Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 85 of 126
Found at i:25986509 original size:77 final size:77
Alignment explanation
Indices: 25986382--25986556 Score: 318
Period size: 77 Copynumber: 2.3 Consensus size: 77
25986372 GAGCTTTGAC
*
25986382 TTCCTTCATGTTGTTTAGGGTAACATGGTTGGAGCTTAGGCTTCTTTTATGTTAGTTTTATTTAT
1 TTCCTTCATGTTGTTTAGGGTAACATGGTTAGAGCTTAGGCTTCTTTTATGTTAGTTTTATTTAT
25986447 ATGAAATTCAAT
66 ATGAAATTCAAT
25986459 TTCCTTCATGTTGTTTAGGGTAACATGGTTAGAGCTTAGGCTTCTTTTATGTTAGTTTTATTTAT
1 TTCCTTCATGTTGTTTAGGGTAACATGGTTAGAGCTTAGGCTTCTTTTATGTTAGTTTTATTTAT
25986524 ATGAAATTCAAT
66 ATGAAATTCAAT
25986536 TTCCATT-ATGTTGTTT-GGGTA
1 TTCC-TTCATGTTGTTTAGGGTA
25986557 TAACTCCATG
Statistics
Matches: 96, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
76 5 0.05
77 89 0.93
78 2 0.02
ACGTcount: A:0.22, C:0.10, G:0.19, T:0.49
Consensus pattern (77 bp):
TTCCTTCATGTTGTTTAGGGTAACATGGTTAGAGCTTAGGCTTCTTTTATGTTAGTTTTATTTAT
ATGAAATTCAAT
Found at i:25986737 original size:54 final size:55
Alignment explanation
Indices: 25986619--25986739 Score: 140
Period size: 54 Copynumber: 2.2 Consensus size: 55
25986609 CTTTCTTATA
* * * * *
25986619 GTCTACTGATTTACGATCACGACCTTTTACTTATGAGATTTTATGAATCTTACGG
1 GTCTGCTGATTTACGATCACAACCCTTTACTTACGAGATTTTATAAATCTTACGG
* * *
25986674 TTC-GTTGATTTACGATCACAACCCTTTACTTACGTGATTTTATAAATC-T-CGTG
1 GTCTGCTGATTTACGATCACAACCCTTTACTTACGAGATTTTATAAATCTTACG-G
25986727 GTCTGCTGATTTA
1 GTCTGCTGATTTA
25986740 TGGTCAAAAC
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
52 2 0.04
53 4 0.07
54 46 0.85
55 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.41
Consensus pattern (55 bp):
GTCTGCTGATTTACGATCACAACCCTTTACTTACGAGATTTTATAAATCTTACGG
Found at i:25986981 original size:42 final size:42
Alignment explanation
Indices: 25986881--25987188 Score: 288
Period size: 42 Copynumber: 7.5 Consensus size: 42
25986871 TCGTAATCCG
* * * * *
25986881 CTGATTTACGATCACGACTACTTTTGGCTTTCTTAT-GGCTA
1 CTGATTTACGATCACGACCACCTTCGACTTTCTTATAGTCTA
* * * * *
25986922 CTGGTTTATGATCACGACGACCTTTGACTTTCTTATAGTCCA
1 CTGATTTACGATCACGACCACCTTCGACTTTCTTATAGTCTA
* * *
25986964 CTGATTTACGATCACGACCACCCTCGGCTTTCTTAT-GGC-A
1 CTGATTTACGATCACGACCACCTTCGACTTTCTTATAGTCTA
* *
25987004 CATTAATTTACGATCACGACCACCTTTGACTTTCTTATAGTCTA
1 C--TGATTTACGATCACGACCACCTTCGACTTTCTTATAGTCTA
* * *
25987048 CTGATTTACGATCACGACCACCTTCGACTTTCTTATGGCCCA
1 CTGATTTACGATCACGACCACCTTCGACTTTCTTATAGTCTA
* * * * * *
25987090 -TAATTTACGATCATGACTACCTTCGACTTTTTTATGGTCTG
1 CTGATTTACGATCACGACCACCTTCGACTTTCTTATAGTCTA
* * * * *
25987131 CTGATTTATGATCACG---ACCTTCGGCTTTCTTACAGTTTG
1 CTGATTTACGATCACGACCACCTTCGACTTTCTTATAGTCTA
25987170 CTGATTTACGATCACGACC
1 CTGATTTACGATCACGACC
25987189 TTTTACATAC
Statistics
Matches: 218, Mismatches: 40, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
39 33 0.15
40 2 0.01
41 67 0.31
42 112 0.51
43 2 0.01
44 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (42 bp):
CTGATTTACGATCACGACCACCTTCGACTTTCTTATAGTCTA
Found at i:25987144 original size:83 final size:84
Alignment explanation
Indices: 25986881--25987162 Score: 349
Period size: 83 Copynumber: 3.4 Consensus size: 84
25986871 TCGTAATCCG
* * * * ** * *
25986881 CTGATTTACGATCACGACTACTTTTGGCTTTCTTATGG-CTACTGGTTTATGATCACGACGACCT
1 CTGATTTACGATCACGACCACCTTCGGCTTTCTTATGGCCCACTAATTTACGATCACGACCACCT
*
25986945 TTGACTTTCTTATAGTCCA
66 TTGACTTTCTTATAGTCTA
* * *
25986964 CTGATTTACGATCACGACCACCCTCGGCTTTCTTATGGCACATTAATTTACGATCACGACCACCT
1 CTGATTTACGATCACGACCACCTTCGGCTTTCTTATGGCCCACTAATTTACGATCACGACCACCT
25987029 TTGACTTTCTTATAGTCTA
66 TTGACTTTCTTATAGTCTA
* * *
25987048 CTGATTTACGATCACGACCACCTTCGACTTTCTTATGGCCCA-TAATTTACGATCATGACTACCT
1 CTGATTTACGATCACGACCACCTTCGGCTTTCTTATGGCCCACTAATTTACGATCACGACCACCT
* * * *
25987112 TCGACTTTTTTATGGTCTG
66 TTGACTTTCTTATAGTCTA
*
25987131 CTGATTTATGATCACG---ACCTTCGGCTTTCTTA
1 CTGATTTACGATCACGACCACCTTCGGCTTTCTTA
25987163 CAGTTTGCTG
Statistics
Matches: 175, Mismatches: 23, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
80 15 0.09
83 84 0.48
84 76 0.43
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.38
Consensus pattern (84 bp):
CTGATTTACGATCACGACCACCTTCGGCTTTCTTATGGCCCACTAATTTACGATCACGACCACCT
TTGACTTTCTTATAGTCTA
Found at i:25987382 original size:54 final size:55
Alignment explanation
Indices: 25987261--25987396 Score: 141
Period size: 54 Copynumber: 2.5 Consensus size: 55
25987251 CTTTCTTATG
* * * * * *
25987261 GTCCGCTGATTTATGATCACAACCTTTTTACTTATGGGGTTTTATGGATCTCACG
1 GTCCGCTGATTTACGATCACAACCATTTTACTTATGGGATTTTACGAATCTCACA
** * * **
25987316 GTCCATTAATTTACGATCACGA-CATTTTACTTATGGGATTTTACGAATCTCGTA
1 GTCCGCTGATTTACGATCACAACCATTTTACTTATGGGATTTTACGAATCTCACA
25987370 GTCCGCTGATTTAC-AGTCACAACCATT
1 GTCCGCTGATTTACGA-TCACAACCATT
25987397 GGCTTTCTTA
Statistics
Matches: 63, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
53 1 0.02
54 41 0.65
55 21 0.33
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (55 bp):
GTCCGCTGATTTACGATCACAACCATTTTACTTATGGGATTTTACGAATCTCACA
Found at i:25987481 original size:54 final size:53
Alignment explanation
Indices: 25987417--25987593 Score: 228
Period size: 54 Copynumber: 3.3 Consensus size: 53
25987407 TGATCTGTTG
** * *
25987417 ATTTACGATCACGACCTTTTACTTACGGGATTTTATGAATATTGCGGTCAGCTA
1 ATTTACGATCACGACCTTTTACTTACGGGATTTTACAAATCTCGCGGTCA-CTA
* * * *
25987471 ATTTACGATCACGACCTTTTACTTATGGGATTTTACAAATCTCGTGGTCCATTG
1 ATTTACGATCACGACCTTTTACTTACGGGATTTTACAAATCTCGCGGT-CACTA
**
25987525 ATTTACGATCACGACCTTTTACAGACGGGATTTTACAAATCTCGCGGTCTACTA
1 ATTTACGATCACGACCTTTTACTTACGGGATTTTACAAATCTCGCGGTC-ACTA
*
25987579 CTTTACGATCACGAC
1 ATTTACGATCACGAC
25987594 TACTTTCAAC
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 103 0.97
55 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (53 bp):
ATTTACGATCACGACCTTTTACTTACGGGATTTTACAAATCTCGCGGTCACTA
Found at i:25987491 original size:147 final size:150
Alignment explanation
Indices: 25987173--25987539 Score: 427
Period size: 147 Copynumber: 2.5 Consensus size: 150
25987163 CAGTTTGCTG
* *** * *
25987173 ATTTACGATCACGACCTTTTACATACAAGATTTTACAAATCTTGCGGTCCACTGATTTACAATCA
1 ATTTACGATCACGACCTTTTACTTATGGGATTTTACAAATCTCGTGGTCCACTGATTTACAATCA
** * * * *
25987238 CGACTACTTTTCACTTTCTTATGGTCCGCTGATTTATGATCACAACCTTTTTACTTATGGGGTTT
66 CGAC-ACCATTCACTTTCTTATGATCCGCTGATTTACGATCACAACCTTTTTACTTACGGGATTT
* * *
25987303 TATGGATCTCACGGTCCATTA
130 TATGAATATCACGGTCCACTA
* * * * *
25987324 ATTTACGATCACGACATTTTACTTATGGGATTTTACGAATCTCGTAGTCCGCTGATTTACAGTCA
1 ATTTACGATCACGACCTTTTACTTATGGGATTTTACAAATCTCGTGGTCCACTGATTTACAATCA
** * * *
25987389 C-A-ACCATTGGCTTTCTTATGATCTGTTGATTTACGATCACGACC-TTTTACTTACGGGATTTT
66 CGACACCATTCACTTTCTTATGATCCGCTGATTTACGATCACAACCTTTTTACTTACGGGATTTT
**
25987451 ATGAATATTGCGGT-CAGCTA
131 ATGAATATCACGGTCCA-CTA
* *
25987471 ATTTACGATCACGACCTTTTACTTATGGGATTTTACAAATCTCGTGGTCCATTGATTTACGATCA
1 ATTTACGATCACGACCTTTTACTTATGGGATTTTACAAATCTCGTGGTCCACTGATTTACAATCA
25987536 CGAC
66 CGAC
25987540 CTTTTACAGA
Statistics
Matches: 179, Mismatches: 34, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
146 2 0.01
147 87 0.49
148 34 0.19
150 1 0.01
151 55 0.31
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (150 bp):
ATTTACGATCACGACCTTTTACTTATGGGATTTTACAAATCTCGTGGTCCACTGATTTACAATCA
CGACACCATTCACTTTCTTATGATCCGCTGATTTACGATCACAACCTTTTTACTTACGGGATTTT
ATGAATATCACGGTCCACTA
Found at i:25987648 original size:42 final size:42
Alignment explanation
Indices: 25987580--25987680 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 42
25987570 GGTCTACTAC
* *
25987580 TTTACGATCACGACTACTTTCAACTTTCTTATGGTCCATTGG
1 TTTACGATCACGACCACTTTCAACTTTCTTATGGTCCATTGA
* * * **
25987622 TTTATGATCACGACCACTTTCGACTTTTTTATGGTCTGTTGA
1 TTTACGATCACGACCACTTTCAACTTTCTTATGGTCCATTGA
*
25987664 TTTACGACCACGACCAC
1 TTTACGATCACGACCAC
25987681 CTTTGAGTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.39
Consensus pattern (42 bp):
TTTACGATCACGACCACTTTCAACTTTCTTATGGTCCATTGA
Found at i:25987799 original size:42 final size:42
Alignment explanation
Indices: 25987622--25987843 Score: 159
Period size: 42 Copynumber: 5.4 Consensus size: 42
25987612 GGTCCATTGG
* * * * * * *
25987622 TTTATGATCACGACCACTTTCGACTTTTTTATGGTCTGTTGA
1 TTTACGATCATGACCACCTTCGGCTTTCTTATGGTCTGCTAA
* * * ** * *
25987664 TTTACGACCACGACCACCTTTGAG-TTT-TGTATAATTTGTTAA
1 TTTACGATCATGACCACCTTCG-GCTTTCT-TATGGTCTGCTAA
* * *
25987706 TTTACAATCATGGCCATCTTCGGCTTTCTTATGGTCTG-TCAA
1 TTTACGATCATGACCACCTTCGGCTTTCTTATGGTCTGCT-AA
25987748 TTTACGATCATGACCACCTTCGGCTTTCTTATGGTCTGCTAA
1 TTTACGATCATGACCACCTTCGGCTTTCTTATGGTCTGCTAA
* * * * * * *
25987790 TTTATGATC---ACGACTTTCGACTTTCTTACGGTCTACTGA
1 TTTACGATCATGACCACCTTCGGCTTTCTTATGGTCTGCTAA
25987829 TTTACGATCATGACC
1 TTTACGATCATGACC
25987844 TTTTACATAC
Statistics
Matches: 141, Mismatches: 30, Indels: 18
0.75 0.16 0.10
Matches are distributed among these distances:
39 32 0.23
41 3 0.02
42 104 0.74
43 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.41
Consensus pattern (42 bp):
TTTACGATCATGACCACCTTCGGCTTTCTTATGGTCTGCTAA
Found at i:25988010 original size:54 final size:54
Alignment explanation
Indices: 25987915--25988050 Score: 164
Period size: 54 Copynumber: 2.5 Consensus size: 54
25987905 GCTTTCTTAT
* ** * *
25987915 GGTTTGTTGATTTATGATCACGACCTTTTATTTACGAGATTTTATGGATCTAAC
1 GGTTTGTTGATTTACGATCACGACCTTTTACATACGAGATTTTACGAATCTAAC
* * **
25987969 GGTTCGTTGATTTACGATCACGACCTTTTACATACGGGATTTTACGAATCTCGC
1 GGTTTGTTGATTTACGATCACGACCTTTTACATACGAGATTTTACGAATCTAAC
* * *
25988023 AGTTTGTTGATTTACGGTCACAACCTTT
1 GGTTTGTTGATTTACGATCACGACCTTT
25988051 GGCTTTCTTA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (54 bp):
GGTTTGTTGATTTACGATCACGACCTTTTACATACGAGATTTTACGAATCTAAC
Found at i:25988185 original size:654 final size:637
Alignment explanation
Indices: 25986598--25988210 Score: 1751
