Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 159 of 175
Found at i:47847583 original size:23 final size:23
Alignment explanation
Indices: 47847553--47848150 Score: 413
Period size: 23 Copynumber: 26.1 Consensus size: 23
47847543 AATACCCTTA
47847553 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
47847576 AATTAAAAACCTTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* * ***
47847598 ACTTAAAAACCTTAACC-CCCTT
1 AATTAAAAACCCTAACCTAATTT
47847620 AACTTAAAAACCCTAACCTAATTT
1 AA-TTAAAAACCCTAACCTAATTT
*
47847644 AATTAAAAACCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
* *
47847667 AATTAAAAATCCTAACCTAATGT
1 AATTAAAAACCCTAACCTAATTT
*
47847690 AATTAAAAACTCTAAACCTTAA---
1 AATTAAAAACCCT-AACC-TAATTT
* *
47847712 ACTTAAAAACCCTAGCCTAATTT
1 AATTAAAAACCCTAACCTAATTT
* *
47847735 AATTAAAAACTACAAACCCTAA---
1 AATTAAAAAC-CCTAA-CCTAATTT
* * * *
47847757 ACTTAAAAATCATAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
47847780 AATTAAAAACCCTAACCTAA-TT
1 AATTAAAAACCCTAACCTAATTT
* *
47847802 AACTTAAAAACCCTAACGTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
47847826 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
47847849 AATTAAAAACCTTAAATCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
*
47847871 ACTTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
47847894 AATTAAAAACCTTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* *
47847916 ACTTAAAAACTCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
* *
47847939 AATTAAAAACCCTAAACCCTAAACCCTA
1 AATTAAAAACCCT-AA-CCT-AA--TTT
* *
47847967 AACTTAAAAACCATAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
**
47847991 AATTAAAAATTCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* ** *
47848013 ACTTAAAAACCCTAACC-CCTTA
1 AATTAAAAACCCTAACCTAATTT
*
47848035 AATTAAAAACCATAACCTAA-TT
1 AATTAAAAACCCTAACCTAATTT
47848057 AACTT-AAAACCCTAAACCCTAA---
1 AA-TTAAAAACCCT-AA-CCTAATTT
* **
47848079 ACTTAAAAACCCTAACCCCA-TT
1 AATTAAAAACCCTAACCTAATTT
47848101 AACTTAAAAACCCTAACCTAATTT
1 AA-TTAAAAACCCTAACCTAATTT
* * *
47848125 AATTAAAAATCCTAAACTAAATT
1 AATTAAAAACCCTAACCTAATTT
47848148 AAT
1 AAT
47848151 AATTTTACTT
Statistics
Matches: 454, Mismatches: 72, Indels: 98
0.73 0.12 0.16
Matches are distributed among these distances:
20 25 0.06
21 17 0.04
22 101 0.22
23 222 0.49
24 36 0.08
25 31 0.07
26 4 0.01
27 3 0.01
28 5 0.01
29 10 0.02
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.27
Consensus pattern (23 bp):
AATTAAAAACCCTAACCTAATTT
Found at i:47847595 original size:45 final size:45
Alignment explanation
Indices: 47847546--47848141 Score: 358
Period size: 45 Copynumber: 13.0 Consensus size: 45
47847536 AACCATTAAT
*
47847546 ACCCTTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCTTAA
1 ACCCTTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
* ***
47847591 ACCC-TAAACTTAAAAACCTTAACC-CCCTTAACTTAAAAACCCT-A
1 ACCCTTAAA-TTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAA
* * * *
47847635 ACCTAATTTAATTAAAAACCCTAACCTAATTAAATTAAAAATCCT-A
1 ACC--CTTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
* * *
47847681 A-CCTAATGTAATTAAAAACTCTAAACCTTAA---ACTTAAAAACCCT-A
1 ACCCT--T-AAATTAAAAACCCT-AACC-TAATTTAATTAAAAACCCTAA
* * * * * * * *
47847726 GCCTAATTTAATTAAAAACTACAAACCCTAA---ACTTAAAAATCAT-A
1 ACC--CTTAAATTAAAAAC-CCTAA-CCTAATTTAATTAAAAACCCTAA
*
47847771 ACCTAATTAAATTAAAAACCCTAACCTAA-TTAACTTAAAAACCCT-A
1 ACC--CTTAAATTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAA
** *
47847817 ACGTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCTTAA
1 AC--CCTTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
* *
47847864 ATCC-TAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCTTAA
1 ACCCTTAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
*
47847909 ACCC-TAAACTTAAAAACTCTAACCTAATTTAATTAAAAACCCTAA
1 ACCCTTAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
* * **
47847954 ACCCTAAACCCTAAACTTAAAAACCATAACCTAATTAAATTAAAAATTCTAA
1 ACCCT------TAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
** * *
47848006 ACCC-TAAACTTAAAAACCCTAACC-CCTTAAATTAAAAACCAT-A
1 ACCCTTAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
* * *
47848049 ACCTAATTAACTT-AAAACCCTAAACCCTAA---ACTTAAAAACCCTAA
1 ACC--CTTAAATTAAAAACCCT-AA-CCTAATTTAATTAAAAACCCTAA
* * *
47848094 CCCCATTAACTTAAAAACCCTAACCTAATTTAATTAAAAATCCTAA
1 ACCC-TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
47848140 AC
1 AC
47848142 TAAATTAATA
Statistics
Matches: 448, Mismatches: 60, Indels: 85
0.76 0.10 0.14
Matches are distributed among these distances:
43 15 0.03
44 60 0.13
45 204 0.46
46 109 0.24
47 16 0.04
48 4 0.01
52 40 0.09
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.26
Consensus pattern (45 bp):
ACCCTTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
Found at i:47847844 original size:159 final size:155
Alignment explanation
Indices: 47847548--47848149 Score: 705
Period size: 159 Copynumber: 3.8 Consensus size: 155
47847538 CCATTAATAC
*
47847548 CCTTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAAACTTAAAAACCTTAA
1 CCTTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCTCAAACCCTAAACTTAAAAACC-TAA
** * *
47847613 CCCCCTTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTAAATTAAAAATC
65 CCCAATTAAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCTAATTAAATTAAAAATC
47847678 CTAACCTAATGTAATTAAAAACTCTAAA
130 CTAACCTAAT-TAATTAAAAAC-CTAAA
* *
47847706 CCTTAAACTTAAAAACCCTAGCCTAATTTAATTAAAAA-CTACAAACCCTAAACTTAAAAATCAT
1 CCTTAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCT-CAAACCCTAAACTTAAAAA-CCT
* *
47847770 AACCTAATTAAATTAAAAACCCTAACCTAA-TTAACTTAAAAACCCTAACGTAATTAAATTAAAA
63 AACCCAATTAAATTAAAAACCCTAACCTAACTTAA-TTAAAAACCCTAACCTAATTAAATTAAAA
*
47847834 ACCCTAACCTAATTTAATTAAAAACCTTAAA
127 ATCCTAACCTAA-TTAATTAAAAACC-TAAA
*
47847865 TCC-TAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAAACTTAAAAACTCT
1 -CCTTAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCTCAAACCCTAAACTTAAAAAC-CT
* * * *
47847929 AACCTAATTTAATTAAAAACCCTAAACCCTAAACCCTAAACTTAAAAACCATAACCTAATTAAAT
63 AACCCAATTAAATTAAAAACCCT-AA-CCT-AA--CTTAA-TTAAAAACCCTAACCTAATTAAAT
* * *
47847994 TAAAAATTCTAAACCCTAA--ACTTAAAAACCCTAACC
122 TAAAAATCCT-AA-CCTAATTAATTAAAAA-CCTAA-A
* *
47848030 CCTTAAATTAAAAACCATAACCTAA-TTAACTTAAAACCCT-AAACCCTAAACTTAAAAACCCTA
1 CCTTAAATTAAAAACCCTAACCTAATTTAA-TTAAAAACCTCAAACCCTAAACTTAAAAA-CCTA
* * * * *
47848093 ACCCCATTAACTTAAAAACCCTAACCTAATTTAATTAAAAATCCTAAACTAAATTAA
64 ACCCAATTAAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCT-AATTAA
47848150 TAATTTTACT
Statistics
Matches: 390, Mismatches: 31, Indels: 46
0.84 0.07 0.10
Matches are distributed among these distances:
157 13 0.03
158 24 0.06
159 203 0.52
160 10 0.03
161 6 0.02
162 4 0.01
163 43 0.11
164 40 0.10
165 40 0.10
166 2 0.01
167 5 0.01
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (155 bp):
CCTTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCTCAAACCCTAAACTTAAAAACCTAAC
CCAATTAAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCTAATTAAATTAAAAATCC
TAACCTAATTAATTAAAAACCTAAA
Found at i:47847956 original size:52 final size:52
Alignment explanation
Indices: 47847900--47848014 Score: 178
Period size: 52 Copynumber: 2.2 Consensus size: 52
47847890 ATTTAATTAA
* *
47847900 AAACCTTAAACCCTAAACTTAAAAACTC-TAACCTAATTTAATTAAAAACCCT
1 AAACCCTAAACCCTAAACTTAAAAAC-CATAACCTAATTAAATTAAAAACCCT
**
47847952 AAACCCTAAACCCTAAACTTAAAAACCATAACCTAATTAAATTAAAAATTCT
1 AAACCCTAAACCCTAAACTTAAAAACCATAACCTAATTAAATTAAAAACCCT
47848004 AAACCCTAAAC
1 AAACCCTAAAC
47848015 TTAAAAACCC
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 1 0.02
52 57 0.98
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.24
Consensus pattern (52 bp):
AAACCCTAAACCCTAAACTTAAAAACCATAACCTAATTAAATTAAAAACCCT
Found at i:47847957 original size:7 final size:7
Alignment explanation
Indices: 47847945--47847969 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
47847935 ATTTAATTAA
47847945 AAACCCT
1 AAACCCT
47847952 AAACCCT
1 AAACCCT
47847959 AAACCCT
1 AAACCCT
47847966 AAAC
1 AAAC
47847970 TTAAAAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.40, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:47848023 original size:67 final size:68
Alignment explanation
Indices: 47847952--47848141 Score: 287
Period size: 67 Copynumber: 2.8 Consensus size: 68
47847942 TAAAAACCCT
* *
47847952 AAACCCTAAACCC-TAAACTTAAAAACCATAACCTAATTAAATTAAAAATTCTAAACCCTAAACT
1 AAACCCTAACCCCATAAACTTAAAAACCATAACCTAATTAAATTAAAAATCCTAAACCCTAAACT
47848016 TAA
66 TAA
* * *
47848019 AAACCCTAACCCCTTAAA-TTAAAAACCATAACCTAATTAACTT-AAAACCCTAAACCCTAAACT
1 AAACCCTAACCCCATAAACTTAAAAACCATAACCTAATTAAATTAAAAATCCTAAACCCTAAACT
47848082 TAA
66 TAA
* * *
47848085 AAACCCTAACCCCATTAACTTAAAAACCCTAACCTAATTTAATTAAAAATCCTAAAC
1 AAACCCTAACCCCATAAACTTAAAAACCATAACCTAATTAAATTAAAAATCCTAAAC
47848142 TAAATTAATA
Statistics
Matches: 110, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
66 37 0.34
67 58 0.53
68 15 0.14
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (68 bp):
AAACCCTAACCCCATAAACTTAAAAACCATAACCTAATTAAATTAAAAATCCTAAACCCTAAACT
TAA
Found at i:47848291 original size:116 final size:116
Alignment explanation
Indices: 47848144--47848387 Score: 409
Period size: 116 Copynumber: 2.1 Consensus size: 116
47848134 TCCTAAACTA
* **
47848144 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCCAGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATG-TTTTGACCAGTACTAACAAT
* *
47848209 TAATAATTTTATATAATTTGATAA-TTTTACTAATCATTAATACAATTTATC
65 TAATAATTTTACATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
* *
47848260 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTAGTATTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACCAGTACTAACAATT
47848325 AATAATTTTACATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
66 AATAATTTTACATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
47848376 AATTAATAATTT
1 AATTAATAATTT
47848388 CACAAACTTA
Statistics
Matches: 120, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
115 39 0.32
116 81 0.68
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.44
Consensus pattern (116 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACCAGTACTAACAATT
AATAATTTTACATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
Found at i:47851057 original size:125 final size:125
Alignment explanation
Indices: 47850813--47851181 Score: 569
Period size: 125 Copynumber: 3.0 Consensus size: 125
47850803 CAAACATGCT
*
47850813 ACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTTCACAAATTCTTCTCAAATAGCATCCTGCT
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTT-ACAAATTCTTCTCAAATAGCATCCTGCT
* * *
47850878 AGAAACGAATTTATACTATTTGCTCAGAAACATC-AAAAAAAATTATTTCTTCCATGACCG
65 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGACCG
* * *
47850938 ACTGTAGCAAAAGCGCGTCCACGAGAGCGCAATTTTACAAATTCTTCTCAAATAACATCCTGCTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGCTA
*
47851003 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGACCT
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGACCG
* * * *
47851063 ACTGTAGCAAAAACGCATCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTACTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGCTA
* ****
47851128 GAAGCGATTTTATACTATTTGATCAGAAACGTCAACTCGAAATTATTTCTTCCA
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCA
47851182 AGACTTAAAA
Statistics
Matches: 223, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
124 58 0.26
125 165 0.74
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (125 bp):
ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGCTA
GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGACCG
Found at i:47857619 original size:207 final size:207
Alignment explanation
Indices: 47857264--47857886 Score: 1174
Period size: 207 Copynumber: 3.0 Consensus size: 207
