Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 114 of 144
Found at i:26555760 original size:34 final size:34
Alignment explanation
Indices: 26555683--26555760 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
26555673 CCAAAGCCTC
* * * *
26555683 TCCCCCATTTCCCTTCCCTCTTCCTCCTTTCTCCT
1 TCCCCC-TTTCCCTTCCCCCTTCCCCCTTCCCCCT
* *
26555718 TTCTCCTTTCCCTTCCCCCTTCCCCCTTCCCCCT
1 TCCCCCTTTCCCTTCCCCCTTCCCCCTTCCCCCT
26555752 TCCCCCTTT
1 TCCCCCTTT
26555761 TTCCTTTCTC
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
34 31 0.89
35 4 0.11
ACGTcount: A:0.01, C:0.58, G:0.00, T:0.41
Consensus pattern (34 bp):
TCCCCCTTTCCCTTCCCCCTTCCCCCTTCCCCCT
Found at i:26555803 original size:48 final size:48
Alignment explanation
Indices: 26555693--26555790 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
26555683 TCCCCCATTT
* *
26555693 CCCTTCCCTCTTCCTCCTTTCTCCTTTCTCCTTTCCCTTCCCCCTTCC
1 CCCTTCCCCCTTCCCCCTTTCTCCTTTCTCCTTTCCCTTCCCCCTTCC
* * *
26555741 CCCTTCCCCCTTCCCCCTTTTTCCTTTCTCCTTTCCCTTTCCCTTTCC
1 CCCTTCCCCCTTCCCCCTTTCTCCTTTCTCCTTTCCCTTCCCCCTTCC
26555789 CC
1 CC
26555791 TTTCTCCTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (48 bp):
CCCTTCCCCCTTCCCCCTTTCTCCTTTCTCCTTTCCCTTCCCCCTTCC
Found at i:26560677 original size:19 final size:21
Alignment explanation
Indices: 26560643--26560681 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
26560633 GAAAAGTACA
26560643 AAAACTAAAAATGATTAAATT
1 AAAACTAAAAATGATTAAATT
26560664 AAAA-TAAAAA-GATTAAAT
1 AAAACTAAAAATGATTAAAT
26560682 CCAAAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 6 0.33
21 4 0.22
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (21 bp):
AAAACTAAAAATGATTAAATT
Found at i:26560687 original size:20 final size:21
Alignment explanation
Indices: 26560643--26560689 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
26560633 GAAAAGTACA
*
26560643 AAAACTAAAAATGATTAAATT
1 AAAACTAAAAATGATTAAATC
26560664 AAAA-TAAAAA-GATTAAATCC
1 AAAACTAAAAATGATTAAAT-C
26560684 AAAACT
1 AAAACT
26560690 TTTATAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 8 0.35
20 10 0.43
21 5 0.22
ACGTcount: A:0.64, C:0.09, G:0.04, T:0.23
Consensus pattern (21 bp):
AAAACTAAAAATGATTAAATC
Found at i:26561553 original size:46 final size:46
Alignment explanation
Indices: 26561480--26561571 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
26561470 CTTGAATCCA
* * ** *
26561480 AGAAGTTGGATTGGATTTGATTGTTGAAGTCTTAGTTGCCAAGAAT
1 AGAAGTTGGATTAGATTAGATCATTGAAGTCTTAGCTGCCAAGAAT
*
26561526 AGAAGTTGGATTAGATTAGATCATTGAAGTCTTAGCTGTCAAGAAT
1 AGAAGTTGGATTAGATTAGATCATTGAAGTCTTAGCTGCCAAGAAT
26561572 CATTGTTTAC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.35
Consensus pattern (46 bp):
AGAAGTTGGATTAGATTAGATCATTGAAGTCTTAGCTGCCAAGAAT
Found at i:26566815 original size:9 final size:9
Alignment explanation
Indices: 26566803--26566900 Score: 151
Period size: 9 Copynumber: 10.9 Consensus size: 9
26566793 TTTTTACAAT
26566803 TCGAATAAC
1 TCGAATAAC
*
26566812 TCGAATAAT
1 TCGAATAAC
26566821 TCGAATAAC
1 TCGAATAAC
*
26566830 TCGAATAAT
1 TCGAATAAC
26566839 TCGAATAAC
1 TCGAATAAC
*
26566848 TCGAATAAT
1 TCGAATAAC
26566857 TCGAATAAC
1 TCGAATAAC
*
26566866 TCGAATAAT
1 TCGAATAAC
26566875 TCGAATAAC
1 TCGAATAAC
*
26566884 TCGAATAAT
1 TCGAATAAC
26566893 TCGAATAA
1 TCGAATAA
26566901 AAGATTAGTA
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 80 1.00
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (9 bp):
TCGAATAAC
Found at i:26566823 original size:18 final size:18
Alignment explanation
Indices: 26566800--26566900 Score: 202
Period size: 18 Copynumber: 5.6 Consensus size: 18
26566790 GAATTTTTAC
26566800 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
26566818 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
26566836 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
26566854 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
26566872 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
26566890 AATTCGAATAA
1 AATTCGAATAA
26566901 AAGATTAGTA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 83 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.28
Consensus pattern (18 bp):
AATTCGAATAACTCGAAT
Found at i:26569479 original size:30 final size:30
Alignment explanation
Indices: 26569445--26569517 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
26569435 TCGTTTGAGC
*
26569445 ACGACGCCGTTTTATTCTGGCTGTCCTTCA
1 ACGACGCCGTTTTATTCTGGCCGTCCTTCA
*
26569475 ACGACGCCGTTTTATTCTGGCCGTCCTTCG
1 ACGACGCCGTTTTATTCTGGCCGTCCTTCA
*
26569505 ACGCCGCCGTTTT
1 ACGACGCCGTTTT
26569518 TGTGCACAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.11, C:0.33, G:0.22, T:0.34
Consensus pattern (30 bp):
ACGACGCCGTTTTATTCTGGCCGTCCTTCA
Found at i:26571209 original size:17 final size:17
Alignment explanation
Indices: 26571186--26571232 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 17
26571176 GACAATATAG
26571186 TTAATAATTTTTTC-TA
1 TTAATAATTTTTTCATA
26571202 TATAATAATATTTATTCATA
1 T-TAATAAT-TTT-TTCATA
26571222 TTAA-AATTTTT
1 TTAATAATTTTT
26571233 AACAATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
16 2 0.07
17 10 0.37
18 6 0.22
19 6 0.22
20 3 0.11
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAATAATTTTTTCATA
Found at i:26571413 original size:2 final size:2
Alignment explanation
Indices: 26571406--26571431 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
26571396 TCTTCCACGT
26571406 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
26571432 CACTTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:26577924 original size:21 final size:20
Alignment explanation
Indices: 26577876--26577928 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
26577866 TTATAAATAT
*
26577876 TTTTGAA-TTTTAAAAATTA
1 TTTTGAATTTTTGAAAATTA
**
26577895 TTTCCAATTTTTGAAAATTA
1 TTTTGAATTTTTGAAAATTA
26577915 TTTTGTAATTTTTG
1 TTTTG-AATTTTTG
26577929 TTAAGAGAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 5 0.19
20 14 0.52
21 8 0.30
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.57
Consensus pattern (20 bp):
TTTTGAATTTTTGAAAATTA
Found at i:26581030 original size:17 final size:17
Alignment explanation
Indices: 26581008--26581048 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
26580998 CCCAATGAGA
26581008 TAAATTTAGTTTT-AAAT
1 TAAATTTA-TTTTGAAAT
*
26581025 TAAATTTATTTTGAATT
1 TAAATTTATTTTGAAAT
26581042 TAAATTT
1 TAAATTT
26581049 GCATAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (17 bp):
TAAATTTATTTTGAAAT
Found at i:26581778 original size:3 final size:3
Alignment explanation
Indices: 26581765--26581800 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
26581755 CCAAAACTTT
*
26581765 TAA TAAA TAA TAA TAA TAA TAA TAA TAT TAA TAA TA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
26581801 TTATTAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:26581805 original size:12 final size:12
Alignment explanation
Indices: 26581770--26581807 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
26581760 ACTTTTAATA
*
26581770 AATAATAATAAT
1 AATAATAATATT
26581782 AATAATAATATT
1 AATAATAATATT
*
26581794 AATAATATTATT
1 AATAATAATATT
26581806 AA
1 AA
26581808 ATAAAAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AATAATAATATT
Found at i:26583057 original size:28 final size:27
Alignment explanation
Indices: 26582965--26583221 Score: 112
Period size: 29 Copynumber: 8.9 Consensus size: 27
26582955 CAAAAATTGT
* **
26582965 ATTTTGACCCCGAAACTTTCAAAAATTAAA
1 ATTTT-ACCCCG-AACTTTCCAAAA-TACC
* * * *
26582995 ATTTTGCCCTCGAGCTTTTCAAAATTACG
1 ATTTTACCC-CGAACTTTCCAAAA-TACC
* *
26583024 TTTTTACTCCCGAACTTTCCAAAATCCC
1 ATTTTAC-CCCGAACTTTCCAAAATACC
26583052 ATTTTAACCCC-AA-TTTCACCAAAAATTACC
1 ATTTT-ACCCCGAACTTT--CC-AAAA-TACC
* *
26583082 ATTTTACCCCTGAGCTTTCCAAAATTCC
1 ATTTTACCCC-GAACTTTCCAAAATACC
26583110 ATTTTTAACCCCG-A-TTTCACCAAAAATTACC
1 A-TTTT-ACCCCGAACTTT--CC-AAAA-TACC
* *
26583141 A-TTTATCCCCGAAGTTTCCAAAATTCC
1 ATTTTA-CCCCGAACTTTCCAAAATACC
* * * *
26583168 ATTTTAACTCG-ATTTTACCAAAAATTACT
1 ATTTTACCCCGAACTTT-CC-AAAA-TACC
26583197 ATTTTACCCTCGAACTTTCCAAAAT
1 ATTTTACCC-CGAACTTTCCAAAAT
26583222 TCCGTTTTTG
Statistics
Matches: 175, Mismatches: 27, Indels: 52
0.69 0.11 0.20
Matches are distributed among these distances:
26 7 0.04
27 14 0.08
28 29 0.17
29 77 0.44
30 33 0.19
31 12 0.07
32 3 0.02
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (27 bp):
ATTTTACCCCGAACTTTCCAAAATACC
Found at i:26583138 original size:59 final size:58
Alignment explanation
Indices: 26583015--26583323 Score: 319
Period size: 59 Copynumber: 5.3 Consensus size: 58
26583005 CGAGCTTTTC
** * *
26583015 AAAATTACGTTTTTACTCCCGAACTTTCCAAAATCCCA-TTTTAACCCCAATTTCACCA
1 AAAATTACCATTTTAC-CCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
*
26583073 AAAATTACCATTTTACCCCTGAGCTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCC-GAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * *
26583132 AAAATTACCA-TTTATCCCCGAAGTTTCCAAAATTCCA-TTTTAA-CTCGATTTTACCA
1 AAAATTACCATTTTA-CCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
* * *
26583188 AAAATTACTATTTTACCCTCGAACTTTCCAAAATTCCGTTTTTGAA-CCCGATTTTACCA
1 AAAATTACCATTTTACCC-CGAACTTTCCAAAATTCCATTTTT-AACCCCGATTTCACCA
* * * * ** * *
26583247 AAAATTATCATTGTACCCCCGAACCTTT-TAAAATCCCATTTTTAATCCCAAATTT-TCCT
1 AAAATTACCATTTTA-CCCCGAA-CTTTCCAAAATTCCATTTTTAA-CCCCGATTTCACCA
26583306 AAAATTA-CATTTTACCCC
1 AAAATTACCATTTTACCCC
26583324 CGAAAGTCAA
Statistics
Matches: 216, Mismatches: 24, Indels: 23
0.82 0.09 0.09
Matches are distributed among these distances:
56 23 0.11
57 34 0.16
58 62 0.29
59 84 0.39
60 13 0.06
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:26583221 original size:115 final size:117
Alignment explanation
Indices: 26583032--26583323 Score: 355
Period size: 115 Copynumber: 2.5 Consensus size: 117
26583022 CGTTTTTACT
*
26583032 CCCGAACTTTCCAAAATCCCATTTTAACCCCAATTTCACCAAAAATTACCATTTTACCCCTGAGC
1 CCCGAACTTTCCAAAATCCCATTTTAACCCCAATTTCACCAAAAATTACCATTTTACCCCTGAAC
*
26583097 TTTCCAAAATTCCATTTTT-AACCCCGATTTCACCAAAAATTACCATT-TATC
66 TTTCCAAAATTCCATTTTTGAA-CCCGATTTCACCAAAAATTACCATTGTACC
* * * * * *
26583148 CCCGAAGTTTCCAAAATTCCATTTTAA-CTCGATTTTACCAAAAATTACTATTTTA-CCCTCGAA
1 CCCGAACTTTCCAAAATCCCATTTTAACCCCAATTTCACCAAAAATTACCATTTTACCCCT-GAA
* * *
26583211 CTTTCCAAAATTCCGTTTTTGAACCCGATTTTACCAAAAATTATCATTGTACC
65 CTTTCCAAAATTCCATTTTTGAACCCGATTTCACCAAAAATTACCATTGTACC
* * * *
26583264 CCCGAACCTTT-TAAAATCCCATTTTTAATCCCAAATTT-TCCTAAAATTA-CATTTTACCCC
1 CCCGAA-CTTTCCAAAATCCCA-TTTTAA-CCCCAATTTCACCAAAAATTACCATTTTACCCC
26583324 CGAAAGTCAA
Statistics
Matches: 148, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
114 4 0.03
115 68 0.46
116 44 0.30
117 15 0.10
118 12 0.08
119 5 0.03
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (117 bp):
CCCGAACTTTCCAAAATCCCATTTTAACCCCAATTTCACCAAAAATTACCATTTTACCCCTGAAC
TTTCCAAAATTCCATTTTTGAACCCGATTTCACCAAAAATTACCATTGTACC
Found at i:26585450 original size:3 final size:3
Alignment explanation
Indices: 26585437--26585475 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
26585427 TAAAATTTTG
*
26585437 ATT ATTT ATT ATT ATT ATT ATG ATT ATT ATT ATT ATT AT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
26585476 AAAACAATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:26588275 original size:97 final size:98
Alignment explanation
Indices: 26588105--26588296 Score: 305
Period size: 97 Copynumber: 2.0 Consensus size: 98
26588095 CTTGAAAAAT
*
26588105 GGTATTCAATTATCTCGATTTGAAGAAAAAATCGCGCCTAGCAAGTTAAGGCACAAATTTTCAAA
1 GGTATTCAATTATCTCGATTTGAAGAAAAAATCGCGCCTAGCAAGTTAAGACACAAATTTTCAAA
26588170 ACCAGAAATAAAGGAATATTACCTCAATTTAAG
66 ACCAGAAATAAAGGAATATTACCTCAATTTAAG
* * * *
26588203 GGTATTCGATTATCTCGGTTTGAAG-AAAAATCGTGCCTAGTAAGTTAAGACACAAATTTTCAAA
1 GGTATTCAATTATCTCGATTTGAAGAAAAAATCGCGCCTAGCAAGTTAAGACACAAATTTTCAAA
* * *
26588267 ACCCGAAATAAAGGAATATTGCCTCGATTT
66 ACCAGAAATAAAGGAATATTACCTCAATTT
26588297 TAAATATTTT
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
97 63 0.73
98 23 0.27
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (98 bp):
GGTATTCAATTATCTCGATTTGAAGAAAAAATCGCGCCTAGCAAGTTAAGACACAAATTTTCAAA
ACCAGAAATAAAGGAATATTACCTCAATTTAAG
Found at i:26588619 original size:30 final size:29
Alignment explanation
Indices: 26588556--26588893 Score: 162
Period size: 30 Copynumber: 11.5 Consensus size: 29
26588546 AAAGGGGTCG
* * * *
26588556 AAAATG-AAGTTTCGAAGAGTTTGGGGGTT
1 AAAATGTAATTTTGGAA-AGTTTAGGGGTA
*
26588585 AAAATGCAATTTTGGAAAGTTTTAGGGGTA
1 AAAATGTAATTTTGGAAAG-TTTAGGGGTA
* * * *
26588615 AAAATGTCATTTTAGGAAAATTTA-TGATAA
1 AAAATGTAATTTT-GGAAAGTTTAGGGGT-A
* * * *
26588645 AAACATG-ATTTTTGG-GAGTTCAGGGGCA
1 AAA-ATGTAATTTTGGAAAGTTTAGGGGTA
* *
26588673 AAAATGTGATTTTTGG-AAGTTCA-GGGTCA
1 AAAATGT-AATTTTGGAAAGTTTAGGGGT-A
*
26588702 AAAATGTAATTTTTGAGAAGTTT-GAGGGTA
1 AAAATGTAATTTTGGA-AAGTTTAG-GGGTA
**
26588732 AAAATGTAATTTTTTAGAAGTTT-GGAGG-A
1 AAAATGTAATTTTGGA-AAGTTTAGG-GGTA
* **
26588761 AAAATGTGATTTTTGG-AAGTTTTGAGGGCAA
1 AAAATGT-AATTTTGGAAAG-TTT-AGGGGTA
*
26588792 AAAATGTAATTGTT-AAGAAGTTTAGGGGTA
1 AAAATGTAATT-TTGGA-AAGTTTAGGGGTA
** *
26588822 AAAATG-AATTTTTAAGAAGTTTAGGGGTT