Period size: 654 Copynumber: 2.5 Consensus size: 637
25986588 TACGATCACG
* * * *
25986598 ACTACTTTCGGCTTTCTTATAGTCTACTGATTTACGATCACGACCTTTTACTTATGAGATTTTAT
1 ACTACTTTTGGCTTTCTTATGGTCTGCTGATTTATGATCACGACCTTTTACTTATGAGATTTTAT
* * * * * ** *
25986663 GAATCTTACGGTTCGTTGATTTACGATCACAACCCTTTACTTACGTGATTTTATAAATCTCGTGG
66 GGATCTAACGGTTCGTTGATTTACGATCACGACCTTTTACTTACGGGATTTTACGAATCTCGTAG
* * * * * * *
25986728 TCTGCTGATTTATGGTCAAAACCATTGGTTTTCTTACGATTTCTTAATTTACGATCACAACTTTT
131 TCTGCTGATTTACGGTCACAACCATTGGCTTTCTTACTA-TTCTTGATTTACGATCACGACCTTT
* * * *
25986793 TACTTATGGGATTTTACAAATCTCACGGTCCATTGATTTACGATCATGACCTTTTTTATATACGG
195 TACTTATGGGATTTTATAAATCTCGCGG-CCGTTGATTTACGATCATGACC--TTTTACATACGG
** ** *
25986858 GATTTTATAAATCTCGTAATCCGCTGATTTACGATCACGACTACTTTTGGCTTTCTTATGGCTAC
257 GATTTTATAAATCTCGTGGTCCATTGATTTACGATCACGAC-ACTTTTGGCTTTCTTACGGCTAC
** * *
25986923 TGGTTTATGATCACGACGACCTTTGACTTTCTTATAGTCCACTGATTTACGATCACGACCACCCT
321 TACTTTACGATCACGACGACCTTTAACTTTCTTATAGTCCACTGATTTACGATCACGACCACCCT
* * * *
25986988 CGGCTTTCTTATGGCACATTAATTTACGATCACGACCACCTTTGACTTTCTTATAGTCTACTGAT
386 CGACTTTCTTATGGCACATTAATTTACGACCACGACCACCTTTGACTTTCTTATAATCTACTAAT
* *
25987053 TTACGATCACGACCACCTTCGACTTTCTTATGGCCCATAATTTACGATCATGACTACCTTCGACT
451 TTACAATCACGACCACCTTCGACTTTCTTATGGCCCATAATTTACGATCATGACCACCTTCGACT
* * * * *
25987118 TTTTTATGGTCTGCTGATTTATGATCACGACCTTCGGCTTTCTTACAGTTTGCTGATTTACGATC
516 TTCTTATGGTCTGCTAATTTATGATCACGACCTTCGACTTTCTTACAGTCTACTGATTTACGATC
* * **
25987183 ACGACCTTTTACATACAAGATTTTACAAATCTTGCGGTCCACTGATTTACAATCACG
581 ACGACCTTTTACATACAAGATTTTACAAATCTTACGGTCCACTAATTTACAATCAAA
** * * * *
25987240 ACTACTTTTCACTTTCTTATGGTCCGCTGATTTATGATCACAACCTTTTTACTTATGGGGTTTTA
1 ACTACTTTTGGCTTTCTTATGGTCTGCTGATTTATGATCACGACC-TTTTACTTATGAGATTTTA
* * * * * *
25987305 TGGATCTCACGGTCCATTAATTTACGATCACGACATTTTACTTATGGGATTTTACGAATCTCGTA
65 TGGATCTAACGGTTCGTTGATTTACGATCACGACCTTTTACTTACGGGATTTTACGAATCTCGTA
* * *
25987370 GTCCGCTGATTTACAGTCACAACCATTGGCTTTCTTA-TGATCTGTTGATTTACGATCACGACCT
130 GTCTGCTGATTTACGGTCACAACCATTGGCTTTCTTACT-AT-TCTTGATTTACGATCACGACCT
* * * * * * * * * *
25987434 TTTACTTACGGGATTTTATGAATATTGCGGTCAGCTAATTTACGATCACGACCTTTTACTTATGG
193 TTTACTTATGGGATTTTATAAATCTCGCGG-CCGTTGATTTACGATCATGACCTTTTACATACGG
* *
25987499 GATTTTACAAATCTCGTGGTCCATTGATTTACGATCACGAC-CTTTTACAGACGGGATTTTACAA
257 GATTTTATAAATCTCGTGGTCCATTGATTTACGATCACGACACTTTT-------GG-CTTT-C--
* * * * * *
25987563 ATCTCGCGGTCTACTACTTTACGATCACGACTA-CTTTCAACTTTCTTATGGTCCATTGGTTTAT
311 -T-T-ACGG-CTACTACTTTACGATCACGACGACCTTT-AACTTTCTTATAGTCCACTGATTTAC
** * ** * *
25987627 GATCACGACCACTTTCGACTTTTTTATGGTC-TGTTGATTTACGACCACGACCACCTTTGAGTTT
371 GATCACGACCACCCTCGACTTTCTTATGG-CACATTAATTTACGACCACGACCACCTTTGACTTT
* ** * * * * * **
25987691 -TGTATAATTTGTTAATTTACAATCATGGCCATCTTCGGCTTTCTTATGGTCTGTCAATTTACGA
435 CT-TATAATCTACTAATTTACAATCACGACCACCTTCGACTTTCTTATGGCCCAT-AATTTACGA
* * *
25987755 TCATGACCACCTTCGGCTTTCTTATGGTCTGCTAATTTATGATCACGACTTTCGACTTTCTTACG
498 TCATGACCACCTTCGACTTTCTTATGGTCTGCTAATTTATGATCACGACCTTCGACTTTCTTACA
* * **
25987820 GTCTACTGATTTACGATCATGACCTTTTACATACATGATTTTACAAATCTTACGGTTTACTAATT
563 GTCTACTGATTTACGATCACGACCTTTTACATACAAGATTTTACAAATCTTACGGTCCACTAATT
25987885 TACAATCAAA
628 TACAATCAAA
* * * *
25987895 ACTACTTTTGGCTTTCTTATGGTTTGTTGATTTATGATCACGACCTTTTATTTACGAGATTTTAT
1 ACTACTTTTGGCTTTCTTATGGTCTGCTGATTTATGATCACGACCTTTTACTTATGAGATTTTAT
* *
25987960 GGATCTAACGGTTCGTTGATTTACGATCACGACCTTTTACATACGGGATTTTACGAATCTCGCAG
66 GGATCTAACGGTTCGTTGATTTACGATCACGACCTTTTACTTACGGGATTTTACGAATCTCGTAG
* * * * ***
25988025 TTTGTTGATTTACGGTCACAACCTTTGGCTTTCTTACTATTCACTGATTTTTTATCACGACCTTT
131 TCTGCTGATTTACGGTCACAACCATTGGCTTTCTTACTATTC-TTGATTTACGATCACGACCTTT
* * * *
25988090 TACTTATAGGATTTTATAAATCTCGCAGCCTGTTGATTTACGATCATGGCCTTTTACATACGAGA
195 TACTTATGGGATTTTATAAATCTCGCGGCC-GTTGATTTACGATCATGACCTTTTACATACGGGA
* ** * * * * *
25988155 TTTTATGAATCTCACGGTCCTTTAATTTACGATCACAACTAATTTCGGCTTTCTTA
259 TTTTATAAATCTCGTGGTCCATTGATTTACGATCACGAC-ACTTTTGGCTTTCTTA
25988211 TGGTCCGCTA
Statistics
Matches: 788, Mismatches: 156, Indels: 54
0.79 0.16 0.05
Matches are distributed among these distances:
639 5 0.01
641 45 0.06
642 38 0.05
643 163 0.21
644 1 0.00
646 2 0.00
647 4 0.01
648 4 0.01
649 2 0.00
651 1 0.00
652 1 0.00
653 9 0.01
654 337 0.43
655 173 0.22
656 3 0.00
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (637 bp):
ACTACTTTTGGCTTTCTTATGGTCTGCTGATTTATGATCACGACCTTTTACTTATGAGATTTTAT
GGATCTAACGGTTCGTTGATTTACGATCACGACCTTTTACTTACGGGATTTTACGAATCTCGTAG
TCTGCTGATTTACGGTCACAACCATTGGCTTTCTTACTATTCTTGATTTACGATCACGACCTTTT
ACTTATGGGATTTTATAAATCTCGCGGCCGTTGATTTACGATCATGACCTTTTACATACGGGATT
TTATAAATCTCGTGGTCCATTGATTTACGATCACGACACTTTTGGCTTTCTTACGGCTACTACTT
TACGATCACGACGACCTTTAACTTTCTTATAGTCCACTGATTTACGATCACGACCACCCTCGACT
TTCTTATGGCACATTAATTTACGACCACGACCACCTTTGACTTTCTTATAATCTACTAATTTACA
ATCACGACCACCTTCGACTTTCTTATGGCCCATAATTTACGATCATGACCACCTTCGACTTTCTT
ATGGTCTGCTAATTTATGATCACGACCTTCGACTTTCTTACAGTCTACTGATTTACGATCACGAC
CTTTTACATACAAGATTTTACAAATCTTACGGTCCACTAATTTACAATCAAA
Found at i:25988226 original size:147 final size:144
Alignment explanation
Indices: 25987826--25988226 Score: 355
Period size: 147 Copynumber: 2.7 Consensus size: 144
25987816 TACGGTCTAC
* * *
25987826 TGATTTACGATCATGACCTTTTACATAC-ATGATTTTACAAATCTTACGGTTTACTAATTTACAA
1 TGATTTACGATCATGACCTTTTACATACGA-GATTTTACGAATCTCACGGTTT--TAATTTACGA
* ** *
25987890 TCAAAACTACTTTTGGCTTTCTTATGGTTTGTTGATTTATGATCACGACCTTTTATTTACGAGAT
63 TCACAACTAC-TTTGGCTTTCTTATGGTCCGAT-ATTT-T-ATCACGACCTTTTATTTACGAGAT
** **
25987955 TTTATGGATCTAACGGTTCGT
124 TTTATAAATCTAACGCCTCGT
* * * * * *
25987976 TGATTTACGATCACGACCTTTTACATACGGGATTTTACGAATCTCGCAGTTTGTTGATTTACGGT
1 TGATTTACGATCATGACCTTTTACATACGAGATTTTACGAATCTCAC-GGTT-TTAATTTACGAT
** *
25988041 CACAAC--CTTTGGCTTTCTTACTATTCACTGATTTTTTATCACGACCTTTTACTTATA-G-GAT
64 CACAACTACTTTGGCTTTCTTA-TGGTC-C-GATATTTTATCACGACCTTTTA-TT-TACGAGAT
**
25988102 TTTATAAATCTCGCAGCCT-GT
124 TTTATAAATCTAAC-GCCTCGT
* *
25988123 TGATTTACGATCATGGCCTTTTACATACGAGATTTTATGAATCTCACGGTCCTTTAATTTACGAT
1 TGATTTACGATCATGACCTTTTACATACGAGATTTTACGAATCTCACGGT--TTTAATTTACGAT
* * *
25988188 CACAACTAATTTCGGCTTTCTTATGGTCCGCTAATTTAT
64 CACAACTACTTT-GGCTTTCTTATGGTCCGATATTTTAT
25988227 GATCAGGACC
Statistics
Matches: 201, Mismatches: 36, Indels: 31
0.75 0.13 0.12
Matches are distributed among these distances:
146 2 0.01
147 107 0.53
148 11 0.05
149 11 0.05
150 66 0.33
151 3 0.01
152 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (144 bp):
TGATTTACGATCATGACCTTTTACATACGAGATTTTACGAATCTCACGGTTTTAATTTACGATCA
CAACTACTTTGGCTTTCTTATGGTCCGATATTTTATCACGACCTTTTATTTACGAGATTTTATAA
ATCTAACGCCTCGT
Found at i:25988231 original size:42 final size:42
Alignment explanation
Indices: 25988177--25988310 Score: 144
Period size: 42 Copynumber: 3.2 Consensus size: 42
25988167 CACGGTCCTT
*
25988177 TAATTTACGATCACAACTA-ATTTCGGCTTTCTTATGGTCCGC
1 TAATTTACGATCACAACCACATTT-GGCTTTCTTATGGTCCGC
* ** * * * *
25988219 TAATTTATGATCAGGACCACATTTGGTTTTTTTATGGTCTGT
1 TAATTTACGATCACAACCACATTTGGCTTTCTTATGGTCCGC
* * * *
25988261 TGATTTACGACCACAACCACATTTGACTTTCTTATGGTCCAC
1 TAATTTACGATCACAACCACATTTGGCTTTCTTATGGTCCGC
25988303 TAATTTAC
1 TAATTTAC
25988311 AATAATAACC
Statistics
Matches: 71, Mismatches: 20, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
42 67 0.94
43 4 0.06
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (42 bp):
TAATTTACGATCACAACCACATTTGGCTTTCTTATGGTCCGC
Found at i:25988396 original size:54 final size:54
Alignment explanation
Indices: 25988338--25988440 Score: 143
Period size: 54 Copynumber: 1.9 Consensus size: 54
25988328 TTCTTACCAT
* *
25988338 CCGTTGATTTATGGTCACAACCTTTTACAAATGGGATTTTACGAATCTCGTGGC
1 CCGTTGATTTACGATCACAACCTTTTACAAATGGGATTTTACGAATCTCGTGGC
**** *
25988392 CCGTTGATTTACGATCACGGTTTTTTACATATGGGATTTTACGAATCTC
1 CCGTTGATTTACGATCACAACCTTTTACAAATGGGATTTTACGAATCTC
25988441 ACGATCCGCT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (54 bp):
CCGTTGATTTACGATCACAACCTTTTACAAATGGGATTTTACGAATCTCGTGGC
Found at i:25988576 original size:24 final size:24
Alignment explanation
Indices: 25988549--25988595 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
25988539 GATCCACTGA
*
25988549 TTTACAGTCACGACCTTTGACTTT
1 TTTACAATCACGACCTTTGACTTT
* * *
25988573 TTTATAATTACGACCTTTTACTT
1 TTTACAATCACGACCTTTGACTT
25988596 ATAGGATTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.23, C:0.21, G:0.09, T:0.47
Consensus pattern (24 bp):
TTTACAATCACGACCTTTGACTTT
Found at i:25988638 original size:78 final size:78
Alignment explanation
Indices: 25988501--25988650 Score: 203
Period size: 78 Copynumber: 1.9 Consensus size: 78
25988491 TTGATTTACG
* * *
25988501 ATTATGACCTTTTACTTACGGGATTTTACAAATCTCGCGATCCACTGATTTACAGTCACGACCTT
1 ATTACGACCTTTTACTTACAGGATTTTACAAATCTCACGATCCACTGATTTACAGTCACGACCTT
25988566 TGACTTTTTTATA
66 TGACTTTTTTATA
* * * **
25988579 ATTACGACCTTTTACTTATAGGATTTTACGAATCTCATGATCTGCTGATTTAC-GATCACGACCT
1 ATTACGACCTTTTACTTACAGGATTTTACAAATCTCACGATCCACTGATTTACAG-TCACGACCT
*
25988643 TTGGCTTT
65 TTGACTTT
25988651 CTTACGGTCC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
77 1 0.02
78 61 0.98
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (78 bp):
ATTACGACCTTTTACTTACAGGATTTTACAAATCTCACGATCCACTGATTTACAGTCACGACCTT
TGACTTTTTTATA
Found at i:25988715 original size:54 final size:54
Alignment explanation
Indices: 25988661--25988899 Score: 255
Period size: 54 Copynumber: 4.4 Consensus size: 54
25988651 CTTACGGTCC
* * *
25988661 GCTGATTTATGATCACGATCTTTTACTTACGGGATTTTACAAATCTCGCAGTCC
1 GCTGATTTATGATCACGACCTTTTACTTACGGGATTTTACGAATCTCGCAGTCT
* * * * * * *
25988715 GCTAATTTAAGATTAC-AGCCTTTTACTTATGGGATTTAATGAATCTCGCAGTTT
1 GCTGATTTATGATCACGA-CCTTTTACTTACGGGATTTTACGAATCTCGCAGTCT
* * * * *
25988769 TCTGATTTATGATCACAACCTTTTACTTACGAGATTTTATGAATCTCGCGGTCT
