Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 738 of 770
Found at i:233679638 original size:40 final size:40
Alignment explanation
Indices: 233679511--233679640 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
233679501 ATGCTGGAAA
* * *
233679511 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
233679551 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
233679591 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
233679631 TTATATCCGG
1 TTATATCCGG
233679641 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:233687697 original size:40 final size:40
Alignment explanation
Indices: 233687570--233687699 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
233687560 ATGCTGGAAA
* * *
233687570 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
233687610 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
233687650 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
233687690 TTATATCCGG
1 TTATATCCGG
233687700 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:233695619 original size:39 final size:40
Alignment explanation
Indices: 233695495--233695621 Score: 138
Period size: 39 Copynumber: 3.2 Consensus size: 40
233695485 ATGCTGGAAA
* *
233695495 TTATATCCGGGTTAAGACCCGAAGGCAATT-G-GCTAGC-GG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGA-CTGG
* * * *
233695534 CTACATCCGGGCTAAGACCCGAAGGCA-TCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGACTGG
*
233695573 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGACTGG
233695612 TTATATCCGG
1 TTATATCCGG
233695622 TTGTATTCGA
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
37 1 0.01
38 2 0.03
39 63 0.88
40 6 0.08
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.22
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGACTGG
Found at i:233703617 original size:71 final size:71
Alignment explanation
Indices: 233703533--233703696 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
233703523 CGATTTGTCT
233703533 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
233703598 CTTTCA
66 CTTTCA
233703604 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
233703669 CTTTCA
66 CTTTCA
233703675 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
233703697 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:233703734 original size:71 final size:70
Alignment explanation
Indices: 233703533--233703730 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
233703523 CGATTTGTCT
* * * *
233703533 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
233703598 CTTTCA
65 CTTTCA
* * * *
233703604 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
233703669 CTTTCA
65 CTTTCA
* *
233703675 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
233703731 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:233706703 original size:15 final size:15
Alignment explanation
Indices: 233706666--233706713 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
233706656 AGAAAACCGA
*
233706666 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
233706681 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
*
233706695 AGTAAAGAAACCTAAG
1 A-TAAAGAAACCCAAG
233706711 ATA
1 ATA
233706714 CGATACTATG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 3 0.11
15 21 0.78
16 3 0.11
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:233719325 original size:17 final size:18
Alignment explanation
Indices: 233719283--233719331 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
233719273 AGTTGAAAAG
233719283 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
233719302 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
233719319 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
233719332 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:233720219 original size:40 final size:40
Alignment explanation
Indices: 233720153--233720319 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
233720143 AAATTGAATG
* * *
233720153 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
233720192 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
233720232 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
233720272 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
233720312 ATATCCGG
1 ATATCCGG
233720320 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:233727326 original size:17 final size:18
Alignment explanation
Indices: 233727284--233727332 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
233727274 AGTTGAAAAG
233727284 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
233727303 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
233727320 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
233727333 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:233728220 original size:40 final size:40
Alignment explanation
Indices: 233728154--233728320 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
233728144 AAATTGAATG
* * *
233728154 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
233728193 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
233728233 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
233728273 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
233728313 ATATCCGG
1 ATATCCGG
233728321 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:233730729 original size:30 final size:29
Alignment explanation
Indices: 233730684--233730742 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
233730674 ATTTAATACG
*
233730684 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACA-CTTTGCCCCTA
* *
233730714 AACTTTTGCATAATTACACTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTGCCCCTA
233730743 GGCTCGGGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.37
Consensus pattern (29 bp):
AACTTTGGCAAAATTACACTTTGCCCCTA
Found at i:233740985 original size:39 final size:40
Alignment explanation
Indices: 233740886--233741065 Score: 276
Period size: 40 Copynumber: 4.5 Consensus size: 40
233740876 TATTCGGATG
233740886 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
233740926 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGGGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
233740966 AT-ATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
233741005 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
233741045 ATATCC-GGCTAATTCCCGAAG
1 ATAACCGGGCTAAGTCCCGAAG
233741066 TACTTGGTTT
Statistics
Matches: 130, Mismatches: 8, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 53 0.41
40 77 0.59
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:233741023 original size:79 final size:79
Alignment explanation
Indices: 233740891--233741065 Score: 289
Period size: 79 Copynumber: 2.2 Consensus size: 79
233740881 GGATGATAAC
* *
233740891 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAATCCCGAAGGCATTTGA
*
233740956 GCGGGTTA-CTATAT
66 GCGAG-TAGCTATAT
233740970 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAATCCCGAAGGCATTTGA
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAATCCCGAAGGCATTTGA
233741035 GCGAGTAGCTATAT
66 GCGAGTAGCTATAT
* *
233741049 CCGGCTAATTCCCGAAG
1 CGGGCTAAGTCCCGAAG
233741066 TACTTGGTTT
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
78 2 0.02
79 88 0.98
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAATCCCGAAGGCATTTGA
GCGAGTAGCTATAT
Found at i:233750475 original size:40 final size:40
Alignment explanation
Indices: 233750430--233750595 Score: 147
Period size: 40 Copynumber: 4.2 Consensus size: 40
233750420 CGGAATATAA
233750430 CGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGCC
1 CGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGCC
* *** * *
233750470 CGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 CGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGCC
* * * *
233750510 CGGATGTAGCCACTAGCA-AATTGCCTTCGGGTCTTAACC
1 CGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGCC
*** * * * * *
233750549 CGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGCC
1 CGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGCC
233750589 CGGATAT
1 CGGATAT
233750596 CATTCAATTT
Statistics
Matches: 100, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 31 0.31
40 69 0.69
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
CGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGCC
Found at i:233750551 original size:79 final size:78
Alignment explanation
Indices: 233750448--233750593 Score: 197
Period size: 79 Copynumber: 1.9 Consensus size: 78
233750438 ACCACGTGCA
* *
233750448 CAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGTCTTAGCCC
1 CAAATGCCTTCGGGTCTTAACCCGGATAGAATGTC-CAGCA-GAATTGCCTTCGGGGCTTAGCCC
233750511 GGATGTAGCCACTAG
64 GGATGTAGCCACTAG
* * * *
233750526 CAAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGCCCG
1 CAAA-TGCCTTCGGGTCTTAACCCGGATAGAATGTCCAGCAGAATTGCCTTCGGGGCTTAGCCCG
233750591 GAT
65 GAT
233750594 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 7 0.12
79 52 0.88
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (78 bp):
CAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCCAGCAGAATTGCCTTCGGGGCTTAGCCCGG
ATGTAGCCACTAG
Found at i:233760658 original size:29 final size:29
Alignment explanation
Indices: 233760625--233760785 Score: 259
Period size: 29 Copynumber: 5.6 Consensus size: 29
233760615 GTGACGAGAT
233760625 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
233760654 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
233760683 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
233760712 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
