Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 93 of 135
Found at i:35031897 original size:32 final size:31
Alignment explanation
Indices: 35031852--35031947 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
35031842 CTTAGATAAT
35031852 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
35031883 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
* *
35031915 TTGAAATAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
35031946 TT
1 TT
35031948 GTAATTTGCC
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 33 0.53
32 29 0.47
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.47
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:35035774 original size:69 final size:68
Alignment explanation
Indices: 35035534--35035774 Score: 223
Period size: 69 Copynumber: 3.4 Consensus size: 68
35035524 GCAAAAGAGT
* * * * *
35035534 TTGCGCCCAGCGCTAGTCGGATAAACCGGCAAATGTATGGCCAACACTAGTCAGATAAATTGAC-
1 TTGCGCCCAGCGCTAGTCGGATAAACC-GAAAATGTGTGCCCAGCACTAGTCAGATAAACTGACG
35035598 AGAAG
65 A-AAG
* * * ** *
35035603 TTGCGCCCAGCGCTAGTCAGATAAACCGACGAATAATTAGTGAGCCCAGCTCTAGTTGGGTAAAC
1 TTGCGCCCAGCGCTAGTCGGATAAA-C--CGAA-AA-T-GTGTGCCCAGCACTAGTCAGATAAAC
* * * *
35035668 TAATGATAT
60 TGACGAAAG
*
35035677 TTGCGCCTAGCGCTAGTCGGATAAACCGAAGAATGTGTGCCCAGCACTAGTCAGATAAACTGACG
1 TTGCGCCCAGCGCTAGTCGGATAAACCGAA-AATGTGTGCCCAGCACTAGTCAGATAAACTGACG
35035742 AAAG
65 AAAG
* * *
35035746 TTGCGTCCAGCGCTAGCCGGATGAACCGA
1 TTGCGCCCAGCGCTAGTCGGATAAACCGA
35035775 CAATATCAAT
Statistics
Matches: 134, Mismatches: 31, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
69 75 0.56
70 2 0.01
71 8 0.06
72 3 0.02
73 2 0.01
74 43 0.32
75 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (68 bp):
TTGCGCCCAGCGCTAGTCGGATAAACCGAAAATGTGTGCCCAGCACTAGTCAGATAAACTGACGA
AAG
Found at i:35037688 original size:19 final size:18
Alignment explanation
Indices: 35037638--35037690 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 18
35037628 TATAAAAAAT
35037638 AATATTTATTTTAATTATAA
1 AATATTTA-TTT-ATTATAA
*
35037658 AATATATAATTTATTATAAA
1 AATAT-TTATTTATTAT-AA
35037678 AATATTTATTTAT
1 AATATTTATTTAT
35037691 NNNNNNNNNN
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 12 0.41
20 15 0.52
21 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AATATTTATTTATTATAA
Found at i:35045850 original size:63 final size:63
Alignment explanation
Indices: 35045749--35045874 Score: 216
Period size: 63 Copynumber: 2.0 Consensus size: 63
35045739 TCCCTTTGGT
* * *
35045749 TATGCACTAGTTGATGGTCTGAGAGTGAATCGATCATATAAGTTGGGTAGAATCTGTCTAAAA
1 TATGCACTAGTTGATGGTCTGAGAGTCAATCGACCATATAAGTTGGGTAGAATCTGACTAAAA
*
35045812 TATGCACTAGTTGATGGTCTGAGAGTCAATCGACCATATACGTTGGGTAGAATCTGACTAAAA
1 TATGCACTAGTTGATGGTCTGAGAGTCAATCGACCATATAAGTTGGGTAGAATCTGACTAAAA
35045875 CAGAAAGGAC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (63 bp):
TATGCACTAGTTGATGGTCTGAGAGTCAATCGACCATATAAGTTGGGTAGAATCTGACTAAAA
Found at i:35046801 original size:20 final size:20
Alignment explanation
Indices: 35046776--35046819 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
35046766 GAAGTTGAAT
35046776 AGGCTAGCTATAGCAGTAAA
1 AGGCTAGCTATAGCAGTAAA
*
35046796 AGGCTAGCTATAGCTGTAAA
1 AGGCTAGCTATAGCAGTAAA
35046816 AGGC
1 AGGC
35046820 AAGTTTAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.20
Consensus pattern (20 bp):
AGGCTAGCTATAGCAGTAAA
Found at i:35046830 original size:19 final size:20
Alignment explanation
Indices: 35046776--35046831 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
35046766 GAAGTTGAAT
* *
35046776 AGGCTAGCTATAGCAGTAAA
1 AGGCAAGCTATAGCTGTAAA
*
35046796 AGGCTAGCTATAGCTGTAAA
1 AGGCAAGCTATAGCTGTAAA
*
35046816 AGGCAAG-TTTAGCTGT
1 AGGCAAGCTATAGCTGT
35046832 CCTTTGCAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 8 0.24
20 25 0.76
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (20 bp):
AGGCAAGCTATAGCTGTAAA
Found at i:35053443 original size:16 final size:18
Alignment explanation
Indices: 35053422--35053454 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35053412 TTAAACACAA
35053422 AATTAA-AC-AAATTTAC
1 AATTAACACTAAATTTAC
35053438 AATTAACACTAAATTTA
1 AATTAACACTAAATTTA
35053455 ATCTATTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
AATTAACACTAAATTTAC
Found at i:35059391 original size:124 final size:124
Alignment explanation
Indices: 35058908--35059384 Score: 742
Period size: 124 Copynumber: 3.8 Consensus size: 124
35058898 GCTCACAATT
* *
35058908 TGGCAACATGCCTCTCATTCAACTCACTATAGGAGGTGAGTTGATCAATCATTCGTTCTTGAATG
1 TGGCAACATGCCTCTCATTCAACTCACTGTAGGAGGTGAGTTGATCAATCATTCATTCTTGAATG
* *
35058973 CTTGTGGGAATAGCCTTAGGGCCTGAGCCAATGGGCACTCCTTGAGACTGCTCGTAATC
66 CTTGTGGGAATAGCCTTAGGGCCTGAGCTAATGGGCACTCCTTGAGATTGCTCGTAATC
* ** * *
35059032 TGGCAACATTCCTCTCATTTGACTCACTGTAGGAGGTGAGTTTATCAATCATTCATTCATGAATG
1 TGGCAACATGCCTCTCATTCAACTCACTGTAGGAGGTGAGTTGATCAATCATTCATTCTTGAATG
* *
35059097 CTTGTGGGAATAGCCTTAGGGCCTGAGCTAATGGGCACTTCTTGAGATTGCTCCTAATC
66 CTTGTGGGAATAGCCTTAGGGCCTGAGCTAATGGGCACTCCTTGAGATTGCTCGTAATC
35059156 TGGCAACATGCCTCTCATTCAACTCACTGTAGGAGGTGAGTTGATCAATCATTCATTCTTGAATG
1 TGGCAACATGCCTCTCATTCAACTCACTGTAGGAGGTGAGTTGATCAATCATTCATTCTTGAATG
* * *
35059221 CTTGTGGGAATAGCCTTGGGGCCTGAGCTAGTGGGCACTCCTTGAGTTTGCTCGTAATC
66 CTTGTGGGAATAGCCTTAGGGCCTGAGCTAATGGGCACTCCTTGAGATTGCTCGTAATC
* * * *
35059280 TGGAAACATGCCTCTCATTCGAA-TCACTTTAGGAGGTGAGTTGATCAATCAATCATTCTTAAAT
1 TGGCAACATGCCTCTCATTC-AACTCACTGTAGGAGGTGAGTTGATCAATCATTCATTCTTGAAT
* *
35059344 GCTTGTAGGAATAGCCTTGGGGCCTGAAGC-AATGGGCACTC
65 GCTTGTGGGAATAGCCTTAGGGCCTG-AGCTAATGGGCACTC
35059385 TCTGAGTCTG
Statistics
Matches: 324, Mismatches: 27, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
124 319 0.98
125 5 0.02
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (124 bp):
TGGCAACATGCCTCTCATTCAACTCACTGTAGGAGGTGAGTTGATCAATCATTCATTCTTGAATG
CTTGTGGGAATAGCCTTAGGGCCTGAGCTAATGGGCACTCCTTGAGATTGCTCGTAATC
Found at i:35067487 original size:25 final size:25
Alignment explanation
Indices: 35067453--35067501 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
35067443 ACTAAGCTTA
35067453 TGACATTGGTAACGGTTTGTACTTT
1 TGACATTGGTAACGGTTTGTACTTT
*
35067478 TGACATTGGTAATGGTTTGTACTT
1 TGACATTGGTAACGGTTTGTACTT
35067502 ATTCTATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.20, C:0.10, G:0.24, T:0.45
Consensus pattern (25 bp):
TGACATTGGTAACGGTTTGTACTTT
Found at i:35070431 original size:28 final size:28
Alignment explanation
Indices: 35070391--35070447 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
35070381 GGCAAAAAGT
35070391 TGTCACTTCCTAATTAACACACATTCTA
1 TGTCACTTCCTAATTAACACACATTCTA
*
35070419 TGTCACTTCCTAATTAACACACGTTCTA
1 TGTCACTTCCTAATTAACACACATTCTA
35070447 T
1 T
35070448 CTAAATATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.28, G:0.05, T:0.37
Consensus pattern (28 bp):
TGTCACTTCCTAATTAACACACATTCTA
Found at i:35073716 original size:18 final size:17
Alignment explanation
Indices: 35073667--35073719 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
35073657 ACAATAAGAA
35073667 AACGTTTTGAAATTGAAT
1 AACGTTTTGAAA-TGAAT
*
35073685 AACGATTTGTAAATGAAT
1 AACGTTTTG-AAATGAAT
*
35073703 AAGGTTTTTGAAATGAA
1 AACG-TTTTGAAATGAA
35073720 CGACACAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 23 0.77
19 7 0.23
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.36
Consensus pattern (17 bp):
AACGTTTTGAAATGAAT
Found at i:35082213 original size:2 final size:2
Alignment explanation
Indices: 35082206--35082231 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
35082196 TTTATACCAA
35082206 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
35082232 CAATTTCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35091762 original size:27 final size:27
Alignment explanation
Indices: 35091668--35091760 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
35091658 AGACCCCAAA
* *
35091668 ATAGGGTAAAATAACCAAAATACCCCC
1 ATAGGGTAAAATAATCAAAATACCCCT
35091695 ATAGGGTAAAATAATCAAAATACCCCT
1 ATAGGGTAAAATAATCAAAATACCCCT
* * * *
35091722 ATAAGGTAGAATGATCGAAATACCCCT
1 ATAGGGTAAAATAATCAAAATACCCCT
35091749 ATAGGGTAAAAT
1 ATAGGGTAAAAT
35091761 GACTGTTATA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.46, C:0.18, G:0.15, T:0.20
Consensus pattern (27 bp):
ATAGGGTAAAATAATCAAAATACCCCT
Found at i:35091771 original size:27 final size:27
Alignment explanation
Indices: 35091714--35091796 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
35091704 AATAATCAAA
* * **
35091714 ATACCCCTATAAGGTAGAATGA-TCGAA
1 ATACCCCTATAGGGTAAAATGACT-GTT
35091741 ATACCCCTATAGGGTAAAATGACTGTT
1 ATACCCCTATAGGGTAAAATGACTGTT
*
35091768 ATA-CCCT-TAGGAGATGAAATGACTGTT
1 ATACCCCTATAGG-G-TAAAATGACTGTT
35091795 AT
1 AT
35091797 GGCCTTCTGT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
25 4 0.08
26 5 0.10
27 38 0.79
28 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (27 bp):
ATACCCCTATAGGGTAAAATGACTGTT
Found at i:35105993 original size:225 final size:222
Alignment explanation
Indices: 35105604--35106020 Score: 656
Period size: 225 Copynumber: 1.9 Consensus size: 222
35105594 ATGGGGTAAG
* *
35105604 CATATAAAAATCTTAGTAAGTTCATAGCTATTAAAAAAACTTACCTTATCTTTCATTTAAATACA
1 CATATAAAAATCTTAGTAAGTTCATAGCTATTAAAAAAACTTACATTATCTTTCATTTAAATAAA
* ** *
35105669 TTAAGCTACCATATTGTTGGCATAGTTTGGCTAGACATGGCAATTCAGAACATTAACTAGGTGAG
66 TTAAGCTAACATATTGTTGGCATAGTTTCACTAGACATGGCAATTCACAACATTAACTAGGTGAG
* *
35105734 TATTAACTTGTAAATAAAATATATGACACCACAAACACATATCATTCCAATTGATCGTGCCTCGA
131 TATTAACTTGTAAATAAAACATATGACACCACAAACACATACCA-TCCAATTGATCGTGCCTCGA
35105799 TGTGCATGCATTGGGGCTTGTAAATCTA
195 TGTGCATGCATTGGGGCTTGTAAATCTA
*
35105827 CATAT-AAAATGCTTAGTAAGTTCATAGGTATTAAACAAAAACTTACATTATCTTTCATTTAAAT
1 CATATAAAAAT-CTTAGTAAGTTCATAGCTATT-AA-AAAAACTTACATTATCTTTCATTTAAAT
*
35105891 AAATTAAGCTAACATATTGTTGGCATAGTTTCACTAGACATGGCAATTCACAATATTAACTAGGT
63 AAATTAAGCTAACATATTGTTGGCATAGTTTCACTAGACATGGCAATTCACAACATTAACTAGGT
* * * * *
35105956 GTGTATTAAGTTGTAAATAAAACATATGTCACCACAAACACATACCATGCTATTGATCGTGCCTC
128 GAGTATTAACTTGTAAATAAAACATATGACACCACAAACACATACCATCCAATTGATCGTGCCTC
35106021 AACTTGTATC
Statistics
Matches: 176, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
222 5 0.03
223 25 0.14
224 18 0.10
225 128 0.73
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (222 bp):
CATATAAAAATCTTAGTAAGTTCATAGCTATTAAAAAAACTTACATTATCTTTCATTTAAATAAA
TTAAGCTAACATATTGTTGGCATAGTTTCACTAGACATGGCAATTCACAACATTAACTAGGTGAG
TATTAACTTGTAAATAAAACATATGACACCACAAACACATACCATCCAATTGATCGTGCCTCGAT
GTGCATGCATTGGGGCTTGTAAATCTA
Found at i:35107431 original size:25 final size:25
Alignment explanation
Indices: 35107398--35107445 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
35107388 TTTGTGATAT
*
35107398 GTTTGATT-ATTTTAATATTTATTA