1 GCTGATTTATGATCACGACCTTTTACTTACGGGATTTTACGAATCTCGCAGTCT
** * * **
25988823 ATTGATTTATGATCATGACCTTTTACTTATGGGATTTTACGAATCTCGTGGTCT
1 GCTGATTTATGATCACGACCTTTTACTTACGGGATTTTACGAATCTCGCAGTCT
* *
25988877 GCTGATTTACGATCACAACCTTT
1 GCTGATTTATGATCACGACCTTT
25988900 AGCTTTATTA
Statistics
Matches: 151, Mismatches: 32, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
53 1 0.01
54 149 0.99
55 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (54 bp):
GCTGATTTATGATCACGACCTTTTACTTACGGGATTTTACGAATCTCGCAGTCT
Found at i:25988792 original size:108 final size:108
Alignment explanation
Indices: 25988661--25988899 Score: 284
Period size: 108 Copynumber: 2.2 Consensus size: 108
25988651 CTTACGGTCC
* * * *
25988661 GCTGATTTATGATCACGATCTTTTACTTACGGGATTTTACAAATCTCGCAGTCCGCTAATTTAAG
1 GCTGATTTATGATCACAACCTTTTACTTACGAGATTTTACAAATCTCGCAGTCCACTAATTTAAG
* *
25988726 ATTACA-G-CCTTTTACTTATGGGATTTAATGAATCTCGCAGTTT
66 A-T-CATGACCTTTTACTTATGGGATTTAACGAATCTCGCAGTCT
* ** * * * * *
25988769 TCTGATTTATGATCACAACCTTTTACTTACGAGATTTTATGAATCTCGCGGTCTATTGATTTATG
1 GCTGATTTATGATCACAACCTTTTACTTACGAGATTTTACAAATCTCGCAGTCCACTAATTTAAG
* **
25988834 ATCATGACCTTTTACTTATGGGATTTTACGAATCTCGTGGTCT
66 ATCATGACCTTTTACTTATGGGATTTAACGAATCTCGCAGTCT
*
25988877 GCTGATTTACGATCACAACCTTT
1 GCTGATTTATGATCACAACCTTT
25988900 AGCTTTATTA
Statistics
Matches: 110, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
106 2 0.02
107 2 0.02
108 106 0.96
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (108 bp):
GCTGATTTATGATCACAACCTTTTACTTACGAGATTTTACAAATCTCGCAGTCCACTAATTTAAG
ATCATGACCTTTTACTTATGGGATTTAACGAATCTCGCAGTCT
Found at i:25988976 original size:93 final size:93
Alignment explanation
Indices: 25988824--25989123 Score: 379
Period size: 93 Copynumber: 3.2 Consensus size: 93
25988814 TCGCGGTCTA
* * * *
25988824 TTGATTTATGATCATGACCTTTTACTTATGGGATTTTACGAATCTCGTGGTCTGCTGATTTACGA
1 TTGATTTACGATCACGACCTTTTACTTACGGGATTTTACGAATCTCGCGGTCTGCTGATTTACGA
** *
25988889 TCACAACCTTTAGCTTTATTACGGTCCG
66 TCATGACCTTTGGCTTTATTACGGTCCG
*
25988917 TTGATTTACGATCACGACCTTTTACTTACGGGATTTTACGAATCTTGCGGTCTGCTGATTTACGA
1 TTGATTTACGATCACGACCTTTTACTTACGGGATTTTACGAATCTCGCGGTCTGCTGATTTACGA
* * *
25988982 TCATGACCTTTGGCTTTCTTACGATCCA
66 TCATGACCTTTGGCTTTATTACGGTCCG
* * * * * *
25989010 TTGATTTACAATCACGACCTTTTACTTAC-GAATTTAATGAATCTCGCGGT-TCACTAATTTACG
1 TTGATTTACGATCACGACCTTTTACTTACGGGATTTTACGAATCTCGCGGTCT-GCTGATTTACG
* *
25989073 ATCATGACATTTGGCTTTATTACGGTTCG
65 ATCATGACCTTTGGCTTTATTACGGTCCG
* * *
25989102 CTGATTTACTATCACAACCTTT
1 TTGATTTACGATCACGACCTTT
25989124 AGCTTTCTCA
Statistics
Matches: 180, Mismatches: 26, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
91 1 0.01
92 69 0.38
93 110 0.61
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (93 bp):
TTGATTTACGATCACGACCTTTTACTTACGGGATTTTACGAATCTCGCGGTCTGCTGATTTACGA
TCATGACCTTTGGCTTTATTACGGTCCG
Found at i:25989129 original size:39 final size:39
Alignment explanation
Indices: 25989086--25989162 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
25989076 ATGACATTTG
*
25989086 GCTTTATTACGGTTCGCTGATTTACT-ATCACAACCTTTA
1 GCTTTATCACGGTTCGCTGATTTA-TGATCACAACCTTTA
* * *
25989125 GCTTTCTCATGGTTCGCTGATTTATGATCGCAACCTTT
1 GCTTTATCACGGTTCGCTGATTTATGATCACAACCTTT
25989163 TACTTACGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.03
39 32 0.97
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (39 bp):
GCTTTATCACGGTTCGCTGATTTATGATCACAACCTTTA
Found at i:25994076 original size:27 final size:24
Alignment explanation
Indices: 25994046--25994111 Score: 64
Period size: 27 Copynumber: 2.7 Consensus size: 24
25994036 TATTGTTGGC
*
25994046 AATAAATAATAATATATAAATTTTAAA
1 AATAAATAATAATAAAT-AA-TTT-AA
* *
25994073 AATATATAAAAATAAATAATTTAA
1 AATAAATAATAATAAATAATTTAA
25994097 AA-AAATAATAA-AAAT
1 AATAAATAATAATAAAT
25994112 TTTATATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
22 4 0.12
23 7 0.21
24 4 0.12
25 3 0.09
26 2 0.06
27 14 0.41
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (24 bp):
AATAAATAATAATAAATAATTTAA
Found at i:25994109 original size:25 final size:23
Alignment explanation
Indices: 25994049--25994109 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 23
25994039 TGTTGGCAAT
25994049 AAATAATAATATATAAATTTTAAAA
1 AAATAATAA-A-ATAAATTTTAAAA
*
25994074 ATAT-ATAAAAATAAATAATTTAAAA
1 AAATAAT-AAAATAAAT--TTTAAAA
25994099 AAATAATAAAA
1 AAATAATAAAA
25994110 ATTTTATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
23 6 0.20
24 3 0.10
25 19 0.63
26 2 0.07
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (23 bp):
AAATAATAAAATAAATTTTAAAA
Found at i:25995375 original size:21 final size:23
Alignment explanation
Indices: 25995331--25995382 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 23
25995321 ATTTTTTAAA
*
25995331 AATTTTATAAAATATAAATTTTG
1 AATTTTTTAAAATATAAATTTTG
*
25995354 AATTTTTTAAAAT-T-ATTTTTG
1 AATTTTTTAAAATATAAATTTTG
25995375 AATTTTTT
1 AATTTTTT
25995383 TGTAACTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 14 0.52
22 1 0.04
23 12 0.44
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (23 bp):
AATTTTTTAAAATATAAATTTTG
Found at i:25996835 original size:15 final size:15
Alignment explanation
Indices: 25996814--25996864 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
25996804 GCATATATAT
25996814 AAAATATAAAATGTA
1 AAAATATAAAATGTA
* *
25996829 TAAATATTAGAAAAGTA
1 AAAATA-TA-AAATGTA
*
25996846 AAAATATAAAATATA
1 AAAATATAAAATGTA
25996861 AAAA
1 AAAA
25996865 AGTATGTATG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 14 0.48
16 4 0.14
17 11 0.38
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (15 bp):
AAAATATAAAATGTA
Found at i:25996916 original size:3 final size:3
Alignment explanation
Indices: 25996908--25996952 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
25996898 ATATGTACAG
* * *
25996908 TAA TAA TAA TGA TGA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
25996953 AGTCATAGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:25998954 original size:24 final size:24
Alignment explanation
Indices: 25998927--25998973 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
25998917 ATTGGAATGA
25998927 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
25998951 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
25998974 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:25998971 original size:15 final size:15
Alignment explanation
Indices: 25998951--25999000 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
25998941 TGATGAATTT
25998951 ATTGAATTTATATTG
1 ATTGAATTTATATTG
25998966 ATTGAATTGGTATATAT-
1 ATTGAATT--TATAT-TG
*
25998983 ATTGAATATATATTG
1 ATTGAATTTATATTG
25998998 ATT
1 ATT
25999001 ATTTGAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 1 0.03
15 16 0.53
17 12 0.40
18 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:25999193 original size:41 final size:41
Alignment explanation
Indices: 25999138--25999271 Score: 120
Period size: 40 Copynumber: 3.4 Consensus size: 41
25999128 ACTTCGAGTC
*
25999138 GATGAGATACTGGGTGTCAAATTATTACTTCAGATATATTC-
1 GATGAGACACTGGGTGTCAAATTATTACTTC-GATATATTCT
* * * * *
25999179 GATGAGGCACTGGGT-ACCAA-T-TTACTTCGATTTA-GCT
1 GATGAGACACTGGGTGTCAAATTATTACTTCGATATATTCT
*
25999216 GATGAGACACTGGATGTCAAATTATTACTTCGA-AT-TATCT
1 GATGAGACACTGGGTGTCAAATTATTACTTCGATATAT-TCT
* *
25999256 AATGAGGCACTGGGTG
1 GATGAGACACTGGGTG
25999272 CTAAACTGGT
Statistics
Matches: 72, Mismatches: 15, Indels: 13
0.72 0.15 0.13
Matches are distributed among these distances:
36 1 0.01
37 18 0.25
38 10 0.14
39 3 0.04
40 27 0.38
41 13 0.18
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (41 bp):
GATGAGACACTGGGTGTCAAATTATTACTTCGATATATTCT
Found at i:26001048 original size:63 final size:63
Alignment explanation
Indices: 26000932--26001051 Score: 161
Period size: 63 Copynumber: 1.9 Consensus size: 63
26000922 ATCGTACTCG
* * **
26000932 TCAGTTGCTCATTCTTCCATCAAGATTCAAGACACTATCATTTTCCCGCTGCTTCCTCTATCA
1 TCAGTCGCTCATTCTTCCATCAAGATTCAAGACACTATCAGTCGCCCGCTGCTTCCTCTATCA
* * *
26000995 TCAGTCGCTCATTGTTCCATCAAGATTCAAGACACTGTC-GTCGCCTCGTTGCTTCCT
1 TCAGTCGCTCATTCTTCCATCAAGATTCAAGACACTATCAGTCGCC-CGCTGCTTCCT
26001052 TAGTCACTGG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
62 3 0.06
63 46 0.94
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (63 bp):
TCAGTCGCTCATTCTTCCATCAAGATTCAAGACACTATCAGTCGCCCGCTGCTTCCTCTATCA
Found at i:26001771 original size:9 final size:9
Alignment explanation
Indices: 26001694--26001827 Score: 74
Period size: 9 Copynumber: 14.4 Consensus size: 9
26001684 ACATGTGGCA
26001694 AAAAATTAT
1 AAAAATTAT
26001703 AAAAA--AT
1 AAAAATTAT
***
26001710 AAAACCAAT
1 AAAAATTAT
*
26001719 AAAAGTTAT
1 AAAAATTAT
*
26001728 AATAAATAAT
1 AA-AAATTAT
**
26001738 AAATTTTATT
1 AAAAATTA-T
*
26001748 AAAAATTAGAA
1 AAAAATT--AT
26001759 AAAAATTAT
1 AAAAATTAT
**
26001768 AAAAATCGT
1 AAAAATTAT
26001777 AAAAATATAT
1 AAAAAT-TAT
*
26001787 AAAAATTGT
1 AAAAATTAT
*
26001796 AAAATTTTAT
1 AAAA-ATTAT
*
26001806 AAAAATCAT
1 AAAAATTAT
*
26001815 AAAAAATAT
1 AAAAATTAT
26001824 AAAA
1 AAAA
26001828 TGCATCAAAG
Statistics
Matches: 93, Mismatches: 24, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
7 6 0.06
9 52 0.56
10 27 0.29
11 7 0.08
12 1 0.01
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:26001780 original size:19 final size:19
Alignment explanation
Indices: 26001758--26001827 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
26001748 AAAAATTAGA
26001758 AAAAAATTATAAAAATCGT
1 AAAAAATTATAAAAATCGT
*
26001777 -AAAAATATATAAAAATTGT
1 AAAAAAT-TATAAAAATCGT
** *
26001796 AAAATTTTATAAAAATCAT
1 AAAAAATTATAAAAATCGT
26001815 AAAAAA-TATAAAA
1 AAAAAATTATAAAA
26001828 TGCATCAAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
18 13 0.31
19 25 0.60
20 4 0.10
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (19 bp):
AAAAAATTATAAAAATCGT