233760741 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
233760770 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
233760786 AGTTCGGAGG
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 123 1.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:233768136 original size:40 final size:40
Alignment explanation
Indices: 233768081--233768191 Score: 222
Period size: 40 Copynumber: 2.8 Consensus size: 40
233768071 AACATTGGAA
233768081 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
233768121 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
233768161 ATATATCCGGGCTAAGACCCGAAGGCATTCG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCG
233768192 GGCTAAGACC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:233768196 original size:22 final size:22
Alignment explanation
Indices: 233768168--233768213 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
233768158 TTGATATATC
233768168 CGGGCTAAGACCCGAAGGCATT
1 CGGGCTAAGACCCGAAGGCATT
233768190 CGGGCTAAGACCCGAAGGCATT
1 CGGGCTAAGACCCGAAGGCATT
233768212 CG
1 CG
233768214 TGCGAGTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.28, G:0.33, T:0.13
Consensus pattern (22 bp):
CGGGCTAAGACCCGAAGGCATT
Found at i:233768225 original size:62 final size:62
Alignment explanation
Indices: 233768128--233768248 Score: 242
Period size: 62 Copynumber: 2.0 Consensus size: 62
233768118 TTGATATATC
233768128 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
233768190 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGC
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGC
233768249 CTTTGTGCAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.26, C:0.25, G:0.31, T:0.18
Consensus pattern (62 bp):
CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
Found at i:233768245 original size:40 final size:40
Alignment explanation
Indices: 233768190--233768312 Score: 131
Period size: 40 Copynumber: 3.1 Consensus size: 40
233768180 CGAAGGCATT
233768190 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATC
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATC
* * * * * *
233768230 CGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TCACCAAATC
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGA-TATATC
* * * * *
233768270 CGGGTTATGACCCGAAGGCAATCGTGCGAGTCGCTATATC
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATC
233768310 CGG
1 CGG
233768313 TTAAATCCCG
Statistics
Matches: 64, Mismatches: 17, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
39 2 0.03
40 62 0.97
ACGTcount: A:0.24, C:0.26, G:0.29, T:0.20
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATC
Found at i:233768271 original size:102 final size:102
Alignment explanation
Indices: 233768088--233768289 Score: 316
Period size: 102 Copynumber: 2.0 Consensus size: 102
233768078 GAAATATATC
233768088 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGT
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGT
* * * *
233768153 GCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
66 GCAAGTTCACAAATCCGGGCTAAGACCCGAAGGCATT
* *
233768190 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCCTTTGT
1 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGT
* *
233768255 GCAAG-TCACCAAATCCGGGTTATGACCCGAAGGCA
66 GCAAGTTCA-CAAATCCGGGCTAAGACCCGAAGGCA
233768290 ATCGTGCGAG
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
101 2 0.02
102 89 0.98
ACGTcount: A:0.26, C:0.25, G:0.30, T:0.20
Consensus pattern (102 bp):
CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGT
GCAAGTTCACAAATCCGGGCTAAGACCCGAAGGCATT
Found at i:233776300 original size:40 final size:40
Alignment explanation
Indices: 233776245--233776494 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
233776235 AACATTGGAA
233776245 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
233776285 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
233776325 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
233776365 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
233776405 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
233776444 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
233776485 CTATATCCGG
1 ATATATCCGG
233776495 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:233781496 original size:27 final size:28
Alignment explanation
Indices: 233781439--233781508 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
233781429 AAATTTGTAC
**
233781439 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
233781467 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
233781494 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
233781509 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:233781517 original size:27 final size:27
Alignment explanation
Indices: 233781439--233781520 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
233781429 AAATTTGTAC
* *
233781439 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
233781467 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
233781494 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
233781521 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:233789413 original size:27 final size:28
Alignment explanation
Indices: 233789356--233789425 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
233789346 AAATTTGTAC
**
233789356 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
233789384 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
233789411 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
233789426 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:233789434 original size:27 final size:27
Alignment explanation
Indices: 233789356--233789437 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
233789346 AAATTTGTAC
* *
233789356 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
233789384 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
233789411 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
233789438 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:233797341 original size:27 final size:28
Alignment explanation
Indices: 233797284--233797353 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
233797274 AAATTTGTAC
**
233797284 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
233797312 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
233797339 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
233797354 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:233797362 original size:27 final size:27
Alignment explanation
Indices: 233797284--233797365 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
233797274 AAATTTGTAC
* *
233797284 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
233797312 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
233797339 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
233797366 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:233801660 original size:40 final size:40
Alignment explanation
Indices: 233801605--233801848 Score: 275
Period size: 40 Copynumber: 6.2 Consensus size: 40
233801595 TGAATGATAC
* *
233801605 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * *
233801645 CCGGGCTAAGACCCGAAGGCATTCGTGCGATTG-TTATA-
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
233801683 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
*
233801723 CCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * * ** *
233801762 -CGGGCTAAGACCCGAAGGTATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
233801801 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
233801841 CC-GGCTAA
1 CCGGGCTAA
233801849 ATTCCGAAGA
Statistics
Matches: 168, Mismatches: 30, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
38 48 0.29
39 39 0.23
40 81 0.48
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:233801734 original size:78 final size:78
Alignment explanation
Indices: 233801605--233801828 Score: 333
Period size: 78 Copynumber: 2.9 Consensus size: 78
233801595 TGAATGATAC
233801605 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATT-G
233801670 TGCGA-TTGTTATA
65 TGCGAGTTGTTATA
233801683 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTGT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTGT
233801748 GCGAGTTGTTATA
66 GCGAGTTGTTATA
* * * * * * ** * *
233801761 TCGGGCTAAGACCCGAAGGTATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTG
233801826 TGC
65 TGC
233801829 TTGTGGTTAT
Statistics
Matches: 134, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
77 6 0.04
78 121 0.90
79 7 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTGT
GCGAGTTGTTATA
Found at i:233801816 original size:118 final size:118
Alignment explanation
Indices: 233801605--233801848 Score: 289
Period size: 118 Copynumber: 2.1 Consensus size: 118
233801595 TGAATGATAC
* *
233801605 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
* *** * * *
233801670 TGCGATTGTTATACCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
66 TGCAATTACCAAACCGGGCTAAGACCCGAAGGCAATTATGCTAGTGATTATAT
* * *
233801723 CCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTTG-TTATAT-CGGGCTAAGACCCGAAGGTATTT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTC
* * * *
233801785 GTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
65 GTGCAA-TTACCAAA-CCGGGCTAAGACCCGAAGGCAATTATGCTAGTGATTATAT
233801841 CC-GGCTAA
1 CCGGGCTAA
233801849 ATTCCGAAGA
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
116 26 0.24
117 23 0.21
118 58 0.54
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (118 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCAATTACCAAACCGGGCTAAGACCCGAAGGCAATTATGCTAGTGATTATAT