1 AAAATGTAATTTTGGA-AAGTTTAGGGGTA
* * *
26588851 AAAATGTAATTTTAGAAAAGTTT-TGGGTC
1 AAAATGTAATTTT-GGAAAGTTTAGGGGTA
*
26588880 AAAATGTGATTTTG
1 AAAATGTAATTTTG
26588894 AAAAAGTGTA
Statistics
Matches: 248, Mismatches: 36, Indels: 51
0.74 0.11 0.15
Matches are distributed among these distances:
27 3 0.01
28 23 0.09
29 88 0.35
30 102 0.41
31 29 0.12
32 3 0.01
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.35
Consensus pattern (29 bp):
AAAATGTAATTTTGGAAAGTTTAGGGGTA
Found at i:26588872 original size:59 final size:57
Alignment explanation
Indices: 26588573--26588892 Score: 198
Period size: 59 Copynumber: 5.4 Consensus size: 57
26588563 AGTTTCGAAG
* * * * *
26588573 AGTTTGGGGGTTAAAATGCAA-TTTTGGAAAGTTTTAGGGGTAAAAATGTCATTTTAGGAA
1 AGTTT-GGGGTAAAAATGTAATTTTTAG-AAG-TTTAGGGGTAAAAATGTAATTTTAAG-A
* ** * ** * * * * * * **
26588633 AATTTATGATAAAAACATGATTTTTGGGAGTTCAGGGGCAAAAATGTGATTTTTGGA
1 AGTTTGGGGTAAAAATGTAATTTTTAGAAGTTTAGGGGTAAAAATGTAATTTTAAGA
** *
26588690 AGTTCAGGGTCAAAAATGTAATTTTTGAGAAGTTT-GAGGGTAAAAATGTAATTTTTTAGA
1 AGTTTGGGGT-AAAAATGTAATTTTT-AGAAGTTTAG-GGGTAAAAATGTAA-TTTTAAGA
* * **
26588750 AGTTTGGAGG-AAAAATGTGATTTTTGGAAGTTTTGAGGGCAAAAAATGTAATTGTTAAGA
1 AGTTTGG-GGTAAAAATGTAATTTTTAGAAG-TTT-AGGGGTAAAAATGTAATT-TTAAGA
* *
26588810 AGTTTAGGGGTAAAAATG-AATTTTTAAGAAGTTTAGGGGTTAAAATGTAATTTTAGAAA
1 AGTTT-GGGGTAAAAATGTAATTTTT-AGAAGTTTAGGGGTAAAAATGTAATTTTA-AGA
* * *
26588869 AGTTTTGGGTCAAAATGTGATTTT
1 AGTTTGGGGTAAAAATGTAATTTT
26588893 GAAAAAGTGT
Statistics
Matches: 202, Mismatches: 43, Indels: 31
0.73 0.16 0.11
Matches are distributed among these distances:
57 7 0.03
58 52 0.26
59 72 0.36
60 55 0.27
61 16 0.08
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.36
Consensus pattern (57 bp):
AGTTTGGGGTAAAAATGTAATTTTTAGAAGTTTAGGGGTAAAAATGTAATTTTAAGA
Found at i:26588878 original size:29 final size:29
Alignment explanation
Indices: 26588573--26588900 Score: 132
Period size: 29 Copynumber: 11.1 Consensus size: 29
26588563 AGTTTCGAAG
* * * **
26588573 AGTTTGGGGGTTAAAATGCAATTTTGGAA
1 AGTTTAGGGGTAAAAATGTAATTTTAAAA
*
26588602 AGTTTTAGGGGTAAAAATGTCATTTTAGGAAA
1 AG-TTTAGGGGTAAAAATGTAATTTTA--AAA
* * ** * ****
26588634 A-TTTA-TGATAAAAACATGATTTTTGGG
1 AGTTTAGGGGTAAAAATGTAATTTTAAAA
* * * ***
26588661 AGTTCAGGGGCAAAAATGTGATTTTTGGA
1 AGTTTAGGGGTAAAAATGTAATTTTAAAA
* * *
26588690 AGTTCA-GGGTCAAAAATGTAATTTTTGAGA
1 AGTTTAGGGGT-AAAAATGTAA-TTTTAAAA
* *
26588720 AGTTT-GAGGGTAAAAATGTAATTTTTTAGA
1 AGTTTAG-GGGTAAAAATGTAA-TTTTAAAA
* ***
26588750 AGTTT-GGAGG-AAAAATGTGATTTTTGGA
1 AGTTTAGG-GGTAAAAATGTAATTTTAAAA
** *
26588778 AGTTTTGAGGGCAAAAAATGTAATTGTTAAGA
1 AG-TTT-AGGGGTAAAAATGTAATT-TTAAAA
*
26588810 AGTTTAGGGGTAAAAATG-AATTTTTAAGA
1 AGTTTAGGGGTAAAAATGTAA-TTTTAAAA
*
26588839 AGTTTAGGGGTTAAAATGTAATTTTAGAAA
1 AGTTTAGGGGTAAAAATGTAATTTTA-AAA
* * *
26588869 AGTTT-TGGGTCAAAATGTGATTTTGAAAA
1 AGTTTAGGGGTAAAAATGTAATTTT-AAAA
26588898 AGT
1 AGT
26588901 GTAATGGTCA
Statistics
Matches: 239, Mismatches: 41, Indels: 38
0.75 0.13 0.12
Matches are distributed among these distances:
27 1 0.00
28 15 0.06
29 111 0.46
30 83 0.35
31 20 0.08
32 9 0.04
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.35
Consensus pattern (29 bp):
AGTTTAGGGGTAAAAATGTAATTTTAAAA
Found at i:26590105 original size:14 final size:14
Alignment explanation
Indices: 26590088--26590114 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26590078 TAATATAATA
26590088 AATAGATATATGTT
1 AATAGATATATGTT
26590102 AATAGATATATGT
1 AATAGATATATGT
26590115 ATAGTATTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (14 bp):
AATAGATATATGTT
Found at i:26590737 original size:7 final size:6
Alignment explanation
Indices: 26590725--26590839 Score: 55
Period size: 6 Copynumber: 20.0 Consensus size: 6
26590715 TATTTGAGCT
* * *
26590725 TTTAAA GTTTAAA TTT-AA TTTAAA -ATAAA ATTAAA TTTAAA -ATAAA
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * * * * * *
26590771 TTCAAA CTCAAA -ATAAG TTTAAA TTTAAA -ATAAA TTCAAA CTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
26590817 --TAAA TTAAAA TTTAAAA TTTAAA
1 TTTAAA TTTAAA TTT-AAA TTTAAA
26590840 ATTGGGTCCA
Statistics
Matches: 81, Mismatches: 19, Indels: 17
0.69 0.16 0.15
Matches are distributed among these distances:
4 4 0.05
5 19 0.23
6 46 0.57
7 12 0.15
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (6 bp):
TTTAAA
Found at i:26590770 original size:11 final size:12
Alignment explanation
Indices: 26590733--26590835 Score: 51
Period size: 11 Copynumber: 9.2 Consensus size: 12
26590723 CTTTTAAAGT
*
26590733 TTAAATTT-AAT
1 TTAAATTTAAAA
*
26590744 TTAAA-ATAAAA
1 TTAAATTTAAAA
26590755 TTAAATTTAAAA
1 TTAAATTTAAAA
* *
26590767 -TAAATTCAAAC
1 TTAAATTTAAAA
* * **
26590778 TCAAA-ATAAGT
1 TTAAATTTAAAA
26590789 TTAAATTTAAAA
1 TTAAATTTAAAA
* *
26590801 -TAAATTCAAAC
1 TTAAATTTAAAA
26590812 TTAAA--T-AAA
1 TTAAATTTAAAA
26590821 TTAAAATTTAAAA
1 TT-AAATTTAAAA
26590834 TT
1 TT
26590836 TAAAATTGGG
Statistics
Matches: 65, Mismatches: 18, Indels: 16
0.66 0.18 0.16
Matches are distributed among these distances:
9 4 0.06
10 4 0.06
11 36 0.55
12 16 0.25
13 5 0.08
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (12 bp):
TTAAATTTAAAA
Found at i:26590771 original size:16 final size:17
Alignment explanation
Indices: 26590741--26590834 Score: 111
Period size: 17 Copynumber: 5.6 Consensus size: 17
26590731 GTTTAAATTT
26590741 AATTTAAAATAAAATT-A
1 AATTTAAAAT-AAATTCA
26590758 AATTTAAAATAAATTCA
1 AATTTAAAATAAATTCA
* * * *
26590775 AACTCAAAATAAGTTTA
1 AATTTAAAATAAATTCA
26590792 AATTTAAAATAAATTCA
1 AATTTAAAATAAATTCA
* *
26590809 AACTT-AAATAAATTAA
1 AATTTAAAATAAATTCA
26590825 AATTTAAAAT
1 AATTTAAAAT
26590835 TTAAAATTGG
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
16 19 0.30
17 45 0.70
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.34
Consensus pattern (17 bp):
AATTTAAAATAAATTCA
Found at i:26590785 original size:34 final size:33
Alignment explanation
Indices: 26590745--26590834 Score: 128
Period size: 34 Copynumber: 2.7 Consensus size: 33
26590735 AAATTTAATT
26590745 TAAAATAAAATTAAATTTAAAATAAATTCAAAC
1 TAAAATAAAATTAAATTTAAAATAAATTCAAAC
**
26590778 TCAAAATAAGTTTAAATTTAAAATAAATTCAAAC
1 T-AAAATAAAATTAAATTTAAAATAAATTCAAAC
*
26590812 TTAAAT-AAATTAAAATTTAAAAT
1 TAAAATAAAATT-AAATTTAAAAT
26590835 TTAAAATTGG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
32 3 0.06
33 16 0.32
34 31 0.62
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.33
Consensus pattern (33 bp):
TAAAATAAAATTAAATTTAAAATAAATTCAAAC
Found at i:26590791 original size:28 final size:28
Alignment explanation
Indices: 26590729--26590793 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
26590719 TGAGCTTTTA
* * *
26590729 AAGTTTAAATTTAATTTAAAATAAAATT
1 AAGTTTAAAATAAATTCAAAATAAAATT
* *
26590757 AAATTTAAAATAAATTCAAACTCAAAA-T
1 AAGTTTAAAATAAATTCAAAAT-AAAATT
26590785 AAGTTTAAA
1 AAGTTTAAA
26590794 TTTAAAATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
28 26 0.87
29 4 0.13
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (28 bp):
AAGTTTAAAATAAATTCAAAATAAAATT
Found at i:26593790 original size:21 final size:21
Alignment explanation
Indices: 26593759--26593814 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
26593749 AATAGTACAG
*
26593759 ACTTCTACCGATACAAGTGTCT
1 ACTTCTACCGATACAAGTCT-T
* *
26593781 -CTTTTACCGAAACAAGTCTT
1 ACTTCTACCGATACAAGTCTT
26593801 ACTTCTACCGATAC
1 ACTTCTACCGATAC
26593815 TAAAAACTCC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.32
Consensus pattern (21 bp):
ACTTCTACCGATACAAGTCTT
Found at i:26593992 original size:21 final size:21
Alignment explanation
Indices: 26593968--26594007 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
26593958 TACCCTGTAC
* *
26593968 TTCTACCGATACATGTATGGG
1 TTCTACCGAAACAAGTATGGG
*
26593989 TTCTATCGAAACAAGTATG
1 TTCTACCGAAACAAGTATG
26594008 CAAAATCTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (21 bp):
TTCTACCGAAACAAGTATGGG
Found at i:26599518 original size:23 final size:22
Alignment explanation
Indices: 26599470--26599518 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
26599460 ACACGCAAAG
* *
26599470 TATTTTCAACTAGGTTTTTTAC
1 TATTTTCAAATAGGTTTTTAAC
* *
26599492 TATTTTCAAATATTGTTTTTAAT
1 TATTTTCAAATA-GGTTTTTAAC
26599515 TATT
1 TATT
26599519 CACCGAACTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.27, C:0.08, G:0.06, T:0.59
Consensus pattern (22 bp):
TATTTTCAAATAGGTTTTTAAC
Found at i:26604161 original size:12 final size:12
Alignment explanation
Indices: 26604132--26604165 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
26604122 ATATTTGAAA
26604132 TAAATTTAAAATT
1 TAAA-TTAAAATT
26604145 T-AATTAAAATT
1 TAAATTAAAATT
26604156 TAAATTAAAA
1 TAAATTAAAA
26604166 GTCCAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 9 0.45
12 10 0.50
13 1 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAATTAAAATT
Found at i:26604883 original size:3 final size:3
Alignment explanation
Indices: 26604875--26604924 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
26604865 CATTAATGAC
26604875 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
26604923 AA
1 AA
26604925 CCCCTAACTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:26606279 original size:59 final size:59
Alignment explanation
Indices: 26605997--26606278 Score: 368
Period size: 59 Copynumber: 4.8 Consensus size: 59
26605987 CCTGAACTGT
* * * *
26605997 CCAAAAATTACCATTTTACCCTCGAACATTCCAAAATTCCATTTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
* * **
26606056 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAGATTCCATTTTTAACCTTAATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
** *
26606115 CCAAAAATTACCATTTTACCCCATAACTTTCCAAAATTCTATTTTTAACC-CTGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTC-GATTTCA
* * * * *
26606174 CCAAAAAATACCATTTTACCCCCGAACTTTCTAATATTCCACTTTTAACCTCGATTTTA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
***
26606233 CCAAAAATTACCATTTTACCCTTAAACTTTCCAAAATTACCATTTT
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATT-CCATTTT
26606279 ACCCTCGGGT
Statistics
Matches: 193, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
59 186 0.96
60 7 0.04
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.35
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
Found at i:26606279 original size:118 final size:118
Alignment explanation
Indices: 26605997--26606278 Score: 413
Period size: 118 Copynumber: 2.4 Consensus size: 118
26605987 CCTGAACTGT
* * *
26605997 CCAAAAATTACCATTTTACCCTCGAACATTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCTAATTTCACCAAAA
* * *
26606062 ATTACCATTTTACCCCCGAACCTTCCAAGATTCCATTTTTAACCTTAATTTCA
66 AATACCATTTTACCCCCGAACCTTCCAAGATTCCACTTTTAACCTCAATTTCA
* *
26606115 CCAAAAATTACCATTTTACCC-CATAACTTTCCAAAATTCTATTTTTAACCCTGATTTCACCAAA
1 CCAAAAATTACCATTTTACCCTCA-AACTTTCCAAAATTCCATTTTTAACCCTAATTTCACCAAA
* * * * *
26606179 AAATACCATTTTACCCCCGAACTTTCTAATATTCCACTTTTAACCTCGATTTTA
65 AAATACCATTTTACCCCCGAACCTTCCAAGATTCCACTTTTAACCTCAATTTCA
*
26606233 CCAAAAATTACCATTTTACCCTTAAACTTTCCAAAATTACCATTTT
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATT-CCATTTT
26606279 ACCCTCGGGT
Statistics
Matches: 146, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
117 1 0.01
118 138 0.95
119 7 0.05
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.35
Consensus pattern (118 bp):
CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCTAATTTCACCAAAA
AATACCATTTTACCCCCGAACCTTCCAAGATTCCACTTTTAACCTCAATTTCA
Found at i:26618632 original size:76 final size:76
Alignment explanation
Indices: 26618506--26619269 Score: 1199
Period size: 76 Copynumber: 10.0 Consensus size: 76
26618496 AAGGACCAAC
*
26618506 ATCATTTCCTATCCTATTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
26618571 GTAAGAGCAAG
66 GTAAGAGCAAG
26618582 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
26618647 GTAAGAGCAAG
66 GTAAGAGCAAG
* * * *
26618658 ATCATTTCCTATCCTCTTGAAATCGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
26618723 GTAAGAGCAAG
66 GTAAGAGCAAG
* *
26618734 ATCATTTCCTATCTTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
26618799 GTAAGAGCAAG
66 GTAAGAGCAAG
* * * * *
26618810 ATCATTTCCTATCCTCTTGAAATCGTAG-AAGAACTGGATAACAGGTCTTTATCTCTGAAATTGA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAA-AGCTGGATATCAAGTCTTTATCTCTGAAATTGA
* *
26618874 AGTGAGAGCAAT
65 AGTAAGAGCAAG
* * *
26618886 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
*
26618951 GTAAAAGCAAG
66 GTAAGAGCAAG
* *
26618962 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTTTTTATCTTTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
26619027 GTAAGAGCAAG
66 GTAAGAGCAAG
26619038 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
*
26619103 GTAAGAACAAG
66 GTAAGAGCAAG
* * * * * *
26619114 ATCATTTCCTATTCTCTTGGAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTC-AATAATTGA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGA-AATTGA
*
26619178 AGTAAGAGCAAA
65 AGTAAGAGCAAG
* * *
26619190 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTAAGATTG
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCT-GAA-ATTG
26619255 AAGTAAGAGCAAG