47857254 AAAAATAAAT
47857264 GGATCCTTGAAGAATAAAAGTGCACTCCACAAAATCCCTACAAGCCATGGACATTGGCAGACAGG
1 GGATCCTTGAAGAATAAAAGTGCACTCCACAAAATCCCTACAAGCCATGGACATTGGCAGACAGG
47857329 ATAAATGGAGAACGTGGAGTAAAAAATGTAACATATGACATGTGTTGCAAGTGCCCTGATCAAGA
66 ATAAATGGAGAACGTGGAGTAAAAAATGTAACATATGACATGTGTTGCAAGTGCCCTGATCAAGA
*
47857394 AAACTAGGGCTAATTGCCATTGTTAATGTCATATGACACGTATAGGAATGGTGCTTTGACCATCA
131 AAACTAGGGCTAATTGCCATTGTTAATGTCATATGACATGTATAGGAATGGTGCTTTGACCATCA
47857459 GATTGGAATAAG
196 GATTGGAATAAG
* *
47857471 GGATCCTTGAAGAATAAAAGTGCACTCCACAAAATCCCTACAAGCCTTGGACATCGGCAGACAGG
1 GGATCCTTGAAGAATAAAAGTGCACTCCACAAAATCCCTACAAGCCATGGACATTGGCAGACAGG
*
47857536 ATAAATGGAGAACGTGGAGTAAAAAATGTAACATATGACATGAGTTGCAAGTGCCCTGATCAAGA
66 ATAAATGGAGAACGTGGAGTAAAAAATGTAACATATGACATGTGTTGCAAGTGCCCTGATCAAGA
47857601 AAACTAGGGCTAATTGCCATTGTTAATGTCATATGACATGTATAGGAATGGTGCTTTGACCATCA
131 AAACTAGGGCTAATTGCCATTGTTAATGTCATATGACATGTATAGGAATGGTGCTTTGACCATCA
47857666 GATTGGAATAAG
196 GATTGGAATAAG
* *
47857678 GGATCCTTGAAGAATAAAAGTGCACACCACAAAATCCCTACACGCCATGGACATTGGCAGACAGG
1 GGATCCTTGAAGAATAAAAGTGCACTCCACAAAATCCCTACAAGCCATGGACATTGGCAGACAGG
*
47857743 ATAAATGGAGAACGTGGAGTAAAAACTGTAACATATGACATGTGTTGCAAGTGCCCTGATCAAGA
66 ATAAATGGAGAACGTGGAGTAAAAAATGTAACATATGACATGTGTTGCAAGTGCCCTGATCAAGA
47857808 AAACTAGGGCTAATTGCCATTGTTAATGTCATATGACATGTATAGGAATGGTGCTTTGACCATCA
131 AAACTAGGGCTAATTGCCATTGTTAATGTCATATGACATGTATAGGAATGGTGCTTTGACCATCA
*
47857873 GATTGGAAAAAG
196 GATTGGAATAAG
47857885 GG
1 GG
47857887 CACAAATATC
Statistics
Matches: 405, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
207 405 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (207 bp):
GGATCCTTGAAGAATAAAAGTGCACTCCACAAAATCCCTACAAGCCATGGACATTGGCAGACAGG
ATAAATGGAGAACGTGGAGTAAAAAATGTAACATATGACATGTGTTGCAAGTGCCCTGATCAAGA
AAACTAGGGCTAATTGCCATTGTTAATGTCATATGACATGTATAGGAATGGTGCTTTGACCATCA
GATTGGAATAAG
Found at i:47865199 original size:12 final size:12
Alignment explanation
Indices: 47865154--47865200 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
47865144 TAAGAAAATT
47865154 ATTATTAAATATA
1 ATTATT-AATATA
*
47865167 A-T-TTAATAAA
1 ATTATTAATATA
*
47865177 ATTCTTAATATA
1 ATTATTAATATA
47865189 ATTATTAATATA
1 ATTATTAATATA
47865201 TGAATTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
10 6 0.21
11 3 0.10
12 19 0.66
13 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (12 bp):
ATTATTAATATA
Found at i:47867982 original size:13 final size:15
Alignment explanation
Indices: 47867950--47867986 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
47867940 TTAATAGGAC
47867950 TAAAT-TTAAGAAAA
1 TAAATATTAAGAAAA
47867964 TAAATATTAA-AAAA
1 TAAATATTAAGAAAA
47867978 T-AATATTAA
1 TAAATATTAA
47867987 TTTCATCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.36
14 10 0.45
15 4 0.18
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (15 bp):
TAAATATTAAGAAAA
Found at i:47868808 original size:10 final size:10
Alignment explanation
Indices: 47868795--47868875 Score: 59
Period size: 10 Copynumber: 8.3 Consensus size: 10
47868785 TTTATATTTG
47868795 AAATTATTAA
1 AAATTATTAA
47868805 AAATTAATT-A
1 AAATT-ATTAA
47868815 AAATTA-TAA
1 AAATTATTAA
47868824 AAATTCA-T-A
1 AAATT-ATTAA
*
47868833 CAA-TATATAA
1 AAATTAT-TAA
47868843 AAATTATTAAA
1 AAATTATT-AA
47868854 AACATT-TTAA
1 AA-ATTATTAA
47868864 AAATTA-TAA
1 AAATTATTAA
47868873 AAA
1 AAA
47868876 AATATAAGAA
Statistics
Matches: 59, Mismatches: 2, Indels: 21
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.02
8 2 0.03
9 20 0.34
10 21 0.36
11 12 0.20
12 3 0.05
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (10 bp):
AAATTATTAA
Found at i:47868826 original size:19 final size:18
Alignment explanation
Indices: 47868795--47868854 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 18
47868785 TTTATATTTG
47868795 AAATTATTAAAAATTAATTA
1 AAATTA-TAAAAATT-ATTA
47868815 AAATTATAAAAATTCA-TA
1 AAATTATAAAAATT-ATTA
*
47868833 CAATATATAAAAATTATTA
1 AAAT-TATAAAAATTATTA
47868852 AAA
1 AAA
47868855 ACATTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 6 0.17
19 23 0.66
20 6 0.17
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATTATAAAAATTATTA
Found at i:47868828 original size:9 final size:9
Alignment explanation
Indices: 47868795--47868875 Score: 65
Period size: 9 Copynumber: 8.3 Consensus size: 9
47868785 TTTATATTTG
47868795 AAATTATTAA
1 AAATTA-TAA
*
47868805 AAATTAATTA
1 AAATT-ATAA
47868815 AAATTATAA
1 AAATTATAA
47868824 AAATTCAT-A
1 AAATT-ATAA
*
47868833 CAATATATAA
1 AAAT-TATAA
47868843 AAATTATTAAA
1 AAATTA-T-AA
*
47868854 AACATTTTAA
1 AA-ATTATAA
47868864 AAATTATAA
1 AAATTATAA
47868873 AAA
1 AAA
47868876 AATATAAGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
9 25 0.43
10 24 0.41
11 6 0.10
12 3 0.05
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (9 bp):
AAATTATAA
Found at i:47868876 original size:10 final size:10
Alignment explanation
Indices: 47868795--47868887 Score: 52
Period size: 10 Copynumber: 9.3 Consensus size: 10
47868785 TTTATATTTG
*
47868795 AAATTATTAA
1 AAATTATAAA
*
47868805 AAATTA-ATTA
1 AAATTATA-AA
47868815 AAATTAT-AA
1 AAATTATAAA
*
47868824 AAATTCATACA
1 AAATT-ATAAA
*
47868835 ATA-TAT-AA
1 AAATTATAAA
47868843 AAATTATTAAA
1 AAATTA-TAAA
*
47868854 AACATT-TTAA
1 AA-ATTATAAA
47868864 AAATTATAAA
1 AAATTATAAA
*
47868874 AAAATATAAGA
1 AAATTATAA-A
47868885 AAA
1 AAA
47868888 AATAAAGTGC
Statistics
Matches: 63, Mismatches: 10, Indels: 19
0.68 0.11 0.21
Matches are distributed among these distances:
8 3 0.05
9 13 0.21
10 33 0.52
11 11 0.17
12 3 0.05
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (10 bp):
AAATTATAAA
Found at i:47869051 original size:19 final size:19
Alignment explanation
Indices: 47868993--47869065 Score: 62
Period size: 19 Copynumber: 3.9 Consensus size: 19
47868983 ATTAACATGA
47868993 TAAAAATAT--AAAA-TAT
1 TAAAAATATAGAAAATTAT
* * *
47869009 AAAAATATATATGAAAAATGT
1 TAAAA-ATATA-GAAAATTAT
47869030 TAAAAATATAGAAAATTAT
1 TAAAAATATAGAAAATTAT
**
47869049 TAAATGTATAGAAAATT
1 TAAAAATATAGAAAATT
47869066 GTAAAAGAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
16 4 0.09
17 4 0.09
19 22 0.49
20 9 0.20
21 6 0.13
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.32
Consensus pattern (19 bp):
TAAAAATATAGAAAATTAT
Found at i:47869195 original size:18 final size:18
Alignment explanation
Indices: 47869172--47869209 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
47869162 ATGAAATTGC
*
47869172 AATAAAATATTAGAATAT
1 AATAAAATATTAAAATAT
*
47869190 AATAAAGTATTAAAATAT
1 AATAAAATATTAAAATAT
47869208 AA
1 AA
47869210 AACATGTTTA
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:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (18 bp):
AATAAAATATTAAAATAT
Found at i:47869598 original size:16 final size:16
Alignment explanation
Indices: 47869579--47869625 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
47869569 AAATCATAAT
47869579 TTTTACAAATTTTATA
1 TTTTACAAATTTTATA
* *
47869595 TTTTACAAGTTATGTATT
1 TTTTACAAATT-T-TATA
47869613 TTTTA-AAATTTTA
1 TTTTACAAATTTTA
47869626 ATATATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 2 0.08
16 11 0.42
17 5 0.19
18 8 0.31
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.57
Consensus pattern (16 bp):
TTTTACAAATTTTATA
Found at i:47869637 original size:21 final size:21
Alignment explanation
Indices: 47869611--47869656 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
47869601 AAGTTATGTA
47869611 TTTTTT-AAAATTTTAATATAT
1 TTTTTTGAAAATTTTAAT-TAT
* *
47869632 TTTTTTGCAATTTTTAATTAT
1 TTTTTTGAAAATTTTAATTAT
47869653 TTTT
1 TTTT
47869657 AAGAACTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTTTGAAAATTTTAATTAT
Found at i:47871804 original size:16 final size:17
Alignment explanation
Indices: 47871785--47871817 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
47871775 AAATTTATTT
*
47871785 TTATATAAAAA-TAATA
1 TTATAAAAAAATTAATA
47871801 TTATAAAAAAATTAATA
1 TTATAAAAAAATTAATA
47871818 CGAGGACCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TTATAAAAAAATTAATA
Found at i:47879915 original size:18 final size:18
Alignment explanation
Indices: 47879880--47879914 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
47879870 TTCGACCGAT
*
47879880 GTAAATAAATTATTAAAA
1 GTAAATAAAATATTAAAA
47879898 GTAAA-AAAATATTAAAA
1 GTAAATAAAATATTAAAA
47879915 ATCAGTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (18 bp):
GTAAATAAAATATTAAAA
Found at i:47880144 original size:24 final size:24
Alignment explanation
Indices: 47880108--47880154 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
47880098 AAGAAATTAT
47880108 AATTTTTTAAAAATGAAAAAAATAA
1 AATTTTTTAAAAAT-AAAAAAATAA
47880133 AATTTTTTAAAAATAAAAAAAT
1 AATTTTTTAAAAATAAAAAAAT
47880155 TTGTAACTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (24 bp):
AATTTTTTAAAAATAAAAAAATAA
Found at i:47880420 original size:28 final size:29
Alignment explanation
Indices: 47880389--47880448 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
47880379 TTTAATTGTT
*
47880389 TATATTTAATAATATAATAAATTATT-AA
1 TATAATTAATAATATAATAAATTATTCAA
* * *
47880417 TATAATTAATATTTTGATAAATTATTCAA
1 TATAATTAATAATATAATAAATTATTCAA
47880446 TAT
1 TAT
47880449 TACAAATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 22 0.81
29 5 0.19
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (29 bp):
TATAATTAATAATATAATAAATTATTCAA
Found at i:47880857 original size:25 final size:23
Alignment explanation
Indices: 47880826--47880877 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
47880816 AACTTATGAC
47880826 ATATTTTAACATAATATAAAAATAA
1 ATATTTT-A-ATAATATAAAAATAA
* *
47880851 ATATTTTAATTATATAAATATAA
1 ATATTTTAATAATATAAAAATAA
47880874 ATAT
1 ATAT
47880878 CTGTTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 17 0.68
24 1 0.04
25 7 0.28
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
ATATTTTAATAATATAAAAATAA
Found at i:47883689 original size:4 final size:4
Alignment explanation
Indices: 47883680--47883717 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
47883670 TATATCACCA
*
47883680 AATC AATC AATT AATC AATC AATC AATC AATC AATC AA
1 AATC AATC AATC AATC AATC AATC AATC AATC AATC AA
47883718 ACCAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (4 bp):
AATC
Found at i:47885178 original size:18 final size:17
Alignment explanation
Indices: 47885152--47885185 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
47885142 ATTTAACAAA
47885152 GATTAATTATTTATTTG
1 GATTAATTATTTATTTG
47885169 GATTATATTATTTATTT
1 GATTA-ATTATTTATTT
47885186 TCAAACAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
GATTAATTATTTATTTG
Found at i:47886550 original size:152 final size:149
Alignment explanation
Indices: 47885850--47886788 Score: 1159
Period size: 152 Copynumber: 6.3 Consensus size: 149
47885840 TATTTTGACA
* * ** *
47885850 CTTTATTCGTATTTTTTTCTCAAATTTTATTACTTTTAA-AAAATATACTATTTTATAATTTT-T
1 CTTTGTTCGTATTTTTTTCCCGGATTTTATTAC-TTTAATAAAA-ATA-TATTTTCTAATTTTAT
*
47885913 TATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAA-
63 TATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAAT
* *
47885977 TTAAAAAAATCTTTATTTCAGCC
128 TTAAAAAACTC-TTATTTCGGCC
*
47886000 ATTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTCAATAAAAATATATTATTTTCGT-ATTTT
1 CTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTT-AAT-AAAA-ATA-TATTTTC-TAATTTT
* * *
47886064 ATTATTTTACATTATTTTAGTACATCATGTTTGAAATGTATTAATTTA--GT-TTTTTAAAATAA
61 ATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTTAAATAA
* *
47886126 ATTAAAAAAACTTTTATTTCGGCC
126 ATTTAAAAAACTCTTATTTCGGCC
* * *
47886150 CTTTGTTCGTA-TTTTTTCCCAGAGTTTATTAC-TTAA-AAAAA-CTATTTTCTAATTTTATTAT
1 CTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTAATAAAAATATATTTTCTAATTTTATTAT
*
47886211 TTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTAAAATAAATTTA
66 TTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTT-
47886276 AAAAAAACTCTTATTTCGGCC
130 -AAAAAACTCTTATTTCGGCC
* *
47886297 CTTTGTTCGTATTTTTTTCCCCAGAGTTTATTAC-TTAA-AAAAATACTATTTTCTAATTTTATT
1 CTTTGTTCGTATTTTTTT-CCCGGATTTTATTACTTTAATAAAAATA-TATTTTCTAATTTTATT
*
47886360 ATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTTAGATAAATT
64 ATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATT
47886425 TAAAAAAC-CTTATTTCGGCC
129 TAAAAAACTCTTATTTCGGCC
*
47886445 CTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTCAATAAAAATATTTTTTTTTCTAATTTTA
1 CTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTT-AATAAAAATA---TATTTTCTAATTTTA
* * * *
47886510 TTATTTTAAATTATTTTAGTACAATGTGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAA
62 TTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAA
47886575 TTTAGTAAAAAACAT-TTATTTCGGCC
127 -TT--TAAAAAAC-TCTTATTTCGGCC
* *
47886601 ATTTGTTCGTATTTTTCT-CCGGATTTTATTACTTT--TAAAAATATA----CT-ATTTTATTAT
1 CTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTAATAAAAATATATTTTCTAATTTTATTAT
** * * *
47886658 TTTACATTATTTTAGTACATTAGGTTTGAAATGTATTCATTTAGTGTATTTTTTAAATAAATTTA
66 TTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTT-
* **
47886723 AAAAAAAATCTTATTTCAACC
130 -AAAAAACTCTTATTTCGGCC
* *
47886744 CTTTATTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAA
1 CTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTT-AATAAAAA
47886789 ACACACTAAA
Statistics
Matches: 705, Mismatches: 51, Indels: 69
0.85 0.06 0.08
Matches are distributed among these distances:
141 2 0.00
142 59 0.08
143 32 0.05
144 83 0.12
145 21 0.03
147 51 0.07
148 40 0.06
149 56 0.08
150 69 0.10
151 91 0.13
152 101 0.14
153 48 0.07
155 25 0.04
156 27 0.04
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (149 bp):
CTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTAATAAAAATATATTTTCTAATTTTATTAT
TTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTA
AAAAACTCTTATTTCGGCC
Found at i:47887513 original size:20 final size:20
Alignment explanation
Indices: 47887484--47887529 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
47887474 ATTTTAAAAT
* * *
47887484 CAAGTGAAAATGATTTTAAC
1 CAAGTCAAAATAATTTCAAC
*
47887504 CAAGTCAAAATAATTTCAAT
1 CAAGTCAAAATAATTTCAAC
47887524 CAAGTC
1 CAAGTC
47887530 GGAATTGCTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (20 bp):
CAAGTCAAAATAATTTCAAC
Found at i:47890084 original size:45 final size:48
Alignment explanation
Indices: 47890019--47890107 Score: 130
Period size: 45 Copynumber: 1.9 Consensus size: 48
47890009 ATTTTAATAT
* * *
47890019 TAAAATATTTAATGAATAATTCTTA-TTTAATATA-ATAGAAATTATA
1 TAAAATATTAAATAAATAATTCTTATTTTAAAATATATAGAAATTATA
47890065 TAAAA-ATTAAATAAATAATTCTTATTTTAAAATATATAGAAAT
1 TAAAATATTAAATAAATAATTCTTATTTTAAAATATATAGAAAT
47890108 GAAATTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
45 17 0.45
46 13 0.34
47 8 0.21
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (48 bp):
TAAAATATTAAATAAATAATTCTTATTTTAAAATATATAGAAATTATA
Found at i:47891531 original size:21 final size:19
Alignment explanation
Indices: 47891496--47891552 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 19
47891486 TCTTACATGA
47891496 GATAAGAGTACAAAAGAAAGAG
1 GATAAGAG-A-AAAAGAAAG-G
* * *
47891518 GTATGAGAGAAAAATATAGG
1 G-ATAAGAGAAAAAGAAAGG
47891538 GATAAGAGAAAAAGA
1 GATAAGAGAAAAAGA
47891553 GATATGAGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 12 0.41
20 2 0.07
21 7 0.24
22 2 0.07
23 6 0.21
ACGTcount: A:0.58, C:0.02, G:0.28, T:0.12
Consensus pattern (19 bp):
GATAAGAGAAAAAGAAAGG
Found at i:47891808 original size:23 final size:23
Alignment explanation
Indices: 47891745--47891809 Score: 67
Period size: 24 Copynumber: 2.8 Consensus size: 23
47891735 ATTTAATGGG
*
47891745 AAATAGAGAATCAAATATGGAAA
1 AAATAGAGAATCAAATATAGAAA
* * ** *
47891768 AAGAAAGAAAATTGAATATATAAA
1 AA-ATAGAGAATCAAATATAGAAA
47891792 AAATAGAGAATCAAATAT
1 AAATAGAGAATCAAATAT
47891810 GGGAAAGGAA
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
23 14 0.45
24 17 0.55
ACGTcount: A:0.63, C:0.03, G:0.14, T:0.20
Consensus pattern (23 bp):
AAATAGAGAATCAAATATAGAAA
Found at i:47891834 original size:47 final size:46
Alignment explanation
Indices: 47891745--47891844 Score: 139
Period size: 47 Copynumber: 2.2 Consensus size: 46
47891735 ATTTAATGGG
*
47891745 AAATAGAGAATCAAATATGGAAAAAGAAAGAAAATTGAATATATAAA
1 AAATAGAGAATCAAATATGGAAAAAGAAAGAAAATTAAATATAT-AA
* * *
47891792 AAATAGAGAATCAAATATGGGAAAGGAAAGAAAA-TAACATATATGA
1 AAATAGAGAATCAAATATGGAAAAAGAAAGAAAATTAA-ATATATAA
47891838 AAATAGA
1 AAATAGA
47891845 TCATACTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
46 10 0.21
47 38 0.79
ACGTcount: A:0.62, C:0.03, G:0.17, T:0.18
Consensus pattern (46 bp):
AAATAGAGAATCAAATATGGAAAAAGAAAGAAAATTAAATATATAA
Found at i:47893709 original size:80 final size:81
Alignment explanation
Indices: 47893620--47893775 Score: 208
Period size: 80 Copynumber: 1.9 Consensus size: 81
47893610 TTTTTTTTCC
*
47893620 TTTTCTATTCATCCCTTTTTTCCTCCATA-TTTTTTATATGTTTTGTTTTATTCACCCTAT-TTT
1 TTTTCTATTCAT-CCTTTTTTCCTCCATATTTTTTTATATGTTTTGTTTTATTCACCCCATCTTT
*
47893683 TTTATTCTTTTTCGGTT
65 TTCATTCTTTTTCGGTT
* * * ** *
47893700 TTTTTTATTCATCTTTTTTTTCTTTATATTTTTTTATCTGTTTTGTTTTATTCACCCCATCTTTT
1 TTTTCTATTCATCCTTTTTTCCTCCATATTTTTTTATATGTTTTGTTTTATTCACCCCATCTTTT
*
47893765 TCATTTTTTTT
66 TCATTCTTTTT
47893776 AATTTGTTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
79 12 0.18
80 40 0.62
81 13 0.20
ACGTcount: A:0.12, C:0.17, G:0.04, T:0.67
Consensus pattern (81 bp):
TTTTCTATTCATCCTTTTTTCCTCCATATTTTTTTATATGTTTTGTTTTATTCACCCCATCTTTT
TCATTCTTTTTCGGTT
Found at i:47897377 original size:3 final size:3
Alignment explanation
Indices: 47897371--47897417 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
47897361 TTTAGCCACT
*
47897371 TTA TTA TT- TTG TTTA TT- TTA TTA TTA TTA TTA TTA TTA TTA CTTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
47897416 TT
1 TT
47897418 TGTTTATGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
2 4 0.10
3 30 0.77
4 5 0.13
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:47897968 original size:16 final size:16
Alignment explanation
Indices: 47897949--47897979 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47897939 TACACCCATA
*
47897949 TATATGTACATATTTT
1 TATATATACATATTTT
47897965 TATATATACATATTT
1 TATATATACATATTT
47897980 ATCGTTTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATATACATATTTT
Found at i:47923378 original size:46 final size:44
Alignment explanation
Indices: 47923311--47923640 Score: 204
Period size: 46 Copynumber: 7.6 Consensus size: 44
47923301 ATAATACAGG
*
47923311 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* *
47923357 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA-T-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAG--A
* * * * * *
47923401 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * * * *
47923440 TCGTATCTCTCTGA-AGTTACAGTAGAGA-AGATC--ACA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCAAAGATTCAGA
*
47923481 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* * ** ****
47923527 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * * * *
47923571 TCTCATCTCCCTGAGATTACAGCGGAGCAGATCGAAGA--CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCA-GA
*
47923614 TCCTATCTCCCTGA-AGTTACAGTGGAA
1 TCTTATCTCCCTGAGA-TTACAGTGGAA
47923641 TGGATTAAAA
Statistics
Matches: 222, Mismatches: 45, Indels: 37
0.73 0.15 0.12
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 23 0.10
40 1 0.00
41 27 0.12
42 5 0.02
43 24 0.11
44 69 0.31
45 1 0.00
46 70 0.32
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
Found at i:47925275 original size:3 final size:3
Alignment explanation
Indices: 47925269--47925315 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
47925259 TTTAGCCACT
*
47925269 TTA TTA TT- TTG TTTA TT- TTA TTA TTA TTA TTA TTA TTA TTA CTTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
47925314 TT
1 TT
47925316 TGTTTATGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
2 4 0.10
3 30 0.77
4 5 0.13
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:47925873 original size:16 final size:16
Alignment explanation
Indices: 47925854--47925884 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47925844 TACACCCATA
*
47925854 TATATGTACATATTTT
1 TATATATACATATTTT
47925870 TATATATACATATTT
1 TATATATACATATTT
47925885 ATCGTTTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATATACATATTTT
Found at i:47928402 original size:18 final size:18
Alignment explanation
Indices: 47928376--47928415 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
47928366 ATAATTTGTG
*
47928376 ATAATTATACATTTAAAA-
1 ATAACTATA-ATTTAAAAT
47928394 ATAACTATAATTTAAAAT
1 ATAACTATAATTTAAAAT
47928412 ATAA
1 ATAA
47928416 GAAAAAAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAACTATAATTTAAAAT
Found at i:47929483 original size:242 final size:240
Alignment explanation
Indices: 47928996--47929517 Score: 583
Period size: 242 Copynumber: 2.2 Consensus size: 240
47928986 TTAAAATATT
*
47928996 AATGTGTGTTTAAAAATAAAAT-TCAATAAATAATGAAACGTATGATTTGAAACTAATTAATAAT
1 AATGTGTGTTTAAAAATAAAATAT-AATAAATAATGAAACGTATGACTTGAAACTAATTAATAAT
* * * *
47929060 AACGCATGAAATATGTACGTTATTAAAATGAAAAAATTAGACTGAAATGTTTATTTTAGTGTTGT
65 AACCCATAAAATATGTACGATATTAAAATGAAAAAATTAGACTGAAATGTTTATATTAGTGTTGT
* * * *
47929125 CATCATGAGTCAGTGTTAAGTTAACCTATGACACCAGCTCAATCAAATGCATTATTAATACTAGA
130 CATCATAAGTCAGTGTCAAGTTAACCTATGACACAAGCTCAATCAAATACATTATTAATAC-AGA
*
47929190 AATCCTATCACACACGTATGCGCGTGGAAACTAAAAATATGGAAAACA
194 AATCCTATCACACACGTATGCGCGTGGAAACCAAAAATA-GGAAAACA
* * * *
47929238 AATGTGTGTTTAAAAATAACATATATTAAATAAT-AGAATGTATGGCTTGAAACTAATTAATAAT
1 AATGTGTGTTTAAAAATAAAATATAATAAATAATGA-AACGTATGACTTGAAACTAATTAATAAT
* * * *
47929302 AACCCATAAAATATGTATGATATTAAAATTAAAAATTTTA-A-TTAAATTGTTTATCATT-GTGT
65 AACCCATAAAATATGTACGATATTAAAATGAAAAA-ATTAGACTGAAA-TGTTTAT-ATTAGTGT
* * * * * * *
47929364 TGTCATCAATCTTAAGTTAGTGTCGAGTTAACTTGTGACACAA-ATCCAATCAAGTATATTATTA
127 TGTCATC-A---TAAGTCAGTGTCAAGTTAACCTATGACACAAGCT-CAATCAAATACATTATTA
* * * * * * *
47929428 ATA-AGAAATCTTATCACACGCGTATGTGTGTGGCAACCACAAATA-GAACACA
187 ATACAGAAATCCTATCACACACGTATGCGCGTGGAAACCAAAAATAGGAAAACA
*
47929480 AATGTGTGTTTAAAAATAATATATAATAAATAATGAAA
1 AATGTGTGTTTAAAAATAAAATATAATAAATAATGAAA
47929518 AGAAGAAACC
Statistics
Matches: 235, Mismatches: 34, Indels: 22
0.81 0.12 0.08
Matches are distributed among these distances:
241 5 0.02
242 144 0.61
243 8 0.03
244 35 0.15
245 1 0.00
246 42 0.18
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (240 bp):
AATGTGTGTTTAAAAATAAAATATAATAAATAATGAAACGTATGACTTGAAACTAATTAATAATA
ACCCATAAAATATGTACGATATTAAAATGAAAAAATTAGACTGAAATGTTTATATTAGTGTTGTC
ATCATAAGTCAGTGTCAAGTTAACCTATGACACAAGCTCAATCAAATACATTATTAATACAGAAA
TCCTATCACACACGTATGCGCGTGGAAACCAAAAATAGGAAAACA
Found at i:47932368 original size:9 final size:9
Alignment explanation
Indices: 47932353--47932387 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
47932343 AGTTTTCGAC
47932353 TTCGAATAA
1 TTCGAATAA
*
47932362 CTCGAATAA
1 TTCGAATAA
47932371 TTCGAATAA
1 TTCGAATAA
47932380 TTCGAATA
1 TTCGAATA
47932388 TCAAACTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.31
Consensus pattern (9 bp):
TTCGAATAA
Found at i:47934607 original size:38 final size:38
Alignment explanation
Indices: 47934547--47934677 Score: 109
Period size: 38 Copynumber: 3.3 Consensus size: 38
47934537 TTTTATCAGT
* * *
47934547 TTTGTTTTATTCACCCCATTTTTTTCATTCTTTTTCGG
1 TTTGTTTTATTCATCACATTTTTTTCATTCTTTTTCGA
* * * * *
47934585 TTTGTTTTATTCATCTCTTTTTTTCTCCATATTTTTTATTTGT
1 TTTGTTTTATTCATCACATTTTTT-T-C--ATTCTTT-TTCGA
* * * *
47934628 TTTGATTTATTCATCACATCTTTTTCAGTCTTTTTCAA
1 TTTGTTTTATTCATCACATTTTTTTCATTCTTTTTCGA
47934666 TTTGTTTTATTC
1 TTTGTTTTATTC