Found at i:26001908 original size:19 final size:20
Alignment explanation
Indices: 26001884--26001937 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
26001874 GTACGATAAT
26001884 TTTTATAATTT-TTTACGA-A
1 TTTTATAATTTCTTTAC-ATA
*
26001903 TTTTAT-ATTTCTTTACATT
1 TTTTATAATTTCTTTACATA
26001922 TTTTATAATTCTCTTT
1 TTTTATAATT-TCTTT
26001938 CGACTTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.17
19 17 0.57
20 3 0.10
21 5 0.17
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTATAATTTCTTTACATA
Found at i:26002027 original size:11 final size:11
Alignment explanation
Indices: 26001986--26002027 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
26001976 TATATATTTT
26001986 ATAATTTTTAA
1 ATAATTTTTAA
26001997 A-AATTTTTAA
1 ATAATTTTTAA
**
26002007 ATAAAATTTAA
1 ATAATTTTTAA
26002018 ATAATTTTTA
1 ATAATTTTTA
26002028 TATTTTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 10 0.38
11 16 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
ATAATTTTTAA
Found at i:26002042 original size:29 final size:31
Alignment explanation
Indices: 26001999--26002068 Score: 92
Period size: 29 Copynumber: 2.3 Consensus size: 31
26001989 ATTTTTAAAA
*
26001999 ATTTTTAAATAAAATTTAAATAA-TTTTTA-T-
1 ATTTTT-ATTAAAATTT-AATAATTTTTTATTG
26002029 ATTTTTATTAAAATTTAATAATTTTTTATTG
1 ATTTTTATTAAAATTTAATAATTTTTTATTG
26002060 ATTTTTATT
1 ATTTTTATT
26002069 TTTTTTATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
28 5 0.14
29 15 0.42
30 7 0.19
31 9 0.25
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (31 bp):
ATTTTTATTAAAATTTAATAATTTTTTATTG
Found at i:26003028 original size:18 final size:18
Alignment explanation
Indices: 26003005--26003041 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
26002995 TTTTATTTAA
*
26003005 TTTTCTTGAAATTTAATT
1 TTTTCTTGAAAGTTAATT
*
26003023 TTTTCTTGAGAGTTAATT
1 TTTTCTTGAAAGTTAATT
26003041 T
1 T
26003042 CTCATAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.05, G:0.11, T:0.59
Consensus pattern (18 bp):
TTTTCTTGAAAGTTAATT
Found at i:26004340 original size:22 final size:22
Alignment explanation
Indices: 26004315--26004365 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
26004305 AATTTTCTTG
*
26004315 CTATTTTTTTACTGTTTTACT-A
1 CTATTTTCTTACTGTTTT-CTCA
**
26004337 CTATTTTCTTGTTGTTTTCTCA
1 CTATTTTCTTACTGTTTTCTCA
26004359 CTATTTT
1 CTATTTT
26004366 GCTACTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.14, C:0.16, G:0.06, T:0.65
Consensus pattern (22 bp):
CTATTTTCTTACTGTTTTCTCA
Found at i:26004371 original size:33 final size:33
Alignment explanation
Indices: 26004306--26004385 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
26004296 GAAAACTTCA
* * * *
26004306 ATTTTCTTGCTATTTTTTTACTGTTTTACTACT
1 ATTTTCTTGTTATTTTCTCACTATTTTACTACT
* *
26004339 ATTTTCTTGTTGTTTTCTCACTATTTTGCTACT
1 ATTTTCTTGTTATTTTCTCACTATTTTACTACT
*
26004372 ATTTTGTTGTTATT
1 ATTTTCTTGTTATT
26004386 ATTTGGATAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.14, C:0.14, G:0.09, T:0.64
Consensus pattern (33 bp):
ATTTTCTTGTTATTTTCTCACTATTTTACTACT
Found at i:26004906 original size:60 final size:60
Alignment explanation
Indices: 26004842--26004962 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
26004832 TTTAATTTCA
26004842 CACTTAAGATTTCAATTTTTCTCTTGTTCAGGTTTGTATAGCTTGCCTGTTGCCGCTCTT
1 CACTTAAGATTTCAATTTTTCTCTTGTTCAGGTTTGTATAGCTTGCCTGTTGCCGCTCTT
26004902 CACTTAAGATTTCAATTTTTCTCTTGTTCAGGTTTGTATAGCTTGCCTGTTGCCGCTCTT
1 CACTTAAGATTTCAATTTTTCTCTTGTTCAGGTTTGTATAGCTTGCCTGTTGCCGCTCTT
26004962 C
1 C
26004963 CTCGTCCCGA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (60 bp):
CACTTAAGATTTCAATTTTTCTCTTGTTCAGGTTTGTATAGCTTGCCTGTTGCCGCTCTT
Found at i:26019357 original size:21 final size:22
Alignment explanation
Indices: 26019332--26019383 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
26019322 AAAGTCTCAC
26019332 AAATAAAATAAAA-ACAACT-A
1 AAATAAAATAAAAGACAACTGA
26019352 ACAATAAAATAAAAGTACAACTGA
1 A-AATAAAATAAAAG-ACAACTGA
26019376 AAATAAAA
1 AAATAAAA
26019384 ATTAAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 1 0.04
21 12 0.43
23 13 0.46
24 2 0.07
ACGTcount: A:0.71, C:0.10, G:0.04, T:0.15
Consensus pattern (22 bp):
AAATAAAATAAAAGACAACTGA
Found at i:26019405 original size:21 final size:20
Alignment explanation
Indices: 26019375--26019415 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
26019365 AGTACAACTG
*
26019375 AAAATAAAAATTAAAATAAA
1 AAAATAAAAACTAAAATAAA
26019395 AAAACTAAAAACTAAAATAAA
1 AAAA-TAAAAACTAAAATAAA
26019416 TCAGTGATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAATAAAAACTAAAATAAA
Found at i:26021517 original size:21 final size:21
Alignment explanation
Indices: 26021490--26021533 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
26021480 AATTTTTTTC
*
26021490 AATTTTTTAAATAATAAAAATA
1 AATTTTGT-AATAATAAAAATA
26021512 AATTTTGTAATAATAAAAATA
1 AATTTTGTAATAATAAAAATA
26021533 A
1 A
26021534 TATGAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTTGTAATAATAAAAATA
Found at i:26021554 original size:9 final size:9
Alignment explanation
Indices: 26021528--26021577 Score: 64
Period size: 9 Copynumber: 5.3 Consensus size: 9
26021518 GTAATAATAA
*
26021528 AAATAATAT
1 AAATAAAAT
26021537 GAAAGTAAAAT
1 -AAA-TAAAAT
26021548 AAATAAAAT
1 AAATAAAAT
*
26021557 AAATAAAAG
1 AAATAAAAT
26021566 AAATAAAAT
1 AAATAAAAT
26021575 AAA
1 AAA
26021578 AACACTTGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
9 25 0.69
10 6 0.17
11 5 0.14
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (9 bp):
AAATAAAAT
Found at i:26029637 original size:14 final size:14
Alignment explanation
Indices: 26029618--26029646 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
26029608 TTGGTAGTCC
26029618 ACAATGATCTAAAA
1 ACAATGATCTAAAA
26029632 ACAATGATCTAAAA
1 ACAATGATCTAAAA
26029646 A
1 A
26029647 GGGATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.21
Consensus pattern (14 bp):
ACAATGATCTAAAA
Found at i:26033363 original size:129 final size:129
Alignment explanation
Indices: 26033190--26033450 Score: 362
Period size: 129 Copynumber: 2.0 Consensus size: 129
26033180 AATTGAATAA
* *
26033190 TCTAAAGTAATTTTCTCTTTCTTTCAACCAAAAGAAACCTTTTTATTCTAATTACAACCCAAAAA
1 TCTAAAGTAATTTTCTCTTTCTCTCAACCAAAAGAAACCTTTTTACTCTAATTACAACCCAAAAA
* * * *
26033255 TTATGCCCAAAATGCCCTTCAGTGTGTA-TTTTTTAGTGGTGTTGGAGTTGGACAAGAACTACC
66 TTATGCCCAAAATGCCCCTCAGCGTGTATTTTTTTAGTAGTGTTGGAGTTAGACAAGAACTACC
* * ** * *
26033318 TCTACAGTCAATTTTTTCTTTCTCTCAACCAAAAGAAGGCTTTTTACTCTGATTACAACCTAAAA
1 TCTAAAGT-AATTTTCTCTTTCTCTCAACCAAAAGAAACCTTTTTACTCTAATTACAACCCAAAA
* * * *
26033383 ATTTTGCCCAAAATGCCCCTCAGCGTGTATTTTTTTATTAGTGTTGGAGTTAGACAAGGATTACC
65 ATTATGCCCAAAATGCCCCTCAGCGTGTATTTTTTTAGTAGTGTTGGAGTTAGACAAGAACTACC
26033448 TCT
1 TCT
26033451 GGAATTAATT
Statistics
Matches: 115, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
128 7 0.06
129 75 0.65
130 33 0.29
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (129 bp):
TCTAAAGTAATTTTCTCTTTCTCTCAACCAAAAGAAACCTTTTTACTCTAATTACAACCCAAAAA
TTATGCCCAAAATGCCCCTCAGCGTGTATTTTTTTAGTAGTGTTGGAGTTAGACAAGAACTACC
Found at i:26045642 original size:14 final size:14
Alignment explanation
Indices: 26045625--26045666 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
26045615 TTATGTAATT
*
26045625 TATATAAAATTAAA
1 TATATAACATTAAA
26045639 TATATAACATTATAA
1 TATATAACATTA-AA
26045654 TATA-AACATTAAA
1 TATATAACATTAAA
26045667 AAGACACATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 2 0.08
14 18 0.69
15 6 0.23
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (14 bp):
TATATAACATTAAA
Found at i:26047986 original size:26 final size:26
Alignment explanation
Indices: 26047950--26048001 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
26047940 TGAACACTTA
26047950 TTAAGAATGACTTTTGCTACTGAGTT
1 TTAAGAATGACTTTTGCTACTGAGTT
26047976 TTAAGAATGACTTTTGCTACTGAGTT
1 TTAAGAATGACTTTTGCTACTGAGTT
26048002 GATGTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (26 bp):
TTAAGAATGACTTTTGCTACTGAGTT
Found at i:26049266 original size:2 final size:2
Alignment explanation
Indices: 26049259--26049313 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
26049249 TCAGGTTCCT
26049259 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
26049301 TC TC TC TC TC TC T
1 TC TC TC TC TC TC T
26049314 GTGTGTGTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:26049318 original size:2 final size:2
Alignment explanation
Indices: 26049313--26049337 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
26049303 TCTCTCTCTC
26049313 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
26049338 TCAAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:26051773 original size:52 final size:52
Alignment explanation
Indices: 26051695--26051798 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
26051685 TTACAGCTTG
26051695 ATCTGACATATGGTGAGAACCAGTTAGAATTTTGGCTTGGGAGGTGAAAGAA
1 ATCTGACATATGGTGAGAACCAGTTAGAATTTTGGCTTGGGAGGTGAAAGAA
26051747 ATCTGACATATGGTGAGAACCAGTTAGAATTTTGGCTTGGGAGGTGAAAGAA
1 ATCTGACATATGGTGAGAACCAGTTAGAATTTTGGCTTGGGAGGTGAAAGAA
26051799 CTGTGAAACA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.27
Consensus pattern (52 bp):
ATCTGACATATGGTGAGAACCAGTTAGAATTTTGGCTTGGGAGGTGAAAGAA
Found at i:26062304 original size:17 final size:17
Alignment explanation
Indices: 26062282--26062322 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
26062272 AGCGTTTGAT
26062282 CAAAAACACGAAAAACC
1 CAAAAACACGAAAAACC
**
26062299 CAAAAACTTGAAAAACC
1 CAAAAACACGAAAAACC
26062316 CAAAAAC
1 CAAAAAC
26062323 TCAACAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.63, C:0.27, G:0.05, T:0.05
Consensus pattern (17 bp):
CAAAAACACGAAAAACC
Found at i:26062323 original size:17 final size:17
Alignment explanation
Indices: 26062291--26062323 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