Found at i:233809749 original size:40 final size:40
Alignment explanation
Indices: 233809694--233809939 Score: 277
Period size: 40 Copynumber: 6.2 Consensus size: 40
233809684 TGAATGATAC
* *
233809694 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
233809734 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATA-
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* *
233809773 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
233809813 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * * ** *
233809853 -CGGGCTAAGACCCGAAGGTATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
233809892 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
233809932 CC-GGCTAA
1 CCGGGCTAA
233809940 ATTCCGAAGA
Statistics
Matches: 170, Mismatches: 30, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
38 3 0.02
39 67 0.39
40 96 0.56
41 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:233809907 original size:119 final size:119
Alignment explanation
Indices: 233809694--233809939 Score: 300
Period size: 119 Copynumber: 2.1 Consensus size: 119
233809684 TGAATGATAC
* * *
233809694 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTCATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
* *** * * *
233809759 TGCGAGTTGTTATACCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
66 TGCAAGTTACCAAACCGGGCTAAGACCCGAAGGCAATTATGCTAGTGATTATAT
* * *
233809813 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT-CGGGCTAAGACCCGAAGGTATTT
1 CCGGGCTAAGACCCGAAGGCATTCATGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTC
* * * *
233809876 GTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
65 GTGCAAGTTACCAAA-CCGGGCTAAGACCCGAAGGCAATTATGCTAGTGATTATAT
233809932 CC-GGCTAA
1 CCGGGCTAA
233809940 ATTCCGAAGA
Statistics
Matches: 108, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
118 37 0.34
119 69 0.64
120 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
CCGGGCTAAGACCCGAAGGCATTCATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCAAGTTACCAAACCGGGCTAAGACCCGAAGGCAATTATGCTAGTGATTATAT
Found at i:233809929 original size:79 final size:79
Alignment explanation
Indices: 233809695--233809948 Score: 348
Period size: 79 Copynumber: 3.2 Consensus size: 79
233809685 GAATGATACC
233809695 CGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCGT
1 CGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCGT
*
233809760 GCGAGTTGTTATAC
66 GCGAGTTGTTATAT
233809774 CGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCGT
1 CGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCGT
233809839 GCGAGTTGTTATAT
66 GCGAGTTGTTATAT
* * * * * ** * *
233809853 CGGGCTAAGACCCGAAGGTATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT-G
1 CGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTCG
** *
233809917 TGCTTGTGGTTATAT
65 TGCGAGTTGTTATAT
* * *
233809932 CCGGCTAAATTCCGAAG
1 CGGGCTAAGTCCCGAAG
233809949 AACTCGGTTT
Statistics
Matches: 157, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
79 154 0.98
80 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCGT
GCGAGTTGTTATAT
Found at i:233814062 original size:28 final size:28
Alignment explanation
Indices: 233814001--233814098 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
233813991 TCACAAATTG
** * *
233814001 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
233814030 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
233814058 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
233814086 GCACTAAGTGTGC
1 GCACTAAGTGTGC
233814099 GGGCTTATGG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:233823996 original size:30 final size:30
Alignment explanation
Indices: 233823962--233824019 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
233823952 CATGACAATG
233823962 ACACACAGACGTGTAG-TCTACCCGTGTGTC
1 ACACACAGACGTGTAGAT-TACCCGTGTGTC
* * *
233823992 ACACACGGGCGTGTGGATTACCCGTGTG
1 ACACACAGACGTGTAGATTACCCGTGTG
233824020 GAAGTGCTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.21, C:0.28, G:0.29, T:0.22
Consensus pattern (30 bp):
ACACACAGACGTGTAGATTACCCGTGTGTC
Found at i:233830002 original size:40 final size:40
Alignment explanation
Indices: 233829936--233830102 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
233829926 AAATTGAATG
* * *
233829936 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
233829975 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
233830015 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
233830055 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
233830095 ATATCCGG
1 ATATCCGG
233830103 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:233837994 original size:40 final size:40
Alignment explanation
Indices: 233837928--233838094 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
233837918 AAATTGAATG
* * *
233837928 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
233837967 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
233838007 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
233838047 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
233838087 ATATCCGG
1 ATATCCGG
233838095 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:233841761 original size:68 final size:70
Alignment explanation
Indices: 233841689--233841886 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
233841679 ACACCCTGTA
* * * *
233841689 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
233841751 ATAAAT
65 ATAAAT
*
233841757 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
233841822 ATAAAT
65 ATAAAT
*
233841828 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
233841887 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:233841800 original size:41 final size:41
Alignment explanation
Indices: 233841755--233841872 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
233841745 TGAAAGATAA
233841755 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
233841796 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
233841826 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
233841867 ATGTAG
1 ATGTAG
233841873 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:233841812 original size:71 final size:71
Alignment explanation
Indices: 233841723--233841886 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
233841713 GAGATGTATC
233841723 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
233841788 AGGACA
66 AGGACA
233841794 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
233841859 AGGACA
66 AGGACA
233841865 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
233841887 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:233849325 original size:68 final size:70
Alignment explanation
Indices: 233849253--233849450 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
233849243 ACACCCTGTA
* * * *
233849253 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
233849315 ATAAAT
65 ATAAAT
*
233849321 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
233849386 ATAAAT
65 ATAAAT
*
233849392 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
233849451 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:233849364 original size:41 final size:41
Alignment explanation
Indices: 233849319--233849436 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
233849309 TGAAAGATAA
233849319 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
233849360 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
233849390 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
233849431 ATGTAG
1 ATGTAG
233849437 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:233849376 original size:71 final size:71
Alignment explanation
Indices: 233849287--233849450 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
233849277 GAGATGTATC
233849287 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
233849352 AGGACA
66 AGGACA
233849358 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
233849423 AGGACA
66 AGGACA
233849429 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
233849451 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:233851130 original size:65 final size:66
Alignment explanation
Indices: 233851026--233851161 Score: 247
Period size: 65 Copynumber: 2.1 Consensus size: 66
233851016 TACCTCGTAG
233851026 AGAATGAAATATTATTCCAATTAATTACACTAGAAACTTCATAACAGAATGGCATGGCAAAAAG-
1 AGAATGAAATATTATTCCAATTAATTACACTAGAAACTTCATAACAGAATGGCATGGCAAAAAGA
233851090 A
66 A
**
233851091 AGAATGAAATATTATTCCAATTAATTATGCTAGAAACTTCATAACAGAATGGCATGGCAAAAAGA
1 AGAATGAAATATTATTCCAATTAATTACACTAGAAACTTCATAACAGAATGGCATGGCAAAAAGA
233851156 A
66 A
233851157 AGAAT
1 AGAAT
233851162 CGAACTTTTT
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
65 62 0.91
66 6 0.09
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (66 bp):
AGAATGAAATATTATTCCAATTAATTACACTAGAAACTTCATAACAGAATGGCATGGCAAAAAGA
A
Found at i:233867894 original size:46 final size:46
Alignment explanation
Indices: 233867844--233868019 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
233867834 TGGTTGAGCA
233867844 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
233867890 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
233867935 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
233867983 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
233868020 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 64 0.59
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:233868000 original size:93 final size:93
Alignment explanation