47934678 TTTCCGATTC
Statistics
Matches: 72, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
38 34 0.47
39 6 0.08
40 1 0.01
41 1 0.01
42 7 0.10
43 23 0.32
ACGTcount: A:0.14, C:0.17, G:0.06, T:0.63
Consensus pattern (38 bp):
TTTGTTTTATTCATCACATTTTTTTCATTCTTTTTCGA
Found at i:47934623 original size:81 final size:82
Alignment explanation
Indices: 47934510--47934677 Score: 239
Period size: 81 Copynumber: 2.1 Consensus size: 82
47934500 TTTTCTTTTC
* * * *
47934510 TATTCATCCCTTTTTTTTCTCCATATTTTTTATCAGTTTTGTTTTATTCACCCCATTTTTTTCAT
1 TATTCATCCCTTTTTTTTCTCCATATTTTTTATCAGTTTTGATTTATTCACCACATCTTTTTCAG
**
47934575 TCTTTTTCGGTTTGTTT
66 TCTTTTTCAATTTGTTT
* ** *
47934592 TATTCATCTC-TTTTTTTCTCCATATTTTTTATTTGTTTTGATTTATTCATCACATCTTTTTCAG
1 TATTCATCCCTTTTTTTTCTCCATATTTTTTATCAGTTTTGATTTATTCACCACATCTTTTTCAG
47934656 TCTTTTTCAATTTGTTT
66 TCTTTTTCAATTTGTTT
47934673 TATTC
1 TATTC
47934678 TTTCCGATTC
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
81 67 0.88
82 9 0.12
ACGTcount: A:0.14, C:0.18, G:0.05, T:0.62
Consensus pattern (82 bp):
TATTCATCCCTTTTTTTTCTCCATATTTTTTATCAGTTTTGATTTATTCACCACATCTTTTTCAG
TCTTTTTCAATTTGTTT
Found at i:47934642 original size:43 final size:43
Alignment explanation
Indices: 47934510--47934642 Score: 141
Period size: 38 Copynumber: 3.2 Consensus size: 43
47934500 TTTTCTTTTC
*
47934510 TATTCATCCCTTTTTTTTCTCCATATTTTTTATCAGTTTTGTTT
1 TATTCATCCC-TTTTTTTCTCCATATTTTTTATTAGTTTTGTTT
* * * * *
47934554 TATTCACCCCATTTTTT-T-C--ATTCTTT-TTCGGTTTGTTT
1 TATTCATCCCTTTTTTTCTCCATATTTTTTATTAGTTTTGTTT
* * *
47934592 TATTCATCTCTTTTTTTCTCCATATTTTTTATTTGTTTTGATT
1 TATTCATCCCTTTTTTTCTCCATATTTTTTATTAGTTTTGTTT
47934635 TATTCATC
1 TATTCATC
47934643 ACATCTTTTT
Statistics
Matches: 71, Mismatches: 13, Indels: 11
0.75 0.14 0.12
Matches are distributed among these distances:
38 23 0.32
39 7 0.10
40 1 0.01
41 1 0.01
42 7 0.10
43 23 0.32
44 9 0.13
ACGTcount: A:0.14, C:0.18, G:0.05, T:0.63
Consensus pattern (43 bp):
TATTCATCCCTTTTTTTCTCCATATTTTTTATTAGTTTTGTTT
Found at i:47938209 original size:47 final size:47
Alignment explanation
Indices: 47938143--47938238 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
47938133 TTTTCTTTTC
47938143 TTTGAAGATCCAGGTATGGAAGGAAGGAGAAGATGAACATTCTCTCT
1 TTTGAAGATCCAGGTATGGAAGGAAGGAGAAGATGAACATTCTCTCT
47938190 TTTGAAGATCCAGGTATGGAAGGAAGGAGAAGATGAACATTCTCTCT
1 TTTGAAGATCCAGGTATGGAAGGAAGGAGAAGATGAACATTCTCTCT
47938237 TT
1 TT
47938239 CTTTCCATTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (47 bp):
TTTGAAGATCCAGGTATGGAAGGAAGGAGAAGATGAACATTCTCTCT
Found at i:47940200 original size:98 final size:97
Alignment explanation
Indices: 47940003--47940262 Score: 314
Period size: 98 Copynumber: 2.7 Consensus size: 97
47939993 TAAAATTTTT
* * *
47940003 AAAAAAATTTTTAAGTGCTGGTTTGTCAATGG-CTGGCACCCAGTACAATTAAATTTTTTTTTAT
1 AAAAAAATTTTT-GGTGCTGGCTTGTCAATGGTCT-GCACCTAGTACAATTAAATTTTTTTTT-T
* * *
47940067 -G-TCAGAATCAGATATCAAAATACGAAAGAAGTA
63 CGTTCAGAATCAGATATCAAAATACCAAAAAAATA
* *
47940100 AAAAAAATTTTTGGTGTTGGCCTGTCAATGGTCTGCACCTAGTACAATTAAATTTTTTTTTTCGT
1 AAAAAAATTTTTGGTGCTGGCTTGTCAATGGTCTGCACCTAGTACAATTAAATTTTTTTTTTCGT
* *
47940165 CTCAGAATCAGATATTAGAATACCAAAAAAATA
66 -TCAGAATCAGATATCAAAATACCAAAAAAATA
* * *
47940198 AAAAAAA-TTTTGGATGCTGACTTGTCAATGAT-TGACACCTAGTATAATTAAATTTTTTTTTTC
1 AAAAAAATTTTTGG-TGCTGGCTTGTCAATGGTCTG-CACCTAGTACAATTAAATTTTTTTTTTC
47940261 GT
64 GT
47940263 GTCAAAGATT
Statistics
Matches: 142, Mismatches: 15, Indels: 11
0.85 0.09 0.07
Matches are distributed among these distances:
95 1 0.01
96 42 0.30
97 22 0.15
98 77 0.54
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.37
Consensus pattern (97 bp):
AAAAAAATTTTTGGTGCTGGCTTGTCAATGGTCTGCACCTAGTACAATTAAATTTTTTTTTTCGT
TCAGAATCAGATATCAAAATACCAAAAAAATA
Found at i:47941384 original size:28 final size:27
Alignment explanation
Indices: 47941344--47941401 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 27
47941334 ATAATAAATA
*
47941344 TTTTTATTTTTTTAATTTTAAAATACTT
1 TTTTTAATTTTTTAATTTTAAAATA-TT
47941372 TTTTTAATTTTTTAATTTTAAAATATT
1 TTTTTAATTTTTTAATTTTAAAATATT
47941399 TTT
1 TTT
47941402 AAAATACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (27 bp):
TTTTTAATTTTTTAATTTTAAAATATT
Found at i:47941412 original size:28 final size:28
Alignment explanation
Indices: 47941353--47941412 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
47941343 ATTTTTATTT
** *
47941353 TTTTAATTTTAAAATACTTTTTTTAATT
1 TTTTAATTTTAAAATACTTTTTAAAATC
47941381 TTTTAATTTTAAAATA-TTTTTAAAATAC
1 TTTTAATTTTAAAATACTTTTTAAAAT-C
47941409 TTTT
1 TTTT
47941413 TTAATTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTTAATTTTAAAATACTTTTTAAAATC
Found at i:47956429 original size:33 final size:34
Alignment explanation
Indices: 47956392--47956675 Score: 198
Period size: 33 Copynumber: 7.8 Consensus size: 34
47956382 TCCTTCAAGG
47956392 GGTTGCTAAGTGCTGATTCC-CCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCACCGATTCATTGGT
* * *
47956425 GGTTGCTAAGTGCCGATTCCACCGTATCTTAAATGTGAAAGA
1 GGTTGCTAAGTGCTGATTCCACCG-A--TT-CAT-TG---GT
* *
47956467 GGTTGCTAAGTGCTAATTCC-CCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCACCGATTCATTGGT
* *
47956500 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCG-A--TT-CAT-T---GGT
* *
47956542 GGTTGCTAAGTGCTGATTCC-CCGAATCGTTGGT
1 GGTTGCTAAGTGCTGATTCCACCGATTCATTGGT
* * *
47956575 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCG-A--TT-CAT-TG---GT
*
47956617 GGTTGCTAAGTGCTGATTCC-CCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCACCGATTCATTGGT
*
47956650 GGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCCACCGAT
47956676 AACGGATAAC
Statistics
Matches: 196, Mismatches: 27, Indels: 55
0.71 0.10 0.20
Matches are distributed among these distances:
33 80 0.41
34 13 0.07
35 3 0.02
36 5 0.03
37 9 0.05
38 8 0.04
39 5 0.03
40 3 0.02
41 9 0.05
42 61 0.31
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (34 bp):
GGTTGCTAAGTGCTGATTCCACCGATTCATTGGT
Found at i:47956486 original size:42 final size:41
Alignment explanation
Indices: 47956425--47956636 Score: 204
Period size: 42 Copynumber: 5.5 Consensus size: 41
47956415 ATTCATTGGT
* *
47956425 GGTTGCTAAGTGCCGATTCCACCGTATCTTAAATGTGAAAGA
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG-AAGG
* * *
47956467 GGTTGCTAAGTGCTAATTCC-CCG-A-C-T-CAT-TG--GT
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGG
47956500 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAA-GG
* * *
47956542 GGTTGCTAAGTGCTGATTCC-CCGAATC----GT-TG--GT
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGG
*
47956575 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG-AAGG
47956617 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
47956637 CCGACTCATT
Statistics
Matches: 137, Mismatches: 15, Indels: 36
0.73 0.08 0.19
Matches are distributed among these distances:
33 40 0.29
34 9 0.07
35 1 0.01
36 5 0.04
37 4 0.03
38 4 0.03
39 5 0.04
40 1 0.01
41 9 0.07
42 59 0.43
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGG
Found at i:47956518 original size:75 final size:75
Alignment explanation
Indices: 47956388--47956673 Score: 491
Period size: 75 Copynumber: 3.8 Consensus size: 75
47956378 TGATTCCTTC
* *
47956388 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCCGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
47956453 TTAAATGTGA
66 TTAAATGTGA
* *
47956463 AAGAGGTTGCTAAGTGCTAATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
47956528 TTAAATGTGA
66 TTAAATGTGA
* * * *
47956538 AGGGGGTTGCTAAGTGCTGATTCCCCGAATCGTTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
47956603 TTAAATGTGA
66 TTAAATGTGA
*
47956613 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
47956674 ATAACGGATA
Statistics
Matches: 196, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 196 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTAAATGTGA
Found at i:47962768 original size:6 final size:6
Alignment explanation
Indices: 47962757--47962782 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
47962747 CAATTTAGTA
47962757 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
47962783 AATTGAGTTT
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:47963496 original size:24 final size:23
Alignment explanation
Indices: 47963469--47963519 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
47963459 GTTTAGCTTG
* * *
47963469 TAAAAATATGTTTAGTATATTAAT
1 TAAAAATAAGTATAGAATA-TAAT
*
47963493 TAAAATTAAGTATAGAATATAAT
1 TAAAAATAAGTATAGAATATAAT
47963516 TAAA
1 TAAA
47963520 TTTTTTATAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (23 bp):
TAAAAATAAGTATAGAATATAAT
Found at i:47963651 original size:8 final size:9
Alignment explanation
Indices: 47963635--47963659 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
47963625 TGATATAATG
47963635 TTAAAAAAA
1 TTAAAAAAA
47963644 TTAAAAAAA
1 TTAAAAAAA
47963653 TTAAAAA
1 TTAAAAA
47963660 TATTCTTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:47967181 original size:33 final size:32
Alignment explanation
Indices: 47967144--47967304 Score: 108
Period size: 33 Copynumber: 4.8 Consensus size: 32
47967134 ACATTCAAAG
*
47967144 TGCCATAACTCAATTATGGTCTTATCATCAGAA
1 TGCCATAACTCAACTATGGTCTTA-CATCAGAA
* * * *
47967177 TGCCATAACCCAGCTATGGTCTTACATATAAACA
1 TGCCATAACTCAACTATGGTCTTACAT-CAGA-A
** * * *
47967211 CTGCCAT-GGTCCAACCATGGTCTTACATTCATAG
1 -TGCCATAACT-CAACTATGGTCTTACA-TCAGAA
** *
47967245 TGCCATAACTCAGTTATGGTCTTGTCATCAGAA
1 TGCCATAACTCAACTATGGTCTT-ACATCAGAA
* * *
47967278 TGCCATAGCCCAACTATAGTCTTACAT
1 TGCCATAACTCAACTATGGTCTTACAT
47967305 ATAAACACTG
Statistics
Matches: 94, Mismatches: 27, Indels: 15
0.69 0.20 0.11
Matches are distributed among these distances:
32 6 0.06
33 61 0.65
34 4 0.04
35 22 0.23
36 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (32 bp):
TGCCATAACTCAACTATGGTCTTACATCAGAA
Found at i:47967231 original size:35 final size:34
Alignment explanation
Indices: 47967192--47967337 Score: 93
Period size: 33 Copynumber: 4.3 Consensus size: 34
47967182 TAACCCAGCT
47967192 ATGGTCTTACATATAAACACTGCCATGGTCCAACC
1 ATGGTCTTACAT-TAAACACTGCCATGGTCCAACC
* * * ** ***
47967227 ATGGTCTTACATT-CATAGTGCCAT-AACTCAGTT
1 ATGGTCTTACATTAAACACTGCCATGGTC-CAACC
* * * * * *
47967260 ATGGTCTTGTCATCAGA-A-TGCCATAGCCCAACT
1 ATGGTCTT-ACATTAAACACTGCCATGGTCCAACC
*
47967293 ATAGTCTTACATATAAACACTGCCATGGTCCAACC
1 ATGGTCTTACAT-TAAACACTGCCATGGTCCAACC
47967328 ATGGTCTTAC
1 ATGGTCTTAC
47967338 GTTCATAGTG
Statistics
Matches: 81, Mismatches: 23, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
32 4 0.05
33 36 0.44
34 7 0.09
35 34 0.42
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (34 bp):
ATGGTCTTACATTAAACACTGCCATGGTCCAACC
Found at i:47967307 original size:101 final size:101
Alignment explanation
Indices: 47967132--47967371 Score: 408
Period size: 101 Copynumber: 2.4 Consensus size: 101
47967122 AATTCATCCT
* * * *
47967132 TTACATTCAAAGTGCCATAACTCAATTATGGTCTTATCATCAGAATGCCATAACCCAGCTATGGT
1 TTACATTCATAGTGCCATAACTCAGTTATGGTCTTATCATCAGAATGCCATAACCCAACTATAGT
47967197 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
* *
47967233 TTACATTCATAGTGCCATAACTCAGTTATGGTCTTGTCATCAGAATGCCATAGCCCAACTATAGT
1 TTACATTCATAGTGCCATAACTCAGTTATGGTCTTATCATCAGAATGCCATAACCCAACTATAGT
47967298 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
* *
47967334 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATC
1 TTACATTCATAGTGCCATAACTCAGTTATGGTCTTATC
47967372 CGTCAATTCA
Statistics
Matches: 130, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 130 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (101 bp):
TTACATTCATAGTGCCATAACTCAGTTATGGTCTTATCATCAGAATGCCATAACCCAACTATAGT
CTTACATATAAACACTGCCATGGTCCAACCATGGTC
Found at i:47969309 original size:12 final size:11
Alignment explanation
Indices: 47969292--47969341 Score: 55
Period size: 11 Copynumber: 4.3 Consensus size: 11