64 AAGTAAGAGCAAG
26619268 AT
1 AT
26619270 GAAGCCTCGA
Statistics
Matches: 632, Mismatches: 50, Indels: 10
0.91 0.07 0.01
Matches are distributed among these distances:
75 3 0.00
76 608 0.96
77 2 0.00
78 19 0.03
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (76 bp):
ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
GTAAGAGCAAG
Found at i:26619608 original size:12 final size:12
Alignment explanation
Indices: 26619578--26619611 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
26619568 ATATTTGAAA
26619578 TAAATTTAAAATT
1 TAAA-TTAAAATT
26619591 T-AATTAAAATT
1 TAAATTAAAATT
26619602 TAAATTAAAA
1 TAAATTAAAA
26619612 GTCCAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 9 0.45
12 10 0.50
13 1 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAATTAAAATT
Found at i:26620340 original size:3 final size:3
Alignment explanation
Indices: 26620334--26620384 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
26620324 TAATGACAAC
26620334 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
26620382 AAT
1 AAT
26620385 TAAAGTATTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:26621531 original size:58 final size:59
Alignment explanation
Indices: 26621469--26621921 Score: 571
Period size: 59 Copynumber: 7.8 Consensus size: 59
26621459 CCTGGACTAT
* *** * *
26621469 CCAAAAATTACCATTATACCCTTAAACTTTCC-AAATTCTATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * *
26621527 CCAAAAATTACCATTTTACCCTCGAACTTTCCAAAATTACATTTTTAACCCC-AGTTTCA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGA-TTTCA
* *
26621586 CCAAAAATTACCATTTTACCCTCGAACCTTCCAAAATTCCATTTTTAGCCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
* *
26621645 CCAAAAATTACCATTTTACCCCCGAACCTTCGAAAATTCCATTTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * *
26621704 CCATAAATTACCATTTTA-CCCCAAACCTTCCAAAATTCCA-TTTTAACCTCAATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * *
26621761 CCAAAAATTACCATTTTACCCCCGAACTTTCTAAAATTCCA-TTTTAACCTCGGTTTCA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * *
26621819 CCAAAAATTACCATTTTA-CCCCTAAACTTCCAAAATTCCATTTTTAACCCCGGTTTAA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * *
26621877 CCAAAAATTACCGTTTTGCCCCCG--CGCGTCCAAAATTACCATTTT
1 CCAAAAATTACCATTTTACCCCCGAAC-CTTCCAAAATT-CCATTTT
26621922 GCCCCCATGT
Statistics
Matches: 354, Mismatches: 33, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
57 51 0.14
58 143 0.40
59 159 0.45
60 1 0.00
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.33
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:26621535 original size:30 final size:31
Alignment explanation
Indices: 26621508--26621893 Score: 203
Period size: 29 Copynumber: 13.2 Consensus size: 31
26621498 TCCAAATTCT
26621508 ATTTTTAACCCCGATTTCACCAAAAATTACC
1 ATTTTTAACCCCGATTTCACCAAAAATTACC
26621539 A-TTTT-ACCCTCGAACTTT--CC-AAAATTA-C
1 ATTTTTAACCC-CG-A-TTTCACCAAAAATTACC
26621567 ATTTTTAACCCC-AGTTTCACCAAAAATTACC
1 ATTTTTAACCCCGA-TTTCACCAAAAATTACC
*
26621598 A-TTTT-ACCCTCGAACCTT--CC-AAAATT-CC
1 ATTTTTAACCC-CG-A-TTTCACCAAAAATTACC
*
26621626 ATTTTTAGCCCCGATTTCACCAAAAATTACC
1 ATTTTTAACCCCGATTTCACCAAAAATTACC
* ** ** *
26621657 A-TTTTACCCCCGA-ACCTTCGAAAATT-CC
1 ATTTTTAACCCCGATTTCACCAAAAATTACC
* *
26621685 ATTTTTAACCCCAATTTCACCATAAATTACC
1 ATTTTTAACCCCGATTTCACCAAAAATTACC
* *
26621716 A-TTTT-ACCCCAAACCTT--CC-AAAATT-CC
1 ATTTTTAACCCC-GA-TTTCACCAAAAATTACC
* *
26621743 A-TTTTAACCTCAATTTCACCAAAAATTACC
1 ATTTTTAACCCCGATTTCACCAAAAATTACC
* *
26621773 A-TTTTACCCCCGAACTTT---CTAAAATT-CC
1 ATTTTTAACCCCG-A-TTTCACCAAAAATTACC
* *
26621801 A-TTTTAACCTCGGTTTCACCAAAAATTACC
1 ATTTTTAACCCCGATTTCACCAAAAATTACC
* *
26621831 A-TTTT-ACCCCTAAACTT--CC-AAAATT-CC
1 ATTTTTAACCCC--GATTTCACCAAAAATTACC
* *
26621858 ATTTTTAACCCCGGTTTAACCAAAAATTACC
1 ATTTTTAACCCCGATTTCACCAAAAATTACC
*
26621889 GTTTT
1 ATTTT
26621894 GCCCCCGCGC
Statistics
Matches: 274, Mismatches: 39, Indels: 84
0.69 0.10 0.21
Matches are distributed among these distances:
26 5 0.02
27 20 0.07
28 42 0.15
29 94 0.34
30 83 0.30
31 21 0.08
32 9 0.03
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.33
Consensus pattern (31 bp):
ATTTTTAACCCCGATTTCACCAAAAATTACC
Found at i:26621936 original size:28 final size:28
Alignment explanation
Indices: 26621880--26621939 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
26621870 GGTTTAACCA
* * *
26621880 AAAATTACCGTTTTGCCCCCGCGCGTCC
1 AAAATTACCATTTTGCCCCCACGCATCC
* *
26621908 AAAATTACCATTTTGCCCCCATGTATCC
1 AAAATTACCATTTTGCCCCCACGCATCC
26621936 AAAA
1 AAAA
26621940 GTCTCGTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.27
Consensus pattern (28 bp):
AAAATTACCATTTTGCCCCCACGCATCC
Found at i:26625309 original size:13 final size:13
Alignment explanation
Indices: 26625291--26625326 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
26625281 TATTAAGTCC
26625291 AATTGGACTTGTA
1 AATTGGACTTGTA
*
26625304 AATTGGACATGTA
1 AATTGGACTTGTA
26625317 AATTGGACTT
1 AATTGGACTT
26625327 TATTTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.36
Consensus pattern (13 bp):
AATTGGACTTGTA
Found at i:26625366 original size:6 final size:6
Alignment explanation
Indices: 26625355--26625415 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
26625345 TACAATGATA
* * *
26625355 TTAAAT TTAAAT TTAAA- TTGAAT TTAAAT TTAAA- TTAAAA TTGAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
26625401 TTAAA- ATAAAT TTAA
1 TTAAAT TTAAAT TTAA
26625416 TTTCAAATGG
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
5 13 0.29
6 32 0.71
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:26625369 original size:23 final size:23
Alignment explanation
Indices: 26625355--26625415 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
26625345 TACAATGATA
26625355 TTAAATTTAAATTTAAATTGAAT
1 TTAAATTTAAATTTAAATTGAAT
*
26625378 TTAAATTTAAATTAAAATTGAAT
1 TTAAATTTAAATTTAAATTGAAT
*
26625401 TTAAA-ATAAATTTAA
1 TTAAATTTAAATTTAA
26625416 TTTCAAATGG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 8 0.23
23 27 0.77
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (23 bp):
TTAAATTTAAATTTAAATTGAAT
Found at i:26625378 original size:17 final size:17
Alignment explanation
Indices: 26625354--26625415 Score: 88
Period size: 17 Copynumber: 3.6 Consensus size: 17
26625344 TTACAATGAT
26625354 ATTAAATTTAAATTTAA
1 ATTAAATTTAAATTTAA
*
26625371 ATTGAATTTAAATTTAA
1 ATTAAATTTAAATTTAA
* *
26625388 ATTAAAATTGAATTTAA
1 ATTAAATTTAAATTTAA
*
26625405 AATAAATTTAA
1 ATTAAATTTAA
26625416 TTTCAAATGG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
ATTAAATTTAAATTTAA
Found at i:26625380 original size:11 final size:11
Alignment explanation
Indices: 26625355--26625415 Score: 68
Period size: 11 Copynumber: 5.4 Consensus size: 11
26625345 TACAATGATA
26625355 TTAAATTTAAAT
1 TTAAA-TTAAAT
*
26625367 TTAAATTGAAT
1 TTAAATTAAAT
26625378 TTAAATTTAAAT
1 TTAAA-TTAAAT
* *
26625390 TAAAATTGAAT
1 TTAAATTAAAT
*
26625401 TTAAAATAAAT
1 TTAAATTAAAT
26625412 TTAA
1 TTAA
26625416 TTTCAAATGG
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
11 27 0.66
12 14 0.34
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:26625779 original size:92 final size:92
Alignment explanation
Indices: 26625664--26627284 Score: 2888
Period size: 92 Copynumber: 17.7 Consensus size: 92
26625654 AAAATAGGGT
* * * * *
26625664 TTGATG-TTGAGGCTTCATCTTGCTCTTACTACAACTTCAGAGATATGAAGACTTGTTATCTAAC
1 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
26625728 TTTACTACAACTTCAAGAGGATAGGAA
66 TTTACTACAACTTCAAGAGGATAGGAA
* * * * * *
26625755 TAGATGTTTGAAGCTTCACCTTGCTTTTACTATAACTTCAGAGAGATAAAGACTTGTTATCTAAC
1 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
* *
26625820 TTTACTACAACTTCAAGGGGATAGAAA
66 TTTACTACAACTTCAAGAGGATAGGAA
* * * *
26625847 ATAATGTTTGACGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGTTATCCAAC
1 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
26625912 TTTACTACAACTTCAAGAGGATAGGAA
66 TTTACTACAACTTCAAGAGGATAGGAA
*
26625939 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCTGAGAGATAAAGACTTGCTATCCAAC
1 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
26626004 TTTACTACAACTTCAAGAGGATAGGAA
66 TTTACTACAACTTCAAGAGGATAGGAA
* *
26626031 TTGATGTTTGATGCTTCATCTTGCTCTTACTACAACTTCTGAGAGATAAAGACTTGCTATCCAAC
1 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
26626096 TTTACTACAACTTCAAGAGGATAGGAA
66 TTTACTACAACTTCAAGAGGATAGGAA
*
26626123 TTGATGTTTGATGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
1 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
*
26626188 TTTACTACAACTTCAAGAGGATAAGAA
66 TTTACTACAACTTCAAGAGGATAGGAA
*
26626215 TTGATGTTTGAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
1 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
*
26626280 TTTACTACAATTTCAAGAGGATAGGAA
66 TTTACTACAACTTCAAGAGGATAGGAA
*
26626307 TTGATGTTTGAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
1 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
26626372 TTTACTACAACTTCAAGAGGATAGGAA
66 TTTACTACAACTTCAAGAGGATAGGAA
* *
26626399 TTGATGTTTGATGCTTCATTTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
1 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
26626464 TTTACTACAACTTCAAGAGGATAGGAA
66 TTTACTACAACTTCAAGAGGATAGGAA
26626491 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
1 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
*
26626556 TTTACTATAACTTCAAGAGGATAGGAA
66 TTTACTACAACTTCAAGAGGATAGGAA
*
26626583 TTGATGTTTGATGCTTCATCTTGCTCTTACTACAACTTCAGAGAG--AAAGACTTGCTATCCAAC
1 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
26626646 TTTACTACAACTTCAAGAGGATAGGAA
66 TTTACTACAACTTCAAGAGGATAGGAA
26626673 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
1 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
**
26626738 TTTACTACAACTTCAAGAGGATAAAAA
66 TTTACTACAACTTCAAGAGGATAGGAA
*
26626765 TTGATGTTTGATGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
1 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
26626830 TTTACTACAACTTCAAGAGGATAGGAA
66 TTTACTACAACTTCAAGAGGATAGGAA
*
26626857 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCTGAGAGATAAAGACTTGCTATCCAAC
1 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
26626922 TTTACTACAACTTCAAGAGGATAGGAA
66 TTTACTACAACTTCAAGAGGATAGGAA
*
26626949 TTGATGTTTGATGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
1 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
26627014 TTTACTACAACTTCAAGAGGATAGGAA
66 TTTACTACAACTTCAAGAGGATAGGAA
26627041 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
1 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
*
26627106 TTTACTACAACTTCAAGAGGATAAGAA
66 TTTACTACAACTTCAAGAGGATAGGAA
*
26627133 TTGATGTTTGAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
1 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
*
26627198 TTTACTACAATTTCAAGAGGATAGGAA
66 TTTACTACAACTTCAAGAGGATAGGAA
26627225 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTAT
1 TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTAT
26627285 TGGTTTTGAT
Statistics
Matches: 1471, Mismatches: 56, Indels: 5
0.96 0.04 0.00
Matches are distributed among these distances:
90 88 0.06
91 5 0.00
92 1378 0.94
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (92 bp):
TTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAC
TTTACTACAACTTCAAGAGGATAGGAA
Found at i:26628784 original size:14 final size:14
Alignment explanation
Indices: 26628767--26628810 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
26628757 TTCTATTTTA
26628767 TTTTTCTTCTTGTT
1 TTTTTCTTCTTGTT
*
26628781 TTTTGCTTCTTG-T
1 TTTTTCTTCTTGTT
*
26628794 TTTTTCTTCTTCTT
1 TTTTTCTTCTTGTT
26628808 TTT
1 TTT
26628811 CTTTTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.00, C:0.16, G:0.07, T:0.77
Consensus pattern (14 bp):
TTTTTCTTCTTGTT
Found at i:26629647 original size:5 final size:5
Alignment explanation
Indices: 26629637--26629680 Score: 72
Period size: 5 Copynumber: 8.8 Consensus size: 5
26629627 TCTTGCCCCT
26629637 TTTTG TTTTG TTTTTG TTTTG TTTTG TTTTG TTTTG TTTT- TTTT
1 TTTTG TTTTG -TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
26629681 ATGATAACAC
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.11
5 29 0.76
6 5 0.13
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (5 bp):
TTTTG
Found at i:26633316 original size:16 final size:18
Alignment explanation
Indices: 26633292--26633328 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
26633282 CTCGCATGTG
26633292 ATCAGTTGCTT-TT-TTT
1 ATCAGTTGCTTATTCTTT
*
26633308 ATCATTTGCTTATTCTTT
1 ATCAGTTGCTTATTCTTT
26633326 ATC
1 ATC
26633329 TTGAACATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 2 0.11
18 6 0.33
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.59
Consensus pattern (18 bp):
ATCAGTTGCTTATTCTTT
Found at i:26635091 original size:25 final size:25
Alignment explanation
Indices: 26635063--26635110 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
26635053 GATCCAAAAA
*
26635063 CACGTTTTACAATAATGTGTAGGAC
1 CACGTTTTACAATAATATGTAGGAC
* *
26635088 CACGTTTTGCATTAATATGTAGG
1 CACGTTTTACAATAATATGTAGG
26635111 TGGTCTGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (25 bp):