26062281 TCAAAAACAC
26062291 GAAAAACCCAAAAACTT
1 GAAAAACCCAAAAACTT
26062308 GAAAAACCCAAAAACT
1 GAAAAACCCAAAAACT
26062324 CAACAATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.61, C:0.24, G:0.06, T:0.09
Consensus pattern (17 bp):
GAAAAACCCAAAAACTT
Found at i:26062964 original size:13 final size:11
Alignment explanation
Indices: 26062936--26062978 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
26062926 AGTTAAAAAC
26062936 TATTTTATTAA
1 TATTTTATTAA
26062947 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
26062960 TA-TTTATTAT
1 TATTTTATTAA
26062970 TATTTTATT
1 TATTTTATT
26062979 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:26062965 original size:23 final size:23
Alignment explanation
Indices: 26062939--26062982 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
26062929 TAAAAACTAT
26062939 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
26062962 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
26062983 AAATGGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:26070347 original size:18 final size:18
Alignment explanation
Indices: 26070310--26070347 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
26070300 TAAATTATGA
26070310 ATTTAAAATATTAGTTGTT
1 ATTTAAAATATTA-TTGTT
26070329 ATTTAAAAGTATT-TTGTT
1 ATTTAAAA-TATTATTGTT
26070347 A
1 A
26070348 AGTGATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 8 0.44
20 4 0.22
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (18 bp):
ATTTAAAATATTATTGTT
Found at i:26070892 original size:29 final size:29
Alignment explanation
Indices: 26070832--26070959 Score: 175
Period size: 29 Copynumber: 4.4 Consensus size: 29
26070822 TCATCAACCA
* **
26070832 ATGAAAAGGGATAGCTTTGTTTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
* * *
26070861 ATGAAAAGGGATAACTTCGGCTATTGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
*
26070890 ATGAAAAGGGATAGCTTCGGCTATAGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
* *
26070919 ATGAAAAGGGATAGCTTTGGCTGTCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
26070948 ATGAAAAGGGAT
1 ATGAAAAGGGAT
26070960 GGTGACGACC
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 87 1.00
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGATT
Found at i:26071022 original size:29 final size:29
Alignment explanation
Indices: 26070854--26071032 Score: 112
Period size: 29 Copynumber: 6.1 Consensus size: 29
26070844 AGCTTTGTTT
* *** * *
26070854 ATCGATTATGAAAAGGGATAACTTCGGCT
1 ATCGAATATGAAAAGGGATGGTTTCGACC
* * * * *
26070883 ATTGAATATGAAAAGGGATAGCTTCGGCT
1 ATCGAATATGAAAAGGGATGGTTTCGACC
* * * * *
26070912 ATAGATTATGAAAAGGGATAGCTTT-GGCT
1 ATCGAATATGAAAAGGGAT-GGTTTCGACC
* * **
26070941 GTCGATTATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTTTCGACC
26070970 ATC-AACTAATGAAAAGGGATGGTTTCGACC
1 ATCGAA-T-ATGAAAAGGGATGGTTTCGACC
*
26071000 ATCGAATATGAAAAGGGACGGTTAT-GACC
1 ATCGAATATGAAAAGGGATGGTT-TCGACC
26071029 ATCG
1 ATCG
26071033 TTTAGCACAC
Statistics
Matches: 124, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
28 3 0.02
29 92 0.74
30 27 0.22
31 2 0.02
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTTTCGACC
Found at i:26072319 original size:33 final size:33
Alignment explanation
Indices: 26072281--26072357 Score: 145
Period size: 33 Copynumber: 2.3 Consensus size: 33
26072271 TGATTCCTTG
26072281 ATGGTTGGTGTGCTTTTGGCACTTTGATGCTCA
1 ATGGTTGGTGTGCTTTTGGCACTTTGATGCTCA
*
26072314 ATGGTTGGTGTGCTTTTGGCACTTTGATGCTTA
1 ATGGTTGGTGTGCTTTTGGCACTTTGATGCTCA
26072347 ATGGTTGGTGT
1 ATGGTTGGTGT
26072358 TATAAGATCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.12, C:0.12, G:0.32, T:0.44
Consensus pattern (33 bp):
ATGGTTGGTGTGCTTTTGGCACTTTGATGCTCA
Found at i:26078550 original size:45 final size:45
Alignment explanation
Indices: 26078429--26078583 Score: 131
Period size: 45 Copynumber: 3.4 Consensus size: 45
26078419 TCGTAGCGTA
* * * *
26078429 TTTCAGCTATGATCTTAGTC-CTATTTA-CAATGATACCATTGTGTC
1 TTTCAGCTATGGTCTTACTCACT-TTTATC-ATGATTCCATAGTGTC
* * *
26078474 TTTCAACCATGGTCTTACTCACTTTTTTCATGATTCCATAGTGTC
1 TTTCAGCTATGGTCTTACTCACTTTTATCATGATTCCATAGTGTC
* **
26078519 TTTCAGCTATGGTCTTACTTA-TTTTCATCATG-TTACCATAACGT-
1 TTTCAGCTATGGTCTTACTCACTTTT-ATCATGATT-CCATAGTGTC
*
26078563 TTTTAGGCTATGGTCTTACTC
1 TTTCA-GCTATGGTCTTACTC
26078584 GTTTCCGTCA
Statistics
Matches: 90, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
44 10 0.11
45 77 0.86
46 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (45 bp):
TTTCAGCTATGGTCTTACTCACTTTTATCATGATTCCATAGTGTC
Found at i:26087914 original size:7 final size:7
Alignment explanation
Indices: 26087902--26087929 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
26087892 TCATGGTGGC
26087902 AAGGTAT
1 AAGGTAT
26087909 AAGGTAT
1 AAGGTAT
26087916 AAGGTAT
1 AAGGTAT
26087923 AAGGTAT
1 AAGGTAT
26087930 GCGGTGTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (7 bp):
AAGGTAT
Found at i:26100163 original size:3 final size:3
Alignment explanation
Indices: 26100155--26100181 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
26100145 TAGACTCTAA
26100155 TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC
26100182 ACCACATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TAC
Found at i:26103293 original size:21 final size:21
Alignment explanation
Indices: 26103267--26103332 Score: 96
Period size: 21 Copynumber: 3.0 Consensus size: 21
26103257 AAAGGGTATC
26103267 TACAAATTAAATCTCTAAGAT
1 TACAAATTAAATCTCTAAGAT
26103288 TACAAATTAAATCTCTAAGAT
1 TACAAATTAAATCTCTAAGAT
* *
26103309 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATTAAATC-TCTAAGAT
26103332 T
1 T
26103333 GCATATCATA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
21 24 0.59
22 8 0.20
23 9 0.22
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (21 bp):
TACAAATTAAATCTCTAAGAT
Found at i:26103323 original size:22 final size:21
Alignment explanation
Indices: 26103267--26103421 Score: 101
Period size: 19 Copynumber: 7.7 Consensus size: 21
26103257 AAAGGGTATC
* *
26103267 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
26103288 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
26103309 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
26103332 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
26103351 TATATAT--TATATCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
26103370 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
26103389 TATATAT--TATATCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
26103408 TACATATCATATCT
1 TACAAATCATATCT
26103422 AAGATTGTAT
Statistics
Matches: 112, Mismatches: 12, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
17 4 0.04
19 53 0.47
21 30 0.27
22 15 0.13
23 10 0.09
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.39
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:26103371 original size:38 final size:38
Alignment explanation
Indices: 26103324--26103433 Score: 202
Period size: 38 Copynumber: 2.9 Consensus size: 38
26103314 AATCATATCT
26103324 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
26103362 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
* *
26103400 TCTAAGATTACATATCATATCTAAGATTGTATAT
1 TCTAAGATTGCATATCATATCTAAGATTATATAT
26103434 CCCTAAATAT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 70 1.00
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATTATA
Found at i:26103434 original size:19 final size:19
Alignment explanation
Indices: 26103301--26103427 Score: 155
Period size: 19 Copynumber: 6.5 Consensus size: 19
26103291 AAATTAAATC
*
26103301 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
*
26103321 TCTTCTAAGATTGCATATCATA
1 ---TCTAAGATTACATATCATA
* *
26103343 TCTAAGATTATATATTATA
1 TCTAAGATTACATATCATA
*
26103362 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
* *
26103381 TCTAAGATTATATATTATA
1 TCTAAGATTACATATCATA
26103400 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
26103419 TCTAAGATT
1 TCTAAGATT
26103428 GTATATCCCT
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
19 74 0.81
22 7 0.08
23 10 0.11
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:26103952 original size:18 final size:18
Alignment explanation
Indices: 26103913--26103971 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 18
26103903 CTGAAAAAGA
*
26103913 ATTTATAT-TTTTTTATT
1 ATTTATATATTTTTAATT
*
26103930 AATTTATATATTTTTAAAT
1 -ATTTATATATTTTTAATT
*
26103949 ATTT-TTTATTTTTAATT
1 ATTTATATATTTTTAATT
26103966 ATTTAT
1 ATTTAT
26103972 GTTTTTCATG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
17 15 0.43
18 13 0.37
19 7 0.20
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTATATATTTTTAATT
Found at i:26104598 original size:46 final size:46
Alignment explanation
Indices: 26104531--26104624 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
26104521 TATGTGACAC
26104531 CAACTCATTCAGCTCATACATGAATTATAAGAACTAGATTTTGTCA
1 CAACTCATTCAGCTCATACATGAATTATAAGAACTAGATTTTGTCA
26104577 CAACTCATTCAGCTCATACATGAATTATAAGAACTAGATTTTGTCA
1 CAACTCATTCAGCTCATACATGAATTATAAGAACTAGATTTTGTCA
26104623 CA
1 CA
26104625 CCTACAATGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (46 bp):
CAACTCATTCAGCTCATACATGAATTATAAGAACTAGATTTTGTCA
Found at i:26112167 original size:22 final size:22
Alignment explanation
Indices: 26112125--26112169 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
26112115 TATTTAACCC
*
26112125 AAATTAAATTGTATTTAAATTA
1 AAATTAAATTATATTTAAATTA
*
26112147 AAATT-AATTATATTATGAATTA
1 AAATTAAATTATATT-TAAATTA
26112169 A
1 A
26112170 TACACATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (22 bp):
AAATTAAATTATATTTAAATTA
Found at i:26112338 original size:22 final size:21
Alignment explanation
Indices: 26112293--26112338 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
26112283 TGTAAATCTG
**
26112293 TATAAAATAATCAAAATTTGA
1 TATAAAATAATCAAAATTCAA
*
