Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 75 of 335
Found at i:25231665 original size:29 final size:30
Alignment explanation
Indices: 25231626--25231682 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
25231616 GTATTTAATA
* *
25231626 TTTTAATATTTAATATT-ATAATTTTCTAT
1 TTTTAAAATTTAAAATTAATAATTTTCTAT
*
25231655 TTTTAAAATTTAAAATTAATATTTTTCT
1 TTTTAAAATTTAAAATTAATAATTTTCT
25231683 TTTAAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTAAAATTTAAAATTAATAATTTTCTAT
Found at i:25237471 original size:28 final size:29
Alignment explanation
Indices: 25237401--25237471 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 29
25237391 TTAAAAACAA
* * ** *
25237401 AAAAATTAATAATTAAAATATTTCTTTAT
1 AAAATTTAATAATTCAAATAAATCATTAT
25237430 AAAATTTAA-AATTCAAATAAATCATTAT
1 AAAATTTAATAATTCAAATAAATCATTAT
25237458 -AAATTTAATAATTC
1 AAAATTTAATAATTC
25237472 CTATGCATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 8 0.22
28 20 0.56
29 8 0.22
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (29 bp):
AAAATTTAATAATTCAAATAAATCATTAT
Found at i:25238551 original size:22 final size:22
Alignment explanation
Indices: 25238525--25238571 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
25238515 ATAAATTCAC
25238525 TATAA-TAATATCCTATAT-AATA
1 TATAATTAATAT--TATATAAATA
25238547 TATAATTAATATTATATAAATA
1 TATAATTAATATTATATAAATA
25238569 TAT
1 TAT
25238572 TTTTATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 5 0.22
22 12 0.52
23 6 0.26
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (22 bp):
TATAATTAATATTATATAAATA
Found at i:25243684 original size:6 final size:6
Alignment explanation
Indices: 25243673--25243703 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
25243663 TGTTGTTCAA
25243673 TTCCTC TTCCTC TTCCTC TTCCTC TTCCTC T
1 TTCCTC TTCCTC TTCCTC TTCCTC TTCCTC T
25243704 CCTTCTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (6 bp):
TTCCTC
Found at i:25246644 original size:2 final size:2
Alignment explanation
Indices: 25246637--25246680 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
25246627 CCTCCTTTCA
25246637 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
25246679 CT
1 CT
25246681 TCACCACACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:25249353 original size:22 final size:22
Alignment explanation
Indices: 25249328--25249378 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
25249318 AATTTTCACG
25249328 CGTTTTTTGATCGTATTCCTGA
1 CGTTTTTTGATCGTATTCCTGA
25249350 CGTTTTTTGATCGTATTCCTGA
1 CGTTTTTTGATCGTATTCCTGA
*
25249372 CATTTTT
1 CGTTTTT
25249379 AATATTATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.14, C:0.18, G:0.16, T:0.53
Consensus pattern (22 bp):
CGTTTTTTGATCGTATTCCTGA
Found at i:25255222 original size:72 final size:72
Alignment explanation
Indices: 25255113--25256188 Score: 883
Period size: 72 Copynumber: 15.2 Consensus size: 72
25255103 TCCTTAGATA
* * * * *
25255113 CCTCTTCAAGTTCCTTATTTTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAAGACTCTCCTCC
1 CCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCACC
*
25255178 TTGGTTG
66 TTGGGTG
* *
25255185 CCT-TTCCAGGTTCCTTCTTCTCAACCAACTTTAGTTTTGGTACCTTTTCCTCAATACTCTCC-C
1 CCTCTT-CAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCAC
*
25255248 CTTTGGGTT
65 C-TTGGGTG
* * * * * * * **
25255257 CCTCTTCAGGTTCCTTAGTT-TCAACCAGCCTTGATTTTGGTACATTTTCCTCAACATTCCCCTT
1 CCTCTTCAGGTTCCTT-CTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCAC
25255321 CTTGGGTG
65 CTTGGGTG
* * * *** *
25255329 CGTCTTCAAGTTCCTTCTTCTCAATCAACTTTGGTTTCCATACCTTCTT-CTCAATACTCTCCAC
1 CCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTT-TTCCTCAACACTCTCCAC
* *
25255393 CTTAGGTA
65 CTTGGGTG
* * * * * * * *
25255401 TCTCTTCAAGTTCCTTCTTCTCAACTAACTTTGATTTTGGTACTTTTTCCTGAACCCTCTCCTCC
1 CCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCACC
25255466 TTGGGTG
66 TTGGGTG
* * * * **
25255473 CCTCATT-AGGTTTCTTCTTCTTAACCAAATTTGGTTTTGGTACCTTTTCCTCATCGGTCTCCAC
1 CCTC-TTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCAC
*
25255537 CTTGGGTA
65 CTTGGGTG
* * * *
25255545 CCTCCTT-AGG---CTCCTTCTCAACCAAATTTGGTTTTGATTCCTTTTCCTCAACACTCTCC-C
1 CCT-CTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCAC
25255605 CTTGGGTG
65 CTTGGGTG
* * * * * * *
25255613 CATCTTTAGGTTCCTTCTTCTCAATCAACTTCGGTTTTGGTA-ATTTCTTCTCAACACCCTCCAC
1 CCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTT-TCCTCAACACTCTCCAC
*
25255677 CTTGGGTA
65 CTTGGGTG
* * * * * * *
25255685 TCTCTTCAGGTTCCTTTTTCTCAACCAACTTTGATTTTGGTACTTTTTTCTCAACAATCTCCCCC
1 CCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCACC
*
25255750 TTGGGTA
66 TTGGGTG
* * * *
25255757 CCTCTTCAGG------------AACCAACTTTGATTTTGGTACTTTTTTCTCAACAGTCTCCACC
1 CCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCACC
*
25255810 TTGGGTA
66 TTGGGTG
* * * *
25255817 CCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGATACCTTTTCTTCAACACTCACCCCC
1 CCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCACC
*
25255882 TTGGATG
66 TTGGGTG
* * * * * * ** * ** *
25255889 CGTCCTCAGTTTCCTCCTCCTCGATTAACTTCGGTTTTGAAACCTTCTT-CTCACCACTCTCCAC
1 CCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTT-TTCCTCAACACTCTCCAC
*
25255953 CTTGGGTA
65 CTTGGGTG
* * * * *
25255961 TCACTTCAAGTTCCTTCTTCTCGACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCCCC
1 CCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCACC
* *
25256026 TTCGATG
66 TTGGGTG
* * * * * *
25256033 CGTCTTTAGGTTCTTTCTTCTCAATCGAA-TTTTGTTTTGGTACCTTCTT-CTCAACACTCTTCA
1 CCTCTTCAGGTTCCTTCTTCTCAA-CCAACTTTGGTTTTGGTACCTT-TTCCTCAACACTCTCCA
* *
25256096 CCTTGTGTA
64 CCTTGGGTG
** * * * * *
25256105 CCTCTTCAGGTTTTTTCTTCTCAACCAACTTTAGTTTTGCTACTTTTTCCTCAACATTCTCC-TC
1 CCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCACC
*
25256169 TTGGGATT
66 TTGGG-TG
*
25256177 TCTCTTCAGGTT
1 CCTCTTCAGGTT
25256189 TCTCCACCTT
Statistics
Matches: 798, Mismatches: 170, Indels: 72
0.77 0.16 0.07
Matches are distributed among these distances:
60 58 0.07
67 3 0.00
68 13 0.02
69 42 0.05
70 3 0.00
71 56 0.07
72 603 0.76
73 20 0.03
ACGTcount: A:0.16, C:0.30, G:0.12, T:0.42
Consensus pattern (72 bp):
CCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCACC
TTGGGTG
Found at i:25255373 original size:144 final size:144
Alignment explanation
Indices: 25255113--25256952 Score: 1196
Period size: 144 Copynumber: 12.8 Consensus size: 144
25255103 TCCTTAGATA
* * * *
25255113 CCTCTTCAAGTTCCTTATTTTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAAGACTCTCCTCC
1 CCTCTTCAGGTTCCTT-TTTTCAACCAACTTTGATTTTGGTACCTTTTCCTCAACACTCCCCTCC
* *
25255178 TTGGTTGCCT-TTCCAGGTTCCTTCTTCTCAACCAACTTTAGTTTTGGTACCTTTTCCTCAATAC
65 TTGGGTGCCTCTT-CAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAATAC
25255242 TCTCC-CCTTTGGGT-T
129 TCTCCACC-TTGGGTAT
* * * * * *
25255257 CCTCTTCAGGTTCCTTAGTTTCAACCAGCCTTGATTTTGGTACATTTTCCTCAACATTCCCCTTC
1 CCTCTTCAGGTTCCTT-TTTTCAACCAACTTTGATTTTGGTACCTTTTCCTCAACACTCCCCTCC
* * * ***
25255322 TTGGGTGCGTCTTCAAGTTCCTTCTTCTCAATCAACTTTGGTTTCCATACCTTCTT-CTCAATAC
65 TTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTT-TTCCTCAATAC
*
25255386 TCTCCACCTTAGGTAT
129 TCTCCACCTTGGGTAT
* * * * * * *
25255402 -CTCTTCAAGTTCCTTCTTCTCAACTAACTTTGATTTTGGTACTTTTTCCTGAACCCTCTCCTCC
1 CCTCTTCAGGTTCCTT-TTTTCAACCAACTTTGATTTTGGTACCTTTTCCTCAACACTCCCCTCC
* * *
25255466 TTGGGTGCCTCATT-AGGTTTCTTCTTCTTAACCAAATTTGGTTTTGGTACCTTTTCCTC-AT-C
65 TTGGGTGCCTC-TTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAATAC
25255528 GGTCTCCACCTTGGGTA-
129 --TCTCCACCTTGGGTAT
* * * * * * *
25255545 CCTCCTT-AGGCTCC--TTCTCAACCAAATTTGGTTTTGATTCCTTTTCCTCAACACTCTCC-CC
1 CCT-CTTCAGGTTCCTTTTTTCAACCAACTTTGATTTTGGTACCTTTTCCTCAACACTCCCCTCC
* * * * * * *
25255606 TTGGGTGCATCTTTAGGTTCCTTCTTCTCAATCAACTTCGGTTTTGGTA-ATTTCTTCTCAACAC
65 TTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTT-TCCTCAATAC
*
25255670 CCTCCACCTTGGGTAT
129 TCTCCACCTTGGGTAT
* * *
25255686 -CTCTTCAGGTTCCTTTTTCTCAACCAACTTTGATTTTGGTACTTTTTTCTCAACAATCTCCC-C
1 CCTCTTCAGGTTCCTTTTT-TCAACCAACTTTGATTTTGGTACCTTTTCCTCAACACTC-CCCTC
* * * * * *
25255749 CTTGGGTACCTCTTCAGG------------AACCAACTTTGATTTTGGTACTTTTTTCTCAACAG
64 CTTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAATAC
25255802 TCTCCACCTTGGGTA-
129 TCTCCACCTTGGGTAT
* * * *
25255817 CCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGATACCTTTTCTTCAACACTCACCC-C
1 CCTCTTCAGGTTCCTT-TTTTCAACCAACTTTGATTTTGGTACCTTTTCCTCAACACTC-CCCTC
* * * * * * * ** * ** **
25255881 CTTGGATGCGTCCTCAGTTTCCTCCTCCTCGATTAACTTCGGTTTTGAAACCTTCTT-CTCACCA
64 CTTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTT-TTCCTCAATA
25255945 CTCTCCACCTTGGGTAT
128 CTCTCCACCTTGGGTAT
* * * * *
25255962 -CACTTCAAGTTCCTTCTTCTCGACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCC-C
1 CCTCTTCAGGTTCCTT-TTTTCAACCAACTTTGATTTTGGTACCTTTTCCTCAACACTC-CCCTC
* * * * * * * *
25256025 CTTCGATGCGTCTTTAGGTTCTTTCTTCTCAATCGAA-TTTTGTTTTGGTACCTTCTT-CTCAAC
64 CTTGGGTGCCTCTTCAGGTTCCTTCTTCTCAA-CCAACTTTGGTTTTGGTACCTT-TTCCTCAAT
* *
25256088 ACTCTTCACCTTGTGTA-
127 ACTCTCCACCTTGGGTAT
* * * * *
25256105 CCTCTTCAGGTT-TTTTCTTCTCAACCAACTTT-AGTTTTGCTACTTTTTCCTCAACATTCTCCT
1 CCTCTTCAGGTTCCTTT-TT-TCAACCAACTTTGA-TTTTGGTACCTTTTCCTCAACACTCCCCT
**
25256168 -CTTGGGATTTCTCTTCAGGTTTCTCCACCTTGGGTACCTCCTTCTCAACCAACTTTGGTTTTGG
63 CCTTGGG-TGCCTCTTCAGG--T-T---CC-----T---T-CTTCTCAACCAACTTTGGTTTTGG
* * *
25256232 TACCTTTTCCTCAACAATCTCCACCTTGGGTGT
112 TACCTTTTCCTCAATACTCTCCACCTTGGGTAT
* ** * * * * *
25256265 -GTCTTCAGGTTCCTTTTTCTTGATCAACTTTGGTTTTGGTGCCTTCTT-CTCAACACTCTCCAC
1 CCTCTTCAGGTTCCTTTTT-TCAACCAACTTTGATTTTGGTACCTT-TTCCTCAACACTCCCCTC
* * ** * * * *
25256328 CTTGGGTACCTCTTCAAGTTTTTTCTTTTCAACCAACTTT-G--CT-G--CTTTTTCCTCAACAC
64 CTTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAATAC
* *
25256387 TCTCCCCCTTGGGT-G
129 TCTCCACCTTGGGTAT
* * * * * * * *
25256402 CCTCTTCAAGTTTCTTCTTCTCTACCAACTTTGGTTCTGGTACCTTTTCCTCAACACTCTCCACC
1 CCTCTTCAGGTTCCTT-TTTTCAACCAACTTTGATTTTGGTACCTTTTCCTCAACACTCCCCTCC
* * * * * *
25256467 TTGGGTACCTCTTCAGGTTCCTTCTTCTCAACCAAATTTTGTTCTGGTACCTTTTCCCCAACACT
65 TTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAATACT
*
25256532 CTCCACCTTGCGTA-
130 CTCCACCTTGGGTAT
* * **
25256546 CCTCTTCAGGTTCC--TTCTCAACCAACTTTGATTTTGGTACCTTTTCCTCAACATTGTTCC-CC
1 CCTCTTCAGGTTCCTTTTTTCAACCAACTTTGATTTTGGTACCTTTTCCTCAACACT-CCCCTCC
** * * * * * *
25256608 TTACGTACTTCTTCAGATTCCTTCTTATCAACCAACTTTGATTTTGGTACCTTTTCCTCAACACT
65 TTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAATACT
25256673 CTCCACCTTGGGTA-
130 CTCCACCTTGGGTAT
** * * * * * * * *
25256687 CCTCTTTTGGTTCCTTCTTCTCAGCCGACTTTGGTTTTGGTACCTGTTCCTCAATAGTCTCCTCC
1 CCTCTTCAGGTTCCTT-TTTTCAACCAACTTTGATTTTGGTACCTTTTCCTCAACACTCCCCTCC
* * * * * * *
25256752 TTGGGTACCTCTTTAGGTTCATTGGTTTCAGTTTTAACCAACTTTGGTTTTGGCACCTTTTCCTT
65 TTGGGTGCCTCTTCAGGTTCCTT--CTTC----TCAACCAACTTTGGTTTTGGTACCTTTTCCTC
* * * * *
25256817 AACACTCTCCTCTTTGAGCAT
124 AATACTCTCCACCTTGGGTAT
* * ** * * * * ** ** *
25256838 -CTGTTCAGTTTCCTTATTTTTGACCAGCTTTGGTTTTGGCACCTTTTGCTCAACGTTTTCCTTC
1 CCTCTTCAGGTTCCTT-TTTTCAACCAACTTTGATTTTGGTACCTTTTCCTCAACACTCCCCTCC
* * * * * **
25256902 TTGGGTACCTTTTCAGGTTTCTTCTTTTCAGCCAACTTCAGTTTTGGTACC
65 TTGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACC
25256953 GTCTCAGCTT
Statistics
Matches: 1345, Mismatches: 263, Indels: 176
0.75 0.15 0.10
Matches are distributed among these distances:
132 105 0.08
133 5 0.00
137 2 0.00
138 109 0.08
139 11 0.01
140 69 0.05
141 160 0.12
142 9 0.01
143 49 0.04
144 578 0.43
145 17 0.01
146 3 0.00
147 1 0.00
148 3 0.00
150 109 0.08
155 1 0.00
156 1 0.00
157 1 0.00
158 6 0.00
159 95 0.07
160 11 0.01
ACGTcount: A:0.15, C:0.30, G:0.13, T:0.42
Consensus pattern (144 bp):
CCTCTTCAGGTTCCTTTTTTCAACCAACTTTGATTTTGGTACCTTTTCCTCAACACTCCCCTCCT
TGGGTGCCTCTTCAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAATACTC
TCCACCTTGGGTAT
Found at i:25255513 original size:216 final size:216
Alignment explanation
Indices: 25255115--25256771 Score: 668
Period size: 216 Copynumber: 7.7 Consensus size: 216
25255105 CTTAGATACC
* *** *
25255115 TCTTCAAGTTCCTTATTTTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAAGACTCTCCTCCTT
1 TCTTCAAGTTCCTTATTCTCAACCAACTTTGGTTTCCATACCTTTTCCTCAAGACTCTCCACCTT
* *
25255180 GGTTGCCTTTCCAGGTTCCTTCTTCTCAACCAACTTTAGTTTTGGTACCTTTTCCTCAATACTCT
66 GGTTGCCTTTCCAAGTTCCTTCTTCTCAACCAACTTTAGTTTTGGTACCTTTTCCTCAACACTCT
* * **
25255245 CCCCTTTGGGTTCCTCTTCAGGTTCCTTAGTTTCAACCAGCCTTGATTTTGGTACATTTTCCTCA
131 CCCCTTTGGGTGCCTCTTCAGGTTCCTTACTTTCAACCAAACTTGATTTTGGTACATTTTCCTCA
25255310 ACATTCCCCTTCTTGGGTGCG
196 ACATTCCCCTTCTTGGGTGCG
* * *
25255331 TCTTCAAGTTCCTTCTTCTCAATCAACTTTGGTTTCCATACCTTCTT-CTCAATACTCTCCACCT
1 TCTTCAAGTTCCTTATTCTCAACCAACTTTGGTTTCCATACCTT-TTCCTCAAGACTCTCCACCT
* * *
25255395 TAGGTAT--CTCTT-CAAGTTCCTTCTTCTCAACTAACTTT-GATTTTGGTACTTTTTCCTGAAC
65 T-GGT-TGCCT-TTCCAAGTTCCTTCTTCTCAACCAACTTTAG-TTTTGGTACCTTTTCCTCAAC
* * * * * *
25255456 CCTCTCCTCC-TTGGGTGCCTCATT-AGGTTTCTT-CTTCTTAACCAAATTTGGTTTTGGTACCT
126 ACTCTCC-CCTTTGGGTGCCTC-TTCAGGTTCCTTACTT-TCAACCAAACTTGATTTTGGTACAT
* ** * ** * *
25255518 TTTCCTCATCGGTCTCCACCTTGGGTACC
188 TTTCCTCAACATTCCCCTTCTTGGGTGCG
* * * ** * *
25255547 TCCTT-AGGCTCC---TTCTCAACCAAATTTGGTTTTGATTCCTTTTCCTCAACACTCTCC-CCT
1 T-CTTCAAGTTCCTTATTCTCAACCAACTTTGGTTTCCATACCTTTTCCTCAAGACTCTCCACCT
* * * ** * *
25255607 TGGGTGCATCTTT--AGGTTCCTTCTTCTCAATCAACTTCGGTTTTGGTA-ATTTCTTCTCAACA
65 TGGTTGC--CTTTCCAAGTTCCTTCTTCTCAACCAACTTTAGTTTTGGTACCTTT-TCCTCAACA
* ** * *
25255669 CCCTCCACC-TTGGGTATCTCTTCAGGTTCCTT-TTTCTCAACC-AACTTTGATTTTGGTACTTT
127 CTCTCC-CCTTTGGGTGCCTCTTCAGGTTCCTTACTT-TCAACCAAAC-TTGATTTTGGTACATT
* *
25255731 TTTCTCAACAATCTCCCC--CTTGGGTAC-
189 TTCCTCAAC-AT-TCCCCTTCTTGGGTGCG
** * *** * * * *
25255758 -C-TC---TT-C--A---GGAACCAACTTTGATTTTGGTACTTTTTTCTCAACAGTCTCCACCTT
1 TCTTCAAGTTCCTTATTCTCAACCAACTTTGGTTTCCATACCTTTTCCTCAAGACTCTCCACCTT
* * * * * *
25255812 GGGTACCTCTT-CAGGTTCCTTCTTCTCAACCAACTTTGGTTTTGATACCTTTTCTTCAACACTC
66 GGTTGCCT-TTCCAAGTTCCTTCTTCTCAACCAACTTTAGTTTTGGTACCTTTTCCTCAACACTC
* * * * * * * * * ** * ** *
25255876 ACCCCCTTGGATGCGTCCTCAGTTTCC-TCCTCCTCGA-TTAACTTCGGTTTTGAAACCTTCTT-
130 TCCCCTTTGGGTGCCTCTTCAGGTTCCTTACT-TTCAACCAAACTT-GATTTTGGTACATT-TTC
* * * ** *
25255938 CTCACCACTCTCCACCTTGGGTATC-
192 CTCAACATTCCCCTTCTTGGGT-GCG
* * * *** * *
25255963 ACTTCAAGTTCCTTCTTCTCGACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCCCCTT
1 TCTTCAAGTTCCTTATTCTCAACCAACTTTGGTTTCCATACCTTTTCCTCAAGACTCTCCACCTT
* * * * * *
25256028 CGATGCGTCTTT--AGGTTCTTTCTTCTCAATCGAA-TTTTGTTTTGGTACCTTCTT-CTCAACA
66 GGTTGC--CTTTCCAAGTTCCTTCTTCTCAA-CCAACTTTAGTTTTGGTACCTT-TTCCTCAACA
* * * * * * * *
25256089 CTCTTCACC-TTGTGTACCTCTTCAGGTT-TTTTCTTCTCAACC-AACTTTAGTTTTGCTACTTT
127 CTC-TCCCCTTTGGGTGCCTCTTCAGGTTCCTTACTT-TCAACCAAACTTGA-TTTTGGTACATT
* *
25256151 TTCCTCAACATTCTCC-TCTTGGGATTTC-
189 TTCCTCAACATTCCCCTTCTTGGG--TGCG
* ***
25256179 TCTTCAGGTTTCTCCACCTTGGGTACCTCCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTC
1 TCTTCAAG--T-T---CC-T---TA-----TTCTCAACCAACTTTGGTTTCCATACCTTTTCCTC
* * * * * ** * * *
25256244 AACAATCTCCACCTTGGGTGTGTC-TT-CAGGTTCCTTTTTCTTGATCAACTTTGGTTTTGGTGC
51 AAGACTCTCCACCTT-GGT-TGCCTTTCCAAGTTCCTTCTTCTCAACCAACTTTAGTTTTGGTAC
* * * *
25256307 CTTCTT-CTCAACACTCTCCACC-TTGGGTACCTCTTCAAGTT-TTTTCTTTTCAACC-AAC---
114 CTT-TTCCTCAACACTCTCC-CCTTTGGGTGCCTCTTCAGGTTCCTTAC-TTTCAACCAAACTTG
* * * *
25256365 --TTTGCTGCTTTTTCCTCAACACTCTCCCC--CTTGGGTGCC
176 ATTTTGGTACATTTTCCTCAACA-T-TCCCCTTCTTGGGTGCG
* * * ** *
25256404 TCTTCAAGTTTCTTCTTCTCTACCAACTTTGG-TTCTGGTACCTTTTCCTCAACACTCTCCACCT
1 TCTTCAAGTTCCTTATTCTCAACCAACTTTGGTTTC-CATACCTTTTCCTCAAGACTCTCCACCT
* * * * * * *
25256468 TGGGTACCTCTT-CAGGTTCCTTCTTCTCAACCAAATTTTGTTCTGGTACCTTTTCCCCAACACT
65 TGGTTGCCT-TTCCAAGTTCCTTCTTCTCAACCAACTTTAGTTTTGGTACCTTTTCCTCAACACT
* * *
25256532 CTCCACC-TTGCGTACCTCTTCAGGTTCCTT-C--TCAACC-AACTTTGATTTTGGTACCTTTTC
129 CTCC-CCTTTGGGTGCCTCTTCAGGTTCCTTACTTTCAACCAAAC-TTGATTTTGGTACATTTTC
* ** * *
25256592 CTCAACATTGTTCCC--CTTACGTACT
192 CTCAACA-T-TCCCCTTCTTGGGTGCG
* * * *** *
25256617 TCTTC-AGATTCCTTCTTATCAACCAACTTTGATTTTGGTACCTTTTCCTCAACACTCTCCACCT
1 TCTTCAAG-TTCCTTATTCTCAACCAACTTTGGTTTCCATACCTTTTCCTCAAGACTCTCCACCT