CACGTTTTACAATAATATGTAGGAC
Found at i:26640387 original size:60 final size:57
Alignment explanation
Indices: 26640315--26640607 Score: 290
Period size: 60 Copynumber: 4.9 Consensus size: 57
26640305 ACTTGAGATG
* * *
26640315 AAAATGAAATTTTAAAGAAGTTTGAGGGTCAAAATATAATTTTGGAAAAGTTCGAGGGTT
1 AAAATGTAATTTTAAA-AAGTTT-AGGGTCAAAATATAATTTTGGAAAAGTT-TAGGGTC
* * * *
26640375 AAAATGTGATTTTGAAAAAGTTTAGGGGTTAAAATATGATTTTGGAAAAGTTTAAGGGTT
1 AAAATGTAATTTT-AAAAAGTTTA-GGGTCAAAATATAATTTTGGAAAAGTTT-AGGGTC
** * *
26640435 AAAATGTAATTTTGGAAAGTTTAGTGGTCAAAATGTAATTTTAG-AAAGTTTAGGAGTC
1 AAAATGTAATTTTAAAAAGTTTAG-GGTCAAAATATAATTTTGGAAAAGTTTAGG-GTC
*
26640493 AAAATGTAATTTTGAAAAAGTTTAGGGGTCAAAATGA-AATTTTAGAAAAGTTTAGGGGTC
1 AAAATGTAATTTT-AAAAAGTTTA-GGGTCAAAAT-ATAATTTTGGAAAAGTTTA-GGGTC
*
26640553 AAAATATAATTTTAGAAAAGTTT-GAGGTCAAAAATATAATTTTAGG--AAGTTTAGG
1 AAAATGTAATTTTA-AAAAGTTTAG-GGTC-AAAATATAATTTT-GGAAAAGTTTAGG
26640608 AACCTCTTGG
Statistics
Matches: 200, Mismatches: 18, Indels: 32
0.80 0.07 0.13
Matches are distributed among these distances:
57 3 0.01
58 26 0.13
59 62 0.31
60 103 0.51
61 6 0.03
ACGTcount: A:0.41, C:0.02, G:0.23, T:0.34
Consensus pattern (57 bp):
AAAATGTAATTTTAAAAAGTTTAGGGTCAAAATATAATTTTGGAAAAGTTTAGGGTC
Found at i:26640401 original size:29 final size:29
Alignment explanation
Indices: 26640315--26640595 Score: 259
Period size: 30 Copynumber: 9.4 Consensus size: 29
26640305 ACTTGAGATG
*
26640315 AAAATGAAATTTT-AAAGAAGTTTGAGGGTC
1 AAAATGTAATTTTGAAA-AAGTTT-AGGGTC
* * * *
26640345 AAAATATAATTTTGGAAAAGTTCGAGGGTT
1 AAAATGTAATTTTGAAAAAGTT-TAGGGTC
* *
26640375 AAAATGTGATTTTGAAAAAGTTTAGGGGTT
1 AAAATGTAATTTTGAAAAAGTTTA-GGGTC
* * * *
26640405 AAAATATGATTTTGGAAAAGTTTAAGGGTT
1 AAAATGTAATTTTGAAAAAGTTT-AGGGTC
*
26640435 AAAATGTAATTTTG-GAAAGTTTAGTGGTC
1 AAAATGTAATTTTGAAAAAGTTTAG-GGTC
*
26640464 AAAATGTAATTTT-AGAAAGTTTAGGAGTC
1 AAAATGTAATTTTGAAAAAGTTTAGG-GTC
26640493 AAAATGTAATTTTGAAAAAGTTTAGGGGTC
1 AAAATGTAATTTTGAAAAAGTTTA-GGGTC
*
26640523 AAAATGAAATTTT-AGAAAAGTTTAGGGGTC
1 AAAATGTAATTTTGA-AAAAGTTTA-GGGTC
*
26640553 AAAATATAATTTT-AGAAAAGTTT-GAGGTC
1 AAAATGTAATTTTGA-AAAAGTTTAG-GGTC
*
26640582 AAAAATATAATTTT
1 -AAAATGTAATTTT
26640596 AGGAAGTTTA
Statistics
Matches: 220, Mismatches: 19, Indels: 24
0.84 0.07 0.09
Matches are distributed among these distances:
28 4 0.02
29 55 0.25
30 156 0.71
31 5 0.02
ACGTcount: A:0.41, C:0.02, G:0.22, T:0.35
Consensus pattern (29 bp):
AAAATGTAATTTTGAAAAAGTTTAGGGTC
Found at i:26642048 original size:6 final size:6
Alignment explanation
Indices: 26642037--26642169 Score: 96
Period size: 6 Copynumber: 22.0 Consensus size: 6
26642027 GTAATTGGAC
* * *
26642037 TTTAAA TTTAAA GTTAAG TTTAAAA CCATTTCAAA TTTAAA -CTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTT-AAA ---TTT-AAA TTTAAA TTTAAA TTTAAA
** **
26642089 TTTAAA -ACAAA TTTAAA TTTAAA TTTAAA -ACAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
26642135 TTTAAA -GTAAA TTTAAA TTTGAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA
26642170 ACCAATCTAA
Statistics
Matches: 98, Mismatches: 19, Indels: 20
0.72 0.14 0.15
Matches are distributed among these distances:
5 17 0.17
6 67 0.68
7 8 0.08
10 6 0.06
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (6 bp):
TTTAAA
Found at i:26642134 original size:17 final size:17
Alignment explanation
Indices: 26642050--26642111 Score: 74
Period size: 17 Copynumber: 3.6 Consensus size: 17
26642040 AAATTTAAAG
* *
26642050 TTAAGTTTAAAAC-CAT
1 TTAAATTTAAAACAAAT
26642066 TTCAAATTT-AAACTAAAT
1 TT-AAATTTAAAAC-AAAT
26642084 TTAAATTTAAAACAAAT
1 TTAAATTTAAAACAAAT
26642101 TTAAATTTAAA
1 TTAAATTTAAA
26642112 TTTAAAACAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
16 6 0.15
17 26 0.65
18 8 0.20
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.39
Consensus pattern (17 bp):
TTAAATTTAAAACAAAT
Found at i:26642163 original size:23 final size:23
Alignment explanation
Indices: 26642079--26642154 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
26642069 AAATTTAAAC
26642079 TAAATTTAAATTTAAAACAAATT
1 TAAATTTAAATTTAAAACAAATT
26642102 TAAATTTAAATTTAAAACAAATT
1 TAAATTTAAATTTAAAACAAATT
**
26642125 TAAATTTAAATTTAAAGTAAATT
1 TAAATTTAAATTTAAAACAAATT
26642148 TAAATTT
1 TAAATTT
26642155 GAAAATAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (23 bp):
TAAATTTAAATTTAAAACAAATT
Found at i:26642165 original size:12 final size:11
Alignment explanation
Indices: 26642085--26642170 Score: 72
Period size: 11 Copynumber: 8.0 Consensus size: 11
26642075 AAACTAAATT
26642085 TAAATTTAAAA
1 TAAATTTAAAA
* *
26642096 CAAATTTAAATT
1 TAAATTTAAA-A
26642108 TAAATTTAAAA
1 TAAATTTAAAA
* *
26642119 CAAATTTAAATT
1 TAAATTTAAA-A
*
26642131 TAAATTTAAAG
1 TAAATTTAAAA
26642142 TAAATTT-AAA
1 TAAATTTAAAA
*
26642152 T---TTGAAAA
1 TAAATTTAAAA
26642160 TAAATTTAAAA
1 TAAATTTAAAA
26642171 CCAATCTAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
7 2 0.03
8 4 0.07
10 3 0.05
11 31 0.53
12 18 0.31
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:26642165 original size:18 final size:17
Alignment explanation
Indices: 26642064--26642169 Score: 89
Period size: 17 Copynumber: 6.4 Consensus size: 17
26642054 GTTTAAAACC
*
26642064 ATTTCAAATTTAAACTAA
1 ATTT-AAATTTAAAATAA
*
26642082 ATTTAAATTTAAAACAA
1 ATTTAAATTTAAAATAA
26642099 ATTTAAA-TT----TAA
1 ATTTAAATTTAAAATAA
** *
26642111 ATTTAAA-ACAAATTTAA
1 ATTTAAATTTAAA-ATAA
*
26642128 ATTTAAATTTAAAGTAA
1 ATTTAAATTTAAAATAA
26642145 ATTTAAATTTGAAAATAA
1 ATTTAAATTT-AAAATAA
26642163 ATTTAAA
1 ATTTAAA
26642170 ACCAATCTAA
Statistics
Matches: 72, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
12 9 0.12
16 2 0.03
17 41 0.57
18 20 0.28
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:26642813 original size:39 final size:39
Alignment explanation
Indices: 26642692--26642835 Score: 135
Period size: 39 Copynumber: 3.7 Consensus size: 39
26642682 ACTGATGATG
* *
26642692 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATAGTTACA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGTTGCA
* * * * ** * * **
26642731 ATTTGCCCCAAGATCGGGTTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGTTGCA
* *
26642770 ATCTGCCTCAGGCTCGGGGTAAGAGATCGAATGGTTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGTTGCA
* * *
26642809 ATCTGCCCTAGGCTCAGGGTAAGAGAT
1 ATCTGCCCCAAGCTCGGGGTAAGAGAT
26642836 TTGCTGGTGA
Statistics
Matches: 78, Mismatches: 27, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.24
Consensus pattern (39 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGTTGCA
Found at i:26642852 original size:39 final size:38
Alignment explanation
Indices: 26642750--26642859 Score: 91
Period size: 39 Copynumber: 2.8 Consensus size: 38
26642740 AAGATCGGGT
* * *
26642750 TAAGAGATTGGCTGATGGTGATCTG-CCTCAGGCTCGGGG
1 TAAGAGATTCGCTGGT-GTGATCTGCCCT-AGGCTCAGGG
*
26642789 TAAGAGA-TCGAATGGT-TGCAATCTGCCCTAGGCTCAGGG
1 TAAGAGATTCG-CTGGTGTG--ATCTGCCCTAGGCTCAGGG
* *
26642828 TAAGAGATTTGCTGGTGATGATCTGCCTTAGG
1 TAAGAGATTCGCTGGTG-TGATCTGCCCTAGG
26642860 TTTGAGGTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
37 2 0.04
38 2 0.04
39 46 0.81
40 5 0.09
41 2 0.04
ACGTcount: A:0.22, C:0.17, G:0.34, T:0.27
Consensus pattern (38 bp):
TAAGAGATTCGCTGGTGTGATCTGCCCTAGGCTCAGGG
Found at i:26642855 original size:78 final size:77
Alignment explanation
Indices: 26642640--26642883 Score: 263
Period size: 78 Copynumber: 3.1 Consensus size: 77
26642630 CTTTATCACT
* ** * * * * *
26642640 TCGAATGATTACCGTCTGCCCCATGATCGGGGTAAGAGACTAACTGATGATGATCTGCCCCAAGC
1 TCGAATGGTTACAATCTGCCCCAAGATC-GGGTAAGAGATTAGCTGATGATGATCTGCCTCAGGC
26642705 TCGGGGTAAGAGA
65 TCGGGGTAAGAGA
* * * *
26642718 TCGAATAGTTACAATTTGCCCCAAGATCGGGTTAAGAGATTGGCTGATGGTGATCTGCCTCAGGC
1 TCGAATGGTTACAATCTGCCCCAAGATCGGG-TAAGAGATTAGCTGATGATGATCTGCCTCAGGC
26642783 TCGGGGTAAGAGA
65 TCGGGGTAAGAGA
* * * * * * * *
26642796 TCGAATGGTTGCAATCTGCCCTAGGCTCAGGGTAAGAGATTTGCTGGTGATGATCTGCCTTAGGT
1 TCGAATGGTTACAATCTGCCCCAAGATC-GGGTAAGAGATTAGCTGATGATGATCTGCCTCAGGC
* *
26642861 TTGAGGTAAGAGA
65 TCGGGGTAAGAGA
26642874 TCGAATGGTT
1 TCGAATGGTT
26642884 TTCCATCTGT
Statistics
Matches: 139, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
77 3 0.02
78 133 0.96
79 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (77 bp):
TCGAATGGTTACAATCTGCCCCAAGATCGGGTAAGAGATTAGCTGATGATGATCTGCCTCAGGCT
CGGGGTAAGAGA
Found at i:26643168 original size:49 final size:49
Alignment explanation
Indices: 26643111--26643747 Score: 496
Period size: 49 Copynumber: 12.9 Consensus size: 49
26643101 TTGCGGTTGT
** * *
26643111 AATCTTTCCCTCCATATCTTTTTGGTACTGGATTTGCCGTTGTGGCTTA
1 AATCTTTCCCTCCATATCTTCGTGGTACTGGATTCGCCGTTGCGGCTTA
* * * * *
26643160 AATCTTTCCCTTCAT-GCTTCCGAGGTA-TAAGG-TTCACCGTTGCGACTTA
1 AATCTTTCCCTCCATATCTT-CGTGGTACT--GGATTCGCCGTTGCGGCTTA
* * *
26643209 AACCTTTCCCTCCATATCTTCGTGGTACTAGATTCGTCGTTGCGGCTTA
1 AATCTTTCCCTCCATATCTTCGTGGTACTGGATTCGCCGTTGCGGCTTA
* * *
26643258 AATCTTTCCCATCTCAGCAT-TT-GAGGTACAAGG-TTCGCCGTTG-GGACTTA
1 AATCTTTCCC-TC-CA-TATCTTCGTGGTAC-TGGATTCGCCGTTGCGG-CTTA
* * **
26643308 AACCTTTCCCTCCATGTCTTCGTGGTACTGGATTCGTTGTTGCGGCTTA
1 AATCTTTCCCTCCATATCTTCGTGGTACTGGATTCGCCGTTGCGGCTTA
* * * * * * ** *
26643357 AATATTTCCCATCTCATCT-TTTGAGTTACAAGG-TTTACCGTTGCGACTTA
1 AATCTTTCCC-TC-CATATCTTCGTGGTAC-TGGATTCGCCGTTGCGGCTTA
* * *
26643407 AACCTTTCCCTCGATGTCTTCGTGGTACTGGATTCGCCGTTGCGGCTTA
1 AATCTTTCCCTCCATATCTTCGTGGTACTGGATTCGCCGTTGCGGCTTA
* * * *
26643456 AATCTTTCCCTTCATGTCTTCGTGGTACTGGATTTGCCGTTGTGGCTTA
1 AATCTTTCCCTCCATATCTTCGTGGTACTGGATTCGCCGTTGCGGCTTA
* * *
26643505 AATCTTTCCCAT-C-TCATCTTCTGAGGTACAAGG-TTCGCCGTTGCGACTTA
1 AATCTTTCCC-TCCAT-ATCTTC-GTGGTAC-TGGATTCGCCGTTGCGGCTTA
* *
26643555 AACCTTTCCCTCCATGTCTTCGTGGTACTGGATTCGCCGTTGCGGCTTA
1 AATCTTTCCCTCCATATCTTCGTGGTACTGGATTCGCCGTTGCGGCTTA
* * * * ** **
26643604 AATCTTTCCCTTCA-AGCTTCTGAGGTACAAGG-TTTACCGTTGCAACTTA
1 AATCTTTCCCTCCATATCTTC-GTGGTAC-TGGATTCGCCGTTGCGGCTTA
* * *
26643653 AATCTTTCCCTCCATATCTTCATGGTACTAGATTCGCCATTGCGGCTTA
1 AATCTTTCCCTCCATATCTTCGTGGTACTGGATTCGCCGTTGCGGCTTA
* * * *
26643702 AATCTTTCCCTTCATGTC-TCTATGGTATCAGG-TTCGCCGTTGCGGC
1 AATCTTTCCCTCCATATCTTC-GTGGTA-CTGGATTCGCCGTTGCGGC
26643748 CTCAACCTTT
Statistics
Matches: 460, Mismatches: 95, Indels: 66
0.74 0.15 0.11
Matches are distributed among these distances:
47 1 0.00
48 26 0.06
49 305 0.66
50 112 0.24
51 14 0.03
52 2 0.00
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.37
Consensus pattern (49 bp):
AATCTTTCCCTCCATATCTTCGTGGTACTGGATTCGCCGTTGCGGCTTA
Found at i:26643328 original size:99 final size:98
Alignment explanation
Indices: 26643114--26643465 Score: 483
Period size: 99 Copynumber: 3.6 Consensus size: 98
26643104 CGGTTGTAAT
** * *
26643114 CTTTCCCTCCATATCTTTTTGGTACTGGATTTGCCGTTGTGGCTTAAATCTTTCCC-T-TCATGC
1 CTTTCCCTCCATATCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCATCTCA-GC
* *
26643177 TTCCGAGGTATAAGGTTCACCGTTGCGACTTAAAC
65 TT-TGAGGTACAAGGTTCACCGTTGCGACTTAAAC
* *
26643212 CTTTCCCTCCATATCTTCGTGGTACTAGATTCGTCGTTGCGGCTTAAATCTTTCCCATCTCAGCA
1 CTTTCCCTCCATATCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCATCTCAGC-
* *
26643277 TTTGAGGTACAAGGTTCGCCGTTGGGACTTAAAC
65 TTTGAGGTACAAGGTTCACCGTTGCGACTTAAAC
* ** * *
26643311 CTTTCCCTCCATGTCTTCGTGGTACTGGATTCGTTGTTGCGGCTTAAATATTTCCCATCTCATCT
1 CTTTCCCTCCATATCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCATCTCAGC-
* *
26643376 TTTGAGTTACAAGGTTTACCGTTGCGACTTAAAC
65 TTTGAGGTACAAGGTTCACCGTTGCGACTTAAAC
* *
26643410 CTTTCCCTCGATGTCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCC
1 CTTTCCCTCCATATCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCC
26643466 TTCATGTCTT
Statistics
Matches: 227, Mismatches: 24, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
98 50 0.22
99 172 0.76
100 5 0.02
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.38
Consensus pattern (98 bp):
CTTTCCCTCCATATCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCATCTCAGCT
TTGAGGTACAAGGTTCACCGTTGCGACTTAAAC
Found at i:26643357 original size:148 final size:147
Alignment explanation
Indices: 26643114--26643747 Score: 573
Period size: 148 Copynumber: 4.3 Consensus size: 147
26643104 CGGTTGTAAT
* ** * *
26643114 CTTTCCCTCCATATCTTTTTGGTACTGGATTTGCCGTTGTGGCTTAAATCTTTCCCTTCATG-CT
1 CTTTCCCTCCATGTCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCT
* * * * *
26643178 TCCGAGGTA-TAAGG-TTCACCGTTGCGACTTAAACCTTTCCC-TCCATATCTTCGTGGTACTAG
66 T-CGTGGTACT--GGATTC-GCGTTGCGACTTAAATCTTTCCCATCCATATCTTCGAGGTACAAG
* * *
26643240 ATTCGTCGTTGCGGCTTAAAT
127 ATTCGCCGTTGCGACTTAAAC
* * * * *
26643261 CTTTCCCATCTCA-G-CATTTGAGGTACAAGG-TTCGCCGTTG-GGACTTAAACCTTTCCCTCCA
1 CTTTCCC-TC-CATGTC-TTCGTGGTAC-TGGATTCGCCGTTGCGG-CTTAAATCTTTCCCTTCA
* * * * * *
26643322 TGTCTTCGTGGTACTGGATTCGTTGTTGCGGCTTAAATATTTCCCATCTCATCT-TTTGAGTTAC
61 TGTCTTCGTGGTACTGGATTCG-CGTTGCGACTTAAATCTTTCCCATC-CATATCTTCGAGGTAC
* **
26643386 AAGGTTTACCGTTGCGACTTAAAC
124 AAGATTCGCCGTTGCGACTTAAAC
*
26643410 CTTTCCCTCGATGTCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCT
1 CTTTCCCTCCATGTCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCT
* * * *
26643475 TCGTGGTACTGGATTTGCCGTTGTGGCTTAAATCTTTCCCAT-C-TCATCTTCTGAGGTACAAGG
