):
TTAATATATTATTAATAAATATATATA
Found at i:47891550 original size:12 final size:13
Alignment explanation
Indices: 47891524--47891554 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
47891514 TAAGAACAAC
47891524 TTTTAGGAAATTT
1 TTTTAGGAAATTT
47891537 TTTTAGGAAATTT
1 TTTTAGGAAATTT
47891550 TTTTA
1 TTTTA
47891555 AAAAAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (13 bp):
TTTTAGGAAATTT
Found at i:47892231 original size:16 final size:16
Alignment explanation
Indices: 47892160--47892236 Score: 68
Period size: 16 Copynumber: 4.9 Consensus size: 16
47892150 GTTTTGCCCA
*
47892160 TGTTTTTTAGGGCTAG
1 TGTTTTTTAGGGTTAG
* * *
47892176 GGTTTTTTAAGGTTTAA
1 TGTTTTTT-AGGGTTAG
**
47892193 T-TGATTTAGGGTTAG
1 TGTTTTTTAGGGTTAG
*
47892208 -GATTTTTAGGGTTAG
1 TGTTTTTTAGGGTTAG
47892223 TGTTTTTTAGGGTT
1 TGTTTTTTAGGGTT
47892237 TAGAATTTAA
Statistics
Matches: 45, Mismatches: 13, Indels: 6
0.70 0.20 0.09
Matches are distributed among these distances:
15 17 0.38
16 23 0.51
17 5 0.11
ACGTcount: A:0.17, C:0.01, G:0.30, T:0.52
Consensus pattern (16 bp):
TGTTTTTTAGGGTTAG
Found at i:47892361 original size:16 final size:16
Alignment explanation
Indices: 47892340--47892371 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
47892330 ATTATGGTTA
47892340 ATTGATTAAATTAGGG
1 ATTGATTAAATTAGGG
*
47892356 ATTGATTAAGTTAGGG
1 ATTGATTAAATTAGGG
47892372 TTAATTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.28, T:0.38
Consensus pattern (16 bp):
ATTGATTAAATTAGGG
Found at i:47892377 original size:35 final size:37
Alignment explanation
Indices: 47892335--47892419 Score: 102
Period size: 39 Copynumber: 2.3 Consensus size: 37
47892325 AGGGTATTAT
47892335 GGTTAATTGATTAA-ATTAGGG-ATTGATTAAGTTAG
1 GGTTAATTGATTAATATTAGGGTATTGATTAAGTTAG
* * *
47892370 GGTTAATTAATTAATTTTAGGGTTAATTGATTAATTTAG
1 GGTTAATTGATTAATATTAGGG-T-ATTGATTAAGTTAG
*
47892409 AGTTAATTGAT
1 GGTTAATTGAT
47892420 ACATAATCGT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
35 13 0.32
36 6 0.15
39 22 0.54
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (37 bp):
GGTTAATTGATTAATATTAGGGTATTGATTAAGTTAG
Found at i:47892391 original size:20 final size:19
Alignment explanation
Indices: 47892335--47892416 Score: 80
Period size: 19 Copynumber: 4.4 Consensus size: 19
47892325 AGGGTATTAT
* *
47892335 GGTTAATTGATTAAATTAG
1 GGTTAATTAATTAATTTAG
* *
47892354 GG---ATTGATTAAGTTAG
1 GGTTAATTAATTAATTTAG
47892370 GGTTAATTAATTAATTTTAG
1 GGTTAATTAATTAA-TTTAG
*
47892390 GGTTAATTGATTAATTTAG
1 GGTTAATTAATTAATTTAG
*
47892409 AGTTAATT
1 GGTTAATT
47892417 GATACATAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
16 15 0.28
19 22 0.41
20 17 0.31
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (19 bp):
GGTTAATTAATTAATTTAG
Found at i:47893231 original size:126 final size:126
Alignment explanation
Indices: 47893006--47893764 Score: 1191
Period size: 126 Copynumber: 6.0 Consensus size: 126
47892996 TTTCTGCAAG
* * * *
47893006 AATAATTTTGAGTAGACATTTCTGAACAAATAGTGTCGAAAATGCTTCAAGCAGGATGCACTGTT
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* * *
47893071 AGTAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTGTAGAAA
66 AGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAATAGTTCGTAGAAA
* *
47893132 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAAGATGCACTGTT
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* * *
47893197 AGTAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTGTAGAAA
66 AGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAATAGTTCGTAGAAA
47893258 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* ** *
47893323 AGCAAAAATTCT-ATAAAAAGCTCATACATGGACGCTCTTTTGCTACAATAGTTCGTAGAAA
66 AGCAAAATTTCTGA-AAAAAGCTCCCACGTGGACGCTCTTTTGCTACAATAGTTCGTAGAAA
*
47893384 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATACACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* * * *
47893449 AGCAAAAATTCT-ATAAAAAGCTCCTACATGGACGCTCTTTTGCTACAATAGTTCGTATAAA
66 AGCAAAATTTCTGA-AAAAAGCTCCCACGTGGACGCTCTTTTGCTACAATAGTTCGTAGAAA
47893510 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* *
47893575 AGCAAAATTTTTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTATAATAGTTCGTAGAAA
66 AGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAATAGTTCGTAGAAA
* * *
47893636 AATAATTCTAAGTAGACGTTTCTGAACAAATAGTGTC-AGAAATGCTTAAAGCAGGATGCACTGT
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGA-AAACGCTTCAAGCAGGATGCACTGT
** * * *
47893700 CAGCAAAATTTCTGAAAAAATTTCCCATGTGGACGCTCTTTTGCTATAGTAGTTCGTAGAAA
65 CAGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAATAGTTCGTAGAAA
47893762 AAT
1 AAT
47893765 GAGGCTATAA
Statistics
Matches: 599, Mismatches: 31, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
125 2 0.00
126 596 0.99
127 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
AGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAATAGTTCGTAGAAA
Found at i:47897259 original size:18 final size:18
Alignment explanation
Indices: 47897236--47897273 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
47897226 AAAAAAGAAA
*
47897236 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
47897254 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
47897272 AC
1 AC
47897274 GCACTTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Found at i:47897889 original size:7 final size:7
Alignment explanation
Indices: 47897867--47897905 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
47897857 CATAATACAT
47897867 AATACTA
1 AATACTA
* *
47897874 GATATTA
1 AATACTA
47897881 AATACTA
1 AATACTA
47897888 AATACTA
1 AATACTA
47897895 AATACTA
1 AATACTA
47897902 AATA
1 AATA
47897906 TGAAACGACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.56, C:0.10, G:0.03, T:0.31
Consensus pattern (7 bp):
AATACTA
Found at i:47898974 original size:48 final size:48
Alignment explanation
Indices: 47898889--47899022 Score: 150
Period size: 48 Copynumber: 2.8 Consensus size: 48
47898879 ATGCAAACAT
* ** * * *
47898889 CATAAA-TGAAAAAAAATCAAGCAATATAGAAATTTTAATTATAA-TTG
1 CATAAATTGAAAAAATATCAAATAGTATTGAAAATTTAATTA-AATTTG
47898936 CATAAA-TGAATAAAATATCAAATAGTATT-ATAAATTTAATTAAATTTG
1 CATAAATTGAA-AAAATATCAAATAGTATTGA-AAATTTAATTAAATTTG
*
47898984 CATAAATTTAAAAAATATCAAATAGTATTGAAAATTTAA
1 CATAAATTGAAAAAATATCAAATAGTATTGAAAATTTAA
47899023 AATTATCACT
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
47 13 0.17
48 58 0.77
49 4 0.05
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (48 bp):
CATAAATTGAAAAAATATCAAATAGTATTGAAAATTTAATTAAATTTG
Found at i:47899950 original size:14 final size:14
Alignment explanation
Indices: 47899910--47899951 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
47899900 TCCTTACATG
*
47899910 AATTATTTTTAAAA
1 AATTATTATTAAAA
*
47899924 AA-TATAATTAAAA
1 AATTATTATTAAAA
*
47899937 AATTATTATCAAAA
1 AATTATTATTAAAA
47899951 A
1 A
47899952 CGCTTCCACA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTATTATTAAAA
Found at i:47900663 original size:123 final size:124
Alignment explanation
Indices: 47900391--47901033 Score: 645
Period size: 126 Copynumber: 5.2 Consensus size: 124
47900381 CAGATGAAAA
* * * * *
47900391 TTTTTTTGTTCAGTAGTT-TCTAAAAAAATAATTTTAAGAAGACAATTCTGAAAAAAATAGTGTC
1 TTTTTTTCTACAGTAGTTCT-TGAAAAAATAATTTTGAGAAGACAGTTCTG-AAAAAATAGTGTC
* * * **
47900455 AAAAATGCTTCAAGTAGGGTGCACTACCAGCAAAAGTACT---AAAAGCTCCCACATGGACGC
64 AAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAAAAGCTCCCACATGGA--C
* * * * *
47900515 TCTTTTTCTACAGTAGTT-TCTAAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAATGTC-
1 TTTTTTTCTACAGTAGTTCT-TGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCA
* ** * * *
47900578 AAAACGCTTTAAGCAGGATATACTGTCAGCGAAAGTATTGAAAAAAGCTCCCACATGGAC
65 AAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAAAAGCTCCCACATGGAC
* * * *
47900638 TTTTTTTCTATAGTAGTTC-TGAAAAAATAAATTTGAGAAGACAGTTTTGAAAAAATAGTGTAAA
1 TTTTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAA
* * * * * * * *
47900702 AAAAGCTTCAAGAAGAATGTACTGTCAGTAAAAGTAC-AGAAAACAGCTCCCACGTTGACAC
66 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTA-AAAAAAGCTCCCAC-ATG-GAC
* * * * * *
47900763 TCTTTTCCTACAGTAGTTCTTGAGAAAATAATTTTAAGAAGACGGTTCTAAAAAAATAGTGTCAA
1 TTTTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAA
* ** *
47900828 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAAATACTAAAAAAAGCTCCCATGTAGAC
66 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAAAAGCTCCCACATGGAC
* * **
47900887 TCTCTTATTCTACAATAGTTCTTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAATGTAGTGTC
1 T-T-TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTC
* * * * *
47900952 AAAAATGCTTCAAGCAGGATGCATTGTTAGCAAAAGTACTAAAAAAAGCTCCCACGTCGATGC
64 AAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAAAAGCTCCCACATGGA--C
*
47901015 TTTTTTTCTACAGCAGTTC
1 TTTTTTTCTACAGTAGTTC
47901034 CTACTTGGCC
Statistics
Matches: 428, Mismatches: 77, Indels: 26
0.81 0.15 0.05
Matches are distributed among these distances:
122 67 0.16
123 72 0.17
124 48 0.11
125 36 0.08
126 201 0.47
127 2 0.00
128 2 0.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (124 bp):
TTTTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAA
AAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAAAAGCTCCCACATGGAC
Found at i:47902601 original size:22 final size:20
Alignment explanation
Indices: 47902571--47902633 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
47902561 TACATATTTC
47902571 ATTATTTATATTTAATAATATA
1 ATTA-TTATATTTAATAATA-A
* *
47902593 ATTAAT-TATTTAATATTACA
1 ATTATTATATTTAATAATA-A
47902613 ATT-TTAT-TTTAATAATAA
1 ATTATTATATTTAATAATAA
47902631 ATT
1 ATT
47902634 TAACCATAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 4 0.11
19 10 0.29
20 16 0.46
21 1 0.03
22 4 0.11
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTATTATATTTAATAATAA
Found at i:47902705 original size:27 final size:27
Alignment explanation
Indices: 47902667--47902723 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
47902657 AAAAATATTC
*
47902667 TTAATATATTATTGAA-AAATATATTTA
1 TTAATATATTATT-AATAAATATATATA
*
47902694 TTAATATTTTATTAATAAATATATATA
1 TTAATATATTATTAATAAATATATATA
47902721 TTA
1 TTA
47902724 CAAATTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (27 bp):
TTAATATATTATTAATAAATATATATA
Found at i:47903053 original size:12 final size:13
Alignment explanation
Indices: 47903027--47903057 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
47903017 TAAGAACAAC
47903027 TTTTAGGAAATTT
1 TTTTAGGAAATTT
47903040 TTTTAGGAAATTT
1 TTTTAGGAAATTT
47903053 TTTTA
1 TTTTA
47903058 AAAAAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (13 bp):
TTTTAGGAAATTT
Found at i:47903734 original size:16 final size:16
Alignment explanation
Indices: 47903662--47903739 Score: 72
Period size: 16 Copynumber: 4.9 Consensus size: 16
47903652 CGTTTTGCCC
*
47903662 GTGTTTTTTAGGGCTA
1 GTGTTTTTTAGGGTTA
* *
47903678 GGGTTTTTTAAGGTTTAA
1 GTGTTTTTT-AGGGTT-A
*
47903696 GTG--ATTTAGGGTTA
1 GTGTTTTTTAGGGTTA
*
47903710 G-GATTTTTAGGGTTA
1 GTGTTTTTTAGGGTTA
47903725 GTGTTTTTTAGGGTT
1 GTGTTTTTTAGGGTT
47903740 TAGAATTTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
13 1 0.02
14 2 0.04
15 16 0.33
16 23 0.47
17 4 0.08
18 3 0.06