* * *** * * * * * *
25256681 TGGGTACCTCTT-TTGGTTCCTTCTTCTCAGCCGACTTTGGTTTTGGTACCTGTTCCTCAATAGT
65 TGGTTGCCT-TTCCAAGTTCCTTCTTCTCAACCAACTTTAGTTTTGGTACCTTTTCCTCAACACT
* *
25256745 CTCCTCC-TTGGGTACCTCTTTAGGTTC
129 CTCC-CCTTTGGGTGCCTCTTCAGGTTC
25256772 ATTGGTTTCA
Statistics
Matches: 1135, Mismatches: 211, Indels: 193
0.74 0.14 0.13
Matches are distributed among these distances:
202 6 0.01
203 41 0.04
204 96 0.08
205 7 0.01
206 2 0.00
207 11 0.01
208 3 0.00
209 7 0.01
210 114 0.10
211 12 0.01
212 105 0.09
213 198 0.17
214 8 0.01
215 12 0.01
216 302 0.27
217 25 0.02
218 5 0.00
219 2 0.00
222 3 0.00
223 2 0.00
224 2 0.00
225 27 0.02
226 8 0.01
227 4 0.00
230 6 0.01
231 122 0.11
232 3 0.00
233 2 0.00
ACGTcount: A:0.16, C:0.31, G:0.12, T:0.41
Consensus pattern (216 bp):
TCTTCAAGTTCCTTATTCTCAACCAACTTTGGTTTCCATACCTTTTCCTCAAGACTCTCCACCTT
GGTTGCCTTTCCAAGTTCCTTCTTCTCAACCAACTTTAGTTTTGGTACCTTTTCCTCAACACTCT
CCCCTTTGGGTGCCTCTTCAGGTTCCTTACTTTCAACCAAACTTGATTTTGGTACATTTTCCTCA
ACATTCCCCTTCTTGGGTGCG
Found at i:25255780 original size:60 final size:60
Alignment explanation
Indices: 25255707--25255826 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 60
25255697 CCTTTTTCTC
*
25255707 AACCAACTTTGATTTTGGTACTTTTTTCTCAACAATCTCCCCCTTGGGTACCTCTTCAGG
1 AACCAACTTTGATTTTGGTACTTTTTTCTCAACAATCTCCACCTTGGGTACCTCTTCAGG
*
25255767 AACCAACTTTGATTTTGGTACTTTTTTCTCAACAGTCTCCACCTTGGGTACCTCTTCAGG
1 AACCAACTTTGATTTTGGTACTTTTTTCTCAACAATCTCCACCTTGGGTACCTCTTCAGG
25255827 TTCCTTCTTC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.20, C:0.28, G:0.14, T:0.38
Consensus pattern (60 bp):
AACCAACTTTGATTTTGGTACTTTTTTCTCAACAATCTCCACCTTGGGTACCTCTTCAGG
Found at i:25255807 original size:132 final size:132
Alignment explanation
Indices: 25255638--25255885 Score: 363
Period size: 132 Copynumber: 1.9 Consensus size: 132
25255628 TCTTCTCAAT
* * *
25255638 CAACTTCGGTTTTGGTAATTTCTTCTCAACACCCTCCACCTTGGGTATCTCTTCAGGTTCCTTTT
1 CAACTTCGATTTTGGTAATTTCTTCTCAACACCCTCCACCTTGGGTACCTCTTCAGGTTCCTTCT
* * *
25255703 TCTCAACCAACTTTGATTTTGGTA-CTTTTTTCTCAACAATCTCCCCCTTGGGTACCTCTTCAGG
66 TCTCAACCAACTTTGATTTTGATACCTTTTCT-TCAACAATCACCCCCTTGGGTACCTCTTCAGG
25255767 AAC
130 AAC
* * * **
25255770 CAACTTTGATTTTGGTACTTTTTTCTCAACAGTCTCCACCTTGGGTACCTCTTCAGGTTCCTTCT
1 CAACTTCGATTTTGGTAATTTCTTCTCAACACCCTCCACCTTGGGTACCTCTTCAGGTTCCTTCT
* *
25255835 TCTCAACCAACTTTGGTTTTGATACCTTTTCTTCAACACTCACCCCCTTGG
66 TCTCAACCAACTTTGATTTTGATACCTTTTCTTCAACAATCACCCCCTTGG
25255886 ATGCGTCCTC
Statistics
Matches: 102, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
132 96 0.94
133 6 0.06
ACGTcount: A:0.18, C:0.30, G:0.12, T:0.40
Consensus pattern (132 bp):
CAACTTCGATTTTGGTAATTTCTTCTCAACACCCTCCACCTTGGGTACCTCTTCAGGTTCCTTCT
TCTCAACCAACTTTGATTTTGATACCTTTTCTTCAACAATCACCCCCTTGGGTACCTCTTCAGGA
AC
Found at i:25256303 original size:72 final size:72
Alignment explanation
Indices: 25256208--25256952 Score: 645
Period size: 72 Copynumber: 10.4 Consensus size: 72
25256198 TGGGTACCTC
* * ***
25256208 CTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACAATCTCCACCTTGGGTGTGTCTTCAG
1 CTTCTTAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCACCTTGGGTACCTCTTCAG
25256273 GTTCCTT
66 GTTCCTT
* * * *
25256280 TTTCTTGATCAACTTTGGTTTTGGTGCCTTCTT-CTCAACACTCTCCACCTTGGGTACCTCTTCA
1 CTTCTTAACCAACTTTGGTTTTGGTACCTT-TTCCTCAACACTCTCCACCTTGGGTACCTCTTCA
* **
25256344 AGTTTTTT
65 GGTTCCTT
* * * *
25256352 CTT-TTCAACCAACTTT-G--CT-G--CTTTTTCCTCAACACTCTCCCCCTTGGGTGCCTCTTCA
1 CTTCTT-AACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCACCTTGGGTACCTCTTCA
* *
25256410 AGTTTCTT
65 GGTTCCTT
*
25256418 CTTCTCT-ACCAACTTTGGTTCTGGTACCTTTTCCTCAACACTCTCCACCTTGGGTACCTCTTCA
1 CTTCT-TAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCACCTTGGGTACCTCTTCA
25256482 GGTTCCTT
65 GGTTCCTT
* * * * * *
25256490 CTTCTCAACCAAATTTTGTTCTGGTACCTTTTCCCCAACACTCTCCACCTTGCGTACCTCTTCAG
1 CTTCTTAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCACCTTGGGTACCTCTTCAG
25256555 GTTCCTT
66 GTTCCTT
* * * ** *
25256562 C-TC--AACCAACTTTGATTTTGGTACCTTTTCCTCAACATTGTTCC-CCTTACGTACTTCTTCA
1 CTTCTTAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACT-CTCCACCTTGGGTACCTCTTCA
*
25256623 GATTCCTT
65 GGTTCCTT
* * * **
25256631 CTTATCAACCAACTTTGATTTTGGTACCTTTTCCTCAACACTCTCCACCTTGGGTACCTCTTTTG
1 CTTCTTAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCACCTTGGGTACCTCTTCAG
25256696 GTTCCTT
66 GTTCCTT
* * * * * * * *
25256703 CTTCTCAGCCGACTTTGGTTTTGGTACCTGTTCCTCAATAGTCTCCTCCTTGGGTACCTCTTTAG
1 CTTCTTAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCACCTTGGGTACCTCTTCAG
*
25256768 GTTCATT
66 GTTCCTT
* * * * * * * *
25256775 GGTTTCAGTTTTAACCAACTTTGGTTTTGGCACCTTTTCCTTAACACTCTCCTCTTTGAGCATCT
1 --CTTC----TTAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCACCTTGGGTACCT
* *
25256840 GTTCAGTTTCCTT
60 CTTCAGGTTCCTT
* * * * * * ** * ** *
25256853 ATTTTTGACCAGCTTTGGTTTTGGCACCTTTTGCTCAACGTTTTCCTTCTTGGGTACCTTTTCAG
1 CTTCTTAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCACCTTGGGTACCTCTTCAG
*
25256918 GTTTCTT
66 GTTCCTT
* **
25256925 CTT-TTCAGCCAACTTCAGTTTTGGTACC
1 CTTCTT-AACCAACTTTGGTTTTGGTACC
25256953 GTCTCAGCTT
Statistics
Matches: 549, Mismatches: 100, Indels: 48
0.79 0.14 0.07
Matches are distributed among these distances:
65 2 0.00
66 51 0.09
67 2 0.00
68 2 0.00
69 56 0.10
70 5 0.01
71 10 0.02
72 362 0.66
73 2 0.00
74 3 0.01
76 2 0.00
78 52 0.09
ACGTcount: A:0.15, C:0.30, G:0.13, T:0.42
Consensus pattern (72 bp):
CTTCTTAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCACCTTGGGTACCTCTTCAG
GTTCCTT
Found at i:25256672 original size:141 final size:141
Alignment explanation
Indices: 25256212--25256764 Score: 584
Period size: 141 Copynumber: 3.9 Consensus size: 141
25256202 TACCTCCTTC
* * ***
25256212 TCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACAATCTCCACCTTGGGTGTGTCTTCAGGTTC
1 TCAACCAACTTT-GTTCTGGTACCTTTTCCTCAACACTCTCCACCTTGGGTACCTCTTCAGGTT-
* ** * *
25256277 CTTTTTCTTGATCAACTTTGGTTTTGGTGCCTTCTT-CTCAACACTCTCCACCTTGGGTACCTCT
64 C-TCTTCTCAACCAACTTTGGTTTTGGTACCTT-TTCCTCAACACTCTCCACCTTGGGTACCTCT
** *
25256341 TCA-AGTTTTTTCTTT
127 TCAGA-TTCCTTCTTA
* * * *
25256356 TCAACCAACTTTG--CT-G--CTTTTTCCTCAACACTCTCCCCCTTGGGTGCCTCTTCAAGTTTC
1 TCAACCAACTTTGTTCTGGTACCTTTTCCTCAACACTCTCCACCTTGGGTACCTCTTC-AGGTTC
* *
25256416 TTCTTCTCTACCAACTTTGGTTCTGGTACCTTTTCCTCAACACTCTCCACCTTGGGTACCTCTTC
65 -TCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCACCTTGGGTACCTCTTC
* *
25256481 AGGTTCCTTCTTC
129 AGATTCCTTCTTA
* * *
25256494 TCAACCAAATTTTGTTCTGGTACCTTTTCCCCAACACTCTCCACCTTGCGTACCTCTTCAGGTTC
1 TCAACC-AACTTTGTTCTGGTACCTTTTCCTCAACACTCTCCACCTTGGGTACCTCTTCAGGTTC
* * * ** *
25256559 -CTTCTCAACCAACTTTGATTTTGGTACCTTTTCCTCAACATTGTTCC-CCTTACGTACTTCTTC
65 TCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACT-CTCCACCTTGGGTACCTCTTC
25256622 AGATTCCTTCTTA
129 AGATTCCTTCTTA
* **
25256635 TCAACCAACTTTGATTTTGGTACCTTTTCCTCAACACTCTCCACCTTGGGTACCTCTTTTGGTTC
1 TCAACCAACTTTG-TTCTGGTACCTTTTCCTCAACACTCTCCACCTTGGGTACCTCTTCAGGTT-
* * * * * *
25256700 CTTCTTCTCAGCCGACTTTGGTTTTGGTACCTGTTCCTCAATAGTCTCCTCCTTGGGTACCTCTT
64 C-TCTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCACCTTGGGTACCTCTT
25256765 TAGGTTCATT
Statistics
Matches: 344, Mismatches: 50, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
137 2 0.01
138 103 0.30
139 10 0.03
140 7 0.02
141 116 0.34
142 5 0.01
143 9 0.03
144 92 0.27
ACGTcount: A:0.15, C:0.31, G:0.12, T:0.41
Consensus pattern (141 bp):
TCAACCAACTTTGTTCTGGTACCTTTTCCTCAACACTCTCCACCTTGGGTACCTCTTCAGGTTCT
CTTCTCAACCAACTTTGGTTTTGGTACCTTTTCCTCAACACTCTCCACCTTGGGTACCTCTTCAG
ATTCCTTCTTA
Found at i:25257006 original size:117 final size:117
Alignment explanation
Indices: 25256859--25260398 Score: 2277
Period size: 117 Copynumber: 30.0 Consensus size: 117
25256849 CCTTATTTTT
* * * *
25256859 GACCAGCTTTGGTTTTGGCACCTTTTGCTCAACGTTTTCCTTCTTGGGTACCTTTTCAGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
* *
25256924 TCTTTTCAGCCAACTTCAGTTTTGGTACCGTCTCAGCTTCAGCTTCAGCTTC
66 TCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCTTC
* * * * *
25256976 AACCAACTTTGTTTTTGGCACCTTTTGCTCAGCACTTTCCTCCTTGGGTACCTCTTCATGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
* * * * *
25257041 TGTTTTCAGCCAACATCAGTTTAGGTACCTTCTCTGCTTCAGCTTCAGCATG
66 TCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCTTC
* * * * *
25257093 GACCAACTTTGGTTTTGGGACCTCTTGCTCAACACTTTCCACCTTGGGTACCTCTTCAGATTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
*
25257158 TCGTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGC-T----TT-
66 TCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCTTC
* * * *
25257204 GACCAACTTTGGTTTTGGCAACTTTTGCTCAAAGGTTTCCTCCTTGGTTACCTCTTCAGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
* *
25257269 TCTTTTCAAG-CAATATCAATTTTGGTACC-T-T---C-TCAGCTTCAGCTTC
66 TCTTTTC-AGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCTTC
* * *
25257315 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGCTACCTCTTCAAGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
* * * * **
25257380 TCTTTGCAGCCATCATCTGTTTTGGTACCTTCTCAGGTTCAGCCTTC-TTTTC
66 TCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAG-CTTCAGCTTC
* * * * * *
25257432 GACCAACTTTGGTTTGGGCATCTTTTGCTGAACGCTTTCCT-C--GGTTACCTCTTTAGGATTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
* *
25257494 TCTTTTCAGACAACATCAGTTTTGGTA-CTT-T---C-TCAGCTTCAGCATC
66 TCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCTTC
* *
25257540 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTTAGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
*
25257605 TCTTTTCCGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGC-T----TT-
66 TCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCTTC
* *
25257651 GACCAACTTTGGTTTTGGCAACTTTTGCTCAACGCTTTCCTCCTTGGGTAACTCTTCAGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
* * **
25257716 TCTTTTCAACC-ACTATCAATTGCGGTACCTTCT---CTT---CTTCAGCTTC
66 TCTTTTCAGCCAAC-ATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCTTC
* * * * *
25257762 GACCAACTGTGGTTTTGGTACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCCTCAAGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
** * * * * ***
25257827 TCAGTTCAGCCATCATCTGTTTTGGTACCTTCTCAGCCTCATCTTCCTTTTC
66 TCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCTTC
* * * * *
25257879 GACCAACTTTGGTTTGGGCACCTTTTGCTCAATGCTGTCGTCCTTGGTTACCTCTTCAGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
* *
25257944 TCTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCATC
66 TCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCTTC
* * * * ** *
25257996 GACCAGCTTTGGTTTTGGCCCCTTTTGCTCAACGTTTTCCTCCATCTGTACCTCTTCATGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
** *
25258061 TCTTTTCAGCCAATTTCAGTTTTGGTACCTTCTCATCTTCAGCTGCGACTTCAGCCTCCTTTTC
66 TCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCA-----G-CTTCAG----C--TTC
* * *
25258125 GATCAACTTCT-GTTTTCGCACCTTTTGCTCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTC
1 GACCAACTT-TGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTC
* *
25258189 TTCTTTTCTGCCAACATCAGTTTTGGTA-CTT-T---C-TCAGTTTCAGCTTC
65 TTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCTTC
* * * * ** * *
25258236 TACCAACTTTAGTTTTGGCGCCTTTTGCTCAACGCTTTCCTCCATCTGTTCCTCTTCATGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
* ** *
25258301 TCTTTTCAGCTAATTTCAGTTTTGGTACCTTCTCATCTTCAGCTGCAACTTCAGCCTCCTTTTC
66 TCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCA---G---CTTCAG----C--TTC
** *
25258365 GACCAACTTCT-GTTTTGTTACCTTTTGCTCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTC
1 GACCAACTT-TGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTC
*
25258429 TTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCA---T---CTTC
65 TTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCTTC
* * * * * * *
25258476 GACCAACTTTTGTTTTGGCACATTTTTCTCAACACTTTCCTCCTTGGGCT-GCTCATCAAGTTTC
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGG-TACCTCTTCAGGTTTC
* * *
25258540 TTCTTTTCAGCCAAAATCAGTTTTGATACCTTCTCAGCTTCAGCCTC--CTTTAC
65 TTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGC-TT-C
* * * * *
25258593 GACTAACTTTGGTTTTGGCACCTTTTGCTCAATGCTTTTCTCCTTGGTTACATCTTCAGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
** *
25258658 TCTTTTCAGCCAATGTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCATC
66 TCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCTTC
* * *
25258710 GACCAGCTTTGGTTTTGGCCCCTTTTGCTCAA-------C-AC-T---TACCTCTTCAGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
* *** *** ** * ** ***
25258763 TCTTTTCAGCCAACTTTAGTTTTGGTACCTTCTCGGCTTCAGCTTCAG-TCTCCTTTTC
66 TCTTTTCAG-CCAACATCAGTTT--T-GGTAC-CTTC-TCAGCTTCAGCT-TCAGCTTC
* * *
25258821 GACCAACTTTGGTTTTGGCACCATTTGCTCAACACTTTCCTCCTCGGGTACCTCTTCAGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
* * *
25258886 T-TGTTTCAGCCAACTTCTGTTTTGGTACATTCTCAGCTTCAGCTTCAGCTTC
66 TCT-TTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCTTC
* ** * ** * * **** * * *
25258938 -AGCTTCGGTCTCCTTTTCG-ACCAATTTTGGTTTTGGC--ACCT--TTTGCTCAACACTTTCCT
1 GACCAAC--TTTGGTTTTGGCACC--TTTTGCTCAACGCTTTCCTCCTTGGGT--AC-C--T-CT
* * * * **** * * * *
25258997 CCATGGGTAC--CTCTTCAGGTTTCTTC--TTTTCG-ACCAACTTCAGTTTTGGTACCTTCTTAG
56 TCA-GGTTTCTTCTTTTCAGCCAACATCAGTTTTGGTA-C--CTTC-----T--CAGCTTC--AG
25259057 CTTCAGCTTC
108 CTTCAGCTTC
* * * * * **
25259067 -AGCTTC-AGTTTGAATCTCCTTTCCGACCAACTTTGGTGTTGGCAC-CATTTCCTCCTTGGGTA
1 GA-C--CAACTTTG---GT--TTT--G-GCACCTTT--TGCT-CAACGC-TTTCCTCCTTGGGTA
* * ** *
25259129 CCTCTTCAGGTTTCTT-TTTT--TCCATGACTTTCAGTTTTATTACATTCTCAGCTTCAGCTTCA
51 CCTCTTCAGGTTTCTTCTTTTCAGCCA--AC-ATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCA
25259191 GCCTCCTTTTC
113 G----C--TTC
* * * *
25259202 GACCAACTTTGGTTTTGGCACCATTTGCTCAACACTTTCCT-CTCTGTGTACCTCTTCAGGTTTA
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCT-TGGGTACCTCTTCAGGTTTC
* * * * * * *
25259266 TTCTTTTCAGCAAACTTCAGTTTTGCTTCAGC-T-TCAGCCTCAGCCTC--CTTTAT
65 TTCTTTTCAGCCAACATCAGTTTTG-GT-ACCTTCTCAGCTTCAGCTTCAGC-TT-C
* * * * * *
25259319 GACCAACTCTGGTTTTGGTACCTTTTGCTGAACACTTTCCTCCTTGGATACCTCATCAGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
* * * * *
25259384 TCTTTTCGGCCAACTTCAGTTTTGGTGCATTCTCAGCTTTAGCTTCAGCTCCAGCCTCCTTTTC
66 TCTTTTCAGCCAACATCAGTTTTGGTACCTTCT---C---AGCTTCAGCTTCAG----C--TTC
* * * * * *
25259448 GACCAACTTTGGTTTTGGTACCATTTGCTCTACACGTTCCT-C--AGGTACCTCTTCCA-GTTTC
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTT-CAGGTTTC
* * **
25259509 TTCTTTTCAGCAAACTTCAGTTTTGGTAAATTCTCAGCTTCAGCTTTAGCCTCAGCCTCCTTTTC
65 TTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGC--T----TCAG----C--TTC
* * * * * *
25259574 GACCAACTTTGGTTTCGGCACCTTTTGCTCAACACTTTTCTCCATGGATACCTCTTGAGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
* * * * *
25259639 TCTTTTCAACCAACTTCAGTTTTTGTACCTTCTCAGTTTCAGTTTCAGTTTCCTTTTC
66 TCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAG----C--TTC
* * * * * * *
25259697 AACTAGA-TTTGGTTTTGGCACCATTTGCTTGATA-G-TTTCCTCCCTGGGCACCTCTTTAGGTT
1 GACCA-ACTTTGGTTTTGGCACCTTTTGC-TCA-ACGCTTTCCTCCTTGGGTACCTCTTCAGGTT
* ** * * *
25259759 TCTTCTTTTCGGCCAAGTTCAGTTTTGGTACATTCTCAGCTTCAGC--CACCTTTTT
63 TCTTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGC--TTC
* ** *
25259814 GACCAACTTTGGTTTTGGCACCATTTTG-TCTATACTTTTCTCCTTGGGTACCTCTTCAGGTTTC
1 GACCAACTTTGGTTTTGGCACC-TTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTC
* * ** ** * * * ***
25259878 CTCTTTTCAGCAAAGTTCAGTTTTGGTAAATTTTCTGCTTCAGCCTCCTTTTC
65 TTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCTTC
* ** * * * * * *
25259931 AACCATGTTTGGTTTTGTCACCTTTTGCTCAACACTTTCCTCCGTGGGCACATCTTCGGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
* * * * ***
25259996 TATTTTCGGCCAACTTCAGTTCTGGTACCTTCTCAGCTTCAG-TCTCCTTTTC
66 TCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCT-TCAGCTTC
* * * * * *
25260048 -AGCCATCTTTGGTTCTGGCACCATTTGCTCAACACTTTTCTCCTCGGGTACCTCTTCAGGTTTC
1 GA-CCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTC
* * ** * * *
25260112 TTCTTTTCAGCAAACTTCAGTTTTGGTAAATTCTCAGGTTCAGCTTCATCCTCC
65 TTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCA-GCTTC