Indices: 233867841--233868012 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
233867831 GGATGGTTGA
* *
233867841 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
233867906 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
233867934 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
233867999 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
233868013 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:233868389 original size:47 final size:47
Alignment explanation
Indices: 233868294--233868390 Score: 126
Period size: 51 Copynumber: 2.0 Consensus size: 47
233868284 ATGTATGCTA
233868294 ATGTTGACTGGTATAACTGTTTGTTATGTTATTATTATTTGCATTGAACTT
1 ATGTTGACTGGTATAAC---TTGTTATGTTATTATTA-TTGCATTGAACTT
233868345 ATGTTGACTGGTATAAC-TGTTATGTTACTTATTA-TGCATATGAACT
1 ATGTTGACTGGTATAACTTGTTATGTTA-TTATTATTGCAT-TGAACT
233868391 ACTAAGCATT
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
46 5 0.11
47 16 0.36
48 6 0.14
51 17 0.39
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.47
Consensus pattern (47 bp):
ATGTTGACTGGTATAACTTGTTATGTTATTATTATTGCATTGAACTT
Found at i:233875499 original size:46 final size:46
Alignment explanation
Indices: 233875449--233875577 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
233875439 TGGTTGAGCA
*
233875449 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
233875495 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
233875541 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
233875578 GCGGGTTACA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:233883554 original size:47 final size:47
Alignment explanation
Indices: 233883484--233883870 Score: 652
Period size: 47 Copynumber: 8.3 Consensus size: 47
233883474 CCCTTCGGGA
* * * *
233883484 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
233883531 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* *
233883578 CGTATCACATATATACACATTCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
*
233883625 CTTATCACATATATACACATTCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
*
233883672 CTTATCACATATATACACATTCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
233883719 CTTATCACATATATACACATTCACATTCATCACATTGGCCATT-GGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* *
233883765 CTTATCACATATATACATA-TCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
233883811 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* *
233883858 TTTACCACATATA
1 CTTATCACATATA
233883871 CATATCTTAT
Statistics
Matches: 324, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
45 22 0.07
46 42 0.13
47 260 0.80
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
Found at i:233887561 original size:40 final size:40
Alignment explanation
Indices: 233887504--233887771 Score: 403
Period size: 40 Copynumber: 6.7 Consensus size: 40
233887494 CCAGCATGAT
** * *
233887504 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
233887544 TACTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
233887584 TGCCCTTCGGGGCTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
233887624 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
233887664 TGCCCTTCGGGGCTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
233887704 TGCTCTTCGGGGCTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
233887744 TGCTCTTCGGGACTTAACCCGGAT-CATC
1 TGCTCTTCGGGACTTAGCCCGGATACATC
233887772 GTCGAGACCT
Statistics
Matches: 207, Mismatches: 21, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
39 4 0.02
40 203 0.98
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:233887894 original size:38 final size:38
Alignment explanation
Indices: 233887825--233887899 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
233887815 GAATTTTAAT
*
233887825 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
233887863 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
233887900 AAATCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:233890391 original size:47 final size:47
Alignment explanation
Indices: 233890321--233890662 Score: 585
Period size: 47 Copynumber: 7.3 Consensus size: 47
233890311 CCCTTCGGGA
* * * *
233890321 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
233890368 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* *
233890415 CGTATCACATATATACACATTCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
*
233890462 CTTATCACATATATACACATTCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
233890509 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* *
233890556 CTTATCACATATATACATATTCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
233890603 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* *
233890650 TTTACCACATATA
1 CTTATCACATATA
233890663 CATATCTTAT
Statistics
Matches: 281, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 281 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
Found at i:233894353 original size:40 final size:39
Alignment explanation
Indices: 233894309--233894560 Score: 373
Period size: 40 Copynumber: 6.4 Consensus size: 39
233894299 TCTTCGGGGT
* * *
233894309 TTAGCACGGATATATCACTAGCACGAATACTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGG-AC
* *
233894349 TTAGCCCGGATACATCACTAGCACGAATGCCCTTCGGGGC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTC-GGAC
*
233894389 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGG-AC
* *
233894429 TTAGCCCGGATACATCACTAGCACGAATGCCCTTCGGGGC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTC-GGAC
233894469 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGG-C
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAC
233894507 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAC
*
233894546 TTAACCCGGAT-CATC
1 TTAGCCCGGATACATC
233894561 GTCGAGACCT
Statistics
Matches: 195, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
38 42 0.22
39 15 0.08
40 134 0.69
41 4 0.02
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (39 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAC
Found at i:233894393 original size:80 final size:80
Alignment explanation
Indices: 233894300--233894556 Score: 430
Period size: 80 Copynumber: 3.2 Consensus size: 80
233894290 CATGATTGCT
* * *
233894300 CTTCGGGGTTTAGCACGGATATATCACTAGCACGAATACTCTTCGGAACTTAGCCCGGATACATC
1 CTTCGGGGCTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATC
233894365 ACTAGCACGAATGCC
66 ACTAGCACGAATGCC
233894380 CTTCGGGGCTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATC
1 CTTCGGGGCTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATC
233894445 ACTAGCACGAATGCC
66 ACTAGCACGAATGCC
*
233894460 CTTCGGGGCTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGG--CTTAGCCCGGATACATC
1 CTTCGGGGCTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATC
*
233894523 ACTAGCACGAATGCT
66 ACTAGCACGAATGCC
* *
233894538 CTTC-GGACTTAACCCGGAT
1 CTTCGGGGCTTAGCCCGGAT
233894557 CATCGTCGAG
Statistics
Matches: 170, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
77 13 0.08
78 35 0.21
80 122 0.72
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (80 bp):
CTTCGGGGCTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATC
ACTAGCACGAATGCC
Found at i:233894683 original size:38 final size:38
Alignment explanation
Indices: 233894614--233894688 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
233894604 GAATTTTAAT
*
233894614 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
233894652 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
233894689 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:233897178 original size:47 final size:47
Alignment explanation
Indices: 233897108--233897449 Score: 594
Period size: 47 Copynumber: 7.3 Consensus size: 47
233897098 CCCTTCGGGA
* * * *
233897108 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
233897155 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* *
233897202 CGTATCACATATATACACATTCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
*
233897249 CTTATCACATATATACACATTCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
233897296 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
*
233897343 CTTATCACATATATACACATTCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
233897390 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* *
233897437 TTTACCACATATA
1 CTTATCACATATA
233897450 CATATCTTAT
Statistics
Matches: 283, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 283 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
Found at i:233903130 original size:46 final size:45
Alignment explanation
Indices: 233902971--233903144 Score: 206
Period size: 46 Copynumber: 3.8 Consensus size: 45
233902961 GTTTGGGCAT
* *
233902971 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
*** * * * *
233903016 CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCAACGC
*
233903061 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGC
*
233903109 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
233903145 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
45 31 0.29
46 46 0.43
47 28 0.26
48 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
Found at i:233908504 original size:46 final size:45
Alignment explanation
Indices: 233908451--233908626 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
233908441 TATTTGGGCA
233908451 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
233908497 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
233908544 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
233908590 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
233908627 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:233908606 original size:93 final size:93