ACGTcount: A:0.17, C:0.01, G:0.32, T:0.50
Consensus pattern (16 bp):
GTGTTTTTTAGGGTTA
Found at i:47903864 original size:16 final size:16
Alignment explanation
Indices: 47903843--47903874 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
47903833 ATTATGGTTA
47903843 ATTGATTAAATTAGGG
1 ATTGATTAAATTAGGG
*
47903859 ATTGATTAAGTTAGGG
1 ATTGATTAAATTAGGG
47903875 TTAATTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.28, T:0.38
Consensus pattern (16 bp):
ATTGATTAAATTAGGG
Found at i:47903886 original size:35 final size:37
Alignment explanation
Indices: 47903838--47903919 Score: 96
Period size: 39 Copynumber: 2.2 Consensus size: 37
47903828 AGGGTATTAT
*
47903838 GGTTAATTGATTAA-ATTAGGG-ATTGATTAAGTTAG
1 GGTTAATTAATTAATATTAGGGTATTGATTAAGTTAG
* *
47903873 GGTTAATTAATTAATTTTAGGGTTAATTGATTAATTTAG
1 GGTTAATTAATTAATATTAGGG-T-ATTGATTAAGTTAG
*
47903912 AGTTAATT
1 GGTTAATT
47903920 GATACATAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 13 0.33
36 6 0.15
39 20 0.51
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (37 bp):
GGTTAATTAATTAATATTAGGGTATTGATTAAGTTAG
Found at i:47903894 original size:20 final size:19
Alignment explanation
Indices: 47903838--47903919 Score: 80
Period size: 19 Copynumber: 4.4 Consensus size: 19
47903828 AGGGTATTAT
* *
47903838 GGTTAATTGATTAAATTAG
1 GGTTAATTAATTAATTTAG
* *
47903857 GG---ATTGATTAAGTTAG
1 GGTTAATTAATTAATTTAG
47903873 GGTTAATTAATTAATTTTAG
1 GGTTAATTAATTAA-TTTAG
*
47903893 GGTTAATTGATTAATTTAG
1 GGTTAATTAATTAATTTAG
*
47903912 AGTTAATT
1 GGTTAATT
47903920 GATACATAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
16 15 0.28
19 22 0.41
20 17 0.31
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (19 bp):
GGTTAATTAATTAATTTAG
Found at i:47904735 original size:126 final size:126
Alignment explanation
Indices: 47904510--47905142 Score: 993
Period size: 126 Copynumber: 5.0 Consensus size: 126
47904500 TTTCTGCAAG
* * *
47904510 AATAATTTTGAGTAGACATTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTT
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* * *
47904575 AGTAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTGTAGAAA
66 AGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAATAGTTCGTAGAAA
*
47904636 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATACACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* * * *
47904701 AGCAAAAATTCT-ATAAAAAGCTCCTACATGGACGCTCTTTTGCTACAATAGTTTGTAGAAA
66 AGCAAAATTTCTGA-AAAAAGCTCCCACGTGGACGCTCTTTTGCTACAATAGTTCGTAGAAA
*
47904762 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATACACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* * * *
47904827 AGCAAAAATTCT-ATAAAAAGCTCCTACATGGACGCTCTTTTGCTACAATAGTTCGTATAAA
66 AGCAAAATTTCTGA-AAAAAGCTCCCACGTGGACGCTCTTTTGCTACAATAGTTCGTAGAAA
47904888 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* *
47904953 AGCAAAATTTTTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTATAATAGTTCGTAGAAA
66 AGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAATAGTTCGTAGAAA
* * *
47905014 AATAATTCTAAGTAGACGTTTCTGAACAAATAGTGTC-AGAAATGCTTAAAGCAGGATGCACTGT
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGA-AAACGCTTCAAGCAGGATGCACTGT
** * *
47905078 CAGCAAAATTTCTGAAAAAATTTCCCATGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
65 CAGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAATAGTTCGTAGAAA
47905140 AAT
1 AAT
47905143 GAGGCTATAA
Statistics
Matches: 477, Mismatches: 27, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
125 2 0.00
126 474 0.99
127 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
AGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAATAGTTCGTAGAAA
Found at i:47908641 original size:18 final size:18
Alignment explanation
Indices: 47908618--47908652 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
47908608 AAAGAAAACC
*
47908618 TATAAGGGTTAGGATACA
1 TATAAGGGCTAGGATACA
47908636 TATAAGGGCTAGGATAC
1 TATAAGGGCTAGGATAC
47908653 GCACCTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.29, T:0.26
Consensus pattern (18 bp):
TATAAGGGCTAGGATACA
Found at i:47909268 original size:7 final size:7
Alignment explanation
Indices: 47909246--47909284 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
47909236 CATAATACAT
47909246 AATACTA
1 AATACTA
* *
47909253 GATATTA
1 AATACTA
47909260 AATACTA
1 AATACTA
47909267 AATACTA
1 AATACTA
47909274 AATACTA
1 AATACTA
47909281 AATA
1 AATA
47909285 TGAAACGACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.56, C:0.10, G:0.03, T:0.31
Consensus pattern (7 bp):
AATACTA
Found at i:47910322 original size:48 final size:48
Alignment explanation
Indices: 47910268--47910402 Score: 132
Period size: 48 Copynumber: 2.8 Consensus size: 48
47910258 ATGAAAACAT
* *
47910268 CATAAATGAAAAAAAAATCAAGCAATA-TAGAAATTTTAATTATAA-TTG
1 CATAAATGAAAAAAATATCAAACAATATTAGAAA-TTTAATTA-AATTTG
* * * *
47910316 CATAAATGAATAAAATATCAAATAGTATTATAAATTTAATTAAATTTG
1 CATAAATGAAAAAAATATCAAACAATATTAGAAATTTAATTAAATTTG
** * *
47910364 CATAAATTTAAAAAATATCAAATAGTATT-GAAAATTTAA
1 CATAAATGAAAAAAATATCAAACAATATTAG-AAATTTAA
47910403 AATTATCACT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
47 2 0.03
48 67 0.91
49 5 0.07
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (48 bp):
CATAAATGAAAAAAATATCAAACAATATTAGAAATTTAATTAAATTTG
Found at i:47911329 original size:14 final size:14
Alignment explanation
Indices: 47911290--47911330 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
47911280 TCCTTACATG
47911290 AATTATT-TTAAAA
1 AATTATTATTAAAA
*
47911303 AA-TATAATTAAAA
1 AATTATTATTAAAA
*
47911316 AATTATTATCAAAA
1 AATTATTATTAAAA
47911330 A
1 A
47911331 CGCTTCCACA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
12 3 0.13
13 10 0.43
14 10 0.43
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (14 bp):
AATTATTATTAAAA
Found at i:47911651 original size:33 final size:33
Alignment explanation
Indices: 47911611--47911693 Score: 103
Period size: 34 Copynumber: 2.5 Consensus size: 33
47911601 AGGTTGAGGG
* *
47911611 TTTTTTAAAATAAATTAAATTAGGGTTTAAGGT
1 TTTTTTAAAATAAATTAAATTAGAGTTTAAGGA
* *
47911644 TTTTTTAAAAATAATTTAAATTAGAGTTTAGGGA
1 TTTTTT-AAAATAAATTAAATTAGAGTTTAAGGA
* *
47911678 TTTCTAAAAATAAATT
1 TTTTTTAAAATAAATT
47911694 TGTGTTTAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
33 15 0.36
34 27 0.64
ACGTcount: A:0.42, C:0.01, G:0.12, T:0.45
Consensus pattern (33 bp):
TTTTTTAAAATAAATTAAATTAGAGTTTAAGGA
Found at i:47911655 original size:34 final size:33
Alignment explanation
Indices: 47911607--47911693 Score: 113
Period size: 33 Copynumber: 2.6 Consensus size: 33
47911597 GTTAAGGTTG
*
47911607 AGGGTTTTTT-AAAATAAATTAAATTAGGGTTT
1 AGGGTTTTTTAAAAATAAATTAAATTAGAGTTT
* *
47911639 AAGGTTTTTTTAAAAATAATTTAAATTAGAGTTT
1 -AGGGTTTTTTAAAAATAAATTAAATTAGAGTTT
* *
47911673 AGGGATTTCTAAAAATAAATT
1 AGGGTTTTTTAAAAATAAATT
47911694 TGTGTTTAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
33 26 0.57
34 20 0.43
ACGTcount: A:0.41, C:0.01, G:0.15, T:0.43
Consensus pattern (33 bp):
AGGGTTTTTTAAAAATAAATTAAATTAGAGTTT
Found at i:47912207 original size:126 final size:126
Alignment explanation
Indices: 47911790--47912410 Score: 684
Period size: 126 Copynumber: 5.0 Consensus size: 126
47911780 GTAGTTTCTA
* ** * * *
47911790 AAAAAATAATTTTAAGAAGACACTTCTGAAAAAAATAGTGTCAAAAATGCTTCAAGTAGGGT-TC
1 AAAAAATAATTTTGAGAAGACGGTTCTG-AAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGT-
** * * * *
47911854 ACTACCAGCAAAAGTACT---AAAAGCTCCCACGTGGACGCTCTTTTTCTATAGTAGTT-TCTA
64 ACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTTGACACTCTTTTTCTACAGTAGTTCT-TG
* * * *
47911914 AAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAATGTC-AAAACGCTTTAAGCAGGATATAC
1 AAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGTAC
* * * * *
47911978 TGTCAGCAAAAGTATTGAAAAAAGCTCCCAC-ATG-GACTTTTTTTCTATAGTAGTTC-TG
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTTGACACTCTTTTTCTACAGTAGTTCTTG
* * * * * *
47912036 AAAAAATAAATATGAGAAGACGGTTTTGAAAAAATAGTGTAAAAAACGCTTCAAGAAGAATGTAC
1 AAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGTAC
* * * * *
47912101 TGTCAGTAAAAGTACTGAAAACAGCTTCCATGTTGACACTCTTTTCCTACAGTAGTTCTTG
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTTGACACTCTTTTTCTACAGTAGTTCTTG
* * * *
47912162 AGAAAATAATTTTAAGAAGACGGTTCTAAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
1 AAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGTAC
* * * * *
47912227 TGTCAGCAAAAGTACTGAAAAAAGCTCCCATGTAGACTCTCTTATTCTACAATAGTTCTTG
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTTGACACTCTTTTTCTACAGTAGTTCTTG
* * * * *
47912288 AAAAAATAATTTTGAGAAGACAGTTCTGAAAAAGTAGTGTCAAAAATGCTTCAAGCAGGATGCAT
1 AAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGTAC
* * * ** *
47912353 TGTTAGCAAAAGTACTAAAAAAAGCTCCCACGTCGATGCTTTTTTTCTACAGTAGTTC
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTTGACACTCTTTTTCTACAGTAGTTC
47912411 CTGCTTGGCC
Statistics
Matches: 418, Mismatches: 70, Indels: 16
0.83 0.14 0.03
Matches are distributed among these distances:
122 68 0.16
123 76 0.18
124 27 0.06
125 30 0.07
126 217 0.52
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (126 bp):
AAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGTAC
TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTTGACACTCTTTTTCTACAGTAGTTCTTG
Found at i:47913910 original size:13 final size:13
Alignment explanation
Indices: 47913892--47913916 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47913882 TTACACCTGC
47913892 TAGGCACGAAGGT
1 TAGGCACGAAGGT
47913905 TAGGCACGAAGG
1 TAGGCACGAAGG
47913917 CCCGAATACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.40, T:0.12
Consensus pattern (13 bp):
TAGGCACGAAGGT
Found at i:47914016 original size:38 final size:38
Alignment explanation
Indices: 47913960--47914389 Score: 743
Period size: 38 Copynumber: 11.3 Consensus size: 38
47913950 GGCACGAAGG
* * * *
47913960 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
47913998 CCTGGATATAATACCAGCACGAAGCTTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* ** *
47914036 CCCAGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
47914075 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
47914114 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
47914152 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
47914190 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
47914228 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
47914266 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
47914304 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
47914342 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
47914380 CCCGGATATA
1 CCCGGATATA
47914390 CATCGAATAT
Statistics
Matches: 372, Mismatches: 18, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
38 333 0.90
39 10 0.03
40 29 0.08
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.20
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:47918145 original size:40 final size:40
Alignment explanation
Indices: 47918096--47918243 Score: 188
Period size: 40 Copynumber: 3.7 Consensus size: 40
47918086 ACTCAATATC
* * * * *
47918096 TTGCACACTAAGTGCCGTACATAGTTGAAGCTATCTCAAA
1 TTGCACACTAAGTGCCATATATAGTCGAAGCTATATCGAA
