Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 81 of 373
Found at i:25356372 original size:49 final size:47
Alignment explanation
Indices: 25356293--25356797 Score: 794
Period size: 47 Copynumber: 10.6 Consensus size: 47
25356283 TATTTGAATA
*
25356293 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
25356340 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
25356389 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
25356436 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
25356485 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
25356534 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
25356581 AATGTGAAAGTGTATATCTATGTGATAAGGCCTAATAGTCGATGTGATG
1 AATGTGAAAGTGTATA--TATGTGATAAGGCCTAATGGCCGATGTGATG
25356630 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
25356677 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
25356724 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
25356771 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
25356798 TCCCGAAGGG
Statistics
Matches: 429, Mismatches: 23, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
47 246 0.57
49 183 0.43
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:25356401 original size:96 final size:94
Alignment explanation
Indices: 25356293--25356797 Score: 803
Period size: 96 Copynumber: 5.3 Consensus size: 94
25356283 TATTTGAATA
*
25356293 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
25356358 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCAATGTGATG
* *
25356389 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
25356454 TATGTGATAAGGCCTAATGGCCAATGTGATG
64 TATGTGATAAGGCCTAATGGCCAATGTGATG
25356485 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
25356550 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCTAATGGCCAATGTGATG
* *
25356581 AATGTGAAAGTGTATATCTATGTGATAAGGCCTAATAGTCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATA--TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
25356646 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCAATGTGATG
25356677 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * *
25356742 TGTGACAGGGCCGAGTGGCCAACGTGATG
66 TGTGATAAGGCCTAATGGCCAATGTGATG
* *
25356771 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
25356798 TCCCGAAGGG
Statistics
Matches: 384, Mismatches: 21, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
94 99 0.26
96 240 0.62
98 45 0.12
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:25357017 original size:37 final size:37
Alignment explanation
Indices: 25356916--25357017 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
25356906 CCGAGCTTTA
*
25356916 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
25356953 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* * *
25356990 AAGACCCGATAACTTCATGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
25357018 CGTCTGAGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:25360529 original size:9 final size:9
Alignment explanation
Indices: 25360480--25360533 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
25360470 TTTGCTCAAA
25360480 TTTAGTTAC
1 TTTAGTTAC
* * *
25360489 TATAGCTAAT
1 TTTAG-TTAC
25360499 TTTAGTTAC
1 TTTAGTTAC
* *
25360508 TTTAGCTAA
1 TTTAGTTAC
25360517 TTTAGTTAC
1 TTTAGTTAC
25360526 TTTAGTTA
1 TTTAGTTA
25360534 AATTATGTGG
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
9 28 0.82
10 6 0.18
ACGTcount: A:0.28, C:0.09, G:0.11, T:0.52
Consensus pattern (9 bp):
TTTAGTTAC
Found at i:25360537 original size:19 final size:19
Alignment explanation
Indices: 25360477--25360537 Score: 88
Period size: 19 Copynumber: 3.3 Consensus size: 19
25360467 TTTTTTGCTC
*
25360477 AAATTTAGTTACTATAGCT
1 AAATTTAGTTACTTTAGCT
*
25360496 AATTTTAGTTACTTTAGCT
1 AAATTTAGTTACTTTAGCT
*
25360515 -AATTTAGTTACTTTAGTT
1 AAATTTAGTTACTTTAGCT
25360533 AAATT
1 AAATT
25360538 ATGTGGTCGT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
18 16 0.43
19 21 0.57
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (19 bp):
AAATTTAGTTACTTTAGCT
Found at i:25363542 original size:16 final size:15
Alignment explanation
Indices: 25363521--25363550 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
25363511 ATGTTTAGTC
25363521 ATATAATAAAATATAA
1 ATATAAT-AAATATAA
25363537 ATATAATAAATATA
1 ATATAATAAATATA
25363551 GTTTATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATATAATAAATATAA
Found at i:25363617 original size:16 final size:16
Alignment explanation
Indices: 25363588--25363629 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
25363578 TTTTAATTTT
*
25363588 ATTTTAATTAAT-A-A
1 ATTTTAAATAATAATA
25363602 ATTTTAAA-AATAATA
1 ATTTTAAATAATAATA
25363617 ATTTTAAATAATA
1 ATTTTAAATAATA
25363630 TTATTCACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 3 0.12
14 8 0.33
15 9 0.38
16 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTTAAATAATAATA
Found at i:25374721 original size:27 final size:27
Alignment explanation
Indices: 25374691--25374862 Score: 168
Period size: 27 Copynumber: 6.3 Consensus size: 27
25374681 ATTGAGCCCA
* *
25374691 CACACTCAGTGCTATATAATCAACTCG
1 CACACTTAGTGCTACATAATCAACTCG
* *
25374718 CACACTTAGTGCTACGTAATCAAATCG
1 CACACTTAGTGCTACATAATCAACTCG
*
25374745 CACACTTAGTGCTACATAGTCAAACTCG
1 CACACTTAGTGCTACATAATC-AACTCG
** ** *
25374773 CACACTTAGTGCCGCATGGTCAATTCG
1 CACACTTAGTGCTACATAATCAACTCG
* **
25374800 CACACTTAGTGC-ATCATATTCATTTCG
1 CACACTTAGTGCTA-CATAATCAACTCG
* *
25374827 CACACTTAGTGCAACATAGTCGAA-TCG
1 CACACTTAGTGCTACATAATC-AACTCG
25374854 CACACTTAG
1 CACACTTAG
25374863 CGCCAATCTC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
27 99 0.80
28 25 0.20
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CACACTTAGTGCTACATAATCAACTCG
Found at i:25374828 original size:82 final size:81
Alignment explanation
Indices: 25374710--25374862 Score: 218
Period size: 82 Copynumber: 1.9 Consensus size: 81
25374700 TGCTATATAA
* *
25374710 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
25374775 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
25374792 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
25374856 CACTTAG
65 CACTTAG
25374863 CGCCAATCTC
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 13 0.21
82 50 0.79
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:25382308 original size:27 final size:27
Alignment explanation
Indices: 25382278--25382449 Score: 168
Period size: 27 Copynumber: 6.3 Consensus size: 27
25382268 ATTGAGCCCA
* *
25382278 CACACTCAGTGCTATATAATCAACTCG
1 CACACTTAGTGCTACATAATCAACTCG
* *
25382305 CACACTTAGTGCTACGTAATCAAATCG
1 CACACTTAGTGCTACATAATCAACTCG
*
25382332 CACACTTAGTGCTACATAGTCAAACTCG
1 CACACTTAGTGCTACATAATC-AACTCG
** ** *
25382360 CACACTTAGTGCCGCATGGTCAATTCG
1 CACACTTAGTGCTACATAATCAACTCG
* **
25382387 CACACTTAGTGC-ATCATATTCATTTCG