Alignment explanation
Indices: 233908447--233908618 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
233908437 AGGATATTTG
* *
233908447 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
233908512 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
233908540 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
233908605 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
233908619 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:233913993 original size:46 final size:45
Alignment explanation
Indices: 233913943--233914118 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
233913933 ATGTTGGGCA
233913943 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
233913989 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
233914036 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
233914082 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
233914119 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:233914098 original size:93 final size:93
Alignment explanation
Indices: 233913939--233914110 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
233913929 TAGGATGTTG
* *
233913939 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
233914004 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
233914032 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
233914097 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
233914111 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:233919484 original size:46 final size:45
Alignment explanation
Indices: 233919431--233919606 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
233919421 TATTTGGGCA
233919431 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
233919477 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
233919524 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
233919570 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
233919607 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:233919586 original size:93 final size:93
Alignment explanation
Indices: 233919427--233919598 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
233919417 AGGATATTTG
* *
233919427 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
233919492 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
233919520 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
233919585 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
233919599 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:233923530 original size:91 final size:92
Alignment explanation
Indices: 233923421--233923590 Score: 297
Period size: 91 Copynumber: 1.9 Consensus size: 92
233923411 CGCCCATAAG
* *
233923421 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
233923486 ACGAGCT-GGATGCCTAGTTACATTCA
66 ACGAGCTCGGATGCCTAGTTACATTCA
*
233923512 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
233923577 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
233923591 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
91 68 0.92
92 6 0.08
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTCA
Found at i:233923587 original size:46 final size:46
Alignment explanation
Indices: 233923414--233923587 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
233923404 TGTAACCCGC
* *
233923414 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
233923460 CCATAAGTGAACTCGGACTCAACTCAACGAGCT-GG--ATGC-CTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* * *
233923505 ACATTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA-TAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
233923551 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
233923588 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
45 31 0.29
46 68 0.63
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:233923606 original size:46 final size:46
Alignment explanation
Indices: 233923422--233923606 Score: 127
Period size: 46 Copynumber: 4.0 Consensus size: 46
233923412 GCCCATAAGC
** * *
233923422 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T-AGT
* *
233923468 GAACTCGGACTCAACTCAACGAGCT-GGATGC-CTAGTTA-CATTC-A-C
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATCCTAGT
* * * * *
233923513 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCCTAGT
*
233923559 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
233923605 GA
1 GA
233923607 CATGTCACTT
Statistics
Matches: 111, Mismatches: 13, Indels: 30
0.72 0.08 0.19
Matches are distributed among these distances:
44 10 0.09
45 28 0.25
46 64 0.58
48 4 0.04
49 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
Found at i:233926281 original size:28 final size:28
Alignment explanation
Indices: 233926216--233926316 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
233926206 ATAGTGAATC
*
233926216 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
233926245 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
233926273 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
233926303 CGCACACTTAGTGC
1 CGCACACTTAGTGC
233926317 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:233933415 original size:28 final size:28
Alignment explanation
Indices: 233933350--233933450 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
233933340 ATAGTGAATC
*
233933350 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
233933379 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
233933407 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
233933437 CGCACACTTAGTGC
1 CGCACACTTAGTGC
233933451 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:233940527 original size:28 final size:28
Alignment explanation
Indices: 233940462--233940562 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
233940452 ATAGTGAATC
*
233940462 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
233940491 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
233940519 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
233940549 CGCACACTTAGTGC
1 CGCACACTTAGTGC
233940563 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:233945986 original size:40 final size:40
Alignment explanation
Indices: 233945941--233946147 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
233945931 CGGAATACAA
*
233945941 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
233945981 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
233946021 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
233946061 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTCAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** * ** * *
233946101 CCGGATATAATTACTAGCATAAATG-TTTCGGGACTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
233946140 CCGGATAT
1 CCGGATAT
233946148 CATTCAATTG
Statistics
Matches: 140, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 20 0.14
40 118 0.84
41 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:233951404 original size:27 final size:27
Alignment explanation
Indices: 233951374--233951504 Score: 199
Period size: 27 Copynumber: 4.9 Consensus size: 27
233951364 ATTACCAAAG
* *
233951374 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTTGATTTACAGAATTACTGTTT
*
233951401 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTTGATTTACAGAATTACTGTTT
* *
233951428 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTTGATTTACAGAATTACTGTTT
*
233951455 TATCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAGAATTACTGTTT
*
233951482 TACCCTTGATTTACAAAATTACT
1 TACCCTTGATTTACAGAATTACT
233951505 AAAATACCCT
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (27 bp):
TACCCTTGATTTACAGAATTACTGTTT
Found at i:233951512 original size:27 final size:27
Alignment explanation
Indices: 233951482--233951787 Score: 190
Period size: 27 Copynumber: 11.3 Consensus size: 27
233951472 ATTACTGTTT
*
233951482 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* *
233951509 TACCCTCGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* * *
233951536 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTTGATTTA-CAAAATTACCAAAA
* * ** * *
233951563 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* ** *
233951589 TACCCTTGGTTTGTAAAATTACCGAAA
1 TACCCTTGATTTACAAAATTACCAAAA
** **
233951616 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* **
233951643 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTACAAAATTACCAAAA
** **
233951670 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* *
233951697 TACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTTGATTTACAAAATTACCA-AAA
***
233951724 TACCCTTGACTTT-CTAAAAATTATGGAAA
1 TACCCTTGA-TTTAC--AAAATTACCAAAA
* * * *
233951753 TAGCATTGGTTTAACAAAATTACTAAAA
1 TACCCTTGATTT-ACAAAATTACCAAAA
233951781 TACCCTT
1 TACCCTT
233951788 AGTTTGTAGA
Statistics
Matches: 224, Mismatches: 43, Indels: 23
0.77 0.15 0.08
Matches are distributed among these distances:
26 24 0.11
27 162 0.72
28 22 0.10
29 15 0.07
30 1 0.00
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCAAAA
Found at i:233951513 original size:81 final size:81
Alignment explanation
Indices: 233951381--233951530 Score: 210
Period size: 81 Copynumber: 1.9 Consensus size: 81
233951371 AAGTACCCTC
* * **** * *
233951381 GATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAA
1 GATTTACAGAATTACTGTTTTACCCTTGATTTACAAAATTACCAAAATACCCTCGATTTACAAAA
233951446 TTACTGTTTTATCCTT
66 TTACTGTTTTATCCTT
* *
233951462 GATTTACAGAATTACTGTTTTACCCTTGATTTACAAAATTACTAAAATACCCTCGGTTTACAAAA
1 GATTTACAGAATTACTGTTTTACCCTTGATTTACAAAATTACCAAAATACCCTCGATTTACAAAA
233951527 TTAC
66 TTAC
233951531 CAAAATACCC