1 GTTTGATTAATTATAATATTTATTA
*
35107422 GTTTAGATTAATTATAATTTTTAT
1 GTTT-GATTAATTATAATATTTAT
35107446 GAACTTACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 4 0.20
26 12 0.60
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.60
Consensus pattern (25 bp):
GTTTGATTAATTATAATATTTATTA
Found at i:35135123 original size:132 final size:133
Alignment explanation
Indices: 35134841--35135115 Score: 525
Period size: 132 Copynumber: 2.1 Consensus size: 133
35134831 TATTTATAAG
35134841 AAGTGTTATGAAAGTTTCCAACCATTTATAAAACTTTTTTTATAAAGGTTAAATATAATAAATAT
1 AAGT-TTATGAAAGTTTCC-ACCATTTATAAAACTTTTTTTATAAAGGTTAAATATAATAAATAT
35134906 TATATTATTTTGACTTAATTTGCGTATTATACAAAGTGATATAATTTAGTATAAGTCTTTTTTCC
64 TATATTATTTTGACTTAATTTGCGTATTATACAAAGTGATATAATTTAGTATAAGTCTTTTTTCC
35134971 AAATT
129 AAATT
35134976 AAGTTTATGAAAGTTTCC-CCATTTATAAAACTTTTTTTATAAAGGTTAAATATAATAAATATTA
1 AAGTTTATGAAAGTTTCCACCATTTATAAAACTTTTTTTATAAAGGTTAAATATAATAAATATTA
35135040 TATTATTTTGACTTAATTTGCGTATTATACAAAGTGATATAATTTAGTATAAGTCTTTTTTCCAA
66 TATTATTTTGACTTAATTTGCGTATTATACAAAGTGATATAATTTAGTATAAGTCTTTTTTCCAA
35135105 ATT
131 ATT
35135108 AAGTTTAT
1 AAGTTTAT
35135116 ATGAGTTTTT
Statistics
Matches: 140, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
132 122 0.87
134 14 0.10
135 4 0.03
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.45
Consensus pattern (133 bp):
AAGTTTATGAAAGTTTCCACCATTTATAAAACTTTTTTTATAAAGGTTAAATATAATAAATATTA
TATTATTTTGACTTAATTTGCGTATTATACAAAGTGATATAATTTAGTATAAGTCTTTTTTCCAA
ATT
Found at i:35143145 original size:82 final size:81
Alignment explanation
Indices: 35143051--35143219 Score: 223
Period size: 82 Copynumber: 2.1 Consensus size: 81
35143041 GTGTATAACA
* * * * *
35143051 GTCATTTTACCCTATGGGGGTATTTCAATCATTCTACCTTATGGGGGTATTTA-AGTCATTTTAT
1 GTCATTCTACCCTATGGAGGTATTTCAATCATTCTACCCTATGGGGGTATTTAGA-TCATTCTAC
35143115 CCTATGGAGGGTATTTCG
65 CCTATGG-GGGTATTTCG
** * *
35143133 GTCATTCTACCCTATGGAGGTATTTCGGTTATTCTACCCTATGGGGGTATTTCGATCATTCTACC
1 GTCATTCTACCCTATGGAGGTATTTCAATCATTCTACCCTATGGGGGTATTTAGATCATTCTACC
35143198 CTATGGGGGTATTTCG
66 CTATGGGGGTATTTCG
*
35143214 ATCATT
1 GTCATT
35143220 TTATTGACCT
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
81 15 0.20
82 60 0.79
83 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (81 bp):
GTCATTCTACCCTATGGAGGTATTTCAATCATTCTACCCTATGGGGGTATTTAGATCATTCTACC
CTATGGGGGTATTTCG
Found at i:35143213 original size:27 final size:27
Alignment explanation
Indices: 35143052--35143219 Score: 221
Period size: 27 Copynumber: 6.2 Consensus size: 27
35143042 TGTATAACAG
* *
35143052 TCATTTTACCCTATGGGGGTATTTCAA
1 TCATTCTACCCTATGGGGGTATTTCGA
* *
35143079 TCATTCTACCTTATGGGGGTATTT-AA
1 TCATTCTACCCTATGGGGGTATTTCGA
* * *
35143105 GTCATTTTATCCTATGGAGGGTATTTCGG
1 -TCATTCTACCCTATGG-GGGTATTTCGA
* *
35143134 TCATTCTACCCTATGGAGGTATTTCGG
1 TCATTCTACCCTATGGGGGTATTTCGA
*
35143161 TTATTCTACCCTATGGGGGTATTTCGA
1 TCATTCTACCCTATGGGGGTATTTCGA
35143188 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTCTACCCTATGGGGGTATTTCGA
35143215 TCATT
1 TCATT
35143220 TTATTGACCT
Statistics
Matches: 124, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
26 2 0.02
27 100 0.81
28 22 0.18
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.40
Consensus pattern (27 bp):
TCATTCTACCCTATGGGGGTATTTCGA
Found at i:35143884 original size:24 final size:25
Alignment explanation
Indices: 35143848--35143894 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
35143838 CCTAAATCCT
*
35143848 AATATTCTCTCCTCAAATCTCTCCA
1 AATATCCTCTCCTCAAATCTCTCCA
*
35143873 AATATCCT-TCCTCAATTCTCTC
1 AATATCCTCTCCTCAAATCTCTC
35143895 TATGACCAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.26, C:0.36, G:0.00, T:0.38
Consensus pattern (25 bp):
AATATCCTCTCCTCAAATCTCTCCA
Found at i:35146722 original size:50 final size:50
Alignment explanation
Indices: 35146646--35146787 Score: 185
Period size: 50 Copynumber: 2.8 Consensus size: 50
35146636 AAATGGGTAA
* *
35146646 AGAGGTCCCATGTAAGACCATGTCTGGGAAATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATATCTGGGAAATGGCATTGGCACCGAGATG
** * * *
35146696 AGAGGTCCCCCGTAAGACCATATCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATATCTGGGAAATGGCATTGGCACCGAGATG
** * *
35146746 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATATCTGGGAAATGGCATTGGCA
35146788 GCACAAAAAA
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 78 1.00
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATATCTGGGAAATGGCATTGGCACCGAGATG
Found at i:35151604 original size:16 final size:17
Alignment explanation
Indices: 35151585--35151635 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
35151575 CAACACGATA
*
35151585 TGACCCAAA-TCAAAAT
1 TGACACAAACTCAAAAT
*
35151601 TGACACAAACTCAAATT
1 TGACACAAACTCAAAAT
** *
35151618 TGACTTAAATTCAAAAT
1 TGACACAAACTCAAAAT
35151635 T
1 T
35151636 AATCCAACTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
16 8 0.29
17 20 0.71
ACGTcount: A:0.47, C:0.20, G:0.06, T:0.27
Consensus pattern (17 bp):
TGACACAAACTCAAAAT
Found at i:35163468 original size:3 final size:3
Alignment explanation
Indices: 35163460--35163488 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
35163450 ATATCTCCAC
35163460 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
35163489 GTTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:35163623 original size:2 final size:2
Alignment explanation
Indices: 35163616--35163670 Score: 60
Period size: 2 Copynumber: 28.0 Consensus size: 2
35163606 TAGTATAACT
* *
35163616 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA AA AA T- TCA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
*
35163657 TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA
35163671 CGTTTAGCTC
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
1 2 0.04
2 43 0.93
3 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:35163741 original size:27 final size:25
Alignment explanation
Indices: 35163685--35163741 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 25
35163675 TAGCTCCAAA
* * *
35163685 ATTTTTCATAATAATATCTTGTATT
1 ATTTTCCATAATAATATATTGAATT
*
35163710 TTTTTCCATACATATATATATTGAATT
1 ATTTTCCATA-ATA-ATATATTGAATT
35163737 ATTTT
1 ATTTT
35163742 ATGCACAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 8 0.32
26 3 0.12
27 14 0.56
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.56
Consensus pattern (25 bp):
ATTTTCCATAATAATATATTGAATT
Found at i:35163872 original size:51 final size:50
Alignment explanation
Indices: 35163816--35163974 Score: 158
Period size: 51 Copynumber: 3.3 Consensus size: 50
35163806 TATTATGACT
35163816 ATATATACTATTATTTACATTAAGATTTTTTACTTATATAAATCAAAGTG
1 ATATATACTATTATTTACATTAAGATTTTTTACTTATATAAATCAAAGTG
* * * *
35163866 -TATATA-TATTAATT---TTAAGATTTATTCATCTTAT-TACAT-ATTA-TG
1 ATATATACTATTATTTACATTAAGATTT-TTTA-CTTATATAAATCA-AAGTG
35163911 ACTATATACTATTATTTACATTAAGATTTTTTTTACTTATATAAATCAAAGTG
1 A-TATATACTATTATTTACATTAAGA--TTTTTTACTTATATAAATCAAAGTG
35163964 -TATATA-TATTA
1 ATATATACTATTA
35163975 ATTTTAAGAT
Statistics
Matches: 87, Mismatches: 8, Indels: 28
0.71 0.07 0.23
Matches are distributed among these distances:
45 12 0.14
46 8 0.09
47 11 0.13
48 14 0.16
49 6 0.07
50 5 0.06
51 17 0.20
52 8 0.09
53 6 0.07
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (50 bp):
ATATATACTATTATTTACATTAAGATTTTTTACTTATATAAATCAAAGTG
Found at i:35163928 original size:96 final size:98
Alignment explanation
Indices: 35163800--35163992 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
35163790 TTTTAACTTC
*
35163800 ATTATATATTATGACTATATATACTATTATTTACATTAAGA-TTTTTTACTTATATAAATCAAAG
1 ATTACATATTATGAC-ATATATACTATTATTTACATTAAGATTTTTTTACTTATATAAATCAAAG
35163864 TGTATATATATTAATTTTAAGATTTATTCATCTT
65 TGTATATATATTAATTTTAAGATTTATTCATCTT
35163898 ATTACATATTATGAC-TATATACTATTATTTACATTAAGATTTTTTTTACTTATATAAATCAAAG
1 ATTACATATTATGACATATATACTATTATTTACATTAAGA-TTTTTTTACTTATATAAATCAAAG
35163962 TGTATATATATTAATTTTAAGATTTATTCAT
65 TGTATATATATTAATTTTAAGATTTATTCAT
35163993 TCTTTCCTTA
Statistics
Matches: 92, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
96 24 0.26
98 68 0.74
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (98 bp):
ATTACATATTATGACATATATACTATTATTTACATTAAGATTTTTTTACTTATATAAATCAAAGT
GTATATATATTAATTTTAAGATTTATTCATCTT
Found at i:35164217 original size:202 final size:202
Alignment explanation
Indices: 35163995--35164394 Score: 728
Period size: 202 Copynumber: 2.0 Consensus size: 202
35163985 TTATTCATTC
* *
35163995 TTTCCTTACAATTCTTCCGTTAAAATTCATTTAAAGATTTTATTTGTTTTTTAGTTCTATTATCA
1 TTTCCTTACAATTCTTCCGTTAAAATTCATTTAAACATTTCATTTGTTTTTTAGTTCTATTATCA
* *
35164060 AATCGTTCCAAATCTTCATATTAATTACTTTTTTGGTATAATCTTGTGTATATTTTTAAATCTTA
66 AATCGTTCCAAATCTTCATATTAAATACTTTTTTGGTATAATCTTGTGTATATTTTTAAATCCTA
* *
35164125 AATTTATTTATTCTCACTTTTATTTTTTACATTTTATCTTCCTTTTAAATTAATAATTTTTGAAT
131 AATTTATTTATTCTCACTTTTATTTTTTACATTTTATCTTCATTTTAAATTAATAACTTTTGAAT
35164190 GTTTTTT
196 GTTTTTT
*
35164197 TTTCTTTACAATTCTTCCGTTAAAATTCATTTAAACATTTCATTTGTTTTTTAGTTCTATTATCA
1 TTTCCTTACAATTCTTCCGTTAAAATTCATTTAAACATTTCATTTGTTTTTTAGTTCTATTATCA
35164262 AATCGTTCCAAATCTTCATATTAAATACTTTTTTGGTATAATCTTGTGTATATTTTTAAATCCTA
66 AATCGTTCCAAATCTTCATATTAAATACTTTTTTGGTATAATCTTGTGTATATTTTTAAATCCTA
*
35164327 AATTTATTTATTCTCACTTTTATTTTTTATATTTTATCTTCATTTTAAATTAATAACTTTTGAAT
131 AATTTATTTATTCTCACTTTTATTTTTTACATTTTATCTTCATTTTAAATTAATAACTTTTGAAT
35164392 GTT
196 GTT
35164395 GATGTTGATA
Statistics
Matches: 190, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
202 190 1.00
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.55
Consensus pattern (202 bp):
TTTCCTTACAATTCTTCCGTTAAAATTCATTTAAACATTTCATTTGTTTTTTAGTTCTATTATCA
AATCGTTCCAAATCTTCATATTAAATACTTTTTTGGTATAATCTTGTGTATATTTTTAAATCCTA
AATTTATTTATTCTCACTTTTATTTTTTACATTTTATCTTCATTTTAAATTAATAACTTTTGAAT
GTTTTTT
Found at i:35164654 original size:111 final size:112
Alignment explanation
Indices: 35164509--35164731 Score: 403
Period size: 111 Copynumber: 2.0 Consensus size: 112
35164499 TTCATTGTTC
* *
35164509 ATTTAATCACTGCGTTTTTTTTACCGTGTTTCAATAAAAGCATTAGATTCATCTTATTTCGCAAT
1 ATTTAATCACTACG-TTTTTTTACCGTGTTTCAATAAAAGCATTAGAATCATCTTATTTCGCAAT
*
35164574 TTGTCAAAATACCCGCTATTCATGATTCTCGAGAGAATTGTGCCCTAT
65 TTGTCAAAATACCCGCTATTCATAATTCTCGAGAGAATTGTGCCCTAT
35164622 ATTTAATCACTACG-TTTTTTACCGTGTTTCAATAAAAGCATTAGAATCATCTTATTTCGCAATT
1 ATTTAATCACTACGTTTTTTTACCGTGTTTCAATAAAAGCATTAGAATCATCTTATTTCGCAATT
35164686 TGTCAAAATACCCGCTATTCATAATTCTCGAGAGAATTGTGCCCTA
66 TGTCAAAATACCCGCTATTCATAATTCTCGAGAGAATTGTGCCCTA
35164732 ACTTACTGGG
Statistics
Matches: 107, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
111 94 0.88
113 13 0.12
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.39
Consensus pattern (112 bp):