* * *
47918136 TTGCACACTAAGTGCCATATATAGCCGAAGCTATGTTGAA
1 TTGCACACTAAGTGCCATATATAGTCGAAGCTATATCGAA
* *
47918176 TCGCACACTGAGTGCCATATATAGTCGAAGCTATATCGAA
1 TTGCACACTAAGTGCCATATATAGTCGAAGCTATATCGAA
* *
47918216 TTTCACACTAAGTGCCATATATAATCGA
1 TTGCACACTAAGTGCCATATATAGTCGA
47918244 TTTGTCATCG
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 92 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.28
Consensus pattern (40 bp):
TTGCACACTAAGTGCCATATATAGTCGAAGCTATATCGAA
Found at i:47924301 original size:35 final size:35
Alignment explanation
Indices: 47924250--47924363 Score: 140
Period size: 35 Copynumber: 3.3 Consensus size: 35
47924240 AGTGCCACGA
* * * *
47924250 TTCACAACTCAGTATGGTTAATACCATACTTACGT
1 TTCATAACTCAGTATGGATAATACCATACCTACAT
*
47924285 TTCATAACTCGGTATGGGA-AATACCATACCTACAT
1 TTCATAACTCAGTAT-GGATAATACCATACCTACAT
* *
47924320 ATCATAGCTCAGTATGGATAATACCATACCTACAT
1 TTCATAACTCAGTATGGATAATACCATACCTACAT
*
47924355 GTCATAACT
1 TTCATAACT
47924364 TTGCCATAGA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
34 3 0.04
35 62 0.93
36 2 0.03
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.31
Consensus pattern (35 bp):
TTCATAACTCAGTATGGATAATACCATACCTACAT
Found at i:47927129 original size:27 final size:27
Alignment explanation
Indices: 47927098--47927176 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
47927088 TTCACGAATG
* *
47927098 CATATTGAGTCCGCACACTTAGTGCAT
1 CATATTCAGTCCGCACACTTAGTGCAA
* *
47927125 CATATTCATTTCGCACACTTAGTGCAA
1 CATATTCAGTCCGCACACTTAGTGCAA
* *
47927152 CATAGTCAAAT-CGCACACTTAGTGC
1 CATATTC-AGTCCGCACACTTAGTGC
47927177 TGTACAATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 43 0.96
28 2 0.04
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (27 bp):
CATATTCAGTCCGCACACTTAGTGCAA
Found at i:47931899 original size:40 final size:40
Alignment explanation
Indices: 47931850--47931989 Score: 199
Period size: 40 Copynumber: 3.5 Consensus size: 40
47931840 ACTCAATATC
*** * *
47931850 TCGCACACTAAGTGTTGTACATAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCAAA
*
47931890 TCGCACACTAAGTGCCATATATAGCCGAAGTTATGTCAAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCAAA
* * *
47931930 TCGCACACTGAGTGCCATTTATAGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCAAA
47931970 TCGCACACTAAGTGCCATAT
1 TCGCACACTAAGTGCCATAT
47931990 GTAACCAATT
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 88 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCAAA
Found at i:47936695 original size:47 final size:47
Alignment explanation
Indices: 47936626--47936823 Score: 315
Period size: 47 Copynumber: 4.2 Consensus size: 47
47936616 CATTTTTGAA
47936626 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
47936673 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
47936720 ATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * * * *
47936767 ATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
47936814 ATGTGATAAG
1 ATGTGATAAG
47936824 TCCCGAAGGG
Statistics
Matches: 141, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 141 1.00
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
Found at i:47937875 original size:49 final size:49
Alignment explanation
Indices: 47937608--47938622 Score: 1502
Period size: 47 Copynumber: 21.2 Consensus size: 49
47937598 CCCTTCGGGA
* * * * *
47937608 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * * * *
47937655 CCTGTCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * * * *
47937702 CCTGTCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * * * *
47937749 CCTGTCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47937796 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47937843 CTTATCACATATATATATACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47937892 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47937941 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47937990 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47938039 CTTATCACATATATATACACTTTCAGATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47938088 CTTATCACATATATATACACTTTCAGATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47938137 CTTATCACATATATATACACTTTCAGATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47938186 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47938235 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47938284 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47938331 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47938378 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47938425 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47938472 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47938519 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47938566 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47938613 CTTATCACAT
1 CTTATCACAT
47938623 TTCAAAAATG
Statistics
Matches: 941, Mismatches: 21, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
46 1 0.00
47 513 0.55
49 427 0.45
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47945301 original size:684 final size:684
Alignment explanation
Indices: 47943994--47945362 Score: 2738
Period size: 684 Copynumber: 2.0 Consensus size: 684
47943984 TTTGTTGTCT
47943994 TTATGCTTTCGAGATGTTTTCTTTCATAAGTATGAACTAAACCCCCTAAATACCTAAGGGGAATG
1 TTATGCTTTCGAGATGTTTTCTTTCATAAGTATGAACTAAACCCCCTAAATACCTAAGGGGAATG
47944059 AAACCTAAAACAGACCTTGTTATTATTATCTGAATTGTATAATAAATATTTGACTTGTTCTTAAT
66 AAACCTAAAACAGACCTTGTTATTATTATCTGAATTGTATAATAAATATTTGACTTGTTCTTAAT
47944124 TATGTGTTCTTAATTCTTGTTTTGATATTCCGGGATATTGATTCAAGTTAAGCTCTTATTCAGTG
131 TATGTGTTCTTAATTCTTGTTTTGATATTCCGGGATATTGATTCAAGTTAAGCTCTTATTCAGTG
47944189 GAGAAATAGACCCTGTCTAAGAGTAAATTTATCATAATTAAGTGGAGTTGATTGCACGCCTAGAG
196 GAGAAATAGACCCTGTCTAAGAGTAAATTTATCATAATTAAGTGGAGTTGATTGCACGCCTAGAG
47944254 ATAGGGTGATAAGATTTTGCCGTATTAGGGTGAAACCTAATAAGGGAATCCATAGATCGAGTTAA
261 ATAGGGTGATAAGATTTTGCCGTATTAGGGTGAAACCTAATAAGGGAATCCATAGATCGAGTTAA
47944319 TGCAATTCTAGGGTGTTAATTAGAAAGAAATTTCAATTATTCAACCTAGGGTTGGACGTTATTAG
326 TGCAATTCTAGGGTGTTAATTAGAAAGAAATTTCAATTATTCAACCTAGGGTTGGACGTTATTAG
47944384 TCTCGAGAGAGATAATAATATAACTTAGGGATTTCTACGGATCAAGTCAAATGAATAAATCGTCT
391 TCTCGAGAGAGATAATAATATAACTTAGGGATTTCTACGGATCAAGTCAAATGAATAAATCGTCT
47944449 GATTCAGAGTCAAATAACAAGTGAAGTCTAGGTGGATTTTTCCTTAGATAATGTCTTAATCAATC
456 GATTCAGAGTCAAATAACAAGTGAAGTCTAGGTGGATTTTTCCTTAGATAATGTCTTAATCAATC
47944514 GAATTTTCCCAAAAGTATTTTCCCAAATTTTCTTTCTGTGCATTCTTAGTTAATAATTAGTTTAG
521 GAATTTTCCCAAAAGTATTTTCCCAAATTTTCTTTCTGTGCATTCTTAGTTAATAATTAGTTTAG
47944579 ATAACCAAACCTCTTAATTTTTAGGCTAGATAATAAAAAGGAAGTAAATACTAGTACATGTAGTT
586 ATAACCAAACCTCTTAATTTTTAGGCTAGATAATAAAAAGGAAGTAAATACTAGTACATGTAGTT
47944644 CCTTTAGGTTCAATAATCCGGTCTTGCTGAACTA
651 CCTTTAGGTTCAATAATCCGGTCTTGCTGAACTA
47944678 TTATGCTTTCGAGATGTTTTCTTTCATAAGTATGAACTAAACCCCCTAAATACCTAAGGGGAATG
1 TTATGCTTTCGAGATGTTTTCTTTCATAAGTATGAACTAAACCCCCTAAATACCTAAGGGGAATG
47944743 AAACCTAAAACAGACCTTGTTATTATTATCTGAATTGTATAATAAATATTTGACTTGTTCTTAAT
66 AAACCTAAAACAGACCTTGTTATTATTATCTGAATTGTATAATAAATATTTGACTTGTTCTTAAT
47944808 TATGTGTTCTTAATTCTTGTTTTGATATTCCGGGATATTGATTCAAGTTAAGCTCTTATTCAGTG
131 TATGTGTTCTTAATTCTTGTTTTGATATTCCGGGATATTGATTCAAGTTAAGCTCTTATTCAGTG
47944873 GAGAAATAGACCCTGTCTAAGAGTAAATTTATCATAATTAAGTGGAGTTGATTGCACGCCTAGAG
196 GAGAAATAGACCCTGTCTAAGAGTAAATTTATCATAATTAAGTGGAGTTGATTGCACGCCTAGAG
47944938 ATAGGGTGATAAGATTTTGCCGTATTAGGGTGAAACCTAATAAGGGAATCCATAGATCGAGTTAA
261 ATAGGGTGATAAGATTTTGCCGTATTAGGGTGAAACCTAATAAGGGAATCCATAGATCGAGTTAA
47945003 TGCAATTCTAGGGTGTTAATTAGAAAGAAATTTCAATTATTCAACCTAGGGTTGGACGTTATTAG
326 TGCAATTCTAGGGTGTTAATTAGAAAGAAATTTCAATTATTCAACCTAGGGTTGGACGTTATTAG
47945068 TCTCGAGAGAGATAATAATATAACTTAGGGATTTCTACGGATCAAGTCAAATGAATAAATCGTCT
391 TCTCGAGAGAGATAATAATATAACTTAGGGATTTCTACGGATCAAGTCAAATGAATAAATCGTCT
47945133 GATTCAGAGTCAAATAACAAGTGAAGTCTAGGTGGATTTTTCCTTAGATAATGTCTTAATCAATC
456 GATTCAGAGTCAAATAACAAGTGAAGTCTAGGTGGATTTTTCCTTAGATAATGTCTTAATCAATC
47945198 GAATTTTCCCAAAAGTATTTTCCCAAATTTTCTTTCTGTGCATTCTTAGTTAATAATTAGTTTAG
521 GAATTTTCCCAAAAGTATTTTCCCAAATTTTCTTTCTGTGCATTCTTAGTTAATAATTAGTTTAG
47945263 ATAACCAAACCTCTTAATTTTTAGGCTAGATAATAAAAAGGAAGTAAATACTAGTACATGTAGTT
586 ATAACCAAACCTCTTAATTTTTAGGCTAGATAATAAAAAGGAAGTAAATACTAGTACATGTAGTT
47945328 CCTTTAGGTTCAATAATCCGGTCTTGCTGAACTA
651 CCTTTAGGTTCAATAATCCGGTCTTGCTGAACTA
47945362 T
1 T
47945363 ACTACTGTTC
Statistics
Matches: 685, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
684 685 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (684 bp):
TTATGCTTTCGAGATGTTTTCTTTCATAAGTATGAACTAAACCCCCTAAATACCTAAGGGGAATG
AAACCTAAAACAGACCTTGTTATTATTATCTGAATTGTATAATAAATATTTGACTTGTTCTTAAT
TATGTGTTCTTAATTCTTGTTTTGATATTCCGGGATATTGATTCAAGTTAAGCTCTTATTCAGTG
GAGAAATAGACCCTGTCTAAGAGTAAATTTATCATAATTAAGTGGAGTTGATTGCACGCCTAGAG
ATAGGGTGATAAGATTTTGCCGTATTAGGGTGAAACCTAATAAGGGAATCCATAGATCGAGTTAA
TGCAATTCTAGGGTGTTAATTAGAAAGAAATTTCAATTATTCAACCTAGGGTTGGACGTTATTAG
TCTCGAGAGAGATAATAATATAACTTAGGGATTTCTACGGATCAAGTCAAATGAATAAATCGTCT
GATTCAGAGTCAAATAACAAGTGAAGTCTAGGTGGATTTTTCCTTAGATAATGTCTTAATCAATC
GAATTTTCCCAAAAGTATTTTCCCAAATTTTCTTTCTGTGCATTCTTAGTTAATAATTAGTTTAG
ATAACCAAACCTCTTAATTTTTAGGCTAGATAATAAAAAGGAAGTAAATACTAGTACATGTAGTT
CCTTTAGGTTCAATAATCCGGTCTTGCTGAACTA
Found at i:47951761 original size:24 final size:23
Alignment explanation
Indices: 47951728--47951785 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
47951718 AGTTGAAAAG
47951728 TATAA-AATAAAATAAATAATGATA
1 TATAATAATAAAAT-AAT-ATGATA
*
47951752 -ATAATAATAAAATGATATGATA
1 TATAATAATAAAATAATATGATA
47951774 TATATATAATAA
1 TATA-ATAATAA
47951786 TGTTTGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.20
23 9 0.30
24 15 0.50
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
TATAATAATAAAATAATATGATA
Found at i:47952286 original size:37 final size:37
Alignment explanation
Indices: 47952230--47952308 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
47952220 CCGAGCTCTA
* * *
47952230 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
47952267 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
47952304 AAGAC
1 AAGAC
47952309 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:47964075 original size:46 final size:46
Alignment explanation
Indices: 47964025--47964245 Score: 399
Period size: 46 Copynumber: 4.8 Consensus size: 46
47964015 TGGTTGAGCA
47964025 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
47964071 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
47964117 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
47964163 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
47964209 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47964246 GCGGGTTACA
Statistics
Matches: 171, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
45 2 0.01
46 169 0.99
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:47968979 original size:60 final size:62
Alignment explanation
Indices: 47968848--47968980 Score: 157
Period size: 62 Copynumber: 2.2 Consensus size: 62
47968838 TCTATTGTCT
* * * *
47968848 TATTCAAAAGAACTTCTATTTTATTAAATAGGACAATATATAAAAATAATTTACTATTAAAA
1 TATTAAAAAAAACTTCTATTTTATTAAATAGAACAATATATAAAAATAATTTACTATCAAAA
* * *
