Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 51 of 226
Found at i:20894762 original size:7 final size:7
Alignment explanation
Indices: 20894743--20894789 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
20894733 ATAAATTCAC
20894743 TATAATAA
1 TATAAT-A
20894751 TATAATA
1 TATAATA
20894758 TATAATA
1 TATAATA
20894765 TATAAT-
1 TATAATA
*
20894771 TAATATTA
1 T-ATAATA
20894779 TATAAGTA
1 TATAA-TA
20894787 TAT
1 TAT
20894790 TTTTATATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 1 0.03
7 21 0.62
8 12 0.35
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (7 bp):
TATAATA
Found at i:20902467 original size:2 final size:2
Alignment explanation
Indices: 20902460--20902499 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
20902450 CTCCTTTCAT
20902460 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
20902500 ACCACACATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:20910830 original size:72 final size:70
Alignment explanation
Indices: 20910695--20911479 Score: 548
Period size: 72 Copynumber: 10.9 Consensus size: 70
20910685 TAGGTACCTC
* * * * *
20910695 TTCAAGTTCCTTATTTTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAAGC-CTTTCCTCTTTG
1 TTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAA-CACTCTCCCCTTTG
20910759 GTTGCCT
65 GTT-CCT
* *
20910766 TTCCAGGTTCCTTCTTCTCAACCAACTTTAGTTTTGGTACCTTTTCCTCAATACTCTCCCCTTTG
1 TT-CAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCCCTTT-
20910831 GGTTCCT
64 GGTTCCT
* * * * *
20910838 CTTCAGGTTCCTTAGTT-TCAACCAGCCTTGATTTTGGTACATTTTCCTCAACACTC-CCCTTCT
1 -TTCAGGTTCCTT-CTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCC--CT
* *
20910901 TGGGTGT-GT
62 TTGGT-TCCT
* * *** * *
20910910 CTTCAGGTTCCTTCTTCTCGATCAACTTTGGTTTCCATACCTTCTT-CTTAATACTCTCCACCTT
1 -TTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTT-TTCCTCAACACTCTCC-CCTT
*
20910974 AGGTAT-CT
63 TGGT-TCCT
* * * * * * * *
20910982 CTCCAAGTTCCTTCTTCTCAACCAACTTTGATTTTGGTGCTTTTTCCTCAACCCTCTCTTCCTTG
1 -TTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTC-CCCTTT
*
20911047 GGTGCCT
64 GGTTCCT
* * * * ** *
20911054 CATCAGGTTTCTGCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCATCGGTCTCCACCTTG
1 -TTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCC-CCTTT
*
20911119 GGTAACTCT
64 GGT-TC-CT
* * * * ** * *
20911128 TT-AGGTTCCTTATTCTCAATCAACTTTGGTTTCGGTA-ATTTCTTTTCAACACCCTCCACCTTG
1 TTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTT-TCCTCAACACTCTCC-CCTTT
20911191 GGTAT-CT
64 GGT-TCCT
* * * * * *
20911198 CTTCAGGTTCCTTTTTCTCAACCAACTTTGATTTTGGTACTTTTTTCTCAACAGTCTCCCCCTTG
1 -TTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCT-CCCCTTT
*
20911263 GGTACCT
64 GGTTCCT
* * * *
20911270 CTTTAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGATACCTTTTCCTCAACACTCACCCCCTTG
1 -TTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCCCTTTG
* *
20911335 GATGCAT
65 G-TTCCT
* * * * * ** *
20911342 CCTCAGTTTCCTTCTTCTCGATCAACTTCGGTTTTGAAACCTTCTT-CTCACCACTCTCCACCTT
1 -TTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTT-TTCCTCAACACTCTCC-CCTT
*
20911406 GGGTATCAC-
63 TGGT-TC-CT
* * * *
20911415 TCCAAGTTCCTTCTTCTCGACCAACTTTGGTTTTGGTACCTTTTCCTCAACATTCTCCCCCTTTG
1 TTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCT-CCCCTTTG
20911480 ATGCATNNNN
Statistics
Matches: 564, Mismatches: 119, Indels: 61
0.76 0.16 0.08
Matches are distributed among these distances:
70 2 0.00
71 23 0.04
72 503 0.89
73 33 0.06
74 3 0.01
ACGTcount: A:0.15, C:0.31, G:0.12, T:0.42
Consensus pattern (70 bp):
TTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCCCTTTGG
TTCCT
Found at i:20911475 original size:144 final size:143
Alignment explanation
Indices: 20910682--20911485 Score: 699
Period size: 144 Copynumber: 5.6 Consensus size: 143
20910672 ACAGTCTTCT
* * * * *
20910682 CCTTAGGTACCTCTTCAAGTTCCTTATTTTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAAGC
1 CCTTGGGTATCTCTCCAAGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAA-C
* * * * * *
20910747 -CTTTCCTCTTTGGTTGCCT-TTCCAGGTTCCTTCTTCTCAACCAACTTTAGTTTTGGTACCTTT
65 ACTCTCCCCCTTGGATGCATCTT-CAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTT
*
20910810 TCCTCAATACTCTCC-
129 T-CTCAACACTCTCCA
* * * * * * *
20910825 CCTTTGGGT-TCCTCTTCAGGTTCCTTAGTT-TCAACCAGCCTTGATTTTGGTACATTTTCCTCA
1 CC-TTGGGTAT-CTCTCCAAGTTCCTT-CTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCA
* * ** * * ***
20910888 ACACTC-CCCTTCTTGGGTGTGTCTTCAGGTTCCTTCTTCTCGATCAACTTTGGTTTCCATACCT
63 ACACTCTCCC-CCTTGGATGCATCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCT
* *
20910952 TCTTCTTAATACTCTCCA
127 T-TTCTCAACACTCTCCA
* * * * *
20910970 CCTTAGGTATCTCTCCAAGTTCCTTCTTCTCAACCAACTTTGATTTTGGTGCTTTTTCCTCAACC
1 CCTTGGGTATCTCTCCAAGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACA
** * * * * *
20911035 CTCTCTTCCTTGGGTGCCTCATCAGGTTTCTGCTTCTCAACCAACTTTGGTTTTGGTACCTTTTC
66 CTCTCCCCCTTGGATGCATCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTT-
* **
20911100 CTCATCGGTCTCCA
130 CTCAACACTCTCCA
* ** * * * * * **
20911114 CCTTGGGTAACTCTTTAGGTTCCTTATTCTCAATCAACTTTGGTTTCGGTA-ATTTCTTTTCAAC
1 CCTTGGGTATCTCTCCAAGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTT-TCCTCAAC
* * * * *
20911178 ACCCTCCACCTTGGGTAT-C-TCTTCAGGTTCCTTTTTCTCAACCAACTTTGATTTTGGTACTTT
65 ACTCTCCCCCTT-GG-ATGCATCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTAC-CT
* *
20911241 TTTCTCAACAGTCTCCC
127 TTTCTCAACACTCTCCA
* ** * *
20911258 CCTTGGGTACCTCTTTAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGATACCTTTTCCTCAACA
1 CCTTGGGTATCTCTCCAAGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACA
* * * * * * **
20911323 CTCACCCCCTTGGATGCATCCTCAGTTTCCTTCTTCTCGATCAACTTCGGTTTTGAAACCTTCTT
66 CTCTCCCCCTTGGATGCATCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTT-TT
*
20911388 CTCACCACTCTCCA
130 CTCAACACTCTCCA
* *
20911402 CCTTGGGTATCACTCCAAGTTCCTTCTTCTCGACCAACTTTGGTTTTGGTACCTTTTCCTCAACA
1 CCTTGGGTATCTCTCCAAGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACA
* *
20911467 TTCTCCCCCTTTGATGCAT
66 CTCTCCCCCTTGGATGCAT
20911486 NNNNNNNNNN
Statistics
Matches: 531, Mismatches: 110, Indels: 39
0.78 0.16 0.06
Matches are distributed among these distances:
142 2 0.00
143 17 0.03
144 491 0.92
145 20 0.04
146 1 0.00
ACGTcount: A:0.16, C:0.31, G:0.13, T:0.41
Consensus pattern (143 bp):
CCTTGGGTATCTCTCCAAGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACA
CTCTCCCCCTTGGATGCATCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTC
TCAACACTCTCCA
Found at i:20911475 original size:216 final size:215
Alignment explanation
Indices: 20910767--20911477 Score: 827
Period size: 216 Copynumber: 3.3 Consensus size: 215
20910757 TGGTTGCCTT
* * *
20910767 TCCAGGTTCCTTCTTCTCAACCAACTTT-AGTTTTGGTACCTTTTCCTCAATACTCTCCCCTTTG
1 TCCAAGTTCCTTCTTCTCAACCAACTTTGA-TTTTGGTACCTTTTCCTCAACACTCTCCCCCTTG
* * * * * *
20910831 GGTTCCTCTTCAGGTTCCTTAGTT-TCAACCAGCCTTGATTTTGGTACATTTTCCTCAACACTCC
65 GGTACCTCTTCAGGTTCCTT-CTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCC
* ** * * *
20910895 CCTTCTTGGGTGTGTCTTCAGGTTCCTTCTTCTCGATCAACTTTGGTTTCCATACCTTCTTCTTA
129 CC-CCTTGGGTGAATCTTCAGGTTCCTTCTTCTCGATCAACTTTGGTTTCGAAACCTTCTTCTCA
* *
20910960 ATACTCTCCACCTTAGGTATCTC
193 ACACTCTCCACCTTGGGTATCTC
* * * **
20910983 TCCAAGTTCCTTCTTCTCAACCAACTTTGATTTTGGTGCTTTTTCCTCAACCCTCTCTTCCTTGG
1 TCCAAGTTCCTTCTTCTCAACCAACTTTGATTTTGGTACCTTTTCCTCAACACTCTCCCCCTTGG
* * * * * **
20911048 GTGCCTCATCAGGTTTCTGCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCATCGGTCTCC
66 GTACCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTC-CC
* * * * * * *
20911113 ACCTTGGGT-AACTCTTTAGGTTCCTTATTCTCAATCAACTTTGGTTTCGGTAA-TTTCTTTTCA
130 CCCTTGGGTGAA-TCTTCAGGTTCCTTCTTCTCGATCAACTTTGGTTTC-GAAACCTTCTTCTCA
*
20911176 ACACCCTCCACCTTGGGTATCTC
193 ACACTCTCCACCTTGGGTATCTC
* * * * * *
20911199 TTCAGGTTCCTTTTTCTCAACCAACTTTGATTTTGGTACTTTTTTCTCAACAGTCTCCCCCTTGG
1 TCCAAGTTCCTTCTTCTCAACCAACTTTGATTTTGGTACCTTTTCCTCAACACTCTCCCCCTTGG
* *
20911264 GTACCTCTTTAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGATACCTTTTCCTCAACACTCACC
66 GTACCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTC-CC
* * * * * * *
20911329 CCCTTGGATGCATCCTCAGTTTCCTTCTTCTCGATCAACTTCGGTTTTGAAACCTTCTTCTCACC
130 CCCTTGGGTGAATCTTCAGGTTCCTTCTTCTCGATCAACTTTGGTTTCGAAACCTTCTTCTCAAC
*
20911394 ACTCTCCACCTTGGGTATCAC
195 ACTCTCCACCTTGGGTATCTC
* * *
20911415 TCCAAGTTCCTTCTTCTCGACCAACTTTGGTTTTGGTACCTTTTCCTCAACATTCTCCCCCTT
1 TCCAAGTTCCTTCTTCTCAACCAACTTTGATTTTGGTACCTTTTCCTCAACACTCTCCCCCTT
20911478 TGATGCATNN
Statistics
Matches: 409, Mismatches: 79, Indels: 14
0.81 0.16 0.03
Matches are distributed among these distances:
215 5 0.01
216 399 0.98
217 5 0.01
ACGTcount: A:0.16, C:0.31, G:0.12, T:0.41
Consensus pattern (215 bp):
TCCAAGTTCCTTCTTCTCAACCAACTTTGATTTTGGTACCTTTTCCTCAACACTCTCCCCCTTGG
GTACCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCCCC
CCTTGGGTGAATCTTCAGGTTCCTTCTTCTCGATCAACTTTGGTTTCGAAACCTTCTTCTCAACA
CTCTCCACCTTGGGTATCTC
Found at i:20912371 original size:22 final size:22
Alignment explanation
Indices: 20912343--20912495 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
20912333 TGTTGATAGT
*
20912343 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
20912365 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
20912387 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
* * * **
20912409 ACGAACTAAACCCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
**
20912431 ACGTACTAAGCTCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
*
20912453 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
20912475 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
20912496 GAACAATAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTA
Found at i:20912862 original size:144 final size:143
Alignment explanation
Indices: 20912602--20913214 Score: 693
Period size: 144 Copynumber: 4.3 Consensus size: 143
20912592 AAGGTTTCAC
* * * * * * * * *
20912602 CCTCAACATTCTCCCCCTTTGATGCATCTTTAGGTTCCTTCTTCTCGATCGACTTTTGTTTTGGC
1 CCTCAACATTCT-CCCCTTGGGTGCCTCTTCAGGTTTCTTCTTCTCGACCAACTTTGGTTTTGGT
* * ** *
20912667 ACCTTCTTCTCAACACTCTCCACCTTGTGTACCTCTTCAGGTTTTTTCTTCTCAACCAACTTCAG
65 ACCTTCTCCTCAACACTCTCCACCTTGGGTACCTCTTCAGGTTCCTTCTTCTCAACCAACTTCGG
*
20912732 TTTTGCTACTTTTT
130 TTTTGCTACCTTTT
* * *
20912746 CCTCAACATTCTCCCCTTGGGATGCCTCTTCAGGTTTCTTCTTCTCAACCAACTTTAGTGTTGGT
1 CCTCAACATTCTCCCCTTGGG-TGCCTCTTCAGGTTTCTTCTTCTCGACCAACTTTGGTTTTGGT
* * * * * *
20912811 ACTTTCGCCTCACCAGTCTCCACCTTGGGTACCTTTTCAGGTTCCTTCTTCTCAACCAACTTTGG
65 ACCTTCTCCTCAACACTCTCCACCTTGGGTACCTCTTCAGGTTCCTTCTTCTCAACCAACTTCGG
*
20912876 TTTTGGTACCTTTT
130 TTTTGCTACCTTTT
* ** * * *
20912890 CCTCAACAATCTCCACCTTGGGTGTATCTTCAGGTTCCTTTTTCTCGATCAACTTTGGTTTTGGT
1 CCTCAACATTCTCC-CCTTGGGTGCCTCTTCAGGTTTCTTCTTCTCGACCAACTTTGGTTTTGGT
* * * ** *
20912955 GCCTTCTTCTCAACACTCTCCACCTTGGGTACCTCTTCAAGTTTTTTCTTTTCAACCAA---C--
65 ACCTTCTCCTCAACACTCTCCACCTTGGGTACCTCTTCAGGTTCCTTCTTCTCAACCAACTTCGG
*
20913015 -TTTGCTACTTTTT
130 TTTTGCTACCTTTT
* * *
20913028 CCTCAACACTCTCCCCCTTGGGTGCCTCTTCAAGTTTCTTCTTCTCTACCAACTTTGGTTTTGGT
1 CCTCAACATTCT-CCCCTTGGGTGCCTCTTCAGGTTTCTTCTTCTCGACCAACTTTGGTTTTGGT
* * *
20913093 ACCTTTTCCTCAACACTCTCCACCTTGGGTACCTCTTTAGGTTCCTTCTTCTCAACCAACTTTGG
65 ACCTTCTCCTCAACACTCTCCACCTTGGGTACCTCTTCAGGTTCCTTCTTCTCAACCAACTTCGG
20913158 TTTTGGC-ACCTTTT
130 TTTT-GCTACCTTTT
* *
20913172 GCTCAACACTT-TCCTCCTTGGGTACCTCTTCAGGTTTCTTCTT
1 CCTCAACA-TTCTCC-CCTTGGGTGCCTCTTCAGGTTTCTTCTT
20913215 TGCAGCCATC
Statistics
Matches: 388, Mismatches: 69, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
138 116 0.30
139 2 0.01
143 9 0.02
144 251 0.65
145 10 0.03
ACGTcount: A:0.15, C:0.31, G:0.13, T:0.42
Consensus pattern (143 bp):
CCTCAACATTCTCCCCTTGGGTGCCTCTTCAGGTTTCTTCTTCTCGACCAACTTTGGTTTTGGTA
CCTTCTCCTCAACACTCTCCACCTTGGGTACCTCTTCAGGTTCCTTCTTCTCAACCAACTTCGGT
TTTGCTACCTTTT
Found at i:20913137 original size:282 final size:284
Alignment explanation
Indices: 20912602--20913214 Score: 858
Period size: 282 Copynumber: 2.2 Consensus size: 284
20912592 AAGGTTTCAC
* * * * * * *
20912602 CCTCAACATTCTCCCCCTTTGATGCATCTTTAGGTTCCTTCTTCTCGATCGACTTTTGTTTTGGC
1 CCTCAACAATCTCCACCTTGGGTGCATCTTCAGGTTCCTTCTTCTCGATCAACTTTGGTTTTGGC
* *
20912667 ACCTTCTTCTCAACACTCTCCACCTTGTGTACCTCTTCAGGTTTTTTCTTCTCAACCAACTTCAG
66 ACCTTCTTCTCAACACTCTCCACCTTGGGTACCTCTTCAAGTTTTTTCTTCTCAACCAA--TCA-
* *
20912732 TTTTGCTACTTTTTCCTCAACATTCTCCCCTTGGGATGCCTCTTCAGGTTTCTTCTTCTCAACCA
128 -TTTGCTACTTTTTCCTCAACACTCTCCCCTTGGGATGCCTCTTCAAGTTTCTTCTTCTCAACCA
* *
20912797 ACTTTAGTGTTGGTACTTTCGCCTCACCAGTCTCCACCTTGGGTACCTTTTCAGGTTCCTTCTTC
192 ACTTTAGTGTTGGTACTTTCGCCTCAACACTCTCCACCTTGGGTACCTTTTCAGGTTCCTTCTTC
*
20912862 TCAACCAACTTTGGTTTTGGTACCTTTT
257 TCAACCAACTTTGGTTTTGGCACCTTTT
* * *
20912890 CCTCAACAATCTCCACCTTGGGTGTATCTTCAGGTTCCTTTTTCTCGATCAACTTTGGTTTTGGT
1 CCTCAACAATCTCCACCTTGGGTGCATCTTCAGGTTCCTTCTTCTCGATCAACTTTGGTTTTGGC
* *
20912955 GCCTTCTTCTCAACACTCTCCACCTTGGGTACCTCTTCAAGTTTTTTCTTTTCAACCAA-C-TTT
66 ACCTTCTTCTCAACACTCTCCACCTTGGGTACCTCTTCAAGTTTTTTCTTCTCAACCAATCATTT
*
20913018 GCTACTTTTTCCTCAACACTCTCCCCCTTGGG-TGCCTCTTCAAGTTTCTTCTTCTCTACCAACT
131 GCTACTTTTTCCTCAACACTCT-CCCCTTGGGATGCCTCTTCAAGTTTCTTCTTCTCAACCAACT
* * *
20913082 TTGGTTTTGGTACCTTT-TCCTCAACACTCTCCACCTTGGGTACCTCTTT-AGGTTCCTTCTTCT
195 TTAGTGTTGGTA-CTTTCGCCTCAACACTCTCCACCTTGGGTACCT-TTTCAGGTTCCTTCTTCT
20913145 CAACCAACTTTGGTTTTGGCACCTTTT
258 CAACCAACTTTGGTTTTGGCACCTTTT
* * * * * * *
20913172 GCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTT
1 CCTCAACAATCTCCACCTTGGGTGCATCTTCAGGTTCCTTCTT
20913215 TGCAGCCATC
Statistics
Matches: 290, Mismatches: 32, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
282 163 0.56
283 16 0.06
285 1 0.00
288 110 0.38
ACGTcount: A:0.15, C:0.31, G:0.13, T:0.42
Consensus pattern (284 bp):
CCTCAACAATCTCCACCTTGGGTGCATCTTCAGGTTCCTTCTTCTCGATCAACTTTGGTTTTGGC
ACCTTCTTCTCAACACTCTCCACCTTGGGTACCTCTTCAAGTTTTTTCTTCTCAACCAATCATTT
GCTACTTTTTCCTCAACACTCTCCCCTTGGGATGCCTCTTCAAGTTTCTTCTTCTCAACCAACTT
TAGTGTTGGTACTTTCGCCTCAACACTCTCCACCTTGGGTACCTTTTCAGGTTCCTTCTTCTCAA
CCAACTTTGGTTTTGGCACCTTTT
Found at i:20913241 original size:72 final size:72
Alignment explanation
Indices: 20912628--20913214 Score: 629
Period size: 72 Copynumber: 8.2 Consensus size: 72
20912618 CTTTGATGCA
* * * * * *
20912628 TCTTTAGGTTCCTTCTTCTCGATCGACTTTTGTTTTGGCACCTTCTT-CTCAACACTCTCCACCT
1 TCTTCAGGTTTCTTCTTCTCAACCAACTTTGGTTTTGGCACCTT-TTCCTCAACACTCTCCACCT
*
20912692 TGTGTACC
65 TGGGTACC
* ** * *
20912700 TCTTCAGGTTTTTTCTTCTCAACCAACTTCAGTTTT-GCTACTTTTTCCTCAACATTCTCC-CCT
1 TCTTCAGGTTTCTTCTTCTCAACCAACTTTGGTTTTGGC-ACCTTTTCCTCAACACTCTCCACCT
*
20912763 TGGGATGCC
65 TGGG-TACC
* * * * * *
20912772 TCTTCAGGTTTCTTCTTCTCAACCAACTTTAGTGTTGGTA-CTTTCGCCTCACCAGTCTCCACCT
1 TCTTCAGGTTTCTTCTTCTCAACCAACTTTGGTTTTGGCACCTTT-TCCTCAACACTCTCCACCT
20912836 TGGGTACC
65 TGGGTACC
* * * *
20912844 TTTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACAATCTCCACCTT
1 TCTTCAGGTTTCTTCTTCTCAACCAACTTTGGTTTTGGCACCTTTTCCTCAACACTCTCCACCTT
***
20912909 GGGTGTA
66 GGGTACC
* * * * **
20912916 TCTTCAGGTTCCTTTTTCTCGATCAACTTTGGTTTTGGTGCCTTCTT-CTCAACACTCTCCACCT
1 TCTTCAGGTTTCTTCTTCTCAACCAACTTTGGTTTTGGCACCTT-TTCCTCAACACTCTCCACCT
20912980 TGGGTACC
65 TGGGTACC
* * * * * *
20912988 TCTTCAAGTTTTTTCTTTTCAACCAACTTT-G--CT---ACTTTTTCCTCAACACTCTCCCCCTT
1 TCTTCAGGTTTCTTCTTCTCAACCAACTTTGGTTTTGGCACCTTTTCCTCAACACTCTCCACCTT
*
20913047 GGGTGCC
66 GGGTACC
* * *
20913054 TCTTCAAGTTTCTTCTTCTCTACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCACCTT
1 TCTTCAGGTTTCTTCTTCTCAACCAACTTTGGTTTTGGCACCTTTTCCTCAACACTCTCCACCTT
20913119 GGGTACC
66 GGGTACC
* * * * *
20913126 TCTTTAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTT
1 TCTTCAGGTTTCTTCTTCTCAACCAACTTTGGTTTTGGCACCTTTTCCTCAACACTCTCCACCTT
20913191 GGGTACC
66 GGGTACC
20913198 TCTTCAGGTTTCTTCTT
1 TCTTCAGGTTTCTTCTT
20913215 TGCAGCCATC
Statistics
Matches: 431, Mismatches: 69, Indels: 30
0.81 0.13 0.06
Matches are distributed among these distances:
65 2 0.00
66 53 0.12
67 1 0.00
69 2 0.00
71 14 0.03
72 345 0.80
73 14 0.03
ACGTcount: A:0.14, C:0.31, G:0.13, T:0.42
Consensus pattern (72 bp):
TCTTCAGGTTTCTTCTTCTCAACCAACTTTGGTTTTGGCACCTTTTCCTCAACACTCTCCACCTT
GGGTACC
Found at i:20914037 original size:111 final size:110
Alignment explanation
Indices: 20913147--20915737 Score: 912
Period size: 117 Copynumber: 22.0 Consensus size: 110
20913137 CTTCTTCTCA
* * *
20913147 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTT
1 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCC-CGTGTACCTCTTCAGGTTTCTT
* * * * * *
20913212 CTTTGCAGCCATCATCTGTTTTGGCACCTTCTCAGGTTCAGCCTCCTTTTCG
65 CTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAG----C--TTCT
* * * * * *
20913264 ACCAACTTTGGTTTGGGCATCTTTTGCTGAATGCTTTCCT-CGGT-TACCTCTTTAGGTTTCTTC
1 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCCGTGTACCTCTTCAGGTTTCTTC
* * *
20913327 TTTTCGGACAACATCAGTTTTGGTACTTTCTCAGCTTCAGCTTCAGCGT
66 TTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTT---C-T