***** ** * * *
25260166 TTTTGGAC-CAGCTTTT-GCACCTTTTGCTTAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTC
1 -GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTC
* ** * ***
25260229 TTCTTTTCAGCCAACTTCAGTTTCAGTACCTCCTCAGCTTCAG-TCTCCTTTTC
65 TTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCT-TCAGCTTC
* *** * * * *
25260282 AACTGGCTTTGGTTTTGGCACCATTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCGGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
* * * *
25260347 TCTCTTCTGCCAACTTCAGTTTTGATACCTT-TGCAGCTTCAGCTTCAGCTTC
66 TCTTTTCAGCCAACATCAGTTTTGGTACCTTCT-CAGCTTCAGCTTCAGCTTC
25260399 AGCTGCAGTT
Statistics
Matches: 2692, Mismatches: 511, Indels: 440
0.74 0.14 0.12
Matches are distributed among these distances:
105 31 0.01
106 10 0.00
107 4 0.00
108 48 0.02
109 5 0.00
110 15 0.01
111 584 0.22
112 14 0.01
113 8 0.00
114 42 0.02
115 7 0.00
116 33 0.01
117 1104 0.41
118 37 0.01
119 12 0.00
120 26 0.01
121 7 0.00
122 16 0.01
123 192 0.07
124 17 0.01
125 3 0.00
126 98 0.04
127 13 0.00
128 5 0.00
129 287 0.11
130 5 0.00
131 6 0.00
132 3 0.00
133 3 0.00
134 8 0.00
135 4 0.00
136 8 0.00
137 8 0.00
138 13 0.00
140 6 0.00
141 6 0.00
143 4 0.00
ACGTcount: A:0.15, C:0.28, G:0.15, T:0.41
Consensus pattern (117 bp):
GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
TCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCTTC
Found at i:25257268 original size:111 final size:111
Alignment explanation
Indices: 25256856--25258741 Score: 1614
Period size: 111 Copynumber: 16.3 Consensus size: 111
25256846 TTTCCTTATT
* * * * * *
25256856 TTTGACCAGCTTTGGTTTTGGCACCTTTTGCTCAACGTTTTCCTTCTTGGGTACCTTTTCAGGTT
1 TTTGACCAACTTTGGTTTTGGCACCTTTTGCTCAAAGCTTTCCTCCTTGGTTACCTCTTCAGGTT
*
25256921 TCTTCTTTTCAGCCAACTTCAGTTTTGGTACCGTCTCAGCTTCAGCTTCAGC
66 TCTTCTTTTCAGCCAACATCAGTTTTGGTACC-T-T---C-TCAGCTTCAGC
** * * * *
25256973 TTCAACCAACTTTGTTTTTGGCACCTTTTGCTCAGCA-CTTTCCTCCTTGGGTACCTCTTCATGT
1 TTTGACCAACTTTGGTTTTGGCACCTTTTGCTCA-AAGCTTTCCTCCTTGGTTACCTCTTCAGGT
* * *
25257037 TTCTTGTTTTCAGCCAACATCAGTTTAGGTACCTTCTCTGCTTCAGC
65 TTCTTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGC
* * * *
25257084 TTCAGCATGGACCAACTTTGGTTTTGGGACCTCTTGCTCAACA-CTTTCCACCTTGGGTACCTCT
1 TT-----T-GACCAACTTTGGTTTTGGCACCTTTTGCTCAA-AGCTTTCCTCCTTGGTTACCTCT
* *
25257148 TCAGATTTCTTCGTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGC
59 TCAGGTTTCTTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGC
* *
25257201 TTTGACCAACTTTGGTTTTGGCAACTTTTGCTCAAAGGTTTCCTCCTTGGTTACCTCTTCAGGTT
1 TTTGACCAACTTTGGTTTTGGCACCTTTTGCTCAAAGCTTTCCTCCTTGGTTACCTCTTCAGGTT
* *
25257266 TCTTCTTTTCAAG-CAATATCAATTTTGGTACCTTCTCAGCTTCAGC
66 TCTTCTTTTC-AGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGC
* * *
25257312 TTCGACCAACTTTGGTTTTGGCACCTTTTGCTCAACA-CTTTCCTCCTTGGCTACCTCTTCAAGT
1 TTTGACCAACTTTGGTTTTGGCACCTTTTGCTCAA-AGCTTTCCTCCTTGGTTACCTCTTCAGGT
* * * *
25257376 TTCTTCTTTGCAGCCATCATCTGTTTTGGTACCTTCTCAGGTTCAGCCTTC
65 TTCTTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAG----C
* * * * *
25257427 TTTTCGACCAACTTTGGTTTGGGCATCTTTTGCTGAACGCTTTCCT-C--GGTTACCTCTTTAGG
1 -TTT-GACCAACTTTGGTTTTGGCACCTTTTGCTCAAAGCTTTCCTCCTTGGTTACCTCTTCAGG
* * *
25257489 ATTCTTCTTTTCAGACAACATCAGTTTTGGTACTTTCTCAGCTTCAGC
64 TTTCTTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGC
* * * *
25257537 ATCGACCAACTTTGGTTTTGGCACCTTTTGCTCAACA-CTTTCCTCCTTGGGTACCTCTTTAGGT
1 TTTGACCAACTTTGGTTTTGGCACCTTTTGCTCAA-AGCTTTCCTCCTTGGTTACCTCTTCAGGT
*
25257601 TTCTTCTTTTCCGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGC
65 TTCTTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGC
* * * *
25257648 TTTGACCAACTTTGGTTTTGGCAACTTTTGCTCAACGCTTTCCTCCTTGGGTAACTCTTCAGGTT
1 TTTGACCAACTTTGGTTTTGGCACCTTTTGCTCAAAGCTTTCCTCCTTGGTTACCTCTTCAGGTT
* * ** **
25257713 TCTTCTTTTCAACC-ACTATCAATTGCGGTACCTTCTCTTCTTCAGC
66 TCTTCTTTTCAGCCAAC-ATCAGTTTTGGTACCTTCTCAGCTTCAGC
* * * * * *
25257759 TTCGACCAACTGTGGTTTTGGTACCTTTTGCTCAACA-CTTTCCTCCTTGGGTACCTCCTCAAGT
1 TTTGACCAACTTTGGTTTTGGCACCTTTTGCTCAA-AGCTTTCCTCCTTGGTTACCTCTTCAGGT
** * * **
25257823 TTCTTCAGTTCAGCCATCATCTGTTTTGGTACCTTCTCAGCCTCATCTTCC
65 TTCTTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAG-CT--TC-AGC
* * * *
25257874 TTTTCGACCAACTTTGGTTTGGGCACCTTTTGCTCAATGCTGTCGTCCTTGGTTACCTCTTCAGG
1 -TTT-GACCAACTTTGGTTTTGGCACCTTTTGCTCAAAGCTTTCCTCCTTGGTTACCTCTTCAGG
*
25257939 TTTCTTCTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGC
64 TTTCTTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGC
* * * *
25257987 TTCAGCATCGACCAGCTTTGGTTTTGGCCCCTTTTGCTCAACGTTTTCCTCCATCT-G-TACCTC
1 TT-----T-GACCAACTTTGGTTTTGGCACCTTTTGCTCAAAGCTTTCCTCC-T-TGGTTACCTC
* ** *
25258050 TTCATGTTTCTTCTTTTCAGCCAATTTCAGTTTTGGTACCTTCTCATCTTCAGC
58 TTCAGGTTTCTTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGC
** * * ** * * ** ** * * *
25258104 TGCGACTTCAGC-CTCCTTTTCGATCAACTTCTGTTTTCGCACCTTTTGCTCAACGCTTTCCTCC
1 TTTGAC--CAACTTTGGTTTT-G-GCACCTT-T-TGCTCAAAGC-TTT-C-C-TC-C--T--TG-
* * *
25258168 TTGGTTACCTCTTCAGGTTTCTTCTTTTCTGCCAACATCAGTTTTGGTACTTTCTCAGTTTCAGC
50 ---GTTACCTCTTCAGGTTTCTTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGC
* * * *
25258233 TTCT-ACCAACTTTAGTTTTGGCGCCTTTTGCTCAACGCTTTCCTCCATCT-GTT-CCTCTTCAT
1 TT-TGACCAACTTTGGTTTTGGCACCTTTTGCTCAAAGCTTTCCTCC-T-TGGTTACCTCTTCAG
* ** *
25258295 GTTTCTTCTTTTCAGCTAATTTCAGTTTTGGTACCTTCTCATCTTCAGC
63 GTTTCTTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGC
* ** *
25258344 TGCAACTTCAGCCTCCTTTTCGACCAACTTCT-GTTTTGTTACCTTTTGCTCAACGCTTTCCTCC
1 T-----TT--G-------A----CCAACTT-TGGTTTTGGCACCTTTTGCTCAAAGCTTTCCTCC
* *
25258408 TTGGTTACCTCTTCAGGTTTCTTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCATC
47 TTGGTTACCTCTTCAGGTTTCTTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGC
* * * * * * * *
25258473 TTCGACCAACTTTTGTTTTGGCACATTTTTCTCAACA-CTTTCCTCCTTGGGCT-GCTCATCAAG
1 TTTGACCAACTTTGGTTTTGGCACCTTTTGCTCAA-AGCTTTCCTCCTT-GGTTACCTCTTCAGG
* *
25258536 TTTCTTCTTTTCAGCCAAAATCAGTTTTGATACCTTCTCAGCTTCAGCCTCC
64 TTTCTTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAG----C
* * * *
25258588 TTTACGACTAACTTTGGTTTTGGCACCTTTTGCTCAATGCTTTTCTCCTTGGTTACATCTTCAGG
1 TTT--GACCAACTTTGGTTTTGGCACCTTTTGCTCAAAGCTTTCCTCCTTGGTTACCTCTTCAGG
**
25258653 TTTCTTCTTTTCAGCCAATGTCAGTTTTGGTACCTTCTCAGCTTCAGC
64 TTTCTTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGC
* *
25258701 TTCAGCATCGACCAGCTTTGGTTTTGGCCCCTTTTGCTCAA
1 TT-----T-GACCAACTTTGGTTTTGGCACCTTTTGCTCAA
25258742 CACTTACCTC
Statistics
Matches: 1443, Mismatches: 226, Indels: 200
0.77 0.12 0.11
Matches are distributed among these distances:
108 36 0.02
109 2 0.00
110 7 0.00
111 573 0.40
112 21 0.01
113 9 0.01
114 60 0.04
115 8 0.01
116 15 0.01
117 520 0.36
118 5 0.00
119 3 0.00
120 2 0.00
121 2 0.00
122 3 0.00
123 5 0.00
124 5 0.00
125 1 0.00
126 4 0.00
127 5 0.00
128 10 0.01
129 146 0.10
130 1 0.00
ACGTcount: A:0.15, C:0.28, G:0.15, T:0.41
Consensus pattern (111 bp):
TTTGACCAACTTTGGTTTTGGCACCTTTTGCTCAAAGCTTTCCTCCTTGGTTACCTCTTCAGGTT
TCTTCTTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAGC
Found at i:25258087 original size:234 final size:234
Alignment explanation
Indices: 25256859--25260395 Score: 3016
Period size: 234 Copynumber: 15.0 Consensus size: 234
25256849 CCTTATTTTT
* ** * * *
25256859 GACCAGCTTTGGTTTTGGCACCTTTTGCTCAACGTTTTCCTTCTTGGGTACCTTTTCAGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCATGGGTACCTCTTCAGGTTTCT
* * *** * *
25256924 TCTTTTCAGCCAACTTCAGTTTTGGTACCGTCTCAGCTTCAGCTTCAGCTTCAACCAACTTTGTT
66 TCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCCTCCTTTTCGACCAACTTTGGT
* * *
25256989 TTTGGCACCTTTTGCTCAGCACTTTCCTCCTTGGGTACCTCTTCATGTTTCTTGTTTTCAGCCAA
131 TTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAA
* * * *
25257054 CATCAGTTTAGGTACCTTCTCTGCTTCAGCTTCAGCATG
196 CTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCATC
* * * * *
25257093 GACCAACTTTGGTTTTGGGACCTCTTGCTCAACACTTTCCACCTTGGGTACCTCTTCAGATTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCATGGGTACCTCTTCAGGTTTCT
* *
25257158 TCGTTTCAGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAG----C-TTT-GACCAACTTTGGT
66 TCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCCTCCTTTTCGACCAACTTTGGT
* * *
25257217 TTTGGCAACTTTTGCTCAA-AGGTTTCCTCCTTGGTTACCTCTTCAGGTTTCTTCTTTTCAAG-C
131 TTTGGCACCTTTTGCTCAACA-CTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTC-AGCC
*
25257280 AA-TATCAATTTTGGTACCTTCTCAGCTTCAGC-T-----TC
194 AACT-TCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCATC
* * *
25257315 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGCTACCTCTTCAAGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCATGGGTACCTCTTCAGGTTTCT
* * * * * *
25257380 TCTTTGCAGCCATCATCTGTTTTGGTACCTTCTCAGGTTCAGCCTTCTTTTCGACCAACTTTGGT
66 TCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCCTCCTTTTCGACCAACTTTGGT
* * * * * * * *
25257445 TTGGGCATCTTTTGCTGAACGCTTTCCT-C--GGTTACCTCTTTAGGATTCTTCTTTTCAGACAA
131 TTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAA
*
25257507 CATCAGTTTTGGTA-CTT-T---C-TCAGCTTCAGCATC
196 CTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCATC
* *
25257540 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTTAGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCATGGGTACCTCTTCAGGTTTCT
* *
25257605 TCTTTTCCGCCAACATCAGTTTTGGTACCTTCTCAGCTTCAG----C-TTT-GACCAACTTTGGT
66 TCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCCTCCTTTTCGACCAACTTTGGT
* * * *
25257664 TTTGGCAACTTTTGCTCAACGCTTTCCTCCTTGGGTAACTCTTCAGGTTTCTTCTTTTCAACC-A
131 TTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAA
* ** *
25257728 CTATCAATTGCGGTACCTTCT---CTT---CTTCAGCTTC
196 CT-TCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCATC
* * * * *
25257762 GACCAACTGTGGTTTTGGTACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCCTCAAGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCATGGGTACCTCTTCAGGTTTCT
** * * * * * *
25257827 TCAGTTCAGCCATCATCTGTTTTGGTACCTTCTCAGCCTCATCTTCCTTTTCGACCAACTTTGGT
66 TCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCCTCCTTTTCGACCAACTTTGGT
* ** * * *
25257892 TTGGGCACCTTTTGCTCAATGCTGTCGTCCTTGGTTACCTCTTCAGGTTTCTTCTTTTCAGCCAA
131 TTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAA
*
25257957 CGTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCATC
196 CTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCATC
* * ** ** *
25257996 GACCAGCTTTGGTTTTGGCCCCTTTTGCTCAACGTTTTCCTCCATCTGTACCTCTTCATGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCATGGGTACCTCTTCAGGTTTCT
*
25258061 TCTTTTCAGCCAATTTCAGTTTTGGTACCTTCTCATCTTCAGCTGCGACTTCAGCCTCCTTTTCG
66 TCTTTTCAGCCAACTTCAGTTTTGGTA-C--CT--TC-TCA-----G-CTTCAGCCTCCTTTTCG
* * * *
25258126 ATCAACTTCT-GTTTTCGCACCTTTTGCTCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTCT
119 ACCAACTT-TGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
* * * *
25258190 TCTTTTCTGCCAACATCAGTTTTGGTACTTTCTCAGTTTCAGCTT---C-T-
183 TCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCATC
* * * ** * *
25258237 -ACCAACTTTAGTTTTGGCGCCTTTTGCTCAACGCTTTCCTCCATCTGTTCCTCTTCATGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCATGGGTACCTCTTCAGGTTTCT
* *
25258301 TCTTTTCAGCTAATTTCAGTTTTGGTACCTTCTCATCTTCAGCTGCAACTTCAGCCTCCTTTTCG
66 TCTTTTCAGCCAACTTCAGTTTTGGTA-C--CT--TC-TCA---G---CTTCAGCCTCCTTTTCG
** * *
25258366 ACCAACTTCT-GTTTTGTTACCTTTTGCTCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTCT
119 ACCAACTT-TGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
*
25258430 TCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCA---T---CTTC
183 TCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCATC
* * * * * * *
25258476 GACCAACTTTTGTTTTGGCACATTTTTCTCAACACTTTCCTCCTTGGGCT-GCTCATCAAGTTTC
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCATGGG-TACCTCTTCAGGTTTC
** * * *
25258540 TTCTTTTCAGCCAAAATCAGTTTTGATACCTTCTCAGCTTCAGCCTCCTTTACGACTAACTTTGG
65 TTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCCTCCTTTTCGACCAACTTTGG
** * * *
25258605 TTTTGGCACCTTTTGCTCAATGCTTTTCTCCTTGGTTACATCTTCAGGTTTCTTCTTTTCAGCCA
130 TTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCA
25258670 A-TGTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCATC
195 ACT-TCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCATC
* *
25258710 GACCAGCTTTGGTTTTGGCCCCTTTTGCTCAACA--------C-T---TACCTCTTCAGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCATGGGTACCTCTTCAGGTTTCT
* *
25258763 TCTTTTCAGCCAACTTTAGTTTTGGTACCTTCTCGGCTTCAGCTTCAGTCTCCTTTTCGACCAAC
66 TCTTTTCAGCCAACTTCAGTTTTGGTACC-T-T---C-TCAGCTTCAGCCTCCTTTTCGACCAAC
* *
25258828 TTTGGTTTTGGCACCATTTGCTCAACACTTTCCTCCTCGGGTACCTCTTCAGGTTTCTT-TGTTT
125 TTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCT-TTT
* *
25258892 CAGCCAACTTCTGTTTTGGTACATTCTCAGCTTCAGCTTCAGCTTCAGCTTCGGTCTCCTTTTC
189 CAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAG---CA---------------TC
*
25258956 GACCAATTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCATGGGTACCTCTTCAGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCATGGGTACCTCTTCAGGTTTCT
* * *** *** *
25259021 TCTTTTC-GACCAACTTCAGTTTTGGTACCTTCTTAGCTTCAGCTTCAGCTTCAGTTTGAA-TCT
66 TCTTTTCAG-CCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCCTCCTTTTC-G-ACCAACTTT
** * * * * *
25259084 CCTTTCCGACCAACTTTGGTGTTGGCACCA-TTTCCTCCTTGGGTACCTCTTCAGGTTTCTT-TT
128 GGTTT-TG-GCACCTTT--TGCT--CAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTT
* ** * *
25259147 TT--TCCATGACTTTCAGTTTTATTACATTCTCAGCTTCAGCTTCAGCCTCCTTTTC
187 TTCAGCCA--AC-TTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAG----C--ATC
* * *
25259202 GACCAACTTTGGTTTTGGCACCATTTGCTCAACACTTTCCTCTC-TGTGTACCTCTTCAGGTTTA
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTC-CATGGGTACCTCTTCAGGTTTC
* * * * *
25259266 TTCTTTTCAGCAAACTTCAGTTTTGCTTCAGC-T-TCAGCCTCAGCCTCCTTTAT-GACCAACTC
65 TTCTTTTCAGCCAACTTCAGTTTTG-GT-ACCTTCTCAGCTTCAGCCTCCTTT-TCGACCAACTT
* * * * *
25259328 TGGTTTTGGTACCTTTTGCTGAACACTTTCCTCCTTGGATACCTCATCAGGTTTCTTCTTTTCGG
127 TGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAG
* * *
25259393 CCAACTTCAGTTTTGGTGCATTCTCAGCTTTAGCTTCAGCTCCAGCCTCCTTTTC
192 CCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAG---CA---------TC
* * * *
25259448 GACCAACTTTGGTTTTGGTACCATTTGCTCTACACGTTCCT-CA--GGTACCTCTTCCA-GTTTC
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCATGGGTACCTCTT-CAGGTTTC
* * *
25259509 TTCTTTTCAGCAAACTTCAGTTTTGGTAAATTCTCAGCTTCAGCTTTAGCCTCAGCCTCCTTTTC
65 TTCTTTTCAGCCAACTTCAGTTTTGGT--A----C--CTT---C-TCAGCTTCAGCCTCCTTTTC
* * * * *
25259574 GACCAACTTTGGTTTCGGCACCTTTTGCTCAACACTTTTCTCCATGGATACCTCTTGAGGTTTCT
118 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCT
* * * * *
25259639 TCTTTTCAACCAACTTCAGTTTTTGTACCTTCTCAGTTTCAGTTTCAGTTTCCTTTTC
183 TCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAG----C--ATC
* * * ** * * * * *
25259697 AACTAGA-TTTGGTTTTGGCACCATTTGCTTGATAGTTTCCTCCCTGGGCACCTCTTTAGGTTTC
1 GACCA-ACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCATGGGTACCTCTTCAGGTTTC
* * * * *
25259761 TTCTTTTCGGCCAAGTTCAGTTTTGGTACATTCTCAGCTTCAGCCACCTTTTTGACCAACTTTGG
65 TTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCCTCCTTTTCGACCAACTTTGG
* * * * *
25259826 TTTTGGCACCATTTTG-TCTATACTTTTCTCCTTGGGTACCTCTTCAGGTTTCCTCTTTTCAGCA
130 TTTTGGCACC-TTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCC
* ** * * * ****
25259890 AAGTTCAGTTTTGGTAAATTTTCTGCTTCAGCCTCCTTTTC
194 AACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCATC
* ** * * * * *
25259931 AACCATGTTTGGTTTTGTCACCTTTTGCTCAACACTTTCCTCCGTGGGCACATCTTCGGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCATGGGTACCTCTTCAGGTTTCT
* * * * *
25259996 TATTTTCGGCCAACTTCAGTTCTGGTACCTTCTCAGCTTCAGTCTCCTTTTC-AGCCATCTTTGG
66 TCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCCTCCTTTTCGA-CCAACTTTGG
* * * * *
25260060 TTCTGGCACCATTTGCTCAACACTTTTCTCCTCGGGTACCTCTTCAGGTTTCTTCTTTTCAGCAA
130 TTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCA
** * * *
25260125 ACTTCAGTTTTGGTAAATTCTCAGGTTCAGCTTCATCCTCC
195 ACTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCAT-C
***** ** * * *
25260166 TTTTGGAC-CAGCTTTT-GCACCTTTTGCTTAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTC
1 -GACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCATGGGTACCTCTTCAGGTTTC
** * * * ***
25260229 TTCTTTTCAGCCAACTTCAGTTTCAGTACCTCCTCAGCTTCAGTCTCCTTTTCAACTGGCTTTGG
65 TTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCCTCCTTTTCGACCAACTTTGG
* * * * *
25260294 TTTTGGCACCATTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCGGGTTTCTTCTCTTCTGCCA
130 TTTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCA
*
25260359 ACTTCAGTTTTGATACCTT-TGCAGCTTCAGCTTCAGC
195 ACTTCAGTTTTGGTACCTTCT-CAGCTTCAGCTTCAGC
25260396 TTCAGCTGCA
Statistics
Matches: 2746, Mismatches: 387, Indels: 340
0.79 0.11 0.10
Matches are distributed among these distances:
219 43 0.02
220 6 0.00
221 4 0.00
222 272 0.10
223 5 0.00
224 8 0.00
225 142 0.05
226 3 0.00
227 13 0.00
228 436 0.16
229 7 0.00
231 7 0.00
233 6 0.00
234 592 0.22
235 10 0.00
237 6 0.00
238 2 0.00
239 10 0.00
240 453 0.16
241 16 0.01
242 2 0.00
243 48 0.02
244 8 0.00
245 8 0.00
246 279 0.10
247 6 0.00
248 2 0.00
249 34 0.01
250 4 0.00
251 1 0.00
252 52 0.02
253 7 0.00
254 5 0.00
255 123 0.04
256 4 0.00
257 10 0.00
258 105 0.04
259 7 0.00
ACGTcount: A:0.15, C:0.28, G:0.15, T:0.41
Consensus pattern (234 bp):
GACCAACTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCATGGGTACCTCTTCAGGTTTCT
TCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCAGCCTCCTTTTCGACCAACTTTGGT
TTTGGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCAGCCAA
CTTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCATC
Found at i:25258336 original size:240 final size:236
Alignment explanation
Indices: 25257204--25260393 Score: 2039
Period size: 240 Copynumber: 13.5 Consensus size: 236
25257194 CTTCAGCTTT
* * *
25257204 GACCAACTTTGGTTTTGGCAACTTTTGCTCAAAGGTTTCCTCCTTGGTTACCTCTTCAGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTCT
** * *
25257269 TCTTTTCAAG-CAATATCAATTTTGGTACCTTCTCAGCTTCAGCTTC--GACCAACTTTGGTTTT
66 TCTTTTC-AGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCATCACCAACTTTGGTTTT
* * * *
25257331 GGCACCTTTTGCTCAACACTTTCCTCC-T-TGGCTACCTCTTCAAGTTTCTTCTTTGCAGCC-AT
130 GGCCCCTTTTGCTCAACGCTTTCCTCCATCT-G-TACCTCTTCATGTTTCTTCTTTTCAGCCAAT
* * * *
25257393 CATCTGTTTTGGTA-C--CT--TC-TCAGGTTCAGCCTTCTTTTC
193 -TTCAGTTTTGGTACCTTCTCATCTTCAGCTTCAGCCTCCTTTTC
* * * * *
25257432 GACCAACTTTGGTTTGGGCATCTTTTGCTGAACGCTTTCCT-C--GGTTACCTCTTTAGGATTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTCT
* * *
25257494 TCTTTTCAGACAACATCAGTTTTGGTACTTTCTCAGCTTCAG---CATCGACCAACTTTGGTTTT
66 TCTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCATC-ACCAACTTTGGTTTT
* * * ** * * * **
25257556 GGCACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCTTTAGGTTTCTTCTTTTCCGCCAACAT
130 GGCCCCTTTTGCTCAACGCTTTCCTCCATCTGTACCTCTTCATGTTTCTTCTTTTCAGCCAATTT
25257621 CAGTTTTGGTA-C--CT--TC-TCAGCTTCAG----C-TTT-
195 CAGTTTTGGTACCTTCTCATCTTCAGCTTCAGCCTCCTTTTC
* * *
25257651 GACCAACTTTGGTTTTGGCAACTTTTGCTCAACGCTTTCCTCCTTGGGTAACTCTTCAGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTCT
* * * ** ** * *
25257716 TCTTTTCAACC-ACTATCAATTGCGGTACCTTCTCTTCTTCAGCTTC--GACCAACTGTGGTTTT
66 TCTTTTCAGCCAAC-GTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCATCACCAACTTTGGTTTT
** * * ** * * ** *
25257778 GGTACCTTTTGCTCAACACTTTCCTCCTTGGGTACCTCCTCAAGTTTCTTCAGTTCAGCC-ATCA
130 GGCCCCTTTTGCTCAACGCTTTCCTCCATCTGTACCTCTTCATGTTTCTTCTTTTCAGCCAAT-T
* * * *
25257842 TCTGTTTTGGTA-C--CT--TC-TCAGCCTCATCTTCCTTTTC
194 TCAGTTTTGGTACCTTCTCATCTTCAGCTTCAGCCTCCTTTTC
* * * *
25257879 GACCAACTTTGGTTTGGGCACCTTTTGCTCAATGCTGTCGTCCTTGGTTACCTCTTCAGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTCT
*
25257944 TCTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCATCGACCAGCTTTGGT
66 TCTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGCTT---CATC-ACCAACTTTGGT
*
25258009 TTTGGCCCCTTTTGCTCAACGTTTTCCTCCATCTGTACCTCTTCATGTTTCTTCTTTTCAGCCAA
127 TTTGGCCCCTTTTGCTCAACGCTTTCCTCCATCTGTACCTCTTCATGTTTCTTCTTTTCAGCCAA
25258074 TTTCAGTTTTGGTACCTTCTCATCTTCAGCTGCGACTTCAGCCTCCTTTTC
192 TTTCAGTTTTGGTACCTTCTCATCTTCA-----G-CTTCAGCCTCCTTTTC
* *
25258125 GATCAACTTCT-GTTTTCGCACCTTTTGCTCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTC
1 GACCAACTT-TGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTC
* * * * *
25258189 TTCTTTTCTGCCAACATCAGTTTTGGTACTTTCTCAGTTTCAGCTTC-T-ACCAACTTTAGTTTT
65 TTCTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCATCACCAACTTTGGTTTT
* * *
25258252 GGCGCCTTTTGCTCAACGCTTTCCTCCATCTGTTCCTCTTCATGTTTCTTCTTTTCAGCTAATTT
130 GGCCCCTTTTGCTCAACGCTTTCCTCCATCTGTACCTCTTCATGTTTCTTCTTTTCAGCCAATTT
25258317 CAGTTTTGGTACCTTCTCATCTTCAGCTGCAACTTCAGCCTCCTTTTC
195 CAGTTTTGGTACCTTCTCATCTTCA---G---CTTCAGCCTCCTTTTC
**
25258365 GACCAACTTCT-GTTTTGTTACCTTTTGCTCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTC
1 GACCAACTT-TGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTC
* * * *
25258429 TTCTTTTCAGCCAACTTCAGTTTTGGTACCTTCTCAGCTTCATCTTC--GACCAACTTTTGTTTT
65 TTCTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCATCACCAACTTTGGTTTT
* * * * ** * * *
25258492 GGCACATTTTTCTCAACACTTTCCTCC-T-TGGGCTGCTCATCAAGTTTCTTCTTTTCAGCCAAA
130 GGCCCCTTTTGCTCAACGCTTTCCTCCATCTGTAC--CTCTTCATGTTTCTTCTTTTCAGCCAAT
* * *
25258555 ATCAGTTTTGATA-C--CT--TC-TCAGCTTCAGCCTCCTTTAC
193 TTCAGTTTTGGTACCTTCTCATCTTCAGCTTCAGCCTCCTTTTC
* * * *
25258593 GACTAACTTTGGTTTTGGCACCTTTTGCTCAATGCTTTTCTCCTTGGTTACATCTTCAGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTCT
* *
25258658 TCTTTTCAGCCAATGTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCAGCATCGACCAGCTTTGGT
66 TCTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGCTT---CATC-ACCAACTTTGGT
*
25258723 TTTGGCCCCTTTTGCTCAA----------CA-CT-TACCTCTTCAGGTTTCTTCTTTTCAGCCAA
127 TTTGGCCCCTTTTGCTCAACGCTTTCCTCCATCTGTACCTCTTCATGTTTCTTCTTTTCAGCCAA
** *
25258776 CTTT-AGTTTTGGTACCTTCTCGGCTTCAGCTTCAGTCTCCTTTTC
192 -TTTCAGTTTTGGTACCTTCTCATCTTCAGCTTCAGCCTCCTTTTC
* * * *
25258821 GACCAACTTTGGTTTTGGCACCATTTGCTCAACACTTTCCTCCTCGGGTACCTCTTCAGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTCT
* *
25258886 T-TGTTTCAGCCAACTTCTGTTTTGGTACATTCTCAGCTTCAGCTTCAGCTTCAGCTTCGGTCTC
66 TCT-TTTCAGCCAACGTCAGTTTTGGT--A----C--CTT---C-TCAGCTTCAG---C--T-T-
* * * * ** *
25258950 CTTTTCGACCAATTTTGGTTTTGGCACCTTTTGCTCAACACTTTCCTCCATGGGTACCTCTTCAG
111 C--ATC-ACCAACTTTGGTTTTGGCCCCTTTTGCTCAACGCTTTCCTCCATCTGTACCTCTTCAT
* * * * **
25259015 GTTTCTTCTTTTC-GACCAACTTCAGTTTTGGTACCTTCTTAGCTTCAGCTTCAGCTTCAGTTT-
173 GTTTCTTCTTTTCAG-CCAATTTCAGTTTTGGTACCTTCTCATCTTCAGCTTCAGCCTCCTTTTC
* * ** * * * *
25259078 GA--ATCTCCT--TTCCGACCAACTTTGGTGTTGGC-AC-CATTTCCTCCTTGGGTACCTCTTCA
1 GACCAACT-TTGGTTTTG-GCACCTTT--TGCT--CAACGC-TTTCCTCCTTGGTTACCTCTTCA
* * ** *
25259137 GGTTTCTT-TTTT--TCCATGACTTTCAGTTTTATTACATTCTCAGCTTCAGCTTCAGCCTCCTT
59 GGTTTCTTCTTTTCAGCCA--AC-GTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCA--------
* * * * *
25259199 TTCGACCAACTTTGGTTTTGGCACCATTTGCTCAACACTTTCCTCTC-TGTGTACCTCTTCAGGT
113 -TC-ACCAACTTTGGTTTTGGCCCCTTTTGCTCAACGCTTTCCTC-CATCTGTACCTCTTCATGT
* * * * *
25259263 TTATTCTTTTCAGCAAACTTCAGTTTT-G---C-T-TCAGCTTCAGCCTCAGCCTCCTTTAT-
175 TTCTTCTTTTCAGCCAATTTCAGTTTTGGTACCTTCTCATCTTCAGCTTCAGCCTCCTTT-TC
* * * * * *
25259319 GACCAACTCTGGTTTTGGTACCTTTTGCTGAACACTTTCCTCCTTGGATACCTCATCAGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTCT
* * * **
25259384 TCTTTTCGGCCAACTTCAGTTTTGGTGCATTCTCAGCTTTAGCTTCAGCTCCAGCCTCCTTTTCG
66 TCTTTTCAGCCAACGTCAGTTTTGGT--A----C--C-TT--C-TCAGCTTCAG-CT--TCATC-
** * * * * *
25259449 ACCAACTTTGGTTTTGGTACCATTTGCTCTACACGTTCCT-CA--GGTACCTCTTCCA-GTTTCT
115 ACCAACTTTGGTTTTGGCCCCTTTTGCTCAACGCTTTCCTCCATCTGTACCTCTT-CATGTTTCT
* * ** *
25259510 TCTTTTCAGCAAACTTCAGTTTTGGTAAATTCTCAGCTTCAGCTTTAGCCTCAGCCTCCTTTTC
179 TCTTTTCAGCCAATTTCAGTTTTGGTACCTTCTCATCTTCAGC--T----TCAGCCTCCTTTTC
* * * * * *
25259574 GACCAACTTTGGTTTCGGCACCTTTTGCTCAACACTTTTCTCCATGGATACCTCTTGAGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTCT
* * * * *
25259639 TCTTTTCAACCAACTTCAGTTTTTGTACCTTCTCAGTTTCAGTTTCAGTTTC-CTTTTCAACTAG
66 TCTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCA---TCAC----CAAC---
* * * * ** * * *
25259703 ATTTGGTTTTGGCACCATTTGCTTGATA-G-TTTCCTCCCTGGGCACCTCTTTAGGTTTCTTCTT
121 -TTTGGTTTTGGCCCCTTTTGC-TCA-ACGCTTTCCTCCATCTGTACCTCTTCATGTTTCTTCTT
* * * *
25259766 TTCGGCCAAGTTCAGTTTTGGTACATTCTCAGCTTCAGC--CA-CCT--TTTT-
183 TTCAGCCAATTTCAGTTTTGGTACCTTCTCATCTTCAGCTTCAGCCTCCTTTTC
* ** * *
25259814 GACCAACTTTGGTTTTGGCACCATTTTG-TCTATACTTTTCTCCTTGGGTACCTCTTCAGGTTTC
1 GACCAACTTTGGTTTTGGCACC-TTTTGCTCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTC
* * ** * * ** **
25259878 CTCTTTTCAG-CAAAGTTCAGTTTTGGTAAATTTTCTGCTTCAGCCTCCTTTTCAACCATGTTTG
65 TTCTTTTCAGCCAACG-TCAGTTTTGGTACCTTCTCAGCTTCAG-CT--TCATC-ACCAACTTTG
* * * * ** * * ** * *
25259942 GTTTTGTCACCTTTTGCTCAACACTTTCCTCCGTGGGCACATCTTCGGGTTTCTTATTTTCGGCC
125 GTTTTGGCCCCTTTTGCTCAACGCTTTCCTCCATCTGTACCTCTTCATGTTTCTTCTTTTCAGCC
* * *
25260007 AACTTCAGTTCTGGTA-C--CT--TC-TCAGCTTCAGTCTCCTTTTC
190 AATTTCAGTTTTGGTACCTTCTCATCTTCAGCTTCAGCCTCCTTTTC
* * * * * * *
25260048 -AGCCATCTTTGGTTCTGGCACCATTTGCTCAACACTTTTCTCCTCGGGTACCTCTTCAGGTTTC
1 GA-CCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTC
* * ** *
25260112 TTCTTTTCAGCAAACTTCAGTTTTGGTAAATTCTCAGGTTCAGCTTCATC-CTC--CTTTTGGAC
65 TTCTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCATCAC-CAAC-TTT-G--
* * * * ** *
25260174 CAGCTTTT-GCACCTTTTGCTTAACACTTTCCTCCTTGGGTACCTCTTCAGGTTTCTTCTTTTCA
125 --G-TTTTGGCCCCTTTTGCTCAACGCTTTCCTCCATCTGTACCTCTTCATGTTTCTTCTTTTCA
* ** *
25260238 GCCAACTTCAGTTTCAGTA-C--CTC--C-TCAGCTTCAGTCTCCTTTTC
187 GCCAATTTCAGTTTTGGTACCTTCTCATCTTCAGCTTCAGCCTCCTTTTC
* *** * * * * *
25260282 AACTGGCTTTGGTTTTGGCACCATTTGCTCAACACTTTTCTCCTTGGGTACCTCTTCGGGTTTCT
1 GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTCT
* * * *
25260347 TCTCTTCTGCCAACTTCAGTTTTGATACCTT-TGCAGCTTCAGCTTCA
66 TCTTTTCAGCCAACGTCAGTTTTGGTACCTTCT-CAGCTTCAGCTTCA
25260394 GCTTCAGCTG
Statistics
Matches: 2433, Mismatches: 324, Indels: 404
0.77 0.10 0.13
Matches are distributed among these distances:
219 38 0.02
220 4 0.00
221 4 0.00
222 174 0.07
223 2 0.00
224 4 0.00
225 150 0.06
226 4 0.00
227 7 0.00
228 344 0.14
229 7 0.00
230 5 0.00
231 10 0.00
232 1 0.00
233 14 0.01
234 440 0.18
235 12 0.00
236 3 0.00
237 4 0.00
238 6 0.00
239 9 0.00
240 448 0.18
241 26 0.01
242 7 0.00
243 65 0.03
244 11 0.00
245 7 0.00
246 277 0.11
247 5 0.00
248 1 0.00
249 39 0.02
250 4 0.00
251 3 0.00
252 64 0.03
253 3 0.00
254 4 0.00
255 104 0.04
256 4 0.00
257 14 0.01
258 104 0.04
259 1 0.00
ACGTcount: A:0.15, C:0.28, G:0.15, T:0.42
Consensus pattern (236 bp):
GACCAACTTTGGTTTTGGCACCTTTTGCTCAACGCTTTCCTCCTTGGTTACCTCTTCAGGTTTCT
TCTTTTCAGCCAACGTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCATCACCAACTTTGGTTTTG
GCCCCTTTTGCTCAACGCTTTCCTCCATCTGTACCTCTTCATGTTTCTTCTTTTCAGCCAATTTC
AGTTTTGGTACCTTCTCATCTTCAGCTTCAGCCTCCTTTTC
Found at i:25258810 original size:105 final size:107
Alignment explanation
Indices: 25258640--25258862 Score: 308
Period size: 105 Copynumber: 2.1 Consensus size: 107
25258630 TTCTCCTTGG
*
25258640 TTACATCTTCAGGTTTCTTCTTTTCAGCCAATGTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCA
1 TTACCTCTTCAGGTTTCTTCTTTTCAGCCAATGTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCA
* * *
25258705 G-C-ATCGACCAGCTTTGGTTTTGGCCCCTTTTGCTCAACAC
66 GCCTATCGACCAACTTTGGTTTTGGCACCATTTGCTCAACAC
* *
25258745 TTACCTCTTCAGGTTTCTTCTTTTCAGCCAACT-TTAGTTTTGGTACCTTCTCGGCTTCAGCTTC
1 TTACCTCTTCAGGTTTCTTCTTTTCAGCCAA-TGTCAGTTTTGGTACCTTCTCAGCTTCAGCTTC
*
25258809 AGTCTCCTTTTCGACCAACTTTGGTTTTGGCACCATTTGCTCAACAC
65 AG---CC-TATCGACCAACTTTGGTTTTGGCACCATTTGCTCAACAC
*
25258856 TTTCCTC
1 TTACCTC
25258863 CTCGGGTACC
Statistics
Matches: 103, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
105 61 0.59
106 1 0.01
109 1 0.01
111 40 0.39
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.41
Consensus pattern (107 bp):
TTACCTCTTCAGGTTTCTTCTTTTCAGCCAATGTCAGTTTTGGTACCTTCTCAGCTTCAGCTTCA
GCCTATCGACCAACTTTGGTTTTGGCACCATTTGCTCAACAC
Found at i:25258929 original size:6 final size:6
Alignment explanation
Indices: 25258918--25258943 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
25258908 TGGTACATTC
25258918 TCAGCT TCAGCT TCAGCT TCAGCT TC
1 TCAGCT TCAGCT TCAGCT TCAGCT TC
25258944 GGTCTCCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.35, G:0.15, T:0.35
Consensus pattern (6 bp):
TCAGCT
Found at i:25260548 original size:24 final size:24
Alignment explanation
Indices: 25260520--25260577 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
25260510 CATCTTAGGC
*
25260520 TCTTGTTCTTCTTCTGGTTCTTG-T
1 TCTTGTTCTTCGTCTGGTTC-TGAT
* *
25260544 TCTTGCTCTTGGTCTGGTTCTGAT
1 TCTTGTTCTTCGTCTGGTTCTGAT
25260568 TCTTCGTTCT
1 TCTT-GTTCT
25260578 GTTCCTCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 2 0.07
24 22 0.79
25 4 0.14
ACGTcount: A:0.02, C:0.22, G:0.19, T:0.57
Consensus pattern (24 bp):
TCTTGTTCTTCGTCTGGTTCTGAT
Found at i:25262956 original size:126 final size:126
Alignment explanation
Indices: 25262797--25263040 Score: 398
Period size: 126 Copynumber: 1.9 Consensus size: 126
25262787 GTTTTAGCCT
* *
25262797 TAAGAGAATATTCGAATATTCAAAACAAACAAAGAAAGCGAAGCCCAGTACGTTAGGGCACGATT
1 TAAGAGAATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGCTAGGGCACGATT
* * **
25262862 CTTTGAATTCTTTAAATACCGAACATTACCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCAAACATTACCTTTATTTTGAAAAAATTTGAGAGTGAACTGG
* * *
25262923 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACTCAGTACGCTAGGGCACGATT
1 TAAGAGAATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGCTAGGGCACGATT
*
25262988 CTTCGAATTCTTTAAATACCAAACATTGCCTTTATTTTGAAAAAATTTGAGAG
66 CTTCGAATTCTTTAAATACCAAACATTACCTTTATTTTGAAAAAATTTGAGAG
25263041 AAGATCAATG
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 108 1.00
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (126 bp):
TAAGAGAATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGCTAGGGCACGATT
CTTCGAATTCTTTAAATACCAAACATTACCTTTATTTTGAAAAAATTTGAGAGTGAACTGG
Found at i:25263416 original size:14 final size:14
Alignment explanation
Indices: 25263394--25263478 Score: 102
Period size: 14 Copynumber: 6.1 Consensus size: 14
25263384 ATAAAAATGG
*
25263394 TAATCAATATATAA
1 TAATAAATATATAA
25263408 TAATAAATATATAA
1 TAATAAATATATAA
*
25263422 TAATAAATA-AAAA
1 TAATAAATATATAA
* *
25263435 T-ATATATATTTACA
1 TAATAAATATATA-A
25263449 TAATAAATATATAA
1 TAATAAATATATAA
*
25263463 TAATAAATAAATAA
1 TAATAAATATATAA
25263477 TA
1 TA
25263479 TAATAATATG
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
12 6 0.10
13 5 0.08
14 40 0.67
15 9 0.15
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (14 bp):
TAATAAATATATAA
Found at i:25263495 original size:45 final size:41
Alignment explanation
Indices: 25263407--25263496 Score: 126
Period size: 41 Copynumber: 2.1 Consensus size: 41
25263397 TCAATATATA
**
25263407 ATAATAAATATATAATAATAAATAAAAATATATATATTTAC
1 ATAATAAATATATAATAATAAATAAAAATATATATATAAAC
25263448 ATAATAAATATATAATAATAAATAAATAATATAATAATATGAAAC
1 ATAATAAATATATAATAATAAATAAA-AATAT-AT-ATAT-AAAC
25263493 ATAA
1 ATAA
25263497 CTCAAATTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
41 26 0.60
42 5 0.12
43 2 0.05
44 4 0.09
45 6 0.14
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.33
Consensus pattern (41 bp):
ATAATAAATATATAATAATAAATAAAAATATATATATAAAC
Found at i:25263929 original size:18 final size:18
Alignment explanation
Indices: 25263906--25263941 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
25263896 ATAACAAGTA
25263906 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
25263924 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
25263942 ACGGTTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.61, T:0.22
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:25263957 original size:29 final size:30
Alignment explanation
Indices: 25263918--25264017 Score: 85
Period size: 37 Copynumber: 3.1 Consensus size: 30
25263908 GTGATGGAGG
*
25263918 TAGTGGGGGTGATGGAGGTAGTGGACGGTT
1 TAGTAGGGGTGATGGAGGTAGTGGACGGTT
*
25263948 TAGTAGGGTGTGAGGGTGATAGAGGTAGTGGATGGTT
1 TAGTAGGG-GTGA---TG---GAGGTAGTGGACGGTT
* * *
25263985 TAGTA-GGGTGATGGAGTTAGTGGTCGATT
1 TAGTAGGGGTGATGGAGGTAGTGGACGGTT
25264014 TAGT
1 TAGT
25264018 GGAGTGTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
29 16 0.28
30 7 0.12
31 4 0.07