1 CACACTTAGTGCTA-CATAATCAACTCG
* *
25382414 CACACTTAGTGCAACATAGTCGAA-TCG
1 CACACTTAGTGCTACATAATC-AACTCG
25382441 CACACTTAG
1 CACACTTAG
25382450 CGCCAATCTC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
27 99 0.80
28 25 0.20
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CACACTTAGTGCTACATAATCAACTCG
Found at i:25382415 original size:82 final size:81
Alignment explanation
Indices: 25382297--25382449 Score: 218
Period size: 82 Copynumber: 1.9 Consensus size: 81
25382287 TGCTATATAA
* *
25382297 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
25382362 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
25382379 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
25382443 CACTTAG
65 CACTTAG
25382450 CGCCAATCTC
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 13 0.21
82 50 0.79
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:25392845 original size:29 final size:29
Alignment explanation
Indices: 25392782--25392849 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
25392772 TAATCAACCG
*
25392782 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
25392811 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
25392840 CGCACACTTA
1 CGCACACTTA
25392850 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:25392961 original size:174 final size:174
Alignment explanation
Indices: 25392671--25392998 Score: 629
Period size: 174 Copynumber: 1.9 Consensus size: 174
25392661 AACTCAAGGT
* *
25392671 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
25392736 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
25392801 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
25392845 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
25392910 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
25392975 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
25392999 TGTACAATTT
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 151 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:25392992 original size:29 final size:29
Alignment explanation
Indices: 25392958--25393029 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
25392948 ATCAACCGCG
* * *
25392958 CACACTTAGTGCCATGCACTTTAAACTCA
1 CACACTTAGTGCCATACAATTTAAACCCA
** *
25392987 CACACTTAGTGCTGTACAATTTAAACCCG
1 CACACTTAGTGCCATACAATTTAAACCCA
25393016 CACACTTAGTGCCA
1 CACACTTAGTGCCA
25393030 ATCTCATGAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (29 bp):
CACACTTAGTGCCATACAATTTAAACCCA
Found at i:25400994 original size:29 final size:29
Alignment explanation
Indices: 25400931--25400998 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
25400921 TAATCAACCG
*
25400931 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
25400960 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
25400989 CGCACACTTA
1 CGCACACTTA
25400999 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:25401110 original size:174 final size:174
Alignment explanation
Indices: 25400820--25401147 Score: 629
Period size: 174 Copynumber: 1.9 Consensus size: 174
25400810 AACTCAAGGT
* *
25400820 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
25400885 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
25400950 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
25400994 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
25401059 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
25401124 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
25401148 TGTACAATTT
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 151 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:25401141 original size:29 final size:29
Alignment explanation
Indices: 25401107--25401178 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
25401097 ATCAACCGCG
* * *
25401107 CACACTTAGTGCCATGCACTTTAAACTCA
1 CACACTTAGTGCCATACAATTTAAACCCA
** *
25401136 CACACTTAGTGCTGTACAATTTAAACCCG
1 CACACTTAGTGCCATACAATTTAAACCCA
25401165 CACACTTAGTGCCA
1 CACACTTAGTGCCA
25401179 ATCTCATGAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (29 bp):
CACACTTAGTGCCATACAATTTAAACCCA
Found at i:25412834 original size:15 final size:15
Alignment explanation
Indices: 25412814--25412843 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25412804 GGTAAGGCAA
*
25412814 ATAAATTGCTTAAAC
1 ATAAATTGCTCAAAC
25412829 ATAAATTGCTCAAAC
1 ATAAATTGCTCAAAC
25412844 TTTTAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.30
Consensus pattern (15 bp):
ATAAATTGCTCAAAC
Found at i:25416511 original size:37 final size:37
Alignment explanation
Indices: 25416460--25416539 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 37
25416450 CTTATTACGA
* * *
25416460 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCAGGACAAAATTC-CCACACGAAGTCATCG
*
25416497 AGTCTTACCAGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTTACCAGGACAAAATTCCCACACGAAGTCATCG
*
25416534 GGTCTT
1 AGTCTT
25416540 TAGAGCCCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCAGGACAAAATTCCCACACGAAGTCATCG
Found at i:25416729 original size:47 final size:47
Alignment explanation
Indices: 25416658--25417426 Score: 1227
Period size: 47 Copynumber: 16.4 Consensus size: 47
25416648 CCCTTCGGGA
** * * *
25416658 CTTATCACATTTATACACT-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACA-TGTTCACTTTCATCACATTGGCCATTCGGC
* * * * *
25416705 CTTATCTCACATACACATGCTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
* *
25416752 CTTATCACACATACACCTGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
* *
25416799 TTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGT
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
*
25416846 CTTATCACACATACACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
* *
25416893 TTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGT
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
*
25416940 CTTATCACACATACACATGTTCAC-TTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
*
25416986 CTTATCACACATAGACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
* * *
25417033 CTTATCACACATACACATGTTTACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
* * * *
25417080 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
*
25417127 CTTATCACACATATACATTTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
25417174 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
* *
25417221 TTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGT
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
*
25417268 CTTATCACACATACACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
25417315 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
25417362 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
*
25417409 CCTATTCACACATATACA
1 CTTA-TCACACATATACA
25417427 CTTTCACATT
Statistics
Matches: 671, Mismatches: 48, Indels: 5
0.93 0.07 0.01