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 59 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (81 bp):
GATTTACAGAATTACTGTTTTACCCTTGATTTACAAAATTACCAAAATACCCTCGATTTACAAAA
TTACTGTTTTATCCTT
Found at i:233951522 original size:54 final size:54
Alignment explanation
Indices: 233951374--233951531 Score: 154
Period size: 54 Copynumber: 2.9 Consensus size: 54
233951364 ATTACCAAAG
* * ****
233951374 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTACAGAATTACCGTTT
* * **** * *
233951428 TACCCTCGATTTATAGAATTACTGTTTTATCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTACAGAATTACCGTTT
* * * *
233951482 TACCCTTGATTTACAAAATTACTAAAATACCCTCGGTTTACAAAATTACC
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTACAGAATTACC
233951532 AAAATACCCT
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTACAGAATTACCGTTT
Found at i:233951540 original size:54 final size:54
Alignment explanation
Indices: 233951482--233951729 Score: 261
Period size: 54 Copynumber: 4.6 Consensus size: 54
233951472 ATTACTGTTT
* * ** **
233951482 TACCCTTGATTTACAAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
* * * * * *
233951536 TACCCTCGA-TCAGTAAAATTACCAAAATACCCT-AGTCTGTAAAATTGCTAAAA
1 TACCCTTGATTTA-TAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
* * *
233951589 TACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
* *
233951643 TACCCCT-AGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTATAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
* * *
233951697 TACCCCTGATTTACAAAGTTA-CAGAAATACCCT
1 TACCCTTGATTTATAAAATTACCA-AAATACCCT
233951730 TGACTTTCTA
Statistics
Matches: 163, Mismatches: 25, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
53 44 0.27
54 118 0.72
55 1 0.01
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.29
Consensus pattern (54 bp):
TACCCTTGATTTATAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
Found at i:233951600 original size:80 final size:81
Alignment explanation
Indices: 233951496--233951701 Score: 297
Period size: 80 Copynumber: 2.6 Consensus size: 81
233951486 CTTGATTTAC
** *
233951496 AAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCTCGGTTTGTAAAATTACCAAAATACCCTCAATCAGTAAAATTACCAA
233951561 AATA-CCCTAGTCTGT
66 AATACCCCTAGTCTGT
* * * **
233951576 AAAATTGCTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCTCGGTTTGTAAAATTACCAAAATACCCTCAATCAGTAAAATTACCAA
*
233951641 AATACCCCTAGTTTGT
66 AATACCCCTAGTCTGT
* **
233951657 AAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCC
1 AAAATTACTAAAATACCCTCGGTTTGTAAAATTACCAAAATACCC
233951702 CTGATTTACA
Statistics
Matches: 110, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 61 0.55
81 49 0.45
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.28
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTCGGTTTGTAAAATTACCAAAATACCCTCAATCAGTAAAATTACCAA
AATACCCCTAGTCTGT
Found at i:233951937 original size:27 final size:27
Alignment explanation
Indices: 233951846--233951937 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
233951836 ACCCCTATTA
* *
233951846 GGTAAAAAGATCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
233951873 GGTAAAGA-GACCGTAAAGCCCCTGTAG
1 GGTAAA-ATGACCGTAAAGCCCCTGTAG
* *
233951900 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
233951927 GGTAAAATGAC
1 GGTAAAATGAC
233951938 GAATGTGCCC
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
27 56 0.97
28 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:233952692 original size:16 final size:16
Alignment explanation
Indices: 233952671--233952701 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
233952661 CAAATATGGG
*
233952671 CATGACATTTTGCATA
1 CATGACATGTTGCATA
233952687 CATGACATGTTGCAT
1 CATGACATGTTGCAT
233952702 TGGGTTGGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:233952826 original size:25 final size:26
Alignment explanation
Indices: 233952735--233952857 Score: 178
Period size: 26 Copynumber: 4.8 Consensus size: 26
233952725 GAGGAAGTGC
*
233952735 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
233952761 AAAATGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* * *
233952787 AAAATGGCTTATGCCCAAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
233952813 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
233952838 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
233952858 GTTAAAAGAG
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 32 0.36
26 57 0.64
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:233953111 original size:31 final size:31
Alignment explanation
Indices: 233953076--233953146 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 31
233953066 CATTTACAGT
233953076 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
*
233953107 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
233953138 AAAGGCTTC
1 AAAGGCTTC
233953147 AGCCGAGTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTTATGA
Found at i:233954816 original size:48 final size:47
Alignment explanation
Indices: 233954758--233954883 Score: 110
Period size: 48 Copynumber: 2.6 Consensus size: 47
233954748 AGTGATTTCT
* * *
233954758 TATAAGACCATGTCTAGGACATGGCATCGGCATCAGTATGAGATCCTA
1 TATAACACCATGT-TAGGACATGGCATCGGCATCAATATGAGATCCCA
* * * * * * *
233954806 TGTAACACCAT-ATATGGTATATGGCATTGGCATCAATGTGAGGTCCCG
1 TATAACACCATGTTA-GG-ACATGGCATCGGCATCAATATGAGATCCCA
*
233954854 TATAAGACCATGTTAGGGACATGGCATCGG
1 TATAACACCATGTTA-GGACATGGCATCGG
233954884 AATCGACATG
Statistics
Matches: 59, Mismatches: 16, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
46 2 0.03
47 2 0.03
48 51 0.86
49 4 0.07
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (47 bp):
TATAACACCATGTTAGGACATGGCATCGGCATCAATATGAGATCCCA
Found at i:233954828 original size:96 final size:96
Alignment explanation
Indices: 233954664--233954838 Score: 221
Period size: 96 Copynumber: 1.8 Consensus size: 96
233954654 AGATCCCGGG
* * * * *
233954664 TAAGACCTTGTCTGGGACATGGCATCGACATCGAGATGTGATCCTGTATAAGACCATAGCAGGGA
1 TAAGACCATGTCTAGGACATGGCATCGACATCGAGATGAGATCCTATATAACACCATAGCAGGGA
233954729 TATGGC-TTCGGCATTGTTAAGTGATTTCTTA
66 TATGGCATT-GGCATTGTTAAGTGATTTCTTA
* * *
233954760 TAAGACCATGTCTAGGACATGGCATCGGCATC-AGTATGAGATCCTATGTAACACCATA-TATGG
1 TAAGACCATGTCTAGGACATGGCATCGACATCGAG-ATGAGATCCTATATAACACCATAGCA-GG
*
233954823 TATATGGCATTGGCAT
64 GATATGGCATTGGCAT
233954839 CAATGTGAGG
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
95 3 0.04
96 62 0.93
97 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (96 bp):
TAAGACCATGTCTAGGACATGGCATCGACATCGAGATGAGATCCTATATAACACCATAGCAGGGA
TATGGCATTGGCATTGTTAAGTGATTTCTTA
Found at i:233956109 original size:24 final size:24
Alignment explanation
Indices: 233956057--233956174 Score: 161
Period size: 23 Copynumber: 5.0 Consensus size: 24
233956047 GCTTTATCAT
*
233956057 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
233956082 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
*
233956106 ATAACTGGGGCATAAGCCC-TTTG
1 ATAACTGGGGCATAAGCCCTTTTA
233956129 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
233956152 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
233956175 TCACTTCCTC
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 44 0.52
24 29 0.34
25 12 0.14
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:233956249 original size:20 final size:20
Alignment explanation
Indices: 233956221--233956304 Score: 141
Period size: 20 Copynumber: 4.2 Consensus size: 20
233956211 GCATTTATGA
*
233956221 ACATCTCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
*
233956241 ACATGTCATGTACATATCAT
1 ACATGTCATGTGCATATCAT
*
233956261 ACATATCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
233956281 ACATGTCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
233956301 ACAT
1 ACAT
233956305 ACCATGTTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATGTCATGTGCATATCAT
Found at i:233956254 original size:11 final size:11
Alignment explanation
Indices: 233956221--233956300 Score: 64
Period size: 11 Copynumber: 7.8 Consensus size: 11
233956211 GCATTTATGA
*
233956221 ACATCTCATGT
1 ACATATCATGT
*
233956232 GCATATCA--T
1 ACATATCATGT
*
233956241 ACATGTCATGT
1 ACATATCATGT
233956252 ACATATCA--T
1 ACATATCATGT
233956261 ACATATCATGT
1 ACATATCATGT
*
233956272 GCATATCA--T
1 ACATATCATGT
*
233956281 ACATGTCATGT
1 ACATATCATGT
*
233956292 GCATATCAT
1 ACATATCAT
233956301 ACATACCATG
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
9 23 0.43
11 30 0.57
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (11 bp):
ACATATCATGT
Found at i:233956263 original size:9 final size:9
Alignment explanation
Indices: 233956233--233956305 Score: 56
Period size: 9 Copynumber: 7.4 Consensus size: 9
233956223 ATCTCATGTG
233956233 CATATCATA
1 CATATCATA
*
233956242 CATGTCATGTA
1 CATATCA--TA
233956253 CATATCATA
1 CATATCATA
*
233956262 CATATCATGTG
1 CATATCA--TA
233956273 CATATCATA
1 CATATCATA
* *
233956282 CATGTCATGTG
1 CATATCA--TA
233956293 CATATCATA
1 CATATCATA
233956302 CATA
1 CATA
233956306 CCATGTTTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
9 27 0.54
11 23 0.46
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.34
Consensus pattern (9 bp):
CATATCATA
Found at i:233956376 original size:25 final size:25
Alignment explanation
Indices: 233956348--233956395 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
233956338 ATGTATAAAC
* *
233956348 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
233956373 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
233956396 ATATTATAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:233956828 original size:8 final size:8