32 2 0.04
34 2 0.04
35 4 0.07
36 2 0.04
37 20 0.35
ACGTcount: A:0.20, C:0.02, G:0.47, T:0.31
Consensus pattern (30 bp):
TAGTAGGGGTGATGGAGGTAGTGGACGGTT
Found at i:25263974 original size:37 final size:37
Alignment explanation
Indices: 25263924--25263994 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
25263914 GAGGTAGTGG
*
25263924 GGGTGATGGAGGTAGTGGACGGTTTAGTAGGGTGTGA
1 GGGTGATAGAGGTAGTGGACGGTTTAGTAGGGTGTGA
*
25263961 GGGTGATAGAGGTAGTGGATGGTTTAGTAGGGTG
1 GGGTGATAGAGGTAGTGGACGGTTTAGTAGGGTG
25263995 ATGGAGTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.20, C:0.01, G:0.51, T:0.28
Consensus pattern (37 bp):
GGGTGATAGAGGTAGTGGACGGTTTAGTAGGGTGTGA
Found at i:25275043 original size:7 final size:7
Alignment explanation
Indices: 25275003--25275056 Score: 51
Period size: 6 Copynumber: 7.9 Consensus size: 7
25274993 AAATGAAAAC
25275003 ATTAAAT
1 ATTAAAT
25275010 -TTAAAT
1 ATTAAAT
25275016 -TTAAA-
1 ATTAAAT
* *
25275021 ATAAAAA
1 ATTAAAT
25275028 ATTATAAT
1 ATTA-AAT
25275036 ATTAAAT
1 ATTAAAT
25275043 ATTTAAAT
1 A-TTAAAT
25275051 ATTAAA
1 ATTAAA
25275057 AAATACTTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
6 15 0.38
7 12 0.30
8 13 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
ATTAAAT
Found at i:25275240 original size:22 final size:21
Alignment explanation
Indices: 25275215--25275271 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
25275205 AATTTAACAA
25275215 AAAATTTTAAAATATTTTTTAT
1 AAAATTTTAAAATATTTTTT-T
*
25275237 AAAATTATAATATATATTTTTTT
1 AAAATTTTAA-A-ATATTTTTTT
* *
25275260 AAACTTTAAAAA
1 AAAATTTTAAAA
25275272 GTCAAAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
21 1 0.03
22 10 0.34
23 9 0.31
24 9 0.31
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
AAAATTTTAAAATATTTTTTT
Found at i:25275346 original size:30 final size:29
Alignment explanation
Indices: 25275299--25275379 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 29
25275289 AAATTAATAT
*
25275299 ATATTTAAAT-TTCATTTTATAACTTTTTTA
1 ATATTTATATATT-ATTTTATAA-TTTTTTA
25275329 ATATTTATATATTATTTT-T-A-TTTTTA
1 ATATTTATATATTATTTTATAATTTTTTA
*
25275355 ATTTTTATATA-TATTTTATAATTTT
1 ATATTTATATATTATTTTATAATTTT
25275380 ATAAAAAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
25 6 0.13
26 17 0.38
27 1 0.02
28 4 0.09
29 1 0.02
30 14 0.31
31 2 0.04
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.65
Consensus pattern (29 bp):
ATATTTATATATTATTTTATAATTTTTTA
Found at i:25275362 original size:19 final size:20
Alignment explanation
Indices: 25275312--25275379 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 20
25275302 TTTAAATTTC
25275312 ATTTTATAACTTTTT-TA-AT
1 ATTTTATAA-TTTTTATATAT
*
25275331 A-TTTATATATTATT-T-T-T
1 ATTTTATA-ATTTTTATATAT
25275348 ATTTT-TAATTTTTATATAT
1 ATTTTATAATTTTTATATAT
25275367 ATTTTATAATTTT
1 ATTTTATAATTTT
25275380 ATAAAAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
16 5 0.12
17 5 0.12
18 15 0.38
19 8 0.20
20 7 0.17
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (20 bp):
ATTTTATAATTTTTATATAT
Found at i:25275380 original size:19 final size:20
Alignment explanation
Indices: 25275312--25275382 Score: 55
Period size: 19 Copynumber: 3.9 Consensus size: 20
25275302 TTTAAATTTC
*
25275312 ATTTTATAACTTTTTTA-AT
1 ATTTTATAACTTTTATATAT
* * *
25275331 A-TTTAT-A-TATTATTTTT
1 ATTTTATAACTTTTATATAT
*
25275348 ATTTT-TAATTTTTATATAT
1 ATTTTATAACTTTTATATAT
25275367 ATTTTATAA-TTTTATA
1 ATTTTATAACTTTTATA
25275383 AAAAATTATT
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
16 4 0.10
17 4 0.10
18 9 0.22
19 20 0.50
20 3 0.08
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTTTATAACTTTTATATAT
Found at i:25276795 original size:2 final size:2
Alignment explanation
Indices: 25276788--25276830 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
25276778 ATGAAATTTA
25276788 AT AT 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 AT AT
25276830 A
1 A
25276831 CATGTTGATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25286259 original size:25 final size:26
Alignment explanation
Indices: 25286206--25286260 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
25286196 AGTATTTTTT
25286206 ATTTT-CTTCTGTCTATTCTCTACTC
1 ATTTTACTTCTGTCTATTCTCTACTC
* * *
25286231 -TTTTACTTCTTTCTATTGT-TAGTC
1 ATTTTACTTCTGTCTATTCTCTACTC
25286255 ATTTTA
1 ATTTTA
25286261 AAGAATTTTT
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:25290912 original size:15 final size:15
Alignment explanation
Indices: 25290892--25290923 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
25290882 AATTAGAAAA
25290892 AATGAGTTTGTAATT
1 AATGAGTTTGTAATT
25290907 AATGAGTTTGTAATT
1 AATGAGTTTGTAATT
25290922 AA
1 AA
25290924 CTTGAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.44
Consensus pattern (15 bp):
AATGAGTTTGTAATT
Found at i:25296220 original size:51 final size:51
Alignment explanation
Indices: 25296156--25296291 Score: 148
Period size: 51 Copynumber: 2.7 Consensus size: 51
25296146 TGGAAACATG
*
25296156 ATCTTAAAAGATATGATATTATAGTCTTAGAGATCTTAGATATGATATGGA
1 ATCTTAAAAGATATGATATTATAGTCTTAGAGATCTTAGATAAGATATGGA
* * * * * * ** *
25296207 ATCTTATAAGATATTATTTTATAAG-ATTACATATCTTATCTAAGATATGTA
1 ATCTTAAAAGATATGATATTAT-AGTCTTAGAGATCTTAGATAAGATATGGA
* *
25296258 ATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 ATCTTAAAAGATATGATATTATAGTCTTAGAGAT
25296292 TTGGTGGTAG
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
50 1 0.02
51 63 0.95
52 2 0.03
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAGTCTTAGAGATCTTAGATAAGATATGGA
Found at i:25305399 original size:4 final size:4
Alignment explanation
Indices: 25305390--25305428 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
25305380 ATGTACCACA
25305390 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA
25305429 AAATTGTTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:25321221 original size:18 final size:18
Alignment explanation
Indices: 25321198--25321234 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
25321188 ATATTCATGT
25321198 TTTCAGAAAGTTCTTGTG
1 TTTCAGAAAGTTCTTGTG
25321216 TTTCAGAAAGTTCTTGTG
1 TTTCAGAAAGTTCTTGTG
25321234 T
1 T
25321235 CTCCAATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.46
Consensus pattern (18 bp):
TTTCAGAAAGTTCTTGTG
Found at i:25323557 original size:201 final size:200
Alignment explanation
Indices: 25322883--25323854 Score: 1289
Period size: 200 Copynumber: 4.9 Consensus size: 200
25322873 GCGGTGATCT
* * * * *
25322883 TAACTGCTCCATTCTACTAATATCTTCCCTAATTGG-CAACTCGGCAGCTGGAGCAGTGAGAATC
1 TAACTGCTCCGTTCTACCAATATCTT-CCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAATC
* * * * ** * * * *
25322947 ACAGTCTTGCGTCTATTCTTCCTCAAGGGGGATTGGTGTTCTGAAGTGATGGCAGACTTGGCCCT
65 ACAGTCTTGCGTCTGTTCCTCCTCGAGGGGGCTTCTTGTTGTGAAG-AAGGGCACACTTGGCCCT
* ** * **
25323012 CTCAACCTCACTCCTATCTTGTACAATTGCATCCAATTCTTCAGTTGTGCCTTTTCCTTGAAGCG
129 CTCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTTCCTACAAGCG
25323077 GTGCCT-
194 GTGCCTC
* * *
25323083 TCAACTGCTCCGTACTACCAATATCTTCCTTATTTGCCAAATCTGCAGCTGGAGCAGTAAGAATC
1 T-AACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAATC
* *
25323148 ACAGTCTTGCGTCTGTTCCTCCTCGA-GGGGCATCTTGTTGTGAAGAAAGGGCACCCTTGGCCCT
65 ACAGTCTTGCGTCTGTTCCTCCTCGAGGGGGCTTCTTGTTGTGAAG-AAGGGCACACTTGGCCCT
* *
25323212 CTCAACCTCACTACTATCTTCCACAATTGCATCCAATTCTTCATTCGTG------CCTACAAGCG
129 CTCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTTCCTACAAGCG
25323271 GTGCCTC
194 GTGCCTC
* * *
25323278 TAACTGCTCCGTTCTACCAATATCTTCCTTATTTGCCAAATCTGCAACTGGAGCAGTAAGAATCA
1 TAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAATCA
* *
25323343 CAGTCTTGCGTCTGTTCCTCCTCAAGGGGGCTTCTTGTTGTGAAGAAAGGGCACCCTTGGCCCTC
66 CAGTCTTGCGTCTGTTCCTCCTCGAGGGGGCTTCTTGTTGTGAAG-AAGGGCACACTTGGCCCTC
* *
25323408 TCTACCTCACTACTATCTTCCACAATTGCATCCAATTCTTCAGTCGTGCCTTTTCCTACAAGCGG
130 TCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTTCCTACAAGCGG
25323473 TGCCTC
195 TGCCTC
*
25323479 TAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACCA
1 TAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAATCA
* ** * * * * *
25323544 CAGTTTTGCGTCTGCCCCTCCTCGA-GGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGCCTTT
66 CAGTCTTGCGTCTGTTCCTCCTCGAGGGGGCTTCTTGTTGTGAAGAAG-GGCACACTTGGCCCTC
* * *
25323608 TCGACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTCCCTACAACCGG
130 TCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTTCCTACAAGCGG
25323673 TGCCTC
195 TGCCTC
* * *
25323679 TAACTGCTCCGTTCTACCAATATCTTCCTTATTGACCAAATCGACAGCTGGAGCAGTAAGAACCA
1 TAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAATCA
** * * * *
25323744 CAGTCTTGCGTCTGCCCCTCCTCGAGGGGGCTGCTTGTTGTGAAGTAGCTGCATACTTGGCCCTC
66 CAGTCTTGCGTCTGTTCCTCCTCGAGGGGGCTTCTTGTTGTGAAGAAG-GGCACACTTGGCCCTC
* *
25323809 TCGACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCGGTCG
130 TCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCG
25323855 AGCCCTTCCC
Statistics
Matches: 701, Mismatches: 59, Indels: 23
0.90 0.08 0.03
Matches are distributed among these distances:
194 100 0.14
195 85 0.12
199 2 0.00
200 264 0.38
201 250 0.36
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.31
Consensus pattern (200 bp):
TAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAATCA
CAGTCTTGCGTCTGTTCCTCCTCGAGGGGGCTTCTTGTTGTGAAGAAGGGCACACTTGGCCCTCT
CAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTTCCTACAAGCGGT
GCCTC
Found at i:25323617 original size:395 final size:393
Alignment explanation
Indices: 25322883--25323854 Score: 1302
Period size: 395 Copynumber: 2.4 Consensus size: 393
25322873 GCGGTGATCT
* * * * * *
25322883 TAACTGCTCCATTCTACTAATATCTTCCCTAATTGGCAACTCGGCAGCTGGAGCAGTGAGAATCA
1 TAACTGCTCCGTTCTACCAATATCTT-CCTTATTGCCAAATC-GCAGCTGGAGCAGTAAGAATCA
* * * ** * * * *
25322948 CAGTCTTGCGTCTATTCTTCCTCAAGGGGGATTGGTGTTCTGAAGTGATGGCAGACTTGGCCCTC
64 CAGTCTTGCGTCTGTTCCTCCTCAAGGGGGCTTCTTGTTGTGAAG-AAGGGCACACTTGGCCCTC
* ** * **
25323013 TCAACCTCACTCCTATCTTGTACAATTGCATCCAATTCTTCAGTTGTGCCTTTTCCTTGAAGCGG
128 TCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTTCCTACAAGCGG
* *
25323078 TGCCTTCAACTGCTCCGTACTACCAATATCTTCCTTATTTGCCAAATCTGCAGCTGGAGCAGTAA
193 TGCCTTCAACTGCTCCGTACTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAA
* ** *
25323143 GAATCACAGTCTTGCGTCTGTTCCTCCTCGAGGGGCATCTTGTTGTGAAGAAAGGGCACCCTTGG
258 GAACCACAGTCTTGCGTCTGCCCCTCCTCGAGGGGCATCTTGTTGTGAAGAAAGGGCACACTTGG
* * *
25323208 CCCTCTCAACCTCACTACTATCTTCCACAATTGCATCCAATTCTTCATTCGTG-CCTACAAGCGG
323 CCCTCTCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCCTACAACCGG
25323272 TGCCTC
388 TGCCTC
*
25323278 TAACTGCTCCGTTCTACCAATATCTTCCTTATTTGCCAAATCTGCAACTGGAGCAGTAAGAATCA
1 TAACTGCTCCGTTCTACCAATATCTTCCTTA-TTGCCAAATC-GCAGCTGGAGCAGTAAGAATCA
*
25323343 CAGTCTTGCGTCTGTTCCTCCTCAAGGGGGCTTCTTGTTGTGAAGAAAGGGCACCCTTGGCCCTC
64 CAGTCTTGCGTCTGTTCCTCCTCAAGGGGGCTTCTTGTTGTGAAG-AAGGGCACACTTGGCCCTC
* *
25323408 TCTACCTCACTACTATCTTCCACAATTGCATCCAATTCTTCAGTCGTGCCTTTTCCTACAAGCGG
128 TCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTTCCTACAAGCGG
*
25323473 TGCC-TCTAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTA
193 TGCCTTC-AACTGCTCCGTACTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTA
* * * * *
25323537 AGAACCACAGTTTTGCGTCTGCCCCTCCTCGAGGGGCTTCTTGTTGTGAAG-TAGCTGCATACTT
257 AGAACCACAGTCTTGCGTCTGCCCCTCCTCGAGGGGCATCTTGTTGTGAAGAAAG-GGCACACTT
* * *
25323601 GGCCTTTTCGACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTCCCTA
321 GGCCCTCTCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTG-----CCCTA
25323666 CAACCGGTGCCTC
381 CAACCGGTGCCTC
*
25323679 TAACTGCTCCGTTCTACCAATATCTTCCTTATTGACCAAATCGACAGCTGGAGCAGTAAGAACCA
1 TAACTGCTCCGTTCTACCAATATCTTCCTTATTG-CCAAATCG-CAGCTGGAGCAGTAAGAATCA
** * * * * *
25323744 CAGTCTTGCGTCTGCCCCTCCTCGAGGGGGCTGCTTGTTGTGAAGTAGCTGCATACTTGGCCCTC
64 CAGTCTTGCGTCTGTTCCTCCTCAAGGGGGCTTCTTGTTGTGAAGAAG-GGCACACTTGGCCCTC
* *
25323809 TCGACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCGGTCG
128 TCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCG
25323855 AGCCCTTCCC
Statistics
Matches: 508, Mismatches: 57, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
394 8 0.02
395 324 0.64
400 6 0.01
401 170 0.33
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.31
Consensus pattern (393 bp):
TAACTGCTCCGTTCTACCAATATCTTCCTTATTGCCAAATCGCAGCTGGAGCAGTAAGAATCACA
GTCTTGCGTCTGTTCCTCCTCAAGGGGGCTTCTTGTTGTGAAGAAGGGCACACTTGGCCCTCTCA
ACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTTCCTACAAGCGGTGC
CTTCAACTGCTCCGTACTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAA
CCACAGTCTTGCGTCTGCCCCTCCTCGAGGGGCATCTTGTTGTGAAGAAAGGGCACACTTGGCCC
TCTCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCCTACAACCGGTGC
CTC
Found at i:25323676 original size:200 final size:200
Alignment explanation
Indices: 25322847--25323865 Score: 1288
Period size: 201 Copynumber: 5.1 Consensus size: 200
25322837 TTCGTGGTAT
* * * * * * * *
25322847 TTCTTCAGTCGAGACTTTCTCTAGATGCGGTG-ATCTTAACTGCTCCATTCTACTAATATCTTCC
1 TTCTTCAGTCGTGCCTTTCCCTACAAGCGGTGCCTC-TAACTGCTCCGTTCTACCAATATCTT-C
* * * * * *
25322911 CTAATTGG-CAACTCGGCAGCTGGAGCAGTGAGAATCACAGTCTTGCGTCTATTCTTCCTCAAGG
64 CTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAATCACAGTCTTGCGTCTGTTCCTCCTCGAGG
* ** * * * **
25322975 GGGATTGGTGTTCTGAAGT-GATGGCAGACTTGGCCCTCTCAACCTCACTCCTATCTTGTACAAT
129 GGGCTTCTTGTTGTGAAGTAG-T-GCACACTTGGCCCTCTCAACCTCACTACTATCTTCAACAAT
25323039 TGCATCCAA
192 TGCATCCAA
* * ** *
25323048 TTCTTCAGTTGTGCCTTTTCCTTGAAGCGGTGCCT-TCAACTGCTCCGTACTACCAATATCTTCC
1 TTCTTCAGTCGTGCCTTTCCCTACAAGCGGTGCCTCT-AACTGCTCCGTTCTACCAATATCTTCC
* *
25323112 TTATTTGCCAAATCTGCAGCTGGAGCAGTAAGAATCACAGTCTTGCGTCTGTTCCTCCTCGA-GG
65 TTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAATCACAGTCTTGCGTCTGTTCCTCCTCGAGGG
* * * * *
25323176 GGCATCTTGTTGTGAAGAAAGGGCACCCTTGGCCCTCTCAACCTCACTACTATCTTCCACAATTG
130 GGCTTCTTGTTGTGAAG-TAGTGCACACTTGGCCCTCTCAACCTCACTACTATCTTCAACAATTG
25323241 CATCCAA
194 CATCCAA
*
25323248 TTCTTCATTCGTG------CCTACAAGCGGTGCCTCTAACTGCTCCGTTCTACCAATATCTTCCT
1 TTCTTCAGTCGTGCCTTTCCCTACAAGCGGTGCCTCTAACTGCTCCGTTCTACCAATATCTTCCT
* * * *
25323307 TATTTGCCAAATCTGCAACTGGAGCAGTAAGAATCACAGTCTTGCGTCTGTTCCTCCTCAAGGGG
66 TATTGGCCAAATCGGCAGCTGGAGCAGTAAGAATCACAGTCTTGCGTCTGTTCCTCCTCGAGGGG
* * * * *
25323372 GCTTCTTGTTGTGAAGAAAGGGCACCCTTGGCCCTCTCTACCTCACTACTATCTTCCACAATTGC
131 GCTTCTTGTTGTGAAG-TAGTGCACACTTGGCCCTCTCAACCTCACTACTATCTTCAACAATTGC
25323437 ATCCAA
195 ATCCAA
*
25323443 TTCTTCAGTCGTGCCTTTTCCTACAAGCGGTGCCTCTAACTGCTCCGTTCTACCAATATCTTCCT
1 TTCTTCAGTCGTGCCTTTCCCTACAAGCGGTGCCTCTAACTGCTCCGTTCTACCAATATCTTCCT
* * **
25323508 TATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACCACAGTTTTGCGTCTGCCCCTCCTCGA-GGG
66 TATTGGCCAAATCGGCAGCTGGAGCAGTAAGAATCACAGTCTTGCGTCTGTTCCTCCTCGAGGGG
* * * *
25323572 GCTTCTTGTTGTGAAGTAGCTGCATACTTGGCCTTTTCGACCTCACTACTATCTTCAACAATTGC
131 GCTTCTTGTTGTGAAGTAG-TGCACACTTGGCCCTCTCAACCTCACTACTATCTTCAACAATTGC
25323637 ATCCAA
195 ATCCAA
*
25323643 TTCTTCAGTCGTGCCTTTCCCTACAACCGGTGCCTCTAACTGCTCCGTTCTACCAATATCTTCCT
1 TTCTTCAGTCGTGCCTTTCCCTACAAGCGGTGCCTCTAACTGCTCCGTTCTACCAATATCTTCCT
* * * **
25323708 TATTGACCAAATCGACAGCTGGAGCAGTAAGAACCACAGTCTTGCGTCTGCCCCTCCTCGAGGGG
66 TATTGGCCAAATCGGCAGCTGGAGCAGTAAGAATCACAGTCTTGCGTCTGTTCCTCCTCGAGGGG
* * *
25323773 GCTGCTTGTTGTGAAGTAGCTGCATACTTGGCCCTCTCGACCTCACTACTATCTTCAACAATTGC
131 GCTTCTTGTTGTGAAGTAG-TGCACACTTGGCCCTCTCAACCTCACTACTATCTTCAACAATTGC
25323838 ATCCAA
195 ATCCAA
* * *
25323844 TTCTTCGGTCGAGCCCTTCCCT
1 TTCTTCAGTCGTGCCTTTCCCT
25323866 CCAACCGATG
Statistics
Matches: 735, Mismatches: 68, Indels: 30
0.88 0.08 0.04
Matches are distributed among these distances:
194 100 0.14
195 85 0.12
199 2 0.00
200 262 0.36
201 284 0.39
202 2 0.00
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.31
Consensus pattern (200 bp):
TTCTTCAGTCGTGCCTTTCCCTACAAGCGGTGCCTCTAACTGCTCCGTTCTACCAATATCTTCCT
TATTGGCCAAATCGGCAGCTGGAGCAGTAAGAATCACAGTCTTGCGTCTGTTCCTCCTCGAGGGG
GCTTCTTGTTGTGAAGTAGTGCACACTTGGCCCTCTCAACCTCACTACTATCTTCAACAATTGCA
TCCAA
Found at i:25323928 original size:162 final size:162
Alignment explanation
Indices: 25323714--25324168 Score: 641
Period size: 161 Copynumber: 2.8 Consensus size: 162
25323704 TCCTTATTGA
* * * *