47968910 TATTTAAAAAAACTTTTATTTTATTAAAT-GAAACAATATA-AAAAATAATTT-GTA-CAAATA
1 TATTAAAAAAAACTTCTATTTTATTAAATAG-AACAATATATAAAAATAATTTACTATCAAA-A
47968970 TATTAAAAAAA
1 TATTAAAAAAA
47968981 TCAATGCATG
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
59 3 0.05
60 13 0.21
61 12 0.19
62 34 0.55
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (62 bp):
TATTAAAAAAAACTTCTATTTTATTAAATAGAACAATATATAAAAATAATTTACTATCAAAA
Found at i:47969377 original size:18 final size:18
Alignment explanation
Indices: 47969354--47969391 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
47969344 GAAAAAGAAA
* *
47969354 ACATATAAGGGTTAGGAT
1 ACATATAACGGCTAGGAT
47969372 ACATATAACGGCTAGGAT
1 ACATATAACGGCTAGGAT
47969390 AC
1 AC
47969392 GCACTTGGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (18 bp):
ACATATAACGGCTAGGAT
Found at i:47970963 original size:24 final size:24
Alignment explanation
Indices: 47970922--47970972 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
47970912 CTGTTATAAA
* **
47970922 AAAATTATACAATAGAAATTAATT
1 AAAATTATAAAATAGAAAAAAATT
47970946 AAAATTATATAAAT-GAAAAAAATT
1 AAAATTATA-AAATAGAAAAAAATT
47970970 AAA
1 AAA
47970973 TAATATTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (24 bp):
AAAATTATAAAATAGAAAAAAATT
Found at i:47971188 original size:30 final size:29
Alignment explanation
Indices: 47971149--47971205 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
47971139 GTTATTTAAA
*
47971149 GAGAGCTTTAAGAAATTTAGAGAGAAATTT
1 GAGAACTTTAAGAAATTTAGA-AGAAATTT
* *
47971179 GAGAACTTTAAGAATTTTGGAAGAAAT
1 GAGAACTTTAAGAAATTTAGAAGAAAT
47971206 GTTAAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.30
Consensus pattern (29 bp):
GAGAACTTTAAGAAATTTAGAAGAAATTT
Found at i:47977196 original size:18 final size:20
Alignment explanation
Indices: 47977159--47977197 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
47977149 TCCTCCCTTT
*
47977159 TTAGGGCTTTAATTGTTTAA
1 TTAGGGCTTTAATGGTTTAA
47977179 TTAGGG-TTT-ATGGTTTAA
1 TTAGGGCTTTAATGGTTTAA
47977197 T
1 T
47977198 AAATTAGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.23, C:0.03, G:0.23, T:0.51
Consensus pattern (20 bp):
TTAGGGCTTTAATGGTTTAA
Found at i:47981876 original size:49 final size:49
Alignment explanation
Indices: 47981655--47982094 Score: 729
Period size: 49 Copynumber: 9.2 Consensus size: 49
47981645 CCCTTCGGGA
* * * * * *
47981655 CTTATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47981702 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47981749 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47981796 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47981843 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47981892 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47981941 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47981990 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47982039 CTTATCAC--ATATATACTCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47982086 CTTATCACA
1 CTTATCACA
47982095 ATTTAGAATT
Statistics
Matches: 377, Mismatches: 11, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 182 0.48
49 194 0.51
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47989052 original size:34 final size:33
Alignment explanation
Indices: 47989014--47989096 Score: 78
Period size: 35 Copynumber: 2.4 Consensus size: 33
47989004 CTCTAATCAA
*
47989014 ATAAATCGACGAATGTGTG-CCCAGCACTAGTCAG
1 ATAAA-CGACGAATGT-TGACCCAACACTAGTCAG
* **
47989048 ATAAACTGACGAAAGTTGCACCCAATGCTAGTCAG
1 ATAAAC-GACGAATGTTG-ACCCAACACTAGTCAG
47989083 ATAAACCGACGAAT
1 ATAAA-CGACGAAT
47989097 AATTTAGTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
33 3 0.08
34 13 0.32
35 23 0.57
36 1 0.03
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.19
Consensus pattern (33 bp):
ATAAACGACGAATGTTGACCCAACACTAGTCAG
Found at i:47989077 original size:143 final size:143
Alignment explanation
Indices: 47988872--47989144 Score: 404
Period size: 143 Copynumber: 1.9 Consensus size: 143
47988862 CGCTAGTCGG
* * *
47988872 ATAAACCGACAAATGTATGCCCAGCACAGTCAGATAAACTAACGGAGGTTGCACCCAGTGCTAGT
1 ATAAACCGACAAATGTATGCCCAGCACAGTCAGATAAACTAACGAAAGTTGCACCCAATGCTAGT
* * * *
47988937 CGGATAAACTGACGAATAA-TTAGTAAACCCAGCTCTAGTTGGATAAACCAACGATATTTGCGCC
66 CAGATAAACCGACGAATAATTTAGTAAACCCAACTATAGTTGGATAAACCAACGATATTTGCGCC
47989001 AAGCTCTAATCAA
131 AAGCTCTAATCAA
* * * *
47989014 ATAAATCGACGAATGTGTGCCCAGCACTAGTCAGATAAACTGACGAAAGTTGCACCCAATGCTAG
1 ATAAACCGACAAATGTATGCCCAGCAC-AGTCAGATAAACTAACGAAAGTTGCACCCAATGCTAG
* * *
47989079 TCAGATAAACCGACGAATAATTTAGTGAGCCCAACTATAGTTGGATAAACCAATGATATTTGCGC
65 TCAGATAAACCGACGAATAATTTAGTAAACCCAACTATAGTTGGATAAACCAACGATATTTGCGC
47989144 C
130 C
47989145 CAACATTATT
Statistics
Matches: 115, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
142 24 0.21
143 51 0.44
144 40 0.35
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.22
Consensus pattern (143 bp):
ATAAACCGACAAATGTATGCCCAGCACAGTCAGATAAACTAACGAAAGTTGCACCCAATGCTAGT
CAGATAAACCGACGAATAATTTAGTAAACCCAACTATAGTTGGATAAACCAACGATATTTGCGCC
AAGCTCTAATCAA
Found at i:47989087 original size:69 final size:69
Alignment explanation
Indices: 47988863--47989096 Score: 195
Period size: 69 Copynumber: 3.3 Consensus size: 69
47988853 TACGCCTAGC
* * * * *
47988863 GCTAGTCGGATAAACCGACAAATGTATGCCCAGCAC-AGTCAGATAAACTAACGGAGGTTGCACC
1 GCTAGTCAGATAAACCGACGAATGTGTGCCCAGCACTAGTCAGATAAACTAACGAAAGTTGCACC
*
47988927 CAGT
66 CAAT
* * * * * ** * * *
47988931 GCTAGTCGGATAAACTGACGAATAATTAGTAAACCCAGCTCTAGTTGGATAAACCAACGATATTT
1 GCTAGTCAGATAAACCGACGAAT--GT-GT--GCCCAGCACTAGTCAGATAAACTAACGAAAGTT
*
47988996 GC-GCCAA-
61 GCACCCAAT
* * * *
47989003 GCTCTAATCAAATAAATCGACGAATGTGTGCCCAGCACTAGTCAGATAAACTGACGAAAGTTGCA
1 G--CTAGTCAGATAAACCGACGAATGTGTGCCCAGCACTAGTCAGATAAACTAACGAAAGTTGCA
47989068 CCCAAT
64 CCCAAT
47989074 GCTAGTCAGATAAACCGACGAAT
1 GCTAGTCAGATAAACCGACGAAT
47989097 AATTTAGTGA
Statistics
Matches: 123, Mismatches: 33, Indels: 19
0.70 0.19 0.11
Matches are distributed among these distances:
68 21 0.17
69 46 0.37
70 5 0.04
71 4 0.03
72 2 0.02
73 10 0.08
74 35 0.28
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.21
Consensus pattern (69 bp):
GCTAGTCAGATAAACCGACGAATGTGTGCCCAGCACTAGTCAGATAAACTAACGAAAGTTGCACC
CAAT
Found at i:47992548 original size:40 final size:40
Alignment explanation
Indices: 47992493--47992889 Score: 749
Period size: 40 Copynumber: 9.9 Consensus size: 40
47992483 GCATGAGCAT
47992493 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
47992533 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
47992573 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
47992613 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
47992653 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
47992693 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
47992733 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
47992773 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
47992813 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * * *
47992853 TTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
47992890 TTGCGGTTAT
Statistics
Matches: 351, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 351 1.00
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:48003006 original size:40 final size:40
Alignment explanation
Indices: 48002799--48002985 Score: 365
Period size: 40 Copynumber: 4.7 Consensus size: 40
48002789 ATTTGAATGA
48002799 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
48002839 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
48002879 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
48002919 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
*
48002959 TATCCGGGCTAAGACCCGAAGGCATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTT
48002986 GTGCGCGTTG
Statistics
Matches: 146, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 146 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
Found at i:48003017 original size:120 final size:120
Alignment explanation
Indices: 48002798--48003058 Score: 357
Period size: 120 Copynumber: 2.2 Consensus size: 120
48002788 CATTTGAATG
*
48002798 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
* * * * *
48002863 TTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGC-ATTTATGCTAGTGATT
66 TTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCAATTT-TGCTAGTGATT
*
48002918 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
* * * * *
48002983 TTTGTGCGCGTTG-CTATACCCGGGTTAAGACCCGAAGGCAATTTTGCTTGTGGTT
66 TTTATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGCAATTTTGCTAGTGATT
* *
48003038 ATATCC-GGCTAAATTCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
48003059 AAACTTGGGT
Statistics
Matches: 124, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
119 13 0.10
120 105 0.85
121 6 0.05
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (120 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCAATTTTGCTAGTGATT
Found at i:48009935 original size:17 final size:18
Alignment explanation
Indices: 48009910--48009944 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
48009900 ATAAAAAATA
48009910 ATAATAAATAGAATTTAG
1 ATAATAAATAGAATTTAG
*
48009928 ATAA-AAATATAATTTAG
1 ATAATAAATAGAATTTAG
48009945 GAAAAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (18 bp):
ATAATAAATAGAATTTAG
Found at i:48009951 original size:16 final size:17
Alignment explanation
Indices: 48009915--48009953 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
48009905 AAATAATAAT
* *
48009915 AAATAGAATTTAGATAA
1 AAATATAATTTAGAGAA
48009932 AAATATAATTTAG-GAA
1 AAATATAATTTAGAGAA
48009948 AAATAT
1 AAATAT
48009954 TTAAGAGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (17 bp):
AAATATAATTTAGAGAA
Found at i:48017328 original size:48 final size:48
Alignment explanation
Indices: 48017257--48017577 Score: 365
Period size: 48 Copynumber: 6.7 Consensus size: 48
48017247 ATGTGAGTCG
* * * * *
48017257 GTGTAAGACCATGTTTGGAACATGGAATAGGCATTGATATGAGAACTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCTA
* * ** * *
48017305 GTGTAAGACCATGACTGGGACATGGCATCGGCCTCAATATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCTA
* * * *
48017353 GTGTAAGACTATGTTTGGAACAT-GCATCGACATTGATATGAGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCTA
* * *
48017400 GTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCTA
* * * ** *
48017448 ATGTAAGACCATGTTTGGAACATGATATTGGCATTGATATGAGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCTA
* * * * * *
48017496 GTGTAAGACCATGTATGGGACATGGCTTCGGCCTCGATATGTGAGTTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCTA
48017544 GTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCAT
48017578 CTTACCCTTT
Statistics
Matches: 221, Mismatches: 51, Indels: 2
0.81 0.19 0.01
Matches are distributed among these distances:
47 38 0.17
48 183 0.83
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCTA
Found at i:48017577 original size:96 final size:96
Alignment explanation
Indices: 48017246--48017577 Score: 470
Period size: 96 Copynumber: 3.5 Consensus size: 96
48017236 ATACTAAGGT
* * * * *
48017246 TATGTGAGTCGGTGTAAGACCATGTTTGGAACATGGAATAGGCATTGATATGAGAACTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAGCTAGTGTAA
*
48017311 GACCATG-ACTGGGACATGGCATCGGCCTCAA
66 GACCATGTA-TGGGACATGGCATCGGCCTCGA
* *
48017342 TATGTGAGCCAGTGTAAGACTATGTTTGGAACAT-GCATCGACATTGATATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAGCTAGTGTAA
* *
48017406 GACCATGTCTGGGACATGGCATCGGCCTTGA
66 GACCATGTATGGGACATGGCATCGGCCTCGA
* ** *
48017437 TATGTGAGCCAATGTAAGACCATGTTTGGAACATGATATTGGCATTGATATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAGCTAGTGTAA
*
48017502 GACCATGTATGGGACATGGCTTCGGCCTCGA
66 GACCATGTATGGGACATGGCATCGGCCTCGA
** * *
48017533 TATGTGAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCAT
48017578 CTTACCCTTT
Statistics
Matches: 207, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
95 85 0.41
96 122 0.59
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (96 bp):
TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGATATGAGAGCTAGTGTAA
GACCATGTATGGGACATGGCATCGGCCTCGA
Found at i:48023663 original size:48 final size:47
Alignment explanation
Indices: 48023592--48023770 Score: 214
Period size: 48 Copynumber: 3.7 Consensus size: 47
48023582 TGTGAGCCGA
* *
48023592 TGTAAGACCATGTTTGGAACATGGCATAGGCATTGATATGAGAGCTAG
1 TGTAAGACCATGTCTGGAACATGGCAT-GGCATCGATATGAGAGCTAG
* * *
48023640 TGTAAGACCATGTCTGGGACATGGCATTGGCCTCGATATGTGAGCTAG
1 TGTAAGACCATGTCTGGAACATGGCA-TGGCATCGATATGAGAGCTAG
* * * *
48023688 TGTAAGACCATGTTTGGAACATGGCATCGCACCGATATATGAGAGCCAG
1 TGTAAGACCATGTCTGGAACATGGCATGGCATCG--ATATGAGAGCTAG
* *
48023737 TGTAAGACCATGTCTGGGACATGTCATCGGCATC
1 TGTAAGACCATGTCTGGAACATGGCAT-GGCATC
48023771 TTACCCTTTG
Statistics
Matches: 110, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
47 5 0.05
48 65 0.59
49 36 0.33
50 4 0.04
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGAACATGGCATGGCATCGATATGAGAGCTAG
Found at i:48025299 original size:50 final size:47
Alignment explanation
Indices: 48025177--48025300 Score: 133
Period size: 47 Copynumber: 2.6 Consensus size: 47
48025167 GGTATAATGC
* * *
48025177 CGATGCCATGTCCCAAACATGGTCTTACATTAGCTCTCACGTTAAGTT
1 CGATGCCATGT-CCAAACATGGTCTTACACTAACTCCCACGTTAAGTT
**
48025225 -GATGCCATGTTCCAAACATGGTCTTACACTAACTCCCACGTATCTGTGT
1 CGATGCCATG-TCCAAACATGGTCTTACACTAACTCCCACGT-TAAGT-T
* *
48025274 CGATGCCATGTCCTAGACGTGGTCTTA
1 CGATGCCATGTCC-AAACATGGTCTTA
48025301 TACTGACACA
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
47 36 0.56
48 4 0.06
49 4 0.06
50 20 0.31
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (47 bp):
CGATGCCATGTCCAAACATGGTCTTACACTAACTCCCACGTTAAGTT
Found at i:48025383 original size:46 final size:46
Alignment explanation
Indices: 48025321--48025488 Score: 182
Period size: 46 Copynumber: 3.6 Consensus size: 46
48025311 TCATGAAGTA
* *
48025321 GATGCATGTCCTAGACATGCCTTACACTGGCT-TGCATCAAGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCAAGTGGCC
* * * *
48025367 GATGCACGTCCCAGACATATCTTACACTAGCTCTCATCTCAA-T-GTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCA--TCAAGTGGCC
* *
48025413 GATGCCATGTCCCAGACATGGTCATACACTGGCTCTCAT-AATGTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCAA-GTGGCC
48025461 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
48025489 AGCACACAAA
Statistics
Matches: 101, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
45 2 0.02
46 45 0.45
47 30 0.30
48 24 0.24
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCAAGTGGCC
Found at i:48025459 original size:94 final size:92
Alignment explanation
Indices: 48025321--48025491 Score: 238
Period size: 94 Copynumber: 1.8 Consensus size: 92
48025311 TCATGAAGTA
* *
48025321 GATGCATGTCCTAGACATGCCTTACACTGGCTTGCATCAAGTGGCCGATGCACGTCCCAGACATA
1 GATGCATGTCCCAGACATGCCATACACTGGCTTGCATCAAGTGGCCGATGCACGTCCCAGACATA
48025386 TCTTACACTAGCTCTCATCTCAATGTC
66 TCTTACACTAGCTCTCATCTCAATGTC
* * *
48025413 GATGCCATGTCCCAGACATGGTCATACACTGGCTCT-CAT-AATGTGGCTGATGCATGTCCCAGA
1 GATG-CATGTCCCAGACAT-GCCATACACTGGCT-TGCATCAA-GTGGCCGATGCACGTCCCAGA
*
48025476 CATGTCTTACACTAGC
62 CATATCTTACACTAGC
48025492 ACACAAACAT
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
92 4 0.06
93 15 0.22
94 49 0.71
95 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGCCATACACTGGCTTGCATCAAGTGGCCGATGCACGTCCCAGACATA
TCTTACACTAGCTCTCATCTCAATGTC
Found at i:48041018 original size:14 final size:15
Alignment explanation
Indices: 48040996--48041025 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
48040986 GAATATTAAA
48040996 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
48041011 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
48041025 A
1 A
48041026 AGTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:48042075 original size:533 final size:533
Alignment explanation
Indices: 48041069--48042134 Score: 2132
Period size: 533 Copynumber: 2.0 Consensus size: 533
48041059 AACAAGATCC
48041069 ATCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGGTTTAGTTTATAATTATGAAATAAAACATCT
1 ATCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGGTTTAGTTTATAATTATGAAATAAAACATCT
48041134 CAAAAAAGTAAAGATAACAAAACATAAAGAAAACCCAAAACTCCTGAAGGAAATTGAAGGGAGAT
66 CAAAAAAGTAAAGATAACAAAACATAAAGAAAACCCAAAACTCCTGAAGGAAATTGAAGGGAGAT
48041199 CTTCAGTCTTGACGAAGAATCTGGCTTCTGAGATGGATCAATCGGCTTTCTTTGAGTAATTCCTT
131 CTTCAGTCTTGACGAAGAATCTGGCTTCTGAGATGGATCAATCGGCTTTCTTTGAGTAATTCCTT
48041264 ACCTCCTACTCCGTGTTTCCCTTTCTAGTGCCTCCTCAGGTGTTTAAATAGGCTTTAGAATGCCT
196 ACCTCCTACTCCGTGTTTCCCTTTCTAGTGCCTCCTCAGGTGTTTAAATAGGCTTTAGAATGCCT
48041329 AAGATCCCTCAAAAGTGGCCTTTTCCGAATAGGACTATACTTGGGCTCGACAGGGACACGCCCGT
261 AAGATCCCTCAAAAGTGGCCTTTTCCGAATAGGACTATACTTGGGCTCGACAGGGACACGCCCGT
48041394 GTGACACGACCGTGACCGATTGCCTCAGATCGTGGTCAAGGCTGTTAAATAGGCACGGGCGTGTG
326 GTGACACGACCGTGACCGATTGCCTCAGATCGTGGTCAAGGCTGTTAAATAGGCACGGGCGTGTG
48041459 GTCTACCCGTGTAAGTCGTGCTTCGATTCTGCCAAATGGACACAGCCGTGGACTACCCGTGTGAG
391 GTCTACCCGTGTAAGTCGTGCTTCGATTCTGCCAAATGGACACAGCCGTGGACTACCCGTGTGAG
48041524 GAAGTCCAGGCCATGTTGATTTCTCATGTTGGTCCATTTTCTCTGTTTTTGGCCCGTTTCTCGCT
456 GAAGTCCAGGCCATGTTGATTTCTCATGTTGGTCCATTTTCTCTGTTTTTGGCCCGTTTCTCGCT
48041589 CTTTTTATTCTCT
521 CTTTTTATTCTCT
48041602 ATCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGGTTTAGTTTATAATTATGAAATAAAACATCT
1 ATCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGGTTTAGTTTATAATTATGAAATAAAACATCT
48041667 CAAAAAAGTAAAGATAACAAAACATAAAGAAAACCCAAAACTCCTGAAGGAAATTGAAGGGAGAT
66 CAAAAAAGTAAAGATAACAAAACATAAAGAAAACCCAAAACTCCTGAAGGAAATTGAAGGGAGAT
48041732 CTTCAGTCTTGACGAAGAATCTGGCTTCTGAGATGGATCAATCGGCTTTCTTTGAGTAATTCCTT
131 CTTCAGTCTTGACGAAGAATCTGGCTTCTGAGATGGATCAATCGGCTTTCTTTGAGTAATTCCTT
48041797 ACCTCCTACTCCGTGTTTCCCTTTCTAGTGCCTCCTCAGGTGTTTAAATAGGCTTTAGAATGCCT
196 ACCTCCTACTCCGTGTTTCCCTTTCTAGTGCCTCCTCAGGTGTTTAAATAGGCTTTAGAATGCCT
48041862 AAGATCCCTCAAAAGTGGCCTTTTCCGAATAGGACTATACTTGGGCTCGACAGGGACACGCCCGT
261 AAGATCCCTCAAAAGTGGCCTTTTCCGAATAGGACTATACTTGGGCTCGACAGGGACACGCCCGT
48041927 GTGACACGACCGTGACCGATTGCCTCAGATCGTGGTCAAGGCTGTTAAATAGGCACGGGCGTGTG
326 GTGACACGACCGTGACCGATTGCCTCAGATCGTGGTCAAGGCTGTTAAATAGGCACGGGCGTGTG
48041992 GTCTACCCGTGTAAGTCGTGCTTCGATTCTGCCAAATGGACACAGCCGTGGACTACCCGTGTGAG
391 GTCTACCCGTGTAAGTCGTGCTTCGATTCTGCCAAATGGACACAGCCGTGGACTACCCGTGTGAG
48042057 GAAGTCCAGGCCATGTTGATTTCTCATGTTGGTCCATTTTCTCTGTTTTTGGCCCGTTTCTCGCT
456 GAAGTCCAGGCCATGTTGATTTCTCATGTTGGTCCATTTTCTCTGTTTTTGGCCCGTTTCTCGCT
48042122 CTTTTTATTCTCT
521 CTTTTTATTCTCT
48042135 TATACTCACC
Statistics
Matches: 533, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
533 533 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (533 bp):
ATCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGGTTTAGTTTATAATTATGAAATAAAACATCT
CAAAAAAGTAAAGATAACAAAACATAAAGAAAACCCAAAACTCCTGAAGGAAATTGAAGGGAGAT
CTTCAGTCTTGACGAAGAATCTGGCTTCTGAGATGGATCAATCGGCTTTCTTTGAGTAATTCCTT
ACCTCCTACTCCGTGTTTCCCTTTCTAGTGCCTCCTCAGGTGTTTAAATAGGCTTTAGAATGCCT
AAGATCCCTCAAAAGTGGCCTTTTCCGAATAGGACTATACTTGGGCTCGACAGGGACACGCCCGT
GTGACACGACCGTGACCGATTGCCTCAGATCGTGGTCAAGGCTGTTAAATAGGCACGGGCGTGTG
GTCTACCCGTGTAAGTCGTGCTTCGATTCTGCCAAATGGACACAGCCGTGGACTACCCGTGTGAG
GAAGTCCAGGCCATGTTGATTTCTCATGTTGGTCCATTTTCTCTGTTTTTGGCCCGTTTCTCGCT
CTTTTTATTCTCT
Found at i:48042823 original size:490 final size:490
Alignment explanation
Indices: 48041903--48042882 Score: 1960
Period size: 490 Copynumber: 2.0 Consensus size: 490
48041893 GGACTATACT
48041903 TGGGCTCGACAGGGACACGCCCGTGTGACACGACCGTGACCGATTGCCTCAGATCGTGGTCAAGG
1 TGGGCTCGACAGGGACACGCCCGTGTGACACGACCGTGACCGATTGCCTCAGATCGTGGTCAAGG
48041968 CTGTTAAATAGGCACGGGCGTGTGGTCTACCCGTGTAAGTCGTGCTTCGATTCTGCCAAATGGAC
66 CTGTTAAATAGGCACGGGCGTGTGGTCTACCCGTGTAAGTCGTGCTTCGATTCTGCCAAATGGAC
48042033 ACAGCCGTGGACTACCCGTGTGAGGAAGTCCAGGCCATGTTGATTTCTCATGTTGGTCCATTTTC
131 ACAGCCGTGGACTACCCGTGTGAGGAAGTCCAGGCCATGTTGATTTCTCATGTTGGTCCATTTTC
48042098 TCTGTTTTTGGCCCGTTTCTCGCTCTTTTTATTCTCTTATACTCACCTAAGTATAAAACATGAAA
196 TCTGTTTTTGGCCCGTTTCTCGCTCTTTTTATTCTCTTATACTCACCTAAGTATAAAACATGAAA
48042163 TTAAAGGATTAGGAGCATCGAATTCACCAAATCTAAAGAGAAATCATCCATAAATGTGCTAAGAA
261 TTAAAGGATTAGGAGCATCGAATTCACCAAATCTAAAGAGAAATCATCCATAAATGTGCTAAGAA
48042228 TGGGATAAAAATATGTATAAATTACGGTTTATCAAATACCCCCACACTTAAGCGTTTGCTTGTCC
326 TGGGATAAAAATATGTATAAATTACGGTTTATCAAATACCCCCACACTTAAGCGTTTGCTTGTCC
48042293 TCAAGCAAAATCCTCAACCCACAATCAAAATAAACTCTTCTCAACTTATAATTCCTATCGATAAT
391 TCAAGCAAAATCCTCAACCCACAATCAAAATAAACTCTTCTCAACTTATAATTCCTATCGATAAT
48042358 TTCTCAAAATAAGCCATAAGTAGTCATACATTGAC
456 TTCTCAAAATAAGCCATAAGTAGTCATACATTGAC
48042393 TGGGCTCGACAGGGACACGCCCGTGTGACACGACCGTGACCGATTGCCTCAGATCGTGGTCAAGG
1 TGGGCTCGACAGGGACACGCCCGTGTGACACGACCGTGACCGATTGCCTCAGATCGTGGTCAAGG
48042458 CTGTTAAATAGGCACGGGCGTGTGGTCTACCCGTGTAAGTCGTGCTTCGATTCTGCCAAATGGAC
66 CTGTTAAATAGGCACGGGCGTGTGGTCTACCCGTGTAAGTCGTGCTTCGATTCTGCCAAATGGAC
48042523 ACAGCCGTGGACTACCCGTGTGAGGAAGTCCAGGCCATGTTGATTTCTCATGTTGGTCCATTTTC
131 ACAGCCGTGGACTACCCGTGTGAGGAAGTCCAGGCCATGTTGATTTCTCATGTTGGTCCATTTTC
48042588 TCTGTTTTTGGCCCGTTTCTCGCTCTTTTTATTCTCTTATACTCACCTAAGTATAAAACATGAAA
196 TCTGTTTTTGGCCCGTTTCTCGCTCTTTTTATTCTCTTATACTCACCTAAGTATAAAACATGAAA
48042653 TTAAAGGATTAGGAGCATCGAATTCACCAAATCTAAAGAGAAATCATCCATAAATGTGCTAAGAA
261 TTAAAGGATTAGGAGCATCGAATTCACCAAATCTAAAGAGAAATCATCCATAAATGTGCTAAGAA
48042718 TGGGATAAAAATATGTATAAATTACGGTTTATCAAATACCCCCACACTTAAGCGTTTGCTTGTCC
326 TGGGATAAAAATATGTATAAATTACGGTTTATCAAATACCCCCACACTTAAGCGTTTGCTTGTCC
48042783 TCAAGCAAAATCCTCAACCCACAATCAAAATAAACTCTTCTCAACTTATAATTCCTATCGATAAT
391 TCAAGCAAAATCCTCAACCCACAATCAAAATAAACTCTTCTCAACTTATAATTCCTATCGATAAT
48042848 TTCTCAAAATAAGCCATAAGTAGTCATACATTGAC
456 TTCTCAAAATAAGCCATAAGTAGTCATACATTGAC
48042883 AATTCAACTA
Statistics
Matches: 490, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
490 490 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (490 bp):
TGGGCTCGACAGGGACACGCCCGTGTGACACGACCGTGACCGATTGCCTCAGATCGTGGTCAAGG
CTGTTAAATAGGCACGGGCGTGTGGTCTACCCGTGTAAGTCGTGCTTCGATTCTGCCAAATGGAC
ACAGCCGTGGACTACCCGTGTGAGGAAGTCCAGGCCATGTTGATTTCTCATGTTGGTCCATTTTC
TCTGTTTTTGGCCCGTTTCTCGCTCTTTTTATTCTCTTATACTCACCTAAGTATAAAACATGAAA
TTAAAGGATTAGGAGCATCGAATTCACCAAATCTAAAGAGAAATCATCCATAAATGTGCTAAGAA
TGGGATAAAAATATGTATAAATTACGGTTTATCAAATACCCCCACACTTAAGCGTTTGCTTGTCC
TCAAGCAAAATCCTCAACCCACAATCAAAATAAACTCTTCTCAACTTATAATTCCTATCGATAAT
TTCTCAAAATAAGCCATAAGTAGTCATACATTGAC