* * * * *
20913376 CGACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTATCTCTTTAGGTTTC
1 --ACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCC-CGTGTACCTCTTCAGGTTTC
* * * ** **
20913441 TTCTTTTCTGCCAATATCAATTGCGGTACCTTCTCTTCTTCAGCTT-T
63 TTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCT
* * * * * *
20913488 GAGCAACTGTGGTTTTGGCACCTTTTGCTCAACACTTTCCT-CCTTGGTTATCTCTTCAAGTTTC
1 -ACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCCGT-G-TACCTCTTCAGGTTTC
** * * *
20913552 TTCAGTTCAGCCATCATCTGTTTTGGTACCTTCTCAGCTTCAGCCTCCTTTTCG
63 TTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAG----C--TTCT
* * * *
20913606 ACCAAATTTGGTTTGGGCACCTTTTGCTCAATGCTTTCCT-CCTTGGTTACCTCTTCAGGTTTCT
1 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCCGT-G-TACCTCTTCAGGTTTCT
*
20913670 TCTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCAT
64 TCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTT---C-T
* * * *
20913721 CGACCAGCTTTGGTTTTGGCCCCTTTTGCTCAATGGTTTCCT-CC-TGTACCTCTTCAGGTTTCT
1 --ACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCCGTGTACCTCTTCAGGTTTCT
* * *
20913784 TCTTTTC-G---GC-T-AGTTTTGGTACCTTCTCATCTTCTGCTTCAACTT
64 TCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTT---C-T
** ** * * * *
20913829 CAGCCTCCTTTTCAACCAACTTTTGTTTTG-GCGCCTTTTGCTCAACACTTTCCT-CCTTGGTTA
1 -A-CCAAC-TTT------GGTTTTG----GCAC-CTTTT-GCTCAACGCTTTCCTCCCGT-G-TA
* * *
20913892 CCTCTTCAGGTTTCTTCTTTTCAGCCAACGTCAGTTTTGGTACTTTCTCAGATTCAGCTTCT
49 CCTCTTCAGGTTTCTTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCT
* * *
20913954 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACGTTTTCCTCCACCTGTACCTCTTCATGTTTCTT
1 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCC-CGTGTACCTCTTCAGGTTTCTT
** * * * *
20914019 CTTTTCAGCCAATTTCAGTTTTGGTACCTTTTCATCTTCAGCTGCG
65 CTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCT
* * ** * * * * *
20914065 ACTTCAGC-CTCCTTTTCGACCAACTTCTGTTTTG-GC-AC-CTTTTGCTCAACAC-T-TTCGTC
1 AC--CAACTTTGGTTTT-G-GC-AC--C--TTTTGCTCAACGC-TTTCCTC--C-CGTGTACCT-
* * **** * * ** * **
20914124 CTT--GGTTAC--CTCTTCAGGTTTCTTC--TTTT--CAGCCAACATCAGTTTTGGTACTT-T
52 CTTCAGGTTTCTTCTTTTCAGCCAACATCAGTTTTGGTA-CCTTC-TCAGCTTCAG--CTTCT
* * * ** * ** * ** * * *
20914178 -CTCAGCTTCAT-CTTCTACCAACTTTGGTTTTGGC-AC-CTTTTGCTCAATGTTTTCCTCCATC
1 AC-CAACTT--TGGTTTTGGCACCTTT--TGCT--CAACGC-TTTCCTC-CCGTGTACCT-CTTC
* * ** *
20914239 -TGTACCTCTTCATGTTTCTTCTTTTCAGCCAATTTCAGTTTTGGTACCTTCTCATCTTCAGCTG
56 AGGT--TTCTTC---TTT-------TCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCT-
20914303 TGACTT
108 T--C-T
*** *
20914309 CAGCCTCCTTTTCGACCAACTTCT-GTTTTATTACCTTTTGCTCAACGCTTTCCT-CCTTGATTA
1 -A-------------CCAACTT-TGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCCGTG--TA
* * * *
20914372 CCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTTAGCTTCATCTTCG
49 CCTCTTCAGGTTTCTTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCT
* * * * * * *
20914434 ACCAACTTTTGTTTTGGCACATTTTGCTCAACACTTTCCTCCTTGGGCACCTCTTCAAGTTTCTT
1 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCC-CGTGTACCTCTTCAGGTTTCTT
* *
20914499 CTTTTCGGCCAAAATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTT
65 CTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGC-T-----T-C--T
* * *
20914554 ACGACTAACTTTGGTTTTGGCACCTTTTGCTCAATGCTTTCCT-CCTTGGTTACATCTTCAGGTT
1 AC--C-AACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCCGT-G-TACCTCTTCAGGTT
* * *
20914618 TCTTCTTTTCAGCCAACGTCAGTTTTGTTACCTTCTCAGCTTCAGTCTCCTTTT
61 TCTTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAG----CTTCT
* * * * * * * *
20914672 GAACCATCCTTGGTTCTGGCACCATTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGTTTC
1 --ACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCC-CGTGTACCTCTTCAGGTTTC
* * ** *
20914737 TTCTTTTCAGCAAACTTCAGTTTTGGTAAATTCTCAGGTTCAGCTTCATCCTCCTTTT
63 TTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAG---C-T--T-C---T
* * * * * *
20914795 GGACCAGCTTTGGTTTTTGCACCTTTTGCTTAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTC
1 --ACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCC-CGTGTACCTCTTCAGGTTTC
* * *
20914860 TTCTTTTTAGCCAACATCAGTTTTGGTACTTTCTCAGCTTCATCTTCT
63 TTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCT
* * * *
20914908 GCCAACTTTGGTTTTGGCACCTTTTGCTCAATGTTTTCCTCCATC-TGTACCTCTTCATGTTTCT
1 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCC--CGTGTACCTCTTCAGGTTTCT
* ** *
20914972 TCCTTTCAGCCAATTTCAGTTTTGGTACCTTCTCATCTTCAGCTGTGACTT
64 TCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCT-T--C-T
*** *
20915023 CAGCCTCCTTTTCGACCAACTTCT-GTTTTATTACCTTTTGCTCAACGCTTTCCT-CCTTGATTA
1 -A-------------CCAACTT-TGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCCGTG--TA
* * * *
20915086 CCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTTAGCTTCATCTTCG
49 CCTCTTCAGGTTTCTTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCT
* * * * * * *
20915148 ACCAACTTTTGTTTTGGCACATTTTGCTCAACACTTTCCTCCTTGGGCACCTCTTCAAGTTTCTT
1 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCC-CGTGTACCTCTTCAGGTTTCTT
* *
20915213 CTTTTCGGCCAAAATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTT
65 CTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGC-T-----T-C--T
* * *
20915268 ACGACTAACTTTGGTTTTGGCACCTTTTGCTCAATGCTTTCCT-CCTTGGTTACATCTTCAGGTT
1 AC--C-AACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCCGT-G-TACCTCTTCAGGTT
* * *
20915332 TCTTCTTTTCAGCCAACGTCAGTTTTGTTACCTTCTCAGCTTCAGTCTCCTTTT
61 TCTTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAG----CTTCT
* * * * * * * *
20915386 GAACCATCCTTGGTTCTGGCACCATTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGTTTC
1 --ACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCC-CGTGTACCTCTTCAGGTTTC
* * ** *
20915451 TTCTTTTCAGCAAACTTCAGTTTTGGTAAATTCTCAGGTTCAGCTTCATCCTCCTTTT
63 TTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAG---C-T--T-C---T
* * * * * *
20915509 GGACCAGCTTTGGTTTTTGCACCTTTTGCTTAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTC
1 --ACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCC-CGTGTACCTCTTCAGGTTTC
* ** *
20915574 TTCTTTTCAGCCAACTTCAGTTTCAGTACCTTCTCAGCTTCAGTCTCCTT
63 TTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAG-CTTC-T
** ** * * * * *
20915624 TTCAACTGGCATTGGTTTTGGCACCACTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCGGGTT
1 ACCAACT----TTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCC-CGTGTACCTCTTCAGGTT
* * * *
20915689 TCTTCTCTTCAGCCAACTTCAGTTTTGATGCCTT-TGCAGCTTCAGCTTC
61 TCTTCTTTTCAGCCAACATCAGTTTTGGTACCTTCT-CAGCTTCAGCTTC
20915738 AGCTGCAGTT
Statistics
Matches: 1899, Mismatches: 362, Indels: 427
0.71 0.13 0.16
Matches are distributed among these distances:
106 3 0.00
107 1 0.00
108 37 0.02
109 4 0.00
110 10 0.01
111 445 0.23
112 32 0.02
113 20 0.01
114 126 0.07
115 14 0.01
116 24 0.01
117 487 0.26
118 16 0.01
119 18 0.01
120 24 0.01
121 5 0.00
122 10 0.01
123 386 0.20
124 4 0.00
125 1 0.00
126 15 0.01
127 6 0.00
128 14 0.01
129 149 0.08
130 2 0.00
131 1 0.00
136 3 0.00
139 6 0.00
140 4 0.00
141 13 0.01
142 3 0.00
144 10 0.01
145 5 0.00
146 1 0.00
ACGTcount: A:0.15, C:0.29, G:0.14, T:0.42
Consensus pattern (110 bp):
ACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCCGTGTACCTCTTCAGGTTTCTTC
TTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCT
Found at i:20914187 original size:129 final size:129
Alignment explanation
Indices: 20913954--20914187 Score: 332
Period size: 129 Copynumber: 1.8 Consensus size: 129
20913944 TTCAGCTTCT
** *
20913954 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACGTTTTCCTCCACCTGTACCTCTTCATGTTTCTT
1 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCACCTGTACCTCTTCAGGTTTCTT
** *
20914019 CTTTTCAGCCAATTTCAGTTTTGGTACCTTTTCATCTTCAGCTGCGACTTCAGCCTCCTTTTCG
66 CTTTTCAGCCAACATCAGTTTTGGTACCTTTTCAGCTTCAGCTGCGACTTCAGCCTCCTTTTCG
* *
20914083 ACCAACTTCT-GTTTTGGCACCTTTTGCTCAACACTTTCGT-C-CTTGGTTACCTCTTCAGGTTT
1 ACCAACTT-TGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCACCT-G-TACCTCTTCAGGTTT
20914145 CTTCTTTTCAGCCAACATCAGTTTTGGTA-CTTTCTCAGCTTCA
63 CTTCTTTTCAGCCAACATCAGTTTTGGTACCTTT-TCAGCTTCA
20914188 TCTTCTACCA
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
127 2 0.02
128 6 0.06
129 84 0.90
130 1 0.01
ACGTcount: A:0.15, C:0.29, G:0.13, T:0.42
Consensus pattern (129 bp):
ACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCACCTGTACCTCTTCAGGTTTCTT
CTTTTCAGCCAACATCAGTTTTGGTACCTTTTCAGCTTCAGCTGCGACTTCAGCCTCCTTTTCG
Found at i:20914656 original size:123 final size:121
Alignment explanation
Indices: 20914430--20915738 Score: 1369
Period size: 123 Copynumber: 11.0 Consensus size: 121
20914420 TAGCTTCATC
* * * *
20914430 TTCGACCAACTTTTGTTTTGGCACATTTTGCTCAACACTTTCCTCCTTGGGCACCTCTTCAAGTT
1 TTCGACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTT
* **
20914495 TCTTCTTTTCGGCCAAAATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCT
66 TCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCA-CCTCCT
* ** * *
20914552 TTACGACTAACTTTGGTTTTGGCACCTTTTGCTCAATGCTTTCCTCCTTGGTTACATCTTCAGGT
1 TT-CGACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGT
* *
20914617 TTCTTCTTTTCAGCCAACGTCAGTTTTGTTACCTTCTCAGCTTCAG--T---CTCCT
65 TTCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCACCTCCT
* * * * * *
20914669 TTTGAACCATCCTTGGTTCTGGCACCATTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGT
1 TTCG-ACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGT
* ** *
20914734 TTCTTCTTTTCAGCAAACTTCAGTTTTGGTAAATTCTCAGGTTCAGCTTCATCCTCCTT
65 TTCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCA-CCTCC-T
* * * *
20914793 TTGGACCAGCTTTGGTTTTTGCACCTTTTGCTTAACACTTTCCTCCTTGGGTACCTCTTCAGGTT
1 TTCGACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTT
* *
20914858 TCTTCTTTTTAGCCAACATCAGTTTTGGTA-CTT-T---C-TCAGCTTCA--T-C-
66 TCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCACCTCCT
*** * ** *
20914904 TTCTG-CCAACTTTGGTTTTGGCACCTTTTGCTCAATGTTTTCCTCCATCTGTACCTCTTCATGT
1 TTC-GACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGT
* * *
20914968 TTCTTCCTTTCAGCCAATTTCAGTTTTGGTACCTTCTCATCTTCAGCTGTGACTTCAGCCTCCTT
65 TTCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCA-----G-CTTCA-CCTCC-T
*** * **
20915033 TTCGACCAACTTCT-GTTTTATTACCTTTTGCTCAACGCTTTCCTCCTTGATTACCTCTTCAGGT
1 TTCGACCAACTT-TGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGT
20915097 TTCTTCTTTTCAGCCAACTTCAGTTTTGGTACC-T-T---CTT-AGCTTCA--T-C-
65 TTCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCACCTCCT
* * * *
20915144 TTCGACCAACTTTTGTTTTGGCACATTTTGCTCAACACTTTCCTCCTTGGGCACCTCTTCAAGTT
1 TTCGACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTT
* **
20915209 TCTTCTTTTCGGCCAAAATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCT
66 TCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCA-CCTCCT
* ** * *
20915266 TTACGACTAACTTTGGTTTTGGCACCTTTTGCTCAATGCTTTCCTCCTTGGTTACATCTTCAGGT
1 TT-CGACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGT
* *
20915331 TTCTTCTTTTCAGCCAACGTCAGTTTTGTTACCTTCTCAGCTTCAG--T---CTCCT
65 TTCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCACCTCCT
* * * * * *
20915383 TTTGAACCATCCTTGGTTCTGGCACCATTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGT
1 TTCG-ACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGT
* ** *
20915448 TTCTTCTTTTCAGCAAACTTCAGTTTTGGTAAATTCTCAGGTTCAGCTTCATCCTCCTT
65 TTCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCA-CCTCC-T
* * * *
20915507 TTGGACCAGCTTTGGTTTTTGCACCTTTTGCTTAACACTTTCCTCCTTGGGTACCTCTTCAGGTT
1 TTCGACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTT
** *
20915572 TCTTCTTTTCAGCCAACTTCAGTTTCAGTACCTTCTCAGCTTCAG--TCTCCT--T
66 TCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCACCTCCT
* *** * ** * *
20915624 TTCAACTGGCATTGGTTTTGGCACCACTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCGGGTT
1 TTCGACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTT
* * *
20915689 TCTTCTCTTCAGCCAACTTCAGTTTTGATGCCTT-TGCAGCTTCAGCTTCA
66 TCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCT-CAGCTTCAGCTTCA
20915739 GCTGCAGTTT
Statistics
Matches: 989, Mismatches: 144, Indels: 111
0.80 0.12 0.09
Matches are distributed among these distances:
110 1 0.00
111 161 0.16
112 5 0.01
113 4 0.00
114 2 0.00
116 7 0.01
117 311 0.31
118 1 0.00
119 4 0.00
120 4 0.00
121 6 0.01
122 7 0.01
123 378 0.38
124 11 0.01
126 1 0.00
127 2 0.00
128 2 0.00
129 81 0.08
130 1 0.00
ACGTcount: A:0.15, C:0.28, G:0.14, T:0.42
Consensus pattern (121 bp):
TTCGACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTT
TCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCACCTCCT
Found at i:20914819 original size:714 final size:713
Alignment explanation
Indices: 20913150--20915715 Score: 3305
Period size: 714 Copynumber: 3.6 Consensus size: 713
20913140 CTTCTCAACC
* *
20913150 AACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTT
1 AACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTACATCTTCAGGTTTCTTCTT
* * * * * * * *
20913215 TGCAGCCATCATCTGTTTTGGCACCTTCTCAGGTTCAGCCTCCTTTTCGACCAACTTTGGTT-TG
66 TTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGTCTCCTTTT-GACCAACCTTGGTTCT-
* * * ** * * * *
20913279 GGCATCTTTTGCTGAATGC--TT-TCCTCGGTTACCTCTTTAGGTTTCTTCTTTTC-GGACAACA
129 GGCACCATTTGCTCAACACTTTTCTCCTCGGGTACCTCTTCAGGTTTCTTCTTTTCAGCA-AACT
** *
20913340 TCAGTTTTGGTACTTTCTCAGCTTCAGCTTCAGCGT-C-----GACCAACTTTGGTTTTGGCACC
193 TCAGTTTTGGTAAATTCTCAGCTTCAGCTTCAGCCTCCTTTTGGACCAACTTTGGTTTTGGCACC
* * * * * *
20913399 TTTTGCTCAACACTTTCCTCCTTGGGTATCTCTTTAGGTTTCTTCTTTTCTGCCAATATCAATTG
258 TTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAACATCAGTTT
** * * * ***
20913464 CGGTACCTTCTCTTCTTCAGCTT-TGAGCAACTGTGGTTTTGGCACCTTTTGCTCAACACTTTCC
323 CGGTACCTTCTCAGCTTCATCTTCT-ACCAACTTTGGTTTTGGCACCTTTTGCTCAATGTTTTCC
* * ** * *
20913528 TCC-T-TGGTTATCTCTTCAAGTTTCTTCAGTTCAGCC-ATCATCTGTTTTGGTA-C--CT--TC
387 TCCATCT-G-TACCTCTTCATGTTTCTTCTTTTCAGCCAAT-TTCAGTTTTGGTACCTTCTCATC
* **** *
20913585 -TCA-----G-CTTCAGCCTCCTTTTCGACCAAATT-TGGTTTGGGCACCTTTTGCTCAATGCTT
449 TTCAGCTGTGACTTCAGCCTCCTTTTCGACCAACTTCT-GTTTTATTACCTTTTGCTCAACGCTT
* *
20913642 TCCTCCTTGGTTACCTCTTCAGGTTTCTTCTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGC
513 TCCTCCTTGATTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAGTTTTGGTACC-T-T---C
* * * * * * *** *
20913707 TTCAGCTTCAGCATCGACCAGCTTTGGTTTTGGCCCCTTTTGCTCAATGGTTTCCTCC-T--GTA
573 TT-AGCTTCATCTTCGACCAACTTTTGTTTTGGCACATTTTGCTCAACACTTTCCTCCTTGGGCA
* *
20913769 CCTCTTCAGGTTTCTTCTTTTCGG-C----T-AGTTTTGGTACCTTCTCATCTTCTGCTTCAACT
637 CCTCTTCAAGTTTCTTCTTTTCGGCCAAAATCAGTTTTGGTACCTTCTCA------GCTTCAGCT
* * *
20913828 TCAGCCTCCTTTTCAACC
696 TCAGCCTCCTTTACGACT
* * *
20913846 AACTTTTGTTTTGGCGCCTTTTGCTCAACACTTTCCTCCTTGGTTACCTCTTCAGGTTTCTTCTT
1 AACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTACATCTTCAGGTTTCTTCTT
* * * * *
20913911 TTCAGCCAACGTCAGTTTTGGTACTTTCTCAGATTCAG----CTTCT-ACCAACTTTGGTTTTGG
66 TTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGTCTCCTTTTGACCAACCTTGGTTCTGG
* * * ** * * *
20913971 CACCTTTTGCTCAAC-GTTTTCCTCCACCTGTACCTCTTCATGTTTCTTCTTTTCAGCCAATTTC
131 CACCATTTGCTCAACACTTTT-CTCCTCGGGTACCTCTTCAGGTTTCTTCTTTTCAGCAAACTTC
** * * *
20914035 AGTTTTGGTACCTTTTCATCTTCAGCTGCGACTTCAGCCTCCTTTTCGACCAACTTCT-GTTTTG
195 AGTTTTGGTAAATTCTCAGCTTCA-----G-CTTCAGCCTCCTTTTGGACCAACTT-TGGTTTTG
* *
20914099 GCACCTTTTGCTCAACACTTTCGTCCTTGGTTACCTCTTCAGGTTTCTTCTTTTCAGCCAACATC
253 GCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAACATC
* *
20914164 AGTTTTGGTACTTTCTCAGCTTCATCTTCTACCAACTTTGGTTTTGGCACCTTTTGCTCAATGTT
318 AGTTTCGGTACCTTCTCAGCTTCATCTTCTACCAACTTTGGTTTTGGCACCTTTTGCTCAATGTT
20914229 TTCCTCCATCTGTACCTCTTCATGTTTCTTCTTTTCAGCCAATTTCAGTTTTGGTACCTTCTCAT
383 TTCCTCCATCTGTACCTCTTCATGTTTCTTCTTTTCAGCCAATTTCAGTTTTGGTACCTTCTCAT
20914294 CTTCAGCTGTGACTTCAGCCTCCTTTTCGACCAACTTCTGTTTTATTACCTTTTGCTCAACGCTT
448 CTTCAGCTGTGACTTCAGCCTCCTTTTCGACCAACTTCTGTTTTATTACCTTTTGCTCAACGCTT
20914359 TCCTCCTTGATTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTTAGC
513 TCCTCCTTGATTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTTAGC
20914424 TTCATCTTCGACCAACTTTTGTTTTGGCACATTTTGCTCAACACTTTCCTCCTTGGGCACCTCTT
578 TTCATCTTCGACCAACTTTTGTTTTGGCACATTTTGCTCAACACTTTCCTCCTTGGGCACCTCTT
20914489 CAAGTTTCTTCTTTTCGGCCAAAATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTT
643 CAAGTTTCTTCTTTTCGGCCAAAATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTT
20914554 ACGACT
708 ACGACT
**
20914560 AACTTTGGTTTTGGCACCTTTTGCTCAATGCTTTCCTCCTTGGTTACATCTTCAGGTTTCTTCTT
1 AACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTACATCTTCAGGTTTCTTCTT
* *
20914625 TTCAGCCAACGTCAGTTTTGTTACCTTCTCAGCTTCAGTCTCCTTTTGAACCATCCTTGGTTCTG
66 TTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGTCTCCTTTTG-ACCAACCTTGGTTCTG
*
20914690 GCACCATTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCAAACTTC
130 GCACCATTTGCTCAACACTTTTCTCCTCGGGTACCTCTTCAGGTTTCTTCTTTTCAGCAAACTTC
* * * *