25323714 CCAAATC-GACAGCTGGAGCAGTAAGAACCACAGTCTTGCGTCTGCCCCTCCTCGAGGGGGCTGC
1 CCAAATCGGA-AGCTAGAGCGGTAAGAGCCACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTGC
*
25323778 TTGTTGTGAAGTAGCTGCATACTTGGCCCTCTCGACCTCACTACTATCTTCAACAATTGCATCCA
65 TTGTTGTGAAGTAGCTGCATACTTGGCCCTCTCAACCTCACTACTATCTTCAACAATTGCATCCA
* * *
25323843 ATTCTTCGGTCGAGCCCTTCCCTCCAACCGATG
130 ATTCGTCAGTCGAGCCCTTCCCTACAACCGATG
* * *
25323876 CCAAATCGGAAGCTAGATCGGTAAGAGCCACAGTCTTGCGTCTGCTCCTCCTCGAGTGGGCTTCT
1 CCAAATCGGAAGCTAGAGCGGTAAGAGCCACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTGCT
* *
25323941 TGTTGTGAAGTTGCTGCATACTTGGCCC-CTCAACCTCACTACTATCTTCAATAATTGCATCCAA
66 TGTTGTGAAGTAGCTGCATACTTGGCCCTCTCAACCTCACTACTATCTTCAACAATTGCATCCAA
* *
25324005 TTCGTCAGTCGAGCCCTTCCCTACAGCCGGTG
131 TTCGTCAGTCGAGCCCTTCCCTACAACCGATG
* *
25324037 CCAAATCGGCAGCTGGAGCGGTAAGAGCCACAGTCTTGCGTCTGCTCCTCCTCGA-GGGGCTTG-
1 CCAAATCGGAAGCTAGAGCGGTAAGAGCCACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGC-TGC
* * * * * *
25324100 TTGTTGTGAAGTAAC-GACACACTTGACCTTCTCAACCTCACTACTCTCTTCAACAATTGCCTCC
65 TTGTTGTGAAGTAGCTG-CATACTTGGCCCTCTCAACCTCACTACTATCTTCAACAATTGCATCC
25324164 AATTC
129 AATTC
25324169 AGCACTCCTG
Statistics
Matches: 261, Mismatches: 28, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
159 1 0.00
160 26 0.10
161 150 0.57
162 82 0.31
163 2 0.01
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (162 bp):
CCAAATCGGAAGCTAGAGCGGTAAGAGCCACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTGCT
TGTTGTGAAGTAGCTGCATACTTGGCCCTCTCAACCTCACTACTATCTTCAACAATTGCATCCAA
TTCGTCAGTCGAGCCCTTCCCTACAACCGATG
Found at i:25329417 original size:16 final size:15
Alignment explanation
Indices: 25329397--25329464 Score: 91
Period size: 16 Copynumber: 4.3 Consensus size: 15
25329387 GGGAGGAATG
25329397 GAATAGAGCTGTAAT
1 GAATAGAGCTGTAAT
*
25329412 GTAATAGAGTTGTAAT
1 G-AATAGAGCTGTAAT
25329428 GGAATAGAGCTGTAAT
1 -GAATAGAGCTGTAAT
*
25329444 AGAATAGACCTGTAAT
1 -GAATAGAGCTGTAAT
25329460 GAATA
1 GAATA
25329465 ATTCAGTTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.13
16 40 0.85
17 1 0.02
ACGTcount: A:0.41, C:0.06, G:0.25, T:0.28
Consensus pattern (15 bp):
GAATAGAGCTGTAAT
Found at i:25329434 original size:32 final size:32
Alignment explanation
Indices: 25329393--25329464 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
25329383 GGTTGGGAGG
**
25329393 AATGGAATAGAGCTGTAAT-GTAATAGAGTTGT
1 AATGGAATAGAGCTGTAATAG-AATAGACCTGT
25329425 AATGGAATAGAGCTGTAATAGAATAGACCTGT
1 AATGGAATAGAGCTGTAATAGAATAGACCTGT
25329457 AAT-GAATA
1 AATGGAATA
25329465 ATTCAGTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 5 0.14
32 31 0.84
33 1 0.03
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (32 bp):
AATGGAATAGAGCTGTAATAGAATAGACCTGT
Found at i:25330363 original size:13 final size:13
Alignment explanation
Indices: 25330347--25330380 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
25330337 TAAATTATAA
*
25330347 ATTATTATTAACT
1 ATTATTATTAAAT
25330360 ATTATTATTAAAT
1 ATTATTATTAAAT
*
25330373 AATATTAT
1 ATTATTAT
25330381 ATATATATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTATTATTAAAT
Found at i:25330432 original size:17 final size:17
Alignment explanation
Indices: 25330410--25330444 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
25330400 AAATGAAGAA
*
25330410 AAAGAATAAAAAGAAAC
1 AAAGAAGAAAAAGAAAC
*
25330427 AAAGAAGAATAAGAAAC
1 AAAGAAGAAAAAGAAAC
25330444 A
1 A
25330445 GAGAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.14, T:0.06
Consensus pattern (17 bp):
AAAGAAGAAAAAGAAAC
Found at i:25332049 original size:39 final size:39
Alignment explanation
Indices: 25331942--25332076 Score: 121
Period size: 39 Copynumber: 3.4 Consensus size: 39
25331932 GACCTCGAGT
* * * *
25331942 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAT-TATTACTTCGGCTAG-TC
** ** * *
25331983 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAATTATTACTTCGGCTAGTC
*
25332021 CGATGAGACACTGGGTGTCAATTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAATTATTACTTCG-GCTAGTC
*
25332060 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
25332077 CCATATTGGT
Statistics
Matches: 74, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
38 18 0.24
39 36 0.49
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTATTACTTCGGCTAGTC
Found at i:25337529 original size:54 final size:54
Alignment explanation
Indices: 25337471--25337578 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
25337461 ATACCTAATT
* *
25337471 ACTTTTAATTTATGCAAATTCACTTAACCGAAATCTAATTAACTACACAACTAG
1 ACTTTTAATTTATACAAATTCACTTAACCAAAATCTAATTAACTACACAACTAG
25337525 ACTTTTAATTTATACAAATTCACTTAACCAAAATCTAATTAACTACACAACTAG
1 ACTTTTAATTTATACAAATTCACTTAACCAAAATCTAATTAACTACACAACTAG
25337579 TTCGTAAATA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (54 bp):
ACTTTTAATTTATACAAATTCACTTAACCAAAATCTAATTAACTACACAACTAG
Found at i:25340278 original size:26 final size:26
Alignment explanation
Indices: 25340247--25340301 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
25340237 TTCTAAAAAA
*
25340247 TTTACCAG-GGGCAAAATCGTTAAATT
1 TTTACC-GTGGGCAAAATCGTCAAATT
* *
25340273 TTTACCGTGGGTAAAATTGTCAAATT
1 TTTACCGTGGGCAAAATCGTCAAATT
25340299 TTT
1 TTT
25340302 GGGGGTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.04
26 24 0.96
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (26 bp):
TTTACCGTGGGCAAAATCGTCAAATT
Found at i:25342584 original size:22 final size:23
Alignment explanation
Indices: 25342557--25342809 Score: 137
Period size: 25 Copynumber: 10.7 Consensus size: 23
25342547 CACTAATGAA
25342557 CAGAGAGCACTGAAGTGCTATA-
1 CAGAGAGCACTGAAGTGCTATAT
*
25342579 CAGAGAGCAC-AAATGTGCTA-AT
1 CAGAGAGCACTGAA-GTGCTATAT
* * * *
25342601 TAGATAGCAATGACGTGCTAAATAT
1 CAGAGAGCACTGAAGTGCT--ATAT
* * *
25342626 TAGAGAGCAC-AAATGTGCCA-AT
1 CAGAGAGCACTGAA-GTGCTATAT
* *
25342648 CAAAGAGCACTGACGTGCTAAATAT
1 CAGAGAGCACTGAAGTGCT--ATAT
* *
25342673 CAGAGAGCAC-AAATGTGCCA-AT
1 CAGAGAGCACTGAA-GTGCTATAT
*
25342695 CAGAGAGCACTGACGTGCTAAATAT
1 CAGAGAGCACTGAAGTGCT--ATAT
*
25342720 CAGAGAGCAC-AAATGTGCTA-AT
1 CAGAGAGCACTGAA-GTGCTATAT
* *
25342742 CAGAGAGCACTGACGTACTAATATT
1 CAGAGAGCACTGAAGTGCT-ATA-T
**
25342767 CAGAGAGCACTGGCGTGCTAATAAT
1 CAGAGAGCACTGAAGTGCT-AT-AT
25342792 CAGAGAGCATGCTGAAGT
1 CAGAGAGCA--CTGAAGT
25342810 CCCTTAATAT
Statistics
Matches: 175, Mismatches: 32, Indels: 43
0.70 0.13 0.17
Matches are distributed among these distances:
21 3 0.02
22 74 0.42
23 8 0.05
24 7 0.04
25 77 0.44
26 1 0.01
27 5 0.03
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.20
Consensus pattern (23 bp):
CAGAGAGCACTGAAGTGCTATAT
Found at i:25342788 original size:47 final size:47
Alignment explanation
Indices: 25342557--25342776 Score: 322
Period size: 47 Copynumber: 4.7 Consensus size: 47
25342547 CACTAATGAA
*
25342557 CAGAGAGCACTGAAGTGCT--ATA-CAGAGAGCACAAATGTGCTAAT
1 CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGTGCTAAT
* * * * *
25342601 TAGATAGCAATGACGTGCTAAATATTAGAGAGCACAAATGTGCCAAT
1 CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGTGCTAAT
* *
25342648 CAAAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGTGCCAAT
1 CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGTGCTAAT
25342695 CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGTGCTAAT
1 CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGTGCTAAT
*
25342742 CAGAGAGCACTGACGTACT-AATATTCAGAGAGCAC
1 CAGAGAGCACTGACGTGCTAAATA-TCAGAGAGCAC
25342777 TGGCGTGCTA
Statistics
Matches: 158, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
44 15 0.09
46 7 0.04
47 136 0.86
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (47 bp):
CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGTGCTAAT
Found at i:25343670 original size:25 final size:25
Alignment explanation
Indices: 25343636--25343785 Score: 140
Period size: 22 Copynumber: 6.4 Consensus size: 25
25343626 GACTTCAGCA
**
25343636 TGCTCTCTGAT-TATTAGCACGCCAG
1 TGCTCTCTGATAT-TTAGCACATCAG
*
25343661 TGCTCTCTGATATTTAGCACGTCAG
1 TGCTCTCTGATATTTAGCACATCAG
**
25343686 TGCTCTCT-A-A-TTAGCACATTTG
1 TGCTCTCTGATATTTAGCACATCAG
25343708 TGCTCTCTGATATTTAGCACATCAG
1 TGCTCTCTGATATTTAGCACATCAG
**
25343733 TGCTCTCTG--A-TTAGCACATTTG
1 TGCTCTCTGATATTTAGCACATCAG
* *
25343755 TGCTCTCTG-TA--TAACACTTCAG
1 TGCTCTCTGATATTTAGCACATCAG
25343777 TGCTCTCTG
1 TGCTCTCTG
25343786 TTCATTAGTG
Statistics
Matches: 108, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
22 52 0.48
23 4 0.04
24 2 0.02
25 49 0.45
26 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.37
Consensus pattern (25 bp):
TGCTCTCTGATATTTAGCACATCAG
Found at i:25343711 original size:47 final size:47
Alignment explanation
Indices: 25343660--25343784 Score: 193
Period size: 47 Copynumber: 2.7 Consensus size: 47
25343650 TAGCACGCCA
*
25343660 GTGCTCTCTGATATTTAGCACGTCAGTGCTCTCTAATTAGCACATTT
1 GTGCTCTCTGATATTTAGCACATCAGTGCTCTCTAATTAGCACATTT
*
25343707 GTGCTCTCTGATATTTAGCACATCAGTGCTCTCTGATTAGCACATTT
1 GTGCTCTCTGATATTTAGCACATCAGTGCTCTCTAATTAGCACATTT
* *
25343754 GTGCTCTCTG-TA--TAACACTTCAGTGCTCTCT
1 GTGCTCTCTGATATTTAGCACATCAGTGCTCTCT
25343785 GTTCATTAGT
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
44 17 0.23
46 2 0.03
47 55 0.74
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (47 bp):
GTGCTCTCTGATATTTAGCACATCAGTGCTCTCTAATTAGCACATTT
Found at i:25345876 original size:13 final size:14
Alignment explanation
Indices: 25345845--25345875 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
25345835 TATTATTATT
*
25345845 AAAAGTAAATAAAA
1 AAAAGGAAATAAAA
25345859 AAAAGGAAATAAAA
1 AAAAGGAAATAAAA
25345873 AAA
1 AAA
25345876 GAAAGAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (14 bp):
AAAAGGAAATAAAA
Found at i:25350598 original size:29 final size:29
Alignment explanation
Indices: 25350559--25350642 Score: 127
Period size: 28 Copynumber: 3.0 Consensus size: 29
25350549 CACTTTGTGC
*
25350559 TATTCTGGTGTGTTTTGGGTGGATTATAT
1 TATTCTGGTGTGTTTTGGGAGGATTATAT
25350588 TATTCTGGTGTG-TTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGGAGGATTATAT
* *
25350616 GATACTGGTGTGTTTT-GGAGGATTATA
1 TATTCTGGTGTGTTTTGGGAGGATTATA
25350643 CTGGTGTGTT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
28 36 0.71
29 15 0.29
ACGTcount: A:0.18, C:0.04, G:0.32, T:0.46
Consensus pattern (29 bp):
TATTCTGGTGTGTTTTGGGAGGATTATAT
Found at i:25350612 original size:23 final size:23
Alignment explanation
Indices: 25350586--25350678 Score: 80
Period size: 23 Copynumber: 3.8 Consensus size: 23
25350576 GGTGGATTAT
25350586 ATTATTCTGGTGTGTTTGGGAGG
1 ATTATTCTGGTGTGTTTGGGAGG
*
25350609 ATTATATGATACTGGTGTGTTTTGGAGG
1 A-T-TAT--T-CTGGTGTGTTTGGGAGG
* **
25350637 ATTATACTGGTGTGTTTTGGTTGG
1 ATTATTCTGGTGTG-TTTGGGAGG
*
25350661 A-TATTTTGGTGTGTTTGG
1 ATTATTCTGGTGTGTTTGG
25350679 ATGGAATCCG
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
22 5 0.09
23 19 0.33
24 8 0.14
25 3 0.05
26 3 0.05
27 2 0.04
28 17 0.30
ACGTcount: A:0.15, C:0.03, G:0.34, T:0.47
Consensus pattern (23 bp):
ATTATTCTGGTGTGTTTGGGAGG
Found at i:25350884 original size:22 final size:23
Alignment explanation
Indices: 25350847--25350890 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
25350837 GCTTTACTGA
25350847 TCAGGCACTTTATGTGTCGTATG
1 TCAGGCACTTTATGTGTCGTATG
25350870 TCAGGCAC-TTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
25350891 TCTGATCAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATG
Found at i:25361535 original size:28 final size:28
Alignment explanation
Indices: 25361459--25361536 Score: 75
Period size: 30 Copynumber: 2.7 Consensus size: 28
25361449 AGATGACAAA
25361459 TTTTTAGAATTAAAATTAAATTAATTTTT
1 TTTTTAGAATTAAAATT-AATTAATTTTT
* ** **
25361488 TTTTTAAATATTGATGATTAATTTTTTTTT
1 TTTTTAGA-ATT-AAAATTAATTAATTTTT
*
25361518 TTTTTAGAATTCAAATTAA
1 TTTTTAGAATTAAAATTAA
25361537 AAAATAAATT
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
28 5 0.13
29 10 0.26
30 19 0.50
31 4 0.11
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTTTAGAATTAAAATTAATTAATTTTT
Found at i:25365226 original size:13 final size:14
Alignment explanation
Indices: 25365208--25365236 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25365198 AAAATATACA
25365208 AAAATT-AAATAGT
1 AAAATTGAAATAGT
25365221 AAAATTGAAATAGT
1 AAAATTGAAATAGT
25365235 AA
1 AA
25365237 TAGATGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (14 bp):
AAAATTGAAATAGT
Found at i:25365623 original size:21 final size:20
Alignment explanation
Indices: 25365584--25365623 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
25365574 ATAATAATAG
*
25365584 TATTTTAAATTTAAGATATT
1 TATTTTAAATTTAAAATATT
*
25365604 TATTTTATATTTTAAAATAT
1 TATTTTA-AATTTAAAATAT
25365624 ATTGTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TATTTTAAATTTAAAATATT
Found at i:25371668 original size:19 final size:18
Alignment explanation
Indices: 25371644--25371679 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
25371634 GCAGTAGTCT
25371644 AAATTTGAAAAATCATAAA
1 AAATTTGAAAAAT-ATAAA
*
25371663 AAATTTTAAAAATATAA
1 AAATTTGAAAAATATAA
25371680 TTATAGGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (18 bp):
AAATTTGAAAAATATAAA
Found at i:25373315 original size:46 final size:46
Alignment explanation
Indices: 25373263--25373384 Score: 226
Period size: 46 Copynumber: 2.7 Consensus size: 46
25373253 GCTTTCTGAA
25373263 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
25373309 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
25373355 ATAAAATGCGTAAGACCATGGTTGAAAGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGAT
25373385 TGTAACGCCC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:25375493 original size:2 final size:2
Alignment explanation
Indices: 25375486--25375513 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25375476 AATTATTTTA
25375486 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
25375514 TTAGTACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25377787 original size:26 final size:26
Alignment explanation
Indices: 25377758--25377865 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
25377748 TGGTACAAAT
25377758 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
25377784 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25377810 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
25377836 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25377862 TGAT
1 TGAT
25377866 GGACATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:25379504 original size:27 final size:27
Alignment explanation
Indices: 25379464--25379604 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
25379454 AGGAAGCGTC
*
25379464 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
25379491 TTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
25379517 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
25379545 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
25379572 CTGGTGGCTCTACCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
25379599 CTGGTG
1 CTGGTG
25379605 ACTTCGTCAC
Statistics
Matches: 99, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
26 11 0.11
27 84 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:25379543 original size:54 final size:54
Alignment explanation
Indices: 25379461--25379604 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
25379451 TGGAGGAAGC
*
25379461 GTCCTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
25379515 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * *
25379569 GTTCTGGTGGCTCTACCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
25379605 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 6 0.07
54 79 0.93
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:25379615 original size:27 final size:26
Alignment explanation
Indices: 25379477--25379622 Score: 104
Period size: 27 Copynumber: 5.4 Consensus size: 26
25379467 GTGGCTATGC
* *
25379477 CACAATTATCTG-ATTTGGTGGCTCTGC
1 CACAA-TATCTGTATCTGGTGGCTC-GT
* * *
25379504 CACATATATCTGT-CCTGGTGGCTATGC
1 CACA-ATATCTGTATCTGGTGGCT-CGT
*
25379531 CACAATTATCTG-ATCTGGTGGCTCTGC
1 CACAA-TATCTGTATCTGGTGGCTC-GT
25379558 CACATATATCTGT-TCTGGTGGCTC-T
1 CACA-ATATCTGTATCTGGTGGCTCGT
*
25379583 ACCACAATATCTGTATCTGGTGACTTCGT
1 --CACAATATCTGTATCTGGTGGC-TCGT
25379612 CACAATATCTG
1 CACAATATCTG