47969282 CTTTCCTTTT
47969292 ATACTAAATAAA
1 ATACT-AATAAA
47969304 ATACTAATAAA
1 ATACTAATAAA
*
47969315 ATATCTCATTAAA
1 ATA-CT-AATAAA
*
47969328 ATATTAATAAA
1 ATACTAATAAA
47969339 ATA
1 ATA
47969342 ATATTTATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
11 17 0.52
12 8 0.24
13 8 0.24
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (11 bp):
ATACTAATAAA
Found at i:47969886 original size:26 final size:26
Alignment explanation
Indices: 47969840--47969889 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
47969830 TACATTGACG
*
47969840 ATTTTGCCCCTAATAACATTTTGATA
1 ATTTTGCCCCTAATAAAATTTTGATA
**
47969866 ATTTTGCCCCTGGTAAAATTTTGA
1 ATTTTGCCCCTAATAAAATTTTGA
47969890 GAAAATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (26 bp):
ATTTTGCCCCTAATAAAATTTTGATA
Found at i:47975214 original size:13 final size:13
Alignment explanation
Indices: 47975198--47975222 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47975188 AAAATGAAAA
47975198 TAAAATTAAATAG
1 TAAAATTAAATAG
47975211 TAAAATTAAATA
1 TAAAATTAAATA
47975223 ATAATAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
TAAAATTAAATAG
Found at i:47978687 original size:17 final size:17
Alignment explanation
Indices: 47978667--47978704 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
47978657 ATATTTTTTT
*
47978667 TAAAAAAATAAGAATAA
1 TAAAAAAATAAAAATAA
*
47978684 TAAAAAAATAAAAATTA
1 TAAAAAAATAAAAATAA
47978701 TAAA
1 TAAA
47978705 TTATCAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
TAAAAAAATAAAAATAA
Found at i:47984248 original size:20 final size:20
Alignment explanation
Indices: 47984223--47984262 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
47984213 AATATTTTTC
*
47984223 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
47984243 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
47984263 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:47984264 original size:34 final size:35
Alignment explanation
Indices: 47984211--47984277 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
47984201 CAAACACCAG
* *
47984211 AAAATATTTTTCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
47984246 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
47984278 TATTTTACTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:47988062 original size:12 final size:12
Alignment explanation
Indices: 47988045--47988077 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
47988035 TGACTCGGCC
47988045 ATATTAATTTTT
1 ATATTAATTTTT
47988057 ATATT-ATTTTT
1 ATATTAATTTTT
47988068 ATA-TAATTTT
1 ATATTAATTTT
47988078 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:47988318 original size:3 final size:3
Alignment explanation
Indices: 47988301--47988363 Score: 58
Period size: 3 Copynumber: 21.7 Consensus size: 3
47988291 ATAGGGAGAA
* * * * *
47988301 AAT AAT AAG AA- AAT AAT ATT AAA AAC AA- AAT AAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
47988347 AAT ATT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
47988364 ACAAAAAAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
2 4 0.08
3 45 0.92
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:48007851 original size:21 final size:22
Alignment explanation
Indices: 48007821--48007864 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
48007811 TAAATTTTTA
*
48007821 TAATTTATAA-AAATTTTAATT
1 TAATTCATAATAAATTTTAATT
*
48007842 TAATTCATAATAAATTTTGATT
1 TAATTCATAATAAATTTTAATT
48007864 T
1 T
48007865 TGTTTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
TAATTCATAATAAATTTTAATT
Found at i:48008767 original size:16 final size:16
Alignment explanation
Indices: 48008746--48008796 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
48008736 GGTTCACTGG
48008746 AATGGAATAAGATTGT
1 AATGGAATAAGATTGT
* *
48008762 AATGGAATAGGACTGT
1 AATGGAATAAGATTGT
48008778 AATGGAAT-AGAGTTGT
1 AATGGAATAAGA-TTGT
48008794 AAT
1 AAT
48008797 CAGTGATTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 2 0.07
16 28 0.93
ACGTcount: A:0.41, C:0.02, G:0.27, T:0.29
Consensus pattern (16 bp):
AATGGAATAAGATTGT
Found at i:48008844 original size:14 final size:14
Alignment explanation
Indices: 48008825--48008864 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
48008815 TTGATTGGCA
48008825 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
48008839 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
48008853 GGAAAATGTTTT
1 GTAAAATGTTTT
48008865 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:48008873 original size:20 final size:20
Alignment explanation
Indices: 48008848--48008887 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
48008838 CGTAAAATGA
*
48008848 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
48008868 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
48008888 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:48008877 original size:34 final size:35
Alignment explanation
Indices: 48008833--48008899 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
48008823 CAGTAAAATG
*
48008833 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
48008867 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
48008900 TTAGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:48009005 original size:18 final size:19
Alignment explanation
Indices: 48008978--48009030 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
48008968 GAAAAGTTAT
*
48008978 TTTTACATATATTAATAAA
1 TTTTATATATATTAATAAA
48008997 TTTATATATATATTAATAAA
1 TTT-TATATATATTAATAAA
*
48009017 TTTT-TATATTTTAA
1 TTTTATATATATTAA
48009031 ATTATTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 9 0.29
19 4 0.13
20 18 0.58
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTATATATATTAATAAA
Found at i:48009026 original size:16 final size:20
Alignment explanation
Indices: 48008984--48009025 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
48008974 TTATTTTTAC
48008984 ATATATTAATAAATTTATAT
1 ATATATTAATAAATTTATAT
*
48009004 ATATATTAATAAATTTTTAT
1 ATATATTAATAAATTTATAT
48009024 AT
1 AT
48009026 TTTAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATATTAATAAATTTATAT
Found at i:48011960 original size:14 final size:14
Alignment explanation
Indices: 48011941--48011973 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
48011931 GAGGTAGACC
48011941 GGAGGTGGACCGGT
1 GGAGGTGGACCGGT
*
48011955 GGAGGTGGATCGGT
1 GGAGGTGGACCGGT
48011969 GGAGG
1 GGAGG
48011974 ACGGAGGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.09, G:0.61, T:0.15
Consensus pattern (14 bp):
GGAGGTGGACCGGT
Found at i:48015701 original size:18 final size:18
Alignment explanation
Indices: 48015678--48015714 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
48015668 AAGCCTCCTT
48015678 TCTCTCCCTCTTCGTTTA
1 TCTCTCCCTCTTCGTTTA
48015696 TCTCTCCCTCTTCGTTTA
1 TCTCTCCCTCTTCGTTTA
48015714 T
1 T
48015715 TTGTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.38, G:0.05, T:0.51
Consensus pattern (18 bp):
TCTCTCCCTCTTCGTTTA
Found at i:48016912 original size:15 final size:15
Alignment explanation
Indices: 48016894--48016931 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
48016884 CCTTTTTATG
48016894 AATTATTTTTTATTT
1 AATTATTTTTTATTT
*
48016909 AATTATCTATTTATTT
1 AATTAT-TTTTTATTT
48016925 -ATTATTT
1 AATTATTT
48016932 CCTTACCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
14 1 0.05
15 11 0.55
16 8 0.40
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (15 bp):
AATTATTTTTTATTT
Found at i:48017154 original size:19 final size:19
Alignment explanation
Indices: 48017132--48017250 Score: 67
Period size: 19 Copynumber: 6.5 Consensus size: 19
48017122 TGGTACCTAC
48017132 TATTATTTTATTCTTATAT
1 TATTATTTTATTCTTATAT
* *
48017151 TATTATTTTACAATACTCAT-T
1 TATTATTTT---ATTCTTATAT
* *
48017172 TCA-AATTTTA-TC-TATGT
1 T-ATTATTTTATTCTTATAT
* *
48017189 T-TTA-TTTATTTTTATGT
1 TATTATTTTATTCTTATAT
*
48017206 AATTATTTTA-T-TT-TAT
1 TATTATTTTATTCTTATAT
*
48017222 TATTATTTTGTTCTTATAT
1 TATTATTTTATTCTTATAT
48017241 TATTATTTTA
1 TATTATTTTA
48017251 ACCATTTTGC
Statistics
Matches: 75, Mismatches: 12, Indels: 26
0.66 0.11 0.23
Matches are distributed among these distances:
15 4 0.05
16 14 0.19
17 11 0.15
18 7 0.09
19 25 0.33
21 7 0.09
22 7 0.09
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.65
Consensus pattern (19 bp):
TATTATTTTATTCTTATAT
Found at i:48018506 original size:31 final size:30
Alignment explanation
Indices: 48018469--48018536 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
48018459 TTAACAACCT
* *
48018469 AATGACTTAAATAAAAACTTTTGAATAGTTC
1 AATGACTTAAATAAAAA-GTTTGAATAATTC
* * *
48018500 AGTGACTTCAATGAAAAGTTTGAATAATTC
1 AATGACTTAAATAAAAAGTTTGAATAATTC
48018530 AATGACT
1 AATGACT
48018537 ATTTTGTAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
30 17 0.55
31 14 0.45
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (30 bp):
AATGACTTAAATAAAAAGTTTGAATAATTC
Found at i:48021801 original size:42 final size:42
Alignment explanation
Indices: 48021673--48021900 Score: 287
Period size: 42 Copynumber: 5.3 Consensus size: 42
48021663 ACGTCGCTAA
* * *
48021673 CTTTTGCGGCGCTTACAGAAAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGGAAAAAACGCCGCTAAAGATCATGTT
* * *
48021717 CTTTAGCGGCGGTAAGGAAATAAAAGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAA-AAACGCCGCTAAAGATCATGTT
*
48021760 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATTATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
* * *
48021802 CTTTAGCGGCGCTTGGGAAAAAACGCCGCGAAAAATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
* *
48021844 CTTTAGCGGCACTTAGGAAGAAAACGCCGCTAAA-AGTAATGTT
1 CTTTAGCGGCGCTTAGGAA-AAAACGCCGCTAAAGA-TCATGTT
*
48021887 CTATAGCGGCGCTT
1 CTTTAGCGGCGCTT
48021901 GGTCACAAAC
Statistics
Matches: 162, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
42 81 0.50
43 70 0.43
44 11 0.07
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
Found at i:48021868 original size:85 final size:85
Alignment explanation
Indices: 48021692--48021902 Score: 291
Period size: 85 Copynumber: 2.5 Consensus size: 85
48021682 CGCTTACAGA
* * * ** * *
48021692 AAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGGTAAGGAAATAAAAGCCGCTAAAGATCAT
1 AAAAAACGCCGCTAAAGATAATGTTCTTTAGCGGCGCTTGGGAAATAAAAGCCGCGAAAAATCAT
*
48021757 GTTCTTTAGCGGCGCTTAGG
66 GTTCTTTAGCGGCACTTAGG
* *
48021777 AAAAAACGCCGCTAAAGATTATGTTCTTTAGCGGCGCTTGGGAAA-AAACGCCGCGAAAAATCAT
1 AAAAAACGCCGCTAAAGATAATGTTCTTTAGCGGCGCTTGGGAAATAAAAGCCGCGAAAAATCAT
48021841 GTTCTTTAGCGGCACTTAGG
66 GTTCTTTAGCGGCACTTAGG
*
48021861 AAGAAAACGCCGCTAAA-AGTAATGTTCTATAGCGGCGCTTGG
1 AA-AAAACGCCGCTAAAGA-TAATGTTCTTTAGCGGCGCTTGG
48021903 TCACAAACGC
Statistics
Matches: 113, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
84 38 0.34
85 75 0.66
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (85 bp):
AAAAAACGCCGCTAAAGATAATGTTCTTTAGCGGCGCTTGGGAAATAAAAGCCGCGAAAAATCAT
GTTCTTTAGCGGCACTTAGG
Found at i:48022360 original size:12 final size:12
Alignment explanation
Indices: 48022340--48022395 Score: 64
Period size: 12 Copynumber: 4.9 Consensus size: 12
48022330 GAACTTCTGT
*
48022340 TTCTATCGCTGC
1 TTCTCTCGCTGC
48022352 TTCTCTCGCTGC
1 TTCTCTCGCTGC
48022364 TTCTCTCGCTGC
1 TTCTCTCGCTGC
**
48022376 GGC-CT--CTGC
1 TTCTCTCGCTGC
48022385 TTCTCTCGCTG
1 TTCTCTCGCTG
48022396 TAGTATCTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
9 5 0.14
10 2 0.06
11 2 0.06
12 27 0.75
ACGTcount: A:0.02, C:0.39, G:0.20, T:0.39
Consensus pattern (12 bp):
TTCTCTCGCTGC
Found at i:48022386 original size:21 final size:21
Alignment explanation
Indices: 48022360--48022424 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
48022350 GCTTCTCTCG
*
48022360 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* **
48022381 CTGCTTCTCTCGCTGTAGTAT
1 CTGCTTCTCTCGCTGCAGCCT
* *
48022402 CTGCTTCCCTCGCTGCTGCCT
1 CTGCTTCTCTCGCTGCAGCCT