Found at i:48044088 original size:14 final size:15
Alignment explanation
Indices: 48044066--48044095 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
48044056 GAATATTAAA
48044066 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
48044081 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
48044095 A
1 A
48044096 AGTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:48052604 original size:43 final size:43
Alignment explanation
Indices: 48052540--48052623 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
48052530 ATGGTTCAGA
* *
48052540 AGTGAAAGGCCGAACAGAGTTCCAGGGTGAGCTCGGGGTACAT
1 AGTGAAAGGCCAAACAAAGTTCCAGGGTGAGCTCGGGGTACAT
48052583 AGTGAAAGGCCAAACAAAGTTCCAGGGTGAGCTCGGGGTAC
1 AGTGAAAGGCCAAACAAAGTTCCAGGGTGAGCTCGGGGTAC
48052624 GTCGGCTCGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.30, C:0.19, G:0.36, T:0.15
Consensus pattern (43 bp):
AGTGAAAGGCCAAACAAAGTTCCAGGGTGAGCTCGGGGTACAT
Found at i:48064466 original size:41 final size:39
Alignment explanation
Indices: 48064360--48064469 Score: 107
Period size: 41 Copynumber: 2.8 Consensus size: 39
48064350 GGATAATTAG
48064360 AAGTAATAATTTGACACCCAGTGTCTCATC-AACTAAACCA
1 AAGT-ATAA-TTGACACCCAGTGTCTCATCGAACTAAACCA
* * ** * *
48064400 AAGTA-AATTGGCACCCACTACCTCATCGAATTAATCCA
1 AAGTATAATTGACACCCAGTGTCTCATCGAACTAAACCA
*
48064438 AAGTAGTAAGTTGACACTCAGTGTCTCATCGA
1 AAGTA-TAA-TTGACACCCAGTGTCTCATCGA
48064470 CTCAAAGTCG
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
37 16 0.29
38 15 0.27
39 1 0.02
40 6 0.11
41 17 0.31
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (39 bp):
AAGTATAATTGACACCCAGTGTCTCATCGAACTAAACCA
Found at i:48065381 original size:4 final size:4
Alignment explanation
Indices: 48065372--48065434 Score: 56
Period size: 4 Copynumber: 15.2 Consensus size: 4
48065362 CCCTTTTATT
* * * *
48065372 TTTC TTTC TTTC TTTC TTTC TTTTC TAATTC GTT- TTGC TTTC TCTG TTTC
1 TTTC TTTC TTTC TTTC TTTC -TTTC T--TTC TTTC TTTC TTTC TTTC TTTC
48065422 TTTC TTTC TTTC T
1 TTTC TTTC TTTC T
48065435 ATTTCTTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
3 1 0.02
4 39 0.83
5 4 0.09
6 3 0.06
ACGTcount: A:0.03, C:0.22, G:0.05, T:0.70
Consensus pattern (4 bp):
TTTC
Found at i:48066020 original size:55 final size:55
Alignment explanation
Indices: 48065905--48066051 Score: 199
Period size: 55 Copynumber: 2.7 Consensus size: 55
48065895 ATAAGCAAGT
48065905 GAAGACCATATAGTGTAAGACCTAGTCTGGGACTATGACAACATATGAGGAAAAA
1 GAAGACCATATAGTGTAAGACCTAGTCTGGGACTATGACAACATATGAGGAAAAA
* * *
48065960 GAAGACCATATAGTGTAAGACCTAGTTCTGGGACTAT-ATCATCATATGGGGATAAA
1 GAAGACCATATAGTGTAAGACCTAG-TCTGGGACTATGA-CAACATATGAGGAAAAA
* * * *
48066016 -AAGACCACATAGTGTAAGACCTGGTCTAGAACTATG
1 GAAGACCATATAGTGTAAGACCTAGTCTGGGACTATG
48066052 GCGTCATATA
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
54 9 0.11
55 48 0.59
56 25 0.30
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (55 bp):
GAAGACCATATAGTGTAAGACCTAGTCTGGGACTATGACAACATATGAGGAAAAA
Found at i:48066269 original size:31 final size:29
Alignment explanation
Indices: 48066215--48066316 Score: 91
Period size: 29 Copynumber: 3.4 Consensus size: 29
48066205 GTGGTTAATT
*
48066215 CTGTTATATGT-AAGCCGTAGTGGCAGAAC
1 CTGTTATATGTGAAGCCCTAGTGGC-GAAC
* * **
48066244 CTGTTATATGTGGAAGCCTTTGTGGCTGTTC
1 CTGTTATATGT-GAAGCCCTAGTGGC-GAAC
*
48066275 TTTGTTATATGTG-AGCCCTAGTGGCGAAAC
1 -CTGTTATATGTGAAGCCCTAGTGGCG-AAC
48066305 CTGTTATATGTG
1 CTGTTATATGTG
48066317 GAATTTTTTG
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
29 23 0.40
30 11 0.19
31 14 0.24
32 10 0.17
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.36
Consensus pattern (29 bp):
CTGTTATATGTGAAGCCCTAGTGGCGAAC
Found at i:48067799 original size:17 final size:17
Alignment explanation
Indices: 48067777--48067814 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
48067767 TTGCTTTTCT
48067777 AACAAGATTAACTTAAA
1 AACAAGATTAACTTAAA
48067794 AACAAGATTAACTTAAA
1 AACAAGATTAACTTAAA
48067811 AACA
1 AACA
48067815 TGATGAAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.61, C:0.13, G:0.05, T:0.21
Consensus pattern (17 bp):
AACAAGATTAACTTAAA
Found at i:48075362 original size:8 final size:8
Alignment explanation
Indices: 48075349--48075412 Score: 67
Period size: 8 Copynumber: 7.5 Consensus size: 8
48075339 GTCATCATTT
48075349 TTTTATAA
1 TTTTATAA
48075357 TTTTATTACGA
1 TTTTA-TA--A
48075368 TTTTATAAAA
1 TTTTAT--AA
48075378 TTTTATAA
1 TTTTATAA
48075386 TTTTAT-A
1 TTTTATAA
*
48075393 TTTTATAT
1 TTTTATAA
48075401 TTTTATAA
1 TTTTATAA
48075409 TTTT
1 TTTT
48075413 TGTTTGATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
7 7 0.15
8 24 0.50
9 2 0.04
10 8 0.17
11 6 0.12
12 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (8 bp):
TTTTATAA
Found at i:48075397 original size:15 final size:16
Alignment explanation
Indices: 48075349--48075412 Score: 67
Period size: 15 Copynumber: 3.8 Consensus size: 16
48075339 GTCATCATTT
48075349 TTTTATAATTTTATTACGA
1 TTTTATAATTTTA-TA--A
48075368 TTTTATAAAATTTTATAA
1 TTTTAT--AATTTTATAA
*
48075386 TTTTAT-ATTTTATAT
1 TTTTATAATTTTATAA
48075401 TTTTATAATTTT
1 TTTTATAATTTT
48075413 TGTTTGATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
15 14 0.34
16 5 0.12
18 7 0.17
19 6 0.15
20 2 0.05
21 7 0.17
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTTATAATTTTATAA
Found at i:48075424 original size:27 final size:26
Alignment explanation
Indices: 48075392--48075442 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
48075382 ATAATTTTAT
*
48075392 ATTTT-ATATTTTTATAATTTTTGTTTG
1 ATTTTAAT-TTTTTATATTTTT-GTTTG
48075419 ATTTTAATTTTTTATATTTTTGTT
1 ATTTTAATTTTTTATATTTTTGTT
48075443 AAAATTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 3 0.14
27 17 0.77
28 2 0.09
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.73
Consensus pattern (26 bp):
ATTTTAATTTTTTATATTTTTGTTTG
Found at i:48075437 original size:26 final size:27
Alignment explanation
Indices: 48075392--48075442 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
48075382 ATAATTTTAT
48075392 ATTTTATATTTTTATAATTTTTGTTTG
1 ATTTTATATTTTTATAATTTTTGTTTG
48075419 ATTTTA-ATTTTT-TATATTTTTGTT
1 ATTTTATATTTTTATA-ATTTTTGTT
48075443 AAAATTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 2 0.09
26 15 0.65
27 6 0.26
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.73
Consensus pattern (27 bp):
ATTTTATATTTTTATAATTTTTGTTTG
Found at i:48075449 original size:27 final size:27
Alignment explanation
Indices: 48075392--48075468 Score: 68
Period size: 26 Copynumber: 2.8 Consensus size: 27
48075382 ATAATTTTAT
**
48075392 ATTTTATATTTTTATAATTTTTGTTTG
1 ATTTTATATTTTTATAATTTTTGTTAA
48075419 ATTTTA-ATTTTT-TATATTTTTGTTAAA
1 ATTTTATATTTTTATA-ATTTTTGTT-AA
* *
48075446 ATTTAATAACTTTTATTAATTTT
1 ATTTTAT-ATTTTTA-TAATTTT
48075469 ATTCTTTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
25 2 0.05
26 15 0.38
27 11 0.28
29 5 0.12
30 5 0.12
31 2 0.05
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (27 bp):
ATTTTATATTTTTATAATTTTTGTTAA
Found at i:48075450 original size:26 final size:27
Alignment explanation
Indices: 48075400--48075452 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
48075390 ATATTTTATA
** *
48075400 TTTTTATAATTTTTGTTTGATTTTAAT
1 TTTTTATAATTTTTGTTAAAATTTAAT
48075427 TTTTTAT-ATTTTTGTTAAAATTTAAT
1 TTTTTATAATTTTTGTTAAAATTTAAT
48075453 AACTTTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (27 bp):
TTTTTATAATTTTTGTTAAAATTTAAT
Found at i:48077099 original size:22 final size:21
Alignment explanation
Indices: 48077044--48077106 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 21
48077034 GGCATTAACT
48077044 ATAAAAAATATTTTAATAAAA
1 ATAAAAAATATTTTAATAAAA
*
48077065 ATAAATAA-A--TTAATAAAA
1 ATAAAAAATATTTTAATAAAA
*
48077083 TTTAAAAAATATTTTAATAGAAA
1 -ATAAAAAATATTTTAATA-AAA
48077106 A
1 A
48077107 ATGGGTGGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
18 9 0.27
19 6 0.18
20 2 0.06
21 7 0.21
22 6 0.18
23 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAAAAAATATTTTAATAAAA
Found at i:48086667 original size:13 final size:13
Alignment explanation
Indices: 48086649--48086687 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
48086639 AATCCAAGTC
48086649 AAAATAAATAAAT
1 AAAATAAATAAAT
48086662 AAAATAAATAAAAT
1 AAAATAAAT-AAAT
*
48086676 AGAAT-AATAAAT
1 AAAATAAATAAAT
48086688 CAAAGATTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 4 0.17
13 12 0.50
14 8 0.33
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:48086668 original size:9 final size:9
Alignment explanation
Indices: 48086650--48086682 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
48086640 ATCCAAGTCA
48086650 AAAT-AAAT
1 AAATAAAAT
48086658 AAATAAAAT
1 AAATAAAAT
48086667 AAATAAAAT
1 AAATAAAAT
48086676 AGAATAA
1 A-AATAA
48086683 TAAATCAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 4 0.17
9 14 0.61
10 5 0.22
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (9 bp):
AAATAAAAT
Found at i:48086786 original size:28 final size:28
Alignment explanation
Indices: 48086754--48086807 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
48086744 GGTAGGCCTC
* *
48086754 AAAAAGAAAAC-TCAAAAGAAATTATTG
1 AAAAAAAAAACTTAAAAAGAAATTATTG
*
48086781 AAAAAAAAAACTTAAAAAGAATTTATT
1 AAAAAAAAAACTTAAAAAGAAATTATT
48086808 AACTCAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.65, C:0.06, G:0.07, T:0.22
Consensus pattern (28 bp):
AAAAAAAAAACTTAAAAAGAAATTATTG
Found at i:48089727 original size:118 final size:119
Alignment explanation
Indices: 48089519--48089753 Score: 409
Period size: 118 Copynumber: 2.0 Consensus size: 119
48089509 TAAAAATAAT
*
48089519 TGTATATAATTCATGTAATATCGAAATATTAAATACATAACATAAGGTTGCATTATTTACGCATG
1 TGTATATAATTCATGTAATATCGAAATATTAAATACATAACATAAGGTTGAATTATTTACGCATG
*
48089584 AACTTATCTCGACACCAAAATGGC-AAAAAGGACCTAACCGTCAATTTTTCAAA
66 AACTTACCTCGACACCAAAATGGCAAAAAAGGACCTAACCGTCAATTTTTCAAA
* * *
48089637 TGTATATAATTCATGTAATATTGAAATATTAAATACATAACATAATGTTGAATTATTTACGTATG
1 TGTATATAATTCATGTAATATCGAAATATTAAATACATAACATAAGGTTGAATTATTTACGCATG
*
48089702 AACTTACCTTGACACCAAAATGGCAAAAAAGGACCTAACCGTCAATTTTTCA
66 AACTTACCTCGACACCAAAATGGCAAAAAAGGACCTAACCGTCAATTTTTCA
48089754 TTTTTCTCCT
Statistics
Matches: 110, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
118 83 0.75
119 27 0.25
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (119 bp):
TGTATATAATTCATGTAATATCGAAATATTAAATACATAACATAAGGTTGAATTATTTACGCATG
AACTTACCTCGACACCAAAATGGCAAAAAAGGACCTAACCGTCAATTTTTCAAA
Found at i:48090795 original size:16 final size:17
Alignment explanation
Indices: 48090765--48090796 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
48090755 TTTGTTCTCA
48090765 AATCTTGTATTTGATTG
1 AATCTTGTATTTGATTG
48090782 AATCTTGT-TTTGATT
1 AATCTTGTATTTGATT
48090797 TGCTTGGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.22, C:0.06, G:0.16, T:0.56
Consensus pattern (17 bp):
AATCTTGTATTTGATTG
Found at i:48093336 original size:26 final size:26
Alignment explanation
Indices: 48093289--48093342 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
48093279 TAGAATGCGT
*
48093289 AAAGAAACAATAAAAAGTAAAAAAAA
1 AAAGAAACAAAAAAAAGTAAAAAAAA
* *
48093315 AAAGAAAGAAAAAGAAAG-AAAAGAAA