25379623 GCAGCCTCGC
Statistics
Matches: 99, Mismatches: 7, Indels: 26
0.75 0.05 0.20
Matches are distributed among these distances:
26 9 0.09
27 85 0.86
28 4 0.04
29 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.35
Consensus pattern (26 bp):
CACAATATCTGTATCTGGTGGCTCGT
Found at i:25379616 original size:81 final size:80
Alignment explanation
Indices: 25379464--25379622 Score: 200
Period size: 81 Copynumber: 2.0 Consensus size: 80
25379454 AGGAAGCGTC
* *
25379464 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTACCACATATATCTGTCCTGGTGACTAT
25379529 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* *
25379545 CTGGTGGCTCTGCCAC-ATATATCTG-TTCTGGTGGCTCTACCACA-ATATCTGTATCTGGTGAC
1 CTGGTGGCTATGCCACAAT-TATCTGATT-TGGTGGCTCTACCACATATATCTGT-CCTGGTGAC
*
25379607 T-TCGTCACAATATCTG
63 TAT-GCCACAATATCTG
25379623 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
80 19 0.28
81 50 0.72
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTACCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:25381239 original size:23 final size:23
Alignment explanation
Indices: 25381212--25381267 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
25381202 GATTCCATCC
*
25381212 AAACACACCAAAAT-GTCCGACCA
1 AAACACACCAAAATAATCC-ACCA
* *
25381235 AAACACACCAATATAATCCTCCA
1 AAACACACCAAAATAATCCACCA
25381258 AAACACACCA
1 AAACACACCA
25381268 GTATCATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 26 0.90
24 3 0.10
ACGTcount: A:0.50, C:0.36, G:0.04, T:0.11
Consensus pattern (23 bp):
AAACACACCAAAATAATCCACCA
Found at i:25381277 original size:28 final size:28
Alignment explanation
Indices: 25381245--25381328 Score: 105
Period size: 28 Copynumber: 3.0 Consensus size: 28
25381235 AAACACACCA
*
25381245 ATATAATCCTCCAAAACACACCAGTATC
1 ATATAATCCTCCAAAACACACCAGAATC
* * * *
25381273 ATATAATCCTCCCAAATACACCTGAATG
1 ATATAATCCTCCAAAACACACCAGAATC
*
25381301 ATATAATCCATCCAAAACACACTAGAAT
1 ATATAATCC-TCCAAAACACACCAGAAT
25381329 TCGGATAAAC
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 32 0.70
29 14 0.30
ACGTcount: A:0.44, C:0.29, G:0.05, T:0.23
Consensus pattern (28 bp):
ATATAATCCTCCAAAACACACCAGAATC
Found at i:25384277 original size:46 final size:45
Alignment explanation
Indices: 25384157--25384298 Score: 167
Period size: 46 Copynumber: 3.1 Consensus size: 45
25384147 ATGCTGTTAC
* * *
25384157 AAAGATACCATGGCAACATGACGGGAATGAATAAGACCATTGTTG
1 AAAGATACCATGGCAACATGACAGAAATGAATAAGACCATAGTTG
* ** * * *
25384202 AAAGATACCATGGGAATGTAACATGAAATGAACAAGACCATGGTTG
1 AAAGATACCATGGCAACATGACA-GAAATGAATAAGACCATAGTTG
* *
25384248 AAAGATACCATGGCAACCTGACAGAAAATGAGTAAGACCATAGTTG
1 AAAGATACCATGGCAACATGACAG-AAATGAATAAGACCATAGTTG
25384294 AAAGA
1 AAAGA
25384299 CATTATGGCA
Statistics
Matches: 80, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
45 19 0.24
46 61 0.76
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.18
Consensus pattern (45 bp):
AAAGATACCATGGCAACATGACAGAAATGAATAAGACCATAGTTG
Found at i:25387493 original size:2 final size:2
Alignment explanation
Indices: 25387486--25387521 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
25387476 TCATGTTTTG
25387486 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
25387522 GGTATTACCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25388564 original size:37 final size:37
Alignment explanation
Indices: 25388509--25388582 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
25388499 TTGGTAGAGG
*
25388509 TTGTAACAAGCCAGCGTATGTTAAATTGTCCCCCTTA
1 TTGTAACAAGCCAACGTATGTTAAATTGTCCCCCTTA
25388546 TTGTAACAAGCCAACGTATGTTAAATTGTCCCCCTTA
1 TTGTAACAAGCCAACGTATGTTAAATTGTCCCCCTTA
25388583 CATGTTTGAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.32
Consensus pattern (37 bp):
TTGTAACAAGCCAACGTATGTTAAATTGTCCCCCTTA
Found at i:25391767 original size:3 final size:3
Alignment explanation
Indices: 25391761--25391801 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
25391751 TATTATACTA
25391761 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
25391802 ATAATACATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:25391989 original size:10 final size:10
Alignment explanation
Indices: 25391976--25392000 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
25391966 AATTACTTTT
25391976 AATTCAAGTA
1 AATTCAAGTA
25391986 AATTCAAGTA
1 AATTCAAGTA
25391996 AATTC
1 AATTC
25392001 GCTTAATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (10 bp):
AATTCAAGTA
Found at i:25393191 original size:25 final size:25
Alignment explanation
Indices: 25393161--25393212 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
25393151 TTTGGCTTGA
**
25393161 CATTTACTAAGCAATATTGAATATT
1 CATTTACTAAGCAATATCAAATATT
* *
25393186 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
25393211 CA
1 CA
25393213 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.38
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:25396633 original size:44 final size:44
Alignment explanation
Indices: 25396583--25396668 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
25396573 TAACAGTAGC
*
25396583 AGTACGACACACATGGTGCCTCATCGACTCGAA-GTCGAAGTAAT
1 AGTACGACACACATAGTGCCTCATCGACTC-AAGGTCGAAGTAAT
**
25396627 AGTACGACACTTATAGTGCCTCATCGACTCAAGGTCGAAGTA
1 AGTACGACACACATAGTGCCTCATCGACTCAAGGTCGAAGTA
25396669 TCCCTGAACA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 2 0.05
44 36 0.95
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (44 bp):
AGTACGACACACATAGTGCCTCATCGACTCAAGGTCGAAGTAAT
Found at i:25397403 original size:3 final size:3
Alignment explanation
Indices: 25397395--25397424 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
25397385 TAACTACGAA
25397395 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
25397425 TGAATTTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:25397468 original size:16 final size:17
Alignment explanation
Indices: 25397437--25397469 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
25397427 AATTTCTATC
25397437 CAATTTATACCCTAATT
1 CAATTTATACCCTAATT
*
25397454 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
25397470 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
CAATTTATACCCTAATT
Found at i:25398267 original size:20 final size:18
Alignment explanation
Indices: 25398242--25398278 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
25398232 ACCATTTGAT
25398242 TTATTTCATAATATAATATC
1 TTATTT-ATAAT-TAATATC
25398262 TTATTTATAATTAATAT
1 TTATTTATAATTAATAT
25398279 AAATTACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 5 0.29
20 6 0.35
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATTTATAATTAATATC
Found at i:25400372 original size:21 final size:22
Alignment explanation
Indices: 25400348--25400389 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
25400338 TTTTCTATCT
25400348 TTATTT-CATTTAT-TTTATTTG
1 TTATTTAC-TTTATGTTTATTTG
25400369 TTATTTACTTTATGTTTATTT
1 TTATTTACTTTATGTTTATTT
25400390 TAATAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.71
Consensus pattern (22 bp):
TTATTTACTTTATGTTTATTTG
Found at i:25401891 original size:33 final size:33
Alignment explanation
Indices: 25401852--25401960 Score: 132
Period size: 33 Copynumber: 3.3 Consensus size: 33
25401842 GGTGTACATT
**
25401852 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
1 CCTTTTCAAGTGGTATACACAAAGTATACCTAA
*
25401885 CTTTTTCATA-TGGTATACACAAAGTATACCTAA
1 CCTTTTCA-AGTGGTATACACAAAGTATACCTAA
* * * *
25401918 CCTTTCCAAGT-GTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGGTATACACAAAGTATACCTAA
25401950 CCTTTTCAAGT
1 CCTTTTCAAGT
25401961 TGTAGCACTT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
32 29 0.45
33 35 0.54
34 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.34
Consensus pattern (33 bp):
CCTTTTCAAGTGGTATACACAAAGTATACCTAA
Found at i:25405918 original size:80 final size:80
Alignment explanation
Indices: 25405779--25405966 Score: 209
Period size: 80 Copynumber: 2.4 Consensus size: 80
25405769 TGAATGATAC
* * ** * * *
25405779 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAT-TTATATCCGGGTTAAGACCCGAAGGCAATT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-TGTTATATCCGGGCTAAGACCCAAAGGCAATT
*
25405843 GTGCTAGT-GACTACAT
65 GTGCAAGTCG-CTACAT
* * *
25405859 CCGGGCTGAGACCCGAAGGCATTCGTGCAAGTTGTTATATCCGGGCTAATACCCAAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTATATCCGGGCTAAGACCCAAAGGCAATTG
* *
25405924 TGCAAGTCGTTATAT
66 TGCAAGTCGCTACAT
* *
25405939 CTGGGCTAAGACCTGAAGGCATTCGTGC
1 CCGGGCTAAGACCCGAAGGCATTCGTGC
25405967 GTGTGGTTAT
Statistics
Matches: 90, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
79 1 0.01
80 88 0.98
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTATATCCGGGCTAAGACCCAAAGGCAATTG
TGCAAGTCGCTACAT
Found at i:25405976 original size:40 final size:40
Alignment explanation
Indices: 25405779--25405978 Score: 186
Period size: 40 Copynumber: 5.0 Consensus size: 40
25405769 TGAATGATAC
* * ** * **
25405779 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTATTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATAT
* * ** *
25405819 CCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACTACAT
1 CCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGGTTATAT
* *
25405859 CCGGGCTGAGACCCGAAGGCATTCGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATAT
* * * *
25405899 CCGGGCTAATACCCAAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATAT
* * **
25405939 CTGGGCTAAGACCTGAAGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATAT
25405979 TCGGTTGTGT
Statistics
Matches: 130, Mismatches: 28, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
39 3 0.02
40 124 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATAT
Found at i:25412778 original size:80 final size:80
Alignment explanation
Indices: 25412640--25412841 Score: 226
Period size: 80 Copynumber: 2.5 Consensus size: 80
25412630 AATGATACCC
* * ** * ** * *
25412640 GGGCTAAGTCCCGAAGACATTTATGCTAGTATTTATATCCGGGTTAAGACCCGAAGGCAATTGTG
1 GGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATATCCGGGCTAAGACCCAAAGGCAATTGTG
*
25412705 CTAGT-GACTACATCT
66 CAAGTCG-CTACATCT
* * * *
25412720 GGGCTGAGACCCGAAGGCATTCGTGCAAGTTGTTATATCCGGGCTAATACCCAAAGGCATTTGTG
1 GGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATATCCGGGCTAAGACCCAAAGGCAATTGTG
* *
25412785 CAAGTCGTTATATCT
66 CAAGTCGCTACATCT
**
25412800 GGGCTAAGACCCGAAGGCATTCGTGCGTGTGGTTATATCCGG
1 GGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATATCCGG
25412842 TTGTGTTCCG
Statistics
Matches: 102, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 101 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
GGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATATCCGGGCTAAGACCCAAAGGCAATTGTG
CAAGTCGCTACATCT
Found at i:25412835 original size:40 final size:40
Alignment explanation
Indices: 25412638--25412841 Score: 194
Period size: 40 Copynumber: 5.1 Consensus size: 40
25412628 TGAATGATAC
* * ** * **
25412638 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTATTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATAT
* * ** *
25412678 CCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACTACAT
1 CCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGGTTATAT
* * *
25412718 CTGGGCTGAGACCCGAAGGCATTCGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATAT
* * * *
25412758 CCGGGCTAATACCCAAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATAT
* **
25412798 CTGGGCTAAGACCCGAAGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATAT
25412838 CCGG
1 CCGG
25412842 TTGTGTTCCG
Statistics
Matches: 132, Mismatches: 30, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
39 3 0.02
40 126 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTATAT
Found at i:25413229 original size:54 final size:54
Alignment explanation
Indices: 25413161--25413334 Score: 260
Period size: 54 Copynumber: 3.2 Consensus size: 54
25413151 AGAATTTGCA
** * * *
25413161 GCATAGCTGCCAAAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTG
1 GCATAGCCACCAAAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTG
* *
25413215 GCAGAGCCACCAAAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTG
1 GCATAGCCACCAAAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTG
*
25413269 GCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTG
1 GCATAGCCACCAAAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTG
25413323 GCATAGCCACCA
1 GCATAGCCACCA
25413335 GGACGCTTCC
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 91 0.83
55 18 0.17
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
GCATAGCCACCAAAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTG
Found at i:25413335 original size:27 final size:27
Alignment explanation
Indices: 25413176--25413335 Score: 191
Period size: 27 Copynumber: 5.9 Consensus size: 27
25413166 GCTGCCAAAA
* *
25413176 CAGATAA-TGTGACAGAGTCACCAGAT
1 CAGATAATTGTGGCAGAGCCACCAGAT
* * *
25413202 ACAGATAATCGTGGCAGAGCCACCAAAA
1 -CAGATAATTGTGGCAGAGCCACCAGAT
25413230 CAGAT-ATATGTGGCAGAGCCACCAGAT
1 CAGATAAT-TGTGGCAGAGCCACCAGAT
* * *
25413257 CAGATATTTGTGGCATAGCCACCAGAA
1 CAGATAATTGTGGCAGAGCCACCAGAT
25413284 CAGAT-ATATGTGGCAGAGCCACCAGAT
1 CAGATAAT-TGTGGCAGAGCCACCAGAT
*
25413311 CAGATAATTGTGGCATAGCCACCAG
1 CAGATAATTGTGGCAGAGCCACCAG
25413336 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.03
27 93 0.82
28 17 0.15
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATAATTGTGGCAGAGCCACCAGAT
Found at i:25414992 original size:26 final size:26
Alignment explanation
Indices: 25414956--25415117 Score: 270
Period size: 26 Copynumber: 6.2 Consensus size: 26
25414946 CATGAAATTC
25414956 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
25414982 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
25415008 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
25415034 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
25415060 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
25415086 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
25415112 TTATCA
1 TTATCA
25415118 ATTTGTATCA
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 130 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:25415089 original size:78 final size:78
Alignment explanation
Indices: 25414956--25415117 Score: 306
Period size: 78 Copynumber: 2.1 Consensus size: 78
25414946 CATGAAATTC
25414956 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
25415021 TTTACCTAACCTA
66 TTTACCTAACCTA
* *
25415034 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
25415099 TTTACCTAACCTA
66 TTTACCTAACCTA
25415112 TTATCA
1 TTATCA
25415118 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (78 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
TTTACCTAACCTA
Found at i:25421074 original size:33 final size:33
Alignment explanation
Indices: 25421036--25421149 Score: 142
Period size: 33 Copynumber: 3.5 Consensus size: 33
25421026 GGTGTACATT
**
25421036 CCTTTTCAAGTGGTACACACAAAGTATACCTTT
1 CCTTTTCAAGTGGTACACACAAAGTATACCTAA
*
25421069 CCTTTTCATA-TGGTATACACAAAGTATACCTAA
1 CCTTTTCA-AGTGGTACACACAAAGTATACCTAA
* * *
25421102 CCTTTCCAAGT-GTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGGTACACACAAAGTATACCTAA
*
25421134 CCTTTTCAAGTTGTAC
1 CCTTTTCAAGTGGTAC
25421150 CACTTGGGTA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
32 29 0.41
33 40 0.57
34 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.32
Consensus pattern (33 bp):
CCTTTTCAAGTGGTACACACAAAGTATACCTAA
Found at i:25422417 original size:21 final size:23
Alignment explanation
Indices: 25422389--25422450 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 23
25422379 TGATCAGTAT
25422389 ACGACACATAAAGTGCCT-AA-A
1 ACGACACATAAAGTGCCTCAAGA
* ** * *
25422410 ATGACACACGAGGTGCCTCAAGT
1 ACGACACATAAAGTGCCTCAAGA
25422433 ACGACACATAAAGTGCCT
1 ACGACACATAAAGTGCCT
25422451 GATCGGTAAA
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
21 14 0.47
22 2 0.07
23 14 0.47
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.16
Consensus pattern (23 bp):
ACGACACATAAAGTGCCTCAAGA
Found at i:25422855 original size:15 final size:14
Alignment explanation
Indices: 25422831--25422870 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
25422821 TATATATTAT
25422831 ATAATTCAATCAAA
1 ATAATTCAATCAAA
*
25422845 ATAATTTCAATCAAT
1 ATAA-TTCAATCAAA