ATTTAATCACTACGTTTTTTTACCGTGTTTCAATAAAAGCATTAGAATCATCTTATTTCGCAATT
TGTCAAAATACCCGCTATTCATAATTCTCGAGAGAATTGTGCCCTAT
Found at i:35165986 original size:21 final size:21
Alignment explanation
Indices: 35165955--35166004 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
35165945 ATATATTTCA
35165955 AAAATATTTTATAAAAATATAT
1 AAAAT-TTTTATAAAAATATAT
35165977 AAAATTTTTATAAAAATATAT
1 AAAATTTTTATAAAAATATAT
*
35165998 CAAATTT
1 AAAATTT
35166005 AAAAAGCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAATTTTTATAAAAATATAT
Found at i:35170324 original size:74 final size:74
Alignment explanation
Indices: 35170146--35170339 Score: 187
Period size: 74 Copynumber: 2.6 Consensus size: 74
35170136 TAGCTCTTCC
* * * **
35170146 GAGCCATATAA-CGAGAAGCTCATGTGAG-CAATGTAACGGGGAGCTCATAAGAGCCATAATCGG
1 GAGCCAT-TAATCGAGAAGCTCATGAGAGCCAA-ATAACGGGAAGCTCATAAGAGCCATAAAAGG
*
35170209 AAAGCTCCAGA
64 AAAGCTCAAGA
* * * * * * *
35170220 GAGCCATTAATCGAAAAGCTC-CGAAAAGCCAAATATCGGGAAGCTCATACGATCCATAAAAGGG
1 GAGCCATTAATCGAGAAGCTCATG-AGAGCCAAATAACGGGAAGCTCATAAGAGCCATAAAAGGA
35170284 AAGCTCAAGA
65 AAGCTCAAGA
* * * *
35170294 GAGCCATTATTCGGGAAGCTCATGAGAGCCATATAACGGGATGCTC
1 GAGCCATTAATCGAGAAGCTCATGAGAGCCAAATAACGGGAAGCTC
35170340 GTGAGAGCTA
Statistics
Matches: 95, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
73 4 0.04
74 87 0.92
75 4 0.04
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (74 bp):
GAGCCATTAATCGAGAAGCTCATGAGAGCCAAATAACGGGAAGCTCATAAGAGCCATAAAAGGAA
AGCTCAAGA
Found at i:35170333 original size:25 final size:25
Alignment explanation
Indices: 35170113--35170347 Score: 135
Period size: 25 Copynumber: 9.5 Consensus size: 25
35170103 ATTCAAGAAC
* *
35170113 GCTCATGTGAG-CATATAAACGGGTA
1 GCTCATGAGAGCCATAT-AACGGGAA
* ** *
35170138 GCTCTTCCGAGCCATATAACGAGAA
1 GCTCATGAGAGCCATATAACGGGAA
* * * *
35170163 GCTCATGTGAGCAATGTAACGGGGA
1 GCTCATGAGAGCCATATAACGGGAA
* * *
35170188 GCTCATAAGAGCCATA-ATCGGAAA
1 GCTCATGAGAGCCATATAACGGGAA
**
35170212 GCTCCA-GAGAGCCAT-TAATCGAAAA
1 GCT-CATGAGAGCCATATAA-CGGGAA
* * * *
35170237 GCTC-CGAAAAGCCAAATATCGGGAA
1 GCTCATG-AGAGCCATATAACGGGAA
* *
35170262 GCTCAT-ACGATCCATA-AAAGGGAA
1 GCTCATGA-GAGCCATATAACGGGAA
* *
35170286 GCTCAAGAGAGCCAT-TATTCGGGAA
1 GCTCATGAGAGCCATATA-ACGGGAA
*
35170311 GCTCATGAGAGCCATATAACGGGAT
1 GCTCATGAGAGCCATATAACGGGAA
*
35170336 GCTCGTGAGAGC
1 GCTCATGAGAGC
35170348 TAATTAACGG
Statistics
Matches: 156, Mismatches: 41, Indels: 26
0.70 0.18 0.12
Matches are distributed among these distances:
24 38 0.24
25 109 0.70
26 9 0.06
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.18
Consensus pattern (25 bp):
GCTCATGAGAGCCATATAACGGGAA
Found at i:35171984 original size:13 final size:14
Alignment explanation
Indices: 35171966--35172009 Score: 65
Period size: 13 Copynumber: 3.3 Consensus size: 14
35171956 ATGTCCATTT
35171966 CAGATACAGATA-A
1 CAGATACAGATATA
*
35171979 CAGATACATATATA
1 CAGATACAGATATA
35171993 CAGAT-CAGATATA
1 CAGATACAGATATA
35172006 CAGA
1 CAGA
35172010 ATCCTACCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 22 0.79
14 6 0.21
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.20
Consensus pattern (14 bp):
CAGATACAGATATA
Found at i:35179123 original size:24 final size:24
Alignment explanation
Indices: 35179091--35179223 Score: 99
Period size: 24 Copynumber: 5.4 Consensus size: 24
35179081 CCATGTAACA
*
35179091 GGAAGCTCATAAGAGTCATAATCG
1 GGAAGCTCATAAGAGCCATAATCG
**
35179115 GGAAGCTCATGCGAGCCA-ATATCG
1 GGAAGCTCATAAGAGCCATA-ATCG
* * *
35179139 AGAAGCTCATGAGAGAGCCTTTAATTG
1 GGAAGCTCAT-A-AGAGCC-ATAATCG
* * *
35179166 GGACGCTCCA-AAAAGCCAAATATCG
1 GGAAGCT-CATAAGAGCCATA-ATCG
* *
35179191 GGAAGCTCATACGAGCCATAAACG
1 GGAAGCTCATAAGAGCCATAATCG
35179215 GGAAGCTCA
1 GGAAGCTCA
35179224 AGAGAACCAT
Statistics
Matches: 82, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
23 1 0.01
24 43 0.52
25 21 0.26
26 6 0.07
27 8 0.10
28 3 0.04
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCG
Found at i:35179233 original size:24 final size:25
Alignment explanation
Indices: 35179067--35179247 Score: 88
Period size: 24 Copynumber: 7.3 Consensus size: 25
35179057 CATATAATAA
** * *
35179067 GAAGCTCATGTGAGCCATGTAACAG
1 GAAGCTCATACGAGCCATATAACGG
* * *
35179092 GAAGCTCATAAGAGTCATA-ATCGG
1 GAAGCTCATACGAGCCATATAACGG
* * *
35179116 GAAGCTCATGCGAGCCA-ATATCGA
1 GAAGCTCATACGAGCCATATAACGG
* * *
35179140 GAAGCTCATGAGAGAGCC-TTTAATTGG
1 GAAGCTCAT-A-CGAGCCATATAA-CGG
* ** * *
35179167 GACGCTCCA-AAAAGCCAAATATCGG
1 GAAGCT-CATACGAGCCATATAACGG
35179192 GAAGCTCATACGAGCCATA-AACGG
1 GAAGCTCATACGAGCCATATAACGG
35179216 GAAGCTCA-A-GAGAACCATATAACGG
1 GAAGCTCATACGAG--CCATATAACGG
*
35179241 GATGCTC
1 GAAGCTC
35179248 GTGAGAGCTA
Statistics
Matches: 117, Mismatches: 28, Indels: 22
0.70 0.17 0.13
Matches are distributed among these distances:
22 3 0.03
23 2 0.02
24 49 0.42
25 45 0.38
26 10 0.09
27 6 0.05
28 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (25 bp):
GAAGCTCATACGAGCCATATAACGG
Found at i:35179263 original size:25 final size:25
Alignment explanation
Indices: 35179235--35179297 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
35179225 GAGAACCATA
*
35179235 TAACGGGATGCTCGTGAGAGCTAAT
1 TAACGGGACGCTCGTGAGAGCTAAT
* *
35179260 TAACGGGACGCTCTTGCGAGCTAAT
1 TAACGGGACGCTCGTGAGAGCTAAT
*
35179285 TAACAGGACGCTC
1 TAACGGGACGCTC
35179298 TTACATGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (25 bp):
TAACGGGACGCTCGTGAGAGCTAAT
Found at i:35181413 original size:17 final size:18
Alignment explanation
Indices: 35181383--35181424 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
35181373 TCGAAATTCA
*
35181383 TCAAATTAACTAATTT-TC
1 TCAAA-TAAATAATTTATC
35181401 TCAAATAAATAATTTATC
1 TCAAATAAATAATTTATC
35181419 -CAAATA
1 TCAAATA
35181425 TTTTAAGCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (18 bp):
TCAAATAAATAATTTATC
Found at i:35184162 original size:34 final size:34
Alignment explanation
Indices: 35184119--35184192 Score: 139
Period size: 34 Copynumber: 2.2 Consensus size: 34
35184109 ACTAAGAACG
*
35184119 AAATAAAAACGTAAGAATAATTTTTGTCTCCCTA
1 AAATAAAAACGTAAGAATAATTTTTGCCTCCCTA
35184153 AAATAAAAACGTAAGAATAATTTTTGCCTCCCTA
1 AAATAAAAACGTAAGAATAATTTTTGCCTCCCTA
35184187 AAATAA
1 AAATAA
35184193 GTGAAAACTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.30
Consensus pattern (34 bp):
AAATAAAAACGTAAGAATAATTTTTGCCTCCCTA
Found at i:35185338 original size:9 final size:9
Alignment explanation
Indices: 35185313--35185379 Score: 98
Period size: 9 Copynumber: 7.4 Consensus size: 9
35185303 GTAGTGATTC
*
35185313 AATTCGGGT
1 AATTCGGTT
*
35185322 AATCCGGTT
1 AATTCGGTT
35185331 AATTCGGTT
1 AATTCGGTT
35185340 AATTCGGTT
1 AATTCGGTT
*
35185349 AATTCGGGT
1 AATTCGGTT
*
35185358 AATTCAGTT
1 AATTCGGTT
35185367 AATTCGGTT
1 AATTCGGTT
35185376 AATT
1 AATT
35185380 TTTAACCAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:35185753 original size:16 final size:16
Alignment explanation
Indices: 35185732--35185767 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
35185722 ACAAATTGAA
35185732 ATTTTA-TTTTCATTTT
1 ATTTTATTTTTCA-TTT
35185748 ATTTTATTTTTCATTT
1 ATTTTATTTTTCATTT
35185764 ATTT
1 ATTT
35185768 GAAAATCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (16 bp):
ATTTTATTTTTCATTT
Found at i:35188889 original size:20 final size:20
Alignment explanation
Indices: 35188864--35188901 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
35188854 TGTTTTCGGA
35188864 TTAAAAAAGA-AAAATAAACT
1 TTAAAAAA-ACAAAATAAACT
35188884 TTAAAAAAACAAAATAAA
1 TTAAAAAAACAAAATAAA
35188902 ATAAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (20 bp):
TTAAAAAAACAAAATAAACT
Found at i:35189963 original size:50 final size:50
Alignment explanation
Indices: 35189860--35190291 Score: 291
Period size: 50 Copynumber: 8.6 Consensus size: 50
35189850 TGTAATTTTA
* * * * * *
35189860 GGAAGTAAGATTCG-TCGTCGTGGCTTCAATCTATT-TACTTGCAATGTCGG
1 GGAAGTAAGATCCGCT-GTTGTAGCTTCAATCTGTTCCAC-TGCAATGTCTG
* * * * * * *
35189910 GGAAATGAGATTCACTGTCGTAGCTTCAATCTGTTCCACTGCATTGCCTG
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGTCTG
* ** * * ** * * * *
35189960 GGAAGTAAGATTCGCCATTATGGCTTCAATCT-TTTGAGTTACGATGTCGG
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCA-CTGCAATGTCTG
** * * * ** * * * *
35190010 GGAAGCGAGATTCACCGTCATAGCTTTAATCTGTTCCGCTGC-ATCGCCTA
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAAT-GTCTG
* * ** * *
35190060 GGAAGTAAGATCCACTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAG
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGTCTG
** *
35190110 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTACTCCACTGCAACG-CTAG
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGTCT-G
* * ** * *
35190160 GAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAG
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGTCTG
* *
35190210 GGAAGTGAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACG-CTAG
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGTCT-G
*
35190260 GAAAGTAAGATCCGCTGTTGTAGCTTCAATCT
1 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCT
35190292 TTTCTCTCGA
Statistics
Matches: 292, Mismatches: 81, Indels: 18
0.75 0.21 0.05
Matches are distributed among these distances:
49 7 0.02
50 277 0.95
51 8 0.03
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (50 bp):
GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGTCTG
Found at i:35189986 original size:100 final size:100
Alignment explanation
Indices: 35189860--35190294 Score: 469
Period size: 100 Copynumber: 4.3 Consensus size: 100
35189850 TGTAATTTTA
* * * * * * * * *
35189860 GGAAGTAAGATTCGTCGTCGTGGCTTCAATCTATTTACTTGCAATGTCGGGGAAATGAGATTCAC
1 GGAAGTAAGATCCGCCGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTGAGATCCAC
*
35189925 TGTCGTAGCTTCAATCTGTTCCACTGCATTGCCTG
66 TGTCGTAGCTTCAATCTGTTCCACTGCATCGCCTG
* * * * * * * * * * *
35189960 GGAAGTAAGATTCGCCATTATGGCTTCAATCTTTTGAGTTACGATGTCGGGGAAGCGAGATTCAC
1 GGAAGTAAGATCCGCCGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTGAGATCCAC
* * * * *
35190025 CGTCATAGCTTTAATCTGTTCCGCTGCATCGCCTA
66 TGTCGTAGCTTCAATCTGTTCCACTGCATCGCCTG
* * * *
35190060 GGAAGTAAGATCCACTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGC
1 GGAAGTAAGATCCGCCGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTGAGATCCAC
* ** *
35190125 TGTTGTAGCTTCAATCTACTCCACTGCAACG-CTAG
66 TGTCGTAGCTTCAATCTGTTCCACTGCATCGCCT-G
* * *
35190160 GAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTGAGATCCGC
1 GGAAGTAAGATCCGCCGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTGAGATCCAC
* *
35190225 TGTTGTAGCTTCAATCTGTTCCACTGCAACG-CTAG
66 TGTCGTAGCTTCAATCTGTTCCACTGCATCGCCT-G
* *
35190260 GAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTT
1 GGAAGTAAGATCCGCCGTTGTAGCTTCAATCTTTT