66 TCGTGGTACTGGATTCG-CGTTGCGACTTAAATCTTTCCCATCCAT-ATCTTC-GAGGTACAAGA
26643538 TTCGCCGTTGCGACTTAAAC
128 TTCGCCGTTGCGACTTAAAC
*
26643558 CTTTCCCTCCATGTCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCAAG-CT
1 CTTTCCCTCCATGTCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCT
* * * * *
26643622 TCTGAGGTACAAGGTTTAC-CGTTGCAACTTAAATCTTTCCC-TCCATATCTTC-ATGGTACTAG
66 TC-GTGGTAC-TGGATT-CGCGTTGCGACTTAAATCTTTCCCATCCATATCTTCGA-GGTACAAG
* * *
26643684 ATTCGCCATTGCGGCTTAAAT
127 ATTCGCCGTTGCGACTTAAAC
* * *
26643705 CTTTCCCTTCATGTC-TCTATGGTATCAGG-TTCGCCGTTGCGGC
1 CTTTCCCTCCATGTCTTC-GTGGTA-CTGGATTCGCCGTTGCGGC
26643748 CTCAACCTTT
Statistics
Matches: 404, Mismatches: 57, Indels: 52
0.79 0.11 0.10
Matches are distributed among these distances:
145 1 0.00
146 5 0.01
147 79 0.20
148 266 0.66
149 49 0.12
150 4 0.01
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.37
Consensus pattern (147 bp):
CTTTCCCTCCATGTCTTCGTGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCT
TCGTGGTACTGGATTCGCGTTGCGACTTAAATCTTTCCCATCCATATCTTCGAGGTACAAGATTC
GCCGTTGCGACTTAAAC
Found at i:26643533 original size:99 final size:96
Alignment explanation
Indices: 26643133--26643747 Score: 450
Period size: 99 Copynumber: 6.2 Consensus size: 96
26643123 CATATCTTTT
* * *
26643133 TGGTACTGGATTTGCCGTTGTGGCTTAAATCTTTCCCTTCATG-CTTCCGAGGTA-TAAGGTTCA
1 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTT-CGAGGTACT--GGTTCG
*
26643196 CCGTTGCGACTTAAACCTTTCCCTC-CATATCTTCG
63 CCGTTGCGGCTTAAACCTTTCCCTCTC--ATCTTCG
* * * *
26643231 TGGTACTAGATTCGTCGTTGCGGCTTAAATCTTTCCCATCTCA-G-CATTTGAGGTACAAGGTTC
1 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCC-T-TCATGTC-TTCGAGGTAC-TGGTTC
26643294 GCCGTTG-GGACTTAAACCTTTCCCTC-CATGTCTTCG
62 GCCGTTGCGG-CTTAAACCTTTCCCTCTCA--TCTTCG
** * * * * * **
26643330 TGGTACTGGATTCGTTGTTGCGGCTTAAATATTTCCCATCTCATCT-TTTGAGTTACAAGGTTTA
1 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCC-T-TCATGTCTTCGAGGTAC-TGGTTCG
* *
26643394 CCGTTGCGACTTAAACCTTTCCCTCGAT-GTCTTCG
63 CCGTTGCGGCTTAAACCTTTCCCTC--TCATCTTCG
* *
26643429 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATTTGCC
1 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGAGGTACTGG-TTCGCC
* *
26643494 GTTGTGGCTTAAATCTTTCCCATCTCATCTTCTG
65 GTTGCGGCTTAAACCTTTCCC-TCTCATCTTC-G
* * * * * *
26643528 AGGTACAAGG-TTCGCCGTTGCGACTTAAACCTTTCCCTCCATGTCTTCGTGGTACTGGATTCGC
1 TGGTAC-TGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGAGGTACTGG-TTCGC
* *
26643592 CGTTGCGGCTTAAATCTTTCCCT-TCAAGCTTCTG
64 CGTTGCGGCTTAAACCTTTCCCTCTC-ATCTTC-G
* * ** ** * * *
26643626 AGGTACAAGG-TTTACCGTTGCAACTTAAATCTTTCCCTCCATATCTTC-ATGGTACTAGATTCG
1 TGGTAC-TGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGA-GGTACT-GGTTCG
* * * *
26643689 CCATTGCGGCTTAAATCTTTCCCT-TCATGTCTCTA
63 CCGTTGCGGCTTAAACCTTTCCCTCTCATCT-TC-G
*
26643724 TGGTATCAGG-TTCGCCGTTGCGGC
1 TGGTA-CTGGATTCGCCGTTGCGGC
26643748 CTCAACCTTT
Statistics
Matches: 438, Mismatches: 54, Indels: 50
0.81 0.10 0.09
Matches are distributed among these distances:
97 13 0.03
98 176 0.40
99 241 0.55
100 8 0.02
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.37
Consensus pattern (96 bp):
TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTTCGAGGTACTGGTTCGCCG
TTGCGGCTTAAACCTTTCCCTCTCATCTTCG
Found at i:26643758 original size:49 final size:49
Alignment explanation
Indices: 26643407--26644254 Score: 239
Period size: 49 Copynumber: 17.2 Consensus size: 49
26643397 TTGCGACTTA
* * * * *
26643407 AACCTTTCCC-TCGATGTCT-TCGTGGTACTGGATTCGCCGTTGCGGCTTA
1 AACCTTTCCCTTC-ATATCTCTCATGGTACAGG-TTCGCCGTTGCGGCCTC
* * * * * * * *
26643456 AATCTTTCCCTTCATGTCT-TCGTGGTACTGGATTTGCCGTTGTGGCTTA
1 AACCTTTCCCTTCATATCTCTCATGGTACAGG-TTCGCCGTTGCGGCCTC
* * * * * *
26643505 AATCTTTCCCATC-TCATCTTCTGA-GGTACAAGGTTCGCCGTTGCGACTTA
1 AACCTTTCCCTTCAT-ATC-TCTCATGGTAC-AGGTTCGCCGTTGCGGCCTC
* * * * * *
26643555 AACCTTTCCCTCCATGTCT-TCGTGGTACTGGATTCGCCGTTGCGGCTTA
1 AACCTTTCCCTTCATATCTCTCATGGTACAGG-TTCGCCGTTGCGGCCTC
* * * ** ** * *
26643604 AATCTTTCCCTTCA-AGCTTCTGA-GGTACAAGGTTTACCGTTGCAACTTA
1 AACCTTTCCCTTCATATC-TCTCATGGTAC-AGGTTCGCCGTTGCGGCCTC
* * * * * *
26643653 AATCTTTCCCTCCATATCT-TCATGGTACTAGATTCGCCATTGCGGCTTA
1 AACCTTTCCCTTCATATCTCTCATGGTAC-AGGTTCGCCGTTGCGGCCTC
* *
26643702 AATCTTTCCCTTCATGTCTCT-ATGGTATCAGGTTCGCCGTTGCGGCCTC
1 AACCTTTCCCTTCATATCTCTCATGGTA-CAGGTTCGCCGTTGCGGCCTC
* * * * ** *
26643751 AACCTTT-CC-T-ATTTCTTCCTCGTGGAATCAGATTTACCGTTGTGGCCTC
1 AACCTTTCCCTTCATATC-T-CTCATGGTA-CAGGTTCGCCGTTGCGGCCTC
* * * * * *
26643800 AATCC-TTACCATAATATCTACT-AAGGTACCGAGTTCGCCGTTGCGGCCTT
1 AA-CCTTTCCCTTCATATCT-CTCATGGTACAG-GTTCGCCGTTGCGGCCTC
* * * *
26643850 AACCTTTCCCTTCAAATCT-TTATGGTACCGGGTTTGCCGTTGCGGCCTC
1 AACCTTTCCCTTCATATCTCTCATGGTA-CAGGTTCGCCGTTGCGGCCTC
* * *
26643899 AACCTTTCCCATTTC-T-TC-CTCATGGAACCAGATTTGCCGTTGCGGCCTC
1 AACCTTTCCC--TTCATATCTCTCATGGTA-CAGGTTCGCCGTTGCGGCCTC
* * * ** *
26643948 AATCC-TTCCCAT-AGTATCTGCT-AAGGTACCGGGTTCGTTGTTGCGACCTC
1 AA-CCTTTCCCTTCA-TATCT-CTCATGGTA-CAGGTTCGCCGTTGCGGCCTC
* * ** *
26643998 AACCTTTCCCATTTC-T-TC-CTCATGGAACCGGATTTACCATTGCGGCCTC
1 AACCTTTCCC--TTCATATCTCTCATGGTACAGG-TTCGCCGTTGCGGCCTC
* * * * * * * * ** *
26644047 AATCC-ATCCCATAATATCTGTTAAGGTATCGGGTTCTCCGTTATGGCCTT
1 AA-CCTTTCCCTTCATATCTCTCATGGTA-CAGGTTCGCCGTTGCGGCCTC
* * * * *
26644097 AACCTTTCTCTTCAAATCT-TTATGGTACCGAGTTTGCCGTTGCGGCCTC
1 AACCTTTCCCTTCATATCTCTCATGGTACAG-GTTCGCCGTTGCGGCCTC
** * * * *
26644146 AACCTTTCCCATTTC-T-TC-CTCACAGAATCAGATTTGCCGTTGCGGCCTT
1 AACCTTTCCC--TTCATATCTCTCATGGTA-CAGGTTCGCCGTTGCGGCCTC
* * * * *
26644195 AATCC-TTCCCATAATTTCTGCT-AAGGTACCGGGTTCGCCGTTGCGGCCTC
1 AA-CCTTTCCCTTCATATCT-CTCATGGTA-CAGGTTCGCCGTTGCGGCCTC
26644245 AACCTTTCCC
1 AACCTTTCCC
26644255 ATTTCATCTT
Statistics
Matches: 599, Mismatches: 142, Indels: 115
0.70 0.17 0.13
Matches are distributed among these distances:
46 4 0.01
47 5 0.01
48 22 0.04
49 375 0.63
50 166 0.28
51 22 0.04
52 5 0.01
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.35
Consensus pattern (49 bp):
AACCTTTCCCTTCATATCTCTCATGGTACAGGTTCGCCGTTGCGGCCTC
Found at i:26643876 original size:148 final size:148
Alignment explanation
Indices: 26643685--26644007 Score: 441
Period size: 148 Copynumber: 2.2 Consensus size: 148
26643675 TGGTACTAGA
* * ** *
26643685 TTCGCCATTGCGG-CTTAAATCTTTCCCTTCATGTCTCTATGGTATCAGGTTCGCCGTTGCGGCC
1 TTCGCCGTTGCGGCCTT-AACCTTTCCCTTCAAATCTCTATGGTACCAGGTTCGCCGTTGCGGCC
* * * *
26643749 TCAACCTTTCCTATTTCTTCCTCGTGGAATCAGATTTACCGTTGTGGCCTCAATCCTTACCATAA
65 TCAACCTTTCCCATTTCTTCCTCATGGAACCAGATTTACCGTTGCGGCCTCAATCCTTACCATAA
26643814 TATCTACTAAGGTACCGAG
130 TATCTACTAAGGTACCGAG
* * *
26643833 TTCGCCGTTGCGGCCTTAACCTTTCCCTTCAAATCTTTATGGTACCGGGTTTGCCGTTGCGGCCT
1 TTCGCCGTTGCGGCCTTAACCTTTCCCTTCAAATCTCTATGGTACCAGGTTCGCCGTTGCGGCCT
* * *
26643898 CAACCTTTCCCATTTCTTCCTCATGGAACCAGATTTGCCGTTGCGGCCTCAATCCTTCCCATAGT
66 CAACCTTTCCCATTTCTTCCTCATGGAACCAGATTTACCGTTGCGGCCTCAATCCTTACCATAAT
* *
26643963 ATCTGCTAAGGTACCGGG
131 ATCTACTAAGGTACCGAG
** * *
26643981 TTCGTTGTTGCGACCTCAACCTTTCCC
1 TTCGCCGTTGCGGCCTTAACCTTTCCC
26644008 ATTTCTTCCT
Statistics
Matches: 153, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
148 150 0.98
149 3 0.02
ACGTcount: A:0.17, C:0.31, G:0.19, T:0.34
Consensus pattern (148 bp):
TTCGCCGTTGCGGCCTTAACCTTTCCCTTCAAATCTCTATGGTACCAGGTTCGCCGTTGCGGCCT
CAACCTTTCCCATTTCTTCCTCATGGAACCAGATTTACCGTTGCGGCCTCAATCCTTACCATAAT
ATCTACTAAGGTACCGAG
Found at i:26644028 original size:148 final size:147
Alignment explanation
Indices: 26643732--26644048 Score: 411
Period size: 148 Copynumber: 2.1 Consensus size: 147
26643722 TATGGTATCA
* * * * *
26643732 GGTTCGCCGTTGCGGCCTCAACCTTTCCTATTTCTTCCTCGTGGAATCAGATTTACCGTTGTGGC
1 GGTTTGCCGTTGCGGCCTCAACCTTTCCCATTTCTTCCTCATGGAACCAGATTTACCGTTGCGGC
* *
26643797 CTCAATCCTTACCATAATATCTACTAAGGTACCGAGTTCGCCGTTGCGGCCTTAACCTTTCCCTT
66 CTCAATCCTTACCATAATATCTACTAAGGTACCGAGTTCGCCGTTGCGACCTCAACCTTTCCCTT
* * *
26643862 CAAATCTTTATGGTACCG
131 C-AATCCTCATGGAACCG
*
26643880 GGTTTGCCGTTGCGGCCTCAACCTTTCCCATTTCTTCCTCATGGAACCAGATTTGCCGTTGCGGC
1 GGTTTGCCGTTGCGGCCTCAACCTTTCCCATTTCTTCCTCATGGAACCAGATTTACCGTTGCGGC
* * * * **
26643945 CTCAATCCTTCCCATAGTATCTGCTAAGGTACCGGGTTCGTTGTTGCGACCTCAACCTTTCCCAT
66 CTCAATCCTTACCATAATATCTACTAAGGTACCGAGTTCGCCGTTGCGACCTCAACCTTTCCC--
*
26644010 TTC-TTCCTCATGGAACCG
129 TTCAATCCTCATGGAACCG
* * *
26644028 GATTTACCATTGCGGCCTCAA
1 GGTTTGCCGTTGCGGCCTCAA
26644049 TCCATCCCAT
Statistics
Matches: 146, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
148 143 0.98
150 3 0.02
ACGTcount: A:0.17, C:0.31, G:0.19, T:0.33
Consensus pattern (147 bp):
GGTTTGCCGTTGCGGCCTCAACCTTTCCCATTTCTTCCTCATGGAACCAGATTTACCGTTGCGGC
CTCAATCCTTACCATAATATCTACTAAGGTACCGAGTTCGCCGTTGCGACCTCAACCTTTCCCTT
CAATCCTCATGGAACCG
Found at i:26644061 original size:247 final size:247
Alignment explanation
Indices: 26643732--26644269 Score: 824
Period size: 247 Copynumber: 2.2 Consensus size: 247
26643722 TATGGTATCA
* * * * *
26643732 GGTTCGCCGTTGCGGCCTCAACCTTTCCTATTTCTTCCTCGTGGAATCAGATTTACCGTTGTGGC
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCATTTCTTCCTCATGGAACCAGATTTACCATTGCGGC
* *
26643797 CTCAATCCTTACCATAATATCTACTAAGGTACCGAGTTCGCCGTTGCGGCCTTAACCTTTCCCTT
66 CTCAATCCATACCATAATATCTACTAAGGTACCGAGTTCGCCGTTACGGCCTTAACCTTTCCCTT
* **
26643862 CAAATCTTTATGGTACCGGGTTTGCCGTTGCGGCCTCAACCTTTCCCATTTCTTCCTCATGGAAC
131 CAAATCTTTATGGTACCGAGTTTGCCGTTGCGGCCTCAACCTTTCCCATTTCTTCCTCACAGAAC
*
26643927 CAGATTTGCCGTTGCGGCCTCAATCCTTCCCATAGTATCTGCTAAGGTACCG
196 CAGATTTGCCGTTGCGGCCTCAATCCTTCCCATAATATCTGCTAAGGTACCG
** * *
26643979 GGTTCGTTGTTGCGACCTCAACCTTTCCCATTTCTTCCTCATGGAACCGGATTTACCATTGCGGC
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCATTTCTTCCTCATGGAACCAGATTTACCATTGCGGC
* ** * * * * *
26644044 CTCAATCCATCCCATAATATCTGTTAAGGTATCGGGTTCTCCGTTATGGCCTTAACCTTTCTCTT
66 CTCAATCCATACCATAATATCTACTAAGGTACCGAGTTCGCCGTTACGGCCTTAACCTTTCCCTT
*
26644109 CAAATCTTTATGGTACCGAGTTTGCCGTTGCGGCCTCAACCTTTCCCATTTCTTCCTCACAGAAT
131 CAAATCTTTATGGTACCGAGTTTGCCGTTGCGGCCTCAACCTTTCCCATTTCTTCCTCACAGAAC
* *
26644174 CAGATTTGCCGTTGCGGCCTTAATCCTTCCCATAATTTCTGCTAAGGTACCG
196 CAGATTTGCCGTTGCGGCCTCAATCCTTCCCATAATATCTGCTAAGGTACCG
* *
26644226 GGTTCGCCGTTGCGGCCTCAACCTTTCCCATTTCATCTTCATGG
1 GGTTCGCCGTTGCGGCCTCAACCTTTCCCATTTCTTCCTCATGG
26644270 TAATGAAACC
Statistics
Matches: 260, Mismatches: 31, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
247 260 1.00
ACGTcount: A:0.17, C:0.30, G:0.18, T:0.34
Consensus pattern (247 bp):
GGTTCGCCGTTGCGGCCTCAACCTTTCCCATTTCTTCCTCATGGAACCAGATTTACCATTGCGGC
CTCAATCCATACCATAATATCTACTAAGGTACCGAGTTCGCCGTTACGGCCTTAACCTTTCCCTT
CAAATCTTTATGGTACCGAGTTTGCCGTTGCGGCCTCAACCTTTCCCATTTCTTCCTCACAGAAC
CAGATTTGCCGTTGCGGCCTCAATCCTTCCCATAATATCTGCTAAGGTACCG
Found at i:26644124 original size:148 final size:148
Alignment explanation
Indices: 26643972--26644252 Score: 382
Period size: 148 Copynumber: 1.9 Consensus size: 148
26643962 TATCTGCTAA
* ** ** *
26643972 GGTACCGGGTTCGTTGTTGCGACCTCAACCTTTCCCATTTCTTCCTCATGGAACCGGATTTACCA
1 GGTACCGAGTTCGCCGTTGCGACCTCAACCTTTCCCATTTCTTCCTCACAGAACCAGATTTACCA
* * * * *
26644037 TTGCGGCCTCAATCCATCCCATAATATCTGTTAAGGTATCGGGTTCTCCGTTATGGCCTTAACCT
66 TTGCGGCCTCAATCCATCCCATAATATCTGCTAAGGTACCGGGTTCGCCGTTACGGCCTCAACCT
26644102 TTCTCTTCAAATCTTTAT
131 TTCTCTTCAAATCTTTAT
* * * * *
26644120 GGTACCGAGTTTGCCGTTGCGGCCTCAACCTTTCCCATTTCTTCCTCACAGAATCAGATTTGCCG
1 GGTACCGAGTTCGCCGTTGCGACCTCAACCTTTCCCATTTCTTCCTCACAGAACCAGATTTACCA
* * * *
26644185 TTGCGGCCTTAATCCTTCCCATAATTTCTGCTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCT
66 TTGCGGCCTCAATCCATCCCATAATATCTGCTAAGGTACCGGGTTCGCCGTTACGGCCTCAACCT
26644250 TTC
131 TTC
26644253 CCATTTCATC
Statistics
Matches: 113, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
148 113 1.00
ACGTcount: A:0.17, C:0.30, G:0.19, T:0.34
Consensus pattern (148 bp):
GGTACCGAGTTCGCCGTTGCGACCTCAACCTTTCCCATTTCTTCCTCACAGAACCAGATTTACCA
TTGCGGCCTCAATCCATCCCATAATATCTGCTAAGGTACCGGGTTCGCCGTTACGGCCTCAACCT
TTCTCTTCAAATCTTTAT
Found at i:26644156 original size:99 final size:99
Alignment explanation
Indices: 26643827--26644157 Score: 326
Period size: 99 Copynumber: 3.4 Consensus size: 99
26643817 CTACTAAGGT
* * * *
26643827 ACCGAG-TTCGCCGTTGCGGCCTTAA-CCTTTCCCTTCAA-ATCT-TTATGGTACCGGGTT-TGC
1 ACCGAGATTTGCCGTTGCGGCCTCAATCC-TTCCCAT-AATATCTGTTAAGGTACCGGGTTCT-C
26643887 CGTTGCGGCCTCAACCTTTCCCATTTCTTCCTCATGGA
63 CGTTGCGGCCTCAACCTTTCCCATTTCTT-CTCATGGA
* * *
26643925 ACC-AGATTTGCCGTTGCGGCCTCAATCCTTCCCATAGTATCTGCTAAGGTACCGGGTTCGT-TG
1 ACCGAGATTTGCCGTTGCGGCCTCAATCCTTCCCATAATATCTGTTAAGGTACCGGGTTC-TCCG
*
26643988 TTGCGACCTCAACCTTTCCCATTTCTTCCTCATGGA
65 TTGCGGCCTCAACCTTTCCCATTTCTT-CTCATGGA
* * * *
26644024 ACCG-GATTTACCATTGCGGCCTCAATCCATCCCATAATATCTGTTAAGGTATCGGGTTCTCCGT
1 ACCGAGATTTGCCGTTGCGGCCTCAATCCTTCCCATAATATCTGTTAAGGTACCGGGTTCTCCGT
** * ** *
26644088 TATGGCCTTAACCTTTCTCTTCAAATCTT-T-ATGGT
66 TGCGGCCTCAACCTTTC-C--CATTTCTTCTCATGGA
26644123 ACCGAG-TTTGCCGTTGCGGCCTCAA-CCTTTCCCAT
1 ACCGAGATTTGCCGTTGCGGCCTCAATCC-TTCCCAT
26644158 TTCTTCCTCA
Statistics
Matches: 195, Mismatches: 25, Indels: 25
0.80 0.10 0.10