26112314 TATAAAATTAATTAAAATTCAA
1 TATAAAA-TAATCAAAATTCAA
26112336 TAT
1 TAT
26112339 GTTCATAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (21 bp):
TATAAAATAATCAAAATTCAA
Found at i:26116957 original size:22 final size:22
Alignment explanation
Indices: 26116915--26116959 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
26116905 TATTTAACCC
*
26116915 AAATTAAATTGTATTTAAATTA
1 AAATTAAATTATATTTAAATTA
*
26116937 AAATT-AATTATATTATGAATTA
1 AAATTAAATTATATT-TAAATTA
26116959 A
1 A
26116960 TACACATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (22 bp):
AAATTAAATTATATTTAAATTA
Found at i:26117128 original size:22 final size:21
Alignment explanation
Indices: 26117083--26117128 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
26117073 TGTAAATCTG
**
26117083 TATAAAATAATCAAAATTTGA
1 TATAAAATAATCAAAATTCAA
*
26117104 TATAAAATTAATTAAAATTCAA
1 TATAAAA-TAATCAAAATTCAA
26117126 TAT
1 TAT
26117129 GTTCATAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (21 bp):
TATAAAATAATCAAAATTCAA
Found at i:26125050 original size:13 final size:13
Alignment explanation
Indices: 26125032--26125058 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26125022 AGGTCAAGAG
26125032 TTTGGCAGGCTTA
1 TTTGGCAGGCTTA
26125045 TTTGGCAGGCTTA
1 TTTGGCAGGCTTA
26125058 T
1 T
26125059 ATGAGCGGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.30, T:0.41
Consensus pattern (13 bp):
TTTGGCAGGCTTA
Found at i:26128369 original size:15 final size:15
Alignment explanation
Indices: 26128349--26128380 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
26128339 CATTTCACTA
*
26128349 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
26128364 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
26128379 TT
1 TT
26128381 TGCATGCATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:26128645 original size:11 final size:11
Alignment explanation
Indices: 26128631--26128657 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
26128621 GAACCCAAGA
26128631 TGAATTAATTC
1 TGAATTAATTC
26128642 TGAATTAATTC
1 TGAATTAATTC
26128653 TGAAT
1 TGAAT
26128658 CCGTTTGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.44
Consensus pattern (11 bp):
TGAATTAATTC
Found at i:26136494 original size:27 final size:27
Alignment explanation
Indices: 26136414--26136496 Score: 80
Period size: 27 Copynumber: 3.0 Consensus size: 27
26136404 AATAAATAAA
* * *
26136414 ATTTGAAAAAATATTTTACATATTTATT
1 ATTTTAAAAAATAATTTA-ATATATATT
* *
26136442 -TTTTAAAACAAATCATTTAA-ACATATT
1 ATTTT-AAA-AAATAATTTAATATATATT
26136469 ATTTTAAAAAATAATTTAATATATATT
1 ATTTTAAAAAATAATTTAATATATATT
26136496 A
1 A
26136497 ATAGATAAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
26 10 0.23
27 18 0.41
28 8 0.18
29 8 0.18
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.46
Consensus pattern (27 bp):
ATTTTAAAAAATAATTTAATATATATT
Found at i:26137627 original size:20 final size:23
Alignment explanation
Indices: 26137599--26137649 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
26137589 TAACAATAAT
26137599 TCTATAAAAT-TAAA-AAATATA
1 TCTATAAAATATAAATAAATATA
*
26137620 TCTA-AAAATATAAATATATATA
1 TCTATAAAATATAAATAAATATA
*
26137642 TCTTTAAA
1 TCTATAAA
26137650 GTCATAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 5 0.20
21 8 0.32
22 9 0.36
23 3 0.12
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (23 bp):
TCTATAAAATATAAATAAATATA
Found at i:26137951 original size:20 final size:20
Alignment explanation
Indices: 26137905--26137955 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
26137895 AAAAAAACTA
*
26137905 AAAAAATAAAT-TTAAGGAC
1 AAAAAATAAATATTAAGAAC
*
26137924 AAAGAATAAATATTCAA-AAC
1 AAAAAATAAATATT-AAGAAC
26137944 AAAAAATAAATA
1 AAAAAATAAATA
26137956 AATAAACAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 10 0.37
20 15 0.56
21 2 0.07
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.20
Consensus pattern (20 bp):
AAAAAATAAATATTAAGAAC
Found at i:26138257 original size:36 final size:36
Alignment explanation
Indices: 26138210--26138281 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
26138200 ACTCCAGAGT
26138210 TAAAATTTTAATGAACAATGAAGAGGTCTTTATATA
1 TAAAATTTTAATGAACAATGAAGAGGTCTTTATATA
26138246 TAAAATTTTAATGAACAATGAAGAGGTCTTTATATA
1 TAAAATTTTAATGAACAATGAAGAGGTCTTTATATA
26138282 GGATAGCTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (36 bp):
TAAAATTTTAATGAACAATGAAGAGGTCTTTATATA
Found at i:26138636 original size:18 final size:18
Alignment explanation
Indices: 26138613--26138650 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
26138603 TCATTACAGC
26138613 GAACTAAACACGCCATAA
1 GAACTAAACACGCCATAA
26138631 GAACTAAACACGCCATAA
1 GAACTAAACACGCCATAA
26138649 GA
1 GA
26138651 TTTTGTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.26, G:0.13, T:0.11
Consensus pattern (18 bp):
GAACTAAACACGCCATAA
Found at i:26141041 original size:19 final size:19
Alignment explanation
Indices: 26141007--26141045 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
26140997 ACTTGTCTCA
26141007 TGCAATATACCAAAATCATT
1 TGCAATATACCAAAAT-ATT
*
26141027 TGCAATA-ATCAAAATATT
1 TGCAATATACCAAAATATT
26141045 T
1 T
26141046 TCAACATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 7 0.39
20 7 0.39
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.33
Consensus pattern (19 bp):
TGCAATATACCAAAATATT
Found at i:26151473 original size:21 final size:21
Alignment explanation
Indices: 26151426--26151473 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
26151416 TCATAATAGA
*
26151426 TACAAATCATACACAATATTT
1 TACAAATCATACACAATATAT
* * * *
26151447 TTCAAATCATTCATAGTATAT
1 TACAAATCATACACAATATAT
26151468 TACAAA
1 TACAAA
26151474 ATTTACTTAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.35
Consensus pattern (21 bp):
TACAAATCATACACAATATAT
Found at i:26152401 original size:19 final size:19
Alignment explanation
Indices: 26152373--26152411 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
26152363 AAAAAATTAA
* *
26152373 AATAAAATAATATTATTTT
1 AATAAAATAACACTATTTT
*
26152392 AATAATATAACACTATTTT
1 AATAAAATAACACTATTTT
26152411 A
1 A
26152412 CTTTAAAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (19 bp):
AATAAAATAACACTATTTT
Found at i:26161937 original size:13 final size:13
Alignment explanation
Indices: 26161907--26161950 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
26161897 TAATTTTTTA
26161907 ATAA-TATATTAA-
1 ATAATTATA-TAAT
*
26161919 ATAATTGTATAAT
1 ATAATTATATAAT
26161932 ATAATTATATAAT
1 ATAATTATATAAT
26161945 ATAATT
1 ATAATT
26161951 TCAATACTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 7 0.25
13 21 0.75
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (13 bp):
ATAATTATATAAT
Found at i:26165173 original size:14 final size:15
Alignment explanation
Indices: 26165148--26165176 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
26165138 TTAAATTTTT
26165148 TAAAAATAAAATTAA
1 TAAAAATAAAATTAA
26165163 TAAAAAT-AAATTAA
1 TAAAAATAAAATTAA
26165177 AAACTATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAAAATAAAATTAA
Found at i:26165312 original size:22 final size:22
Alignment explanation
Indices: 26165258--26165312 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
26165248 TAATAAATAT
26165258 AAAA-ATTAATAAACATCATTA
1 AAAATATTAATAAACATCATTA
*
26165279 AAAATATT-ATAAAGATTCA-TA
1 AAAATATTAATAAACA-TCATTA
*
26165300 AATATATTAATAA
1 AAAATATTAATAA
26165313 TTTATAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATTAATAAACATCATTA
Found at i:26166213 original size:94 final size:94
Alignment explanation
Indices: 26166082--26166265 Score: 255
Period size: 94 Copynumber: 2.0 Consensus size: 94
26166072 GTCTCGTCTC
* *
26166082 ACATTTACTTTATAAATAAGTGACAACTTGTTTACTATTTTCATTAAAAAGTTAACTTTAATCCC
1 ACATTTACTTTATAAATAAGTGACAACTTCTTCACTATTTTCATTAAAAAGTTAACTTTAATCCC
*
26166147 ACATTGACTA-AGAAATACTCTTATATCTG
66 ACATTGAATAGA-AAATACTCTTATATCTG
* * * * *
26166176 ACATTTA-TCTTATAATTAAGTGATAATTTCTTCACTATTTTCATTAAAAAGTTAATTTTTATCC
1 ACATTTACT-TTATAAATAAGTGACAACTTCTTCACTATTTTCATTAAAAAGTTAACTTTAATCC
*
26166240 CACATTGAATAGAAAATTCTCTTATA
65 CACATTGAATAGAAAATACTCTTATA
26166266 ACTTACTTCT
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
93 1 0.01
94 77 0.97
95 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.42
Consensus pattern (94 bp):
ACATTTACTTTATAAATAAGTGACAACTTCTTCACTATTTTCATTAAAAAGTTAACTTTAATCCC
ACATTGAATAGAAAATACTCTTATATCTG
Found at i:26166515 original size:95 final size:93
Alignment explanation
Indices: 26166343--26166528 Score: 239
Period size: 95 Copynumber: 2.0 Consensus size: 93
26166333 CACCTTGGTG
* *
26166343 AGAGAACACTCTCATGCATACACTTACCTTATAAATCAGTGTAAATTTCTTCATTATTTTTATTA
1 AGAGAACACTCTCATACATACACTTACCTTATAAATAAGTGTAAATTTCTTCATTATTTTTATTA
* * *
26166408 AATAGTTAATTTTTAATCACACGTTGACT
66 AAAAATTAA-TTTTAATCACACATTGACT
* * * *
26166437 AGAGAACACTCTCATATATCACATTTACTTTATAAATAAGTG-ATAATTTCTTTATTATTTTTAT
1 AGAGAACACTCTCATACAT-ACACTTACCTTATAAATAAGTGTA-AATTTCTTCATTATTTTTAT
* *
26166501 TAAAAAATTCATTTTAATCTCACATTGA
64 TAAAAAATTAATTTTAATCACACATTGA
26166529 TTTAACAATA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
94 33 0.42
95 46 0.58
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (93 bp):
AGAGAACACTCTCATACATACACTTACCTTATAAATAAGTGTAAATTTCTTCATTATTTTTATTA
AAAAATTAATTTTAATCACACATTGACT
Found at i:26169785 original size:13 final size:13
Alignment explanation
Indices: 26169767--26169791 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26169757 TAATTTATAT
26169767 GTGTGAAAATTTC
1 GTGTGAAAATTTC
26169780 GTGTGAAAATTT
1 GTGTGAAAATTT
26169792 TATTGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:26171606 original size:3 final size:3
Alignment explanation
Indices: 26171598--26171625 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
26171588 AATATCATTC
26171598 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