35190295 CTCTCGAAGA
Statistics
Matches: 288, Mismatches: 46, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
99 2 0.01
100 286 0.99
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (100 bp):
GGAAGTAAGATCCGCCGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTGAGATCCAC
TGTCGTAGCTTCAATCTGTTCCACTGCATCGCCTG
Found at i:35191770 original size:5 final size:5
Alignment explanation
Indices: 35191760--35191793 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
35191750 TAAACTTTAA
35191760 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
35191794 ACAGTAAGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:35193840 original size:42 final size:41
Alignment explanation
Indices: 35193792--35193901 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 41
35193782 TCTTTTCTTT
*
35193792 TCTTTTCTTTTCATATTTTTATTTTGACTTTGATTGATTTCTC
1 TCTTTTCTTTTCAT-TTTTTATTTTGACTTTAATT-ATTTCTC
** * *
35193835 T-TTTTCTTTTTGTTTTTTTATTTTGATTTTAATTTTTTCTC
1 TCTTTTC-TTTTCATTTTTTATTTTGACTTTAATTATTTCTC
*
35193876 TCTTTTCATTTTCCTTTTTT-TTTTGA
1 TCTTTTC-TTTTCATTTTTTATTTTGA
35193902 ATCGGATCTG
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
41 13 0.23
42 38 0.67
43 6 0.11
ACGTcount: A:0.11, C:0.12, G:0.05, T:0.72
Consensus pattern (41 bp):
TCTTTTCTTTTCATTTTTTATTTTGACTTTAATTATTTCTC
Found at i:35198782 original size:20 final size:20
Alignment explanation
Indices: 35198757--35198796 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
35198747 AAAAAAAAGA
*
35198757 AAAAAGTTATATAGATATAT
1 AAAAAGGTATATAGATATAT
* *
35198777 AAAAAGGTATTTATATATAT
1 AAAAAGGTATATAGATATAT
35198797 TAAATAAGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (20 bp):
AAAAAGGTATATAGATATAT
Found at i:35198868 original size:3 final size:3
Alignment explanation
Indices: 35198860--35198938 Score: 92
Period size: 3 Copynumber: 26.3 Consensus size: 3
35198850 AAACTATCAT
* *
35198860 ATA ATA ATA AT- ATG ATAA ATA AAA ATA ATA GA-A ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA -ATA ATA ATA ATA ATA
35198905 GA-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
35198939 ATGATAATAC
Statistics
Matches: 67, Mismatches: 3, Indels: 12
0.82 0.04 0.15
Matches are distributed among these distances:
2 4 0.06
3 59 0.88
4 4 0.06
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:35198889 original size:9 final size:9
Alignment explanation
Indices: 35198877--35198984 Score: 60
Period size: 9 Copynumber: 11.8 Consensus size: 9
35198867 TAATATGATA
35198877 AATAAAAAT
1 AATAAAAAT
*
35198886 AATAGAAAT
1 AATAAAAAT
35198895 AAT---AAT
1 AATAAAAAT
*
35198901 AATAGAAAT
1 AATAAAAAT
*
35198910 AATAATAAT
1 AATAAAAAT
*
35198919 AATAATAAT
1 AATAAAAAT
*
35198928 AATAATAAT
1 AATAAAAAT
* *
35198937 AAATGATAAT
1 -AATAAAAAT
*
35198947 ACATTAAAAT
1 A-ATAAAAAT
35198957 AATGAAGAAAAT
1 AAT--A-AAAAT
*
35198969 AATGAAAAT
1 AATAAAAAT
*
35198978 ACTAAAA
1 AATAAAA
35198985 TGGGACTAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
6 6 0.07
9 52 0.64
10 15 0.19
12 8 0.10
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.26
Consensus pattern (9 bp):
AATAAAAAT
Found at i:35199719 original size:20 final size:20
Alignment explanation
Indices: 35199694--35199745 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
35199684 TGTTTTTGAA
35199694 TTAAAAAAGA-AAAATAAACT
1 TTAAAAAA-ATAAAATAAACT
35199714 TTAAAAAAATAAAATAAA--
1 TTAAAAAAATAAAATAAACT
*
35199732 ATAAAAAAATAAAA
1 TTAAAAAAATAAAA
35199746 ACAGTAAGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 13 0.43
19 1 0.03
20 16 0.53
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (20 bp):
TTAAAAAAATAAAATAAACT
Found at i:35200918 original size:4 final size:4
Alignment explanation
Indices: 35200905--35200979 Score: 56
Period size: 4 Copynumber: 19.8 Consensus size: 4
35200895 GAAAAGGGAA
*
35200905 AAAG -AAG AAAG AAAG AAAG -AA- AAAG AAGG AAAGG AAAGG AGAAG -AAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA-G AAA-G A-AAG AAAG
*
35200952 AAA- AAAG AAAG -AA- AAAG AAGG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
35200980 AGTAAAGGAG
Statistics
Matches: 58, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
3 17 0.29
4 31 0.53
5 8 0.14
6 2 0.03
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:35200931 original size:10 final size:10
Alignment explanation
Indices: 35200902--35200975 Score: 55
Period size: 10 Copynumber: 7.4 Consensus size: 10
35200892 GAAGAAAAGG
35200902 GAAAAAG-AA
1 GAAAAAGAAA
35200911 GAAAGAAAGAAA
1 G-AA-AAAGAAA
35200923 GAAAAAG-AA
1 GAAAAAGAAA
* *
35200932 GGAAAGGAAA
1 GAAAAAGAAA
* *
35200942 GGAGAAG-AA
1 GAAAAAGAAA
35200951 GAAAAAAGAAA
1 G-AAAAAGAAA
*
35200962 GAAAAAGAAG
1 GAAAAAGAAA
35200972 GAAA
1 GAAA
35200976 GAAAAGTAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
9 11 0.21
10 29 0.56
11 9 0.17
12 3 0.06
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (10 bp):
GAAAAAGAAA
Found at i:35200931 original size:14 final size:14
Alignment explanation
Indices: 35200905--35200980 Score: 70
Period size: 14 Copynumber: 5.6 Consensus size: 14
35200895 GAAAAGGGAA
35200905 AAAGAAGAAAGAAAG
1 AAAGAA-AAAGAAAG
*
35200920 AAAGAAAAAGAAGG
1 AAAGAAAAAGAAAG
* *
35200934 AAAG-GAAAG-GAG
1 AAAGAAAAAGAAAG
35200946 -AAGAAGAAA-AAAG
1 AAAGAA-AAAGAAAG
*
35200959 AAAGAAAAAGAAGG
1 AAAGAAAAAGAAAG
35200973 AAAGAAAA
1 AAAGAAAA
35200981 GTAAAGGAGA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
11 3 0.06
12 1 0.02
13 12 0.24
14 27 0.55
15 6 0.12
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAGAAAG
Found at i:35200959 original size:43 final size:43
Alignment explanation
Indices: 35200897--35201017 Score: 126
Period size: 43 Copynumber: 2.9 Consensus size: 43
35200887 GGGGGGAAGA
* * *
35200897 AAAGG-GAAAAAGAAGAAAGAAAGAAAGAAAAAGAAGGAAAGG
1 AAAGGAGAAGAAGAAAAAAGAAAGAAAGAAAAAGAAGAAAAGG
* *
35200939 AAAGGAGAAGAAGAAAAAAGAAAGAAA-AAGAAGGAAAGAAAAGT
1 AAAGGAGAAGAAGAAAAAAGAAAGAAAGAA-AAAG-AAGAAAAGG
* *
35200983 AAAGGAGAAG-AGAAAAAA-AAA-CAAGAAGAAGAAGA
1 AAAGGAGAAGAAGAAAAAAGAAAGAAAGAAAAAGAAGA
35201018 GGGGAGGAAG
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
40 4 0.06
41 4 0.06
42 12 0.18
43 30 0.45
44 17 0.25
ACGTcount: A:0.70, C:0.01, G:0.28, T:0.01
Consensus pattern (43 bp):
AAAGGAGAAGAAGAAAAAAGAAAGAAAGAAAAAGAAGAAAAGG
Found at i:35200969 original size:49 final size:47
Alignment explanation
Indices: 35200903--35201017 Score: 117
Period size: 49 Copynumber: 2.3 Consensus size: 47
35200893 AAGAAAAGGG
*
35200903 AAAAAGAAGAAAGAAAGAAAGAAA-AAGAAGGAAAGGA-AAGGAGAAGAAGA
1 AAAAAGAAG-AA-AAAGAAAGAAAGAA-AAGGAAAGGAGAA-GAGAA-AAAA
* *
35200953 AAAAAGAAAGAAAAAGAAGGAAAGAAAAGTAAAGGAGAAGAGAAAAAA
1 AAAAAG-AAGAAAAAGAAAGAAAGAAAAGGAAAGGAGAAGAGAAAAAA
*
35201001 AAACAAGAAGAAGAAGA
1 AAA-AAGAAGAAAAAGA
35201018 GGGGAGGAAG
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
48 15 0.26
49 27 0.47
50 12 0.21
51 3 0.05
ACGTcount: A:0.71, C:0.01, G:0.27, T:0.01
Consensus pattern (47 bp):
AAAAAGAAGAAAAAGAAAGAAAGAAAAGGAAAGGAGAAGAGAAAAAA
Found at i:35200970 original size:39 final size:40
Alignment explanation
Indices: 35200906--35201046 Score: 143
Period size: 39 Copynumber: 3.5 Consensus size: 40
35200896 AAAAGGGAAA
*
35200906 AAGAAGAAAGAAAGAAAGAAAAAGAAGGAAAGGAAAGGAG
1 AAGAAGAAAGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAG
*
35200946 AAGAAGAAA-AAAGAAAGAAAAAGAAGGAAAGAAAAGTA-
1 AAGAAGAAAGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAG
* *
35200984 AAGGAGAAGAGAAA-AAA-AAACAAGAA-G-AAGAAGAGGGGAGG
1 AAGAAGAA-AGAAAGAAAGAAA-AAGAAGGAAAGAA-A-AGGA-G
35201025 AAGGAA-AAAGAAAGAAAGAAAA
1 AA-GAAGAAAGAAAGAAAGAAAA
35201047 GGTAATTTTT
Statistics
Matches: 85, Mismatches: 6, Indels: 19
0.77 0.05 0.17
Matches are distributed among these distances:
37 5 0.06
38 12 0.14
39 38 0.45
40 17 0.20
41 8 0.09
42 5 0.06
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.01
Consensus pattern (40 bp):
AAGAAGAAAGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAG
Found at i:35202020 original size:22 final size:22
Alignment explanation
Indices: 35201995--35202038 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
35201985 AATACGAGCA
*
35201995 AATGGCGGGAATAAGGGTTTTT
1 AATGGCGGGAATAAGGATTTTT
35202017 AATGGCGGGAATAAGGATTTTT
1 AATGGCGGGAATAAGGATTTTT
35202039 TTACACTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.34, T:0.32
Consensus pattern (22 bp):
AATGGCGGGAATAAGGATTTTT
Found at i:35202271 original size:286 final size:284
Alignment explanation
Indices: 35201759--35202726 Score: 1564
Period size: 286 Copynumber: 3.4 Consensus size: 284
35201749 NNNNNNNNNN
35201759 TAAATTAATAAATTTATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAA
1 TAAATTAATAAATTTATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAA
**
35201824 AAATACGAAGAAATGGTTGAGGTAAGAGTGTTTTACAAAATTTTTTAAAAATTCAGAAATAATTA
66 AAATACGAAGAAATGGCCGAGGTAAGAGTGTTTTACAAAATTTTTTAAAAATTCAGAAATAATTA
** * * *
35201889 ATATAAATATTTGAAACAAAATGTACTGAAATAATATAAAATAATAAAATATGATAATAATATTT
131 ATATAAATATTTGAAACAAAATGTACTGAAATAATATAAAATAATAAAATGCGAAAATAAAATTA
*
35201954 TTTTATTGAAAGTAATAAAATTCGGGAAAATAATACGAGCAAATGGCGGGAATAAGGGTTTTTAA
196 TTTTATTGAAAGTAATAAAATTCAGGAAAATAATACGAGCAAATGGCGGGAATAAGGGTTTTT--
** *** * ****
35202019 TGGC-GGGAATAAGGATTT-TTTTACAC
259 TTACACTAAATTA--ATTTAAAAAACAC
35202045 TAAATTAATAAATTTATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAA
1 TAAATTAATAAATTTATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAA
**
35202110 AAATACGAAGAAATGGTTGAGGTAAGAGTGTTTTACAAAATTTTTTAAAAATTCAGAAATAATTA
66 AAATACGAAGAAATGGCCGAGGTAAGAGTGTTTTACAAAATTTTTTAAAAATTCAGAAATAATTA
35202175 ATATAAATATTTGAAACAAAATGTACTGAAATAATATAAAATAATAAAATGCGAAAATAAAATTA
131 ATATAAATATTTGAAACAAAATGTACTGAAATAATATAAAATAATAAAATGCGAAAATAAAATTA
35202240 TTTTATTGAAAGTAATAAAATTCAGGAAAATAATACGAGCAAATGGCGGGAATAAGGGTTTTTTT
196 TTTTATTGAAAGTAATAAAATTCAGGAAAATAATACGAGCAAATGGCGGGAATAAGGG-TTTTTT
35202305 TACACTAAATTAATTTAAAAACACAC
260 TACACTAAATTAATTTAAAAA-ACAC
* * *
35202331 TAAATTAATAAATTTATAAAATTAGAAGTTGTGAAATTTTTTAAAGTAATAAAATACGGAGAAAA
1 TAAATTAATAAATTTATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAA
*
35202396 AAATACGAAGAAATGACCGAGGTAAGAGTGTTTTACAAAATTTTTTAAAAATTCAGAAATAATTA
66 AAATACGAAGAAATGGCCGAGGTAAGAGTGTTTTACAAAATTTTTTAAAAATTCAGAAATAATTA
*
35202461 ATACAAATATTTGAAACAAAATGTACTGAAATAATATAAAATAATAAAATGCGAAAATAAAATTA
131 ATATAAATATTTGAAACAAAATGTACTGAAATAATATAAAATAATAAAATGCGAAAATAAAATTA
35202526 TTTTATTGAAAGTAATAAAATTCAGGAAAATAATACGAGCAAATGGCGGGAATAAGGGTTTTTTT
196 TTTTATTGAAAGTAATAAAATTCAGGAAAATAATACGAGCAAATGGCGGGAATAAGGGTTTTTTT
35202591 ACACTAAATTAATTTAAAAAACAC
261 ACACTAAATTAATTTAAAAAACAC
*
35202615 AATAAATTTATAAATTTATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAG-A
1 --TAAATTAATAAATTTATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAA
* * * * *
35202679 AAAAATACGAAGAAATTGCCGAGGTAAGAATGTTATACTAACTTTTTT
64 AAAAATACGAAGAAATGGCCGAGGTAAGAGTGTTTTACAAAATTTTTT
35202727 TCAACATGCA
Statistics
Matches: 643, Mismatches: 33, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
284 8 0.01
285 72 0.11
286 558 0.87
287 5 0.01
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.32
Consensus pattern (284 bp):
TAAATTAATAAATTTATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAA
AAATACGAAGAAATGGCCGAGGTAAGAGTGTTTTACAAAATTTTTTAAAAATTCAGAAATAATTA
ATATAAATATTTGAAACAAAATGTACTGAAATAATATAAAATAATAAAATGCGAAAATAAAATTA
TTTTATTGAAAGTAATAAAATTCAGGAAAATAATACGAGCAAATGGCGGGAATAAGGGTTTTTTT
ACACTAAATTAATTTAAAAAACAC
Found at i:35204972 original size:11 final size:11
Alignment explanation
Indices: 35204956--35204982 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
35204946 TTTATAACTT
35204956 AATTTGGATAC
1 AATTTGGATAC
35204967 AATTTGGATAC
1 AATTTGGATAC
35204978 AATTT
1 AATTT
35204983 AAGCATAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (11 bp):
AATTTGGATAC
Found at i:35207624 original size:9 final size:9
Alignment explanation
Indices: 35207610--35207640 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
35207600 ATGAAAACCA
35207610 TAATAATAT
1 TAATAATAT
35207619 TAATAATAT
1 TAATAATAT
*
35207628 TAATAATAA
1 TAATAATAT
35207637 TAAT
1 TAAT
35207641 TTTATACTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
TAATAATAT
Found at i:35207704 original size:60 final size:62
Alignment explanation
Indices: 35207651--35207772 Score: 163
Period size: 63 Copynumber: 2.0 Consensus size: 62
35207641 TTTATACTCA
**
35207651 AAATTATACTAGCTAAAAATAATAACTAACCATAATAATAAAACTAGTTTTTTACTAACTAG
1 AAATTATACTAAATAAAAATAATAACTAACCATAATAATAAAACTAGTTTTTTACTAACTAG
** * ** *
35207713 TTCATTTTGGTAAATAAAAATAATAACTAACCATAATAATAATACTAGTTTTTTACTAAC
1 -AAATTATACTAAATAAAAATAATAACTAACCATAATAATAAAACTAGTTTTTTACTAAC
35207773 AATAATACTA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 51 1.00
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.35
Consensus pattern (62 bp):
AAATTATACTAAATAAAAATAATAACTAACCATAATAATAAAACTAGTTTTTTACTAACTAG
Found at i:35207800 original size:63 final size:63
Alignment explanation
Indices: 35207664--35207786 Score: 169
Period size: 63 Copynumber: 2.0 Consensus size: 63
35207654 TTATACTAGC
* * ** **
35207664 TAAAAATAATAACTAACCATAATAATAAAACTAGTTTTTTACTAACTAGTTCATTTTGGTAAA
1 TAAAAATAATAACTAACCATAATAATAAAACTAGTTTTTTACTAACTAGATAATACTACTAAA
*
35207727 TAAAAATAATAACTAACCATAATAATAATACTAGTTTTTTACTAAC-A-ATAATACTACTAA
1 TAAAAATAATAACTAACCATAATAATAAAACTAGTTTTTTACTAACTAGATAATACTACTAA
35207787 GTAACATCTT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
61 7 0.13
62 1 0.02
63 45 0.85
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.35
Consensus pattern (63 bp):
TAAAAATAATAACTAACCATAATAATAAAACTAGTTTTTTACTAACTAGATAATACTACTAAA
Found at i:35207823 original size:3 final size:3
Alignment explanation
Indices: 35207815--35207849 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
35207805 AATAACATCT
*
35207815 TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
35207850 TTTAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:35208012 original size:27 final size:27
Alignment explanation
Indices: 35207973--35208061 Score: 133
Period size: 27 Copynumber: 3.3 Consensus size: 27
35207963 AACACAACTA
*
35207973 GTGCCGCCAATGGGAATGGCACCATCG
1 GTGCCGCCCATGGGAATGGCACCATCG
* *
35208000 GTGCCTCCCATGGGAACGGCACCATCG
1 GTGCCGCCCATGGGAATGGCACCATCG
* *
35208027 GTGCCGCCCATGGGAATGGCACCTTTG
1 GTGCCGCCCATGGGAATGGCACCATCG
35208054 GTGCCGCC
1 GTGCCGCC
35208062 AATCAGATAC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.17
Consensus pattern (27 bp):
GTGCCGCCCATGGGAATGGCACCATCG
Found at i:35226346 original size:45 final size:45
Alignment explanation
Indices: 35226253--35226348 Score: 113
Period size: 45 Copynumber: 2.1 Consensus size: 45
35226243 TAACCTTTGG
* ** **
35226253 TATCCGGTGAAATCAGCACATAGCAATCACCTTTATTTTCATTAA
1 TATCCGGTGAAATCAGCACATAGCAATCACCTATATTGCCAACAA
* *
35226298 TATCCGGTGGAATCAGCACATAGC-ATCCACCTATATTGCCAACGA
1 TATCCGGTGAAATCAGCACATAGCAAT-CACCTATATTGCCAACAA
35226343 TATCCG
1 TATCCG
35226349 ATCCATTCCG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 2 0.05
45 41 0.95
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (45 bp):
TATCCGGTGAAATCAGCACATAGCAATCACCTATATTGCCAACAA
Found at i:35227837 original size:28 final size:28
Alignment explanation
Indices: 35227797--35227952 Score: 231
Period size: 28 Copynumber: 5.5 Consensus size: 28
35227787 TGACTTTCGA
*
35227797 CACTAAGTGTGCGAATTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
35227825 CACTAAGTGTGCGAGTTTAATTTGTAAAG
1 CACTAAGTGTGCGAGTTTAA-TTGTAAAG
35227854 CACTAAGTGTGCGAGTTTAATTTGTAAAG
1 CACTAAGTGTGCGAGTTTAA-TTGTAAAG
*
35227883 CACTAAGTGTGCGAGTTTAATGGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * * **
35227911 CACTAAGTGTGTGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
35227939 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
35227953 ACTTATTAAA
Statistics
Matches: 118, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
28 61 0.52
29 57 0.48
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.33
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:35227873 original size:57 final size:56
Alignment explanation
Indices: 35227797--35227952 Score: 231
Period size: 57 Copynumber: 2.8 Consensus size: 56
35227787 TGACTTTCGA
* *
35227797 CACTAAGTGTGCGAATTTAATTGTAAAGCACTAAGTGTGCGAGTTTAATTTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAGCACTAAGTGTGCGAGTTTAA-TGGTAAAG
35227854 CACTAAGTGTGCGAGTTTAATTTGTAAAGCACTAAGTGTGCGAGTTTAATGGTAAAG
1 CACTAAGTGTGCGAGTTTAA-TTGTAAAGCACTAAGTGTGCGAGTTTAATGGTAAAG
* * * **
35227911 CACTAAGTGTGTGAGTTTGATTATTGAGCACTAAGTGTGCGA
1 CACTAAGTGTGCGAGTTTAATTGTAAAGCACTAAGTGTGCGA
35227953 ACTTATTAAA
Statistics
Matches: 91, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
56 19 0.21
57 44 0.48
58 28 0.31
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.33
Consensus pattern (56 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAGCACTAAGTGTGCGAGTTTAATGGTAAAG
Found at i:35228763 original size:23 final size:23
Alignment explanation
Indices: 35228733--35229193 Score: 337
Period size: 23 Copynumber: 19.7 Consensus size: 23
35228723 TGGTGAATAA
* *
35228733 ATGCTGTCTAATTTTGCATATAC
1 ATGCTGTCCAATTTTGTATATAC
* *
35228756 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCCAATTTTGTATATAC
* * **
35228778 AGTGCTGTCCAAATTGGTATATGT
1 A-TGCTGTCCAATTTTGTATATAC
* *
35228802 ATGCTGCCCAATTTTGGTGA-ATAA
1 ATGCTGTCCAATTTT-GT-ATATAC
*
35228826 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCCAATTTTGTATATAC
* *
35228849 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCCAATTTTGTATATAC
* **
35228871 AGTGCTGTCCAAATTTGTATATGT
1 A-TGCTGTCCAATTTTGTATATAC
* * *
35228895 ATGCTGCCCAATTTTGGTGTATAA
1 ATGCTGTCCAATTTT-GTATATAC
*
35228919 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCCAATTTTGTATATAC
*
35228942 ATGCTGT-CAGATTTTGTGTATA-
1 ATGCTGTCCA-ATTTTGTATATAC
* * * **
35228964 AGTACTGTCCAAATTGGTATATGT
1 A-TGCTGTCCAATTTTGTATATAC
*
35228988 ATGCTGTCCAATTTTGGTGA-ATAA
1 ATGCTGTCCAATTTT-GT-ATATAC
*
35229012 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCCAATTTTGTATATAC
*
35229035 ATGCTGT-CAGATTTTGTGTATA-
1 ATGCTGTCCA-ATTTTGTATATAC
* * * **
35229057 AGTACTGTCCAAATTGGTATATGT
1 A-TGCTGTCCAATTTTGTATATAC
* * *
35229081 ATGCTGCCCAATTTTGGTGTATAA
1 ATGCTGTCCAATTTT-GTATATAC
*
35229105 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCCAATTTTGTATATAC
* *
35229128 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCCAATTTTGTATATAC
*
35229150 AGTGCTGTCCAAATTTTTTGCATATAC
1 A-TGCTGTCC-AA--TTTTGTATATAC
*
35229177 ATGCTGTCAAATTTTGT
1 ATGCTGTCCAATTTTGT
35229194 NNNNNNNNNN
Statistics
Matches: 341, Mismatches: 72, Indels: 50
0.74 0.16 0.11
Matches are distributed among these distances:
22 11 0.03
23 224 0.66
24 85 0.25
25 4 0.01
26 16 0.05
27 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (23 bp):
ATGCTGTCCAATTTTGTATATAC
Found at i:35228807 original size:93 final size:93
Alignment explanation
Indices: 35228701--35229164 Score: 824
Period size: 93 Copynumber: 5.0 Consensus size: 93
35228691 GCCCAATTTG
* *
35228701 TGGTA-AT-TATGCTGCCTAATTTTGGTGAATAAATGCTGTCTAATTTTGCATATACATGCTGTC
1 TGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTC
35228764 AAATTTTGTGTATAAGTGCTGTCCAAAT
66 AAATTTTGTGTATAAGTGCTGTCCAAAT
35228792 TGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTC
1 TGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTC
35228857 AAATTTTGTGTATAAGTGCTGTCCAAAT
66 AAATTTTGTGTATAAGTGCTGTCCAAAT
* *
35228885 TTGTATATGTATGCTGCCCAATTTTGGTGTATAAATGCTGTCCAATTTTGCATATACATGCTGTC
1 TGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTC
* *
35228950 AGATTTTGTGTATAAGTACTGTCCAAAT
66 AAATTTTGTGTATAAGTGCTGTCCAAAT
*
35228978 TGGTATATGTATGCTGTCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTC
1 TGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTC
* *
35229043 AGATTTTGTGTATAAGTACTGTCCAAAT
66 AAATTTTGTGTATAAGTGCTGTCCAAAT
*
35229071 TGGTATATGTATGCTGCCCAATTTTGGTGTATAAATGCTGTCCAATTTTGCATATACATGCTGTC
1 TGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTC
35229136 AAATTTTGTGTATAAGTGCTGTCCAAAT
66 AAATTTTGTGTATAAGTGCTGTCCAAAT
35229164 T
1 T
35229165 TTTTGCATAT
Statistics
Matches: 358, Mismatches: 13, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
91 5 0.01
92 2 0.01
93 351 0.98
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (93 bp):
TGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTC
AAATTTTGTGTATAAGTGCTGTCCAAAT
Found at i:35229517 original size:47 final size:48
Alignment explanation
Indices: 35229407--35229640 Score: 237
Period size: 50 Copynumber: 4.8 Consensus size: 48
35229397 TAGGACGCCA
* *
35229407 ATGCCATATCCCAGATATGGTCTTACA-TGGGATCACAT-ATCG--GTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACT--GA-CAC-TCATCGTCGTGCCG
* *
35229455 ATGCTATGTCCCAGACATGGTCTTACACTGACACTCATC-TCGAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACTCATCGTCGTGCCG
* * *
35229502 ATGTCATGTCCCAGACATGGTCTTACACTGACTCTCCTCTGTCCGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACTCATC-GT-CGTGCCG
* *
35229552 ATGCCATGTCCCAGACATGGTCTTACACT-AGCACTCCTCGGCCTGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCATC-GTC-GTGCCG
*
35229602 ATGCCATGTCCCAGACATGGTATTACACTGGCACACTCA
1 ATGCCATGTCCCAGACATGGTCTTACACT-G-ACACTCA
35229641 CTGCCATGGT
Statistics
Matches: 159, Mismatches: 15, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
45 1 0.01
46 6 0.04
47 42 0.26
48 24 0.15
49 4 0.03
50 76 0.48
52 5 0.03
53 1 0.01