48022423 CT
1 CT
48022425 ACTTTAAGTT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.03, C:0.40, G:0.20, T:0.37
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:48027862 original size:9 final size:9
Alignment explanation
Indices: 48027848--48028746 Score: 243
Period size: 9 Copynumber: 100.2 Consensus size: 9
48027838 ATTAATTAAT
48027848 TAAGTTATG
1 TAAGTTATG
48027857 TAAG-T-TG
1 TAAGTTATG
48027864 TAAGTTATG
1 TAAGTTATG
48027873 TAAGTTATG
1 TAAGTTATG
*
48027882 TATA-ATAT-
1 TA-AGTTATG
48027890 TAA-TTAAT-
1 TAAGTT-ATG
48027898 TAAGTTATG
1 TAAGTTATG
* *
48027907 TGATTTATG
1 TAAGTTATG
*
48027916 TATAATATTAATG
1 --TAA-GTT-ATG
48027929 TAAGTTATG
1 TAAGTTATG
*
48027938 TAATTTATG
1 TAAGTTATG
48027947 AATAA-TTA--
1 --TAAGTTATG
* ***
48027955 AAAAAAATG
1 TAAGTTATG
48027964 TAAGTTATG
1 TAAGTTATG
48027973 TAAG-T-TG
1 TAAGTTATG
*
48027980 TAAGTCATG
1 TAAGTTATG
48027989 TAAG-T-TG
1 TAAGTTATG
48027996 TAAGTTATG
1 TAAGTTATG
48028005 TAAGTTATG
1 TAAGTTATG
*
48028014 TATA-ATAT-
1 TA-AGTTATG
48028022 TAA-TTAAT-
1 TAAGTT-ATG
48028030 TAAGTTATG
1 TAAGTTATG
*
48028039 TAATTTATG
1 TAAGTTATG
*
48028048 TATTGCATTAATG
1 TA-AG--TT-ATG
48028061 TAAGTTATG
1 TAAGTTATG
*
48028070 TAATTTATG
1 TAAGTTATG
*
48028079 -AA-TAAT-
1 TAAGTTATG
***
48028085 TAAAAAATG
1 TAAGTTATG
48028094 TAAGTTATG
1 TAAGTTATG
48028103 TAAGTTATG
1 TAAGTTATG
*
48028112 TATA-ATAT-
1 TA-AGTTATG
48028120 TAA-TTAAT-
1 TAAGTT-ATG
48028128 TAAGTTATG
1 TAAGTTATG
*
48028137 TAATTTATG
1 TAAGTTATG
*
48028146 TATAATATTAATG
1 --TAA-GTT-ATG
48028159 TAAGTTATG
1 TAAGTTATG
*
48028168 TAATTTATG
1 TAAGTTATG
*
48028177 -AA-TAAT-
1 TAAGTTATG
***
48028183 TAAAAAAATG
1 T-AAGTTATG
48028193 TAAGTTATG
1 TAAGTTATG
48028202 TAAG-T-TG
1 TAAGTTATG
48028209 TAAGTTATG
1 TAAGTTATG
*
48028218 TATA-ATAT-
1 TA-AGTTATG
48028226 TAA-TTAAT-
1 TAAGTT-ATG
48028234 TAAGTTATG
1 TAAGTTATG
*
48028243 TAATTTATG
1 TAAGTTATG
*
48028252 TATTGCATTAATG
1 TA-AG--TT-ATG
48028265 TAAGTTATG
1 TAAGTTATG
* *
48028274 TGATTTATG
1 TAAGTTATG
48028283 AATAA-TTA--
1 --TAAGTTATG
* ***
48028291 AAAAAAATG
1 TAAGTTATG
48028300 TAAGTTATG
1 TAAGTTATG
48028309 TAAG-T-TG
1 TAAGTTATG
48028316 TAAGTTATG
1 TAAGTTATG
48028325 TAAGTTATG
1 TAAGTTATG
*
48028334 TATA-ATAT-
1 TA-AGTTATG
*
48028342 TAATTTAT-
1 TAAGTTATG
48028350 TAAGTTATG
1 TAAGTTATG
*
48028359 TAATTTATG
1 TAAGTTATG
*
48028368 TATAATATTAATG
1 --TAA-GTT-ATG
48028381 TAAGTTATG
1 TAAGTTATG
*
48028390 TAATTTATG
1 TAAGTTATG
*
48028399 -AA-TAAT-
1 TAAGTTATG
***
48028405 TAAAAAATG
1 TAAGTTATG
48028414 TAAGTTATG
1 TAAGTTATG
48028423 TAAGTTATG
1 TAAGTTATG
*
48028432 TATA-ATAT-
1 TA-AGTTATG
48028440 TAA-TTAAT-
1 TAAGTT-ATG
48028448 TAAGTTATG
1 TAAGTTATG
*
48028457 TAATTTATG
1 TAAGTTATG
*
48028466 TATAATATTAATG
1 --TAA-GTT-ATG
48028479 TAAGTTATG
1 TAAGTTATG
*
48028488 TAATTTAT-
1 TAAGTTATG
48028496 TAA-TTAAT-
1 TAAGTT-ATG
48028504 TAAGTTATG
1 TAAGTTATG
*
48028513 TAATTTATG
1 TAAGTTATG
*
48028522 TATAATATTAATG
1 --TAA-GTT-ATG
48028535 TAAGTTATG
1 TAAGTTATG
*
48028544 TAATTTATG
1 TAAGTTATG
*
48028553 TATA-ATAT-
1 TA-AGTTATG
*
48028561 TAAGTAAT-
1 TAAGTTATG
48028569 TAAGTTATG
1 TAAGTTATG
*
48028578 TAATTTATG
1 TAAGTTATG
*
48028587 TATAATATTAATG
1 --TAA-GTT-ATG
48028600 TAAGTTATG
1 TAAGTTATG
*
48028609 TAATTTATG
1 TAAGTTATG
48028618 T-A--TAT-
1 TAAGTTATG
48028623 TAA-TTAAT-
1 TAAGTT-ATG
48028631 TAAGTTATG
1 TAAGTTATG
*
48028640 TAATTTATG
1 TAAGTTATG
*
48028649 TTTAATATTAATG
1 --TAA-GTT-ATG
48028662 TAAGTTATG
1 TAAGTTATG
*
48028671 TAATTTATG
1 TAAGTTATG
*
48028680 TTTAATATTAATG
1 --TAA-GTT-ATG
48028693 TAAGTTATG
1 TAAGTTATG
48028702 TAAGTTATG
1 TAAGTTATG
*
48028711 TATA-ATAT-
1 TA-AGTTATG
48028719 TAA-TTAAT-
1 TAAGTT-ATG
*
48028727 TAAGTTATA
1 TAAGTTATG
48028736 TAAGTTATG
1 TAAGTTATG
48028745 TA
1 TA
48028747 TAATACTAAT
Statistics
Matches: 687, Mismatches: 95, Indels: 216
0.69 0.10 0.22
Matches are distributed among these distances:
5 1 0.00
6 8 0.01
7 62 0.09
8 117 0.17
9 356 0.52
10 35 0.05
11 52 0.08
12 22 0.03
13 34 0.05
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:48027869 original size:16 final size:16
Alignment explanation
Indices: 48027848--48027878 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
48027838 ATTAATTAAT
48027848 TAAGTTATGTAAGTTG
1 TAAGTTATGTAAGTTG
48027864 TAAGTTATGTAAGTT
1 TAAGTTATGTAAGTT
48027879 ATGTATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (16 bp):
TAAGTTATGTAAGTTG
Found at i:48027901 original size:25 final size:25
Alignment explanation
Indices: 48027830--48027907 Score: 99
Period size: 25 Copynumber: 3.1 Consensus size: 25
48027820 GGTCCATTTC
48027830 TGTATAATATTAATTAATTAAGTTA
1 TGTATAATATTAATTAATTAAGTTA
*
48027855 TGTA-AGT-TGTAAGTT-ATGTAAGTTA
1 TGTATAATAT-TAA-TTAAT-TAAGTTA
48027880 TGTATAATATTAATTAATTAAGTTA
1 TGTATAATATTAATTAATTAAGTTA
48027905 TGT
1 TGT
48027908 GATTTATGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
23 1 0.02
24 7 0.16
25 29 0.64
26 7 0.16
27 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.47
Consensus pattern (25 bp):
TGTATAATATTAATTAATTAAGTTA
Found at i:48027983 original size:16 final size:16
Alignment explanation
Indices: 48027962--48028010 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
48027952 TTAAAAAAAA
48027962 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
*
48027978 TGTAAGTCATGTAAGT
1 TGTAAGTTATGTAAGT
48027994 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
48028010 T
1 T
48028011 ATGTATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.31, C:0.02, G:0.24, T:0.43
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:48028013 original size:98 final size:98
Alignment explanation
Indices: 48027862--48028750 Score: 633
Period size: 98 Copynumber: 8.9 Consensus size: 98
48027852 TTATGTAAGT
* * * *
48027862 TGTAAGTTATGTAAGTTATGTATAATATTAATTAAT-TAAGTTATGTGATTTATGTATAATATTA
1 TGTAAGTTATGTAAGTTATGAAT-A-ATTAA-AAATGTAAGTTATGTAAGTTATGTATAATATTA
*
48027926 A-T-GTAAGTTATGTAATTTATGAATAATTAAAAAAAA
63 ATTATTAAGTTATGTAATTTATG-ATAATT-AAAAAAA
* * **
48027962 TGTAAGTTATGTAAGTTGT-AAGTCATGT-AAGTTGTAAGTTATGTAAGTTATGTATAATATTAA
1 TGTAAGTTATGTAAGTTATGAA-TAAT-TAAAAATGTAAGTTATGTAAGTTATGTATAATATTAA
** **
48028025 TTAATTAAGTTATGTAATTTATG-T-ATTGCATTAA
64 TT-ATTAAGTTATGTAATTTATGATAATTAAAAAAA
*
48028059 TGTAAGTTATGTAATTTATGAATAATTAAAAAATGTAAGTTATGTAAGTTATGTATAATATTAAT
1 TGTAAGTTATGTAAGTTATGAATAATT-AAAAATGTAAGTTATGTAAGTTATGTATAATATTAAT
**
48028124 TAATTAAGTTATGTAATTTATG-T-A-TAATATTAA
65 T-ATTAAGTTATGTAATTTATGATAATTAA-AAAAA
*
48028157 TGTAAGTTATGTAATTTATGAATAATTAAAAAAATGTAAGTTATGTAAGTTGTAAGTTATGTATA
1 TGTAAGTTATGTAAGTTATGAATAATT--AAAAATGTAAG---T-T-A--TGTAAGTTATGTATA
** **
48028222 ATATTAATTAATTAAGTTATGTAATTTATG-T-ATTGCATTAA
57 ATATTAATT-ATTAAGTTATGTAATTTATGATAATTAAAAAAA
* * *
48028263 TGTAAGTTATGTGATTTATGAATAATTAAAAAAAATGTAAGTTATGTAAGTTGTAAGTTATGTAA
1 TGTAAGTTATGTAAGTTATGAATAATT---AAAAATGTAAGTTATGTAAG-T-TATG-TA--TAA
* * *
48028328 GTTATGTATAATATTAATTTAT-TAAGTTATG-TAATTTATGTATAATATTAA
58 --TAT-TA-ATTATTAAGTTATGTAATTTATGATAA-TTA---A-AA-A--AA
*
48028379 TGTAAGTTATGTAATTTATGAATAATTAAAAAATGTAAGTTATGTAAGTTATGTATAATATTAAT
1 TGTAAGTTATGTAAGTTATGAATAATT-AAAAATGTAAGTTATGTAAGTTATGTATAATATTAAT
**
48028444 TAATTAAGTTATGTAATTTATG-T-A-TAATATTAA
65 T-ATTAAGTTATGTAATTTATGATAATTAA-AAAAA
* *
48028477 TGTAAGTTATGTAA-TT-T-ATTAATT---AAT-TAAGTTATGTAATTTATGTATAATATTAA-T
1 TGTAAGTTATGTAAGTTATGAATAATTAAAAATGTAAGTTATGTAAGTTATGTATAATATTAATT
* * **
48028534 -GTAAGTTATGTAATTTATGTATAATATTAAGTAA
66 ATTAAGTTATGTAATTTATG-ATAAT-TAAAAAAA
* * ** *
48028568 T-TAAGTTATGTAATTTATGTATAA-TATTAATGTAAGTTATGTAATTTATG--T-ATATTAATT
1 TGTAAGTTATGTAAGTTATGAATAATTAAAAATGTAAGTTATGTAAGTTATGTATAATATTAATT
**
48028628 AATTAAGTTATGTAATTTATG-T--TTAATATTAA
66 -ATTAAGTTATGTAATTTATGATAATTAA-AAAAA
* ** **
48028660 TGTAAGTTATGTAATTTATGTTTAA-TATTAATGTAAGTTATGTAAGTTATGTATAATATTAATT
1 TGTAAGTTATGTAAGTTATGAATAATTAAAAATGTAAGTTATGTAAGTTATGTATAATATTAATT
* *
48028724 AATTAAGTTATATAAGTTATGTATAAT
66 -ATTAAGTTATGTAATTTATG-ATAAT
48028751 ACTAATGTAA
Statistics
Matches: 673, Mismatches: 52, Indels: 128
0.79 0.06 0.15
Matches are distributed among these distances:
87 18 0.03
89 2 0.00
90 41 0.06
91 12 0.02
92 10 0.01
93 57 0.08
94 3 0.00
95 10 0.01
96 66 0.10
97 27 0.04
98 142 0.21
99 16 0.02
100 26 0.04
101 22 0.03
102 5 0.01
103 4 0.01
104 4 0.01
105 5 0.01
106 90 0.13
107 38 0.06
108 12 0.02
109 7 0.01
111 2 0.00
112 3 0.00
113 2 0.00
114 21 0.03
116 28 0.04
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.46
Consensus pattern (98 bp):
TGTAAGTTATGTAAGTTATGAATAATTAAAAATGTAAGTTATGTAAGTTATGTATAATATTAATT
ATTAAGTTATGTAATTTATGATAATTAAAAAAA
Found at i:48028085 original size:132 final size:131
Alignment explanation
Indices: 48027848--48028746 Score: 581
Period size: 132 Copynumber: 7.0 Consensus size: 131
48027838 ATTAATTAAT
*
48027848 TAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTGATTT
1 TAAG-TATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTT
*
48027913 ATGTATAATATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAAATGTAAGTTATGTAAG-
65 ATGTATAACATTAATGTAAGTTATGTAATTTATGAATAATT--AAAAAATGTAAGTTATGTAAGT
48027977 T-TG
128 TATG
48027980 TAAGTCATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTT
1 TAAGT-ATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTT
**
48028045 ATGTATTGCATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAATGTAAGTTATGTAAGTTA
65 ATGTATAACATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAATGTAAGTTATGTAAGTTA
48028110 TG
130 TG
* * * *
48028112 TATAATAT-TAA-TTAATTAAGTTATGTAATTTATGTATAATATTAA-T--GTAAGTTATGTAAT
1 TA-AGTATGTAAGTT--GTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAAT
** * * * * *
48028172 TTATGAATAATTAA-AAAAATGTAAGTTATGTAAGTTGT-AAGTTATGTATAATAT-TAA-TTAA
63 TTATG--T-A-TAACATTAATGTAAGTTATGTAATTTATGAA-TAAT-TAAAAAATGTAAGTT-A
48028233 T-TAAGTTATG
121 TGTAAGTTATG
* * * * ***
48028243 TAATTTATGT-A-TTG-CA-TTAATGTAAGTTATGTGAT-TTATGAA-TAATTAAAAAAAATGTA
1 TAA-GTATGTAAGTTGTAAGTT-ATGTAAGTTATGT-ATAATATTAATTAATT--AAGTTATGTA
* * * * ***
48028302 AGTTATG--T-A-AGT--TGTAAGTTATGTAAGTTATGTATAATATTAATTTAT-TAAGTTATGT
61 ATTTATGTATAACATTAATGTAAGTTATGTAATTTATGAAT-A-ATTAAAAAATGTAAGTTATGT
*
48028360 AATTTATG
124 AAGTTATG
* * * ** *
48028368 TATAATAT-TAA--TGTAAGTTATGTAATTTATGAAT-A-ATTAAAAAATGTAAGTTATGTAAGT
1 TA-AGTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAAT-TAAGTTATGTAATT
* * * **
48028428 TATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAA-T-ATTAATGTAAGTTATGTAA
64 TATGTATAACATTAA-T--GTAAGTTATGTAATTTATGAATAATTAAAAAATGTAAGTTATGTAA
*
48028491 TTTAT-
126 GTTATG
* *
48028496 T-A--AT-TAA--T-TAAGTTATGTAATTTATGTATAATATTAA-T--GTAAGTTATGTAATTTA
1 TAAGTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTA
* * * ** *
48028551 TGTATAATATTAAGTAATTAAGTTATGTAATTTATGTATAA-T-ATTAATGTAAGTTATGTAATT
66 TGTATAACATTAA-T--GTAAGTTATGTAATTTATGAATAATTAAAAAATGTAAGTTATGTAAGT
48028614 TATG
128 TATG
* * * *
48028618 T-A-TAT-TAA-TTAATTAAGTTATGTAATTTATGTTTAATATTAA-T--GTAAGTTATGTAATT
1 TAAGTATGTAAGTT--GTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATT
* * * * ** *
48028676 TATGTTTAATATTAATGTAAGTTATGTAAGTTATGTATAATATTAATTAAT-TAAGTTATATAAG
64 TATGTATAACATTAATGTAAGTTATGTAATTTATGAAT-A-ATTAAAAAATGTAAGTTATGTAAG
48028740 TTATG
127 TTATG
48028745 TA
1 TA
48028747 TAATACTAAT
Statistics
Matches: 650, Mismatches: 62, Indels: 114
0.79 0.08 0.14
Matches are distributed among these distances:
121 80 0.12
122 2 0.00
123 62 0.10
124 47 0.07
125 40 0.06
126 8 0.01
127 80 0.12
128 31 0.05
129 38 0.06
130 27 0.04
131 29 0.04
132 197 0.30
133 9 0.01
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (131 bp):
TAAGTATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTA
TGTATAACATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAATGTAAGTTATGTAAGTTAT
G
Found at i:48028217 original size:41 final size:43