Matches are distributed among these distances:
46 45 0.07
47 613 0.91
48 13 0.02
ACGTcount: A:0.26, C:0.30, G:0.10, T:0.34
Consensus pattern (47 bp):
CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
Found at i:25416992 original size:22 final size:22
Alignment explanation
Indices: 25416967--25417041 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
25416957 TGTTCACTTC
25416967 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * * * *
25416989 ATCACACATAGACATGTTC-ACTTT
1 ATCACA-TTGGCCA--TTCGGCCTT
25417013 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
25417036 ATCACA
1 ATCACA
25417042 CATACACATG
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.39
23 7 0.18
24 7 0.18
25 9 0.24
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:25417463 original size:42 final size:42
Alignment explanation
Indices: 25417417--25417546 Score: 130
Period size: 42 Copynumber: 3.2 Consensus size: 42
25417407 GCCCTATTCA
25417417 CACATATACACTTTCACATTTATTCAATTAGACTTCACATAC
1 CACATATACACTTTCACATTTATTCAATTAGACTTCACATAC
* ** * * * *
25417459 CACATAT--ACTATCACA-TT-GGCCATTCGGC--C-CTATTC
1 CACATATACACTTTCACATTTATTCAATTAGACTTCAC-ATAC
25417495 ACACATATACACTTTCACATTTATTCAATTAGACTTCACATAC
1 -CACATATACACTTTCACATTTATTCAATTAGACTTCACATAC
25417538 CACATATAC
1 CACATATAC
25417547 TATCATGTAC
Statistics
Matches: 65, Mismatches: 14, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
35 1 0.02
36 4 0.06
37 7 0.11
38 6 0.09
39 10 0.15
40 10 0.15
41 6 0.09
42 16 0.25
43 4 0.06
44 1 0.02
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.33
Consensus pattern (42 bp):
CACATATACACTTTCACATTTATTCAATTAGACTTCACATAC
Found at i:25417480 original size:79 final size:79
Alignment explanation
Indices: 25417390--25417551 Score: 324
Period size: 79 Copynumber: 2.1 Consensus size: 79
25417380 GTTCACTTTC
25417390 ATCACATTGGCCATTCGGCCCTATTCACACATATACACTTTCACATTTATTCAATTAGACTTCAC
1 ATCACATTGGCCATTCGGCCCTATTCACACATATACACTTTCACATTTATTCAATTAGACTTCAC
25417455 ATACCACATATACT
66 ATACCACATATACT
25417469 ATCACATTGGCCATTCGGCCCTATTCACACATATACACTTTCACATTTATTCAATTAGACTTCAC
1 ATCACATTGGCCATTCGGCCCTATTCACACATATACACTTTCACATTTATTCAATTAGACTTCAC
25417534 ATACCACATATACT
66 ATACCACATATACT
25417548 ATCA
1 ATCA
25417552 TGTACAGACT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 83 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (79 bp):
ATCACATTGGCCATTCGGCCCTATTCACACATATACACTTTCACATTTATTCAATTAGACTTCAC
ATACCACATATACT
Found at i:25417533 original size:37 final size:37
Alignment explanation
Indices: 25417413--25417534 Score: 95
Period size: 39 Copynumber: 3.2 Consensus size: 37
25417403 TTCGGCCCTA
25417413 TTCACACATATACACTTTCACATTTATTCAATTAGAC
1 TTCACACATATACACTTTCACATTTATTCAATTAGAC
* * * ** * * *
25417450 TTCACATACCACATATACTATCACA-TT-GGCCATTCGGCCC
1 TTCAC--A-CATATACACTTTCACATTTATTCAATT-AG-AC
25417490 TATTCACACATATACACTTTCACATTTATTCAATTAGAC
1 --TTCACACATATACACTTTCACATTTATTCAATTAGAC
25417529 TTCACA
1 TTCACA
25417535 TACCACATAT
Statistics
Matches: 60, Mismatches: 16, Indels: 18
0.64 0.17 0.19
Matches are distributed among these distances:
37 11 0.18
38 4 0.07
39 18 0.30
40 18 0.30
41 4 0.07
42 5 0.08
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (37 bp):
TTCACACATATACACTTTCACATTTATTCAATTAGAC
Found at i:25419113 original size:13 final size:13
Alignment explanation
Indices: 25419095--25419119 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25419085 TACTAAATTT
25419095 TCATGGATTCAAG
1 TCATGGATTCAAG
25419108 TCATGGATTCAA
1 TCATGGATTCAA
25419120 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:25420807 original size:40 final size:40
Alignment explanation
Indices: 25420750--25421452 Score: 1126
Period size: 40 Copynumber: 17.6 Consensus size: 40
25420740 CCAGCATGAT
* * *
25420750 TGCTCTTCGGGATTTAGCACGGATATATCACTAGTACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
25420790 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
25420830 TGCTCTTCGGGACTTAGCCCGGATTTATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
25420870 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
25420910 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
25420950 TGCTCTCCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
25420990 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
25421030 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
25421070 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
25421110 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
25421150 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
25421190 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
25421230 TGCTCTTCGGGACTTAGCCCGGATTTATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
25421270 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
25421310 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
25421350 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* * *
25421391 TGC-CTTC-GGATCTTAGTCCAGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
25421431 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
25421453 CATCATTCGA
Statistics
Matches: 626, Mismatches: 32, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
39 3 0.00
40 602 0.96
41 21 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:25423300 original size:37 final size:37
Alignment explanation
Indices: 25423250--25423329 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
25423240 CTTATTACGA
* *
25423250 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
25423287 AGTCTTACCCGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
25423324 GGTCTT
1 AGTCTT
25423330 TAGAGCCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:25423519 original size:47 final size:47
Alignment explanation
Indices: 25423448--25424296 Score: 1280
Period size: 47 Copynumber: 18.4 Consensus size: 47
25423438 CCCTTCGGGA
** * * *
25423448 CTTATCACATTTATACACT-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACA-TGTTCACTTTCATCACATTGGCCATTCGGC
* * * * *
25423495 CTTATCTCACATACACATGCTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
* *
25423542 CTTATCACACATACACCTGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
* *
25423589 TTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGT
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
*
25423636 CTTATCACACATACACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
* *
25423683 TTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGT
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
*
25423730 CTTATCACACATACACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
25423777 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
* * * *
25423824 CTTATCACACATACACATGTTTACATTCATCACATTGGCCATTTGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
* * * *
25423871 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