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACTCATCGTCGTGCCG
Found at i:35229573 original size:50 final size:49
Alignment explanation
Indices: 35229449--35229631 Score: 255
Period size: 50 Copynumber: 3.7 Consensus size: 49
35229439 TCACATATCG
* *
35229449 GTGCCGATGCTATGTCCCAGACATGGTCTTACACTGACACTCATC-T-C
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGTCC
* * *
35229496 GAGCCGATGTCATGTCCCAGACATGGTCTTACACTGACTCTCCTCTGTCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTC-GTCC
*
35229546 GTGCCGATGCCATGTCCCAGACATGGTCTTACACT-AGCACTCCTCGGCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACTCCTCGTCC
*
35229595 TGTGCCGATGCCATGTCCCAGACATGGTATTACACTG
1 -GTGCCGATGCCATGTCCCAGACATGGTCTTACACTG
35229632 GCACACTCAC
Statistics
Matches: 120, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
47 40 0.33
49 5 0.04
50 75 0.62
ACGTcount: A:0.20, C:0.33, G:0.21, T:0.26
Consensus pattern (49 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCCTCGTCC
Found at i:35229579 original size:97 final size:99
Alignment explanation
Indices: 35229449--35229631 Score: 273
Period size: 97 Copynumber: 1.9 Consensus size: 99
35229439 TCACATATCG
* * *
35229449 GTGCCGATGCTATGTCCCAGACATGGTCTTACACT-GACACTCATC-TC-GAGCCGATGTCATGT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CACTCATCGCCTGAGCCGATGCCATGT
*
35229511 CCCAGACATGGTCTTACACTGACTCTCCTCTGTCC
65 CCCAGACATGGTATTACACTGACTCTCCTCTGTCC
* *
35229546 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGCCTGTGCCGATGCCATGT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATC-GCCTGAGCCGATGCCATGT
35229611 CCCAGACATGGTATTACACTG
65 CCCAGACATGGTATTACACTG
35229632 GCACACTCAC
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
97 41 0.54
98 1 0.01
99 1 0.01
100 33 0.43
ACGTcount: A:0.20, C:0.33, G:0.21, T:0.26
Consensus pattern (99 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCGCCTGAGCCGATGCCATGTC
CCAGACATGGTATTACACTGACTCTCCTCTGTCC
Found at i:35233101 original size:19 final size:19
Alignment explanation
Indices: 35233079--35233115 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35233069 ATTTTTTTTA
* *
35233079 AAAATCATTAAAATCCAAC
1 AAAATCATAAAAAGCCAAC
35233098 AAAATCATAAAAAGCCAA
1 AAAATCATAAAAAGCCAA
35233116 AAACAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.19, G:0.03, T:0.16
Consensus pattern (19 bp):
AAAATCATAAAAAGCCAAC
Found at i:35233377 original size:20 final size:19
Alignment explanation
Indices: 35233348--35233399 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
35233338 TTTTCCTTTT
*
35233348 TTTTTGTATTTTTATGAAAA
1 TTTTTATATTTTTA-GAAAA
*
35233368 TTTTTATATTTTTAGGAAA
1 TTTTTATATTTTTAGAAAA
*
35233387 -TTTTAAATTTTTA
1 TTTTTATATTTTTA
35233400 CACGTGACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 12 0.41
19 4 0.14
20 13 0.45
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (19 bp):
TTTTTATATTTTTAGAAAA
Found at i:35233396 original size:18 final size:20
Alignment explanation
Indices: 35233355--35233399 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
35233345 TTTTTTTTGT
*
35233355 ATTTTTATGAAAATTTTTAT
1 ATTTTTATGAAAATTTTTAA
*
35233375 ATTTTTA-GGAAA-TTTTAA
1 ATTTTTATGAAAATTTTTAA
35233393 ATTTTTA
1 ATTTTTA
35233400 CACGTGACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 12 0.52
19 4 0.17
20 7 0.30
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (20 bp):
ATTTTTATGAAAATTTTTAA
Found at i:35236178 original size:29 final size:30
Alignment explanation
Indices: 35236145--35236218 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 30
35236135 TTTGGTTTTT
35236145 TTAT-AAAATAATATTAAAAAATTA-ATTAA
1 TTATAAAAATAATATTAAAAAA-TAGATTAA
* *
35236174 TTATAAAAATAGTA-TGAAAAATAGATTAA
1 TTATAAAAATAATATTAAAAAATAGATTAA
*
35236203 TTATGAAAATAA-ATTA
1 TTATAAAAATAATATTA
35236219 TGTTTTACTA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
28 3 0.08
29 26 0.70
30 8 0.22
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (30 bp):
TTATAAAAATAATATTAAAAAATAGATTAA
Found at i:35242454 original size:6 final size:6
Alignment explanation
Indices: 35242443--35242470 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
35242433 TCCATAGGTA
35242443 GTTGTG GTTGTG GTTGTG GTTGTG GTTG
1 GTTGTG GTTGTG GTTGTG GTTGTG GTTG
35242471 AAGCTCTCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (6 bp):
GTTGTG
Found at i:35247958 original size:15 final size:16
Alignment explanation
Indices: 35247933--35247966 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
35247923 TCCGTTTTTC
35247933 TTAGATTAATTTATTT
1 TTAGATTAATTTATTT
*
35247949 TTAG-TTAATTTCTTT
1 TTAGATTAATTTATTT
35247964 TTA
1 TTA
35247967 AATTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (16 bp):
TTAGATTAATTTATTT
Found at i:35249677 original size:48 final size:48
Alignment explanation
Indices: 35249606--35249705 Score: 200
Period size: 48 Copynumber: 2.1 Consensus size: 48
35249596 CCTGTATTCC
35249606 AATTAACATACAGACTAGCCTCCAGAACAGTGACGGAGAGCCACAGTG
1 AATTAACATACAGACTAGCCTCCAGAACAGTGACGGAGAGCCACAGTG
35249654 AATTAACATACAGACTAGCCTCCAGAACAGTGACGGAGAGCCACAGTG
1 AATTAACATACAGACTAGCCTCCAGAACAGTGACGGAGAGCCACAGTG
35249702 AATT
1 AATT
35249706 GTATTTGAAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (48 bp):
AATTAACATACAGACTAGCCTCCAGAACAGTGACGGAGAGCCACAGTG
Found at i:35250799 original size:120 final size:121
Alignment explanation
Indices: 35250578--35250820 Score: 463
Period size: 120 Copynumber: 2.0 Consensus size: 121
35250568 AAAATACTAT
35250578 AATAATGATAACAAATATCAAATAAATCTCAAGTTTGAGCTCTAAAGCCCTTCATTAAATTAAGA
1 AATAATGATAACAAATATCAAATAAATCTCAAGTTTGAGCTCTAAAGCCCTTCATTAAATTAAGA
35250643 TTTGGATATAGAGCATTTTAAAATTTAAAAAGAACCGATTAATAATAATTAAGAAA
66 TTTGGATATAGAGCATTTTAAAATTTAAAAAGAACCGATTAATAATAATTAAGAAA
35250699 AATAATGAT-ACAAATATCAAATAAATCTCAAGTTTGAGCTCTAAAGCCCTTCATTAAATTAAGA
1 AATAATGATAACAAATATCAAATAAATCTCAAGTTTGAGCTCTAAAGCCCTTCATTAAATTAAGA
35250763 TTTGGATATAGAGCATTTTAAAATTTTAAAAA-AACCGATTAATAATAATTAAGAAA
66 TTTGGATATAGAGCATTTTAAAA-TTTAAAAAGAACCGATTAATAATAATTAAGAAA
35250819 AA
1 AA
35250821 GTTATATATA
Statistics
Matches: 121, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
120 104 0.86
121 17 0.14
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.31
Consensus pattern (121 bp):
AATAATGATAACAAATATCAAATAAATCTCAAGTTTGAGCTCTAAAGCCCTTCATTAAATTAAGA
TTTGGATATAGAGCATTTTAAAATTTAAAAAGAACCGATTAATAATAATTAAGAAA
Found at i:35254548 original size:21 final size:21
Alignment explanation
Indices: 35254505--35254548 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
35254495 ATTGAATAAA
* *
35254505 ATAAAAAATAGTAAAAGACTT
1 ATAAAAAATACTAAAAGAATT
35254526 ATAAATAAATACTAAAA-AATT
1 ATAAA-AAATACTAAAAGAATT
35254547 AT
1 AT
35254549 TTAAATGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (21 bp):
ATAAAAAATACTAAAAGAATT
Found at i:35255313 original size:298 final size:305
Alignment explanation
Indices: 35254880--35255442 Score: 707
Period size: 298 Copynumber: 1.9 Consensus size: 305
35254870 TTTGTAATTA
* * * *
35254880 AGTATTTTAGTCTTTTCACCTTAAAAGACCGAATAAAAATATGTATATAATAGGATTTGAACCCA
1 AGTATTTTAATCTTTTCACCTTAAAAGAACAAAAAAAAATATGTATATAATAGGATTTGAACCCA
**
35254945 CACCAATTAAAATAGTATGTTTTTAATTTACCACTAATCTAAAGCTTTATTTTAATATTTTTACA
66 CACCAATTAAAATAGTAAATTTTTAATTTACCACTAATCTAAAGCTTTATTTTAATATTTTTACA
* * * *
35255010 CATTTTAATTTTATTAT-ACAACTCTATTACCTCCATTAGTTG-TGTGT-AT-G-TA-TA-TATA
131 CATTTTAATTTTATTATGAC-ACTCTATTACATCCATCAGTTGATATATCATAGTTATTATTATA
* * *
35255068 TTATTAATAAAACCACTGACTGAGTTGGTTTCACATCCAACTGGGTCACCAACTCAATTAGGAAG
195 TTATTAATAAAACCACTAACTGAGTTGGTGTCACATCCAACTAGGTCACCAACTCAATTAGGAAG
35255133 TTATGAGAACGTCCTTCCGTAATAAGAATAAATAATATTATTCAAG
260 TTATGAGAACGTCCTTCCGTAATAAGAATAAATAATATTATTCAAG
* * * * *
35255179 AGTATTTTAATCTTTTCACTTTAAAA-AATAAAAAAAAATATGTATTTGATGGGATTTGAACCCA
1 AGTATTTTAATCTTTTCACCTTAAAAGAACAAAAAAAAATATGTATATAATAGGATTTGAACCCA
** * *
35255243 CACCAATTGCATTAGTAAATTATTTAATTTACCACTCAA-CTAAA-ATCTTATTTT-ATATTTTT
66 CACCAATTAAAATAGTAAATT-TTTAATTTACCACT-AATCTAAAGCT-TTATTTTAATATTTTT
* **
35255305 ATACATTTTAATTTTATTATGGACACTCTATTGTATCCATCAGTTGTATATATCATAGTTTATTA
128 ACACATTTTAATTTTATTAT-GACACTCTATTACATCCATCAGTTG-ATATATCATAG-TTATTA
* * * ***
35255370 TTATTTTATTAATAAAAGCACTAACTGAGTTGGTGTCACATTCAACTAGGTCACCAACTTGGTTA
190 TTATATTATTAATAAAACCACTAACTGAGTTGGTGTCACATCCAACTAGGTCACCAACTCAATTA
35255435 GGAAGTTA
255 GGAAGTTA
35255443 CGGGAATGTC
Statistics
Matches: 220, Mismatches: 31, Indels: 18
0.82 0.12 0.07
Matches are distributed among these distances:
298 75 0.34
299 68 0.31
300 4 0.02
301 3 0.01
302 2 0.01
303 1 0.00
305 2 0.01
306 2 0.01
307 63 0.29
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (305 bp):
AGTATTTTAATCTTTTCACCTTAAAAGAACAAAAAAAAATATGTATATAATAGGATTTGAACCCA
CACCAATTAAAATAGTAAATTTTTAATTTACCACTAATCTAAAGCTTTATTTTAATATTTTTACA
CATTTTAATTTTATTATGACACTCTATTACATCCATCAGTTGATATATCATAGTTATTATTATAT
TATTAATAAAACCACTAACTGAGTTGGTGTCACATCCAACTAGGTCACCAACTCAATTAGGAAGT
TATGAGAACGTCCTTCCGTAATAAGAATAAATAATATTATTCAAG
Found at i:35258512 original size:21 final size:21
Alignment explanation
Indices: 35258488--35258581 Score: 73
Period size: 21 Copynumber: 4.3 Consensus size: 21
35258478 TGCCTGAAAT
* *
35258488 GACACACGAAATGTCTGATAC
1 GACACACGAAATGCCTAATAC
**
35258509 GACACACGAGGTGCCTAATAC
1 GACACACGAAATGCCTAATAC
**
35258530 GACACACGAGGTGCCTGAAATAC
1 GACACACGAAATGCCT--AATAC
*
35258553 GACACA-TAAAGTGCCTGATATAC
1 GACACACGAAA-TGCCT-A-ATAC
35258576 GACACA
1 GACACA
35258582 TAAATTGCCT
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
21 33 0.54
22 2 0.03
23 26 0.43
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.16
Consensus pattern (21 bp):
GACACACGAAATGCCTAATAC
Found at i:35258567 original size:44 final size:42
Alignment explanation
Indices: 35258464--35258581 Score: 123
Period size: 42 Copynumber: 2.7 Consensus size: 42
35258454 CCTGATCAAT
* *
35258464 ATACGACACATAAGTGCCTGAA-ATGACACACGAAATGTCTG
1 ATACGACACATAAGTGCCTGAATACGACACACGAAATGCCTG
* * **
35258505 ATACGACACACGAGGTGCCT-AATACGACACACGAGGTGCCTG
1 ATACGACACA-TAAGTGCCTGAATACGACACACGAAATGCCTG
35258547 AAATACGACACATAAAGTGCCTGATATACGACACA
1 --ATACGACACAT-AAGTGCCTGA-ATACGACACA
35258582 TAAATTGCCT
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
41 12 0.19
42 22 0.35
44 17 0.27
45 1 0.02
46 10 0.16
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (42 bp):
ATACGACACATAAGTGCCTGAATACGACACACGAAATGCCTG
Found at i:35258582 original size:23 final size:22
Alignment explanation
Indices: 35258464--35258591 Score: 104
Period size: 23 Copynumber: 5.9 Consensus size: 22
35258454 CCTGATCAAT
35258464 ATACGACACAT-AAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
* * *
35258485 A-ATGACACACGAAA-TGTCTG-
1 ATACGACACA-TAAAGTGCCTGA
** *
35258505 ATACGACACACGAGGTGCCT-A