26171626 AAACAACATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:26173428 original size:19 final size:19
Alignment explanation
Indices: 26173406--26173444 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
26173396 TTATACCAAC
26173406 TTTTTAATTTA-ATACATTA
1 TTTTTAATTTATATA-ATTA
*
26173425 TTTTTATTTTATATAATTA
1 TTTTTAATTTATATAATTA
26173444 T
1 T
26173445 ATCCATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTAATTTATATAATTA
Found at i:26173808 original size:21 final size:21
Alignment explanation
Indices: 26173757--26173808 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
26173747 ACAATCTTTT
*
26173757 TTTTTATGAACTTTTTAATAA
1 TTTTTATAAACTTTTTAATAA
26173778 TTTATT-TAAACTTTTTGAAT-A
1 TTT-TTATAAACTTTTT-AATAA
26173799 TTTTTATAAA
1 TTTTTATAAA
26173809 ATTTAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 2 0.07
21 20 0.74
22 5 0.19
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTTTATAAACTTTTTAATAA
Found at i:26174351 original size:41 final size:42
Alignment explanation
Indices: 26174224--26174353 Score: 129
Period size: 43 Copynumber: 3.1 Consensus size: 42
26174214 CATTATGGTA
* * ** * *
26174224 TTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGATCGTGACC
1 TTTAGCGGCACTTATAATACAAACGCCGCTAAA-AACGTGACT
* * *
26174267 TTTAGCGGCGCTTCTAATACAAACGCCGCTATAAAA-GTTACT
1 TTTAGCGGCACTTATAATACAAACGCCGCTA-AAAACGTGACT
* *
26174309 TTTAGCGGCACTTAT-TTACAAACGCCGCTAAAAACATGACT
1 TTTAGCGGCACTTATAATACAAACGCCGCTAAAAACGTGACT
26174350 TTTA
1 TTTA
26174354 AAAATAATTA
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 4 0.05
41 22 0.30
42 17 0.23
43 29 0.39
44 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (42 bp):
TTTAGCGGCACTTATAATACAAACGCCGCTAAAAACGTGACT
Found at i:26176479 original size:5 final size:5
Alignment explanation
Indices: 26176469--26176494 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
26176459 ACTTGGTTTG
26176469 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
26176495 CAAATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:26179340 original size:12 final size:11
Alignment explanation
Indices: 26179323--26179384 Score: 56
Period size: 12 Copynumber: 5.5 Consensus size: 11
26179313 AAAATTATTT
26179323 TATTTAAACTAA
1 TATTTAAA-TAA
26179335 TATTTAAAT-A
1 TATTTAAATAA
**
26179345 TATTTATTAATTC
1 TATTTA--AATAA
26179358 TATTTAAACTAA
1 TATTTAAA-TAA
26179370 TATTTAAAT-A
1 TATTTAAATAA
26179380 TATTT
1 TATTT
26179385 TAATTAAACT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
10 13 0.30
11 4 0.09
12 20 0.47
13 6 0.14
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.52
Consensus pattern (11 bp):
TATTTAAATAA
Found at i:26179365 original size:23 final size:24
Alignment explanation
Indices: 26179335--26179420 Score: 97
Period size: 23 Copynumber: 3.6 Consensus size: 24
26179325 TTTAAACTAA
26179335 TATTTAAA-TATATTTATTAATTC
1 TATTTAAACTATATTTATTAATTC
* *
26179358 TATTTAAACTAATATTTAAATATATTT
1 TATTTAAACT-ATATTT-ATTA-ATTC
*
26179385 TAATTAAACT-TATTTATTAATTC
1 TATTTAAACTATATTTATTAATTC
26179408 TATTTAAA-TATAT
1 TATTTAAACTATAT
26179421 CAAATGGTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
22 1 0.02
23 21 0.40
24 4 0.08
25 11 0.21
26 3 0.06
27 12 0.23
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (24 bp):
TATTTAAACTATATTTATTAATTC
Found at i:26179371 original size:27 final size:26
Alignment explanation
Indices: 26179341--26179415 Score: 68
Period size: 27 Copynumber: 3.0 Consensus size: 26
26179331 CTAATATTTA
26179341 AATATATTTATTAATTCTATTTAAAC
1 AATATATTTATTAATTCTATTTAAAC
* * * *
26179367 TAATAT-TTAAATATATTTTAATTAAAC
1 -AATATATTTATTA-ATTCTATTTAAAC
26179394 --T-TATTTATTAATTCTATTTAAA
1 AATATATTTATTAATTCTATTTAAA
26179416 TATATCAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
23 11 0.29
24 6 0.16
26 5 0.13
27 16 0.42
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (26 bp):
AATATATTTATTAATTCTATTTAAAC
Found at i:26179383 original size:22 final size:21
Alignment explanation
Indices: 26179323--26179384 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 21
26179313 AAAATTATTT
26179323 TATTTAAACTAATATTTAAATA
1 TATTTAAACT-ATATTTAAATA
* *
26179345 TATTTATTAATTCTATTTAAACTAA
1 TATTTA--AACTATATTTAAA-T-A
26179370 TATTTAAA-TATATTT
1 TATTTAAACTATATTT
26179385 TAATTAAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
22 12 0.36
23 10 0.30
24 4 0.12
25 7 0.21
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.52
Consensus pattern (21 bp):
TATTTAAACTATATTTAAATA
Found at i:26179686 original size:7 final size:7
Alignment explanation
Indices: 26179666--26179713 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
26179656 AACCTTAAAT
26179666 CCCTAAC
1 CCCTAAC
* *
26179673 TCTTAAC
1 CCCTAAC
26179680 CCCTAAC
1 CCCTAAC
**
26179687 GTCTAAC
1 CCCTAAC
26179694 CCCTAAC
1 CCCTAAC
26179701 CCCTAAC
1 CCCTAAC
*
26179708 CTCTAA
1 CCCTAA
26179714 ACCTTAAATC
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.29, C:0.46, G:0.02, T:0.23
Consensus pattern (7 bp):
CCCTAAC
Found at i:26179979 original size:14 final size:15
Alignment explanation
Indices: 26179945--26179983 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
26179935 CCAACCCCTG
*
26179945 AATCCCTAAATCCTA
1 AATCCCTAACTCCTA
*
26179960 AATCCCTAACT-CTT
1 AATCCCTAACTCCTA
26179974 AATCCCTAAC
1 AATCCCTAAC
26179984 GTCTAACCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.28
Consensus pattern (15 bp):
AATCCCTAACTCCTA
Found at i:26180033 original size:21 final size:21
Alignment explanation
Indices: 26179988--26180083 Score: 63
Period size: 21 Copynumber: 4.4 Consensus size: 21
26179978 CCTAACGTCT
*
26179988 AACCTCTAAACTCCTAACCCCTA
1 AACCT-TAAA-TCCCAACCCCTA
*
26180011 AACCTTAAATCCCAACCCTTA
1 AACCTTAAATCCCAACCCCTA
* * *
26180032 AACCAT-AATCCCTAATCCATA
1 AACCTTAAATCCC-AACCCCTA
*
26180053 ATTCC-TAAAT-CCATACTCCCTA
1 A-ACCTTAAATCCCA-AC-CCCTA
26180075 AACCTTAAA
1 AACCTTAAA
26180084 ATAGTAACTC
Statistics
Matches: 58, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
20 7 0.12
21 28 0.48
22 18 0.31
23 5 0.09
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (21 bp):
AACCTTAAATCCCAACCCCTA
Found at i:26180051 original size:14 final size:14
Alignment explanation
Indices: 26180034--26180075 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
26180024 AACCCTTAAA
26180034 CCATAATCCCTAAT
1 CCATAATCCCTAAT
*
26180048 CCATAATTCCTAAAT
1 CCATAATCCCT-AAT
*
26180063 CCATACTCCCTAA
1 CCATAATCCCTAA
26180076 ACCTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:26180063 original size:15 final size:15
Alignment explanation
Indices: 26180030--26180076 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
26180020 TCCCAACCCT
26180030 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
26180044 T-AATCCATAATTCC
1 TAAATCCATAATCCC
*
26180058 TAAATCCATACTCCC
1 TAAATCCATAATCCC
26180073 TAAA
1 TAAA
26180077 CCTTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:26180128 original size:298 final size:297
Alignment explanation
Indices: 26179578--26180148 Score: 939
Period size: 298 Copynumber: 1.9 Consensus size: 297
26179568 TTCAATATAT
* *
26179578 ATAAGAACATATTTAAAATATAAACTAAAAAAATAATTAATCTAAACCCAAAACCCTAACTCGAC
1 ATAAGAACATATTTAAAATATAAACTAAAAAAATAATTAATCTAAACCCAAAACCCTAACCCAAC
26179643 CCCTAAATCCCTAAACCTTAAATCCCTAACTCTTAACCCCTAACGTCTAACCCCTAACCCCTAAC
66 CCCTAAATCCCTAAACCTTAAATCCCTAACTCTTAACCCCTAACGTCTAACCCCTAACCCCTAAC
* * *
26179708 CTCTAAACCTTAAATCCCAACCCTTAAACCATAATCTATAATCCATAATCCCTAACTCCATACTC
131 CCCTAAACCTTAAATCCCAACCCTTAAACCATAATCCATAATCCATAATCCCTAAATCCATACTC
* * ** *
26179773 TCTAAACCTTAAAATATGAACTCTTAAACTGGCCTTAAATCTTAAATTAATCATATACCCTAAAC
196 CCTAAACCTTAAAATATGAACTCCTAAACCAGCCTTAAATCTTAAATAAATCATATACCCTAAAC
*
26179838 TAAAAACCCTAAATAAATTTATTATTATCTCTTTTAC
261 CAAAAACCCTAAATAAATTTATTATTATCTCTTTTAC
*
26179875 ATAAGAACATATTTAAAATATAAATTAAAAAAATAATTAATCTAAACCCAAAACCCTAACCCAAC
1 ATAAGAACATATTTAAAATATAAACTAAAAAAATAATTAATCTAAACCCAAAACCCTAACCCAAC
* * * *
26179940 CCCTGAATCCCTAAATCC-TAAATCCCTAACTCTTAATCCCTAACGTCTAACCTCTAAACTCCTA
66 CCCTAAATCCCTAAA-CCTTAAATCCCTAACTCTTAACCCCTAACGTCTAACCCCT-AACCCCTA
* *
26180004 ACCCCTAAACCTTAAATCCCAACCCTTAAACCATAATCCCTAATCCATAATTCCTAAATCCATAC
129 ACCCCTAAACCTTAAATCCCAACCCTTAAACCATAATCCATAATCCATAATCCCTAAATCCATAC
26180069 TCCCTAAACCTTAAAATA-GTAACTCCTAAACCAGCCTTAAATCTTAAATAAATCATATACCCTA
194 TCCCTAAACCTTAAAATATG-AACTCCTAAACCAGCCTTAAATCTTAAATAAATCATATACCCTA
26180133 AACCAAAAACCCTAAA
258 AACCAAAAACCCTAAA
26180149 CTATAGTGAT
Statistics
Matches: 253, Mismatches: 18, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
297 112 0.44
298 141 0.56
ACGTcount: A:0.42, C:0.29, G:0.02, T:0.27
Consensus pattern (297 bp):
ATAAGAACATATTTAAAATATAAACTAAAAAAATAATTAATCTAAACCCAAAACCCTAACCCAAC
CCCTAAATCCCTAAACCTTAAATCCCTAACTCTTAACCCCTAACGTCTAACCCCTAACCCCTAAC
CCCTAAACCTTAAATCCCAACCCTTAAACCATAATCCATAATCCATAATCCCTAAATCCATACTC
CCTAAACCTTAAAATATGAACTCCTAAACCAGCCTTAAATCTTAAATAAATCATATACCCTAAAC
CAAAAACCCTAAATAAATTTATTATTATCTCTTTTAC
Found at i:26180583 original size:40 final size:42
Alignment explanation
Indices: 26180533--26180631 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 42
26180523 TGGGCTTAGG
* * * *
26180533 TTTTTTGCGGCGTTTTTTGGAAAAACA-CCGGTAATGCTC-A
1 TTTTTAGCGGCGTTTTTTGCAAAAAAAGCCGCTAATGCTCTA
*
26180573 TTTTTAGCGGCG-ATTTT-CAAAAAAAGCCGCTAATGCTCTA
1 TTTTTAGCGGCGTTTTTTGCAAAAAAAGCCGCTAATGCTCTA
*
26180613 TTTTTACCGGCGTTTTTTG
1 TTTTTAGCGGCGTTTTTTG
26180632 TCCAAACGTG
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
38 6 0.12
39 15 0.31
40 23 0.48
41 4 0.08
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.39
Consensus pattern (42 bp):
TTTTTAGCGGCGTTTTTTGCAAAAAAAGCCGCTAATGCTCTA
Found at i:26180697 original size:3 final size:3
Alignment explanation
Indices: 26180691--26180731 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
26180681 AAGAAGAAGA