Alignment explanation
Indices: 48028156--48028253 Score: 112
Period size: 41 Copynumber: 2.3 Consensus size: 43
48028146 TATAATATTA
*
48028156 ATGTAAGTTATGTAATTTATGAATAAT-TAAAAAAATGTAAGTT
1 ATGTAAGTTATGTAAGTTATGAATAATATAAAAAAAT-TAAGTT
* * **
48028199 ATGTAAG-T-TGTAAGTTATGTATAATATTAATTAATTAAGTT
1 ATGTAAGTTATGTAAGTTATGAATAATATAAAAAAATTAAGTT
*
48028240 ATGTAATTTATGTA
1 ATGTAAGTTATGTA
48028254 TTGCATTAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
41 27 0.59
42 8 0.17
43 11 0.24
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (43 bp):
ATGTAAGTTATGTAAGTTATGAATAATATAAAAAAATTAAGTT
Found at i:48028319 original size:16 final size:16
Alignment explanation
Indices: 48028298--48028330 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
48028288 TTAAAAAAAA
48028298 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
48028314 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
48028330 T
1 T
48028331 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:48028326 original size:25 final size:25
Alignment explanation
Indices: 48028297--48028361 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
48028287 ATTAAAAAAA
*
48028297 ATGTAAGTTATGTAAGT-TGTAAGTT
1 ATGTAAGTTATGTAAATAT-TAAGTT
*
48028322 ATGTAAGTTATGTATAATATTAATTT
1 ATGTAAGTTATGTA-AATATTAAGTT
48028348 AT-TAAGTTATGTAA
1 ATGTAAGTTATGTAA
48028362 TTTATGTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
24 1 0.03
25 25 0.69
26 9 0.25
27 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (25 bp):
ATGTAAGTTATGTAAATATTAAGTT
Found at i:48028335 original size:116 final size:112
Alignment explanation
Indices: 48028190--48028642 Score: 497
Period size: 116 Copynumber: 4.1 Consensus size: 112
48028180 AATTAAAAAA
48028190 ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTAT
1 ATGTAAG-T-TGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTAT
** *
48028255 TGCATTAATGTAAGTTATGTGATTTATGAATAATTAAAAAAAATGTAAGTT
64 AACATTAATGTAAGTTATGTAATTTATGAATAATT--AAAAAATGTAAGTT
*
48028306 ATGTAAGTTGTAAGTTATGTAAGTTATGTATAATATTAATTTATTAAGTTATGTAATTTATGTAT
1 ATGTAAGTTGTAAG-T-TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTAT
*
48028371 AATATTAATGTAAGTTATGTAATTTATGAATAATT---AAA---AA---
64 AACATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAATGTAAGTT
48028411 ATGTAAG-T-T-A--TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAA
1 ATGTAAGTTGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAA
* * *** *
48028471 TATTAATGTAAGTTATGTAATTTATTAATTAATTAAGTTATGTAATTT
66 CATTAATGTAAGTTATGTAATTTATGAA-TAATTAAAAAATGTAAGTT
* * *
48028519 ATGTATAATATTAATGTAAGTTATGTAATTTATGTATAATATTAAGTAATTAAGTTATGTAATTT
1 ATG--T-A-AGT--TGTAAG-T-TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTT
* * **
48028584 ATGTATAATATTAATGTAAGTTATGTAATTTATGTAT-ATTAATTAAT-TAAGTT
58 ATGTATAACATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAATGTAAGTT
48028637 ATGTAA
1 ATGTAA
48028643 TTTATGTTTA
Statistics
Matches: 295, Mismatches: 17, Indels: 52
0.81 0.05 0.14
Matches are distributed among these distances:
98 76 0.26
99 5 0.02
102 2 0.01
103 1 0.00
104 1 0.00
105 9 0.03
108 5 0.02
110 1 0.00
111 4 0.01
112 1 0.00
114 7 0.02
115 4 0.01
116 87 0.29
117 1 0.00
118 8 0.03
119 8 0.03
120 1 0.00
121 74 0.25
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (112 bp):
ATGTAAGTTGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAA
CATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAATGTAAGTT
Found at i:48028421 original size:320 final size:287
Alignment explanation
Indices: 48027830--48028768 Score: 723
Period size: 279 Copynumber: 3.4 Consensus size: 287
48027820 GGTCCATTTC
* * *
48027830 TGTATAATATTAATTAATTAAGTTATGTAA-GT-TG--TAA-GTT-ATGTAAGTTATGT-ATAAT
1 TGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAAT-TT
* *
48027888 ATTAATTAATTAAGTTATGTGATTTATGTATAATATTAATGTAAGTTATGTAATTTATGAATAAT
65 ATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATAAT
* ** * *
48027953 -TAAAAAAAATGTAAGTTATGTAAGT--TGTAAGTCATGTAAGTTGTAAGTTATGTAAGTTATGT
130 AT-TAAGTAAT-TAAGTTATGTAATTAATGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGT
***
48028015 ATAATATTAATTAATTAAGTTATGTAATTTATGTATTGCATTAATGTAAGTTATGTAATTTATGA
193 ATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGA
48028080 ATAATTAAAAAATGTAAGTTATGTAAGTTA
258 ATAATTAAAAAATGTAAGTTATGTAAGTTA
48028110 TGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTA
1 TGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTA
* * * *
48028175 TGAA-TAATTAA---A---AA--AATG--TAA-GTT-ATGTAAG-T-TGTAAGTTATGTATAATA
66 TTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATAATA
* * * * *
48028225 TTAATTAATTAAGTTATGTAATTTATGT-A-TTGCAT-TAA--TGTAAGTTATGTGATTTATGAA
131 TTAAGTAATTAAGTTATGTAATTAATGTAAGTT--ATGTAAGTTGTAAGTTATGTAAGTTATGTA
* * * * *
48028285 T-A-ATTAA--AA--AA--AATGTAAGTTATG--T-A-AGT--TGTAAGTTATGTAAGTTATGTA
194 TAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGAA
*** *
48028336 TAATATTAATTTAT-TAAGTTATGTAATTTA
259 T-A-ATTAAAAAATGTAAGTTATGTAAGTTA
* * **
48028366 TGTATAATATTAA-T--GTAAGTTATGTAATTTATGAATAATTAAAAAATGTAAGTTATGTAAGT
1 TGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAA-T-ATTAATGTAAGTTATGT-A--
48028428 TATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATT
61 -A--T-T--TATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATT
* *
48028493 TA--T-T-A-A-T---TAATTAAGTTATGTAATTTATGTATA-ATAT-TAA--TGTAAGTTATGT
120 TATGTATAATATTAAGTAATTAAGTTATGTAATTAATGTA-AGTTATGTAAGTTGTAAGTTATGT
* *
48028545 AATTTATGTATAATATTAAGTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGT
184 AAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGT
* ** *
48028610 AATTTATGTAT-ATTAATTAAT-TAAGTTATGTAATTTA
249 AATTTATGAATAATTAAAAAATGTAAGTTATGTAAGTTA
* * *
48028647 TGTTTAATATTAA-T--GTAAGTTATGTAATTTATGTTTAATATTAATGTAAGTTATGTAAGTTA
1 TGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGT-A---A
* * *
48028709 TGTATAATATTAATTAATTAAGTTATATAAGTTATGTATAATACTAATGTAAGTTATGTA
62 --T-T--TATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTA
48028769 TTATATAATA
Statistics
Matches: 552, Mismatches: 51, Indels: 113
0.77 0.07 0.16
Matches are distributed among these distances:
253 22 0.04
254 1 0.00
255 37 0.07
256 30 0.05
257 9 0.02
259 2 0.00
261 12 0.02
262 1 0.00
263 2 0.00
264 5 0.01
265 9 0.02
267 5 0.01
268 2 0.00
269 20 0.04
270 63 0.11
271 27 0.05
272 14 0.03
273 11 0.02
274 5 0.01
275 7 0.01
276 5 0.01
277 11 0.02
278 12 0.02
279 87 0.16
280 32 0.06
281 62 0.11
282 5 0.01
284 25 0.05
285 9 0.02
286 18 0.03
287 2 0.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.46
Consensus pattern (287 bp):
TGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTA
TTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATAATA
TTAAGTAATTAAGTTATGTAATTAATGTAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGTATA
ATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGAATA
ATTAAAAAATGTAAGTTATGTAAGTTA
Found at i:48028496 original size:22 final size:22
Alignment explanation
Indices: 48028454--48028520 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 22
48028444 TAATTAAGTT
* *
48028454 ATGTAATTTATGT-ATAATATTA
1 ATGTAAGTTATGTAAT-TTATTA
48028476 ATGTAAGTTATGTAATTTATTA
1 ATGTAAGTTATGTAATTTATTA
*
48028498 ATTAATTAAGTTATGTAATTTAT
1 A-T--GTAAGTTATGTAATTTAT
48028521 GTATAATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
22 18 0.47
23 3 0.08
25 17 0.45
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (22 bp):
ATGTAAGTTATGTAATTTATTA
Found at i:48028582 original size:13 final size:13
Alignment explanation
Indices: 48028444--48028517 Score: 53
Period size: 13 Copynumber: 5.4 Consensus size: 13
48028434 TAATATTAAT
48028444 TAATTAAGTTATG
1 TAATTAAGTTATG
* *
48028457 TAATTTATGTATAATAT
1 TAA-TTAAGT-T-AT-G
48028474 TAATGTAAGTTATG
1 TAAT-TAAGTTATG
*
48028488 TAATTTA-TTAAT-
1 TAATTAAGTT-ATG
48028500 TAATTAAGTTATG
1 TAATTAAGTTATG
48028513 TAATT
1 TAATT
48028518 TATGTATAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 16
0.68 0.09 0.23
Matches are distributed among these distances:
12 10 0.21
13 14 0.30
14 9 0.19
15 3 0.06
16 4 0.09
17 7 0.15
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (13 bp):
TAATTAAGTTATG
Found at i:48028761 original size:22 final size:21
Alignment explanation
Indices: 48028736--48028777 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
48028726 TTAAGTTATA
48028736 TAAGTTATGTATAATACTAATG
1 TAAGTTATGTATAATA-TAATG
*
48028758 TAAGTTATGTATTATATAAT
1 TAAGTTATGTATAATATAAT
48028778 AACAGCGTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.45
Consensus pattern (21 bp):
TAAGTTATGTATAATATAATG
Found at i:48031073 original size:24 final size:24
Alignment explanation
Indices: 48031046--48031096 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
48031036 ATTGGGGGAT
*
48031046 TTTTGGGGGGAAAATCGGGGGCAA
1 TTTTGGGGAGAAAATCGGGGGCAA
* * *
48031070 TTTTGGGGAGAAATTTGGGGGGAA
1 TTTTGGGGAGAAAATCGGGGGCAA
48031094 TTT
1 TTT
48031097 CGGCTAAGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.04, G:0.43, T:0.29
Consensus pattern (24 bp):
TTTTGGGGAGAAAATCGGGGGCAA
Found at i:48031456 original size:16 final size:16
Alignment explanation
Indices: 48031411--48031466 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 16
48031401 TAAATCTCAC
*
48031411 ATCTTTTATTTATT-T
1 ATCTTTTATTAATTGT
* *
48031426 ATTTATTTCTTAATTGT
1 ATCT-TTTATTAATTGT
48031443 ATCTTTTATTAATTGT
1 ATCTTTTATTAATTGT
48031459 ATCTTTTA
1 ATCTTTTA
48031467 ATTACTTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 3 0.09
16 27 0.79
17 4 0.12
ACGTcount: A:0.23, C:0.07, G:0.04, T:0.66
Consensus pattern (16 bp):
ATCTTTTATTAATTGT
Found at i:48035265 original size:36 final size:33
Alignment explanation
Indices: 48035201--48035284 Score: 87
Period size: 36 Copynumber: 2.4 Consensus size: 33
48035191 AAATAGTAGC
* ** *
48035201 AAAATTAACAATAAAATAAGAGTTATATAATATT
1 AAAA-TAACAACAAAATAAGAGCAATATAATAAT
*
48035235 CAAACAATAACAACAAAATAATAGCAATATAATAAT
1 --AA-AATAACAACAAAATAAGAGCAATATAATAAT
48035271 AAAATAACAACAAA
1 AAAATAACAACAAA
48035285 CAACAGCAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
33 12 0.29
34 2 0.05
36 26 0.62
37 2 0.05
ACGTcount: A:0.64, C:0.10, G:0.04, T:0.23
Consensus pattern (33 bp):
AAAATAACAACAAAATAAGAGCAATATAATAAT
Found at i:48035980 original size:7 final size:7
Alignment explanation
Indices: 48035958--48035992 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
48035948 AGGTTTTTTA
48035958 GTTTAGG
1 GTTTAGG
48035965 GTCTTAGG
1 GT-TTAGG
48035973 GTTTAGG
1 GTTTAGG
48035980 G-TTAGG
1 GTTTAGG
48035986 GTTTAGG
1 GTTTAGG
48035993 AATTTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.23
7 13 0.50
8 7 0.27
ACGTcount: A:0.14, C:0.03, G:0.43, T:0.40
Consensus pattern (7 bp):
GTTTAGG
Found at i:48035984 original size:13 final size:14
Alignment explanation
Indices: 48035958--48035992 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
48035948 AGGTTTTTTA
48035958 GTTTAGGGTCTTAGG
1 GTTTAGGG-CTTAGG
48035973 GTTTAGGG-TTAGG
1 GTTTAGGGCTTAGG
48035986 GTTTAGG
1 GTTTAGG
48035993 AATTTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 12 0.60
15 8 0.40
ACGTcount: A:0.14, C:0.03, G:0.43, T:0.40
Consensus pattern (14 bp):
GTTTAGGGCTTAGG
Found at i:48036081 original size:34 final size:33
Alignment explanation
Indices: 48036024--48036141 Score: 130
Period size: 34 Copynumber: 3.5 Consensus size: 33
48036014 GTTTAGTATT
* *
48036024 TTTTTTAAAAATTAATTAAATTAGGGTTTAGGG
1 TTTTTAAAAAATAAATTAAATTAGGGTTTAGGG
* * *
48036057 GTTTTAAATAAATAAATAAAATTAGGGTTTAGAG
1 TTTTTAAA-AAATAAATTAAATTAGGGTTTAGGG
* * *
48036091 TTTTTAAGAAAATTATTTAAATTAGGGTTTA-GT
1 TTTTTAA-AAAATAAATTAAATTAGGGTTTAGGG
48036124 TTTTTAAAAAAATAAATT
1 TTTTT-AAAAAATAAATT
48036142 TGTGTTTAGG
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
33 19 0.28