Matches are distributed among these distances:
97 3 0.02
98 33 0.17
99 149 0.76
100 3 0.02
101 1 0.01
102 6 0.03
ACGTcount: A:0.17, C:0.31, G:0.18, T:0.34
Consensus pattern (99 bp):
ACCGAGATTTGCCGTTGCGGCCTCAATCCTTCCCATAATATCTGTTAAGGTACCGGGTTCTCCGT
TGCGGCCTCAACCTTTCCCATTTCTTCTCATGGA
Found at i:26644264 original size:148 final size:148
Alignment explanation
Indices: 26643934--26644271 Score: 378
Period size: 148 Copynumber: 2.3 Consensus size: 148
26643924 AACCAGATTT
* * * * **
26643934 GCCGTTGCGGCCTCAATCC-TTCCCATAGT-ATCTGCTAAGGTACCGGGTTCGTTGTTGCGACCT
1 GCCGTTGCGGCCTCAA-CCTTTCCCAT-TTCATCT-TTATGGTACCGAGTTCGCCGTTGCGACCT
** *
26643997 CAACCTTTCCCATTTCTTCCTCATGGAACCGGATTTACCATTGCGGCCTCAATCCATCCCATAAT
63 CAACCTTTCCCATTTCTTCCTCACAGAACCAGATTTACCATTGCGGCCTCAATCCATCCCATAAT
* *
26644062 ATCTGTTAAGGTATCGGGTTC
128 ATCTGCTAAGGTACCGGGTTC
* ** * * * *
26644083 TCCGTTATGGCCTTAACCTTTCTC--TTCAAATCTTTATGGTACCGAGTTTGCCGTTGCGGCCTC
1 GCCGTTGCGGCCTCAACCTTTCCCATTTC--ATCTTTATGGTACCGAGTTCGCCGTTGCGACCTC
* * * * * *
26644146 AACCTTTCCCATTTCTTCCTCACAGAATCAGATTTGCCGTTGCGGCCTTAATCCTTCCCATAATT
64 AACCTTTCCCATTTCTTCCTCACAGAACCAGATTTACCATTGCGGCCTCAATCCATCCCATAATA
26644211 TCTGCTAAGGTACCGGGTTC
129 TCTGCTAAGGTACCGGGTTC
*
26644231 GCCGTTGCGGCCTCAACCTTTCCCATTTCATCTTCATGGTA
1 GCCGTTGCGGCCTCAACCTTTCCCATTTCATCTTTATGGTA
26644272 ATGAAACCTG
Statistics
Matches: 153, Mismatches: 30, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
146 1 0.01
148 129 0.84
149 20 0.13
150 3 0.02
ACGTcount: A:0.18, C:0.30, G:0.18, T:0.34
Consensus pattern (148 bp):
GCCGTTGCGGCCTCAACCTTTCCCATTTCATCTTTATGGTACCGAGTTCGCCGTTGCGACCTCAA
CCTTTCCCATTTCTTCCTCACAGAACCAGATTTACCATTGCGGCCTCAATCCATCCCATAATATC
TGCTAAGGTACCGGGTTC
Found at i:26646171 original size:49 final size:46
Alignment explanation
Indices: 26646097--26646202 Score: 149
Period size: 49 Copynumber: 2.2 Consensus size: 46
26646087 AATATAATGG
* *
26646097 TTTTGCCTTTTAACTTAATAGGTAAACATTTATCAAAATGACATAA
1 TTTTACCTTTTAACTTAAAAGGTAAACATTTATCAAAATGACATAA
* *
26646143 TTTTACCTTTTAACTTTAGAAAGGGTAAACATTTATCAAAATGACGTAG
1 TTTTACCTTTTAAC-TTA-AAA-GGTAAACATTTATCAAAATGACATAA
26646192 TTTTACCTTTT
1 TTTTACCTTTT
26646203 CTTATTCGGA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
46 13 0.25
47 3 0.06
48 2 0.04
49 35 0.66
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (46 bp):
TTTTACCTTTTAACTTAAAAGGTAAACATTTATCAAAATGACATAA
Found at i:26649697 original size:30 final size:30
Alignment explanation
Indices: 26649663--26649808 Score: 147
Period size: 30 Copynumber: 4.9 Consensus size: 30
26649653 TCGAGGGTCA
* *
26649663 AAATATGATTTTGGAAAATTTTAGGGGTTG
1 AAATATGATTTTGGAAAAGTTTAGGGGTTC
*
26649693 AAATATGATTTTGGAAAAGTTTAGGGGTTA
1 AAATATGATTTTGGAAAAGTTTAGGGGTTC
* * * **
26649723 AAATATGATTTCGAAAAAATTTA-AAGTTC
1 AAATATGATTTTGGAAAAGTTTAGGGGTTC
26649752 AAA-ATGTAATTTTGGAAAAGTTTAGGGG-TC
1 AAATATG--ATTTTGGAAAAGTTTAGGGGTTC
*
26649782 AAA-ATGCAATTTTGGAAAATTTTAGGG
1 AAATATG--ATTTTGGAAAAGTTTAGGG
26649809 TCAAAATGCA
Statistics
Matches: 98, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.03
29 6 0.06
30 88 0.90
31 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.36
Consensus pattern (30 bp):
AAATATGATTTTGGAAAAGTTTAGGGGTTC
Found at i:26649713 original size:60 final size:60
Alignment explanation
Indices: 26649657--26649823 Score: 189
Period size: 60 Copynumber: 2.8 Consensus size: 60
26649647 AGAAGTTCGA
*
26649657 GGGTCAAAATATGATTTTGGAAAATTTTAGGGGTTGAAATATG-ATTTTGGAAAAGTTTAG
1 GGGTCAAAATATGATTTTGGAAAATTTTAGGGGTTCAAA-ATGAATTTTGGAAAAGTTTAG
* * * * **
26649717 GGGTTAAAATATGATTTCGAAAAAATTTA-AAGTTCAAAATGTAATTTTGGAAAAGTTTAG
1 GGGTCAAAATATGATTTTGGAAAATTTTAGGGGTTCAAAATG-AATTTTGGAAAAGTTTAG
***
26649777 GGGTCAAAATGCAATTTTGGAAAATTTTA-GGG-TCAAAATGCAATTTT
1 GGGTCAAAATATGATTTTGGAAAATTTTAGGGGTTCAAAATG-AATTTT
26649824 AAGAAGTTTA
Statistics
Matches: 88, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
58 3 0.03
59 20 0.23
60 65 0.74
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.35
Consensus pattern (60 bp):
GGGTCAAAATATGATTTTGGAAAATTTTAGGGGTTCAAAATGAATTTTGGAAAAGTTTAG
Found at i:26650913 original size:31 final size:26
Alignment explanation
Indices: 26650878--26650941 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 26
26650868 TTGGGTCCTT
26650878 TTTATTAATCGTTATTATTATTACCAAAATA
1 TTTATTAAT-GTTA-T-TTATTACC--AATA
26650909 TTTATTAATGTTATTTATTACCAATA
1 TTTATTAATGTTATTTATTACCAATA
26650935 TTTATTA
1 TTTATTA
26650942 TTATTATTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
26 11 0.33
28 8 0.24
29 1 0.03
30 4 0.12
31 9 0.27
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (26 bp):
TTTATTAATGTTATTTATTACCAATA
Found at i:26651187 original size:42 final size:42
Alignment explanation
Indices: 26651113--26651197 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
26651103 TTCTATCTTT
* *
26651113 GTGTAACATCCGCGTTATTGAACCGGAGTTGGAACAGTAATA
1 GTGTAACATCCGCGTGATTAAACCGGAGTTGGAACAGTAATA
* * * * *
26651155 GTGTAACATCTGCGTGCTTAAATCGGATTTGGAACAGTGATA
1 GTGTAACATCCGCGTGATTAAACCGGAGTTGGAACAGTAATA
26651197 G
1 G
26651198 AGTACAATTG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.28
Consensus pattern (42 bp):
GTGTAACATCCGCGTGATTAAACCGGAGTTGGAACAGTAATA
Found at i:26653039 original size:41 final size:42
Alignment explanation
Indices: 26652986--26653267 Score: 362
Period size: 41 Copynumber: 6.9 Consensus size: 42
26652976 GCAAAAGATT
*
26652986 GAGCAATAGCGGCGCTTATGGAGAAA-CGCCGCTAAAGATCG
1 GAGCAATAGCGGCGCTTATGGAGAAAGCGCCGCTAAAGGTCG
* * * *
26653027 GAGCAATAGCGGCACTTAT-AAGAATGCGCCGTTAAAGGTCG
1 GAGCAATAGCGGCGCTTATGGAGAAAGCGCCGCTAAAGGTCG
* * * *
26653068 GAGCAATAGCAGCGCTTAT-AAGAAATCGCCGCTAAAGGTCA
1 GAGCAATAGCGGCGCTTATGGAGAAAGCGCCGCTAAAGGTCG
* * *
26653109 GAGCAATAGCGGCGCTTATGG-GAAAGTGTCGCTAAAGGTCT
1 GAGCAATAGCGGCGCTTATGGAGAAAGCGCCGCTAAAGGTCG
* *
26653150 GAGCAATAGCGGCGCTTAT-AAGAAAGCGCCGCCAAAGGTCG
1 GAGCAATAGCGGCGCTTATGGAGAAAGCGCCGCTAAAGGTCG
*
26653191 GAGAAATAGCGGCGCTTATGG-GAAAGCGCCGCTAAAGGTCG
1 GAGCAATAGCGGCGCTTATGGAGAAAGCGCCGCTAAAGGTCG
**
26653232 GATAAATAGCGGCGCTTATGG-GAAAGCGCCGCTAAA
1 GAGCAATAGCGGCGCTTATGGAGAAAGCGCCGCTAAA
26653268 ATTTTTACAT
Statistics
Matches: 211, Mismatches: 26, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
40 4 0.02
41 207 0.98
ACGTcount: A:0.32, C:0.21, G:0.31, T:0.17
Consensus pattern (42 bp):
GAGCAATAGCGGCGCTTATGGAGAAAGCGCCGCTAAAGGTCG
Found at i:26653142 original size:123 final size:123
Alignment explanation
Indices: 26652986--26653267 Score: 404
Period size: 123 Copynumber: 2.3 Consensus size: 123
26652976 GCAAAAGATT
26652986 GAGCAATAGCGGCGCTTATGGAGAAA-CGCCGCTAAAGATCGGAGCAATAGCGGCACTTATAAGA
1 GAGCAATAGCGGCGCTTATGG-GAAAGCGCCGCTAAAGATCGGAGCAATAGCGGCACTTATAAGA
* ** * *
26653050 ATGCGCCGTTAAAGGTCGGAGCAATAGCAGCGCTTATAAGAAATCGCCGCTAAAGGTCA
65 AAGCGCCGCCAAAGGTCGGAGAAATAGCAGCGCTTATAAGAAAGCGCCGCTAAAGGTCA
* * * * *
26653109 GAGCAATAGCGGCGCTTATGGGAAAGTGTCGCTAAAGGTCTGAGCAATAGCGGCGCTTATAAGAA
1 GAGCAATAGCGGCGCTTATGGGAAAGCGCCGCTAAAGATCGGAGCAATAGCGGCACTTATAAGAA
* ** *
26653174 AGCGCCGCCAAAGGTCGGAGAAATAGCGGCGCTTATGGGAAAGCGCCGCTAAAGGTCG
66 AGCGCCGCCAAAGGTCGGAGAAATAGCAGCGCTTATAAGAAAGCGCCGCTAAAGGTCA
**
26653232 GATAAATAGCGGCGCTTATGGGAAAGCGCCGCTAAA
1 GAGCAATAGCGGCGCTTATGGGAAAGCGCCGCTAAA
26653268 ATTTTTACAT
Statistics
Matches: 140, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
122 4 0.03
123 136 0.97
ACGTcount: A:0.32, C:0.21, G:0.31, T:0.17
Consensus pattern (123 bp):
GAGCAATAGCGGCGCTTATGGGAAAGCGCCGCTAAAGATCGGAGCAATAGCGGCACTTATAAGAA
AGCGCCGCCAAAGGTCGGAGAAATAGCAGCGCTTATAAGAAAGCGCCGCTAAAGGTCA
Found at i:26655041 original size:11 final size:11
Alignment explanation
Indices: 26655025--26655050 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
26655015 GGCAGCTACT
26655025 ATTATTAAATA
1 ATTATTAAATA
26655036 ATTATTAAATA
1 ATTATTAAATA
26655047 ATTA
1 ATTA
26655051 AATAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTATTAAATA
Found at i:26656394 original size:58 final size:58
Alignment explanation
Indices: 26656330--26656506 Score: 208
Period size: 58 Copynumber: 3.1 Consensus size: 58
26656320 AATAATTAAA
26656330 TAATTATGTATTTAATTATAAACAGTATCAATTAATTAAATATTTAAGTTAAAAGATT
1 TAATTATGTATTTAATTATAAACAGTATCAATTAATTAAATATTTAAGTTAAAAGATT
* * * *
26656388 TAATTATTTAATT-A-TATTAA-AGTAAAT-AATTATATTAAATTATTTAA-TT--ATG-TT
1 TAATTATGTATTTAATTATAAACAGT--ATCAATTA-ATTAAA-TATTTAAGTTAAAAGATT
* *
26656442 TAATTATGTATTTAATTATAAACAGTATCGATTAATTAAATATTTAAGTTAATAGATT
1 TAATTATGTATTTAATTATAAACAGTATCAATTAATTAAATATTTAAGTTAAAAGATT
26656500 TAATTAT
1 TAATTAT
26656507 TTAATTATAT
Statistics
Matches: 97, Mismatches: 10, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
54 20 0.21
55 16 0.16
56 19 0.20
57 15 0.15
58 27 0.28
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (58 bp):
TAATTATGTATTTAATTATAAACAGTATCAATTAATTAAATATTTAAGTTAAAAGATT
Found at i:26656398 original size:54 final size:54
Alignment explanation
Indices: 26656338--26656515 Score: 197
Period size: 54 Copynumber: 3.2 Consensus size: 54
26656328 AATAATTATG
26656338 TATTTAATTATAAACAGTATCAATTAATTAAATATTTAAGTTAAAAGATTTAAT
1 TATTTAATTATAAACAGTATCAATTAATTAAATATTTAAGTTAAAAGATTTAAT
*
26656392 TATTTAATTATATTAA-AGTAAAT-AATTATATTAAATTATTTAA-TT--ATG-TTTAATTAT
1 TATTTAATTATA--AACAGT--ATCAATTA-ATTAAA-TATTTAAGTTAAAAGATTT-A--AT
* *
26656449 GTATTTAATTATAAACAGTATCGATTAATTAAATATTTAAGTTAATAGATTTAAT
1 -TATTTAATTATAAACAGTATCAATTAATTAAATATTTAAGTTAAAAGATTTAAT
26656504 TATTTAATTATA
1 TATTTAATTATA
26656516 TTAAATTATT
Statistics
Matches: 104, Mismatches: 4, Indels: 32
0.74 0.03 0.23
Matches are distributed among these distances:
54 34 0.33
55 18 0.17
56 13 0.12
57 17 0.16
58 22 0.21
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (54 bp):
TATTTAATTATAAACAGTATCAATTAATTAAATATTTAAGTTAAAAGATTTAAT
Found at i:26656435 original size:18 final size:18
Alignment explanation
Indices: 26656389--26656655 Score: 102
Period size: 18 Copynumber: 14.3 Consensus size: 18
26656379 TAAAAGATTT
26656389 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* **
26656407 AAGTAAATAATTATATTA
1 AATTATTTAATTATATTA
*
26656425 AATTATTTAATTATGTTTA
1 AATTATTTAATTAT-ATTA
26656444 ATTATGTATTTAATTATA--A
1 A--AT-TATTTAATTATATTA
* **
26656463 ACAGTA-TCGATTA-ATTA
1 A-ATTATTTAATTATATTA
*
26656480 AA-TATTTAAGTTAATAGATTT
1 AATTATTTAA-TT-AT--ATTA
26656501 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* *
26656519 AATTATTTAATCATGTTTA
1 AATTATTTAATTAT-ATTA
26656538 ATTATGTATTTAATTATA--A
1 A--AT-TATTTAATTATATTA
* * ***
26656557 ACAGTAATCCTTTA-ATTA
1 A-ATTATTTAATTATATTA
* * *
26656575 AA-TATTTACGTTAAAAGATTT
1 AATTATTTA-ATT---ATATTA
26656596 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* **
26656614 AAGTAAATAATTATATTA
1 AATTATTTAATTATATTA
* *
26656632 AATTATTTAATTATGTTT
1 AATTATTTAATTATATTA
26656650 AATTAT
1 AATTAT
26656656 GTATTTAATT
Statistics
Matches: 182, Mismatches: 42, Indels: 50
0.66 0.15 0.18
Matches are distributed among these distances:
15 3 0.02
16 12 0.07
17 15 0.08
18 85 0.47
19 12 0.07
20 3 0.02
21 18 0.10
22 34 0.19
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (18 bp):
AATTATTTAATTATATTA
Found at i:26656519 original size:94 final size:95
Alignment explanation
Indices: 26656414--26656615 Score: 352
Period size: 94 Copynumber: 2.1 Consensus size: 95
26656404 TTAAAGTAAA
* *
26656414 TAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATTATAAACAGT-ATCGATTAAT
1 TAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACAGTAATCCATTAAT
*
26656478 TAAATATTTAAGTTAATAGATTTAATTATT
66 TAAATATTTAAGTTAAAAGATTTAATTATT
*
26656508 TAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACAGTAATCCTTTAAT
1 TAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACAGTAATCCATTAAT
*
26656573 TAAATATTTACGTTAAAAGATTTAATTATT
66 TAAATATTTAAGTTAAAAGATTTAATTATT
26656603 TAATTATATTAAA
1 TAATTATATTAAA
26656616 GTAAATAATT
Statistics
Matches: 102, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
94 53 0.52
95 49 0.48
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.49
Consensus pattern (95 bp):
TAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACAGTAATCCATTAAT
TAAATATTTAAGTTAAAAGATTTAATTATT
Found at i:26656637 original size:10 final size:9
Alignment explanation
Indices: 26656594--26656704 Score: 52
Period size: 8 Copynumber: 11.8 Consensus size: 9
26656584 GTTAAAAGAT
26656594 TTAATTAT-
1 TTAATTATA
26656602 TTAATTATA
1 TTAATTATA
*
26656611 TTAAAGTA-A
1 TT-AATTATA
*
26656620 ATAATTATA
1 TTAATTATA
26656629 TTAAATTAT-
1 TT-AATTATA
*
26656638 TTAATTATGT
1 TTAATTAT-A
26656648 TTAATTATGTA
1 TTAATTA--TA
26656659 TTTAATTATA
1 -TTAATTATA
* *
26656669 -AACAATATCGA
1 TTA-ATTAT--A
26656680 TTAATTAT-
1 TTAATTATA
26656688 TTAATTATA
1 TTAATTATA
26656697 TTTAATTA
1 -TTAATTA
26656705 ACTATTTAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 28
0.68 0.08 0.24
Matches are distributed among these distances:
8 27 0.34
9 12 0.15
10 26 0.33
11 5 0.06
12 9 0.11
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (9 bp):
TTAATTATA
Found at i:26656749 original size:207 final size:208
Alignment explanation
Indices: 26656317--26656760 Score: 624