20914755 AGTTTTGGTAAATTCTCAGGTTCAGCTTCATCCTCCTTTTGGACCAGCTTTGGTTTTTGCACCTT
195 AGTTTTGGTAAATTCTCAGCTTCAGCTTCAGCCTCCTTTTGGACCAACTTTGGTTTTGGCACCTT
* * *
20914820 TTGCTTAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTTAGCCAACATCAGTTTTG
260 TTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAACATCAGTTTCG
* *
20914885 GTACTTTCTCAGCTTCATCTTCTGCCAACTTTGGTTTTGGCACCTTTTGCTCAATGTTTTCCTCC
325 GTACCTTCTCAGCTTCATCTTCTACCAACTTTGGTTTTGGCACCTTTTGCTCAATGTTTTCCTCC
*
20914950 ATCTGTACCTCTTCATGTTTCTTCCTTTCAGCCAATTTCAGTTTTGGTACCTTCTCATCTTCAGC
390 ATCTGTACCTCTTCATGTTTCTTCTTTTCAGCCAATTTCAGTTTTGGTACCTTCTCATCTTCAGC
20915015 TGTGACTTCAGCCTCCTTTTCGACCAACTTCTGTTTTATTACCTTTTGCTCAACGCTTTCCTCCT
455 TGTGACTTCAGCCTCCTTTTCGACCAACTTCTGTTTTATTACCTTTTGCTCAACGCTTTCCTCCT
20915080 TGATTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTTAGCTTCATCT
520 TGATTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTTAGCTTCATCT
20915145 TCGACCAACTTTTGTTTTGGCACATTTTGCTCAACACTTTCCTCCTTGGGCACCTCTTCAAGTTT
585 TCGACCAACTTTTGTTTTGGCACATTTTGCTCAACACTTTCCTCCTTGGGCACCTCTTCAAGTTT
20915210 CTTCTTTTCGGCCAAAATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTTACGACT
650 CTTCTTTTCGGCCAAAATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTTACGACT
**
20915274 AACTTTGGTTTTGGCACCTTTTGCTCAATGCTTTCCTCCTTGGTTACATCTTCAGGTTTCTTCTT
1 AACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTACATCTTCAGGTTTCTTCTT
* *
20915339 TTCAGCCAACGTCAGTTTTGTTACCTTCTCAGCTTCAGTCTCCTTTTGAACCATCCTTGGTTCTG
66 TTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGTCTCCTTTTG-ACCAACCTTGGTTCTG
*
20915404 GCACCATTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCAAACTTC
130 GCACCATTTGCTCAACACTTTTCTCCTCGGGTACCTCTTCAGGTTTCTTCTTTTCAGCAAACTTC
* * * *
20915469 AGTTTTGGTAAATTCTCAGGTTCAGCTTCATCCTCCTTTTGGACCAGCTTTGGTTTTTGCACCTT
195 AGTTTTGGTAAATTCTCAGCTTCAGCTTCAGCCTCCTTTTGGACCAACTTTGGTTTTGGCACCTT
* * *
20915534 TTGCTTAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAGTTTCA
260 TTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAACATCAGTTTCG
* ** ** **
20915599 GTACCTTCTCAGCTTCAGTCTCCTTTTCAACTGGCATTGGTTTTGGCACCACTTGCTCAACACTT
325 GTACCTTCTCAGCTTCA-TCTTC-TACCAACT----TTGGTTTTGGCACCTTTTGCTCAA-TGTT
* ** ** * *
20915664 TT-CTCCTTGGGTACCTCTTCGGGTTTCTTCTCTTCAGCCAACTTCAGTTTTG
383 TTCCTCCATCTGTACCTCTTCATGTTTCTTCTTTTCAGCCAATTTCAGTTTTG
20915716 ATGCCTTTGC
Statistics
Matches: 1678, Mismatches: 132, Indels: 96
0.88 0.07 0.05
Matches are distributed among these distances:
690 27 0.02
691 3 0.00
692 4 0.00
693 51 0.03
694 1 0.00
696 93 0.06
698 1 0.00
699 8 0.00
700 1 0.00
705 167 0.10
706 7 0.00
707 1 0.00
708 2 0.00
710 2 0.00
711 49 0.03
712 4 0.00
713 1 0.00
714 962 0.57
715 7 0.00
716 8 0.00
717 100 0.06
718 5 0.00
719 1 0.00
720 165 0.10
721 8 0.00
ACGTcount: A:0.15, C:0.28, G:0.14, T:0.42
Consensus pattern (713 bp):
AACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTACATCTTCAGGTTTCTTCTT
TTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGTCTCCTTTTGACCAACCTTGGTTCTGG
CACCATTTGCTCAACACTTTTCTCCTCGGGTACCTCTTCAGGTTTCTTCTTTTCAGCAAACTTCA
GTTTTGGTAAATTCTCAGCTTCAGCTTCAGCCTCCTTTTGGACCAACTTTGGTTTTGGCACCTTT
TGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAACATCAGTTTCGG
TACCTTCTCAGCTTCATCTTCTACCAACTTTGGTTTTGGCACCTTTTGCTCAATGTTTTCCTCCA
TCTGTACCTCTTCATGTTTCTTCTTTTCAGCCAATTTCAGTTTTGGTACCTTCTCATCTTCAGCT
GTGACTTCAGCCTCCTTTTCGACCAACTTCTGTTTTATTACCTTTTGCTCAACGCTTTCCTCCTT
GATTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTTAGCTTCATCTT
CGACCAACTTTTGTTTTGGCACATTTTGCTCAACACTTTCCTCCTTGGGCACCTCTTCAAGTTTC
TTCTTTTCGGCCAAAATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTTACGACT
Found at i:20914958 original size:954 final size:946
Alignment explanation
Indices: 20913147--20915715 Score: 3303
Period size: 954 Copynumber: 2.7 Consensus size: 946
20913137 CTTCTTCTCA
*
20913147 ACCAACTT-TGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
1 ACCAACTTCT-GTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTACCTCTTCAGGTTTCT
* * * * *
20913211 TCTTTGCAGCCATCATCTGTTTTGGCACCTTCTCAGGTTCAGCCTCCTTTTCGACCAACTTTGGT
65 TCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCA---T-C--TTCGACCAACTTTGGT
* * * * * * * *
20913276 TTGGGCATCTTTTGCTGAATGCTTTCCT-CGGT-TACCTCTTTAGGTTTCTTCTTTTCGGACAAC
124 TTTGGCACCTTTTGCTCAATGCTTTCCTCCTGTGTACCTCTTCAAGTTTCTTCTTTTCGGCCAAA
* *
20913339 ATCAGTTTTGGTACTTTCTCAGCTTCAGCTTCAG----C--GTCGACCAACTTTGGTTTTGGCAC
189 ATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTTTCGACCAACTTTGGTTTTGGCAC
* * * * * *
20913398 CTTTTGCTCAACACTTTCCTCCTTGGGTATCTCTTTAGGTTTCTTCTTTTCTGCCAA-TATCAAT
254 CTTTTGCTCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTCTTCTTTTCAGCCAACT-TCAGT
** * * * * *
20913462 TGCGGTACCTTCTCT-TCTTCAGCTTTGAGCAACTGTGGTTTTGGCACCTTTTGCTCAACACTTT
318 TTTGGTACCTTCT-TAGCTTCATCTTTGACCAACTTTGGTTTTGGCACATTTTGCTCAACACTTT
* * ** ** *
20913526 CCTCCTTGGTTATCTCTTCAAGTTTCTTCAGTTCAGCCATCATCTGTTTTGGTACC-T-T---C-
382 CCTCCTTGGGTACCTCTTCAAGTTTCTTCTTTTCAGCCAAAATCAGTTTTGGTACCTTCTCAGCT
* *
20913585 TCAGCTTCAGCCTCCTTTTCGACCAAATTTGGTTTGGGCACCTTTTGCTCAATGCTTTCCTCCTT
447 TCAGCTTCAGCCTCCTTTTCGACCAACTTTGGTTTTGGCACCTTTTGCTCAATGCTTTCCTCCTT
20913650 GGTTACCTCTTCAGGTTTCTTCTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAG-CT
512 GGTTACCTCTTCAGGTTTCTTCTTTTCAGCCAACGTCAGTTTT-GTACCTTCTCAGCTTCAGTC-
* * * * * *** *
20913714 TCAGC-ATCG-ACCAGCTTTGGTTTTGGCCCCTTTTGCTCAATGGTTTCCTCC-T--GTACCTCT
575 TC--CTTTTGAACCAGCATTGGTTTTGGCACCATTTGCTCAACACTTTTCTCCTTGGGTACCTCT
* **
20913774 TCAGGTTTCTTCTTTTC-G--GC-T-AGTTTTGGTACCTTCTCATCTTCTGCTTCAACTTCAGCC
638 TCAGGTTTCTTCTTTTCAGCAACTTCAGTTTTGGTAAATTCTCA-----TGCTTCAACTTCAGCC
* * *
20913834 TCCTTTTCAACCAACTTTTGTTTTGGCGCCTTTTGCTCAACACTTTCCTCCTTGGTTACCTCTTC
698 TCCTTTTCAACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTC
*
20913899 AGGTTTCTTCTTTTCAGCCAACGTCAGTTTTGGTACTTTCTCAGATTCAGCTTCTACCAACTTTG
763 AGGTTTCTTCTTTTCAGCCAACATCAGTTTTGGTACTTTCTCAGATTCAGCTTCTACCAACTTTG
*
20913964 GTTTTGGCACCTTTTGCTCAACGTTTTCCTCCACCTGTACCTCTTCATGTTTCTTCTTTTCAGCC
828 GTTTTGGCACCTTTTGCTCAACGTTTTCCTCCACCTGTACCTCTTCATGTTTCTTCCTTTCAGCC
*
20914029 AATTTCAGTTTTGGTACCTTTTCATCTTCAGCTGCGACTTCAGCCTCCTTTTCG
893 AATTTCAGTTTTGGTACCTTCTCATCTTCAGCTGCGACTTCAGCCTCCTTTTCG
*
20914083 ACCAACTTCTGTTTTGGCACCTTTTGCTCAACACTTTCGTCCTTGGTTACCTCTTCAGGTTTCTT
1 ACCAACTTCTGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTACCTCTTCAGGTTTCTT
* *
20914148 CTTTTCAGCCAACATCAGTTTTGGTACTTTCTCAGCTTCATCTTCTACCAACTTTGGTTTTGGCA
66 CTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCATCTTCGACCAACTTTGGTTTTGGCA
* * * * **
20914213 CCTTTTGCTCAATGTTTTCCTCCATCTGTACCTCTTCATGTTTCTTCTTTTCAGCCAATTTCAGT
131 CCTTTTGCTCAATGCTTTCCTCC-TGTGTACCTCTTCAAGTTTCTTCTTTTCGGCCAAAATCAGT
* ***
20914278 TTTGGTACCTTCTCATCTTCAGCTGTGACTTCAGCCTCCTTTTCGACCAACTTCT-GTTTTATTA
195 TTTGGTACCTTCTCAGCTTCA-----G-CTTCAGCCTCCTTTTCGACCAACTT-TGGTTTTGGCA
*
20914342 CCTTTTGCTCAACGCTTTCCTCCTTGATTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAGT
253 CCTTTTGCTCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAGT
* *
20914407 TTTGGTACCTTCTTAGCTTCATCTTCGACCAACTTTTGTTTTGGCACATTTTGCTCAACACTTTC
318 TTTGGTACCTTCTTAGCTTCATCTTTGACCAACTTTGGTTTTGGCACATTTTGCTCAACACTTTC
* *
20914472 CTCCTTGGGCACCTCTTCAAGTTTCTTCTTTTCGGCCAAAATCAGTTTTGGTACCTTCTCAGCTT
383 CTCCTTGGGTACCTCTTCAAGTTTCTTCTTTTCAGCCAAAATCAGTTTTGGTACCTTCTCAGCTT
* *
20914537 CAGCTTCAGCCTCCTTTACGACTAACTTTGGTTTTGGCACCTTTTGCTCAATGCTTTCCTCCTTG
448 CAGCTTCAGCCTCCTTTTCGACCAACTTTGGTTTTGGCACCTTTTGCTCAATGCTTTCCTCCTTG
*
20914602 GTTACATCTTCAGGTTTCTTCTTTTCAGCCAACGTCAGTTTTGTTACCTTCTCAGCTTCAGTCTC
513 GTTACCTCTTCAGGTTTCTTCTTTTCAGCCAACGTCAGTTTTG-TACCTTCTCAGCTTCAGTCTC
* * *
20914667 CTTTTGAACCATCCTTGGTTCTGGCACCATTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAG
577 CTTTTGAACCAGCATTGGTTTTGGCACCATTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAG
* * * *
20914732 GTTTCTTCTTTTCAGCAAACTTCAGTTTTGGTAAATTCTCA-GGTTCAGCTTCATCCTCCTTTTG
642 GTTTCTTCTTTTCAGC-AACTTCAGTTTTGGTAAATTCTCATGCTTCAACTTCAGCCTCCTTTTC
* * * *
20914796 GACCAGCTTTGGTTTTTGCACCTTTTGCTTAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
706 AACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
* * * *
20914861 TCTTTTTAGCCAACATCAGTTTTGGTACTTTCTCAGCTTCATCTTCTGCCAACTTTGGTTTTGGC
771 TCTTTTCAGCCAACATCAGTTTTGGTACTTTCTCAGATTCAGCTTCTACCAACTTTGGTTTTGGC
* *
20914926 ACCTTTTGCTCAATGTTTTCCTCCATCTGTACCTCTTCATGTTTCTTCCTTTCAGCCAATTTCAG
836 ACCTTTTGCTCAACGTTTTCCTCCACCTGTACCTCTTCATGTTTCTTCCTTTCAGCCAATTTCAG
*
20914991 TTTTGGTACCTTCTCATCTTCAGCTGTGACTTCAGCCTCCTTTTCG
901 TTTTGGTACCTTCTCATCTTCAGCTGCGACTTCAGCCTCCTTTTCG
*** * *
20915037 ACCAACTTCTGTTTTATTACCTTTTGCTCAACGCTTTCCTCCTTGATTACCTCTTCAGGTTTCTT
1 ACCAACTTCTGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTACCTCTTCAGGTTTCTT
* * *
20915102 CTTTTCAGCCAACTTCAGTTTTGGTACCTTCTTAGCTTCATCTTCGACCAACTTTTGTTTTGGCA
66 CTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCATCTTCGACCAACTTTGGTTTTGGCA
* ** * *
20915167 CATTTTGCTCAACACTTTCCTCCTTGGGCACCTCTTCAAGTTTCTTCTTTTCGGCCAAAATCAGT
131 CCTTTTGCTCAATGCTTTCCTCC-TGTGTACCTCTTCAAGTTTCTTCTTTTCGGCCAAAATCAGT
* *
20915232 TTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTTACGACTAACTTTGGTTTTGGCACCTTTTG
195 TTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTTTCGACCAACTTTGGTTTTGGCACCTTTTG
* * * *
20915297 CTCAATGCTTTCCTCCTTGGTTACATCTTCAGGTTTCTTCTTTTCAGCCAACGTCAGTTTTGTTA
260 CTCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAGTTTTGGTA
* * * * *
20915362 CCTTCTCAGCTTCAGTCTCCTTTTGAACCATCCTTGGTTCTGGCACCA-TTTGCTCAACACTTTT
325 CCTTCTTAGCTTCA---T-C-TTTG-ACCAACTTTGGTTTTGGCA-CATTTTGCTCAACACTTTC
* * ** *
20915426 CTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAG-CAAACTTCAGTTTTGGTAAATTCTCAGGT
383 CTCCTTGGGTACCTCTTCAAGTTTCTTCTTTTCAGCCAAA-ATCAGTTTTGGTACCTTCTCAGCT
* * * * * **
20915490 TCAGCTTCATCCTCCTTTTGGACCAGCTTTGGTTTTTGCACCTTTTGCTTAACACTTTCCTCCTT
447 TCAGCTTCAGCCTCCTTTTCGACCAACTTTGGTTTTGGCACCTTTTGCTCAATGCTTTCCTCCTT
* * *
20915555 GGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAGTTTCAGTACCTTCTCAGCTTCAGTCT
512 GGTTACCTCTTCAGGTTTCTTCTTTTCAGCCAACGTCAGTTT-TGTACCTTCTCAGCTTCAGTCT
* ** * *
20915620 CCTTTTCAACTGGCATTGGTTTTGGCACCACTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCG
576 CCTTTTGAACCAGCATTGGTTTTGGCACCATTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCA
*
20915685 GGTTTCTTCTCTTCAGCCAACTTCAGTTTTG
641 GGTTTCTTCTTTTCAG-CAACTTCAGTTTTG
20915716 ATGCCTTTGC
Statistics
Matches: 1422, Mismatches: 162, Indels: 80
0.85 0.10 0.05
Matches are distributed among these distances:
930 39 0.03
931 1 0.00
932 2 0.00
933 51 0.04
936 95 0.07
937 1 0.00
938 1 0.00
939 6 0.00
943 1 0.00
944 1 0.00
945 173 0.12
946 3 0.00
947 2 0.00
948 109 0.08
949 2 0.00
950 4 0.00
951 156 0.11
952 3 0.00
953 7 0.00
954 742 0.52
955 5 0.00
958 1 0.00
959 1 0.00
960 16 0.01
ACGTcount: A:0.15, C:0.28, G:0.14, T:0.42
Consensus pattern (946 bp):
ACCAACTTCTGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTACCTCTTCAGGTTTCTT
CTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCATCTTCGACCAACTTTGGTTTTGGCA
CCTTTTGCTCAATGCTTTCCTCCTGTGTACCTCTTCAAGTTTCTTCTTTTCGGCCAAAATCAGTT
TTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTTTCGACCAACTTTGGTTTTGGCACCTTTTGC
TCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAGTTTTGGTAC
CTTCTTAGCTTCATCTTTGACCAACTTTGGTTTTGGCACATTTTGCTCAACACTTTCCTCCTTGG
GTACCTCTTCAAGTTTCTTCTTTTCAGCCAAAATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCA
GCCTCCTTTTCGACCAACTTTGGTTTTGGCACCTTTTGCTCAATGCTTTCCTCCTTGGTTACCTC
TTCAGGTTTCTTCTTTTCAGCCAACGTCAGTTTTGTACCTTCTCAGCTTCAGTCTCCTTTTGAAC
CAGCATTGGTTTTGGCACCATTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGTTTCTTCT
TTTCAGCAACTTCAGTTTTGGTAAATTCTCATGCTTCAACTTCAGCCTCCTTTTCAACCAACTTT
GGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGC
CAACATCAGTTTTGGTACTTTCTCAGATTCAGCTTCTACCAACTTTGGTTTTGGCACCTTTTGCT
CAACGTTTTCCTCCACCTGTACCTCTTCATGTTTCTTCCTTTCAGCCAATTTCAGTTTTGGTACC
TTCTCATCTTCAGCTGCGACTTCAGCCTCCTTTTCG
Found at i:20915736 original size:240 final size:235
Alignment explanation
Indices: 20913147--20915740 Score: 2755
Period size: 240 Copynumber: 11.0 Consensus size: 235
20913137 CTTCTTCTCA
*
20913147 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTT
1 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTACCTCTTCAGGTTTCTT
* * * * * * *
20913212 CTTTGCAGCCATCATCTGTTTTGGCACCTTCTCAGGTTCAGCCTCCTTTTCGACCAACTTTGGTT
66 CTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGTCTCC---T--ACCAACTTTGGTT
* * * ** * * * * *
20913277 TGGGCATCTTTTGCTGAATGC--TT-TCCTCGGTTACCTCTTTAGGTTTCTTCTTTTCGGACAAC
126 TTGGCACCTTTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAAC
* * *
20913339 ATCAGTTTTGGTACTTTCTCAGCTTCAGCTTCAG----C--GTCG
191 TTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTTTCG
* * *
20913378 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTATCTCTTTAGGTTTCTT
1 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTACCTCTTCAGGTTTCTT
* ** * ** ** * * *
20913443 CTTTTCTGCCAATATCAATTGCGGTACCTTCTCTTCTTCAG-CT-TTGAGCAACTGTGGTTTTGG
66 CTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGTCTCCT-ACCAACTTTGGTTTTGG
* * * * ** * * *
20913506 CACCTTTTGCTCAACACTTTCCTCCTTGGTTATCTCTTCAAGTTTCTTCAGTTCAGCCATCATCT
130 CACCTTTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCA
20913571 GTTTTGGTACC-T-T---C-TCAGCTTCAGCCTCCTTTTCG
195 GTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTTTCG
* * **
20913606 ACCAAATTTGGTTTGGGCACCTTTTGCTCAATGCTTTCCTCCTTGGTTACCTCTTCAGGTTTCTT
1 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTACCTCTTCAGGTTTCTT
*
20913671 CTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAG-CTTCAGCATCGACCAGCTTTGGT
66 CTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGTC-TC--C-T--ACCAACTTTGGT
* *** * *
20913735 TTTGGCCCCTTTTGCTCAATGGTTTCCTCC-T--GTACCTCTTCAGGTTTCTTCTTTTC-G---G
125 TTTGGCACCTTTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAA
* *
20913793 C-T-AGTTTTGGTACCTTCTCATCTTCTGCTTCAACTTCAGCCTCCTTTTCA
190 CTTCAGTTTTGGTACCTTCTCA------GCTTCAGCTTCAGCCTCCTTTTCG
* *
20913843 ACCAACTTTTGTTTTGGCGCCTTTTGCTCAACACTTTCCTCCTTGGTTACCTCTTCAGGTTTCTT
1 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTACCTCTTCAGGTTTCTT
* * *
20913908 CTTTTCAGCCAACGTCAGTTTTGGTACTTTCTCAGATTCAG-CTTCTACCAACTTTGGTTTTGGC
66 CTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGTCTCCTACCAACTTTGGTTTTGGC
* **** * *
20913972 ACCTTTTGCTCAAC-GTTTTCCTCCACCTGTACCTCTTCATGTTTCTTCTTTTCAGCCAATTTCA
131 ACCTTTTGCTCAACACTTTT-CTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCA
* *
20914036 GTTTTGGTACCTTTTCATCTTCAGCTGCGACTTCAGCCTCCTTTTCG
195 GTTTTGGTACCTTCTCAGCTTCA-----G-CTTCAGCCTCCTTTTCG
*
20914083 ACCAACTTCT-GTTTTGGCACCTTTTGCTCAACACTTTCGTCCTTGGTTACCTCTTCAGGTTTCT
1 ACCAACTT-TGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTACCTCTTCAGGTTTCT
* * *
20914147 TCTTTTCAGCCAACATCAGTTTTGGTACTTTCTCAGCTTCA-TCTTCTACCAACTTTGGTTTTGG
65 TCTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGTCTCCTACCAACTTTGGTTTTGG
** * ** * *
20914211 CACCTTTTGCTCAA-TGTTTTCCTCCATCTGTACCTCTTCATGTTTCTTCTTTTCAGCCAATTTC
130 CACCTTTTGCTCAACACTTTT-CTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTC
*
20914275 AGTTTTGGTACCTTCTCATCTTCAGCTGTGACTTCAGCCTCCTTTTCG
194 AGTTTTGGTACCTTCTCAGCTTCA-----G-CTTCAGCCTCCTTTTCG
*** * *
20914323 ACCAACTTCT-GTTTTATTACCTTTTGCTCAACGCTTTCCTCCTTGATTACCTCTTCAGGTTTCT
1 ACCAACTT-TGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTACCTCTTCAGGTTTCT
* * * * *
20914387 TCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTTAGCTTCA-TCTTCGACCAACTTTTGTTTTGG
65 TCTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGTCTCCTACCAACTTTGGTTTTGG
* * * * * **
20914451 CACATTTTGCTCAACACTTTCCTCCTTGGGCACCTCTTCAAGTTTCTTCTTTTCGGCCAAAATCA
130 CACCTTTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCA
*
20914516 GTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTTACG
195 GTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTTTCG
* ** *
20914557 ACTAACTTTGGTTTTGGCACCTTTTGCTCAATGCTTTCCTCCTTGGTTACATCTTCAGGTTTCTT
1 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTACCTCTTCAGGTTTCTT
* * *
20914622 CTTTTCAGCCAACGTCAGTTTTGTTACCTTCTCAGCTTCAGTCTCCTTTTGAACCATCCTTGGTT
66 CTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGTCTCC---T--ACCAACTTTGGTT
* * *
20914687 CTGGCACCATTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCAAAC
126 TTGGCACCTTTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAAC
** * * *
20914752 TTCAGTTTTGGTAAATTCTCAGGTTCAGCTTCATCCTCCTTTTGG
191 TTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTTTCG
* * * *
20914797 ACCAGCTTTGGTTTTTGCACCTTTTGCTTAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTT
1 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTACCTCTTCAGGTTTCTT
* * * * *
20914862 CTTTTTAGCCAACATCAGTTTTGGTACTTTCTCAGCTTCA-TCTTCTGCCAACTTTGGTTTTGGC
66 CTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGTCTCCTACCAACTTTGGTTTTGGC
** * ** * * *
20914926 ACCTTTTGCTCAA-TGTTTTCCTCCATCTGTACCTCTTCATGTTTCTTCCTTTCAGCCAATTTCA