25423918 CTTATCACACATATACATGTTCAC-TTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
25423964 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGG-
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
25424010 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGG-
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
25424056 CTTATCACAC--ATACATGTTCA-TTTCATC-CATTGG----T----
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
*
25424091 CTTATCACACATACACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
25424138 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
* * *
25424185 CTTATCACACATACACATGTTTACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
25424232 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
* *
25424279 CCTATTCACATATATACA
1 CTTA-TCACACATATACA
25424297 CTTTCACATT
Statistics
Matches: 737, Mismatches: 50, Indels: 29
0.90 0.06 0.04
Matches are distributed among these distances:
35 10 0.01
37 10 0.01
38 8 0.01
39 6 0.01
42 6 0.01
43 8 0.01
44 11 0.01
46 103 0.14
47 563 0.76
48 12 0.02
ACGTcount: A:0.26, C:0.30, G:0.10, T:0.34
Consensus pattern (47 bp):
CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
Found at i:25424020 original size:23 final size:23
Alignment explanation
Indices: 25423947--25424067 Score: 69
Period size: 23 Copynumber: 5.2 Consensus size: 23
25423937 TTCACTTCAT
25423947 CACATTGGCCATTCGGCCTTATCA
1 CACATTGGCCATTCGG-CTTATCA
* *
25423971 CACATAT--ACATGTTC-ACTT-TCA
1 CACAT-TGGCCA--TTCGGCTTATCA
25423993 TCACATTGGCCATTCGGCTTATCA
1 -CACATTGGCCATTCGGCTTATCA
* *
25424017 CACATAT--ACATGTTC-ACTT-TCA
1 CACAT-TGGCCA--TTCGGCTTATCA
25424039 TCACATTGGCCATTCGGCTTATCA
1 -CACATTGGCCATTCGGCTTATCA
25424063 CACAT
1 CACAT
25424068 ACATGTTCAT
Statistics
Matches: 73, Mismatches: 8, Indels: 33
0.64 0.07 0.29
Matches are distributed among these distances:
22 16 0.22
23 34 0.47
24 19 0.26
25 4 0.05
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.33
Consensus pattern (23 bp):
CACATTGGCCATTCGGCTTATCA
Found at i:25424345 original size:94 final size:93
Alignment explanation
Indices: 25424093--25424332 Score: 263
Period size: 94 Copynumber: 2.6 Consensus size: 93
25424083 CCATTGGTCT
* * * * * *
25424093 TATCACACATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACACATATACATGT
1 TATCACACATACACATGTTCACATTCATCACATTAGACATTC-GACATACCACACATATACATGT
*
25424158 TCACTTTCATCACATTGGCCATTCGGCCT
65 TCACTTTCATCACATTGGCCATTCGGCCC
* * * * * *
25424187 TATCACACATACACATGTTTACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGT
1 TATCACACATACACATGTTCACATTCATCACATTAGACATTC-GACATACCACACATATACATGT
25424252 TCACTTTCATCACATTGGCCATTCGGCCC
65 TCACTTTCATCACATTGGCCATTCGGCCC
* * *
25424281 TATTCACATATATACACT-TTCACATTTATTCA-ATTAGAC-TTC-ACATACCACA
1 TA-TCACACATACACA-TGTTCACATTCA-TCACATTAGACATTCGACATACCACA
25424333 TATACTATCA
Statistics
Matches: 131, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
92 7 0.05
94 96 0.73
95 24 0.18
96 4 0.03
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (93 bp):
TATCACACATACACATGTTCACATTCATCACATTAGACATTCGACATACCACACATATACATGTT
CACTTTCATCACATTGGCCATTCGGCCC
Found at i:25425905 original size:13 final size:13
Alignment explanation
Indices: 25425887--25425911 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25425877 TACTAAATTT
25425887 TCATGGATTCAAG
1 TCATGGATTCAAG
25425900 TCATGGATTCAA
1 TCATGGATTCAA
25425912 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:25428489 original size:54 final size:53
Alignment explanation
Indices: 25428430--25428577 Score: 199
Period size: 54 Copynumber: 2.8 Consensus size: 53
25428420 CCACGACAAG
* * *
25428430 AAGACCTCATAGTGTAAGACCTAGTCTAGGACTATGGCATCGTATGGGGATACA
1 AAGACCTCATAGTGTAAGACCTAGTCTGGGACTATGGCATCATATGAGGATA-A
*
25428484 AAGACCAT-ATAGTGTAAGACCTAGTCTGGGATTATGGCATCATATGAGGATAA
1 AAGACC-TCATAGTGTAAGACCTAGTCTGGGACTATGGCATCATATGAGGATAA
* * *
25428537 GAGAACCACATAGTGTAAGACCTAGTTTGGGACTATGGCAT
1 AAG-ACCTCATAGTGTAAGACCTAGTCTGGGACTATGGCAT
25428578 AATGTGAAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
53 3 0.04
54 79 0.95
55 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (53 bp):
AAGACCTCATAGTGTAAGACCTAGTCTGGGACTATGGCATCATATGAGGATAA
Found at i:25432109 original size:96 final size:96
Alignment explanation
Indices: 25432000--25432174 Score: 264
Period size: 96 Copynumber: 1.8 Consensus size: 96
25431990 CCGCATATCG
* * * *
25432000 ATACCATATCCCAGATATGGTCTTATACGA-AGTCTCATA-TCAGTGCCTATGCCATTTCCCAGA
1 ATACCATATCCCAGATATGGTCTTACACGAGA-TCTCATACT-AATGCCGATGCCATGTCCCAGA
25432063 CATGGTCTTATACGGGGCCTCACACCGATGCCA
64 CATGGTCTTATACGGGGCCTCACACCGATGCCA
* *
25432096 ATACCATATCCCAGATATGGTCTTACATGGGATCTCATACTAATGCCGATGCCATGTCCCAGACA
1 ATACCATATCCCAGATATGGTCTTACACGAGATCTCATACTAATGCCGATGCCATGTCCCAGACA
25432161 TGGTCTTATACGGG
66 TGGTCTTATACGGG
25432175 ATCTCTTATC
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
96 69 0.97
97 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (96 bp):
ATACCATATCCCAGATATGGTCTTACACGAGATCTCATACTAATGCCGATGCCATGTCCCAGACA
TGGTCTTATACGGGGCCTCACACCGATGCCA
Found at i:25432190 original size:48 final size:48
Alignment explanation
Indices: 25431998--25432319 Score: 239
Period size: 48 Copynumber: 6.8 Consensus size: 48
25431988 GACCGCATAT
* * *
25431998 CGATACCATATCCCAGATATGGTCTTATAC-GAAGTCTCATATC-AGTGC
1 CGATGCCATATCCCAGACATGGTCTTATACGGGA-TCTCATATCGA-TGC
* * ** * *
25432046 CTATGCCATTTCCCAGACATGGTCTTATACGGGGCCTCACACCGATGC
1 CGATGCCATATCCCAGACATGGTCTTATACGGGATCTCATATCGATGC
* * * * * *
25432094 CAATACCATATCCCAGATATGGTCTTACATGGGATCTCATA-CTAATGC
1 CGATGCCATATCCCAGACATGGTCTTATACGGGATCTCATATC-GATGC
*
25432142 CGATGCCATGTCCCAGACATGGTCTTATACGGGATCTC-T-T--AT--
1 CGATGCCATATCCCAGACATGGTCTTATACGGGATCTCATATCGATGC
* * ** * * *
25432184 CGATGCCATGTCCCAGACATCGTCTTATACGAAATCACTTAACGATGC
1 CGATGCCATATCCCAGACATGGTCTTATACGGGATCTCATATCGATGC
* * * * * * * * *
25432232 CGAAGCCATATCCCTGATATGGTCTTATACGAGATCACATCTTGACGT
1 CGATGCCATATCCCAGACATGGTCTTATACGGGATCTCATATCGATGC
* * *
25432280 TGATGCCATGTCCCAGACATGGTCTTACACGGGATCTCAT
1 CGATGCCATATCCCAGACATGGTCTTATACGGGATCTCAT
25432320 TAACCTTGGT
Statistics
Matches: 214, Mismatches: 50, Indels: 20
0.75 0.18 0.07
Matches are distributed among these distances:
42 34 0.16
43 1 0.00
44 2 0.01
46 2 0.01
47 2 0.01
48 171 0.80
49 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (48 bp):
CGATGCCATATCCCAGACATGGTCTTATACGGGATCTCATATCGATGC
Found at i:25432198 original size:138 final size:137
Alignment explanation
Indices: 25432048--25432317 Score: 321
Period size: 138 Copynumber: 2.0 Consensus size: 137
25432038 ATCAGTGCCT
* * *** *
25432048 ATGCCATTTCCCAGACATGGTCTTATACGGGGCCTCAC-ACCGATGCC-AATACCATATCCCAGA
1 ATGCCATGTCCCAGACATCGTCTTATAC--GAAATCACTAACGATGCCGAA-ACCATATCCCAGA
* * * * *