Period size: 207 Copynumber: 2.2 Consensus size: 208
26656307 ATAAAAACCA
26656317 GTAAATAATTA-A-ATAATTATGTATTTAATTATAAACAGTATCAATTAATTAAATATTTAAGTT
1 GTAAATAATTATATATAATTATGTATTTAATTATAAACAGTATCAATTAATTAAATATTTAAGTT
26656380 AAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTTTAA
66 AAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTTTAA
* * *
26656445 TTATGTATTTAATTATAAACAGTATCGATTAATTAAATATTTAAGTTAATAGATTTAATTATTTA
131 TTATGTATTTAATTATAAACAATATCGATTAATT--ATATTTAAGTTAATAGAATTAACTATTTA
26656510 ATTATATTAAATTATT
194 ATTATA-TAAATTATT
* * ** *
26656526 -T-AATCA-TGT-T-TAATTATGTATTTAATTATAAACAGTAATCCTTTAATTAAATATTTACGT
1 GTAAATAATTATATATAATTATGTATTTAATTATAAACAGT-ATCAATTAATTAAATATTTAAGT
26656586 TAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTTTA
65 TAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTTTA
**
26656651 ATTATGTATTTAATTATAAACAATATCGATTAA-T-TATTTAA-TTATATTTAATTAACTATTTA
130 ATTATGTATTTAATTATAAACAATATCGATTAATTATATTTAAGTTA-ATAGAATTAACTATTTA
*
26656713 ATT-TA-AAATATTTT
194 ATTATATAAAT-TATT
*
26656727 CGTAAATAATTATATATAATTATTTAATTTAATT
1 -GTAAATAATTATATATAATTATGT-ATTTAATT
26656761 TAATTATTTA
Statistics
Matches: 209, Mismatches: 14, Indels: 25
0.84 0.06 0.10
Matches are distributed among these distances:
200 4 0.02
201 3 0.01
202 5 0.02
203 24 0.11
204 4 0.02
205 2 0.01
206 29 0.14
207 129 0.62
208 9 0.04
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (208 bp):
GTAAATAATTATATATAATTATGTATTTAATTATAAACAGTATCAATTAATTAAATATTTAAGTT
AAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTTTAA
TTATGTATTTAATTATAAACAATATCGATTAATTATATTTAAGTTAATAGAATTAACTATTTAAT
TATATAAATTATT
Found at i:26656754 original size:18 final size:18
Alignment explanation
Indices: 26656733--26656826 Score: 67
Period size: 18 Copynumber: 5.3 Consensus size: 18
26656723 TTTTCGTAAA
26656733 TAATTATATATAATTATT
1 TAATTATATATAATTATT
*
26656751 TAATT-TAATTTAATTATT
1 TAATTAT-ATATAATTATT
*
26656769 TAATT-GA-A-AA-TATT
1 TAATTATATATAATTATT
26656783 TAATTAT-T-TAATTATAT
1 TAATTATATATAATTAT-T
*
26656800 TAAATTAAATATTTAATTATT
1 T-AATT--ATATATAATTATT
26656821 TAATTA
1 TAATTA
26656827 ATAAAAACAG
Statistics
Matches: 61, Mismatches: 4, Indels: 22
0.70 0.05 0.25
Matches are distributed among these distances:
14 9 0.15
15 4 0.07
16 3 0.05
17 4 0.07
18 25 0.41
20 6 0.10
21 3 0.05
22 7 0.11
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (18 bp):
TAATTATATATAATTATT
Found at i:26656769 original size:8 final size:8
Alignment explanation
Indices: 26656733--26656826 Score: 74
Period size: 8 Copynumber: 11.8 Consensus size: 8
26656723 TTTTCGTAAA
26656733 TAATTATAT
1 TAATTAT-T
26656742 ATAATTATT
1 -TAATTATT
26656751 TAATTTAATT
1 TAA-TT-ATT
26656761 TAATTATT
1 TAATTATT
26656769 TAATTGA--
1 TAATT-ATT
*
26656776 -AAATATT
1 TAATTATT
26656783 TAATTATT
1 TAATTATT
26656791 TAATTATAT
1 TAATTAT-T
26656800 TAA--A-T
1 TAATTATT
*
26656805 TAAATATT
1 TAATTATT
26656813 TAATTATT
1 TAATTATT
26656821 TAATTA
1 TAATTA
26656827 ATAAAAACAG
Statistics
Matches: 71, Mismatches: 3, Indels: 22
0.74 0.03 0.23
Matches are distributed among these distances:
5 5 0.07
6 3 0.04
7 2 0.03
8 38 0.54
9 10 0.14
10 13 0.18
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (8 bp):
TAATTATT
Found at i:26656794 original size:30 final size:30
Alignment explanation
Indices: 26656747--26656826 Score: 110
Period size: 30 Copynumber: 2.6 Consensus size: 30
26656737 TATATATAAT
26656747 TATTTAATTTAATTTAATTAT-TT-AATTGAAAA
1 TATTTAA-TT-ATTTAATTATATTAAATT--AAA
26656779 TATTTAATTATTTAATTATATTAAATTAAA
1 TATTTAATTATTTAATTATATTAAATTAAA
26656809 TATTTAATTATTTAATTA
1 TATTTAATTATTTAATTA
26656827 ATAAAAACAG
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
30 31 0.67
31 4 0.09
32 11 0.24
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (30 bp):
TATTTAATTATTTAATTATATTAAATTAAA
Found at i:26656807 original size:22 final size:21
Alignment explanation
Indices: 26656594--26656828 Score: 107
Period size: 22 Copynumber: 11.2 Consensus size: 21
26656584 GTTAAAAGAT
26656594 TTAATTATTTAATTATATTAAA
1 TTAATTATTTAATTATATT-AA
* * * * *
26656616 GTAAATAATTATATTAAATTAT
1 TTAATTATTTA-ATTATATTAA
* *
26656638 TTAATTATGTTTAATTAT-GTAT
1 TTAATTA--TTTAATTATATTAA
* ** **
26656660 TTAATTA-TAAACAATATCGA
1 TTAATTATTTAATTATATTAA
26656680 TTAATTATTTAATTATATTTAA
1 TTAATTATTTAATTATA-TTAA
*
26656702 TTAACTATTTAATT-TA--AA
1 TTAATTATTTAATTATATTAA
* *
26656720 AT-ATT-TTCGTAAATA-ATTATA
1 TTAATTATT--TAATTATATTA-A
*
26656741 TATAATTATTTAATT-TA--AT
1 T-TAATTATTTAATTATATTAA
* * *
26656760 TTAATTATTTAATTGAAAATAT
1 TTAATTATTTAATT-ATATTAA
26656782 TTAATTATTTAATTATATTAAA
1 TTAATTATTTAATTATATT-AA
*
26656804 TTAAATATTTAATTAT-TTAA
1 TTAATTATTTAATTATATTAA
26656824 TTAAT
1 TTAAT
26656829 AAAAACAGTC
Statistics
Matches: 157, Mismatches: 35, Indels: 44
0.67 0.15 0.19
Matches are distributed among these distances:
16 2 0.01
17 2 0.01
18 21 0.13
19 6 0.04
20 16 0.10
21 14 0.09
22 77 0.49
23 14 0.09
24 5 0.03
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (21 bp):
TTAATTATTTAATTATATTAA
Found at i:26656885 original size:33 final size:31
Alignment explanation
Indices: 26656848--26656913 Score: 114
Period size: 33 Copynumber: 2.1 Consensus size: 31
26656838 CCAACTATTT
26656848 AAGTAAAATGTTGTCACTAATATATATATTTTA
1 AAGTAAAATGTTGTCACT-ATATATAT-TTTTA
26656881 AAGTAAAATGTTGTCACTATATATATTTTTA
1 AAGTAAAATGTTGTCACTATATATATTTTTA
26656912 AA
1 AA
26656914 TTTAAATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 7 0.21
32 8 0.24
33 18 0.55
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (31 bp):
AAGTAAAATGTTGTCACTATATATATTTTTA
Found at i:26662460 original size:66 final size:66
Alignment explanation
Indices: 26662354--26662494 Score: 237
Period size: 66 Copynumber: 2.1 Consensus size: 66
26662344 CAAATTGCTC
* * *
26662354 AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGATGAACTCCATCTA
1 AACTTAAAGAGAAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACCTA
26662419 A
66 A
* *
26662420 AACTTAAAGAGAAGGCTGCAGTGAGAGAAGCAGAGTCTCAAAAAAAATATGAAGAACTCCACCTA
1 AACTTAAAGAGAAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACCTA
26662485 A
66 A
26662486 AACTTAAAG
1 AACTTAAAG
26662495 TGGAGGCAGC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 70 1.00
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.16
Consensus pattern (66 bp):
AACTTAAAGAGAAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACCTA
A
Found at i:26662769 original size:15 final size:15
Alignment explanation
Indices: 26662749--26662777 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
26662739 ATTTGAAGTT
26662749 ATTGGTTGGATTTGC
1 ATTGGTTGGATTTGC
26662764 ATTGGTTGGATTTG
1 ATTGGTTGGATTTG
26662778 AATTTACAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.03, G:0.34, T:0.48
Consensus pattern (15 bp):
ATTGGTTGGATTTGC
Found at i:26663207 original size:6 final size:6
Alignment explanation
Indices: 26663196--26663234 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
26663186 TGATCAAAAT
*
26663196 TGAAAG TGAAAG TGAAAG TGCAAA- TGAAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TG-AAAG TGAAAG TGAAAG TGA
26663235 TATGAATTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 3 0.10
6 24 0.80
7 3 0.10
ACGTcount: A:0.49, C:0.03, G:0.28, T:0.21
Consensus pattern (6 bp):
TGAAAG
Found at i:26663406 original size:38 final size:38
Alignment explanation
Indices: 26663361--26663446 Score: 154
Period size: 38 Copynumber: 2.3 Consensus size: 38
26663351 GTGTCATTAT
*
26663361 TTTACTTCTGATAGATTCGATGAGGTACTAGGTACCAC
1 TTTACTTCGGATAGATTCGATGAGGTACTAGGTACCAC
*
26663399 TTTACTTCGGATGGATTCGATGAGGTACTAGGTACCAC
1 TTTACTTCGGATAGATTCGATGAGGTACTAGGTACCAC
26663437 TTTACTTCGG
1 TTTACTTCGG
26663447 CTAGGCCGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (38 bp):
TTTACTTCGGATAGATTCGATGAGGTACTAGGTACCAC
Found at i:26664597 original size:11 final size:11
Alignment explanation
Indices: 26664583--26664614 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
26664573 AAAACCATTT
26664583 TAAATTTAAAC
1 TAAATTTAAAC
*
26664594 TAAATTTAAAG
1 TAAATTTAAAC
26664605 TAAATTTAAA
1 TAAATTTAAA
26664615 TTTGAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAC
Found at i:26664628 original size:18 final size:17
Alignment explanation
Indices: 26664594--26664632 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
26664584 AAATTTAAAC
*
26664594 TAAATTTAAAGTAAATT
1 TAAATTTAAAATAAATT
26664611 TAAATTTGAAAATAAATT
1 TAAATTT-AAAATAAATT
26664629 TAAA
1 TAAA
26664633 ATCAATCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (17 bp):
TAAATTTAAAATAAATT
Found at i:26664643 original size:29 final size:28
Alignment explanation
Indices: 26664583--26664654 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 28
26664573 AAAACCATTT
* * *
26664583 TAAATTTAAACTAAATTTAAAGTAAATT
1 TAAATTTAAAATAAATTTAAAATAAATC
*
26664611 TAAATTTGAAAATAAATTTAAAATCAATC
1 TAAATTT-AAAATAAATTTAAAATAAATC
*
26664640 TAAACTTAAAATAAA
1 TAAATTTAAAATAAA
26664655 AAAGTTTGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
28 15 0.39
29 23 0.61
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.35
Consensus pattern (28 bp):
TAAATTTAAAATAAATTTAAAATAAATC
Found at i:26669294 original size:59 final size:59
Alignment explanation
Indices: 26669222--26669648 Score: 531
Period size: 59 Copynumber: 7.3 Consensus size: 59
26669212 ACCCGAGGGC
* * *** *
26669222 AAAATGGTAATTTTTTGTGAAATCGAGGTCAAAAATGGAATTTAAAAAAATTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
* * * *
26669281 AAAATGGTGA-TTTTGGTGAAATCGGGGTTAAAAATGGTATTTTGGAAAGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
* * * * **
26669339 AATATGG-AAATTTCGGTGAAATCGAGGTTAAAAATGGAATTTTGGGAAGTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
* *
26669397 AAAATGGTAATTTTAGGTGAAATCGAGGTTAAAAGTGGAATTTTGGAAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
* * *
26669456 AAAATGGCAA-TTTTGGTGAAATCGAGGTTAAAAATGGAGTTTTGGGAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
* * * * *
26669514 AAAATGGTAATTTTAGGTGAAATCGGGGTTAAAGATGAAATTTTGGAAAGTTTAGGGAT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
* * * *
26669573 AAAATGGTAATTTTTAGTGAAATAGGGGTTAAAAAT-GAGATTTTGGAAAG-TTCGGGGCT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGA-ATTTTGGAAAGTTTAGGGG-T
26669632 AAAATGGTAATTTTTGG
1 AAAATGGTAATTTTTGG
26669649 ACAATCCAGG
Statistics
Matches: 318, Mismatches: 45, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
57 1 0.00
58 153 0.48
59 164 0.52
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.32
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
Found at i:26669314 original size:58 final size:58
Alignment explanation
Indices: 26669222--26669645 Score: 528
Period size: 58 Copynumber: 7.2 Consensus size: 58
26669212 ACCCGAGGGC
* * *** *
26669222 AAAATGGTAATTTTTTGTGAAATCGAGGTCAAAAATGGAATTTAAAAAAATTTAGGGGT
1 AAAATGGTAA-TTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
* * * *
26669281 AAAATGGTGATTTTGGTGAAATCGGGGTTAAAAATGGTATTTTGGAAAGTTTGGGGGT
1 AAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
* * * * **
26669339 AATATGGAAATTTCGGTGAAATCGAGGTTAAAAATGGAATTTTGGGAAGTTCGGGGGT
1 AAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
*
26669397 AAAATGGTAATTTTAGGTGAAATCGAGGTTAAAAGTGGAATTTTGGAAAGTTTAGGGGT
1 AAAATGGTAATTTT-GGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
* * *
26669456 AAAATGGCAATTTTGGTGAAATCGAGGTTAAAAATGGAGTTTTGGGAAGTTTAGGGGT
1 AAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
* * * *
26669514 AAAATGGTAATTTTAGGTGAAATCGGGGTTAAAGATGAAATTTTGGAAAGTTTAGGGAT
1 AAAATGGTAATTTT-GGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
* * * *
26669573 AAAATGGTAATTTTTAGTGAAATAGGGGTTAAAAAT-GAGATTTTGGAAAG-TTCGGGGCT
1 AAAATGGTAA-TTTTGGTGAAATCGAGGTTAAAAATGGA-ATTTTGGAAAGTTTAGGGG-T
26669632 AAAATGGTAATTTT
1 AAAATGGTAATTTT
26669646 TGGACAATCC
Statistics
Matches: 318, Mismatches: 42, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
58 164 0.52
59 150 0.47
60 4 0.01
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.32
Consensus pattern (58 bp):
AAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
Found at i:26669457 original size:117 final size:117
Alignment explanation
Indices: 26669222--26669645 Score: 532
Period size: 117 Copynumber: 3.6 Consensus size: 117
26669212 ACCCGAGGGC
* * * *** * *
26669222 AAAATGGTAATTTTTTGTGAAATCGAGGTCAAAAATGGAATTTAAAAAAATTTAGGGGTAAAATG
1 AAAATGG-AAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAATG
* * * *
26669287 GTGATTTT-GGTGAAATCGGGGTTAAAAATGGTATTTTGGAAAGTTTGGGGGT
65 GTAATTTTAGGTGAAATCGGGGTTAAAAGTGGAATTTTGGAAAGTTTAGGGGT
* * * *
26669339 AATATGGAAATTTCGGTGAAATCGAGGTTAAAAATGGAATTTTGGGAAGTTCGGGGGTAAAATGG
1 AAAATGGAAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGG
*
26669404 TAATTTTAGGTGAAATCGAGGTTAAAAGTGGAATTTTGGAAAGTTTAGGGGT
66 TAATTTTAGGTGAAATCGGGGTTAAAAGTGGAATTTTGGAAAGTTTAGGGGT
* * * *
26669456 AAAATGGCAATTTTGGTGAAATCGAGGTTAAAAATGGAGTTTTGGGAAGTTTAGGGGTAAAATGG
1 AAAATGGAAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGG
* *
26669521 TAATTTTAGGTGAAATCGGGGTT-AAAGATGAAATTTTGGAAAGTTTAGGGAT