1 AAAGAAACAAAAA-AAAGTAAAAAAAA
48093341 AA
1 AA
48093343 CTAAGGCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.81, C:0.02, G:0.13, T:0.04
Consensus pattern (26 bp):
AAAGAAACAAAAAAAAGTAAAAAAAA
Found at i:48093337 original size:15 final size:14
Alignment explanation
Indices: 48093300--48093342 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
48093290 AAGAAACAAT
*
48093300 AAAAAGTAA-AAAA
1 AAAAAGAAAGAAAA
48093313 AAAAAGAAAGAAAA
1 AAAAAGAAAGAAAA
*
48093327 AGAAAGAAAAGAAAA
1 AAAAAG-AAAGAAAA
48093342 A
1 A
48093343 CTAAGGCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 8 0.31
14 9 0.35
15 9 0.35
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (14 bp):
AAAAAGAAAGAAAA
Found at i:48101872 original size:13 final size:13
Alignment explanation
Indices: 48101854--48101882 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
48101844 CTTGTTATCT
48101854 ACTCATTCTTTCA
1 ACTCATTCTTTCA
48101867 ACTCATTCTTTCA
1 ACTCATTCTTTCA
48101880 ACT
1 ACT
48101883 ATCTCCTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.45
Consensus pattern (13 bp):
ACTCATTCTTTCA
Found at i:48102353 original size:27 final size:27
Alignment explanation
Indices: 48102308--48102452 Score: 110
Period size: 27 Copynumber: 5.4 Consensus size: 27
48102298 TTTATTGTCT
* ** *
48102308 CGATAGACTACCTTATGTTTACTATCT
1 CGATGGACTACCCCATGTTTACTATCC
* * * * *
48102335 CGGTGAACTACCCCGTGTTTACTAACT
1 CGATGGACTACCCCATGTTTACTATCC
* * * * *
48102362 CAATGGATTACCCCGTGTTTATTGTCC
1 CGATGGACTACCCCATGTTTACTATCC
* *
48102389 CGATGGATTACCCCATGTTTACTGTCC
1 CGATGGACTACCCCATGTTTACTATCC
** *
48102416 CGGCGGACTACCCTATGTTTACTATCC
1 CGATGGACTACCCCATGTTTACTATCC
*
48102443 CGACGGACTA
1 CGATGGACTA
48102453 TCATGTTGCC
Statistics
Matches: 94, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.32
Consensus pattern (27 bp):
CGATGGACTACCCCATGTTTACTATCC
Found at i:48102377 original size:81 final size:81
Alignment explanation
Indices: 48102286--48102439 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 81
48102276 TGTCTTGGTA
* * ** * * *
48102286 GATTATCCCGTGTTTATTGTCTCGATAGACTACCTTATGTTTACTATCTCGGTGAACTACCCCGT
1 GATTACCCCGTGTTTATTGTCCCGATAGACTACCCCATGTTTACTATCCCGGCGAACTACCCCAT
48102351 GTTTACTAACTCAATG
66 GTTTACTAACTCAATG
* * * * *
48102367 GATTACCCCGTGTTTATTGTCCCGATGGATTACCCCATGTTTACTGTCCCGGCGGACTACCCTAT
1 GATTACCCCGTGTTTATTGTCCCGATAGACTACCCCATGTTTACTATCCCGGCGAACTACCCCAT
48102432 GTTTACTA
66 GTTTACTA
48102440 TCCCGACGGA
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (81 bp):
GATTACCCCGTGTTTATTGTCCCGATAGACTACCCCATGTTTACTATCCCGGCGAACTACCCCAT
GTTTACTAACTCAATG
Found at i:48103150 original size:239 final size:239
Alignment explanation
Indices: 48102731--48103194 Score: 682
Period size: 239 Copynumber: 1.9 Consensus size: 239
48102721 CTTTTCATCT
* * * * *
48102731 AGTATTCCTATCTTCAACTACCCCGTCAAAGTATATCCTTCCTTTCTCTGCATCATATATATACA
1 AGTATTCCAATCTTCAACTACCCCATCAAAGTATATCCCTCATTTCTCTGCATCATATACATACA
* * *
48102796 AACATTTCACGCAATTTATTGTATTTATTTCTATAACATATAGTATACCACCCATTAACACTTCA
66 AACATTTCACGCAATATATTGTATTTATTTCTATAACATACAGTACACCACCCATTAACACTTCA
*
48102861 ATTTATAACTAAATAAACATCCAGCATATATGCATGCAAACATACTCAGTCACCAGGTTTATACA
131 ATTTATAACTAAATAAACATCCAGCATACATGCATGCAAACATACTCAGTCACCAGGTTTATAC-
* *
48102926 C-AATTGCGGGTTCATACAACACAAAATAGACACAGACTCCTGAA
195 CTAACTACGGGTTCATACAACACAAAATAGACACAGACTCCTGAA
* *
48102970 AGTATTCCAATCTTTAACTACCCCATCAAAGTATATCCCTCATTTCTCTGCATCATGTACATA-A
1 AGTATTCCAATCTTCAACTACCCCATCAAAGTATATCCCTCATTTCTCTGCATCATATACATACA
* * *
48103034 AAGCATTTCACGCAATATATTGTATTTATTTCTATAGCATACAGTACGCCACCTATTAACACTTC
66 AA-CATTTCACGCAATATATTGTATTTATTTCTATAACATACAGTACACCACCCATTAACACTTC
* * **
48103099 AATTTATAACTAAATAAACATTC-GACATACATGCATGTAAGGATACTCAGTCACCAGGTTTATA
130 AATTTATAACTAAATAAACATCCAG-CATACATGCATGCAAACATACTCAGTCACCAGGTTTATA
**
48103163 CCTAACTACGGGTTCATACAACATGAAATAGA
194 CCTAACTACGGGTTCATACAACACAAAATAGA
48103195 TATACTCATA
Statistics
Matches: 200, Mismatches: 22, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
238 5 0.03
239 195 0.98
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.31
Consensus pattern (239 bp):
AGTATTCCAATCTTCAACTACCCCATCAAAGTATATCCCTCATTTCTCTGCATCATATACATACA
AACATTTCACGCAATATATTGTATTTATTTCTATAACATACAGTACACCACCCATTAACACTTCA
ATTTATAACTAAATAAACATCCAGCATACATGCATGCAAACATACTCAGTCACCAGGTTTATACC
TAACTACGGGTTCATACAACACAAAATAGACACAGACTCCTGAA
Found at i:48107463 original size:21 final size:20
Alignment explanation
Indices: 48107439--48107479 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
48107429 TTGAAAAAAA
48107439 AAGCAAATTAAAAAATATTTT
1 AAGCAAATTAAAAAAT-TTTT
**
48107460 AAGCTCATTAAAAAATTTTT
1 AAGCAAATTAAAAAATTTTT
48107480 GGACTAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (20 bp):
AAGCAAATTAAAAAATTTTT
Found at i:48108240 original size:64 final size:66
Alignment explanation
Indices: 48108189--48108366 Score: 190
Period size: 64 Copynumber: 2.7 Consensus size: 66
48108179 TATTGTTATT
*
48108189 AAATTTTAATAGGATTATTA-T-ATATAATTTAATAAAAATAAAAATAAAAATAAAAAATATAAT
1 AAATTTTAATAGAATTATTATTAATATAATTTAATAAAAATAAAAATAAAAATAAAAAATATAAT
48108252 C
66 C
* * * * *
48108253 ATATTTTAATATAATTATTATTAAATATAATTTAATAAAAAT-AAAA-AAATAT-ATAACT-TAA
1 AAATTTTAATAGAATTATTATT-AATATAATTTAATAAAAATAAAAATAAAAATAAAAAATATAA
48108314 T-
65 TC
* *
48108315 AACATTTTAAATATAATTATTATTAAAATATAAATTAATAAAAATAAAAATA
1 AA-ATTTT-AATAGAATTATTATT--AATATAATTTAATAAAAATAAAAATA
48108367 TATAATGTTA
Statistics
Matches: 98, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
62 1 0.01
63 9 0.09
64 36 0.37
65 25 0.26
66 8 0.08
67 19 0.19
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.38
Consensus pattern (66 bp):
AAATTTTAATAGAATTATTATTAATATAATTTAATAAAAATAAAAATAAAAATAAAAAATATAAT
C
Found at i:48108247 original size:7 final size:6
Alignment explanation
Indices: 48108219--48108244 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
48108209 TATATAATTT
48108219 AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AA
48108245 ATATAATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:48108279 original size:16 final size:15
Alignment explanation
Indices: 48108243--48108284 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
48108233 TAAAAATAAA
48108243 AAATATAATCATATTTT
1 AAATATAAT--TATTTT
48108260 -AATATAATTATTATT
1 AAATATAATTATT-TT
48108275 AAATATAATT
1 AAATATAATT
48108285 TAATAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 4 0.17
15 2 0.09
16 17 0.74
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AAATATAATTATTTT
Found at i:48108292 original size:67 final size:66
Alignment explanation
Indices: 48108202--48108366 Score: 219
Period size: 65 Copynumber: 2.5 Consensus size: 66
48108192 TTTTAATAGG
* *
48108202 ATTATTATATATAATTTAATAAAAATAAAAATAAAAATAAAAAAT-ATAATCATATTTTAATATA
1 ATTATTAAATATAATTTAATAAAAATAAAAATAAAAATAAAAAATAATAA-CAT-TTTAAATATA
48108266 ATT
64 ATT
* * **
48108269 ATTATTAAATATAATTTAATAAAAAT-AAAA-AAATATATAACTTAATAACATTTTAAATATAAT
1 ATTATTAAATATAATTTAATAAAAATAAAAATAAAAATAAAAAATAATAACATTTTAAATATAAT
48108332 T
66 T
*
48108333 ATTATTAAAATATAAATTAATAAAAATAAAAATA
1 ATTATT-AAATATAATTTAATAAAAATAAAAATA
48108367 TATAATGTTA
Statistics
Matches: 87, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
64 18 0.21
65 31 0.36
66 12 0.14
67 26 0.30
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (66 bp):
ATTATTAAATATAATTTAATAAAAATAAAAATAAAAATAAAAAATAATAACATTTTAAATATAAT
T
Found at i:48108363 original size:21 final size:23
Alignment explanation
Indices: 48108338--48108391 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
48108328 TAATTATTAT
*
48108338 TAAAATATA-AAT-TAATAAAAA
1 TAAAATATATAATGTAAGAAAAA
*
48108359 TAAAAATATATAATGTTAGAAAAA
1 T-AAAATATATAATGTAAGAAAAA
*
48108383 TAATATATA
1 TAAAATATA
48108392 GTCTACTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 1 0.04
22 8 0.30
23 10 0.37
24 8 0.30
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (23 bp):
TAAAATATATAATGTAAGAAAAA
Found at i:48114124 original size:13 final size:13
Alignment explanation
Indices: 48114106--48114160 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
48114096 GATACCTGAT
48114106 AGCTTGTGTGAGC
1 AGCTTGTGTGAGC
48114119 AGCTTGTGT-AGC
1 AGCTTGTGTGAGC
**
48114131 TATGTCTTGACTGA-C
1 -A-G-CTTGTGTGAGC
48114146 AGCTTGTGTGAGC
1 AGCTTGTGTGAGC
48114159 AG
1 AG
48114161 GCCCGTGATT
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
12 10 0.30
13 14 0.42
14 2 0.06
15 6 0.18
16 1 0.03
ACGTcount: A:0.18, C:0.16, G:0.33, T:0.33
Consensus pattern (13 bp):
AGCTTGTGTGAGC
Found at i:48121794 original size:48 final size:48
Alignment explanation
Indices: 48121742--48121837 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
48121732 AAGTATGCAA
*
48121742 CTATGTTATGAGTTATTACAGGTATGTATGTAAAACTCATGAGTATGG
1 CTATGTTATGAGTTAGTACAGGTATGTATGTAAAACTCATGAGTATGG
* *
48121790 CTATGTTATGAGTTGGTACAGGTATGTATGTAGAACTCATGAGTATGG
1 CTATGTTATGAGTTAGTACAGGTATGTATGTAAAACTCATGAGTATGG
48121838 ACTTTAGTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.36
Consensus pattern (48 bp):
CTATGTTATGAGTTAGTACAGGTATGTATGTAAAACTCATGAGTATGG
Found at i:48121948 original size:11 final size:11
Alignment explanation
Indices: 48121932--48121956 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
48121922 GTTGAGTAGT
48121932 TGTATGATTAA
1 TGTATGATTAA
48121943 TGTATGATTAA
1 TGTATGATTAA
48121954 TGT
1 TGT
48121957 TGCTTATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (11 bp):
TGTATGATTAA
Found at i:48125267 original size:20 final size:21
Alignment explanation
Indices: 48125242--48125286 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
48125232 TGCAAAACTA
*
48125242 AAAAGAATAATTATAACAA-G
1 AAAAGAATAACTATAACAAGG
48125262 AAAAGAATAACTATAACAAGG
1 AAAAGAATAACTATAACAAGG
48125283 AAAA
1 AAAA
48125287 AGCAATGCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.67, C:0.07, G:0.11, T:0.16
Consensus pattern (21 bp):
AAAAGAATAACTATAACAAGG
Found at i:48125607 original size:29 final size:30
Alignment explanation
Indices: 48125548--48125609 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
48125538 CAAAGTGTTG
*
48125548 TTGGTTTTTTGTTTTGGTAATGCAATCTTT
1 TTGGTTTTTTGTTCTGGTAATGCAATCTTT
48125578 TTGGTTTTTTGTTCTGGTAATGCAAT-TTT
1 TTGGTTTTTTGTTCTGGTAATGCAATCTTT
48125607 TTG
1 TTG
48125610 TGGTAGAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 6 0.19
30 25 0.81
ACGTcount: A:0.13, C:0.06, G:0.21, T:0.60
Consensus pattern (30 bp):
TTGGTTTTTTGTTCTGGTAATGCAATCTTT
Found at i:48126203 original size:21 final size:21
Alignment explanation
Indices: 48126163--48126205 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
48126153 TAAATATTTA
48126163 AAATTTTAAAATATATTAAAT
1 AAATTTTAAAATATATTAAAT
*
48126184 AAATTATTAAAGTATA-TAAAT
1 AAATT-TTAAAATATATTAAAT
48126205 A
1 A
48126206 TAAAAGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
AAATTTTAAAATATATTAAAT
Found at i:48126215 original size:15 final size:17
Alignment explanation
Indices: 48126182--48126218 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
48126172 AATATATTAA
*
48126182 ATAAATTATTAAAGTAT
1 ATAAATTATAAAAGTAT
48126199 ATAAA-TATAAAAG-AT
1 ATAAATTATAAAAGTAT
48126214 ATAAA
1 ATAAA