131 ACCTTTTGCTCAACACTTTT-CTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCA
*
20914990 GTTTTGGTACCTTCTCATCTTCAGCTGTGACTTCAGCCTCCTTTTCG
195 GTTTTGGTACCTTCTCAGCTTCA-----G-CTTCAGCCTCCTTTTCG
*** * *
20915037 ACCAACTTCT-GTTTTATTACCTTTTGCTCAACGCTTTCCTCCTTGATTACCTCTTCAGGTTTCT
1 ACCAACTT-TGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTACCTCTTCAGGTTTCT
* * * * *
20915101 TCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTTAGCTTCA-TCTTCGACCAACTTTTGTTTTGG
65 TCTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGTCTCCTACCAACTTTGGTTTTGG
* * * * * **
20915165 CACATTTTGCTCAACACTTTCCTCCTTGGGCACCTCTTCAAGTTTCTTCTTTTCGGCCAAAATCA
130 CACCTTTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCA
*
20915230 GTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTTACG
195 GTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTTTCG
* ** *
20915271 ACTAACTTTGGTTTTGGCACCTTTTGCTCAATGCTTTCCTCCTTGGTTACATCTTCAGGTTTCTT
1 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTACCTCTTCAGGTTTCTT
* * *
20915336 CTTTTCAGCCAACGTCAGTTTTGTTACCTTCTCAGCTTCAGTCTCCTTTTGAACCATCCTTGGTT
66 CTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGTCTCC---T--ACCAACTTTGGTT
* * *
20915401 CTGGCACCATTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCAAAC
126 TTGGCACCTTTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAAC
** * * *
20915466 TTCAGTTTTGGTAAATTCTCAGGTTCAGCTTCATCCTCCTTTTGG
191 TTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTTTCG
* * * *
20915511 ACCAGCTTTGGTTTTTGCACCTTTTGCTTAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTT
1 ACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTACCTCTTCAGGTTTCTT
* ** **
20915576 CTTTTCAGCCAACTTCAGTTTCAGTACCTTCTCAGCTTCAGTCTCCTTTTCAACTGGCATTGGTT
66 CTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGTCTCC-TACCAACT----TTGGTT
** * *
20915641 TTGGCACCACTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCGGGTTTCTTCTCTTCAGCCAAC
126 TTGGCACCTTTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAAC
* *
20915706 TTCAGTTTTGATGCCTT-TGCAGCTTCAGCTTCAGC
191 TTCAGTTTTGGTACCTTCT-CAGCTTCAGCTTCAGC
20915741 TGCAGTTTCG
Statistics
Matches: 2016, Mismatches: 272, Indels: 141
0.83 0.11 0.06
Matches are distributed among these distances:
222 10 0.00
223 1 0.00
225 39 0.02
226 5 0.00
227 4 0.00
228 138 0.07
229 1 0.00
230 7 0.00
231 145 0.07
233 9 0.00
234 366 0.18
235 11 0.01
236 6 0.00
237 118 0.06
238 2 0.00
239 7 0.00
240 1139 0.56
241 8 0.00
ACGTcount: A:0.15, C:0.29, G:0.14, T:0.42
Consensus pattern (235 bp):
ACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGTTACCTCTTCAGGTTTCTT
CTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGTCTCCTACCAACTTTGGTTTTGGC
ACCTTTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAG
TTTTGGTACCTTCTCAGCTTCAGCTTCAGCCTCCTTTTCG
Found at i:20917200 original size:30 final size:30
Alignment explanation
Indices: 20917166--20917240 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
20917156 CTCTTATGTG
*
20917166 ATTAAATTTTACTACAAAGCTTTGAATTTT-
1 ATTAAATTTTACCACAAA-CTTTGAATTTTA
* * * *
20917196 ATTAAATTCTGCCACCAACTTTGATTTTTA
1 ATTAAATTTTACCACAAACTTTGAATTTTA
20917226 ATTAAATTTTACCAC
1 ATTAAATTTTACCAC
20917241 TCAATATTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
29 10 0.27
30 27 0.73
ACGTcount: A:0.35, C:0.16, G:0.05, T:0.44
Consensus pattern (30 bp):
ATTAAATTTTACCACAAACTTTGAATTTTA
Found at i:20929682 original size:44 final size:44
Alignment explanation
Indices: 20929623--20929710 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
20929613 TATTTTCAGG
* *
20929623 TAACAATTTATTTAAGCATATTAAATTACAGTCCAAAATATTGA
1 TAACAATATAATTAAGCATATTAAATTACAGTCCAAAATATTGA
*
20929667 TAACAATATAATTAAGCATATTAAATTATAGTCCAAAATATTGA
1 TAACAATATAATTAAGCATATTAAATTACAGTCCAAAATATTGA
20929711 ATCATCCTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.35
Consensus pattern (44 bp):
TAACAATATAATTAAGCATATTAAATTACAGTCCAAAATATTGA
Found at i:20930202 original size:24 final size:22
Alignment explanation
Indices: 20930165--20930245 Score: 60
Period size: 22 Copynumber: 3.5 Consensus size: 22
20930155 TTAATATATA
20930165 TTTAA-ATTTCATTTTATAACATTT
1 TTTAATATTT-ATTTTAT-A-ATTT
*
20930189 TTTAATATTTATTTTTTTAA-TT
1 TTTAATATTTA-TTTTATAATTT
* *
20930211 TTTAATTTTTATAATTATATATTT
1 TTTAATATTTAT-TTTATA-ATTT
20930235 TTTAAT-TTTAT
1 TTTAATATTTAT
20930246 AAAAAATCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
21 1 0.02
22 16 0.33
23 7 0.15
24 15 0.31
25 9 0.19
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTAATATTTATTTTATAATTT
Found at i:20930239 original size:31 final size:30
Alignment explanation
Indices: 20930185--20930243 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
20930175 ATTTTATAAC
*
20930185 ATTTTTTAATATTTATTTTTTTAATTTTTA
1 ATTTTTTAATATATATTTTTTTAATTTTTA
20930215 ATTTTTATAAT-TATATATTTTTTAATTTT
1 ATTTTT-TAATATATAT-TTTTTTAATTTT
20930244 ATAAAAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (30 bp):
ATTTTTTAATATATATTTTTTTAATTTTTA
Found at i:20930246 original size:15 final size:15
Alignment explanation
Indices: 20930185--20930246 Score: 74
Period size: 15 Copynumber: 4.1 Consensus size: 15
20930175 ATTTTATAAC
20930185 ATTTTTTAATATTTAT
1 ATTTTTTAAT-TTTAT
20930201 -TTTTTTAATTTT-T
1 ATTTTTTAATTTTAT
*
20930214 AATTTTTATAATTATAT
1 -ATTTTT-TAATTTTAT
20930231 ATTTTTTAATTTTAT
1 ATTTTTTAATTTTAT
20930246 A
1 A
20930247 AAAAATCATT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 1 0.03
14 3 0.08
15 23 0.57
16 12 0.30
17 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAATTTTAT
Found at i:20930257 original size:23 final size:24
Alignment explanation
Indices: 20930209--20930259 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
20930199 ATTTTTTTAA
* *
20930209 TTTTTAATTTTTATAATTATATAT
1 TTTTTAATTTTTATAATAAAATAT
20930233 TTTTTAA-TTTTATAA-AAAATCAT
1 TTTTTAATTTTTATAATAAAAT-AT
20930256 TTTT
1 TTTT
20930260 AAACTTGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 3 0.12
23 14 0.58
24 7 0.29
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTTTAATTTTTATAATAAAATAT
Found at i:20930958 original size:16 final size:16
Alignment explanation
Indices: 20930923--20930960 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
20930913 TTTGGTTCAC
* *
20930923 TGTAATGGAATAGGGC
1 TGTAATGGAATAGAGA
20930939 TGTAATGGAATAGAGA
1 TGTAATGGAATAGAGA
20930955 TGTAAT
1 TGTAAT
20930961 CAATAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.37, C:0.03, G:0.32, T:0.29
Consensus pattern (16 bp):
TGTAATGGAATAGAGA
Found at i:20934157 original size:20 final size:21
Alignment explanation
Indices: 20934129--20934169 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
20934119 AACCATTATA
20934129 ATATATTTTATATAA-TATTT
1 ATATATTTTATATAATTATTT
*
20934149 ATATTTTTTATATAATTATTT
1 ATATATTTTATATAATTATTT
20934170 TCCTATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
ATATATTTTATATAATTATTT
Found at i:20935423 original size:11 final size:11
Alignment explanation
Indices: 20935407--20935435 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
20935397 TTCAAAAATT
20935407 CTCTTAAGTTC
1 CTCTTAAGTTC
20935418 CTCTTAAGTTC
1 CTCTTAAGTTC
20935429 CTCTTAA
1 CTCTTAA
20935436 CTCTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.21, C:0.28, G:0.07, T:0.45
Consensus pattern (11 bp):
CTCTTAAGTTC
Found at i:20935481 original size:12 final size:12
Alignment explanation
Indices: 20935442--20935485 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
20935432 TTAACTCTTT
*
20935442 TTTTTTTAAATA
1 TTTTTTAAAATA
* *
20935454 ATTTTAAAAATA
1 TTTTTTAAAATA
20935466 TTTTTTAAAAT-
1 TTTTTTAAAATA
20935477 TTTTTTAAA
1 TTTTTTAAA
20935486 CCGTAAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTTTTAAAATA
Found at i:20936414 original size:21 final size:21
Alignment explanation
Indices: 20936390--20936438 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
20936380 AGATGCCGTA
* *
20936390 CCGGAAGAACCAGAATCC-CCG
1 CCGGAAGAACAACAA-CCGCCG
*
20936411 CCGGAGGAACAACAACCGCCG
1 CCGGAAGAACAACAACCGCCG
20936432 CCGGAAG
1 CCGGAAG
20936439 CTAGAGAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.33, C:0.37, G:0.29, T:0.02
Consensus pattern (21 bp):
CCGGAAGAACAACAACCGCCG
Found at i:20936888 original size:138 final size:137
Alignment explanation
Indices: 20936653--20936955 Score: 387
Period size: 138 Copynumber: 2.2 Consensus size: 137
20936643 TTAATACCCT
* * *
20936653 TAAATTAAAAACCCTAACCTACTTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACCC
1 TAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAAATTAAAAACCCTAACAC
* *
20936718 CCTTAACTTAAAAAACCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCATA
66 CCTAAACTTAAAAAACCTAACCCAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCATA
**
20936783 ACCTCCC
131 ACCTAAC
* *
20936790 TAAACTTAAAAACCCTAACCTAATTTAATTAAAAATCCT-AA-TCTAATTTAATTAAAAACCCTA
1 TAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA---AATTAAAAACCCTA
* ** *
20936853 A-ACCCTAAACTTAAAAACCCTAACCCCCTTGACTTAAAAACCCTAACCTAATTAAATTAAAAAC
62 ACACCCTAAACTTAAAAAACCTAACCCAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAAC
* *
20936917 CCTAACCTAAT
127 CATAACCTAAC
* * *
20936928 TTAATTAAAAACCCTAAACTAAATTAAT
1 TAAATTAAAAACCCTAACCTAATTTAAT
20936956 AATTTTACTT
Statistics
Matches: 144, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
136 4 0.03
137 28 0.19
138 98 0.68
139 14 0.10
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (137 bp):
TAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAAATTAAAAACCCTAACAC
CCTAAACTTAAAAAACCTAACCCAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCATA
ACCTAAC
Found at i:20936949 original size:23 final size:23
Alignment explanation
Indices: 20936655--20936955 Score: 276
Period size: 23 Copynumber: 13.1 Consensus size: 23
20936645 AATACCCTTA
*
20936655 AATTAAAAACCCTAACCTACTTT
1 AATTAAAAACCCTAACCTAATTT
20936678 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* ***
20936700 ACTTAAAAACCCTAACC-CCCTT
1 AATTAAAAACCCTAACCTAATTT
*
20936722 AACTTAAAAAACCTAACCTAA-TT
1 AA-TTAAAAACCCTAACCTAATTT
*
20936745 AACTTAAAAACCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
* *** *
20936769 AATTAAAAACCATAACCTCCCTA
1 AATTAAAAACCCTAACCTAATTT
20936792 AACTTAAAAACCCTAACCTAATTT
1 AA-TTAAAAACCCTAACCTAATTT
* *
20936816 AATTAAAAATCCTAATCTAATTT
1 AATTAAAAACCCTAACCTAATTT
20936839 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* *** *
20936861 ACTTAAAAACCCTAACCCCCTTG
1 AATTAAAAACCCTAACCTAATTT
* *
20936884 ACTTAAAAACCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
20936907 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
* *
20936930 AATTAAAAACCCTAAACTAAATT
1 AATTAAAAACCCTAACCTAATTT
20936953 AAT
1 AAT
20936956 AATTTTACTT
Statistics
Matches: 229, Mismatches: 35, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
20 4 0.02
21 4 0.02
22 25 0.11
23 163 0.71
24 25 0.11
25 8 0.03
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (23 bp):
AATTAAAAACCCTAACCTAATTT
Found at i:20937154 original size:115 final size:117
Alignment explanation
Indices: 20936949--20937193 Score: 413
Period size: 115 Copynumber: 2.1 Consensus size: 117
20936939 CCCTAAACTA
* * **
20936949 AATTAATAATTTTACTTTCACATAATGTTAGATTTAGAAAATTATTTTTTTCCTGGTACTAACAA
1 AATTAATAATTTTACATTCACATAATGTTAGATTTAGAAAA-TATGTTTTGACTGGTACTAACAA
*
20937014 TTAATAATTTTATATAATTTGATAA-TTTTACTAATCATTAATACAATTTATC
65 TTAATAATTTTATATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
*
20937066 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAA-ATGTTTTGACTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTAGAAAATATGTTTTGACTGGTACTAACAAT
20937130 TAATAATTTTATATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
66 TAATAATTTTATATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
20937182 AATTAATAATTT
1 AATTAATAATTT
20937194 CACAAACTTA
Statistics
Matches: 121, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
115 44 0.36
116 38 0.31
117 39 0.32
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (117 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTAGAAAATATGTTTTGACTGGTACTAACAAT
TAATAATTTTATATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
Found at i:20940508 original size:124 final size:125
Alignment explanation
Indices: 20940211--20940584 Score: 606
Period size: 124 Copynumber: 3.0 Consensus size: 125
20940201 CAAACATGCT
*
20940211 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACATATTCTTCTCAAATAGCATCCTGCTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTA
*
20940276 GAAGCGTTTTTATACTATTTGCTCAGAAACGTACAAAAAAAAATTATTTCTTCCATGACCG
66 GAAGCGATTTTATACTATTTGCTCAGAAACGT-CAAAAAAAAATTATTTCTTCCATGACCG
* * *
20940337 ACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCTTGCTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTA
*
20940402 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAA-TATTTCTTCCATGACCT
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGACCG
* *
20940461 ATTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTA
* **** *
20940526 GAAGCGATTTTATACTATTTGATCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACC
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGACC
20940585 TAAAAACCCT
Statistics
Matches: 230, Mismatches: 17, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
124 113 0.49
125 25 0.11
126 92 0.40
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (125 bp):
ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTA
GAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGACCG
Found at i:20941693 original size:19 final size:19
Alignment explanation
Indices: 20941665--20941704 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
20941655 AACTTAGTTG
*
20941665 GTTATTGTTTATTTATTAA
1 GTTATGGTTTATTTATTAA
20941684 GTTATGGTTTATTTATTAA
1 GTTATGGTTTATTTATTAA
20941703 GT
1 GT
20941705 AAAATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (19 bp):
GTTATGGTTTATTTATTAA
Found at i:20941780 original size:11 final size:11
Alignment explanation
Indices: 20941764--20941813 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
20941754 TTTATTTAAA
20941764 ATTATAATAAT
1 ATTATAATAAT
*
20941775 ATTATAACAA-
1 ATTATAATAAT
*
20941785 ATTATTATAAT
1 ATTATAATAAT
20941796 ACTTAT-ATAAT
1 A-TTATAATAAT
20941807 ACTTATA
1 A-TTATA
20941814 CTTTTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
10 8 0.24
11 21 0.64
12 4 0.12
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (11 bp):
ATTATAATAAT
Found at i:20941786 original size:21 final size:22
Alignment explanation
Indices: 20941762--20941802 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
20941752 ATTTTATTTA
20941762 AAATTATAATAATA-TTATAAC
1 AAATTATAATAATACTTATAAC
*
20941783 AAATTATTATAATACTTATA
1 AAATTATAATAATACTTATA
20941803 TAATACTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
AAATTATAATAATACTTATAAC
Found at i:20947000 original size:5 final size:5
Alignment explanation
Indices: 20946990--20947027 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
20946980 ATATCCTTTC
*
20946990 AATAT AATAT AATAT AATAT AATAT AATAT TATAT AAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AAT
20947028 TGAATTCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
AATAT
Found at i:20947745 original size:25 final size:26
Alignment explanation
Indices: 20947692--20947746 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
20947682 AGTGTTTTTT
20947692 ATTTT-CTTCTGTCTATTCTCTACTC
1 ATTTTACTTCTGTCTATTCTCTACTC
* * *
20947717 -TTTTACTTCTTTCTATTGT-TAGTC
1 ATTTTACTTCTGTCTATTCTCTACTC
20947741 ATTTTA
1 ATTTTA
20947747 AAGAATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.15, C:0.20, G:0.05, T:0.60
Consensus pattern (26 bp):
ATTTTACTTCTGTCTATTCTCTACTC
Found at i:20964192 original size:21 final size:21
Alignment explanation
Indices: 20964163--20964280 Score: 96
Period size: 21 Copynumber: 5.7 Consensus size: 21
20964153 GTTTAACTTA
*
20964163 TATGAGTTTCTGTTCAACCCT
1 TATGGGTTTCTGTTCAACCCT
* * * *
20964184 GATGGGTTTCCGTTCAGCTCCA
1 TATGGGTTTCTGTTCAAC-CCT
* * * *
20964206 T-TGAGCTTC-GTTTAACCTT
1 TATGGGTTTCTGTTCAACCCT
* *
20964225 TATGGGTTTCTGTTCAGCTCT
1 TATGGGTTTCTGTTCAACCCT
* *
20964246 TATGAGCTTCTGTTCAACCCT
1 TATGGGTTTCTGTTCAACCCT
20964267 TATGGGTTTCTGTT
1 TATGGGTTTCTGTT
20964281 TAGCACTTAT
Statistics
Matches: 70, Mismatches: 24, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
19 2 0.03
20 11 0.16
21 55 0.79
22 2 0.03
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.43
Consensus pattern (21 bp):
TATGGGTTTCTGTTCAACCCT
Found at i:20964289 original size:21 final size:21
Alignment explanation
Indices: 20964224--20964305 Score: 83
Period size: 21 Copynumber: 3.9 Consensus size: 21
20964214 CGTTTAACCT
*
20964224 TTATGGGTTTCTGTTCAGCTC
1 TTATGGGTTTCTGTTCAGCAC
* * * *
20964245 TTATGAGCTTCTGTTCAACCC
1 TTATGGGTTTCTGTTCAGCAC
*
20964266 TTATGGGTTTCTGTTTAGCAC
1 TTATGGGTTTCTGTTCAGCAC
***
20964287 TTATGTACTTCTGTTCAGC
1 TTATGGGTTTCTGTTCAGC
20964306 CTTCGGGCTT
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.45