25432111 TATGGTCTTACATGGGATCTCATAC-TAATGCCGATGCCATGTCCCAGACATGGTCTTATACGGG
63 TATGGTCTTACACGAGATCACAT-CTTAACGCCGATGCCATGTCCCAGACATGGTCTTACACGGG
25432175 ATCTCTTATCG
127 ATCTCTTATCG
* *
25432186 ATGCCATGTCCCAGACATCGTCTTATACGAAATCACTTAACGATGCCGAAGCCATATCCCTGATA
1 ATGCCATGTCCCAGACATCGTCTTATACGAAATCAC-TAACGATGCCGAAACCATATCCCAGATA
* * **
25432251 TGGTCTTATACGAGATCACATCTTGACGTTGATGCCATGTCCCAGACATGGTCTTACACGGGATC
65 TGGTCTTACACGAGATCACATCTTAACGCCGATGCCATGTCCCAGACATGGTCTTACACGGGATC
25432316 TC
130 TC
25432318 ATTAACCTTG
Statistics
Matches: 111, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
136 5 0.05
137 1 0.01
138 103 0.93
139 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (137 bp):
ATGCCATGTCCCAGACATCGTCTTATACGAAATCACTAACGATGCCGAAACCATATCCCAGATAT
GGTCTTACACGAGATCACATCTTAACGCCGATGCCATGTCCCAGACATGGTCTTACACGGGATCT
CTTATCG
Found at i:25438301 original size:46 final size:46
Alignment explanation
Indices: 25438157--25438365 Score: 167
Period size: 46 Copynumber: 4.5 Consensus size: 46
25438147 TTTGTGTGCT
* * ** *
25438157 AGTGTAAAACATGTTTGGGACATGCATCGGCC-ACATCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGA-GATGAGAGCC
* * * * * *
25438203 AATGTAAGACCATGTCTAGGACATGGCATCAGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAGATGAGAGCC
25438251 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATG-AGAGCC
* * * * * *
25438297 AGTGTAGGACATGTCTGGAACATGCATTGG-CTACGAGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-TGAGATGAGAGCC
*
25438341 AGTGTAAGACCATGACTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
25438366 GCATTGGCAC
Statistics
Matches: 130, Mismatches: 26, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
44 10 0.08
45 15 0.12
46 56 0.43
47 26 0.20
48 22 0.17
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGAGAGCC
Found at i:25438370 original size:46 final size:46
Alignment explanation
Indices: 25438205--25438517 Score: 210
Period size: 46 Copynumber: 6.6 Consensus size: 46
25438195 TGAGAGCCAA
* * * * *
25438205 TGTAAGACCATGTCTAGGACATGGCATCAGCATTGAGACG-AGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGC-TCGAGATGTAG-TC-AG
* *
25438253 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAGATGTAAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGG-CTCGAGATGT-AGTCAG
* * *
25438299 TGTAGGA-CATGTCTGGAACAT-GCATTGGCTACGAGATGT-GTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCT-CGAGATGTAGTCAG
* * * *
25438343 TGTAAGACCATGACTGGGACATGGCATTGGCACGGATATGTGGGAG-CTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTC-GAGATGT---AGTC-AG
* * ** *
25438393 TGCAAGACCATGTATGGGACATGGCATCGGCCTCGATTTCGATAGTTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGG-CTCGAGAT-G-TAGTCAG
* * * *
25438442 TGTAAGACCATGTCTGGGATATGGTATCGACTTGATGGATG-AGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTCGA--GATGTAGTCAG
*
25438489 TGTTAGACCATGTCTGGGACATGGCATCG
1 TGTAAGACCATGTCTGGGACATGGCATCG
25438518 ATATTACACC
Statistics
Matches: 214, Mismatches: 33, Indels: 37
0.75 0.12 0.13
Matches are distributed among these distances:
44 10 0.05
45 15 0.07
46 61 0.29
47 46 0.21
48 13 0.06
49 31 0.14
50 34 0.16
51 3 0.01
52 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (46 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGTAGTCAG
Found at i:25440361 original size:35 final size:35
Alignment explanation
Indices: 25440264--25440416 Score: 171
Period size: 35 Copynumber: 4.3 Consensus size: 35
25440254 AATTCCACCA
* * * *
25440264 AAACACACCGGATGCTCATAAGATCTAGTCCATCTG
1 AAACACACC-AATGCTCATAAGAGCTAATCCATCCG
* *
25440300 AAACATACCAAATGGTCATAAGAGCTAATCCATCCG
1 AAACACACC-AATGCTCATAAGAGCTAATCCATCCG
* *
25440336 AAACACACCAGTGCTCATAAGAGCTAATCCCTCCG
1 AAACACACCAATGCTCATAAGAGCTAATCCATCCG
* * * * *
25440371 AAACACACTAATGCTCATAAGAGCTAGTTCAACTG
1 AAACACACCAATGCTCATAAGAGCTAATCCATCCG
25440406 AAACACACCAA
1 AAACACACCAA
25440417 AACAAAGAGT
Statistics
Matches: 98, Mismatches: 19, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
35 61 0.62
36 37 0.38
ACGTcount: A:0.39, C:0.28, G:0.14, T:0.19
Consensus pattern (35 bp):
AAACACACCAATGCTCATAAGAGCTAATCCATCCG
Found at i:25441354 original size:17 final size:18
Alignment explanation
Indices: 25441322--25441355 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25441312 AAGGAATGTC
*
25441322 TTTTTTTCTTTATTTAAT
1 TTTTTTTATTTATTTAAT
25441340 TTTTTTTATTT-TTTAA
1 TTTTTTTATTTATTTAA
25441356 AATTTACCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTTATTTATTTAAT
Found at i:25450417 original size:23 final size:22
Alignment explanation
Indices: 25450361--25450418 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
25450351 GCTACCAAAC
* *
25450361 TTCTCTTCTTCTTTTTCCCTTC
1 TTCTCTTCTTTTTTTTCCCTTA
*
25450383 TTCTCTAT-TTTTCTTTTCCTTTA
1 TTCTCT-TCTTTT-TTTTCCCTTA
25450406 TTCTCTTCTTTTT
1 TTCTCTTCTTTTT
25450419 CGATTAGTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 11 0.37
23 19 0.63
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (22 bp):
TTCTCTTCTTTTTTTTCCCTTA
Found at i:25459323 original size:22 final size:22
Alignment explanation
Indices: 25459298--25459342 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
25459288 TTTAATAAAG
25459298 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
25459320 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
25459342 A
1 A
25459343 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:25463100 original size:22 final size:22
Alignment explanation
Indices: 25463075--25463119 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
25463065 TTTAATAAAG
25463075 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
25463097 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
25463119 A
1 A
25463120 CACCTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:25466933 original size:34 final size:33
Alignment explanation
Indices: 25466895--25466968 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 33
25466885 TCAGTCGCAA
*
25466895 TATCAGTGTGGGCCTTAGCCTAATACAGTAACAG
1 TATCAGTGTGGGCCTTAGCCCAATACAGT-ACAG
* * *
25466929 TATCAATGTGGGCCTTAGCCCATTTCAGTACAG
1 TATCAGTGTGGGCCTTAGCCCAATACAGTACAG
25466962 TATCAGT
1 TATCAGT
25466969 AATGCACATA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
33 10 0.29
34 25 0.71
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (33 bp):
TATCAGTGTGGGCCTTAGCCCAATACAGTACAG
Found at i:25476060 original size:23 final size:24
Alignment explanation
Indices: 25476034--25476084 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
25476024 TCCCACAGCA
25476034 AGAAATAGTCAAGCAT-AG-AGAAG
1 AGAAATAGTCAAG-ATAAGAAGAAG
* *
25476057 AGAAGTAGTGAAGATAAGAAGAAG
1 AGAAATAGTCAAGATAAGAAGAAG
25476081 AGAA
1 AGAA
25476085 GGACGATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 2 0.08
23 13 0.54
24 9 0.38
ACGTcount: A:0.55, C:0.04, G:0.29, T:0.12