1 ATACGACACATAAAGTGCCTGA
** *
35258526 ATACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTG-A
35258549 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
*
35258571 TATACGACACATAAATTGCCT
1 -ATACGACACATAAAGTGCCT
35258592 AAACGGTAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
20 9 0.10
21 37 0.43
22 3 0.03
23 38 0.44
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.19
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTGA
Found at i:35259618 original size:16 final size:16
Alignment explanation
Indices: 35259597--35259631 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
35259587 AACCCTAATT
* *
35259597 TTTCCCGTTTCTTTTC
1 TTTCCCCTTTCCTTTC
35259613 TTTCCCCTTTCCTTTC
1 TTTCCCCTTTCCTTTC
35259629 TTT
1 TTT
35259632 ATTTTTCGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.34, G:0.03, T:0.63
Consensus pattern (16 bp):
TTTCCCCTTTCCTTTC
Found at i:35260820 original size:5 final size:5
Alignment explanation
Indices: 35260812--35260867 Score: 57
Period size: 5 Copynumber: 11.6 Consensus size: 5
35260802 ATTTTACATA
*
35260812 ATAAT ATAAT ATAAT ATAAT ATAAT ATATTTT ATAAT A-AA- ATAAT AT-AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA--AT ATAAT ATAAT ATAAT ATAAT
35260861 -TAAT ATA
1 ATAAT ATA
35260868 TTTAAAACAT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
3 2 0.05
4 8 0.19
5 29 0.67
7 4 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATAAT
Found at i:35260846 original size:22 final size:20
Alignment explanation
Indices: 35260821--35260861 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 20
35260811 AATAATATAA
35260821 TATAATATAATATAATATATTT
1 TATAATA-AA-ATAATATATTT
35260843 TATAATAAAATAATATATT
1 TATAATAAAATAATATATT
35260862 AATATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TATAATAAAATAATATATTT
Found at i:35260883 original size:30 final size:30
Alignment explanation
Indices: 35260817--35260881 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 30
35260807 ACATAATAAT
* * *
35260817 ATAATATAATATAATATAATATATTTTATA
1 ATAAAATAATATAATATAATATATTTAAAA
35260847 ATAAAATAATAT-AT-TAATATATTTAAAA
1 ATAAAATAATATAATATAATATATTTAAAA
35260875 CATAAAA
1 -ATAAAA
35260882 ATCTAATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 12 0.39
29 8 0.26
30 11 0.35
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (30 bp):
ATAAAATAATATAATATAATATATTTAAAA
Found at i:35266033 original size:14 final size:14
Alignment explanation
Indices: 35266014--35266043 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35266004 GCCCGTGTGG
*
35266014 CTCACACGGTCACA
1 CTCACACCGTCACA
35266028 CTCACACCGTCACA
1 CTCACACCGTCACA
35266042 CT
1 CT
35266044 GTTGTGTCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.47, G:0.10, T:0.17
Consensus pattern (14 bp):
CTCACACCGTCACA
Found at i:35267187 original size:16 final size:18
Alignment explanation
Indices: 35267157--35267191 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
35267147 AGGCAGTTGC
35267157 AAACAATTATAAATACAA
1 AAACAATTATAAATACAA
35267175 AAACAATT-T-AATACAA
1 AAACAATTATAAATACAA
35267191 A
1 A
35267192 TAAATTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 1 0.06
18 8 0.47
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (18 bp):
AAACAATTATAAATACAA
Found at i:35267703 original size:17 final size:19
Alignment explanation
Indices: 35267683--35267719 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
35267673 AAGACAAACA
35267683 ATAAA-CATATAC-AATGC
1 ATAAACCATATACGAATGC
*
35267700 ATAAACCTTATACGAATGC
1 ATAAACCATATACGAATGC
35267719 A
1 A
35267720 ACATTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 6 0.35
19 6 0.35
ACGTcount: A:0.49, C:0.19, G:0.08, T:0.24
Consensus pattern (19 bp):
ATAAACCATATACGAATGC
Found at i:35271604 original size:2 final size:2
Alignment explanation
Indices: 35271591--35271644 Score: 81
Period size: 2 Copynumber: 27.0 Consensus size: 2
35271581 GATACCCTTT
* * *
35271591 GA GA GA GT GA GA GA GA GA GA GA CA GA GG GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
35271633 GA GA GA GA GA GA
1 GA GA GA GA GA GA
35271645 ACGGAATCTG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.46, C:0.02, G:0.50, T:0.02
Consensus pattern (2 bp):
GA
Found at i:35273324 original size:17 final size:17
Alignment explanation
Indices: 35273302--35273363 Score: 72
Period size: 17 Copynumber: 3.5 Consensus size: 17
35273292 TCTTAGAGTC
35273302 CTAATTGTATACAGCTT
1 CTAATTGTATACAGCTT
*
35273319 CTAATTGTGACTTAGAG-TT
1 CTAATTGT-A--TACAGCTT
35273338 CTAATTGTATACAGCTT
1 CTAATTGTATACAGCTT
*
35273355 TTAATTGTA
1 CTAATTGTA
35273364 GCCCTTGATG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 4 0.11
17 18 0.47
18 2 0.05
19 10 0.26
20 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.44
Consensus pattern (17 bp):
CTAATTGTATACAGCTT
Found at i:35273342 original size:36 final size:36
Alignment explanation
Indices: 35273293--35273362 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
35273283 ATTATGTAAT
35273293 CTTAGAGTCCTAATTGTATACAGCTTCTAATTGTGA
1 CTTAGAGTCCTAATTGTATACAGCTTCTAATTGTGA
* *
35273329 CTTAGAGTTCTAATTGTATACAGCTTTTAATTGT
1 CTTAGAGTCCTAATTGTATACAGCTTCTAATTGT
35273363 AGCCCTTGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (36 bp):
CTTAGAGTCCTAATTGTATACAGCTTCTAATTGTGA
Found at i:35280168 original size:23 final size:22
Alignment explanation
Indices: 35280123--35280184 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 22
35280113 TTTTAAGTCC
* *
35280123 AATTTAAT-AATTTTAAAATCA
1 AATTAAATCAATTTTAAAAACA
35280144 AATTAAATCAATTTTCAAAAACA
1 AATTAAATCAATTTT-AAAAACA
*
35280167 AATCAAATCAAATTTTAA
1 AATTAAATC-AATTTTAA
35280185 CAAATTATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.20
22 6 0.17
23 16 0.46
24 6 0.17
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (22 bp):
AATTAAATCAATTTTAAAAACA
Found at i:35280457 original size:28 final size:28
Alignment explanation
Indices: 35280403--35280457 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
35280393 CTCTTATTTT
* *
35280403 TTAGTTAATTATTAATTTATAATTTTAA
1 TTAGATAATTATTAATTTATAAATTTAA
*
35280431 TTAGATAATTA-TAATTTTTAAAATTTA
1 TTAGATAATTATTAATTTAT-AAATTTA
35280458 GATAAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (28 bp):
TTAGATAATTATTAATTTATAAATTTAA
Found at i:35283064 original size:40 final size:40
Alignment explanation
Indices: 35283016--35283152 Score: 163
Period size: 40 Copynumber: 3.5 Consensus size: 40
35283006 AACACTGGCA
*
35283016 GCTTGTCTACAATACTAGCAGTTTATCTGCATTACTGGTG
1 GCTTGTCTACAATACTGGCAGTTTATCTGCATTACTGGTG
* * * *
35283056 GTTTGTCTACATTACTGGCAGCTTGTCTGCATTACTGGTG
1 GCTTGTCTACAATACTGGCAGTTTATCTGCATTACTGGTG
* *
35283096 GCTTGT-TCACATTTA-TGGCAGTTTATCTGAATTACTGGTG
1 GCTTGTCT-ACA-ATACTGGCAGTTTATCTGCATTACTGGTG
*
35283136 GCTTGTCCACAA-ACTGG
1 GCTTGTCTACAATACTGG
35283153 TGTGTAATTG
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
38 1 0.01
39 4 0.05
40 74 0.90
41 3 0.04
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (40 bp):
GCTTGTCTACAATACTGGCAGTTTATCTGCATTACTGGTG
Found at i:35283099 original size:20 final size:20
Alignment explanation
Indices: 35283041--35283101 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
35283031 TAGCAGTTTA
*
35283041 TCTGCATTACTGGTGGTTTG
1 TCTGCATTACTGGTGGCTTG
* **
35283061 TCTACATTACTGGCAGCTTG
1 TCTGCATTACTGGTGGCTTG
35283081 TCTGCATTACTGGTGGCTTG
1 TCTGCATTACTGGTGGCTTG
35283101 T
1 T
35283102 TCACATTTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.13, C:0.20, G:0.26, T:0.41
Consensus pattern (20 bp):
TCTGCATTACTGGTGGCTTG
Found at i:35283108 original size:20 final size:20
Alignment explanation
Indices: 35282985--35283101 Score: 81
Period size: 20 Copynumber: 5.8 Consensus size: 20
35282975 AGTTTACTTG
* *
35282985 CATTTCTGGTGGCTTGTCCA
1 CATTACTGGTGGCTTGTCTA
** **
35283005 CAACACTGGCAGCTTGTCTA
1 CATTACTGGTGGCTTGTCTA
* * ** * * *
35283025 CAATACTAGCAGTTTATCTG
1 CATTACTGGTGGCTTGTCTA
*
35283045 CATTACTGGTGGTTTGTCTA
1 CATTACTGGTGGCTTGTCTA
** *
35283065 CATTACTGGCAGCTTGTCTG
1 CATTACTGGTGGCTTGTCTA
35283085 CATTACTGGTGGCTTGT
1 CATTACTGGTGGCTTGT
35283102 TCACATTTAT
Statistics
Matches: 74, Mismatches: 23, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 74 1.00
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (20 bp):
CATTACTGGTGGCTTGTCTA
Found at i:35288912 original size:47 final size:47
Alignment explanation
Indices: 35288860--35289005 Score: 117
Period size: 45 Copynumber: 3.1 Consensus size: 47
35288850 TTTTAATATA
35288860 TTTTAACTGATACATGTAACTAAATCTGTGCAGAATAAAACAACTAG
1 TTTTAACTGATACATGTAACTAAATCTGTGCAGAATAAAACAACTAG
* ** * *** *
35288907 TTTTAAACAT-ATACTATTGTTA--AAAGATAT--A-AATAATTTTAA-TATA
1 TTTT-AAC-TGATAC-A-TGTAACTAAATCTGTGCAGAATAA-AACAACTA-G
35288953 TTTTAACTGATACATGTAACTAAATCTGTGCAGAATAAAACAACTAG
1 TTTTAACTGATACATGTAACTAAATCTGTGCAGAATAAAACAACTAG
35289000 TTTTAA
1 TTTTAA
35289006 ACATATACTA
Statistics
Matches: 70, Mismatches: 16, Indels: 26
0.62 0.14 0.23
Matches are distributed among these distances:
43 4 0.06
44 2 0.03
45 19 0.27
46 7 0.10
47 13 0.19
48 19 0.27
49 2 0.03
50 4 0.06
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.36
Consensus pattern (47 bp):
TTTTAACTGATACATGTAACTAAATCTGTGCAGAATAAAACAACTAG
Found at i:35288941 original size:93 final size:94
Alignment explanation
Indices: 35288833--35289019 Score: 367
Period size: 93 Copynumber: 2.0 Consensus size: 94
35288823 GAAAAATATA
35288833 TAAAAGATATAAAATAATTTTAATATATTTTAACTGATACATGTAACTAAATCTGTGCAGAATAA
1 TAAAAGATATAAAATAATTTTAATATATTTTAACTGATACATGTAACTAAATCTGTGCAGAATAA
35288898 AACAACTAGTTTTAAACATATACTATTGT
66 AACAACTAGTTTTAAACATATACTATTGT
35288927 TAAAAGATAT-AAATAATTTTAATATATTTTAACTGATACATGTAACTAAATCTGTGCAGAATAA
1 TAAAAGATATAAAATAATTTTAATATATTTTAACTGATACATGTAACTAAATCTGTGCAGAATAA
35288991 AACAACTAGTTTTAAACATATACTATTGT
66 AACAACTAGTTTTAAACATATACTATTGT
35289020 CATGTGTATT
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
93 83 0.89
94 10 0.11
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.36
Consensus pattern (94 bp):
TAAAAGATATAAAATAATTTTAATATATTTTAACTGATACATGTAACTAAATCTGTGCAGAATAA
AACAACTAGTTTTAAACATATACTATTGT
Found at i:35289327 original size:31 final size:31
Alignment explanation
Indices: 35289292--35289357 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
35289282 TTTTTTAGCT
*
35289292 AAATTTGACCATAAATATTTTAAAAAGAGTC
1 AAATTTGACCATAAACATTTTAAAAAGAGTC
* * *
35289323 AAATTTGACTATAAACCTTTTAAAAGGAGTC
1 AAATTTGACCATAAACATTTTAAAAAGAGTC
35289354 AAAT
1 AAAT
35289358 AGTTGCTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (31 bp):
AAATTTGACCATAAACATTTTAAAAAGAGTC
Found at i:35289472 original size:8 final size:8
Alignment explanation
Indices: 35289452--35289504 Score: 61
Period size: 9 Copynumber: 6.1 Consensus size: 8