Consensus pattern (21 bp):
TTATGGGTTTCTGTTCAGCAC
Found at i:20964290 original size:42 final size:42
Alignment explanation
Indices: 20964163--20964303 Score: 171
Period size: 42 Copynumber: 3.4 Consensus size: 42
20964153 GTTTAACTTA
* * *
20964163 TATGAGTTTCTGTTCAACCCTGATGGGTTTCCGTTCAGCTC-
1 TATGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCT
* * *
20964204 CATTGAGCTTC-GTTTAACCTTTATGGGTTTCTGTTCAGCTCT
1 TA-TGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCT
* *
20964246 TATGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTTAGCACT
1 TATGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCT
20964288 TATGTA-CTTCTGTTCA
1 TATG-AGCTTCTGTTCA
20964304 GCCTTCGGGC
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
41 35 0.41
42 49 0.58
43 1 0.01
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (42 bp):
TATGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCT
Found at i:20985635 original size:201 final size:201
Alignment explanation
Indices: 20984968--20985958 Score: 1377
Period size: 201 Copynumber: 5.0 Consensus size: 201
20984958 GCGGTGATCT
* * * * * **
20984968 TAACTGCTCCATTCTACTAATATCTTCCCTAATTGG-CAACTCGGCAGCTGGAGCAGTGAGAATT
1 TAACTGCTCCGTTCTACCAATATCTT-CCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACC
** * * * ** * *
20985032 ACAGTCTTGCGTCTATTCTTCCTCAAGGGGGATTGGTGTTGTGAAGTA-ATGGCAGACTTGGCCC
65 ACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCT-GCATACTTGGCCC
* ** * * * ** *
20985096 TCTCAACCTCACTCCTATCTTGTACAATTGCATCCACTTCTTCAGTTGTGCCTTTTCCTTGAAGC
129 TCTCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTCCCTACAACC
20985161 GGTGCCT-
194 GGTGCCTC
* * * * *
20985168 TCAACTGCTCCGTACTACCAATATCTTCCTTATTTGCTAAATCTGCAGCTGGAGCAGTAAGAATC
1 T-AACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACC
*
20985233 ACAGTCTTGCGTCTGTTCCTCCTCGAGGGGGCTTC---TTGT----T-G-TGC---CTTGGCCCT
65 ACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGCCCT
* * * * *
20985286 CTCAACCTCACTACTATCTTCCACAATCGCATCCAGTTCTTCAGTCGTGCCTTTTCCTACAAGCG
130 CTCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTCCCTACAACCG
20985351 GTGCCTC
195 GTGCCTC
20985358 TAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACCA
1 TAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACCA
* * *
20985423 CAGTTTTGCGTCTGCCCCTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGTCCTC
66 CAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGCCCTC
*
20985488 TCGACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTCCCTACAACCGG
131 TCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTCCCTACAACCGG
20985553 TGCCTC
196 TGCCTC
*
20985559 TAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTTAGAACCA
1 TAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACCA
*
20985624 CAGTTTTGCGTCTGC-CCTTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGCCCT
66 CAGTCTTGCGTCTGCTCC-TCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGCCCT
* *
20985688 CTCGACCTCACTACTATCTTCAACAATTGCATCCAGTTCTTCAGTCGTGCCTTTCCCTACAACCG
130 CTCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTCCCTACAACCG
20985753 GTGCCTC
195 GTGCCTC
*
20985760 TAACTGCTCCGTTCTACCAATATCTACCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACCA
1 TAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACCA
20985825 CAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGCCCTC
66 CAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGCCCTC
* * *
20985890 TCAACCTCACTACTGTCTTCAACAATTGCATCCAATTCTTCAGTCGAGCCCTTT-CCTCCAACCG
131 TCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTG-CCTTTCCCTACAACCG
*
20985954 ATGCC
195 GTGCC
20985959 AAATCGGAAG
Statistics
Matches: 722, Mismatches: 50, Indels: 37
0.89 0.06 0.05
Matches are distributed among these distances:
189 162 0.22
190 1 0.00
192 6 0.01
193 1 0.00
194 1 0.00
196 1 0.00
197 1 0.00
198 7 0.01
200 10 0.01
201 525 0.73
202 7 0.01
ACGTcount: A:0.20, C:0.30, G:0.19, T:0.31
Consensus pattern (201 bp):
TAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACCA
CAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGCCCTC
TCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTCCCTACAACCGG
TGCCTC
Found at i:20986006 original size:162 final size:162
Alignment explanation
Indices: 20985794--20986089 Score: 486
Period size: 162 Copynumber: 1.8 Consensus size: 162
20985784 TACCTTATTG
* *
20985794 GCCAAATCGGCAGCTGGAGCAGTAAGAACCACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTC
1 GCCAAATCGGAAGCTAGAGCAGTAAGAACCACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTC
* * * *
20985859 TTGTTGTGAAGTAGCTG-CATACTTGGCCCTCTCAACCTCACTACTGTCTTCAACAATTGCATCC
66 TTGTTGTGAAGTAAC-GACACACTTGACCCTCTCAACCTCACTACTCTCTTCAACAATTGCATCC
20985923 AATTCTTCAGTCGAGCCCTTTCCTCCAACCGAT
130 AATTCTTCAGTCGAGCCCTTTCCTCCAACCGAT
* *
20985956 GCCAAATCGGAAGCTAGAGCGGTAAGAGCCACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTC
1 GCCAAATCGGAAGCTAGAGCAGTAAGAACCACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTC
* *
20986021 TTGTTGTGAAGTAACGACACACTTGACCTTCTCAACCTCACTACTCTCTTCAACAATTGCCTCCA
66 TTGTTGTGAAGTAACGACACACTTGACCCTCTCAACCTCACTACTCTCTTCAACAATTGCATCCA
20986086 ATTC
131 ATTC
20986090 AGCACTCCTG
Statistics
Matches: 123, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
161 1 0.01
162 122 0.99
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (162 bp):
GCCAAATCGGAAGCTAGAGCAGTAAGAACCACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTC
TTGTTGTGAAGTAACGACACACTTGACCCTCTCAACCTCACTACTCTCTTCAACAATTGCATCCA
ATTCTTCAGTCGAGCCCTTTCCTCCAACCGAT
Found at i:20988806 original size:27 final size:28
Alignment explanation
Indices: 20988766--20988822 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
20988756 AATATTATAT
*
20988766 TTAATATTTGAATAATT-TAGTTAAAAAA
1 TTAATATTTAAAT-ATTATAGTTAAAAAA
*
20988794 TTAA-ATTTAAATATTATATTTAAAAAA
1 TTAATATTTAAATATTATAGTTAAAAAA
20988821 TT
1 TT
20988823 TTAACCTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 3 0.12
27 19 0.73
28 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (28 bp):
TTAATATTTAAATATTATAGTTAAAAAA
Found at i:20991834 original size:12 final size:12
Alignment explanation
Indices: 20991817--20991841 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20991807 TGTAGATTTC
20991817 TAAAAATGGAAA
1 TAAAAATGGAAA
20991829 TAAAAATGGAAA
1 TAAAAATGGAAA
20991841 T
1 T
20991842 GATCCATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (12 bp):
TAAAAATGGAAA
Found at i:20992017 original size:26 final size:26
Alignment explanation
Indices: 20991988--20992044 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
20991978 ACATATTTTC
20991988 TCAAAAATTTACCA-GAGGCAAAATCG
1 TCAAAAATTTACCATG-GGCAAAATCG
* *
20992014 TCAAAATTTTACCATGGGTAAAATCG
1 TCAAAAATTTACCATGGGCAAAATCG
20992040 TCAAA
1 TCAAA
20992045 TTTTTGGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 27 0.96
27 1 0.04
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.25
Consensus pattern (26 bp):
TCAAAAATTTACCATGGGCAAAATCG
Found at i:20994704 original size:11 final size:11
Alignment explanation
Indices: 20994688--20994712 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
20994678 TAAGCCTTGC
20994688 TTCTTTTTTTT
1 TTCTTTTTTTT
20994699 TTCTTTTTTTT
1 TTCTTTTTTTT
20994710 TTC
1 TTC
20994713 ATATTTTAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:21000648 original size:64 final size:64
Alignment explanation
Indices: 21000574--21000718 Score: 186
Period size: 64 Copynumber: 2.2 Consensus size: 64
21000564 AGATGATAAA
* *
21000574 TTTTTAGAATTAAAACTAAATTGAA-AATTTTTGTAAATATTGAGGGCTAAATTTATTATTA-TT
1 TTTTTAGAATTAAAACTAAA--GAATAAATTTTGTAAAGATTGAGGGCTAAATTTATTATTATTT
21000637 T
64 T
* * *
21000638 TTTTTAGAATTTAAATTAAAGAATTAAATTTTGTAAAGATTGAGGGCTACATTTATTATTATTTT
1 TTTTTAGAATTAAAACTAAAGAA-TAAATTTTGTAAAGATTGAGGGCTAAATTTATTATTATTTT
21000703 TATATTTAGAATTAAA
1 T-T-TTTAGAATTAAA
21000719 TTAATAGAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
62 3 0.04
64 51 0.73
65 4 0.06
66 1 0.01
67 11 0.16
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.47
Consensus pattern (64 bp):
TTTTTAGAATTAAAACTAAAGAATAAATTTTGTAAAGATTGAGGGCTAAATTTATTATTATTTT
Found at i:21000734 original size:61 final size:61
Alignment explanation
Indices: 21000604--21000760 Score: 169
Period size: 64 Copynumber: 2.5 Consensus size: 61
21000594 TTGAAAATTT
21000604 TTGTAAATATTGAGGGCTAAATTTATTATTATTTTTTTTAGAATTTAAATTAAAGAATTAAA
1 TTGTAAATATTGAGGGCTAAATTTATTATTATTTTTTTTAGAATTTAAATTAAAGAATT-AA
* *
21000666 TTTTGTAAAGATTGAGGGCTACATTTATTATTATTTTTATATTTAGAA-TTAAATTAATAGAA-T
1 --TTGTAAATATTGAGGGCTAAATTTATTATTA-TTTT-T-TTTAGAATTTAAATTAA-AGAATT
21000729 -A
60 AA
* * *
21000730 -TGTAAATATTAGAGGGTTAAACTTGTTATTA
1 TTGTAAATATT-GAGGGCTAAATTTATTATTA
21000761 AATTTCCATC
Statistics
Matches: 81, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
61 9 0.11
62 16 0.20
64 30 0.37
65 4 0.05
66 11 0.14
67 11 0.14
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.46
Consensus pattern (61 bp):
TTGTAAATATTGAGGGCTAAATTTATTATTATTTTTTTTAGAATTTAAATTAAAGAATTAA
Found at i:21006954 original size:40 final size:41
Alignment explanation
Indices: 21006884--21006975 Score: 114
Period size: 40 Copynumber: 2.2 Consensus size: 41
21006874 TTAAAATTAT
* * *
21006884 TTATATTAAAAAAACACTACCATAAATATAAAAAATATTTTA
1 TTATATT-AAAAAACACCACAATAAATATAAAAAATATCTTA
* *
21006926 TTATATTAAAAAACACCA-AATAACTATAATAAATATCTTA
1 TTATATTAAAAAACACCACAATAAATATAAAAAATATCTTA
*
21006966 TTGTATTAAA
1 TTATATTAAA
21006976 TATAATTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
40 27 0.61
41 10 0.23
42 7 0.16
ACGTcount: A:0.54, C:0.10, G:0.01, T:0.35
Consensus pattern (41 bp):
TTATATTAAAAAACACCACAATAAATATAAAAAATATCTTA
Found at i:21012236 original size:22 final size:23
Alignment explanation
Indices: 21012193--21012236 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
21012183 TTATAATTCA
*
21012193 ATATGTATATGAATTGTATGATG
1 ATATGTATATGAATAGTATGATG
21012216 ATATG-ATATGAAATAGT-TGAT
1 ATATGTATATG-AATAGTATGAT
21012237 ATTAATTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (23 bp):
ATATGTATATGAATAGTATGATG
Found at i:21012544 original size:37 final size:37
Alignment explanation
Indices: 21012449--21012602 Score: 139
Period size: 37 Copynumber: 4.2 Consensus size: 37
21012439 CCTGTTTTGA
* * * *
21012449 CGTGTTATCGAGTGAATTAGCTCTTATGAGCATTTGG
1 CGTGTTATCGGGTGGATTAGCTCTTACGAGCAATTGG
* * * ** *
21012486 CATGTTTTTGATTGGACTAGCTCTT-CAGAGCAATTGG
1 CGTGTTATCGGGTGGATTAGCTCTTAC-GAGCAATTGG
* * *
21012523 CGTGTTATCGGGTTGATTAGCTCTTACGAGAAATTGA
1 CGTGTTATCGGGTGGATTAGCTCTTACGAGCAATTGG
* * * *
21012560 CGTGTTATCTGGTGGTTTAGCTCTTATGAGCGATTGG
1 CGTGTTATCGGGTGGATTAGCTCTTACGAGCAATTGG
21012597 CGTGTT
1 CGTGTT
21012603 TCAGTTAGAT
Statistics
Matches: 91, Mismatches: 24, Indels: 4
0.76 0.20 0.03
Matches are distributed among these distances:
37 90 0.99
38 1 0.01
ACGTcount: A:0.19, C:0.14, G:0.28, T:0.38
Consensus pattern (37 bp):
CGTGTTATCGGGTGGATTAGCTCTTACGAGCAATTGG
Found at i:21027639 original size:2 final size:2
Alignment explanation
Indices: 21027632--21027669 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
21027622 CATTTTATGC
21027632 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21027670 TACAAACCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21028737 original size:42 final size:43
Alignment explanation
Indices: 21028636--21028748 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 43
21028626 AGCTCGTATA
* **
21028636 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATAAAATCAAATATCG
* *
21028679 ATGCCATTGTCCCAGACAGGGTCTTACATAAAATCATATAT-G
1 ATGCCAATGTCCCAGACAGGGTCTTACATAAAATCAAATATCG
* *
21028721 ATGCCAATATCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACAGGGTCTTACA
21028749 CGTAAATCTT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 26 0.43
43 34 0.56
44 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATAAAATCAAATATCG
Found at i:21032753 original size:15 final size:17
Alignment explanation
Indices: 21032721--21032755 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
21032711 TACGGGTGGC
21032721 CACATGGGCGTGTGCCA
1 CACATGGGCGTGTGCCA
21032738 CACATGGGCG-GT-CCA
1 CACATGGGCGTGTGCCA
21032753 CAC
1 CAC
21032756 TGCCGTGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 2 0.11
17 10 0.56
ACGTcount: A:0.20, C:0.34, G:0.31, T:0.14
Consensus pattern (17 bp):
CACATGGGCGTGTGCCA
Found at i:21037176 original size:20 final size:19
Alignment explanation
Indices: 21037149--21037210 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
21037139 ATTATTTTAT
21037149 TTTTTTGAGTTTCTATTAA
1 TTTTTTGAGTTTCTATTAA
* *
21037168 TTTTATTGA-TTTTTA-AAA
1 TTTT-TTGAGTTTCTATTAA
*
21037186 TTTTTTAAAAGTTTCTATTAA
1 TTTTTT--GAGTTTCTATTAA
21037207 TTTT
1 TTTT
21037211 CATATTATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
17 2 0.06
18 6 0.18
19 10 0.30
20 9 0.27
21 6 0.18
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.63
Consensus pattern (19 bp):
TTTTTTGAGTTTCTATTAA
Found at i:21039660 original size:29 final size:27
Alignment explanation
Indices: 21039627--21039680 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
21039617 CATGTGGGTC
21039627 AAAAATAAAAATAAAATGATTATTTTTTG
1 AAAAATAAAAATAAAA--ATTATTTTTTG
* *
21039656 AAAAATATAAATATAAATTATTTTT
1 AAAAATAAAAATAAAAATTATTTTT
21039681 AATAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 9 0.39
29 14 0.61
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (27 bp):
AAAAATAAAAATAAAAATTATTTTTTG
Found at i:21043989 original size:14 final size:15
Alignment explanation
Indices: 21043963--21043991 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21043953 GCTTCATCAT
21043963 CTTCTTCTTCCTCTG
1 CTTCTTCTTCCTCTG
21043978 CTTCTT-TTCCTCTG
1 CTTCTTCTTCCTCTG
21043992 GTTTTTGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.00, C:0.38, G:0.07, T:0.55
Consensus pattern (15 bp):
CTTCTTCTTCCTCTG
Found at i:21047724 original size:20 final size:19
Alignment explanation
Indices: 21047698--21047748 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
21047688 TTGGAGCAGG
* *
21047698 AATATCGATGCCTTAGGAA
1 AATATCGATACCTTAAGAA
21047717 ATATATCGATACCTTAAGAA
1 A-ATATCGATACCTTAAGAA
21047737 AAGTATCGATAC
1 AA-TATCGATAC
21047749 TGGATCGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (19 bp):
AATATCGATACCTTAAGAA
Found at i:21048483 original size:13 final size:13
Alignment explanation
Indices: 21048465--21048501 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
21048455 TTGGATAGTA
21048465 AAAAATATTATTT
1 AAAAATATTATTT
*
21048478 -AAAA-ATTAATT
1 AAAAATATTATTT
21048489 AAAAATATTATTT
1 AAAAATATTATTT
21048502 CAAATGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AAAAATATTATTT
Found at i:21050325 original size:24 final size:24
Alignment explanation
Indices: 21050283--21050345 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
21050273 CAATTAACGG
21050283 GAAGCTCACGAAGAGTCATAATCGA
1 GAAGCTCAC-AAGAGTCATAATCGA
*
21050308 GAAGCTCACAAGAGTCATAATCGG
1 GAAGCTCACAAGAGTCATAATCGA
*
21050332 GAAGCTCATAAGAG
1 GAAGCTCACAAGAG
21050346 CTGTGGTGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
24 27 0.75
25 9 0.25
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.16
Consensus pattern (24 bp):
GAAGCTCACAAGAGTCATAATCGA
Found at i:21050811 original size:21 final size:21
Alignment explanation
Indices: 21050787--21050829 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
21050777 TAAATTTAAC
*
21050787 TCAATTTAATACAATTCATAT
1 TCAATTCAATACAATTCATAT
*
21050808 TCAATTCAATCCAATTCATAT
1 TCAATTCAATACAATTCATAT
21050829 T
1 T
21050830 TTAGGCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.42
Consensus pattern (21 bp):
TCAATTCAATACAATTCATAT
Found at i:21052262 original size:12 final size:11
Alignment explanation
Indices: 21052223--21052280 Score: 64
Period size: 11 Copynumber: 5.2 Consensus size: 11
21052213 ATATTTTTTT
21052223 ATATTTT-AAA
1 ATATTTTAAAA
21052233 ATATTTTAAAA
1 ATATTTTAAAA
*
21052244 GTATTTTAAAA
1 ATATTTTAAAA
21052255 ATATTTTTTAAAA
1 ATA--TTTTAAAA
* *
21052268 TTTTTTTAAAA
1 ATATTTTAAAA
21052279 AT
1 AT
21052281 TGGTGTTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
10 7 0.17
11 24 0.60
13 9 0.22
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (11 bp):
ATATTTTAAAA
Found at i:21052272 original size:11 final size:11
Alignment explanation
Indices: 21052226--21052278 Score: 54
Period size: 12 Copynumber: 4.7 Consensus size: 11
21052216 TTTTTTTATA
*
21052226 TTTTAAAA-TA
1 TTTTAAAATTT
*
21052236 TTTTAAAAGTAT
1 TTTTAAAA-TTT
*
21052248 TTTAAAAATATT
1 TTTTAAAAT-TT
21052260 TTTTAAAATTT
1 TTTTAAAATTT
21052271 TTTTAAAA
1 TTTTAAAA
21052279 ATTGGTGTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
10 8 0.23
11 11 0.31
12 16 0.46
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:21052722 original size:9 final size:9
Alignment explanation
Indices: 21052675--21052723 Score: 64
Period size: 10 Copynumber: 5.3 Consensus size: 9
21052665 TTCAAATAAT
21052675 TAAAAAA-A
1 TAAAAAATA
21052683 TAAAAAATA