25422860 ATAAATTCAAT
1 AT-AATTCAAT
25422871 AAATTTATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 17 0.74
16 2 0.09
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATTCAATCAAA
Found at i:25423236 original size:51 final size:51
Alignment explanation
Indices: 25423180--25423297 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 51
25423170 CCAAAATTTT
* * * *
25423180 CTTCATACTTCATCCGGA-ATTATTACTTTGTTGTTCTGGCTTCAACAAGAA
1 CTTCATATTTCATCCGGATA-TATTACTTTATTGCTCTAGCTTCAACAAGAA
* *
25423231 CTTCATATTTCATCCGGATATATTACTTTATTGCTCTAGTTTCAACAAGAG
1 CTTCATATTTCATCCGGATATATTACTTTATTGCTCTAGCTTCAACAAGAA
25423282 CTTCATATTTCATCCG
1 CTTCATATTTCATCCG
25423298 AATAACTTAG
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 59 0.98
52 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (51 bp):
CTTCATATTTCATCCGGATATATTACTTTATTGCTCTAGCTTCAACAAGAA
Found at i:25423743 original size:2 final size:2
Alignment explanation
Indices: 25423736--25423774 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
25423726 TTACTTGTTT
25423736 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
25423775 ATAACATTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:25425648 original size:27 final size:27
Alignment explanation
Indices: 25425618--25425704 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 27
25425608 CAAATTGTAA
*
25425618 AATTACCAAAGTACCATCGATTTATAG
1 AATTACCAAAGTACCATCGATTTACAG
**** *
25425645 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCATCGATTTACAG
*** * *
25425672 AATTACCATTTTACCCTTGATTTACAG
1 AATTACCAAAGTACCATCGATTTACAG
25425699 AATTAC
1 AATTAC
25425705 TGTTTTACCC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (27 bp):
AATTACCAAAGTACCATCGATTTACAG
Found at i:25425710 original size:27 final size:27
Alignment explanation
Indices: 25425629--25425730 Score: 143
Period size: 27 Copynumber: 3.8 Consensus size: 27
25425619 ATTACCAAAG
* *
25425629 TACCATCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
25425656 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
25425683 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
25425710 TACCCTCGATTTA-AAAATTAC
1 TACCCTCGATTTACAGAATTAC
25425731 TAAAATGCCC
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 7 0.10
27 60 0.90
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:25425756 original size:53 final size:54
Alignment explanation
Indices: 25425616--25425758 Score: 153
Period size: 54 Copynumber: 2.7 Consensus size: 54
25425606 CTCAAATTGT
* * * * *
25425616 AAAATTACCAAAGTACCATCGATTTATAGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTAC
* *** * *
25425670 AGAATTACCATTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTA-
1 AAAATTACCAAAATACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTAC
* * *
25425723 AAAATTACTAAAATGCCCTTGGTTTACAAAATTACC
1 AAAATTACCAAAATACCCTTGATTTACAAAATTACC
25425759 AAAATATCCT
Statistics
Matches: 72, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
53 27 0.38
54 45 0.62
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTAC
Found at i:25425815 original size:26 final size:26
Alignment explanation
Indices: 25425723--25425955 Score: 223
Period size: 27 Copynumber: 8.7 Consensus size: 26
25425713 CCTCGATTTA
* * * **
25425723 AAAATTACTAAAATGCCCTTGGTTTAC
1 AAAATTACCAAAATACCC-TAGTTTGT
* * **
25425750 AAAATTACCAAAATATCCTCGATCAGT
1 AAAATTACCAAAATACCCTAG-TTTGT
*
25425777 AAAATTACCAAAATACCCTAGTCTGT
1 AAAATTACCAAAATACCCTAGTTTGT
* * *
25425803 AAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATA-CCCTAGTTTGT
* *
25425830 AAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCT-AGTTTGT
25425857 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATA-CCCTAGTTTGT
*
25425884 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACC-CTAGTTTGT
* * * *
25425911 GAAATTATCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCT-AGTTTGT
25425938 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
25425956 CTGATTTACA
Statistics
Matches: 169, Mismatches: 31, Indels: 12
0.80 0.15 0.06
Matches are distributed among these distances:
26 27 0.16
27 138 0.82
28 4 0.02
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTAGTTTGT
Found at i:25425916 original size:81 final size:81
Alignment explanation
Indices: 25425723--25425957 Score: 312
Period size: 81 Copynumber: 2.9 Consensus size: 81
25425713 CCTCGATTTA
* * ** * * * **
25425723 AAAATTACTAAAATGCC-CTTGGTTTACAAAATTACCAAAATATCCTCGATCAGTAAAATTACCA
1 AAAATTACCAAAATACCAC-TGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
25425787 AAATA-CCCTAGTCTGT
65 AAATACCCCTAGTCTGT
* * *
25425803 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
*
25425868 AATACCCCTAGTTTGT
66 AATACCCCTAGTCTGT
* *
25425884 AAAATTACCAAAATACCACTGGTTTGTGAAATTATCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
25425949 AATACCCCT
66 AATACCCCT
25425958 GATTTACAAA
Statistics
Matches: 138, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
80 58 0.42
81 80 0.58
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
AATACCCCTAGTCTGT
Found at i:25425962 original size:27 final size:27
Alignment explanation
Indices: 25425723--25426065 Score: 205
Period size: 27 Copynumber: 12.7 Consensus size: 27
25425713 CCTCGATTTA
* * * * **
25425723 AAAATTACTAAAATGCCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGATTTGT
* **
25425750 AAAATTACCAAAATA-TCCTCGATCAGT
1 AAAATTACCAAAATACCCCT-GATTTGT
*
25425777 AAAATTACCAAAATA-CCCT-AGTCTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
* * *
25425803 AAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* *
25425830 AAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
25425857 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
* *
25425884 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * * *
25425911 GAAATTATCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
**
25425938 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
25425965 AAAGTTA-CAGAAATACCCTTGACTTTCT
1 AAAATTACCA-AAATACCCCTGA-TTTGT
*** ** * **
25425993 AAAAATTATGGAAATACCATTGGTTTAC
1 -AAAATTACCAAAATACCCCTGATTTGT
* * *
25426021 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
25426048 AGATTTACCAAAACACCC
1 AAAATTACCAAAATACCC
25426066 TTGTAGAATG
Statistics
Matches: 246, Mismatches: 56, Indels: 28
0.75 0.17 0.08
Matches are distributed among these distances:
25 1 0.00
26 29 0.12
27 186 0.76
28 14 0.06
29 16 0.07
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:25426190 original size:27 final size:27
Alignment explanation
Indices: 25426099--25426190 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
25426089 ACCCCTATTA
*
25426099 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
25426126 GGTAAAGA-GACTGTAAAGCCCCTGTAG
1 GGTAAA-ATGACCGTAAAGCCCCTGTAG
* *
25426153 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
25426180 GGTAAAATGAC
1 GGTAAAATGAC
25426191 GAATATGCCC
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
27 55 0.96
28 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:25427021 original size:26 final size:26
Alignment explanation
Indices: 25426992--25427141 Score: 230
Period size: 26 Copynumber: 5.8 Consensus size: 26
25426982 GAGGAAGTGC
* *
25426992 AAAAGGGCTTATGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
25427018 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
25427044 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
25427070 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
25427096 AAAAGGGTTTATGCCCCAATTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
25427122 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
25427142 ATTAAAGAGG
Statistics
Matches: 112, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
25 9 0.08
26 103 0.92
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:25427070 original size:52 final size:52
Alignment explanation
Indices: 25426992--25427141 Score: 266
Period size: 52 Copynumber: 2.9 Consensus size: 52
25426982 GAGGAAGTGC
25426992 AAAAGGGCTTATGCCCCAATTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAATTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
*
25427044 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAATTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
* *
25427096 AAAAGGGTTTATGCCCCAATTTATCGAAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAATTTACCGAAAAGGGCTTATGCCCCAGTT
25427142 ATTAAAGAGG
Statistics
Matches: 94, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 10 0.11
52 84 0.89
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAATTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
Found at i:25427345 original size:42 final size:42
Alignment explanation
Indices: 25427286--25427377 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
25427276 TAGTCTCCCC
* *** *
25427286 AAATGGGCTTGCATACATTCATTGGTTTTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
25427328 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
25427370 AAATGGGC
1 AAATGGGC
25427378 CTATAGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:25427439 original size:31 final size:31
Alignment explanation
Indices: 25427401--25427479 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
25427391 CGTTTACAGT
**
25427401 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
1 AAAGGCTTTGGCCCAGTGAAATGATTTATGA
*
25427432 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTTGGCCCAGTGAAATGATTTATGA
25427463 AAAGGCTTTGGCCCAGT
1 AAAGGCTTTGGCCCAGT
25427480 AATCGTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTTGGCCCAGTGAAATGATTTATGA
Found at i:25430894 original size:7 final size:7
Alignment explanation
Indices: 25430882--25430906 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
25430872 TGATGTGTGT
25430882 AATTGAA
1 AATTGAA
25430889 AATTGAA
1 AATTGAA
25430896 AATTGAA
1 AATTGAA
25430903 AATT
1 AATT
25430907 ATGAATTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (7 bp):
AATTGAA
Found at i:25431402 original size:37 final size:37
Alignment explanation
Indices: 25431245--25431402 Score: 176
Period size: 37 Copynumber: 4.3 Consensus size: 37
25431235 ACTTCATGTT
* * *
25431245 TTGGCGTGTTATCGAGTGAATTAGCTCTTATGAGC-A
1 TTGGCGTGTTATCGGGTGGATTAGCTCTTATAAGCGA
* * * * *
25431281 TTTGGCGTGTTTTCGGTTGGACTAGCTCTT-TGGAGCAA
1 -TTGGCGTGTTATCGGGTGGATTAGCTCTTAT-AAGCGA
*
25431319 TTGGCGTGTTATCGGGTGGATTAGCTCTTACAAGCGA
1 TTGGCGTGTTATCGGGTGGATTAGCTCTTATAAGCGA
** *
25431356 TTGATGTGTTATCGGGTGGTTTAGCTCTTATAAGCGA
1 TTGGCGTGTTATCGGGTGGATTAGCTCTTATAAGCGA
25431393 TTGGCGTGTT
1 TTGGCGTGTT
25431403 TCAGTTGGAT
Statistics
Matches: 101, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
36 1 0.01
37 99 0.98
38 1 0.01
ACGTcount: A:0.17, C:0.14, G:0.31, T:0.38
Consensus pattern (37 bp):
TTGGCGTGTTATCGGGTGGATTAGCTCTTATAAGCGA
Found at i:25441397 original size:24 final size:24
Alignment explanation
Indices: 25441370--25441424 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
25441360 TTAGAGTTTG
25441370 ATTGAAACAAATAAACAGAGTTCA
1 ATTGAAACAAATAAACAGAGTTCA
* *
25441394 ATTGAAACAAATAAATAGAGTTTA
1 ATTGAAACAAATAAACAGAGTTCA
25441418 ATTGAAA
1 ATTGAAA
25441425 GATTATTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.55, C:0.07, G:0.13, T:0.25
Consensus pattern (24 bp):
ATTGAAACAAATAAACAGAGTTCA
Found at i:25466673 original size:15 final size:16
Alignment explanation
Indices: 25466649--25466684 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
25466639 ATAAAAATAT
25466649 AAAA-AAATATT-AAA
1 AAAATAAATATTCAAA
25466663 AAAATAAATATTCAAA
1 AAAATAAATATTCAAA
25466679 AAAATA
1 AAAATA
25466685 CATAATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 9 0.45
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAATAAATATTCAAA
Found at i:25469520 original size:20 final size:20
Alignment explanation
Indices: 25469488--25469531 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
25469478 TAAAGAATTT
*
25469488 TTTTAAAACATTTATTAGAG
1 TTTTAAAACATTTATTAGAA
*
25469508 TTTTAAAGA-ATTTTTTAGAA
1 TTTTAAA-ACATTTATTAGAA
25469528 TTTT
1 TTTT
25469532 TAGTAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.52
Consensus pattern (20 bp):
TTTTAAAACATTTATTAGAA
Found at i:25469961 original size:17 final size:17
Alignment explanation
Indices: 25469927--25469959 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
25469917 AAAAAAATTA
*
25469927 AATATGTATAATTATTT
1 AATATGTATAAATATTT
25469944 AATATG-ATAAATATTT
1 AATATGTATAAATATTT
25469960 TATTGATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (17 bp):
AATATGTATAAATATTT
Found at i:25473758 original size:31 final size:29
Alignment explanation
Indices: 25473722--25473790 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
25473712 AAATTAATAA
* *
25473722 TATAAAATTATACTTTAACCT-TCTTTAAAAT
1 TATAAAATT-TAATTTAA-CTGT-TTAAAAAT
25473753 TATAAAAATTTAATTTAACTGTTTAAAAAT
1 TAT-AAAATTTAATTTAACTGTTTAAAAAT
25473783 TATAAAAT
1 TATAAAAT
25473791 ATAAACTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 5 0.15
30 12 0.35
31 11 0.32
32 6 0.18
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.43
Consensus pattern (29 bp):
TATAAAATTTAATTTAACTGTTTAAAAAT
Found at i:25474831 original size:7 final size:7
Alignment explanation
Indices: 25474819--25474853 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
25474809 CACTAGTAGT
25474819 AATAATA
1 AATAATA
25474826 AATAATA
1 AATAATA
25474833 AATAATA
1 AATAATA
25474840 AATAATA
1 AATAATA
25474847 AATAATA
1 AATAATA
25474854 TTAACTAGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:25478269 original size:25 final size:25
Alignment explanation
Indices: 25478237--25478295 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
25478227 TTTCGAGGTA
25478237 TTTATTTTTTTAAAACAAAAATAAT
1 TTTATTTTTTTAAAACAAAAATAAT
**
25478262 TTTATTTTTTTAAAGTAAAAATAAT
1 TTTATTTTTTTAAAACAAAAATAAT
25478287 TTTATTTTT
1 TTTATTTTT
25478296 ACTTTTAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (25 bp):
TTTATTTTTTTAAAACAAAAATAAT
Found at i:25491782 original size:2 final size:2
Alignment explanation
Indices: 25491775--25491799 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25491765 TTAAAAAGTA
25491775 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
25491800 GTAAGAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25491925 original size:18 final size:18
Alignment explanation
Indices: 25491902--25491946 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
25491892 TGATAAATGT
*
25491902 ATAAATTTAAAAATATAG
1 ATAAATTTAAAAATATAC
* *
25491920 ATAAATATCAAAATTATAC
1 ATAAAT-TTAAAAATATAC
25491939 ATAAATTT
1 ATAAATTT
25491947 TAATTCAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (18 bp):
ATAAATTTAAAAATATAC
Found at i:25492938 original size:30 final size:31
Alignment explanation
Indices: 25492889--25492949 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
25492879 AAATAAGTAT
*
25492889 TAAATTATTTAAAATTTTTTGTTTAAGTCAA
1 TAAATTATTCAAAATTTTTTGTTTAAGTCAA
25492920 TAAATTATTCAAAATTTTTTGTTTAAGTCA
1 TAAATTATTCAAAATTTTTTGTTTAAGTCA
25492950 TTGGATTGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.51
Consensus pattern (31 bp):
TAAATTATTCAAAATTTTTTGTTTAAGTCAA
Found at i:25501721 original size:2 final size:2
Alignment explanation
Indices: 25501714--25501753 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
25501704 CATTAAGTCA
*
25501714 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25501754 ATGGTATATG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:25501831 original size:9 final size:9
Alignment explanation
Indices: 25501819--25501852 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
25501809 AACGAAATTT
25501819 TAAAAATGG
1 TAAAAATGG
*
25501828 TAAAAATAG
1 TAAAAATGG
*
25501837 AAAAAATGG
1 TAAAAATGG
25501846 TAAAAAT
1 TAAAAAT
25501853 AAACTTTTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.21
Consensus pattern (9 bp):
TAAAAATGG
Found at i:25503689 original size:19 final size:19
Alignment explanation
Indices: 25503665--25503704 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
25503655 GATGAGTATG
25503665 TATGAATTATGAAGTTTTA
1 TATGAATTATGAAGTTTTA
25503684 TATGAATTATGAAGTTTTA
1 TATGAATTATGAAGTTTTA
25503703 TA
1 TA
25503705 GAAGAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (19 bp):
TATGAATTATGAAGTTTTA
Done.