Consensus pattern (24 bp):
AGAAATAGTCAAGATAAGAAGAAG
Found at i:25482828 original size:46 final size:48
Alignment explanation
Indices: 25482707--25482865 Score: 151
Period size: 46 Copynumber: 3.2 Consensus size: 48
25482697 ACAACATGTA
* *
25482707 ATATGTGATTTTCATATAAAGACCATAGCTGGGCTATGGCATCAATGTGATGTG
1 ATATGTGA-TTCCGTAT-AAGACCATAGCTGGGCTATGGCATC-A--TG-TGTG
* *
25482761 ATCATGTGATTTCCGTATAAGACCATATCTGGGATATGGCATCA-GTGTG
1 AT-ATGTGA-TTCCGTATAAGACCATAGCTGGGCTATGGCATCATGTGTG
* * * *
25482810 ATATGTGA-TCCGTGTAAGACGATGGCTGGGCTATGGCTTCAGTGTGTG
1 ATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCA-TGTGTG
25482858 ATATGTGA
1 ATATGTGA
25482866 CTATGTGCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 12
0.81 0.09 0.11
Matches are distributed among these distances:
46 27 0.29
48 19 0.21
49 6 0.07
50 1 0.01
53 1 0.01
54 25 0.27
55 13 0.14
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.33
Consensus pattern (48 bp):
ATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCATGTGTG
Found at i:25486738 original size:39 final size:39
Alignment explanation
Indices: 25486680--25486776 Score: 149
Period size: 39 Copynumber: 2.5 Consensus size: 39
25486670 TGGGATTTCA
* * * **
25486680 GTTTAGCTCTGATGAGCTTCAGTTAGCCTTCGGGCTTTT
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
25486719 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
25486758 GTTTAGCACTTATGTGCTT
1 GTTTAGCACTTATGTGCTT
25486777 TAGGTAGACT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.13, C:0.22, G:0.24, T:0.41
Consensus pattern (39 bp):
GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
Found at i:25487041 original size:25 final size:23
Alignment explanation
Indices: 25487008--25487055 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
25486998 TGAAAAACAA
*
25487008 GAAAAATGACGATTATTGATATATG
1 GAAAAATGA-GA-CATTGATATATG
*
25487033 GAAACATGAGACATTGATATATG
1 GAAAAATGAGACATTGATATATG
25487056 AATGTGGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 11 0.52
24 2 0.10
25 8 0.38
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.29
Consensus pattern (23 bp):
GAAAAATGAGACATTGATATATG
Found at i:25487255 original size:11 final size:11
Alignment explanation
Indices: 25487241--25487267 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
25487231 GATTTGTACT
25487241 CCTCGGTAATG
1 CCTCGGTAATG
25487252 CCTCGGTAATG
1 CCTCGGTAATG
25487263 CCTCG
1 CCTCG
25487268 TACTCTATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.33, G:0.26, T:0.26
Consensus pattern (11 bp):
CCTCGGTAATG
Found at i:25488681 original size:39 final size:40
Alignment explanation
Indices: 25488636--25488746 Score: 98
Period size: 40 Copynumber: 2.8 Consensus size: 40
25488626 CGGGGTTTAG
* * *
25488636 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
25488675 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * *
25488715 CCGGATATAGTCGCTAGCACAAATGCCTTCGG
1 CCGGATATAACCACTAGCATAAAGGCCTTCGG
25488747 ATCTTAGTCC
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
39 15 0.25
40 45 0.75
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:25488706 original size:40 final size:40
Alignment explanation
Indices: 25488659--25488803 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
25488649 CTCGCACAAG
* * * * *
25488659 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
25488699 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
25488739 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
25488780 GCCTTTGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
25488804 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.65
41 26 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:25500257 original size:24 final size:24
Alignment explanation
Indices: 25500229--25500324 Score: 156
Period size: 24 Copynumber: 4.0 Consensus size: 24
25500219 ACTTTGGCAG
*
25500229 TCATCGGCTTCTGCTAGATGCAAT
1 TCATCGGCTTCTGCCAGATGCAAT
25500253 TCATCGGCTTCTGCCAGATGCAAT
1 TCATCGGCTTCTGCCAGATGCAAT
25500277 TCATCGGCTTCTGCCAGATGCAAT
1 TCATCGGCTTCTGCCAGATGCAAT
* **
25500301 TCATTGGCTTCTATCAGATGCAAT
1 TCATCGGCTTCTGCCAGATGCAAT
25500325 CGAAAGTCAT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 68 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (24 bp):
TCATCGGCTTCTGCCAGATGCAAT
Found at i:25503809 original size:56 final size:56
Alignment explanation
Indices: 25503724--25503995 Score: 350
Period size: 56 Copynumber: 4.9 Consensus size: 56
25503714 ACCTGGAAGT
* *
25503724 ATATG-TGGCATCGATATGTGACTCTGATATTTATGTGCGAGTAAGTCCACGTTTA
1 ATATGTTGGCATCGATATGTGACTCTGATATATATGTGCGAGTAAGACCACGTTTA
* * * * *
25503779 ATATGCTGGTATCGATATGTGACTCTGATATATGTGTACGAGTAAGTCCACGTTTA
1 ATATGTTGGCATCGATATGTGACTCTGATATATATGTGCGAGTAAGACCACGTTTA
* * * *
25503835 ATACGTTGGCATCAATATGTGACTCCGATATA-AGTGTGCGAGTAAGACCACATTTA
1 ATATGTTGGCATCGATATGTGACTCTGATATATA-TGTGCGAGTAAGACCACGTTTA
*
25503891 ATATGTTGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTA
1 ATATGTTGGCATCGATATGTGACTCTGATATATATGTGCGAGTAAGACCACGTTTA
** * * * * *
25503947 ATACATTGGCATCGATATATGACTCCGATATATGTGTACGAGTGAGACC
1 ATATGTTGGCATCGATATGTGACTCTGATATATATGTGCGAGTAAGACC
25503996 TTGTCTGAGG
Statistics
Matches: 190, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
55 5 0.03
56 185 0.97
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (56 bp):
ATATGTTGGCATCGATATGTGACTCTGATATATATGTGCGAGTAAGACCACGTTTA
Found at i:25503926 original size:112 final size:112
Alignment explanation
Indices: 25503729--25503995 Score: 392
Period size: 112 Copynumber: 2.4 Consensus size: 112
25503719 GAAGTATATG
* * * * *
25503729 TGGCATCGATATGTGACTCTGATATTTA-TGTGCGAGTAAGTCCACGTTTAATATGCTGGTATCG
1 TGGCATCGATATGTGACTCCGATA-TAAGTGTGCGAGTAAGACCACATTTAATATGCTGGCATCG
* *
25503793 ATATGTGACTCTGATATATGTGTACGAGTAAGTCCACGTTTAATACGT
65 ATATGTGACTCTGATATATGTGTACGAGTAAGACCACGTTTAATACAT
* *
25503841 TGGCATCAATATGTGACTCCGATATAAGTGTGCGAGTAAGACCACATTTAATATGTTGGCATCGA
1 TGGCATCGATATGTGACTCCGATATAAGTGTGCGAGTAAGACCACATTTAATATGCTGGCATCGA
*
25503906 TATGTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACAT
66 TATGTGACTCTGATATATGTGTACGAGTAAGACCACGTTTAATACAT
* * * *
25503953 TGGCATCGATATATGACTCCGATATATGTGTACGAGTGAGACC
1 TGGCATCGATATGTGACTCCGATATAAGTGTGCGAGTAAGACC
25503996 TTGTCTGAGG
Statistics
Matches: 139, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
111 2 0.01
112 137 0.99
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (112 bp):
TGGCATCGATATGTGACTCCGATATAAGTGTGCGAGTAAGACCACATTTAATATGCTGGCATCGA
TATGTGACTCTGATATATGTGTACGAGTAAGACCACGTTTAATACAT
Found at i:25508829 original size:12 final size:12
Alignment explanation
Indices: 25508812--25508836 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25508802 GAATACATAA
25508812 ACAATAATTGTG
1 ACAATAATTGTG
25508824 ACAATAATTGTG
1 ACAATAATTGTG