1 TAAAAAATA
21052692 TTAAAAAATA
1 -TAAAAAATA
21052702 TACAAAAATA
1 TA-AAAAATA
*
21052712 TAAAAATTA
1 TAAAAAATA
21052721 TAA
1 TAA
21052724 GAACATAATG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
8 7 0.19
9 12 0.32
10 18 0.49
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (9 bp):
TAAAAAATA
Found at i:21052722 original size:19 final size:20
Alignment explanation
Indices: 21052668--21052722 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
21052658 GATGGTTTTC
21052668 AAATAATTAAAAAA-ATA-AA
1 AAAT-ATTAAAAAATATACAA
21052687 AAATATTAAAAAATATACAA
1 AAATATTAAAAAATATACAA
*
21052707 AAATA-TAAAAATTATA
1 AAATATTAAAAAATATA
21052723 AGAACATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 9 0.27
19 17 0.52
20 7 0.21
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (20 bp):
AAATATTAAAAAATATACAA
Found at i:21053468 original size:18 final size:18
Alignment explanation
Indices: 21053445--21053481 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
21053435 TCTTTCTCCT
21053445 TATATATAAAACAAAGGA
1 TATATATAAAACAAAGGA
*
21053463 TATATATAAAAGAAAGGA
1 TATATATAAAACAAAGGA
21053481 T
1 T
21053482 GGTATGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.14, T:0.24
Consensus pattern (18 bp):
TATATATAAAACAAAGGA
Found at i:21056877 original size:15 final size:15
Alignment explanation
Indices: 21056857--21056889 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
21056847 TAAAAGTAAA
21056857 ATTATGGAAGTTAAT
1 ATTATGGAAGTTAAT
21056872 ATTATGGAAGTTAAT
1 ATTATGGAAGTTAAT
21056887 ATT
1 ATT
21056890 GTACGGATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (15 bp):
ATTATGGAAGTTAAT
Found at i:21064144 original size:13 final size:13
Alignment explanation
Indices: 21064126--21064151 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21064116 TTGGATCCAT
21064126 ACCAAAACAATCA
1 ACCAAAACAATCA
21064139 ACCAAAACAATCA
1 ACCAAAACAATCA
21064152 TGATACATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.31, G:0.00, T:0.08
Consensus pattern (13 bp):
ACCAAAACAATCA
Found at i:21068253 original size:21 final size:20
Alignment explanation
Indices: 21068215--21068253 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
21068205 GGAAATTTAA
*
21068215 GAAAAGAAAATGACTAAATT
1 GAAAAGAAAATAACTAAATT
*
21068235 GAAAAGAGAAATAATTAAA
1 GAAAAGA-AAATAACTAAA
21068254 GATGATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.64, C:0.03, G:0.15, T:0.18
Consensus pattern (20 bp):
GAAAAGAAAATAACTAAATT
Found at i:21069184 original size:25 final size:24
Alignment explanation
Indices: 21069150--21069268 Score: 80
Period size: 25 Copynumber: 4.8 Consensus size: 24
21069140 CAAATCTTAT
* *
21069150 GAGCGTCCCGATAATAGGCTTTCA
1 GAGCTTCCCGATAATTGGCTTTCA
* * * *
21069174 CGAGCTTCCCGTTATTTGGCTCTCTG
1 -GAGCTTCCCGATAATTGGCTTTC-A
** * *
21069200 GAGCTTCTTGATAATTGACTTTTA
1 GAGCTTCCCGATAATTGGCTTTCA
*
21069224 TGAGCTTCTCGATTAA-TGGCTCTTCA
1 -GAGCTTCCCGA-TAATTGGCT-TTCA
21069250 GAGCTTCCCGAT-ATTGGCT
1 GAGCTTCCCGATAATTGGCT
21069269 CATATGAGCT
Statistics
Matches: 71, Mismatches: 18, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
23 1 0.01
24 6 0.08
25 58 0.82
26 6 0.08
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (24 bp):
GAGCTTCCCGATAATTGGCTTTCA
Found at i:21069277 original size:24 final size:25
Alignment explanation
Indices: 21069222--21069351 Score: 85
Period size: 25 Copynumber: 5.3 Consensus size: 25
21069212 AATTGACTTT
* *
21069222 TATGAGCTTCTCGATTAATGGCTCT
1 TATGAGCTTCCCGATTAATGGCTCA
*
21069247 TCA-GAGCTTCCCGA-TATTGGCTCA
1 T-ATGAGCTTCCCGATTAATGGCTCA
* *
21069271 TATGAGCTTCTCG-TTAACGGCTC-
1 TATGAGCTTCCCGATTAATGGCTCA
*
21069294 TCCA-GAGCTTCCC-ATGTCATGGCTCA
1 T--ATGAGCTTCCCGAT-TAATGGCTCA
* * *
21069320 CATGAGCTTCCC-ATTTATGTGCTCT
1 TATGAGCTTCCCGATTAATG-GCTCA
21069345 TATGAGC
1 TATGAGC
21069352 ATTCTCGAAT
Statistics
Matches: 82, Mismatches: 13, Indels: 20
0.71 0.11 0.17
Matches are distributed among these distances:
23 2 0.02
24 39 0.48
25 40 0.49
26 1 0.01
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.34
Consensus pattern (25 bp):
TATGAGCTTCCCGATTAATGGCTCA
Found at i:21069317 original size:49 final size:49
Alignment explanation
Indices: 21069222--21069329 Score: 148
Period size: 49 Copynumber: 2.2 Consensus size: 49
21069212 AATTGACTTT
* *
21069222 TATGAGCTTCTCGATTAATGGCTCTTCAGAGCTTCCCGATATTGGCTCA
1 TATGAGCTTCTCGATTAACGGCTCTCCAGAGCTTCCCGATATTGGCTCA
*
21069271 TATGAGCTTCTCG-TTAACGGCTCTCCAGAGCTTCCC-ATGTCATGGCTCA
1 TATGAGCTTCTCGATTAACGGCTCTCCAGAGCTTCCCGATAT--TGGCTCA
*
21069320 CATGAGCTTC
1 TATGAGCTTC
21069330 CCATTTATGT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
47 3 0.06
48 21 0.40
49 29 0.55
ACGTcount: A:0.19, C:0.28, G:0.20, T:0.32
Consensus pattern (49 bp):
TATGAGCTTCTCGATTAACGGCTCTCCAGAGCTTCCCGATATTGGCTCA
Found at i:21076945 original size:29 final size:29
Alignment explanation
Indices: 21076902--21076961 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
21076892 GGTGGGCCAG
21076902 ACAGGCGTGTGCTTGGCCGTGTAGATCAC
1 ACAGGCGTGTGCTTGGCCGTGTAGATCAC
* *
21076931 ACAGGCGTGTTCTTGGCCGTGTGGATCAC
1 ACAGGCGTGTGCTTGGCCGTGTAGATCAC
21076960 AC
1 AC
21076962 GGGCTAGCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.25, G:0.33, T:0.25
Consensus pattern (29 bp):
ACAGGCGTGTGCTTGGCCGTGTAGATCAC
Found at i:21077925 original size:16 final size:16
Alignment explanation
Indices: 21077873--21077925 Score: 88
Period size: 17 Copynumber: 3.2 Consensus size: 16
21077863 ATAGAAAGTC
21077873 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
21077889 GAAAGATATGGGTATCGA
1 -AAAGATATGGGTATC-A
21077907 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
21077923 AAA
1 AAA
21077926 TCTGAGATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
16 4 0.11
17 30 0.86
18 1 0.03
ACGTcount: A:0.45, C:0.06, G:0.26, T:0.23
Consensus pattern (16 bp):
AAAGATATGGGTATCA
Found at i:21081472 original size:17 final size:17
Alignment explanation
Indices: 21081450--21081499 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
21081440 ATAGAAAGTC
*
21081450 AAAGATATGGGTATTAG
1 AAAGATATGGGTATCAG
*
21081467 AAAGATATGAGTATCAG
1 AAAGATATGGGTATCAG
*
21081484 ATAGATATGGGTATCA
1 AAAGATATGGGTATCA
21081500 AAATCTGAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.42, C:0.04, G:0.26, T:0.28
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:21096780 original size:641 final size:641
Alignment explanation
Indices: 21095625--21096814 Score: 1497
Period size: 641 Copynumber: 1.9 Consensus size: 641
21095615 CATTAAGAAA
* * ** *
21095625 TTTTACTGATTACATGTTTAATTTGATGAAATGGAACAAATTGCATAAAGTGTAAAAGTTAAATT
1 TTTTACCGATTACATGTTTAAGTTGATGAAAAAGAACAAATTGCATAAAGTGCAAAAGTTAAATT
* * * *
21095690 CTAGTAGCTAAAGGTACCAATTAGCTATGGAATTCAAAATTGAAGGACCTGATATGGGAAACAGA
66 CTAATAGCTAAAGGGACCAAATAGCTATGGAATTCAAAATTGAAGGACCTGATATGGCAAACAGA
* * * * * *
21095755 CCATTTAGAGGAGTTAGTATATAATGATGATTATTCATCATCGGAAATTTAAGAAAAGTAAAGGG
131 CCATTAAGAGGAGTTAGTAGATAATGATGATGATTCATCATCGAAAATTTAAGAAAAGAAAAGGA
* * * ** * * *
21095820 TTAATTTGAAAAGATGATAAATAATGATGATAAAAGAAATAAATAATTAAATTAAAGTCATTTTC
196 TGAAATTGAAAAGATGATAAATAAAGATGATAAAAGAAATAAATAAACAAAATAAAGTAATATTC
* *** ** *
21095885 ATCATTTTTCCTAAAACAAAATACATAGAAACCCTAGTTTTGATGCTTGAAGATAGACAAGCTTA
261 ATCATCTTTCCTAAAACAAAATACATAGAAACCCTAGCCATGAAACCTGAAGATAGACAAGCTTA
* * * * * * * *
21095950 TTTTGATTAATTAAGTGAGTATTATTATCCTGTTTTTTACTGATTTTTATGTTTCCAAGATAGTT
326 TTTGGATAAATTAAGTAAGTATCATTATCCTGTTTTTTAATGATATCTATGTTTCCAAGATAGTA
* * *
21096015 TTAGCTTAATTTAGCTATCTCGGGGATTAATTTGCAAAACTATTAAAGTGTTAGGATTTTTCCAT
391 ATAGCTTAATCTAGCTATCTCGAGGATTAATTTGCAAAACTATTAAAGTGTTAGGATTTTTCCAT
*
21096080 GGATGAATATAGTTGAATTATGAAGTTTCATGGTAGAAAATGAAAGGTTGGTGATAGATAAACAA
456 GGATGAATATAGATGAATTATGAAGTTTCATGGTAGAAAATGAAAGGTTGGTGATAGATAAACAA
*
21096145 CCTTTGTAAAGAGAATTTTGATGAAATTACCACAAATTTGAGTCTAGATGGAAACTTATTTTAAT
521 CCTTTGTAAAGAGAATTTTGATAAAATTACCACAAATTTGAGTCTAGATGGAAACTTATTTTAAT
21096210 ATTATTTCATGGTCTGCATTATGATTGAAATGTCGTATGAAAATTTCGTAAAATTT
586 ATTATTTCATGGTCTGCATTATGATTGAAATGTCGTATGAAAATTTCGTAAAATTT
* **
21096266 TTTTACCGATTACATGTTTAAGTTGATGAAAAAGACCAAATTGCATAAAGTGCAAAAGTTGGATT
1 TTTTACCGATTACATGTTTAAGTTGATGAAAAAGAACAAATTGCATAAAGTGCAAAAGTTAAATT
* * * * *
21096331 CTAATAGCTAAAGGGATCAAATAGCTATGGAATTCAAAATTGGAGGTCCTTATATGGCAAATAGA
66 CTAATAGCTAAAGGGACCAAATAGCTATGGAATTCAAAATTGAAGGACCTGATATGGCAAACAGA
*
21096396 CCATTAAGAGGAGTTAGTAGATAA-GTATGATGATTCATCATTCGAAAATTTAA-TAAAGAAAAG
131 CCATTAAGAGGAGTTAGTAGATAATG-ATGATGATTCATCA-TCGAAAATTTAAGAAAAGAAAAG
* *
21096459 GATGAAATTGAAAAGATGAAATAAATAAAGATGAT-AAA-TAATAAAATAAAACAAAATACCA-T
194 GATGAAATTGAAAAGATG--ATAAATAAAGATGATAAAAGAAAT-AAAT-AAACAAAATA-AAGT
** * * * *
21096521 AATATT-ATCATCTTTCCTAAATTAGAA-AGATGGAAACCCTAGCCATGAAAACCT-AAGTTCA-
254 AATATTCATCATCTTTCCTAAAACAAAATACATAGAAACCCTAGCCATG-AAACCTGAAGAT-AG
* ** *
21096582 AGCAAGCTTATTTGGCTAAATTGGGTAAGTATCATTGT-CTCG-TTTTTAATGATATCTATGTTT
317 A-CAAGCTTATTTGGATAAATTAAGTAAGTATCATTATCCT-GTTTTTTAATGATATCTATGTTT
* * * **
21096645 TCGAGATCGTAATAGCTTAATCTAGCTATCTCGAGGATTAATTTGCAAAGTTATTAAAGTGTTAA
380 CCAAGATAGTAATAGCTTAATCTAGCTATCTCGAGGATTAATTTGCAAAACTATTAAAGTGTT-A
* * * *
21096710 GG-TTTTTCTATGGATGAGTAT-GCATGAATTATGAAGTTTTATGGTAGAAAATGAAAGGTTGTT
444 GGATTTTTCCATGGATGAATATAG-ATGAATTATGAAGTTTCATGGTAGAAAATGAAAGGTTGGT
* *
21096773 GATAGATAAACAACTTTTGTAAAGGGAATTTTGATAAAATTA
508 GATAGATAAACAACCTTTGTAAAGAGAATTTTGATAAAATTA
21096815 TGATTTAGGG
Statistics
Matches: 461, Mismatches: 75, Indels: 26
0.82 0.13 0.05
Matches are distributed among these distances:
640 2 0.00
641 361 0.78
642 71 0.15
643 26 0.06
644 1 0.00
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (641 bp):
TTTTACCGATTACATGTTTAAGTTGATGAAAAAGAACAAATTGCATAAAGTGCAAAAGTTAAATT
CTAATAGCTAAAGGGACCAAATAGCTATGGAATTCAAAATTGAAGGACCTGATATGGCAAACAGA
CCATTAAGAGGAGTTAGTAGATAATGATGATGATTCATCATCGAAAATTTAAGAAAAGAAAAGGA
TGAAATTGAAAAGATGATAAATAAAGATGATAAAAGAAATAAATAAACAAAATAAAGTAATATTC
ATCATCTTTCCTAAAACAAAATACATAGAAACCCTAGCCATGAAACCTGAAGATAGACAAGCTTA
TTTGGATAAATTAAGTAAGTATCATTATCCTGTTTTTTAATGATATCTATGTTTCCAAGATAGTA
ATAGCTTAATCTAGCTATCTCGAGGATTAATTTGCAAAACTATTAAAGTGTTAGGATTTTTCCAT
GGATGAATATAGATGAATTATGAAGTTTCATGGTAGAAAATGAAAGGTTGGTGATAGATAAACAA
CCTTTGTAAAGAGAATTTTGATAAAATTACCACAAATTTGAGTCTAGATGGAAACTTATTTTAAT
ATTATTTCATGGTCTGCATTATGATTGAAATGTCGTATGAAAATTTCGTAAAATTT
Found at i:21101336 original size:24 final size:24
Alignment explanation
Indices: 21101267--21101344 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
21101257 ATGAGTTTTT
21101267 CGATAATTGGCTCTCATGAGCTTCC
1 CGAT-ATTGGCTCTCATGAGCTTCC
* **
21101292 C-ATTTAATGGCTCTCCGGAGCTTCC
1 CGA--TATTGGCTCTCATGAGCTTCC
*
21101317 CGATATTGGCTCGCATGAGCTTCC
1 CGATATTGGCTCTCATGAGCTTCC
21101341 CGAT
1 CGAT
21101345 TACGGGTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
24 22 0.51
25 19 0.44
26 2 0.05
ACGTcount: A:0.18, C:0.29, G:0.22, T:0.31
Consensus pattern (24 bp):
CGATATTGGCTCTCATGAGCTTCC
Found at i:21104341 original size:14 final size:14
Alignment explanation
Indices: 21104322--21104365 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
21104312 GAATTAAAAG
21104322 AAGGCATTACGGAA
1 AAGGCATTACGGAA
*
21104336 AAGGCATTACGGAG
1 AAGGCATTACGGAA
*
21104350 AAGGCAATTAAGGAA
1 AAGGC-ATTACGGAA
21104365 A
1 A
21104366 GCAATAAAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.45, C:0.11, G:0.30, T:0.14
Consensus pattern (14 bp):
AAGGCATTACGGAA
Found at i:21119375 original size:20 final size:20
Alignment explanation
Indices: 21119350--21119388 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
21119340 TACTTTCTTC
21119350 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
21119370 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
21119389 AAAGAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:21125877 original size:26 final size:27
Alignment explanation
Indices: 21125828--21125939 Score: 190
Period size: 27 Copynumber: 4.2 Consensus size: 27
21125818 AATAGTTATC
*
21125828 TTACCCTATGAGGGTATTTTGGTCATT
1 TTACCCTATGAGGGTATTTCGGTCATT
21125855 TTACCCTATG-GGGTATTTCGGTCATT
1 TTACCCTATGAGGGTATTTCGGTCATT
*
21125881 TTACCCTATGAGGGTATTTCGATCATT
1 TTACCCTATGAGGGTATTTCGGTCATT
*
21125908 TTACCCTATGGGGGTATTTCGGTCATT
1 TTACCCTATGAGGGTATTTCGGTCATT
21125935 TTACC
1 TTACC
21125940 TATTTTGGGG
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 25 0.31
27 55 0.69
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (27 bp):
TTACCCTATGAGGGTATTTCGGTCATT
Found at i:21125885 original size:53 final size:54
Alignment explanation
Indices: 21125828--21125939 Score: 199
Period size: 53 Copynumber: 2.1 Consensus size: 54
21125818 AATAGTTATC
* *
21125828 TTACCCTATGAGGGTATTTTGGTCATTTTACCCTAT-GGGGTATTTCGGTCATT
1 TTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATT
21125881 TTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATT
1 TTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATT
21125935 TTACC
1 TTACC
21125940 TATTTTGGGG
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
53 34 0.61
54 22 0.39
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (54 bp):
TTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATT
Found at i:21141388 original size:29 final size:29
Alignment explanation
Indices: 21141282--21141754 Score: 96
Period size: 31 Copynumber: 15.6 Consensus size: 29
21141272 ACGAGGATGT
*
21141282 CGAATTGGATTTGTATATGATTATACATTGC
1 CGAATT-GATTCGTATATGA-TATACATTGC
* *
21141313 CGAACTTGATTCTTGTATGGATATACATTGC
1 CGAA-TTGATTCGTATAT-GATATACATTGC
* * *
21141344 CAAATTG-TTTGTTATATGATATA-AGTTGT
1 CGAATTGATTCG-TATATGATATACA-TTGC
* * *
21141373 CGAATTGATTCGTATATGGTTGTACCTTGC
1 CGAATTGATTCGTATAT-GATATACATTGC
* * * * * * *
21141403 TGAAATTAATTTGTACATGGTTATATATTGT
1 CG-AATTGATTCGTATAT-GATATACATTGC
**
21141434 CGATATTGAATT-GCT-TATGAATATTGGA-TGC
1 CGA-ATTG-ATTCG-TATATG-ATA-TACATTGC
* * *
21141465 TGAATTGGATTTC-TATTTGATTATACATTTC
1 CGAATT-GA-TTCGTATATGA-TATACATTGC
* * *
21141496 CGAACTTGATTCGTGTATGGTTATACATTGT
1 CGAA-TTGATTCGTATAT-GATATACATTGC
*
21141527 CGAATTG-TTTGTTATATGGATATA-AGTTGC
1 CGAATTGATTCG-TATAT-GATATACA-TTGC
* * * *
21141557 TGAATTGATTAGTATATGATTGTACCTTGC
1 CGAATTGATTCGTATATGA-TATACATTGC
* * * * *
21141587 TGAAATTAATTTGTACATGGTTATATATCATT-T
1 CG-AATTGATTCGTATAT-G--ATATA-CATTGC
* *
21141620 TGAATTG--T--T-TATGAATATAGGA-TGC
1 CGAATTGATTCGTATATG-ATATA-CATTGC
* **
21141645 CGAATTGGATTTGTATATGATTATACATTTT
1 CGAATT-GATTCGTATATGA-TATACATTGC
* *
21141676 CGAACTTGATTCGTGTATGGTTATACATTGC
1 CGAA-TTGATTCGTATAT-GATATACATTGC
* * *
21141707 CAAATTGTTTGGTATATGAATATA-AGTTGC
1 CGAATTGATTCGTATATG-ATATACA-TTGC
* *
21141737 TGAATTGATTCATATATG
1 CGAATTGATTCGTATATG
21141755 GTTGTACATT
Statistics
Matches: 318, Mismatches: 79, Indels: 91
0.65 0.16 0.19
Matches are distributed among these distances:
24 1 0.00
25 11 0.03
26 2 0.01
27 2 0.01
28 3 0.01
29 30 0.09
30 102 0.32
31 137 0.43
32 21 0.07
33 5 0.02
34 4 0.01
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (29 bp):
CGAATTGATTCGTATATGATATACATTGC
Found at i:21141552 original size:184 final size:183
Alignment explanation
Indices: 21141218--21141889 Score: 933
Period size: 180 Copynumber: 3.7 Consensus size: 183
21141208 ATATACATTT
* *
21141218 CTGAAATTAATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTACGAATACGAGGATGTC
1 CTGAAATTAATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATA-TAGGATGT-
* *
21141283 GAATTGGATTTGTATATGATTATACATTGCCGAACTTGATTCTTGTATGGATATACATTGCCAAA
64 GAATTGGATTTGTATATGATTATACATTGCCGAACTTGATTCGTGTATGGTTATACATTGCCAAA
21141348 TTGTTTGTTATAT-GATATAAGTTG-TCGAATTGATTCGTATATGGTTGTACCTTG
129 TTGTTTGTTATATGGATATAAGTTGCT-GAATTGATTCGTATATGGTTGTACCTTG
* * *
21141402 CTGAAATTAATTTGTACATGGTTATATATTGTCGATATTGAATTGCTTATGAATATTGGATGCTG
1 CTGAAATTAATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATATAGGATG-TG
* * * * *
21141467 AATTGGATTTCTATTTGATTATACATTTCCGAACTTGATTCGTGTATGGTTATACATTGTCGAAT
65 AATTGGATTTGTATATGATTATACATTGCCGAACTTGATTCGTGTATGGTTATACATTGCCAAAT
* *
21141532 TGTTTGTTATATGGATATAAGTTGCTGAATTGATTAGTATATGATTGTACCTTG
130 TGTTTGTTATATGGATATAAGTTGCTGAATTGATTCGTATATGGTTGTACCTTG
* * *
21141586 CTGAAATTAATTTGTACATGGTTATATA---TC-ATTTTGAATTGTTTATGAATATAGGATGCCG
1 CTGAAATTAATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATATAGGATG-TG
**
21141647 AATTGGATTTGTATATGATTATACATTTTCGAACTTGATTCGTGTATGGTTATACATTGCCAAAT
65 AATTGGATTTGTATATGATTATACATTGCCGAACTTGATTCGTGTATGGTTATACATTGCCAAAT
* * * *
21141712 TGTTTGGTATATGAATATAAGTTGCTGAATTGATTCATATATGGTTGTACATTG
130 TGTTTGTTATATGGATATAAGTTGCTGAATTGATTCGTATATGGTTGTACCTTG
* *
21141766 CTAAAAGTTAATTCATACATGGTTATATATTGTCGATATTGAATTGTTTATG-A-AT---A----
1 CTGAAA-TTAATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATATAGGATGTG
* * *
21141822 AATTGGATTTGTGTATGATTATACATTGCCGAACTTGATTCGTGAATGGTTATACATTGCCGAAT
65 AATTGGATTTGTATATGATTATACATTGCCGAACTTGATTCGTGTATGGTTATACATTGCCAAAT
21141887 TGT
130 TGT
21141890 GGGATATATC
Statistics
Matches: 442, Mismatches: 38, Indels: 25
0.88 0.08 0.05