Alignment explanation
Indices: 233956815--233956842 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
233956805 AAATGCCAGA
233956815 ATTTCGGC
1 ATTTCGGC
233956823 ATTTCGGC
1 ATTTCGGC
233956831 ATTTCGGC
1 ATTTCGGC
233956839 ATTT
1 ATTT
233956843 ATCGCTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (8 bp):
ATTTCGGC
Found at i:233957650 original size:27 final size:27
Alignment explanation
Indices: 233957630--233957906 Score: 342
Period size: 27 Copynumber: 10.3 Consensus size: 27
233957620 AGGGTATTTT
*
233957630 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
233957657 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
233957684 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
233957711 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
233957738 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
233957765 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
233957792 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
233957819 AGGAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
233957846 GGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
233957873 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
233957900 GGTAATT
1 AGTAATT
233957907 TTAGTAAACT
Statistics
Matches: 223, Mismatches: 23, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
26 2 0.01
27 219 0.98
28 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:233960735 original size:30 final size:31
Alignment explanation
Indices: 233960695--233960757 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
233960685 CCTTTTCATA
233960695 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
233960726 TTTCA-ATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
233960756 TT
1 TT
233960758 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:233961003 original size:23 final size:23
Alignment explanation
Indices: 233960947--233961088 Score: 214
Period size: 23 Copynumber: 6.0 Consensus size: 23
233960937 TGCTTTATCA
*
233960947 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-CTTT
*
233960971 TAATAACTGGGGCAAAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
233960995 TATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
233961018 TATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
233961041 TGATAACTGGGGCATAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
*
233961065 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
233961088 T
1 T
233961089 TCACTTCCTC
Statistics
Matches: 110, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
23 67 0.61
24 31 0.28
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:233961047 original size:70 final size:71
Alignment explanation
Indices: 233960947--233961088 Score: 225
Period size: 70 Copynumber: 2.0 Consensus size: 71
233960937 TGCTTTATCA
* *
233960947 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTATAACTGGGGCATAAG
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCATAAG
233961012 CCCTTT
66 CCCTTT
* *
233961018 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCATAA
233961081 GCCCTTT
65 GCCCTTT
233961088 T
1 T
233961089 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
70 53 0.80
71 13 0.20
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (71 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCATAAG
CCCTTT
Found at i:233961049 original size:47 final size:46
Alignment explanation
Indices: 233960947--233961088 Score: 214
Period size: 47 Copynumber: 3.0 Consensus size: 46
233960937 TGCTTTATCA
* *
233960947 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTT
1 TATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
233960995 TATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTT
*
233961041 TGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTT
233961088 T
1 T
233961089 TCACTTCCTC
Statistics
Matches: 89, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
46 22 0.25
47 54 0.61
48 13 0.15
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (46 bp):
TATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTT
Found at i:233961182 original size:39 final size:38
Alignment explanation
Indices: 233961134--233961221 Score: 133
Period size: 39 Copynumber: 2.3 Consensus size: 38
233961124 GCATTTATGA
*
233961134 ACATCTCATGTGCATATCATACAT-TCATGTGCATATCAT
1 ACATATCATGTGCATATCATACATGTCATGTGCATA--AT
233961173 ACATATCATGTGCATATCATACATGTCATGTGCATAAT
1 ACATATCATGTGCATATCATACATGTCATGTGCATAAT
*
233961211 ACATACCATGT
1 ACATATCATGT
233961222 TTATCAAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
38 12 0.26
39 23 0.50
40 11 0.24
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.34
Consensus pattern (38 bp):
ACATATCATGTGCATATCATACATGTCATGTGCATAAT
Found at i:233961183 original size:20 final size:20
Alignment explanation
Indices: 233961134--233961221 Score: 128
Period size: 20 Copynumber: 4.5 Consensus size: 20
233961124 GCATTTATGA
*
233961134 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
233961154 ACAT-TCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
233961173 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
233961193 ACATGTCATGTGCATA--AT
1 ACATATCATGTGCATATCAT
*
233961211 ACATACCATGT
1 ACATATCATGT
233961222 TTATCAAAAT
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
18 11 0.17
19 19 0.30
20 34 0.53
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.34
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:233964047 original size:40 final size:40
Alignment explanation
Indices: 233963962--233964112 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
233963952 AATTGAATGA
* * *
233963962 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGATA-TAC
* * *
233964002 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAT--ATAC
*
233964043 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGATATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGATATAC
*
233964082 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
233964113 ACGTGATTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
39 5 0.05
40 82 0.90
41 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGATATAC
Found at i:233964126 original size:40 final size:40
Alignment explanation
Indices: 233963998--233964128 Score: 158
Period size: 40 Copynumber: 3.3 Consensus size: 40
233963988 TATGCTGGAA
* * *
233963998 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * *
233964038 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TG
*
233964078 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
233964118 ATTATATCCGG
1 ATTATATCCGG
233964129 TTATATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.03
40 72 0.96
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:233966468 original size:28 final size:28
Alignment explanation
Indices: 233966399--233966499 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
233966389 GACAAGATTG
* * * *
233966399 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
233966429 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
233966457 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
233966486 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
233966500 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:233974416 original size:28 final size:28
Alignment explanation
Indices: 233974347--233974447 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
233974337 GACAAGATTG
* * * *
233974347 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
233974377 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
233974405 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
233974434 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
233974448 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:233979625 original size:28 final size:28
Alignment explanation
Indices: 233979576--233979644 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
233979566 TTTAAAACCC
* *
233979576 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGATAATTTTGCTCTT
233979603 TAGGGGTAATTTCGATAATTTTGCTCTT
1 TAGGGGTAATTTCGATAATTTTGCTCTT
233979631 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
233979645 TGATCTACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.20, C:0.10, G:0.26, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGATAATTTTGCTCTT
Found at i:233981276 original size:20 final size:20
Alignment explanation
Indices: 233981253--233981291 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
233981243 CCACATCCAA
*
233981253 TTACAAAATTTTAAAAATCT
1 TTACAAAATATTAAAAATCT
*
233981273 TTACAAAATATTGAAAATC
1 TTACAAAATATTAAAAATC
233981292 GCGAATAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (20 bp):
TTACAAAATATTAAAAATCT
Found at i:233983761 original size:39 final size:40
Alignment explanation
Indices: 233983650--233983778 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
233983640 ATGCTGGAAA
* *
233983650 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-CGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTC-G
* *
233983690 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
* * *
233983730 TTCTATCCGGGCTAAGA-CCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
233983769 TTATATCCGG
1 TTATATCCGG
233983779 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 32 0.42
40 44 0.57
41 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
Found at i:233991531 original size:40 final size:39
Alignment explanation
Indices: 233991404--233991533 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
233991394 ATGCTGGAAA