25508836 A
1 A
25508837 TAGCGGAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (12 bp):
ACAATAATTGTG
Found at i:25508980 original size:47 final size:46
Alignment explanation
Indices: 25508907--25509082 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
25508897 TCATTTGTGT
*
25508907 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATATTAG-GA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAT-TGAGAGA
* * *
25508953 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATC-GGCATTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCATTGAGA-GA
* * * *
25509001 GTGCTAGTGTAAGACATGTCTGGGACATGCTTCAGCC-TCGAGATA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATTGAGAGA
* * *
25509046 TAAGCCAGTGTAAGACATGTTTGGGACATGCATCAGC
1 -GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGC
25509083 TACGAGATGT
Statistics
Matches: 108, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
45 1 0.01
46 56 0.52
47 32 0.30
48 19 0.18
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATTGAGAGA
Found at i:25509089 original size:46 final size:44
Alignment explanation
Indices: 25508912--25509125 Score: 144
Period size: 46 Copynumber: 4.6 Consensus size: 44
25508902 TGTGTGAGCT
* ** * *
25508912 AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTAGGAGA-GCC
1 AGTGTAAGACATGTTTGGGACATGCATCAGCC-T-CGA-GATATACC
* * * * * * * *
25508958 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTTTGGGACAT-GCATCAGCCTCGAGA-TA-TACC
* *
25509006 AGTGTAAGACATGTCTGGGACATGCTTCAGCCTCGAGATATAAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAGATAT-A-CC
* *
25509052 AGTGTAAGACATGTTTGGGACATGCATCAG-CTACGAGATGTATC
1 AGTGTAAGACATGTTTGGGACATGCATCAGCCT-CGAGATATACC
*
25509096 AGTGTAAGATTATGTTTGGGACATGGCATC
1 AGTGTAAGA-CATGTTTGGGACAT-GCATC
25509126 GGCACGAATA
Statistics
Matches: 140, Mismatches: 18, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
44 11 0.08
45 19 0.14
46 65 0.46
47 27 0.19
48 18 0.13
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAGATATACC
Found at i:25509167 original size:50 final size:49
Alignment explanation
Indices: 25509096--25509224 Score: 145
Period size: 49 Copynumber: 2.6 Consensus size: 49
25509086 GAGATGTATC
** * * *
25509096 AGTGTAAGATTATGTTTGGGACATGGCATCGGCAC-GAATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCAAT-TGTGACAGCT
* * *
25509146 AGTGTAAGACCATG-CTCGGGACATGGCGTCGGCCTCAATTTTGACAGTT
1 AGTGTAAGACCATGTCT-GGGACATGGCATCGGCCTCAATTGTGACAGCT
25509195 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
25509225 AAATTGATGG
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
49 35 0.52
50 32 0.48
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATTGTGACAGCT
Found at i:25510379 original size:21 final size:21
Alignment explanation
Indices: 25510355--25510431 Score: 129
Period size: 21 Copynumber: 3.7 Consensus size: 21
25510345 CCTTATCGCA
*
25510355 TGGGCGTGTTTCCCTTCCACG
1 TGGGCGTGTTACCCTTCCACG
25510376 TGGGCGTGTTACCCTTCCACG
1 TGGGCGTGTTACCCTTCCACG
*
25510397 TGGGCGTGTTACCCTTCCACA
1 TGGGCGTGTTACCCTTCCACG
25510418 TGGGCGTG-TACCCT
1 TGGGCGTGTTACCCT
25510432 GTTTTAAAGG
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
20 6 0.11
21 48 0.89
ACGTcount: A:0.09, C:0.32, G:0.29, T:0.30
Consensus pattern (21 bp):
TGGGCGTGTTACCCTTCCACG
Found at i:25529994 original size:37 final size:37
Alignment explanation
Indices: 25529944--25530023 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
25529934 CTTATTACGA
* *
25529944 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
25529981 AGTCTTACCCGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
25530018 GGTCTT
1 AGTCTT
25530024 TAGAGTCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:25530217 original size:47 final size:47
Alignment explanation
Indices: 25530154--25530404 Score: 328
Period size: 47 Copynumber: 5.4 Consensus size: 47
25530144 TATCACAATT
* * *
25530154 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCCTATCTCAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAC
* * *
25530199 ATACACATGCTCACATTCATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAC
* * *
25530246 ATACACCTGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAC
*
25530293 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAT
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAC
** * *
25530340 ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCCTATTCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTA-TCTCAC
*
25530388 ATATACACT-TTCACATT
1 ATACACA-TGTTCACATT
25530405 TATTCAATTA
Statistics
Matches: 182, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
45 6 0.03
46 1 0.01
47 156 0.86
48 18 0.10
49 1 0.01
ACGTcount: A:0.26, C:0.33, G:0.10, T:0.31
Consensus pattern (47 bp):
ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAC
Found at i:25530443 original size:141 final size:140
Alignment explanation
Indices: 25530154--25530435 Score: 326
Period size: 141 Copynumber: 2.0 Consensus size: 140
25530144 TATCACAATT
25530154 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCCTATCTCACATACACATGCTCACATTC
1 ATACACATGTTCACATTCATCACATCGGCCATTAGGCCCTATCTCACATACACATGCTCACATTC
* * *
25530217 ATCACATTGGCCACTCGGCCTTATCACACATACACCTGTTCACTTTCATCACATTGGCCATTCGG
66 ATCACATTGGCCACTCGGCCCTATCACACATACACCTGTTCACTTTCATCACATTAGACATTC-G
* * *
25530282 CCTTATCACAC
130 ACATACCACAC
* * * * ** *
25530293 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTC
1 ATACACATGTTCACATTCATCACATCGGCCATTAGGCCCTATCTCACATACACATGCTCACATTC
* *
25530358 ATCACATTGGCCATTCGGCCCTATTCACACATATACACT-TTCACATTT-ATTCA-ATTAGAC-T
66 ATCACATTGGCCACTCGGCCCTA-TCACACATACAC-CTGTTCAC-TTTCA-TCACATTAGACAT
*
25530419 TC-ACATACCACAT
127 TCGACATACCACAC
25530432 ATAC
1 ATAC
25530436 CATCATGTAC
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
139 17 0.14
140 1 0.01
141 73 0.60
142 22 0.18
143 8 0.07
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (140 bp):
ATACACATGTTCACATTCATCACATCGGCCATTAGGCCCTATCTCACATACACATGCTCACATTC
ATCACATTGGCCACTCGGCCCTATCACACATACACCTGTTCACTTTCATCACATTAGACATTCGA
CATACCACAC
Found at i:25534748 original size:40 final size:40
Alignment explanation
Indices: 25534691--25535145 Score: 707
Period size: 40 Copynumber: 11.6 Consensus size: 40
25534681 CCAGCATGAT
* * *
25534691 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
25534731 TGCTCTTCAGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
25534771 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
25534811 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
25534851 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
25534891 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
25534931 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
25534971 TGCTCTTCGGGACTTAGCCCGGATA-ATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