Matches are distributed among these distances:
175 63 0.14
180 141 0.32
181 22 0.05
183 78 0.18
184 121 0.27
185 17 0.04
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.43
Consensus pattern (183 bp):
CTGAAATTAATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATATAGGATGTGA
ATTGGATTTGTATATGATTATACATTGCCGAACTTGATTCGTGTATGGTTATACATTGCCAAATT
GTTTGTTATATGGATATAAGTTGCTGAATTGATTCGTATATGGTTGTACCTTG
Found at i:21169265 original size:108 final size:106
Alignment explanation
Indices: 21169032--21169304 Score: 307
Period size: 108 Copynumber: 2.6 Consensus size: 106
21169022 CAATTTGATT
* * * * *
21169032 AAACGAGAAATCGAAACCCAGCACCTTAGGGCACG-TTCCTCAAATTTCTAAACGCAAAACATTG
1 AAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATGG
* *
21169096 CCTCGTTTTAAAATTTCGAAAAGATATTCGACTATTTGGCC
66 CCTCATTTTAAAATTTCAAAAAGATATTCGACTATTTGGCC
* * * ** *
21169137 AAACGAGTAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGAATTTCCAAATGTGAAATATGG
1 AAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATGG
* * * * * * *
21169202 TCTTATTTTGAAAGTTT-AAAAAGGGTATTTGGCTATTTGGGTC
66 CCTCATTTT-AAAATTTCAAAAA-GATATTCGACTATTT-GGCC
* *
21169245 GAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGATTTTCCAAACGCAAAA
1 AAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAA
21169305 TATTACCTTA
Statistics
Matches: 138, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
105 33 0.24
106 31 0.22
107 18 0.13
108 56 0.41
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.27
Consensus pattern (106 bp):
AAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATGG
CCTCATTTTAAAATTTCAAAAAGATATTCGACTATTTGGCC
Found at i:21169572 original size:30 final size:29
Alignment explanation
Indices: 21169517--21169577 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
21169507 TGATGAACAC
21169517 ATGAATAAATAAATAATAACAATAAAGAAG
1 ATGAATAAATAAATAATAACAATAAA-AAG
*
21169547 ATGAAT-AA-AAATTATGAACATATAAAAAG
1 ATGAATAAATAAATAAT-AACA-ATAAAAAG
21169576 AT
1 AT
21169578 ATACATGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 6 0.21
29 11 0.39
30 11 0.39
ACGTcount: A:0.64, C:0.03, G:0.10, T:0.23
Consensus pattern (29 bp):
ATGAATAAATAAATAATAACAATAAAAAG
Found at i:21170135 original size:18 final size:19
Alignment explanation
Indices: 21170090--21170135 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
21170080 CGTTATATTA
*
21170090 ATAATA-AATAATTGAATG
1 ATAATATAATAATTAAATG
21170108 ATACATTATAA-AATTAAATG
1 ATA-A-TATAATAATTAAATG
21170128 ATAATATA
1 ATAATATA
21170136 TGATAAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 7 0.29
19 2 0.08
20 13 0.54
21 2 0.08
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.35
Consensus pattern (19 bp):
ATAATATAATAATTAAATG
Found at i:21175554 original size:108 final size:106
Alignment explanation
Indices: 21175321--21175593 Score: 307
Period size: 108 Copynumber: 2.6 Consensus size: 106
21175311 CAATTTGATT
* * * * *
21175321 AAACGAGAAATCGAAACCCAGCACCTTAGGGCACG-TTCCTCAAATTTCTAAACGCAAAACATTG
1 AAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATGG
* *
21175385 CCTCGTTTTAAAATTTCGAAAAGATATTCGACTATTTGGCC
66 CCTCATTTTAAAATTTCAAAAAGATATTCGACTATTTGGCC
* * * ** *
21175426 AAACGAGTAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGAATTTCCAAATGTGAAATATGG
1 AAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATGG
* * * * * * *
21175491 TCTTATTTTGAAAGTTT-AAAAAGGGTATTTGGCTATTTGGGTC
66 CCTCATTTT-AAAATTTCAAAAA-GATATTCGACTATTT-GGCC
* *
21175534 GAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGATTTTCCAAACGCAAAA
1 AAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAA
21175594 TATTACCTTA
Statistics
Matches: 138, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
105 33 0.24
106 31 0.22
107 18 0.13
108 56 0.41
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.27
Consensus pattern (106 bp):
AAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATGG
CCTCATTTTAAAATTTCAAAAAGATATTCGACTATTTGGCC
Found at i:21175861 original size:30 final size:29
Alignment explanation
Indices: 21175806--21175866 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
21175796 TGATGAACAC
21175806 ATGAATAAATAAATAATAACAATAAAGAAG
1 ATGAATAAATAAATAATAACAATAAA-AAG
*
21175836 ATGAAT-AA-AAATTATGAACATATAAAAAG
1 ATGAATAAATAAATAAT-AACA-ATAAAAAG
21175865 AT
1 AT
21175867 ATACATGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 6 0.21
29 11 0.39
30 11 0.39
ACGTcount: A:0.64, C:0.03, G:0.10, T:0.23
Consensus pattern (29 bp):
ATGAATAAATAAATAATAACAATAAAAAG
Found at i:21176424 original size:18 final size:19
Alignment explanation
Indices: 21176379--21176424 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
21176369 CGTTATATTA
*
21176379 ATAATA-AATAATTGAATG
1 ATAATATAATAATTAAATG
21176397 ATACATTATAA-AATTAAATG
1 ATA-A-TATAATAATTAAATG
21176417 ATAATATA
1 ATAATATA
21176425 TGATAAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 7 0.29
19 2 0.08
20 13 0.54
21 2 0.08
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.35
Consensus pattern (19 bp):
ATAATATAATAATTAAATG
Found at i:21177935 original size:43 final size:43
Alignment explanation
Indices: 21177887--21178414 Score: 437
Period size: 44 Copynumber: 12.3 Consensus size: 43
21177877 CTGTAACTTC
* * *
21177887 AGGGAGATAGGATTGGTTTCTTCTATCTGCTCCACTACTGCCT
1 AGGGAGATAAGATTGGTTTCTTCGATCTGCTCCACTACTGCTT
21177930 AGGGAGA-AAGGATTGGTTTCTTCTG-TCTGCTCCACTACTGCTT
1 AGGGAGATAA-GATTGGTTTCTTC-GATCTGCTCCACTACTGCTT
* * * **
21177973 AGGGAGATAAGATCTGTGGTT-TT-AAT-TCGCTCCACTGCAACTTT
1 AGGGAGATAAGAT-TG-GTTTCTTCGATCT-GCTCCACTACTGC-TT
* *
21178017 AGGGAGGTAGGATTGGTTTCTTCTG-TCTGCTCCACTACTGCTT
1 AGGGAGATAAGATTGGTTTCTTC-GATCTGCTCCACTACTGCTT
*
21178060 AGGGAGATAAGACTTGG----TGCGATCTGCTCCACTACTGCTTT
1 AGGGAGATAAGA-TTGGTTTCTTCGATCTGCTCCACTACTGC-TT
*
21178101 AGGGAGATAGGATTGGTTTCTTCTG-TCTGCTCCACTACTGCTT
1 AGGGAGATAAGATTGGTTTCTTC-GATCTGCTCCACTACTGCTT
* * * *
21178144 AGGGAGATAAGATAGGTTTGGTGCGATCTGTTCCACTACTGCTT
1 AGGGAGATAAGATTGGTTT-CTTCGATCTGCTCCACTACTGCTT
* * * *
21178188 AGGAAGATAAGATCGGTTTCTTTCG-TTTGCTCCACTACTACTT
1 AGGGAGATAAGATTGGTTTC-TTCGATCTGCTCCACTACTGCTT
* * *
21178231 AGGGAGATAAGACTT-G-AT-GT-GATCTACTCCACTACTGCTT
1 AGGGAGATAAGA-TTGGTTTCTTCGATCTGCTCCACTACTGCTT
* *
21178271 AGGGAGATAAGATCT-GTAATCTTCGACCTGCTCCACTACTGCTT
1 AGGGAGATAAGAT-TGGT-TTCTTCGATCTGCTCCACTACTGCTT
* * * ** * **
21178315 AGGGAGATAGGACTGGTGGT-TTAAATCTGCTTCAAAACTGCTT
1 AGGGAGATAAGATTGGT-TTCTTCGATCTGCTCCACTACTGCTT
* **
21178358 AGGAAGATAAGATTTGCCATT-TTCGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGA-TTG-GTTTCTTCGATCTGCTCCACTACTGCTT
21178402 AGGGAGATAAGAT
1 AGGGAGATAAGAT
21178415 CTACCATCTT
Statistics
Matches: 388, Mismatches: 64, Indels: 66
0.75 0.12 0.13
Matches are distributed among these distances:
39 3 0.01
40 52 0.13
41 13 0.03
42 8 0.02
43 151 0.39
44 156 0.40
45 5 0.01
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (43 bp):
AGGGAGATAAGATTGGTTTCTTCGATCTGCTCCACTACTGCTT
Found at i:21178029 original size:87 final size:85
Alignment explanation
Indices: 21177911--21178416 Score: 403
Period size: 87 Copynumber: 5.9 Consensus size: 85
21177901 GGTTTCTTCT
** * *
21177911 ATCTGCTCCACTACTGC-CTAGGGAGAAAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAG
**
21177975 GGAGATAAGATCTGTGGTTTTA
66 GGAGATAAGATCT-TGG-TGCA
* *
21177997 AT-TCGCTCCACTGCAACTTTAGGGAGGTAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTA
1 ATCT-GCTCCACTACAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTA
*
21178061 GGGAGATAAGA-CTTGGTGCG
65 GGGAGATAAGATCTTGGTGCA
**
21178081 ATCTGCTCCACTACTGCTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAG
* *
21178146 GGAGATAAGATAGGTTTGGTGCG
66 GGAGATAAGAT---CTTGGTGCA
* ** * * * * *
21178169 ATCTGTTCCACTACTGC-TTAGGAAGATAAGATCGGTTTCTT-TCGTTTGCTCCACTACTACTTA
1 ATCTGCTCCACTACAACTTTAGGGAGATAGGATTGGTTTCTTCT-GTCTGCTCCACTACTGCTTA
* **
21178232 GGGAGATAAGA-CTTGATGTG
65 GGGAGATAAGATCTTGGTGCA
* ** * * *
21178252 ATCTACTCCACTACTGC-TTAGGGAGATAAGATCT-GTAATCTTC-GACCTGCTCCACTACTGCT
1 ATCTGCTCCACTACAACTTTAGGGAGATAGGAT-TGGT-TTCTTCTG-TCTGCTCCACTACTGCT
* **
21178314 TAGGGAGATAGGA-CTGGTGGTTTAA
63 TAGGGAGATAAGATCT--TGG-TGCA
* * * **
21178339 ATCTGCTTCA--A-AACTGCTTAGGAAGATAAGATTTGCCATT-TTC-GATCTGCTCCACTACTG
1 ATCTGCTCCACTACAACT--TTAGGGAGATAGGA-TTG-GTTTCTTCTG-TCTGCTCCACTACTG
21178399 CTTAGGGAGATAAGATCT
61 CTTAGGGAGATAAGATCT
21178417 ACCATCTTAG
Statistics
Matches: 352, Mismatches: 46, Indels: 42
0.80 0.10 0.10
Matches are distributed among these distances:
83 38 0.11
84 103 0.29
85 6 0.02
86 17 0.05
87 160 0.45
88 28 0.08
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (85 bp):
ATCTGCTCCACTACAACTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAG
GGAGATAAGATCTTGGTGCA
Found at i:21178129 original size:171 final size:169
Alignment explanation
Indices: 21177911--21178413 Score: 534
Period size: 171 Copynumber: 2.9 Consensus size: 169
21177901 GGTTTCTTCT
* *
21177911 ATCTGCTCCACTACTGCCTAGGGAGAAAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGG
1 ATCTGCTCCACTACTGCTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGG
* * * * * *
21177976 GAGATAAGATCTGTGGTTTTAAT-TCGCTCCACTGCAACTTTAGGGAGGTAGGATTGGTTTC-TT
66 GAGATAAGATCTGTGGTTTCAATCT-GCTCCACTACAAC-TTAGGAAGATAAGATCGGTTTCTTT
* *
21178039 CTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTGCG
129 C-GTCTGCTCCACTACTACTTAGGGAGATAAGACTTGATGCG
21178081 ATCTGCTCCACTACTGCTTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGC-TTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAG
* * * * * **
21178146 GGAGATAAGATAGGTTTGG-TGCGATCTGTTCCACTACTGCTTAGGAAGATAAGATCGGTTTCTT
65 GGAGATAAGAT--CTGTGGTTTCAATCTGCTCCACTACAACTTAGGAAGATAAGATCGGTTTCTT
* *
21178210 TCGTTTGCTCCACTACTACTTAGGGAGATAAGACTTGATGTG
128 TCGTCTGCTCCACTACTACTTAGGGAGATAAGACTTGATGCG
* * * *
21178252 ATCTACTCCACTACTGCTTAGGGAGATAAGATCT-GTAATCTTC-GACCTGCTCCACTACTGCTT
1 ATCTGCTCCACTACTGCTTAGGGAGATAGGAT-TGGT-TTCTTCTG-TCTGCTCCACTACTGCTT
* * * ** ** * ***
21178315 AGGGAGATAGGA-CTGGTGGTTTAAATCTGCTTCAAAACTGCTTAGGAAGATAAGATTTGCCAT-
63 AGGGAGATAAGATCT-GTGGTTTCAATCTGCTCCACTACAACTTAGGAAGATAAGA-TCGGTTTC
*
21178378 TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
126 TTTCG-TCTGCTCCACTACTACTTAGGGAGATAAGA
21178414 TCTACCATCT
Statistics
Matches: 282, Mismatches: 39, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
168 1 0.00
169 3 0.01
170 67 0.24
171 191 0.68
172 15 0.05
173 5 0.02
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (169 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGG
GAGATAAGATCTGTGGTTTCAATCTGCTCCACTACAACTTAGGAAGATAAGATCGGTTTCTTTCG
TCTGCTCCACTACTACTTAGGGAGATAAGACTTGATGCG
Found at i:21178306 original size:127 final size:129
Alignment explanation
Indices: 21178130--21178438 Score: 304
Period size: 127 Copynumber: 2.4 Consensus size: 129
21178120 CTTCTGTCTG
** * * * * *
21178130 CTCCACTACTGCTTAGGGAGATAAGATAGGTTTGGTGCGATCTGTTCCACTACTGCTTAGGAAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAT-CTTCGACCTGCTCCACTACTGCTTAGGAAGA
* *** * ** *
21178195 TAAGA-TCGGT-TTCTTTCGTTTGCTCCACTACTACTTAGGGAGATAAGACTTG-A-TGT-GATC
65 TAAGACT-GGTGGT-TTAAATCTGCTCCAAAACTACTTAGGAAGATAAGACTTGCATTGTCGATC
21178255 TA
128 TA
*
21178257 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGACCTGCTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGT-ATCTTCGACCTGCTCCACTACTGCTTAGGAAGA
* * * * *
21178322 TAGGACTGGTGGTTTAAATCTGCTTCAAAACTGCTTAGGAAGATAAGATTTGCCATTTTCGATCT
65 TAAGACTGGTGGTTTAAATCTGCTCCAAAACTACTTAGGAAGATAAGACTTG-CATTGTCGATCT
*
21178387 G
129 A
** *
21178388 CTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTAGACCTGCTCCACT
1 CTCCACTACTGCTTAGGGAGATAAGATCT-GTATCTTCGACCTGCTCCACT
21178439 GTAACCTCAG
Statistics
Matches: 149, Mismatches: 25, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
127 91 0.61
128 3 0.02
129 1 0.01
130 2 0.01
131 52 0.35
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (129 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTGTATCTTCGACCTGCTCCACTACTGCTTAGGAAGAT
AAGACTGGTGGTTTAAATCTGCTCCAAAACTACTTAGGAAGATAAGACTTGCATTGTCGATCTA
Found at i:21178402 original size:44 final size:41
Alignment explanation
Indices: 21177887--21178414 Score: 331
Period size: 43 Copynumber: 12.3 Consensus size: 41
21177877 CTGTAACTTC
* * * *
21177887 AGGGAGATAGGATTGGTTTCTTCTATCTGCTCCACTACTGCCT
1 AGGGAGATAAGATT-GATT-TTCGATCTGCTCCACTACTGCTT
*
21177930 AGGGAGA-AAGGATTGGTTTCTTCTG-TCTGCTCCACTACTGCTT
1 AGGGAGATAA-GATT-GATT-TTC-GATCTGCTCCACTACTGCTT
** * **
21177973 AGGGAGATAAGATCTG-TGGTTTTAAT-TCGCTCCACTGCAACTTT
1 AGGGAGATAAGAT-TGAT--TTTCGATCT-GCTCCACTACTGC-TT
* * *
21178017 AGGGAGGTAGGATTGGTTTCTTCTG-TCTGCTCCACTACTGCTT
1 AGGGAGATAAGATT-GATT-TTC-GATCTGCTCCACTACTGCTT
* *
21178060 AGGGAGATAAGACTTG--GTGCGATCTGCTCCACTACTGCTTT
1 AGGGAGATAAGA-TTGATTTTCGATCTGCTCCACTACTGC-TT
* *
21178101 AGGGAGATAGGATTGGTTTCTTCTG-TCTGCTCCACTACTGCTT
1 AGGGAGATAAGATT-GATT-TTC-GATCTGCTCCACTACTGCTT
* * *
21178144 AGGGAGATAAGATAGGTTTGGTGCGATCTGTTCCACTACTGCTT
1 AGGGAGATAAGATTGATTT--T-CGATCTGCTCCACTACTGCTT
* * * * *
21178188 AGGAAGATAAGATCGGTTTCTTTCG-TTTGCTCCACTACTACTT
1 AGGGAGATAAGAT-TG-AT-TTTCGATCTGCTCCACTACTGCTT
* *
21178231 AGGGAGATAAGACTTGA-TGT-GATCTACTCCACTACTGCTT
1 AGGGAGATAAGA-TTGATTTTCGATCTGCTCCACTACTGCTT
* *
21178271 AGGGAGATAAGATCTGTAATCTTCGACCTGCTCCACTACTGCTT
1 AGGGAGATAAGAT-TG--ATTTTCGATCTGCTCCACTACTGCTT
* * * ** * **
21178315 AGGGAGATAGGACTGGTGGTTTAAATCTGCTTCAAAACTGCTT
1 AGGGAGATAAGATTGAT--TTTCGATCTGCTCCACTACTGCTT
*
21178358 AGGAAGATAAGATTTGCCATTTTCGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGA-TTG--ATTTTCGATCTGCTCCACTACTGCTT
21178402 AGGGAGATAAGAT
1 AGGGAGATAAGAT
21178415 CTACCATCTT
Statistics
Matches: 381, Mismatches: 63, Indels: 82
0.72 0.12 0.16
Matches are distributed among these distances:
39 3 0.01
40 51 0.13
41 16 0.04
42 7 0.02
43 150 0.39
44 145 0.38
45 5 0.01
46 2 0.01
47 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (41 bp):
AGGGAGATAAGATTGATTTTCGATCTGCTCCACTACTGCTT
Found at i:21178713 original size:134 final size:134
Alignment explanation
Indices: 21178602--21179040 Score: 765
Period size: 134 Copynumber: 3.3 Consensus size: 134
21178592 ACTAGCTCCA
* * *
21178602 ATCTGCTCCA-CTGTAACCTCAGGGAGATAAGATATGAAATTCTTCGGTCTACTCCACTGTAACC
1 ATCTGCT-CATCTGTAATCTAAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACC
21178666 TCAGGGAGATAAGACTTGCATATTCAACCGACTCCACTGTAACTTCAGGGAGATAAGGTTTGTGG
65 TCAGGGAGATAAGACTTGCATATTCAACCGACTCCACTGTAACTTCAGGGAGATAAGGTTTGTGG
21178731 CTTCG
130 CTTCG
21178736 ATCTGCTCATCTGTAATCTAAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCT
1 ATCTGCTCATCTGTAATCTAAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCT
21178801 CAGGGAGATAAGACTTGCATATTCAACCGACTCCACTGTAACTTCAGGGAGATAAGGTTTGTGGC
66 CAGGGAGATAAGACTTGCATATTCAACCGACTCCACTGTAACTTCAGGGAGATAAGGTTTGTGGC
21178866 TTCG
131 TTCG
* *
21178870 ATCTGCTCATCTGTAATCTAAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTGTAACTT
1 ATCTGCTCATCTGTAATCTAAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCT
*
21178935 CAGGGAGATAAGACTTGCATATTCAACCTG-CCCCACTGTAACTTCAGGGAGATAAGGTTTGTGG
66 CAGGGAGATAAGACTTGCATATTCAACC-GACTCCACTGTAACTTCAGGGAGATAAGGTTTGTGG
21178999 CTTCG
130 CTTCG
* * *
21179004 ATCTACTCCTCTGTAATCTCAGGGAGATAAGATCTGA
1 ATCTGCTCATCTGTAATCTAAGGGAGATAAGATCTGA
21179041 CTCTTTGATC
Statistics
Matches: 294, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
133 2 0.01
134 291 0.99
135 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (134 bp):
ATCTGCTCATCTGTAATCTAAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCT
CAGGGAGATAAGACTTGCATATTCAACCGACTCCACTGTAACTTCAGGGAGATAAGGTTTGTGGC
TTCG
Found at i:21179018 original size:44 final size:44
Alignment explanation
Indices: 21178432--21179036 Score: 310
Period size: 44 Copynumber: 13.6 Consensus size: 44
21178422 CTTAGACCTG
* * * *
21178432 CTCCACTGTAACCTCAGGGACATAAGATCTGAAAT-TCTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATTTG---TGTCTTCGATCTA
**
21178478 CTCCACTGTAACCTT-AGGGAGATAAGACCTGATG----CGATCTA
1 CTCCACTGTAA-CTTCAGGGAGATAAGATTTG-TGTCTTCGATCTA
* * * * ** **
21178519 CTCTACTGTAACTTCAGAGAGATGAGATCCTT-TAT-TTTAATCCG
1 CTCCACTGTAACTTCAGGGAGATAAGAT--TTGTGTCTTCGATCTA
* * * ** * * *
21178563 CTCCACTGTAACTTCAGGAAGCTAGGATTACTAG-CTCCAATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATTTGT-GTCTTCGATCTA
* * *
21178607 CTCCACTGTAACCTCAGGGAGATAAGATATGAAAT-TCTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATTTG---TGTCTTCGATCTA
* * ** * * * *
21178653 CTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCGA
1 CTCCACTGTAACTTCAGGGAGATAAGATTTGTGTCTTCGATCTA
* * *
21178697 CTCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATTTGTGTCTTCGATCTA
* * *
21178741 CT-CATCTGTAA-TCTAAGGGAGATAAGATCTGAAAT-TCTTCGGTCTA
1 CTCCA-CTGTAACT-TCAGGGAGATAAGATTTG---TGTCTTCGATCTA
* * ** * * * *
21178787 CTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCGA
1 CTCCACTGTAACTTCAGGGAGATAAGATTTGTGTCTTCGATCTA
* * *
21178831 CTCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATTTGTGTCTTCGATCTA
* *