35289442 ATGCTATTTT
35289452 TTTTTAAA
1 TTTTTAAA
35289460 TTTTTTAAA
1 -TTTTTAAA
35289469 TTTTTAAA
1 TTTTTAAA
35289477 TTTTTGAATA
1 TTTTT-AA-A
*
35289487 TTTTTATCA
1 TTTTTA-AA
35289496 TTTTTAAA
1 TTTTTAAA
35289504 T
1 T
35289505 ATTTGTTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
8 15 0.38
9 18 0.46
10 6 0.15
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (8 bp):
TTTTTAAA
Found at i:35289474 original size:17 final size:18
Alignment explanation
Indices: 35289452--35289508 Score: 71
Period size: 17 Copynumber: 3.2 Consensus size: 18
35289442 ATGCTATTTT
*
35289452 TTTTTAAATTTTTTAA-A
1 TTTTTAAATTTTTGAATA
35289469 TTTTTAAATTTTTGAATA
1 TTTTTAAATTTTTGAATA
* *
35289487 TTTTTATCATTTTTAAATA
1 TTTTTA-AATTTTTGAATA
35289506 TTT
1 TTT
35289509 GTTGACGTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
17 15 0.43
18 7 0.20
19 13 0.37
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTTAAATTTTTGAATA
Found at i:35291929 original size:25 final size:26
Alignment explanation
Indices: 35291901--35291960 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
35291891 GAAAGTTCCG
*
35291901 AAGAGCCATTAA-CAGGAAGCTTACA
1 AAGAGCCATTAATCAGGAAGCTCACA
* *
35291926 AAGAGCCTTTAATCGGGAAGCTCACA
1 AAGAGCCATTAATCAGGAAGCTCACA
35291952 AAGAGCCAT
1 AAGAGCCAT
35291961 ATATCGGGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 11 0.37
26 19 0.63
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.17
Consensus pattern (26 bp):
AAGAGCCATTAATCAGGAAGCTCACA
Found at i:35291966 original size:26 final size:25
Alignment explanation
Indices: 35291901--35291969 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 25
35291891 GAAAGTTCCG
* * *
35291901 AAGAGCCATTAACAGGAAGCTTACA
1 AAGAGCCATTATCGGGAAGCTCACA
*
35291926 AAGAGCCTTTAATCGGGAAGCTCACA
1 AAGAGCCATT-ATCGGGAAGCTCACA
35291952 AAGAGCCATATATCGGGA
1 AAGAGCCAT-TATCGGGA
35291970 CGCTTATAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 9 0.24
26 27 0.73
27 1 0.03
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.17
Consensus pattern (25 bp):
AAGAGCCATTATCGGGAAGCTCACA
Found at i:35293528 original size:26 final size:27
Alignment explanation
Indices: 35293468--35293528 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
35293458 CTATGTTCAT
35293468 GTACCAAAGTGAACAAAAAAAGTACAA
1 GTACCAAAGTGAACAAAAAAAGTACAA
* * * *
35293495 GTATCAAAGTGAA-GAAAAAAGTATAG
1 GTACCAAAGTGAACAAAAAAAGTACAA
35293521 GTACCAAA
1 GTACCAAA
35293529 ATAAACTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 17 0.59
27 12 0.41
ACGTcount: A:0.56, C:0.11, G:0.18, T:0.15
Consensus pattern (27 bp):
GTACCAAAGTGAACAAAAAAAGTACAA
Found at i:35293669 original size:6 final size:6
Alignment explanation
Indices: 35293658--35293700 Score: 79
Period size: 6 Copynumber: 7.3 Consensus size: 6
35293648 TAACCAACTT
35293658 TTAGAA TTAGAA TTAGAA TTAGAA TTAGAA TTAGAA TTA-AA TT
1 TTAGAA TTAGAA TTAGAA TTAGAA TTAGAA TTAGAA TTAGAA TT
35293701 GATAAATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.11
6 33 0.89
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (6 bp):
TTAGAA
Found at i:35295616 original size:15 final size:15
Alignment explanation
Indices: 35295589--35295674 Score: 100
Period size: 15 Copynumber: 5.7 Consensus size: 15
35295579 AAAATTTAGT
* *
35295589 ACTTAAATTTTCAAA
1 ACTTAATTTTTCAAC
*
35295604 ACATAATTTTTCAAC
1 ACTTAATTTTTCAAC
* *
35295619 ACTTATTTTTTCAGC
1 ACTTAATTTTTCAAC
35295634 ACTTAATTTTTCAAC
1 ACTTAATTTTTCAAC
* *
35295649 ACTTATTTTTTCAGC
1 ACTTAATTTTTCAAC
35295664 ACTTAAATTTT
1 ACTT-AATTTT
35295675 AGTTTAGTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
15 54 0.92
16 5 0.08
ACGTcount: A:0.33, C:0.17, G:0.02, T:0.48
Consensus pattern (15 bp):
ACTTAATTTTTCAAC
Found at i:35295654 original size:30 final size:30
Alignment explanation
Indices: 35295607--35295674 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
35295597 TTTCAAAACA
35295607 TAATTTTTCAACACTTATTTTTTCAGCACT
1 TAATTTTTCAACACTTATTTTTTCAGCACT
35295637 TAATTTTTCAACACTTATTTTTTCAGCACT
1 TAATTTTTCAACACTTATTTTTTCAGCACT
*
35295667 TAAATTTT
1 TAATTTTT
35295675 AGTTTAGTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.28, C:0.18, G:0.03, T:0.51
Consensus pattern (30 bp):
TAATTTTTCAACACTTATTTTTTCAGCACT
Found at i:35306759 original size:25 final size:25
Alignment explanation
Indices: 35306707--35306761 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
35306697 TTACCGATTC
* *
35306707 CAGCTTTTATGAGCTTATCGATACT
1 CAGCTTGTATGAGCTTATCCATACT
*
35306732 CAGCTTGTATGAGCTTA-CCATTATT
1 CAGCTTGTATGAGCTTATCCA-TACT
35306757 CAGCT
1 CAGCT
35306762 AAGAAGAGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (25 bp):
CAGCTTGTATGAGCTTATCCATACT
Found at i:35308539 original size:20 final size:20
Alignment explanation
Indices: 35308514--35308554 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
35308504 ATACATGCCA
*
35308514 TTTTATAACTTGTGATAGTG
1 TTTTATAACCTGTGATAGTG
35308534 TTTTATAACCTGTGATAGTG
1 TTTTATAACCTGTGATAGTG
35308554 T
1 T
35308555 GATGTCTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (20 bp):
TTTTATAACCTGTGATAGTG
Found at i:35319531 original size:27 final size:27
Alignment explanation
Indices: 35319487--35319645 Score: 126
Period size: 27 Copynumber: 5.9 Consensus size: 27
35319477 TTTCATCTCC
** *
35319487 TAGGGGTATAACAATCATTTTACCTTA
1 TAGGGGTATTTCAGTCATTTTACCTTA
**
35319514 TAGGGGTATTTCAGTCATACTA-CTCTA
1 TAGGGGTATTTCAGTCATTTTACCT-TA
* * * * *
35319541 TGGGGGTCTTTCGGTTATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCTTA
* * ** *
35319568 TAAGAGTATTTTGGTCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCTTA
35319595 T-GAGGGTATTTCAGTCATTTTACCTTA
1 TAG-GGGTATTTCAGTCATTTTACCTTA
*
35319622 -AGGAGGTATTTCGGTCATTTTACC
1 TAGG-GGTATTTCAGTCATTTTACC
35319646 CTATTTTGGG
Statistics
Matches: 103, Mismatches: 24, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
26 3 0.03
27 99 0.96
28 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.41
Consensus pattern (27 bp):
TAGGGGTATTTCAGTCATTTTACCTTA
Found at i:35319561 original size:54 final size:54
Alignment explanation
Indices: 35319501--35319649 Score: 156
Period size: 54 Copynumber: 2.8 Consensus size: 54
35319491 GGTATAACAA
* * * * *
35319501 TCATTTTACCTTATAGGGGTATTTCAGTCATACTACTCTATGGGGGTCTTTCGG
1 TCATTTTACCTTATAGGGGTATTTCGGTCATACTACCCTATGAGGGTATTTCAG
* * * * * **
35319555 TTATTTTACCCTATAAGAGTATTTTGGTCATTTTACCCTATGAGGGTATTTCAG
1 TCATTTTACCTTATAGGGGTATTTCGGTCATACTACCCTATGAGGGTATTTCAG
**
35319609 TCATTTTACCTTA-AGGAGGTATTTCGGTCATTTTACCCTAT
1 TCATTTTACCTTATAGG-GGTATTTCGGTCATACTACCCTAT
35319650 TTTGGGGTCT
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
53 2 0.03
54 75 0.97
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.43
Consensus pattern (54 bp):
TCATTTTACCTTATAGGGGTATTTCGGTCATACTACCCTATGAGGGTATTTCAG
Found at i:35319609 original size:81 final size:81
Alignment explanation
Indices: 35319501--35319649 Score: 203
Period size: 81 Copynumber: 1.8 Consensus size: 81
35319491 GGTATAACAA
* * * * *
35319501 TCATTTTACCTTATAGGGGTATTTCAGTCATACTA-CTCTATGGGGGTCTTTCGGTTATTTTACC
1 TCATTTTACCCTATAGGGGTATTTCAGTCATACTACCT-TAAGGAGGTATTTCGGTCATTTTACC
35319565 CTATAAGAGTATTTTGG
65 CTATAAGAGTATTTTGG
**
35319582 TCATTTTACCCTAT-GAGGGTATTTCAGTCATTTTACCTTAAGGAGGTATTTCGGTCATTTTACC
1 TCATTTTACCCTATAG-GGGTATTTCAGTCATACTACCTTAAGGAGGTATTTCGGTCATTTTACC
35319646 CTAT
65 CTAT
35319650 TTTGGGGTCT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
80 1 0.02
81 56 0.95
82 2 0.03
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.43
Consensus pattern (81 bp):
TCATTTTACCCTATAGGGGTATTTCAGTCATACTACCTTAAGGAGGTATTTCGGTCATTTTACCC
TATAAGAGTATTTTGG
Found at i:35328240 original size:40 final size:40
Alignment explanation
Indices: 35328185--35328392 Score: 195
Period size: 40 Copynumber: 5.2 Consensus size: 40
35328175 CGAGCCATAC
* *
35328185 CTACTGAAACGTATGCGCTTTCGAGCAATACCGACTAAAT
1 CTACTGAAACGTATGCGCTTTCGAGCCATACCTACTAAAT
* * *
35328225 CTACTGAAATGTATGCACTTTTGAGCCATACCTACTAAAT
1 CTACTGAAACGTATGCGCTTTCGAGCCATACCTACTAAAT
* * * * **
35328265 CTATTGAAACGTATGTGCTTTCAAGCGA-ACCTACTGGAT
1 CTACTGAAACGTATGCGCTTTCGAGCCATACCTACTAAAT
* * * * *
35328304 CTATTGAAACGCATGCGCTTTTGAGCCATACTTACTGAAT
1 CTACTGAAACGTATGCGCTTTCGAGCCATACCTACTAAAT
** * * *
35328344 CTACTGAAGTGTAGGCGCTTTCGAGCCGTACTTAC-AGAAT
1 CTACTGAAACGTATGCGCTTTCGAGCCATACCTACTA-AAT
*
35328384 CTATTGAAA
1 CTACTGAAA
35328393 GGAATGCTCT
Statistics
Matches: 135, Mismatches: 31, Indels: 4
0.79 0.18 0.02
Matches are distributed among these distances:
39 32 0.24
40 103 0.76
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (40 bp):
CTACTGAAACGTATGCGCTTTCGAGCCATACCTACTAAAT
Found at i:35328327 original size:79 final size:80
Alignment explanation
Indices: 35328185--35328365 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 80
35328175 CGAGCCATAC
* * *
35328185 CTACTGAAACGTATGCGCTTTCGAGCAATACCGACTAAATCTACTGAAATGTATGCACTTTTGAG
1 CTACTGAAACGTATGCGCTTTCAAGCAATACCGACTAAATCTACTGAAACGCATGCACTTTTGAG
35328250 CCATACCTACTAAAT
66 CCATACCTACTAAAT
* * * * ** * *
35328265 CTATTGAAACGTATGTGCTTTCAAGCGA-ACCTACTGGATCTATTGAAACGCATGCGCTTTTGAG
1 CTACTGAAACGTATGCGCTTTCAAGCAATACCGACTAAATCTACTGAAACGCATGCACTTTTGAG
* *
35328329 CCATACTTACTGAAT
66 CCATACCTACTAAAT
** *
35328344 CTACTGAAGTGTAGGCGCTTTC
1 CTACTGAAACGTATGCGCTTTC
35328366 GAGCCGTACT
Statistics
Matches: 83, Mismatches: 18, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
79 59 0.71
80 24 0.29
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (80 bp):
CTACTGAAACGTATGCGCTTTCAAGCAATACCGACTAAATCTACTGAAACGCATGCACTTTTGAG
CCATACCTACTAAAT
Found at i:35330605 original size:17 final size:17
Alignment explanation
Indices: 35330583--35330616 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
35330573 TAACTAAAGT
35330583 TGAGATTTAATAATTTA
1 TGAGATTTAATAATTTA
35330600 TGAGATTTAATAATTTA
1 TGAGATTTAATAATTTA
35330617 CATTTCTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (17 bp):
TGAGATTTAATAATTTA
Found at i:35333353 original size:11 final size:11
Alignment explanation
Indices: 35333337--35333362 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
35333327 GAGGTATGTT
35333337 ATTTTGATTAA
1 ATTTTGATTAA
35333348 ATTTTGATTAA
1 ATTTTGATTAA
35333359 ATTT
1 ATTT
35333363 ATGGAGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (11 bp):
ATTTTGATTAA
Found at i:35339679 original size:18 final size:17
Alignment explanation
Indices: 35339646--35339684 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
35339636 TTTTATAAAT
35339646 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
35339664 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
35339681 TGTG
1 TGTG
35339685 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Done.