* *
233991404 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
233991444 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
233991484 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
233991524 TTATATCCGG
1 TTATATCCGG
233991534 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:233993603 original size:28 final size:28
Alignment explanation
Indices: 233993538--233993638 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
233993528 ATAGTGAATC
*
233993538 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
233993567 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
233993595 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
233993625 CGCACACTTAGTGC
1 CGCACACTTAGTGC
233993639 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:234001549 original size:28 final size:28
Alignment explanation
Indices: 234001484--234001584 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
234001474 ATAGTGAATC
*
234001484 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
234001513 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
234001541 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
234001571 CGCACACTTAGTGC
1 CGCACACTTAGTGC
234001585 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:234009621 original size:46 final size:46
Alignment explanation
Indices: 234009545--234009711 Score: 155
Period size: 46 Copynumber: 3.6 Consensus size: 46
234009535 AACCCGCCCC
* *
234009545 TAAGTGAACTCGGACTCAATTGAACGAGCTCAGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCA
* * *
234009591 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGCTC--A-GGC--GTTCGCATCCA
* * ** *
234009639 TCA-CGAACTCGGACTCAACTCAACGAG-TTTGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCA
234009684 TAAGTGAACTCGGACTCAACTCAACGAG
1 TAAGTGAACTCGGACTCAACTCAACGAG
234009712 TTCGGATGCT
Statistics
Matches: 96, Mismatches: 15, Indels: 20
0.73 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 52 0.54
47 22 0.23
48 3 0.03
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCA
Found at i:234009681 original size:93 final size:93
Alignment explanation
Indices: 234009550--234009720 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
234009540 GCCCCTAAGT
* * *
234009550 GAACTCGGACTCAATTGAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
234009615 CAAGCTCGGATGCCTAGTTACATCTCAC
66 CAAGCTCGGATGCCTAGTTACATCTCAC
**
234009643 GAACTCGGACTCAACTCAACGAG-TTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
234009707 ACGAGTTCGGATGC
65 ACAAGCTCGGATGC
234009721 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 3 0.04
93 67 0.96
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCAC
Found at i:234009736 original size:46 final size:44
Alignment explanation
Indices: 234009593--234009736 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 44
234009583 CGCATCCATA
* *
234009593 AGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * * *
234009640 CA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
234009686 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
234009732 AGTGA
1 AGTGA
234009737 CATGTCACTT
Statistics
Matches: 76, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 32 0.42
47 28 0.37
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:234012516 original size:40 final size:39
Alignment explanation
Indices: 234012472--234012597 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
234012462 GGGACTCAAC
*
234012472 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
234012512 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
234012552 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
234012592 CCGGAT
1 CCGGAT
234012598 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:234012556 original size:80 final size:80
Alignment explanation
Indices: 234012411--234012597 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
234012401 GCTACACATT
* * *
234012411 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
234012475 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
234012491 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
234012554 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
234012572 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
234012598 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:234020604 original size:40 final size:39
Alignment explanation
Indices: 234020560--234020685 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
234020550 GGGACTCAAC
*
234020560 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
234020600 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
234020640 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
234020680 CCGGAT
1 CCGGAT
234020686 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:234020644 original size:80 final size:80
Alignment explanation
Indices: 234020499--234020685 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
234020489 GCTACACATT
* * *
234020499 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
234020563 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
234020579 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
234020642 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
234020660 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
234020686 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:234023469 original size:40 final size:40
Alignment explanation
Indices: 234023404--234023506 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 40
234023394 AAATTGAATG
* * *
234023404 ATATCCGGGCTAAG--CCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
* * ***
234023442 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
*
234023482 ACATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
234023507 TTCGTGCGAG
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
38 13 0.25
40 40 0.75
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.20
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
Found at i:234023565 original size:38 final size:39
Alignment explanation
Indices: 234023439--234023567 Score: 120
Period size: 40 Copynumber: 3.3 Consensus size: 39
234023429 TATGCTGGAA
* * * *
234023439 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGA-CCGAAGGCATTTGTGCGATTG
** * *
234023479 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGA-CCGAAGGCATTTGTGCGA-TTG
*
234023519 ATTCTATCCGGGCTAAGA-CGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCGAAGGCATTTGTGCGA-TTG
234023557 ATTATATCCGG
1 ATTATATCCGG
234023568 TTATATTCCG
Statistics
Matches: 72, Mismatches: 15, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
37 3 0.04
38 24 0.33
40 44 0.61
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
ATTATATCCGGGCTAAGACCGAAGGCATTTGTGCGATTG
Found at i:234031622 original size:7 final size:7
Alignment explanation
Indices: 234031610--234031634 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
234031600 GTTGTCTTCT
234031610 TGTTTGA
1 TGTTTGA
234031617 TGTTTGA
1 TGTTTGA
234031624 TGTTTGA
1 TGTTTGA
234031631 TGTT
1 TGTT
234031635 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:234032562 original size:27 final size:28
Alignment explanation
Indices: 234032506--234032575 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
234032496 AAATTTGTAC
234032506 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
234032534 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
234032561 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
234032576 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:234037436 original size:12 final size:12
Alignment explanation
Indices: 234037419--234037443 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
234037409 ACGTATCCAC
234037419 TTATAACAAAAT
1 TTATAACAAAAT
234037431 TTATAACAAAAT
1 TTATAACAAAAT
234037443 T
1 T
234037444 ACAGCCGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (12 bp):
TTATAACAAAAT
Found at i:234037858 original size:29 final size:27
Alignment explanation
Indices: 234037769--234037869 Score: 78
Period size: 29 Copynumber: 3.6 Consensus size: 27
234037759 ATGACCGATC
* *
234037769 TCGCACACATAGTGCTCGGTTGAAGAAC
1 TCGCACACACAGTGCTCGGTT-AAGAAT
* ** *
234037797 TCACACACACAGTGCCTCAATTACTG-AT
1 TCGCACACACAGTG-CTCGGTTA-AGAAT
*
234037825 CTCGCACACATAGTGCTCGGTTAAAGGAAT
1 -TCGCACACACAGTGCTCGGTT-AA-GAAT
234037855 TCGCACACACAGTGC
1 TCGCACACACAGTGC
234037870 CTCTAATCAT
Statistics
Matches: 55, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
28 19 0.35
29 34 0.62
30 2 0.04
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (27 bp):
TCGCACACACAGTGCTCGGTTAAGAAT
Found at i:234038087 original size:43 final size:43
Alignment explanation
Indices: 234038026--234038252 Score: 312
Period size: 43 Copynumber: 5.2 Consensus size: 43
234038016 CCTTGCTCGA
** *
234038026 ATCACCGGCATTAAGCCTGCTAGGCACGAAGACCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
*
234038069 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
*
234038112 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
* * *
234038155 ATCACCGGCACGAAGCCTGCTAGGTACGAAAGCCCAAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
*
234038198 ATCATCGGCACGAAGCCTGAGCCTGCTAGGCACGAAGGCCC-AATACAC
1 ATCACCGGCACG-A-----AGCCTGCTAGGCACGAAGGCCCGAATACAC
234038246 ATCACCG
1 ATCACCG
234038253 AGTTTCATGC
Statistics
Matches: 166, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
43 132 0.80
44 1 0.01
48 13 0.08
49 20 0.12
ACGTcount: A:0.31, C:0.33, G:0.23, T:0.12
Consensus pattern (43 bp):
ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
Done.