*
26180691 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGA AGG AG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AG
26180732 AGGGCGGTGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:26180795 original size:24 final size:21
Alignment explanation
Indices: 26180744--26180797 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
26180734 GGCGGTGCTG
*
26180744 GAAAAAGAAAAGAAAATGAGA
1 GAAAGAGAAAAGAAAATGAGA
*
26180765 GAAAGAGAATAGAGAAATGAGAAA
1 GAAAGAGAAAAGA-AAATGAG--A
26180789 GAAAGAGAA
1 GAAAGAGAA
26180798 GGAAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 11 0.39
22 7 0.25
24 10 0.36
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.06
Consensus pattern (21 bp):
GAAAGAGAAAAGAAAATGAGA
Found at i:26181155 original size:37 final size:37
Alignment explanation
Indices: 26181104--26181203 Score: 107
Period size: 40 Copynumber: 2.7 Consensus size: 37
26181094 TAGTTTTTAC
* *
26181104 ACTA-TATCATTGTTAGTTATTATTTTTAGT-AAAAC
1 ACTATTATTATTGTTAGTTATTATTTTTAGTAAAAAA
*
26181139 CCTAATTATTATTGTTAGTTAGTATTATTTTTAGTAAAAAA
1 ACT-ATTATTATTGTTAG-T--TATTATTTTTAGTAAAAAA
*
26181180 ACTATTATTATTATTA-TTATTATT
1 ACTATTATTATTGTTAGTTATTATT
26181204 ATTGTTGTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
35 2 0.04
36 8 0.15
37 11 0.20
38 2 0.04
40 25 0.46
41 6 0.11
ACGTcount: A:0.35, C:0.06, G:0.07, T:0.52
Consensus pattern (37 bp):
ACTATTATTATTGTTAGTTATTATTTTTAGTAAAAAA
Found at i:26181184 original size:76 final size:78
Alignment explanation
Indices: 26180983--26181206 Score: 231
Period size: 76 Copynumber: 2.9 Consensus size: 78
26180973 GTTTAGTTAT
* * *
26180983 TAATAATTATTGTTACTTAGTATTATTGTTAGTAAAAAAGTAATATTATTATTATGGTTAGTTAT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAA--ACTATTATTA-T-T-GTTAGTTAT
* **
26181048 CAGGATTAGTAAAAACCC
61 TATTATTAGTAAAAACCC
* **** * * *
26181066 TAATTATTATT-TTAGTTAGTATGATTGTTAGTTTTTACACTA-TATCATTGTTAGTTATTATTT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAAACTATTATTATTGTTAGTTATTATTA
26181129 TTAGT-AAAACCC
66 TTAGTAAAAACCC
* *
26181141 TAATTATTATTGTTAGTTAGTATTATTTTTAGTAAAAAAACTATTATTATTATTA-TTATTATTA
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAAACTATTATTATTGTTAGTTATTATTA
26181205 TT
66 TT
26181207 GTTGTTGTTA
Statistics
Matches: 115, Mismatches: 24, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
75 18 0.16
76 49 0.43
77 10 0.09
78 1 0.01
79 4 0.03
80 3 0.03
82 20 0.17
83 10 0.09
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (78 bp):
TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAAACTATTATTATTGTTAGTTATTATTA
TTAGTAAAAACCC
Found at i:26181188 original size:3 final size:3
Alignment explanation
Indices: 26181182--26181221 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
26181172 GTAAAAAAAC
* * *
26181182 TAT TAT TAT TAT TAT TAT TAT TAT TGT TGT TGT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
26181222 GTGTTAGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:26181222 original size:15 final size:15
Alignment explanation
Indices: 26181184--26181234 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
26181174 AAAAAAACTA
* * *
26181184 TTATTATTATTATTA
1 TTATTATTGTTGTTG
26181199 TTATTATTGTTGTTG
1 TTATTATTGTTGTTG
26181214 TTATTATTG-TGTTAG
1 TTATTATTGTTGTT-G
26181229 TTATTA
1 TTATTA
26181235 GGATTAGTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
14 4 0.12
15 28 0.88
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.65
Consensus pattern (15 bp):
TTATTATTGTTGTTG
Found at i:26181377 original size:14 final size:15
Alignment explanation
Indices: 26181325--26181385 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 15
26181315 TGAAACATTA
*
26181325 AATTTTTTTATTTAAG
1 AATTTTTTTATTT-TG
* * *
26181341 TAATTTATTTACTGTTC
1 -AATTTTTTTA-TTTTG
26181358 AATTTTTTT-TTTTG
1 AATTTTTTTATTTTG
26181372 AATTTTTTTATTTT
1 AATTTTTTTATTTT
26181386 TTAACAGATT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
14 12 0.34
15 4 0.11
16 8 0.23
17 9 0.26
18 2 0.06
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (15 bp):
AATTTTTTTATTTTG
Found at i:26183583 original size:3 final size:3
Alignment explanation
Indices: 26183575--26183605 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
26183565 ATAAAGAAGG
*
26183575 AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
26183606 TGATTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:26183649 original size:5 final size:6
Alignment explanation
Indices: 26183630--26183687 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
26183620 TTTGGAATTC
* * *
26183630 AAATAA AAATAA AAATAA AACATTAC AAATAG AAATAA AAAGGAA AAATAA
1 AAATAA AAATAA AAATAA AA-A-TAA AAATAA AAATAA AAA-TAA AAATAA
*
26183681 AGATAA A
1 AAATAA A
26183688 CTAAATTGGT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
6 32 0.74
7 7 0.16
8 4 0.09
ACGTcount: A:0.74, C:0.03, G:0.07, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:26183871 original size:27 final size:27
Alignment explanation
Indices: 26183807--26183871 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
26183797 GGTCGAGGGT
*
26183807 CTGCCACAGGCGGCACCAAAGATGCCA
1 CTGCCACAGGCAGCACCAAAGATGCCA
* * * *
26183834 GTGGCAGAGGCAGCACCAAAGGTGCCA
1 CTGCCACAGGCAGCACCAAAGATGCCA
26183861 CTGCCACAGGC
1 CTGCCACAGGC
26183872 GACACTTGTG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.34, G:0.31, T:0.08
Consensus pattern (27 bp):
CTGCCACAGGCAGCACCAAAGATGCCA
Found at i:26183955 original size:3 final size:3
Alignment explanation
Indices: 26183947--26184005 Score: 61
Period size: 3 Copynumber: 20.3 Consensus size: 3
26183937 TCAGCTGCAT
* * *
26183947 GAA GAA GAA GAAA GAA -AA GGA -AA GGA GAA GAA AAA GAA GAA GAA
1 GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
26183991 G-A GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA G
26184006 GAGGAGGAGG
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 5 0.11
3 38 0.83
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:26183994 original size:20 final size:20
Alignment explanation
Indices: 26183947--26184005 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
26183937 TCAGCTGCAT
26183947 GAAGAAGAAGA-AAG-AAAA
1 GAAGAAGAAGAGAAGAAAAA
*
26183965 G--GAA-AGGAGAAGAAAAA
1 GAAGAAGAAGAGAAGAAAAA
*
26183982 GAAGAAGAAGAGAAGAAGAA
1 GAAGAAGAAGAGAAGAAAAA
26184002 GAAG
1 GAAG
26184006 GAGGAGGAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
15 3 0.09
16 6 0.18
17 5 0.15
18 1 0.03
19 3 0.09
20 15 0.45
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (20 bp):
GAAGAAGAAGAGAAGAAAAA
Found at i:26184087 original size:24 final size:21
Alignment explanation
Indices: 26184036--26184089 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
26184026 GGCGGTGCTG
*
26184036 GAAAAAGAAAAGAAAATGAGA
1 GAAAGAGAAAAGAAAATGAGA
*
26184057 GAAAGAGAATAGAGAAATGAGAAA
1 GAAAGAGAAAAGA-AAATGAG--A
26184081 GAAAGAGAA
1 GAAAGAGAA
26184090 GGAAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 11 0.39
22 7 0.25
24 10 0.36
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.06
Consensus pattern (21 bp):
GAAAGAGAAAAGAAAATGAGA
Found at i:26184447 original size:37 final size:37
Alignment explanation
Indices: 26184396--26184495 Score: 107
Period size: 40 Copynumber: 2.7 Consensus size: 37
26184386 TAGTTTTTAC
* *
26184396 ACTA-TATCATTGTTAGTTATTATTTTTAGT-AAAAC
1 ACTATTATTATTGTTAGTTATTATTTTTAGTAAAAAA
*
26184431 CCTAATTATTATTGTTAGTTAGTATTATTTTTAGTAAAAAA
1 ACT-ATTATTATTGTTAG-T--TATTATTTTTAGTAAAAAA
*
26184472 ACTATTATTATTATTA-TTATTATT
1 ACTATTATTATTGTTAGTTATTATT
26184496 ATTGTTGTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
35 2 0.04
36 8 0.15
37 11 0.20
38 2 0.04
40 25 0.46
41 6 0.11
ACGTcount: A:0.35, C:0.06, G:0.07, T:0.52
Consensus pattern (37 bp):
ACTATTATTATTGTTAGTTATTATTTTTAGTAAAAAA
Found at i:26184476 original size:76 final size:78
Alignment explanation
Indices: 26184275--26184498 Score: 231
Period size: 76 Copynumber: 2.9 Consensus size: 78
26184265 GTTTAGTTAT
* * *
26184275 TAATAATTATTGTTACTTAGTATTATTGTTAGTAAAAAAGTAATATTATTATTATGGTTAGTTAT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAA--ACTATTATTA-T-T-GTTAGTTAT
* **
26184340 CAGGATTAGTAAAAACCC
61 TATTATTAGTAAAAACCC
* **** * * *
26184358 TAATTATTATT-TTAGTTAGTATGATTGTTAGTTTTTACACTA-TATCATTGTTAGTTATTATTT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAAACTATTATTATTGTTAGTTATTATTA
26184421 TTAGT-AAAACCC
66 TTAGTAAAAACCC
* *
26184433 TAATTATTATTGTTAGTTAGTATTATTTTTAGTAAAAAAACTATTATTATTATTA-TTATTATTA
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAAACTATTATTATTGTTAGTTATTATTA
26184497 TT
66 TT
26184499 GTTGTTGTTA
Statistics
Matches: 115, Mismatches: 24, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
75 18 0.16
76 49 0.43
77 10 0.09
78 1 0.01
79 4 0.03
80 3 0.03
82 20 0.17
83 10 0.09
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (78 bp):
TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAAACTATTATTATTGTTAGTTATTATTA
TTAGTAAAAACCC
Found at i:26184480 original size:3 final size:3
Alignment explanation
Indices: 26184474--26184513 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
26184464 GTAAAAAAAC
* * *
26184474 TAT TAT TAT TAT TAT TAT TAT TAT TGT TGT TGT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
26184514 GTGTTAGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:26184514 original size:15 final size:15
Alignment explanation
Indices: 26184476--26184526 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
26184466 AAAAAAACTA
* * *
26184476 TTATTATTATTATTA
1 TTATTATTGTTGTTG
26184491 TTATTATTGTTGTTG
1 TTATTATTGTTGTTG
26184506 TTATTATTG-TGTTAG
1 TTATTATTGTTGTT-G
26184521 TTATTA
1 TTATTA
26184527 GGATTAGTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
14 4 0.12
15 28 0.88
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.65
Consensus pattern (15 bp):
TTATTATTGTTGTTG
Done.