66 TAATTTTAGGTGAAATCGGGGTTAAAAG-TGGAATTTTGGAAAGTTTAGGGGT
* * * *
26669573 AAAATGGTAATTTTTAGTGAAATAGGGGTTAAAAAT-GAGATTTTGGAAAGTTC-GGGGCTAAAA
1 AAAATGG-AAATTTTGGTGAAATCGAGGTTAAAAATGGA-ATTTTGGAAAGTTCAGGGG-TAAAA
26669636 TGGTAATTTT
63 TGGTAATTTT
26669646 TGGACAATCC
Statistics
Matches: 268, Mismatches: 34, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
116 57 0.21
117 162 0.60
118 49 0.18
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.32
Consensus pattern (117 bp):
AAAATGGAAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGG
TAATTTTAGGTGAAATCGGGGTTAAAAGTGGAATTTTGGAAAGTTTAGGGGT
Found at i:26670708 original size:21 final size:20
Alignment explanation
Indices: 26670679--26670730 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
26670669 TTTCCCTTTT
*
26670679 TTATTTAATATTATTAATGTTA
1 TTATTTAATAATATT-A-GTTA
26670701 TTA-TTAATAAATATTAGTTA
1 TTATTTAAT-AATATTAGTTA
26670721 TTATTTAATA
1 TTATTTAATA
26670731 CAACTGTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 8 0.30
21 11 0.41
22 8 0.30
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (20 bp):
TTATTTAATAATATTAGTTA
Found at i:26670776 original size:31 final size:31
Alignment explanation
Indices: 26670711--26670783 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
26670701 TTATTAATAA
** *
26670711 ATATTAGTTATTATTTAATACAACTGTTATTG
1 ATATTA-TTATTATTTAATACAACTACTAATG
**
26670743 ATATTATTATTATTTAATATTACTACTAATG
1 ATATTATTATTATTTAATACAACTACTAATG
26670774 ATATTCATTA
1 ATATT-ATTA
26670784 ATACATTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 25 0.71
32 10 0.29
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (31 bp):
ATATTATTATTATTTAATACAACTACTAATG
Found at i:26671488 original size:11 final size:11
Alignment explanation
Indices: 26671472--26671535 Score: 67
Period size: 11 Copynumber: 5.8 Consensus size: 11
26671462 TTATAATAAT
26671472 ATTAAATTTAA
1 ATTAAATTTAA
*
26671483 ATTAAATTCAA
1 ATTAAATTTAA
*
26671494 ATTGAATTTAA
1 ATTAAATTTAA
*
26671505 AATAAATTTAAA
1 ATTAAATTT-AA
*
26671517 ATTAAA-ATAA
1 ATTAAATTTAA
*
26671527 ATTTAATTT
1 ATTAAATTT
26671536 TCAAATGGTT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
10 7 0.17
11 28 0.67
12 7 0.17
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:26671495 original size:17 final size:16
Alignment explanation
Indices: 26671474--26671532 Score: 73
Period size: 17 Copynumber: 3.6 Consensus size: 16
26671464 ATAATAATAT
*
26671474 TAAATTTAAATTAAAT
1 TAAATTTAAATTAAAA
* *
26671490 TCAAATTGAATTTAAAA
1 T-AAATTTAAATTAAAA
26671507 TAAATTTAAAATTAAAA
1 TAAATTT-AAATTAAAA
26671524 TAAATTTAA
1 TAAATTTAA
26671533 TTTTCAAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 8 0.22
17 28 0.78
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (16 bp):
TAAATTTAAATTAAAA
Found at i:26671923 original size:42 final size:41
Alignment explanation
Indices: 26671830--26671923 Score: 98
Period size: 41 Copynumber: 2.2 Consensus size: 41
26671820 AAACATAAAA
* * ** *
26671830 CAAATATAATTTTTATCTAATTAAAGTTGAAAAGTTCAAATT
1 CAAAAATAA-TTTTATCTAAATAAAGTCAAAAAGTTCAAATC
* * *
26671872 TAAAGATAATTTTATCTAAATAAAGTCAAAAATTTCAAAGTC
1 CAAAAATAATTTTATCTAAATAAAGTCAAAAAGTTCAAA-TC
26671914 CAAAAATAAT
1 CAAAAATAAT
26671924 ATGCAAACCC
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
41 26 0.62
42 16 0.38
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (41 bp):
CAAAAATAATTTTATCTAAATAAAGTCAAAAAGTTCAAATC
Found at i:26672891 original size:18 final size:19
Alignment explanation
Indices: 26672870--26672905 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
26672860 AATTGTTTGG
*
26672870 AATTGG-TAACAAATTGAA
1 AATTGGATAAAAAATTGAA
26672888 AATTGGATAAAAAATTGA
1 AATTGGATAAAAAATTGA
26672906 TTATGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.53, C:0.03, G:0.17, T:0.28
Consensus pattern (19 bp):
AATTGGATAAAAAATTGAA
Found at i:26675166 original size:25 final size:25
Alignment explanation
Indices: 26675131--26675178 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
26675121 TTCAGGATTA
*
26675131 CCTACGTATTAATGCAAAACGTGGT
1 CCTACGCATTAATGCAAAACGTGGT
* *
26675156 CCTACGCATTATTGTAAAACGTG
1 CCTACGCATTAATGCAAAACGTG
26675179 TTTTTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (25 bp):
CCTACGCATTAATGCAAAACGTGGT
Found at i:26675392 original size:16 final size:15
Alignment explanation
Indices: 26675341--26675394 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
26675331 TTAAGATGTT
26675341 AATAAAAAATTCAAAAA
1 AATAAAAAATTC--AAA
*
26675358 ATATATAAAAATTGAAA
1 A-ATA-AAAAATTCAAA
26675375 AATAAAAAATTCATAA
1 AATAAAAAATTCA-AA
26675391 AATA
1 AATA
26675395 TAAAGATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
15 8 0.25
16 9 0.28
17 5 0.16
18 3 0.09
19 7 0.22
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (15 bp):
AATAAAAAATTCAAA
Found at i:26675397 original size:18 final size:18
Alignment explanation
Indices: 26675342--26675398 Score: 66
Period size: 17 Copynumber: 3.3 Consensus size: 18
26675332 TAAGATGTTA
26675342 ATAAAAAATTCAAAAAAT
1 ATAAAAAATTCAAAAAAT
*
26675360 ATATAAAAATT--GAAAA-
1 ATA-AAAAATTCAAAAAAT
*
26675376 ATAAAAAATTCATAAAAT
1 ATAAAAAATTCAAAAAAT
26675394 ATAAA
1 ATAAA
26675399 GATTATTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
15 7 0.21
16 3 0.09
17 8 0.24
18 8 0.24
19 7 0.21
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.25
Consensus pattern (18 bp):
ATAAAAAATTCAAAAAAT
Found at i:26678851 original size:6 final size:6
Alignment explanation
Indices: 26678824--26678885 Score: 51
Period size: 6 Copynumber: 10.8 Consensus size: 6
26678814 GGCTTGGGCT
* * *
26678824 TTTAAA GTTTAAA -TTAAT TTTAAA TTTAAA CTT--A TTTAAA TTT-AT
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
26678869 TTTAGA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAA
26678886 TCAAATTCAA
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
4 3 0.07
5 8 0.19
6 26 0.60
7 6 0.14
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:26678853 original size:17 final size:16
Alignment explanation
Indices: 26678824--26678885 Score: 63
Period size: 17 Copynumber: 3.7 Consensus size: 16
26678814 GGCTTGGGCT
26678824 TTTAAAGTTTAAATTAA
1 TTTAAA-TTTAAATTAA
26678841 TTTTAAATTTAAACTT-A
1 -TTTAAATTTAAA-TTAA
**
26678858 TTTAAATTTATTTTAGA
1 TTTAAATTTAAATTA-A
26678875 TTTAAATTTAA
1 TTTAAATTTAA
26678886 TCAAATTCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.05
16 10 0.26
17 18 0.47
18 8 0.21
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAAATTTAAATTAA
Found at i:26678891 original size:27 final size:27
Alignment explanation
Indices: 26678834--26678892 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
26678824 TTTAAAGTTT
* *
26678834 AAATTAATTTTAAATTTAAACTTATTT
1 AAATTAATTTTAAATTTAAACTTAATC
* * *
26678861 AAATTTATTTTAGATTTAAATTTAATC
1 AAATTAATTTTAAATTTAAACTTAATC
26678888 AAATT
1 AAATT
26678893 CAAAATAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (27 bp):
AAATTAATTTTAAATTTAAACTTAATC
Found at i:26679620 original size:21 final size:21
Alignment explanation
Indices: 26679594--26679643 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
26679584 AGTAATATTG
*
26679594 AATAATAATAACTATTTTAAT
1 AATAATAATAAATATTTTAAT
* *
26679615 AATAATAATAAATGTTTTAGT
1 AATAATAATAAATATTTTAAT
26679636 AATAATAA
1 AATAATAA
26679644 GTGTTTTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (21 bp):
AATAATAATAAATATTTTAAT
Found at i:26679638 original size:18 final size:18
Alignment explanation
Indices: 26679617--26679651 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
26679607 ATTTTAATAA
26679617 TAATAATAAATGTTTTAG
1 TAATAATAAATGTTTTAG
*
26679635 TAATAATAAGTGTTTTA
1 TAATAATAAATGTTTTA
26679652 AGAGTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (18 bp):
TAATAATAAATGTTTTAG
Found at i:26679657 original size:21 final size:20
Alignment explanation
Indices: 26679596--26679661 Score: 57
Period size: 21 Copynumber: 3.4 Consensus size: 20
26679586 TAATATTGAA
* * *
26679596 TAATAATAACTATTTTAATAA
1 TAATAATAAATGTTTTAA-AG
26679617 TAATAATAAATGTTTT--AG
1 TAATAATAAATGTTTTAAAG
*
26679635 TAATAATAAGTGTTTTAAGAG
1 TAATAATAAATGTTTTAA-AG
26679656 T-ATAAT
1 TAATAAT
26679662 TAATAATTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
18 16 0.42
20 5 0.13
21 17 0.45
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (20 bp):
TAATAATAAATGTTTTAAAG
Found at i:26681077 original size:59 final size:58
Alignment explanation
Indices: 26680867--26681349 Score: 596
Period size: 58 Copynumber: 8.3 Consensus size: 58
26680857 AAACTTCCAA
* * * * * *
26680867 AAAACTACCATTTTTACCCCCAAAATTTTCAAAATTCTATTTTTAACCCCGATTTCACTG
1 AAAATTACCA-TTTTA-CCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCG
* * * *
26680927 AAAATTACCATTTTACCCTGAACTTTTCAAAATTCCATTTTTAACCCCAATTTCATCG
1 AAAATTACCATTTTACCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCG
*
26680985 -AAATTACCATTTTACCCCCGAACTTTTCAAAATTCCATTTTTAACCCCGATTTCACCG
1 AAAATTACCATTTTA-CCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCG
* * * *
26681043 AAAATTTCCATTTTACCCTTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
1 AAAATTACCATTTTACCC-CGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCG
* * * * *
26681102 AAAATTACCATTTTACCGCCAAACTTTCCAAAATTTCATTTTCAACCCCAATTTCACTG
1 AAAATTACCATTTTACC-CCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCG
* * * *
26681161 -TAATTACCATTTTACTCTCGAACTTTTCAAAATTCCATTTTTAACCCTGATTTCACCG
1 AAAATTACCATTTTAC-CCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCG
* * *
26681219 AAAATTTCCATTTTACCCCGAACTTTCCAAAATTCCATTTTCAACCCCGATTTCATCG
1 AAAATTACCATTTTACCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCG
* * *
26681277 AAAATTACCATTTTACGCCCAAACTTTCCAAAATTCTA-TTTTAACCCCAATTTCACCG
1 AAAATTACCATTTTAC-CCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCG
*
26681335 -AAATTACCGTTTTAC
1 AAAATTACCATTTTAC
26681350 TCCCAAGTTT
Statistics
Matches: 368, Mismatches: 48, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
57 28 0.08
58 195 0.53
59 135 0.37
60 10 0.03
ACGTcount: A:0.31, C:0.28, G:0.04, T:0.36
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCG
Found at i:26681184 original size:117 final size:118
Alignment explanation
Indices: 26680866--26681355 Score: 609
Period size: 117 Copynumber: 4.2 Consensus size: 118
26680856 AAAACTTCCA
* * * * *
26680866 AAAAACTACCATTTTTACCCCCAAAATTTTCAAAATTCTATTTTTAACCCCGATTTCACTGAAAA
1 AAAAATTACCA-TTTTACCCCCAAACTTTCCAAAATTCCATTTTCAACCCCGATTTCACTGAAAA
*
26680931 TTACCATTTTACCCT-GAACTTTTCAAAATTCCATTTTTAACCCCAATTTCATC
65 TTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCATC
* * * * *
26680984 -GAAATTACCATTTTACCCCCGAACTTTTCAAAATTCCATTTTTAACCCCGATTTCACCGAAAAT
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTCAACCCCGATTTCACTGAAAAT
* * *
26681048 TTCCATTTTACCCTTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATC
66 TACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCATC
* * * *
26681101 AAAAATTACCATTTTACCGCCAAACTTTCCAAAATTTCATTTTCAACCCCAATTTCACTG-TAAT
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTCAACCCCGATTTCACTGAAAAT
* * ** *
26681165 TACCATTTTACTCTCGAACTTTTCAAAATTCCATTTTTAACCCTGATTTCACC
66 TACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCATC
* * *
26681218 GAAAATTTCCATTTTA-CCCCGAACTTTCCAAAATTCCATTTTCAACCCCGATTTCA-TCGAAAA
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTCAACCCCGATTTCACT-GAAAA
* *
26681281 TTACCATTTTACGCC-CAAACTTTCCAAAATTCTA-TTTTAACCCCAATTTCA-C
65 TTACCATTTTAC-CCTCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCATC
** * *
26681333 CGAAATTACCGTTTTACTCCCAA
1 AAAAATTACCATTTTACCCCCAA
26681356 GTTTTCCCGA
Statistics
Matches: 323, Mismatches: 43, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
115 14 0.04
116 119 0.37
117 138 0.43
118 52 0.16
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (118 bp):
AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTCAACCCCGATTTCACTGAAAAT
TACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCATC
Found at i:26686491 original size:5 final size:5
Alignment explanation
Indices: 26686481--26686548 Score: 82
Period size: 5 Copynumber: 13.2 Consensus size: 5
26686471 AGGCTAAGAC
* *
26686481 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGGT ATGATTT ATAAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGA--T ATGAT
* *
26686533 ATGCT CTGAT ATGAT A
1 ATGAT ATGAT ATGAT A
26686549 AGGTATGTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
5 49 0.92
7 4 0.08
ACGTcount: A:0.37, C:0.03, G:0.19, T:0.41
Consensus pattern (5 bp):
ATGAT
Found at i:26686597 original size:22 final size:22
Alignment explanation
Indices: 26686541--26686614 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 22
26686531 ATATGCTCTG
* * *
26686541 ATATGATAAGGTATGTTTTGAT
1 ATATGATAAGCTTTGTTATGAT
*
26686563 ATATGTTAAGCTTTGTTATGAT
1 ATATGATAAGCTTTGTTATGAT
* * * *
26686585 TTATGATATGCTTCGATATG-T
1 ATATGATAAGCTTTGTTATGAT
26686606 AGTATGATA
1 A-TATGATA
26686615 TGAAATTATG
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
21 1 0.02
22 40 0.98
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (22 bp):
ATATGATAAGCTTTGTTATGAT
Done.