21178875 CT-CATCTGTAA-TCTAAGGGAGATAAGATCTGAAAT-TCTTC-AGTCTA
1 CTCCA-CTGTAACT-TCAGGGAGATAAGATTTG---TGTCTTCGA-TCTA
* ** * * * *
21178921 CTCCACTGTAACTTCAGGGAGATAAGACTTGCATATTCAACCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATTTGTGTCTTCGATCTA
* * *
21178965 CCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATTTGTGTCTTCGATCTA
*
21179009 CTCCTCTGTAA-TCTCAGGGAGATAAGAT
1 CTCCACTGTAACT-TCAGGGAGATAAGAT
21179037 CTGACTCTTT
Statistics
Matches: 417, Mismatches: 107, Indels: 72
0.70 0.18 0.12
Matches are distributed among these distances:
40 3 0.01
41 27 0.06
42 1 0.00
43 9 0.02
44 244 0.59
45 2 0.00
46 121 0.29
47 10 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
CTCCACTGTAACTTCAGGGAGATAAGATTTGTGTCTTCGATCTA
Found at i:21180261 original size:7 final size:7
Alignment explanation
Indices: 21180249--21180304 Score: 62
Period size: 7 Copynumber: 8.1 Consensus size: 7
21180239 TTAGTCTCTC
21180249 CATTTTT
1 CATTTTT
21180256 CATTTTT
1 CATTTTT
21180263 CATTTTT
1 CATTTTT
21180270 C-TTTTT
1 CATTTTT
*
21180276 CTTTTTTT
1 C-ATTTTT
*
21180284 CAGTTTT
1 CATTTTT
*
21180291 CA-TTCT
1 CATTTTT
21180297 CATTTTT
1 CATTTTT
21180304 C
1 C
21180305 TCCTTTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
6 11 0.26
7 25 0.60
8 6 0.14
ACGTcount: A:0.11, C:0.18, G:0.02, T:0.70
Consensus pattern (7 bp):
CATTTTT
Found at i:21180282 original size:13 final size:14
Alignment explanation
Indices: 21180249--21180304 Score: 62
Period size: 13 Copynumber: 4.1 Consensus size: 14
21180239 TTAGTCTCTC
21180249 CATTTTTCATTTTT
1 CATTTTTCATTTTT
21180263 CATTTTTC-TTTTT
1 CATTTTTCATTTTT
* *
21180276 CTTTTTTTCAGTTTT
1 C-ATTTTTCATTTTT
*
21180291 CA-TTCTCATTTTT
1 CATTTTTCATTTTT
21180304 C
1 C
21180305 TCCTTTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
13 16 0.46
14 14 0.40
15 5 0.14
ACGTcount: A:0.11, C:0.18, G:0.02, T:0.70
Consensus pattern (14 bp):
CATTTTTCATTTTT
Found at i:21180302 original size:28 final size:28
Alignment explanation
Indices: 21180251--21180305 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
21180241 AGTCTCTCCA
* *
21180251 TTTTTCATTTTTCATTTTTCTTTTTCTT
1 TTTTTCAGTTTTCATTTCTCTTTTTCTT
21180279 TTTTTCAGTTTTCA-TTCTCATTTTTCT
1 TTTTTCAGTTTTCATTTCTC-TTTTTCT
21180306 CCTTTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.73
Consensus pattern (28 bp):
TTTTTCAGTTTTCATTTCTCTTTTTCTT
Found at i:21181305 original size:22 final size:22
Alignment explanation
Indices: 21181280--21181351 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
21181270 TTCTTTCTTC
* * *
21181280 TTTTTGTTTTTTTTTATTTTGA
1 TTTTTGATTTTTTTCATTTTCA
21181302 TTTTTGATTTTTTTCATTTTCA
1 TTTTTGATTTTTTTCATTTTCA
*
21181324 -TTTTCATTTTCATTTTCATTTTCA
1 TTTTTGA-TTT--TTTTCATTTTCA
21181348 TTTT
1 TTTT
21181352 AACTTTGATT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 5 0.12
22 22 0.52
24 12 0.29
25 3 0.07
ACGTcount: A:0.12, C:0.08, G:0.04, T:0.75
Consensus pattern (22 bp):
TTTTTGATTTTTTTCATTTTCA
Found at i:21181329 original size:12 final size:12
Alignment explanation
Indices: 21181312--21181351 Score: 80
Period size: 12 Copynumber: 3.3 Consensus size: 12
21181302 TTTTTGATTT
21181312 TTTTCATTTTCA
1 TTTTCATTTTCA
21181324 TTTTCATTTTCA
1 TTTTCATTTTCA
21181336 TTTTCATTTTCA
1 TTTTCATTTTCA
21181348 TTTT
1 TTTT
21181352 AACTTTGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTCATTTTCA
Found at i:21181335 original size:18 final size:18
Alignment explanation
Indices: 21181312--21181351 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
21181302 TTTTTGATTT
21181312 TTTTCATTTTCATTTTCA
1 TTTTCATTTTCATTTTCA
21181330 TTTTCATTTTCATTTTCA
1 TTTTCATTTTCATTTTCA
21181348 TTTT
1 TTTT
21181352 AACTTTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTCATTTTCATTTTCA
Found at i:21181362 original size:18 final size:18
Alignment explanation
Indices: 21181319--21181369 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
21181309 TTTTTTTCAT
* *
21181319 TTTCATTTTCATTTTCAT
1 TTTCATTTTCATTTTAAC
21181337 TTTCATTTTCATTTTAAC
1 TTTCATTTTCATTTTAAC
* *
21181355 TTTGATTTTGATTTT
1 TTTCATTTTCATTTT
21181370 TCTTTTTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.18, C:0.12, G:0.04, T:0.67
Consensus pattern (18 bp):
TTTCATTTTCATTTTAAC
Found at i:21185295 original size:30 final size:29
Alignment explanation
Indices: 21185240--21185300 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
21185230 TGATGAACAC
21185240 ATGAATAAATAAATAATAACAATAAAGAAG
1 ATGAATAAATAAATAATAACAATAAA-AAG
*
21185270 ATGAAT-AA-AAATTATGAACATATAAAAAG
1 ATGAATAAATAAATAAT-AACA-ATAAAAAG
21185299 AT
1 AT
21185301 ATACATGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 6 0.21
29 11 0.39
30 11 0.39
ACGTcount: A:0.64, C:0.03, G:0.10, T:0.23
Consensus pattern (29 bp):
ATGAATAAATAAATAATAACAATAAAAAG
Found at i:21185857 original size:18 final size:19
Alignment explanation
Indices: 21185812--21185857 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
21185802 CGTTATATTA
*
21185812 ATAATA-AATAATTGAATG
1 ATAATATAATAATTAAATG
21185830 ATACATTATAA-AATTAAATG
1 ATA-A-TATAATAATTAAATG
21185850 ATAATATA
1 ATAATATA
21185858 TGATAAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 7 0.29
19 2 0.08
20 13 0.54
21 2 0.08
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.35
Consensus pattern (19 bp):
ATAATATAATAATTAAATG
Found at i:21189531 original size:108 final size:106
Alignment explanation
Indices: 21189298--21189570 Score: 307
Period size: 108 Copynumber: 2.6 Consensus size: 106
21189288 CAATTTGATT
* * * * *
21189298 AAACGAGAAATCGAAACCCAGCACCTTAGGGCACG-TTCCTCAAATTTCTAAACGCAAAACATTG
1 AAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATGG
* *
21189362 CCTCGTTTTAAAATTTCGAAAAGATATTCGACTATTTGGCC
66 CCTCATTTTAAAATTTCAAAAAGATATTCGACTATTTGGCC
* * * ** *
21189403 AAACGAGTAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGAATTTCCAAATGTGAAATATGG
1 AAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATGG
* * * * * * *
21189468 TCTTATTTTGAAAGTTT-AAAAAGGGTATTTGGCTATTTGGGTC
66 CCTCATTTT-AAAATTTCAAAAA-GATATTCGACTATTT-GGCC
* *
21189511 GAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGATTTTCCAAACGCAAAA
1 AAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAA
21189571 TATTACCTTA
Statistics
Matches: 138, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
105 33 0.24
106 31 0.22
107 18 0.13
108 56 0.41
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.27
Consensus pattern (106 bp):
AAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATGG
CCTCATTTTAAAATTTCAAAAAGATATTCGACTATTTGGCC
Found at i:21189913 original size:30 final size:29
Alignment explanation
Indices: 21189858--21189918 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
21189848 TGATGAACAC
21189858 ATGAATAAATAAATAATAACAATAAAGAAG
1 ATGAATAAATAAATAATAACAATAAA-AAG
*
21189888 ATGAAT-AA-AAATTATGAACATATAAAAAG
1 ATGAATAAATAAATAAT-AACA-ATAAAAAG
21189917 AT
1 AT
21189919 ATACATGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 6 0.21
29 11 0.39
30 11 0.39
ACGTcount: A:0.64, C:0.03, G:0.10, T:0.23
Consensus pattern (29 bp):
ATGAATAAATAAATAATAACAATAAAAAG
Found at i:21190476 original size:18 final size:19
Alignment explanation
Indices: 21190431--21190476 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
21190421 CGTTATATTA
*
21190431 ATAATA-AATAATTGAATG
1 ATAATATAATAATTAAATG
21190449 ATACATTATAA-AATTAAATG
1 ATA-A-TATAATAATTAAATG
21190469 ATAATATA
1 ATAATATA
21190477 TGATAAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 7 0.29
19 2 0.08
20 13 0.54
21 2 0.08
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.35
Consensus pattern (19 bp):
ATAATATAATAATTAAATG
Found at i:21203417 original size:48 final size:48
Alignment explanation
Indices: 21203365--21203461 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
21203355 TCACAATTTA
21203365 ATTCAATACATTTTTCACCTTCCAATCAGTATACCATCAATTGCTCAT
1 ATTCAATACATTTTTCACCTTCCAATCAGTATACCATCAATTGCTCAT
21203413 ATTCAATACATTTTTCACCTTCCAATCAGTATACCATCAATTGCTCAT
1 ATTCAATACATTTTTCACCTTCCAATCAGTATACCATCAATTGCTCAT
21203461 A
1 A
21203462 CATATTCATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.37
Consensus pattern (48 bp):
ATTCAATACATTTTTCACCTTCCAATCAGTATACCATCAATTGCTCAT
Found at i:21204540 original size:14 final size:13
Alignment explanation
Indices: 21204514--21204543 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
21204504 GTTTATTTGA
21204514 AATATAATAATAT
1 AATATAATAATAT
21204527 AATATAATTAATAT
1 AATATAA-TAATAT
21204541 AAT
1 AAT
21204544 TTACAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATATAATAATAT
Found at i:21210904 original size:58 final size:58
Alignment explanation
Indices: 21210814--21210927 Score: 219
Period size: 58 Copynumber: 2.0 Consensus size: 58
21210804 CCCACACACG
21210814 ACATCCACACTGAAGATCATAAATTAGTCTCCATCTAGTGTACAAGACAATTGGGGCA
1 ACATCCACACTGAAGATCATAAATTAGTCTCCATCTAGTGTACAAGACAATTGGGGCA
*
21210872 ACATCCACACTGAAGATCATAAATTAGTCTCCATCTAGTGTAGAAGACAATTGGGG
1 ACATCCACACTGAAGATCATAAATTAGTCTCCATCTAGTGTACAAGACAATTGGGG
21210928 TAGAATCAGG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (58 bp):
ACATCCACACTGAAGATCATAAATTAGTCTCCATCTAGTGTACAAGACAATTGGGGCA
Found at i:21212841 original size:17 final size:17
Alignment explanation
Indices: 21212819--21212855 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
21212809 AAAAAAAGTA
21212819 TATAACTTTATAATGAT
1 TATAACTTTATAATGAT
21212836 TATAACTTTATAATGAT
1 TATAACTTTATAATGAT
21212853 TAT
1 TAT
21212856 TTAAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (17 bp):
TATAACTTTATAATGAT
Found at i:21213781 original size:33 final size:34
Alignment explanation
Indices: 21213707--21213781 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 34
21213697 ATATATATTT
*
21213707 TATTTTTTAATTTTAATTTTAAAATACTTTAAAA
1 TATTTTTTTATTTTAATTTTAAAATACTTTAAAA
* *** *
21213741 -ATATTTTTATTTTAATTTTTTTAT-TTTTAAAA
1 TATTTTTTTATTTTAATTTTAAAATACTTTAAAA
21213773 TATTTTTTT
1 TATTTTTTT
21213782 GTGTTTATTA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
32 7 0.21
33 26 0.79
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (34 bp):
TATTTTTTTATTTTAATTTTAAAATACTTTAAAA
Found at i:21219652 original size:13 final size:14
Alignment explanation
Indices: 21219631--21219668 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
21219621 TTTTTTACTA
*
21219631 AAGGAATTAAA-AG
1 AAGGCATTAAAGAG
21219644 AAGGCATTAAAGAG
1 AAGGCATTAAAGAG
21219658 AAGGCAATTAA
1 AAGGC-ATTAA
21219669 GGAAAGCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 7 0.32
15 5 0.23
ACGTcount: A:0.55, C:0.05, G:0.24, T:0.16
Consensus pattern (14 bp):
AAGGCATTAAAGAG
Found at i:21220404 original size:26 final size:26
Alignment explanation
Indices: 21220368--21220421 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
21220358 TTCTTAATTA
21220368 TTTCATTATATACATCCAATGTTCCT
1 TTTCATTATATACATCCAATGTTCCT
* *
21220394 TTTCATTATATACATTCAATGTTGCT
1 TTTCATTATATACATCCAATGTTCCT
21220420 TT
1 TT
21220422 GGCATTTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.50
Consensus pattern (26 bp):
TTTCATTATATACATCCAATGTTCCT
Found at i:21223180 original size:52 final size:52
Alignment explanation
Indices: 21223123--21223228 Score: 185
Period size: 52 Copynumber: 2.0 Consensus size: 52
21223113 AGAATTCAAT
* *
21223123 ATCACATCAATTAACAATTATGTACTTATTATTTTGTCAATTCTTTTAAAAC
1 ATCACATCAATTAACAATTATGTACTTATTATTTTATCAATTCGTTTAAAAC
*
21223175 ATCACATCAATTAACAATTATTTACTTATTATTTTATCAATTCGTTTAAAAC
1 ATCACATCAATTAACAATTATGTACTTATTATTTTATCAATTCGTTTAAAAC
21223227 AT
1 AT
21223229 ACTCACATGT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (52 bp):
ATCACATCAATTAACAATTATGTACTTATTATTTTATCAATTCGTTTAAAAC
Found at i:21224690 original size:56 final size:53
Alignment explanation
Indices: 21224599--21224903 Score: 340
Period size: 56 Copynumber: 5.8 Consensus size: 53
21224589 ATTTGGGTAA
*
21224599 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC-TAAGA-CATG
* * *
21224655 AGAGGTCCCATTTAAGACCATGTTTAGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC-TAAGA-CATG
* * *
21224711 AGAGGTCCTATGTAAGACCATGCCTGGGACATGGCATTGGCACC-GAGAC--G
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAAGACATG
* * *
21224761 AGAGGTCCCATGTAAGACCATGTCTGGGACATGTCGTTGGCA-CT--GAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAAGACATG
* * *
21224811 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACC---GATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAAGACATG
** *
21224861 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
21224904 TGTTACGATC
Statistics
Matches: 219, Mismatches: 25, Indels: 15
0.85 0.10 0.06
Matches are distributed among these distances:
48 2 0.01
49 1 0.00
50 85 0.39
51 36 0.16
52 1 0.00
53 3 0.01
55 2 0.01
56 89 0.41
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (53 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAAGACATG
Found at i:21224768 original size:50 final size:50
Alignment explanation
Indices: 21224599--21224903 Score: 322
Period size: 50 Copynumber: 5.8 Consensus size: 50
21224589 ATTTGGGTAA
* *
21224599 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--G
* * * *
21224655 AGAGGTCCCATTTAAGACCATGTTTAGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--G
* *
21224711 AGAGGTCCTATGTAAGACCATGCCTGGGACATGGCATTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * * *
21224761 AGAGGTCCCATGTAAGACCATGTCTGGGACATGTCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * * *
21224811 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
** *
21224861 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
21224904 TGTTACGATC
Statistics
Matches: 221, Mismatches: 27, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
50 91 0.41
51 35 0.16
52 1 0.00
53 3 0.01
55 2 0.01
56 89 0.40
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:21228055 original size:50 final size:50
Alignment explanation
Indices: 21227946--21228194 Score: 309
Period size: 50 Copynumber: 4.8 Consensus size: 50
21227936 ATTTTGGTAA
* * *
21227946 AGAGATCCCATGTAATACCATGTCTGGGACATGGCATTGGCATCCTTAGGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC-GA-GA-C--G
21228002 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* *
21228052 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * * *
21228102 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
** * * *
21228152 AGAACATCTCATGCAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
21228195 TGTTACGATC
Statistics
Matches: 176, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
50 97 0.55
51 33 0.19
52 1 0.01
53 2 0.01
54 1 0.01
55 2 0.01
56 40 0.23
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:21230915 original size:24 final size:24
Alignment explanation
Indices: 21230884--21231049 Score: 91
Period size: 27 Copynumber: 6.6 Consensus size: 24
21230874 CATATAATAA
21230884 GAAGCTCATAAGAGCCATAATCGG
1 GAAGCTCATAAGAGCCATAATCGG
** *
21230908 GAAGCTCATGCGAGCCATTATCGG
1 GAAGCTCATAAGAGCCATAATCGG
* ** * *
21230932 GTAGCTTC-GGAGAGCCATTAATTGA
1 GAAGC-TCATAAGAGCCA-TAATCGG
* **
21230957 GAAGCTCATGAGAGAGCCTTTAATTTG
1 GAAGCTCAT-A-AGAGCC-ATAATCGG
* * *
21230984 AAAGCTCATGAAAGAGCCTTTAATCAG
1 GAAGCTCAT--AAGAGCC-ATAATCGG
* * *
21231011 GAAGCTCAGAAGAGCTATATATTGG
1 GAAGCTCATAAGAGCCATA-ATCGG
21231036 GAAGCTCATAAGAG
1 GAAGCTCATAAGAG
21231050 TTGCTGTGTG
Statistics
Matches: 108, Mismatches: 26, Indels: 15
0.72 0.17 0.10
Matches are distributed among these distances:
24 36 0.33
25 32 0.30
27 39 0.36
28 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (24 bp):
GAAGCTCATAAGAGCCATAATCGG
Found at i:21230979 original size:27 final size:27
Alignment explanation
Indices: 21230941--21231049 Score: 102
Period size: 27 Copynumber: 4.1 Consensus size: 27
21230931 GGTAGCTTCG
*
21230941 GAGAGCCATTAATTGAGAAGCTCATGA
1 GAGAGCCTTTAATTGAGAAGCTCATGA
21230968 GAGAGCCTTTAATTTGA-AAGCTCATGA
1 GAGAGCCTTTAA-TTGAGAAGCTCATGA
* *
21230995 AAGAGCCTTTAA-TCAGGAAGCTCA-GA
1 GAGAGCCTTTAATTGA-GAAGCTCATGA
* * *
21231021 -AGAG-CTATATATTGGGAAGCTCATAA
1 GAGAGCCTTTA-ATTGAGAAGCTCATGA
21231047 GAG
1 GAG
21231050 TTGCTGTGTG
Statistics
Matches: 68, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
24 4 0.06
25 15 0.22
26 4 0.06
27 41 0.60
28 4 0.06
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.24
Consensus pattern (27 bp):
GAGAGCCTTTAATTGAGAAGCTCATGA
Found at i:21231129 original size:24 final size:25
Alignment explanation
Indices: 21231102--21231202 Score: 71
Period size: 25 Copynumber: 4.1 Consensus size: 25
21231092 GATGCTCAAA
* *
21231102 AGAGCTAT-TAACGGGAAGCTCATG
1 AGAGCCATATAACAGGAAGCTCATG
* *
21231126 AGAGCCATATATCAGGAAGCTCGTG
1 AGAGCCATATAACAGGAAGCTCATG
* * * * *
21231151 AGAGTCATATATCATGAAACTCAAG
1 AGAGCCATATAACAGGAAGCTCATG
** * *
21231176 AGATTCA-ATATCAGGATGCTCATG
1 AGAGCCATATAACAGGAAGCTCATG
21231200 AGA
1 AGA
21231203 ACTAATAACG
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
24 23 0.37
25 39 0.63
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.23
Consensus pattern (25 bp):
AGAGCCATATAACAGGAAGCTCATG
Done.