48126219 AATTCTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 7 0.37
17 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (17 bp):
ATAAATTATAAAAGTAT
Found at i:48130585 original size:20 final size:21
Alignment explanation
Indices: 48130560--48130599 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
48130550 TTCTTGAAAC
48130560 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
48130580 AGGGCAACACGCCTGTGTGG
1 AGGGCAACACGCCCGTGTGG
48130600 TCATTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:48131866 original size:46 final size:48
Alignment explanation
Indices: 48131730--48131994 Score: 227
Period size: 46 Copynumber: 5.6 Consensus size: 48
48131720 GGTATAATGT
* * *
48131730 CGATGCCATGTCCCAGACATGGTCTTACACTAGATCTTAGATATCCGT-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-G-GCTTACATCT-CGTAGC
* *
48131780 CGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTAGC
48131826 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCG-AGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTA-GC
* * ** *
48131872 CGATG-CATGTCCTAGACAT-GTCTTACACTAGCTCT-TGTCTC-AATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCGTA-GC
* * *
48131918 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTA-ATAAT-GTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-TTACAT-CTCGTAGC
48131966 C-AGTG-CATGTCCCAGACAT-GTCTTACACT
1 CGA-TGCCATGTCCCAGACATGGTCTTACACT
48131995 AGCACACAAA
Statistics
Matches: 186, Mismatches: 16, Indels: 30
0.80 0.07 0.13
Matches are distributed among these distances:
44 12 0.06
45 18 0.10
46 72 0.39
47 29 0.16
48 21 0.11
49 3 0.02
50 31 0.17
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTAGC
Found at i:48131943 original size:94 final size:90
Alignment explanation
Indices: 48131725--48132000 Score: 285
Period size: 94 Copynumber: 3.0 Consensus size: 90
48131715 CGAAGGGTAT
* *
48131725 AATGTCGATGCCATGTCCCAGACATGGTCTTACACTAGATCTTAGATATCCGTGCCGATGCCATG
1 AATGTCGATGCCATGTCCCAGACATGGTCTTACACT-G-GCTTA-ATAT-CGGGCCGATG-CATG
48131790 TCCCAGACATGGTCTTACACT-GACACATCTC
61 TCCCAGACAT-GTCTTACACTAG-CACATCTC
* *
48131821 -GTAGTCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTC
1 AAT-GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-ATATCG-GGCCGATGCATGTC
* * *
48131883 CTAGACATGTCTTACACTAGCTCTTGTCTC
63 CCAGACATGTCTTACACTAGCAC--ATCTC
* *
48131913 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTAATAAT-GTGGCC-AGTGCATGT
1 AATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TTAAT-ATCG-GGCCGA-TGCATGT
48131976 CCCAGACATGTCTTACACTAGCACA
62 CCCAGACATGTCTTACACTAGCACA
48132001 CAAATGATCC
Statistics
Matches: 153, Mismatches: 16, Indels: 26
0.78 0.08 0.13
Matches are distributed among these distances:
90 12 0.08
91 16 0.10
92 24 0.16
93 17 0.11
94 58 0.38
95 19 0.12
96 7 0.05
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (90 bp):
AATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTAATATCGGGCCGATGCATGTCCCA
GACATGTCTTACACTAGCACATCTC
Found at i:48131990 original size:140 final size:142
Alignment explanation
Indices: 48131730--48131994 Score: 348
Period size: 140 Copynumber: 1.9 Consensus size: 142
48131720 GGTATAATGT
**
48131730 CGATGCCATGTCCCAGACATGGTCTTACACTAGATCTTAGATATCCGTGCCGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGATCTTAGATATCAATGCCGATGCCATGTCCCA
* *
48131795 GACATGGTCTTACACTGACACATCTCGTAGTCGATGCATGTCCCAGACATGTCTTACACTGGCTT
66 GACATGGTCTTACACTGACACATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTT
48131860 ACATCTCGAGGC
131 ACATCTCGAGGC
* * *
48131872 CGATG-CATGTCCTAGACAT-GTCTTACACTAGCTCTT-G-TCTCAATGCCGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGATCTTAGATATCAATGCCGATGCCATGTCCCA
*
48131933 GACATGGTCTTACACT-AGCTTTA-ATAAT-GTGGCC-AGTGCATGTCCCAGACATGTCTTACAC
66 GACATGGTCTTACACTGA-C---ACAT-ATCGTAGCCGA-TGCATGTCCCAGACATGTCTTACAC
48131994 T
125 T
48131995 AGCACACAAA
Statistics
Matches: 109, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
137 1 0.01
138 38 0.35
139 2 0.02
140 48 0.44
141 15 0.14
142 5 0.05
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (142 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGATCTTAGATATCAATGCCGATGCCATGTCCCA
GACATGGTCTTACACTGACACATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTT
ACATCTCGAGGC
Found at i:48134034 original size:15 final size:15
Alignment explanation
Indices: 48134014--48134043 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48134004 CAAACTATGT
*
48134014 CTCTAATTTAGGAAA
1 CTCTAAGTTAGGAAA
48134029 CTCTAAGTTAGGAAA
1 CTCTAAGTTAGGAAA
48134044 GATACTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (15 bp):
CTCTAAGTTAGGAAA
Found at i:48135645 original size:14 final size:14
Alignment explanation
Indices: 48135626--48135656 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
48135616 CACATATTAA
48135626 TTAACTAATTTTGT
1 TTAACTAATTTTGT
48135640 TTAACTAATTTTGT
1 TTAACTAATTTTGT
48135654 TTA
1 TTA
48135657 TTTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.58
Consensus pattern (14 bp):
TTAACTAATTTTGT
Found at i:48136818 original size:21 final size:21
Alignment explanation
Indices: 48136792--48136832 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
48136782 AACAGTCTCT
48136792 GGGTCCAACCTCCTACCATAC
1 GGGTCCAACCTCCTACCATAC
48136813 GGGTCCAACCTCCTACCATA
1 GGGTCCAACCTCCTACCATA
48136833 TGGCTTAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.41, G:0.15, T:0.20
Consensus pattern (21 bp):
GGGTCCAACCTCCTACCATAC
Found at i:48142092 original size:20 final size:20
Alignment explanation
Indices: 48142055--48142094 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
48142045 TTATTATGAG
*
48142055 CCAACTGTATTAAAATGGGC
1 CCAACTGTATCAAAATGGGC
* *
48142075 CCAACTGTGTCAATATGGGC
1 CCAACTGTATCAAAATGGGC
48142095 AAGGCCCAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (20 bp):
CCAACTGTATCAAAATGGGC
Found at i:48162392 original size:40 final size:38
Alignment explanation
Indices: 48162332--48162422 Score: 94
Period size: 40 Copynumber: 2.3 Consensus size: 38
48162322 CTCGGTATCC
*
48162332 CACACTTAGTGCCTCATATAGCCAAAGCTATTCCAACTTG
1 CACACTTAGTG-CTCATATAGCCAAAGCTATTCCAA-TCG
* * **
48162372 CACACTTAGTGCT-ATTTATAGCCGAAGCTGTTTGAATCG
1 CACACTTAGTGCTCA--TATAGCCAAAGCTATTCCAATCG
48162411 CACACTTAGTGC
1 CACACTTAGTGC
48162423 CGAACATAGT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
38 1 0.02
39 16 0.36
40 27 0.61
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.30
Consensus pattern (38 bp):
CACACTTAGTGCTCATATAGCCAAAGCTATTCCAATCG
Found at i:48164036 original size:17 final size:17
Alignment explanation
Indices: 48164016--48164049 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
48164006 AGCAGGAAAA
48164016 GAAAGAAAGAA-AAAAGG
1 GAAAGAAA-AAGAAAAGG
48164033 GAAAGAAAAAGAAAAGG
1 GAAAGAAAAAGAAAAGG
48164050 AAAATTTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (17 bp):
GAAAGAAAAAGAAAAGG
Found at i:48165828 original size:20 final size:20
Alignment explanation
Indices: 48165799--48165849 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
48165789 CAGATTTGCC
* *
48165799 CACGGCCATGTTCCAGGCCA
1 CACGGGCATGTCCCAGGCCA
48165819 CACGGGCATGTCCCAGGCCA
1 CACGGGCATGTCCCAGGCCA
48165839 CACGGGCATGT
1 CACGGGCATGT
48165850 GCCCCTATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.20, C:0.37, G:0.29, T:0.14
Consensus pattern (20 bp):
CACGGGCATGTCCCAGGCCA
Found at i:48166475 original size:25 final size:25
Alignment explanation
Indices: 48166417--48166507 Score: 96
Period size: 25 Copynumber: 3.6 Consensus size: 25
48166407 GTAGACATAC
*
48166417 CATAACTCTTATGAGCTTACCAATT
1 CATAACTCGTATGAGCTTACCAATT
48166442 C-TCAACTCGTATGAGCTTACCAATT
1 CAT-AACTCGTATGAGCTTACCAATT
* ** *
48166467 CATAGCTCGTGA-GAGAATACCGATT
1 CATAACTCGT-ATGAGCTTACCAATT
*
48166492 CATAGCTCGTATGAGC
1 CATAACTCGTATGAGC
48166508 ATACATGTAC
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
24 2 0.04
25 52 0.93
26 2 0.04
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (25 bp):
CATAACTCGTATGAGCTTACCAATT
Found at i:48171901 original size:7 final size:7
Alignment explanation
Indices: 48171889--48171917 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
48171879 CTTATCTCTT
48171889 TCCCCTC
1 TCCCCTC
48171896 TCCCCTC
1 TCCCCTC
48171903 TCCCCTC
1 TCCCCTC
48171910 TCCCCTC
1 TCCCCTC
48171917 T
1 T
48171918 TCTCACCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (7 bp):
TCCCCTC
Found at i:48192345 original size:28 final size:30
Alignment explanation
Indices: 48192314--48192378 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 30
48192304 TAAAGTGATT
48192314 TTGAGAAAAAATGT-AATT-AGGGATTAAA
1 TTGAGAAAAAATGTAAATTAAGGGATTAAA
* *
48192342 TTGAG-AAAAGTGTAAATTAAGGGGTTAAA
1 TTGAGAAAAAATGTAAATTAAGGGATTAAA
*
48192371 TTGTGAAA
1 TTGAGAAA
48192379 TAGATGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 7 0.23
28 9 0.29
29 13 0.42
30 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.25, T:0.29
Consensus pattern (30 bp):
TTGAGAAAAAATGTAAATTAAGGGATTAAA
Found at i:48192925 original size:43 final size:43
Alignment explanation
Indices: 48192864--48193026 Score: 161
Period size: 43 Copynumber: 3.8 Consensus size: 43
48192854 ATCGAGACGA
* * * *
48192864 GATTACATGTAATACCATGTCTGGGATATTGGCATTGTATTAT
1 GATTACATGTAAGACCATATCTGGGATATTGGCATCGTATAAT
* * *
48192907 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGT-TAAT
1 GATTACATGTAAGACCATATCTGGGATATTGGCATCGTATAAT
* * * * * *
48192949 CGATTTCGTGTAAGACCCTATCTGGGATAGTGGCAGCGATATGA-
1 -GATTACATGTAAGACCATATCTGGGATATTGGCATCG-TATAAT
*
48192993 GATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 GATTACATGTAAGACCATATCTGGGATATTGGCAT
48193027 TGTACGAGTT
Statistics
Matches: 100, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
42 8 0.08
43 89 0.89
44 1 0.01
45 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATATCTGGGATATTGGCATCGTATAAT
Found at i:48196313 original size:46 final size:46
Alignment explanation
Indices: 48196260--48196351 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
48196250 GACAAATTTG
48196260 ATATAATTTTGGGTATGGATTGGCTAACGCTGCATGATGCCATTGT
1 ATATAATTTTGGGTATGGATTGGCTAACGCTGCATGATGCCATTGT
48196306 ATATAATTTTGGGTATGGATTGGCTAACGCTGCATGATGCCATTGT
1 ATATAATTTTGGGTATGGATTGGCTAACGCTGCATGATGCCATTGT
48196352 CTATTGCAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (46 bp):
ATATAATTTTGGGTATGGATTGGCTAACGCTGCATGATGCCATTGT
Found at i:48200787 original size:43 final size:43
Alignment explanation
Indices: 48200637--48200793 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 43
48200627 ACATTAGGTT
* * *
48200637 ATCGAGATGAGATTACATGTAATACCATGTCTGGGACATTGGC
1 ATCGATATGTGATTACATGTAAGACCATGTCTGGGACATTGGC
* *
48200680 ATTG-TATTGTGATTACATGTAAGACCATGTCTTGGACATTGGC
1 ATCGATA-TGTGATTACATGTAAGACCATGTCTGGGACATTGGC
** * * * *
48200723 ATC-ATTAAT-CAATTTCGTGTAAGACCTTGTCTGGGACAGTGGC
1 ATCGA-T-ATGTGATTACATGTAAGACCATGTCTGGGACATTGGC
*
48200766 ATCGATATGTGATAACATGTAAGACCAT
1 ATCGATATGTGATTACATGTAAGACCAT
48200794 ATCATATGGC
Statistics
Matches: 89, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
42 3 0.03
43 82 0.92
44 3 0.03
45 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (43 bp):
ATCGATATGTGATTACATGTAAGACCATGTCTGGGACATTGGC
Done.