34 49 0.71
35 1 0.01
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.43
Consensus pattern (33 bp):
TTTTTAAAAAATAAATTAAATTAGGGTTTAGGG
Found at i:48036111 original size:68 final size:67
Alignment explanation
Indices: 48035998--48036140 Score: 175
Period size: 68 Copynumber: 2.1 Consensus size: 67
48035988 TTAGGAATTT
* *
48035998 TAAA-AAATAAATTAAGGTTTAGTATTTTTTTTAAAAATTAATTAAATTAGGGTTTAGGGGTTTT
1 TAAATAAATAAATTAAGGTTTAGTATGTTTTTAAAAAATTAATTAAATTAGGGTTTA-GGGTTTT
48036062 AAA
65 AAA
* * **
48036065 TAAATAAATAAAATTAGGGTTTAG-A-GTTTTTAAGAAAATTATTTAAATTAGGGTTTAGTTTTT
1 TAAATAAAT-AAATTAAGGTTTAGTATGTTTTTAA-AAAATTAATTAAATTAGGGTTTAGGGTTT
48036128 TAAA
64 TAAA
*
48036132 AAAATAAAT
1 TAAATAAAT
48036141 TTGTGTTTAG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
67 26 0.39
68 27 0.41
69 13 0.20
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (67 bp):
TAAATAAATAAATTAAGGTTTAGTATGTTTTTAAAAAATTAATTAAATTAGGGTTTAGGGTTTTA
AA
Found at i:48036355 original size:126 final size:126
Alignment explanation
Indices: 48036197--48036591 Score: 566
Period size: 126 Copynumber: 3.1 Consensus size: 126
48036187 ATTTTGTTTT
* * * * * * *
48036197 TTTTTCTACAGTTGTT-TCAGGAAAATTAATTTTGAGAAGACAGTTCTGAAAAGATAATGTTAAA
1 TTTTTCTACAGTAGTTCTCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAA-ATAGTGTCAAA
* * *
48036261 AACGCTTCAAGCAGGATGCACTGTCA-CAAAAATTACTAAAAAAAGCTCCCACGTGGATGCTC
65 AATGCTTCAAGCAGGATGCACTGTCAGC-AAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
48036323 TTTTTCTACAGTAGTTCT-TGAAAAAATAATTTTGAGAAGACGGTTTTAAACAAATAGTATCAAA
1 TTTTTCTACAGTAGTTCTCTGAAAAAATAATTTTGAGAAGACGGTTCTGAA-AAATAGTGTCAAA
*
48036387 AATGCTTCAAGCAGGATGCATTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
65 AATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
*
48036449 TTTTTCTACAATAGTT-TCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAA
1 TTTTTCTACAGTAGTTCTCTGAAAAAATAATTTTGAGAAGACGGTTCTGAA-AAATAGTGTCAAA
*
48036513 AATGCTTCAAGCAGGATGCACTGTCAGCAAAATTGA-TGAAAAAAGCTCCCATGTGGACGCTC
65 AATGCTTCAAGCAGGATGCACTGTCAGCAAAATT-ACTGAAAAAAGCTCCCACGTGGACGCTC
48036575 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
48036592 CTGTTTGGCC
Statistics
Matches: 242, Mismatches: 21, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
125 1 0.00
126 236 0.98
127 5 0.02
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCTCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAATAGTGTCAAAA
ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:48039128 original size:24 final size:23
Alignment explanation
Indices: 48039072--48039128 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
48039062 AAGAATTTCT
48039072 ATTTTATTAAAAACATAAAAATA
1 ATTTTATTAAAAACATAAAAATA
*
48039095 ATTTACTATTAAAATA-TTAAAAATA
1 ATTT--TATTAAAA-ACATAAAAATA
48039120 ACTTTTATT
1 A-TTTTATT
48039129 TTATTAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 4 0.14
25 17 0.59
26 4 0.14
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTTATTAAAAACATAAAAATA
Found at i:48039570 original size:18 final size:18
Alignment explanation
Indices: 48039529--48039571 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
48039519 GATTGGAAAA
* *
48039529 AAGAAACATATAAGGGTT
1 AAGATACATATAAGGGCT
48039547 AAGATACATATAAGGGCT
1 AAGATACATATAAGGGCT
*
48039565 AGGATAC
1 AAGATAC
48039572 GCACCTGGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.09, G:0.23, T:0.21
Consensus pattern (18 bp):
AAGATACATATAAGGGCT
Found at i:48041972 original size:71 final size:71
Alignment explanation
Indices: 48041888--48042026 Score: 242
Period size: 71 Copynumber: 2.0 Consensus size: 71
48041878 GACACATGTG
* *
48041888 TAACATTTATAAACTCGGTTGTCCATGTTATCTAATTTTAATAGAGTTACAATTAGATCTGTTCA
1 TAACATTTATAAACTCGGTTGTCCATGTTATCTAATTTTAATAGAGTTACAATTAGACCTGCTCA
48041953 TGGGTT
66 TGGGTT
* *
48041959 TAACATTTATAAACTCGGTTGTCCGTGTTATCTAATTTTAATAGAGTTATAATTAGACCTGCTCA
1 TAACATTTATAAACTCGGTTGTCCATGTTATCTAATTTTAATAGAGTTACAATTAGACCTGCTCA
48042024 TGG
66 TGG
48042027 ATCGGGCCAT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 64 1.00
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (71 bp):
TAACATTTATAAACTCGGTTGTCCATGTTATCTAATTTTAATAGAGTTACAATTAGACCTGCTCA
TGGGTT
Found at i:48055410 original size:31 final size:31
Alignment explanation
Indices: 48055366--48055424 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
48055356 CAGCGTAATA
*
48055366 ACTTAAATAAAAACTTTCAAATAGTTTAGTG
1 ACTTAAATAAAAACTTTCAAATAATTTAGTG
* * *
48055397 ACTTGAATGAAAACTTTCGAATAATTTA
1 ACTTAAATAAAAACTTTCAAATAATTTA
48055425 ATGATTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTCAAATAATTTAGTG
Found at i:48057783 original size:6 final size:6
Alignment explanation
Indices: 48057772--48057824 Score: 106
Period size: 6 Copynumber: 8.8 Consensus size: 6
48057762 ATTAAGAAAG
48057772 GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA
1 GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA
48057820 GGGAG
1 GGGAG
48057825 TGTTGTTGAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GGGAGA
Found at i:48058489 original size:12 final size:13
Alignment explanation
Indices: 48058463--48058487 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48058453 TATCAAAATA
48058463 AAATTATATTTTT
1 AAATTATATTTTT
48058476 AAATTATATTTT
1 AAATTATATTTT
48058488 AACTATTAAT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
AAATTATATTTTT
Found at i:48065732 original size:28 final size:30
Alignment explanation
Indices: 48065681--48065738 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
48065671 TTTAGTTTTT
*
48065681 TTTAATAGTACAATGATTAAATT-AATTCA
1 TTTAATAGTACAATGACTAAATTAAATTCA
48065710 TTTAATAGTA-AATGGACT-AATTAAATTCA
1 TTTAATAGTACAAT-GACTAAATTAAATTCA
48065739 GTCCCTCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.40
Consensus pattern (30 bp):
TTTAATAGTACAATGACTAAATTAAATTCA
Found at i:48080760 original size:3 final size:3
Alignment explanation
Indices: 48080749--48080839 Score: 78
Period size: 3 Copynumber: 30.3 Consensus size: 3
48080739 TATTATTTGT
*
48080749 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTTA CTA TTA TTA TCT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T-TA TTA
* * * * * * *
48080794 CTA TTA TTG TTA GTA TTA TTA CTA CTA TTA TTA TTA CTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
48080840 ATTTATACCT
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
2 3 0.04
3 63 0.90
4 4 0.06
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:48080771 original size:12 final size:12
Alignment explanation
Indices: 48080755--48080839 Score: 89
Period size: 12 Copynumber: 6.8 Consensus size: 12
48080745 TTGTTTATTT
*
48080755 TATTATTATTAT
1 TATTATTATTAC
48080767 TATTATTATTTAC
1 TATTATTA-TTAC
48080780 TATTATTATCTTTAC
1 TATTATTA---TTAC
* *
48080795 TATTATTGTTAG
1 TATTATTATTAC
*
48080807 TATTATTACTAC
1 TATTATTATTAC
48080819 TATTATTATTAC
1 TATTATTATTAC
*
48080831 TATCATTAT
1 TATTATTAT
48080840 ATTTATACCT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
12 39 0.63
13 11 0.18
15 12 0.19
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:48081124 original size:88 final size:87
Alignment explanation
Indices: 48080966--48081129 Score: 197
Period size: 86 Copynumber: 1.9 Consensus size: 87
48080956 ATACAAAATC
* * * * *
48080966 ATATTTTCGTATATTTTATAATTTGTATATACATATACTTATATCTATATTTTCTAATTCTTATA
1 ATATTTTCATATACTTTATAATTCGTATATACATATA-TTACATCTATATTTTCTAATTATTATA
*
48081031 AATATATTTATATGTACATACTT
65 AATATATATATATGTACATACTT
* * * *
48081054 ATATTTTTATATACTTTCTAATTCGTATATACCTAT-TTACATCTATATTTT-TAATATATTTTA
1 ATATTTTCATATACTTTATAATTCGTATATACATATATTACATCTATATTTTCTAAT-TATTATA
*
48081117 AACATATATATAT
65 AATATATATATAT
48081130 AAATATCACT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
85 4 0.06
86 30 0.47
88 30 0.47
ACGTcount: A:0.35, C:0.10, G:0.02, T:0.53
Consensus pattern (87 bp):
ATATTTTCATATACTTTATAATTCGTATATACATATATTACATCTATATTTTCTAATTATTATAA
ATATATATATATGTACATACTT
Found at i:48083615 original size:17 final size:18
Alignment explanation
Indices: 48083588--48083621 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
48083578 TTTATTGGTT
48083588 TTTTCTTTTTGTATTTTG
1 TTTTCTTTTTGTATTTTG
*
48083606 TTTT-TTTTTGTGTTTT
1 TTTTCTTTTTGTATTTT
48083622 TTTAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.03, C:0.03, G:0.12, T:0.82
Consensus pattern (18 bp):
TTTTCTTTTTGTATTTTG
Found at i:48083636 original size:3 final size:3
Alignment explanation
Indices: 48083630--48083661 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
48083620 TTTTTAAAAT
48083630 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
48083662 CCTATATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:48085543 original size:30 final size:29
Alignment explanation
Indices: 48085449--48085580 Score: 128
Period size: 30 Copynumber: 4.5 Consensus size: 29
48085439 TTTTCTGAAA
48085449 AAAATTACATTTTGA-CCTCAAAA-TTTCT
1 AAAATTACATTTTGACCCT-AAAATTTTCT
* *
48085477 CAAAATGACATTTAT-ACCCTAAACTTTTCT
1 -AAAATTACATTT-TGACCCTAAAATTTTCT
48085507 -AAATTACATTTTGACCCTAAAATTTTCTT
1 AAAATTACATTTTGACCCTAAAATTTTC-T
* *
48085536 AAAATTACATTTTGGCCCAAAAAATTTTACT
1 AAAATTACATTTTGACCC-TAAAATTTT-CT
* *
48085567 ATATTTACATTTTG
1 AAAATTACATTTTG
48085581 GTCCCTCTGG
Statistics
Matches: 87, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
27 1 0.01
28 23 0.26
29 16 0.18
30 25 0.29
31 21 0.24
32 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.41
Consensus pattern (29 bp):
AAAATTACATTTTGACCCTAAAATTTTCT
Found at i:48085563 original size:31 final size:30
Alignment explanation
Indices: 48085449--48085581 Score: 91
Period size: 28 Copynumber: 4.5 Consensus size: 30
48085439 TTTTCTGAAA
*
48085449 AAAATTACATTTTGACCTC-AAAA-TTT-CT
1 AAAATTACATTTTGGCC-CAAAAATTTTACT
* * * *
48085477 CAAAATGACATTTAT-ACCCTAAACTTTT-CT
1 -AAAATTACATTT-TGGCCCAAAAATTTTACT
* *
48085507 -AAATTACATTTTGACCCTAAAATTTT-CTT
1 AAAATTACATTTTGGCCCAAAAATTTTAC-T
48085536 AAAATTACATTTTGGCCCAAAAAATTTTACT
1 AAAATTACATTTTGGCCC-AAAAATTTTACT
* *
48085567 ATATTTACATTTTGG
1 AAAATTACATTTTGG
48085582 TCCCTCTGGC
Statistics
Matches: 88, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
27 1 0.01
28 24 0.27
29 18 0.20
30 22 0.25
31 22 0.25
32 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.41
Consensus pattern (30 bp):
AAAATTACATTTTGGCCCAAAAATTTTACT
Found at i:48086062 original size:25 final size:21
Alignment explanation
Indices: 48086012--48086060 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
48086002 GCCGAACAAG
48086012 GAAGAAAAAGAAAAAAAGGAA
1 GAAGAAAAAGAAAAAAAGGAA
*
48086033 GAAGAAAAAGAAAGAAAGGAA
1 GAAGAAAAAGAAAAAAAGGAA
48086054 GAA-AAAA
1 GAAGAAAA
48086061 GATTTATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (21 bp):
GAAGAAAAAGAAAAAAAGGAA
Found at i:48086218 original size:12 final size:12
Alignment explanation
Indices: 48086198--48086270 Score: 67
Period size: 12 Copynumber: 6.0 Consensus size: 12
48086188 GAAGCAGGCC
*
48086198 AGAAAAAAAGAG
1 AGAAAAAAAAAG
*
48086210 AGAAGAAAAAAG
1 AGAAAAAAAAAG
48086222 A-AAAAAAAAAG
1 AGAAAAAAAAAG
**
48086233 AGAAAAAAAGGG
1 AGAAAAAAAAAG
* *
48086245 AAAAAAAGAAAAA
1 AGAAAAA-AAAAG
48086258 AGACAAAAAAAAG
1 AGA-AAAAAAAAG
48086271 GTTTAATTTG
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
11 10 0.21
12 25 0.53
13 8 0.17
14 4 0.09
ACGTcount: A:0.79, C:0.01, G:0.19, T:0.00
Consensus pattern (12 bp):
AGAAAAAAAAAG
Found at i:48086226 original size:23 final size:22
Alignment explanation
Indices: 48086200--48086253 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
48086190 AGCAGGCCAG
48086200 AAAAAAAGAGAGAAGAAAAAAGA
1 AAAAAAAGAGAGAA-AAAAAAGA
* * *
48086223 AAAAAAAAAGAGAAAAAAAGGG
1 AAAAAAAGAGAGAAAAAAAAGA
48086245 AAAAAAAGA
1 AAAAAAAGA
48086254 AAAAAGACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (22 bp):
AAAAAAAGAGAGAAAAAAAAGA
Done.