25535010 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
25535049 TGCTCTTCGGGACTTAGCCCGGAT--ATCACTTGCAC-AA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* **
25535086 TGC-CTTC--GATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCACGAA
25535125 -GC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
25535146 CATCATTCGA
Statistics
Matches: 391, Mismatches: 15, Indels: 19
0.92 0.04 0.04
Matches are distributed among these distances:
34 2 0.01
35 11 0.03
36 4 0.01
37 5 0.01
38 36 0.09
39 61 0.16
40 272 0.70
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:25536974 original size:37 final size:37
Alignment explanation
Indices: 25536924--25537003 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
25536914 CTTATTACGA
* *
25536924 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
25536961 AGTCTTACCCGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
25536998 GGTCTT
1 AGTCTT
25537004 TAGAGCCGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:25537243 original size:47 final size:46
Alignment explanation
Indices: 25537133--25537359 Score: 338
Period size: 47 Copynumber: 5.0 Consensus size: 46
25537123 TATCACATTT
* * *
25537133 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCC-TATCTCAC
1 ATACACATGTTCAC-TTCATCACATTGGCCATTCGGCCTTATCACAC
* *
25537177 ATACACATGCTCACATTCATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCAC-TTCATCACATTGGCCATTCGGCCTTATCACAC
25537224 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCAC-TTCATCACATTGGCCATTCGGCCTTATCACAC
25537271 ATACACATGTTCACTTCATCACATTGGCCATTCGGCCTTATCAC-C
1 ATACACATGTTCACTTCATCACATTGGCCATTCGGCCTTATCACAC
*
25537316 ATATACATGTTCACTTCATCACATTGGCCATTCGGCC-TATCACA
1 ATACACATGTTCACTTCATCACATTGGCCATTCGGCCTTATCACA
25537360 TATATTCATG
Statistics
Matches: 170, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
44 12 0.07
45 38 0.22
46 55 0.32
47 65 0.38
ACGTcount: A:0.26, C:0.33, G:0.11, T:0.30
Consensus pattern (46 bp):
ATACACATGTTCACTTCATCACATTGGCCATTCGGCCTTATCACAC
Found at i:25537289 original size:93 final size:91
Alignment explanation
Indices: 25537133--25537359 Score: 343
Period size: 93 Copynumber: 2.5 Consensus size: 91
25537123 TATCACATTT
* * *
25537133 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTATCTCACATACACATGCTCACATTCA
1 ATACACATGTTCAC-TTCATCACATTGGCCATTCGGCCTATCACACATACACATGCTCACATTCA
25537196 TCACATTGGCCACTCGGCCTTATCACAC
65 TCACATTGGCCACTCGGCCTTATCAC-C
*
25537224 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCAC-TTC
1 ATACACATGTTCAC-TTCATCACATTGGCCATTCGGCC-TATCACACATACACATGCTCACATTC
*
25537288 ATCACATTGGCCATTCGGCCTTATCACC
64 ATCACATTGGCCACTCGGCCTTATCACC
*
25537316 ATATACATGTTCACTTCATCACATTGGCCATTCGGCCTATCACA
1 ATACACATGTTCACTTCATCACATTGGCCATTCGGCCTATCACA
25537360 TATATTCATG
Statistics
Matches: 126, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
90 7 0.06
91 29 0.23
92 15 0.12
93 55 0.44
94 20 0.16
ACGTcount: A:0.26, C:0.33, G:0.11, T:0.30
Consensus pattern (91 bp):
ATACACATGTTCACTTCATCACATTGGCCATTCGGCCTATCACACATACACATGCTCACATTCAT
CACATTGGCCACTCGGCCTTATCACC
Found at i:25541797 original size:40 final size:40
Alignment explanation
Indices: 25541740--25542211 Score: 881
Period size: 40 Copynumber: 11.8 Consensus size: 40
25541730 CCAGCATGAT
* * *
25541740 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
25541780 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
25541820 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
25541860 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
25541900 TACTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
25541940 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
25541980 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
25542020 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
25542060 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
25542100 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
25542140 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
25542180 TGCTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
25542212 CGAATAACCA
Statistics
Matches: 421, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 421 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:25544052 original size:37 final size:37
Alignment explanation
Indices: 25544002--25544081 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
25543992 CTTATTACGA
* *
25544002 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
25544039 AGTCTTACCCGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
25544076 GGTCTT
1 AGTCTT
25544082 TAGAGCCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:25544275 original size:47 final size:47
Alignment explanation
Indices: 25544212--25544603 Score: 574
Period size: 47 Copynumber: 8.4 Consensus size: 47
25544202 TATCACATTT
* * *
25544212 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
25544257 ATACACATGCTCACATTCATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
25544304 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
25544351 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCTTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
25544398 ATACACACGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACCC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
25544445 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
25544492 ATACACCTATTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
25544539 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCCTATTCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTA-TCACAC
*
25544587 ATATACACT-TTCACATT
1 ATACACA-TGTTCACATT
25544604 TATTCAATTA
Statistics
Matches: 316, Mismatches: 27, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
45 6 0.02
46 1 0.00
47 288 0.91
48 20 0.06
49 1 0.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.32
Consensus pattern (47 bp):
ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
Found at i:25544489 original size:22 final size:22
Alignment explanation
Indices: 25544463--25544537 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
25544453 GTTCACTTTC
25544463 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
*** * *
25544485 ATCACACATACACCTATTC-ACATT
1 AT--CACATTGGCC-ATTCGGCCTT
25544509 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
25544532 ATCACA
1 ATCACA
25544538 CATATACATG
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 12 0.32
23 10 0.26
24 10 0.26
25 6 0.16
ACGTcount: A:0.27, C:0.33, G:0.11, T:0.29
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:25558759 original size:19 final size:19
Alignment explanation
Indices: 25558735--25558776 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
25558725 TTGTGGCTGA
*
25558735 TTGATTTTGAAAATTATGG
1 TTGATTTTGAAAATCATGG
25558754 TTGATTTTGAAAATCATGG
1 TTGATTTTGAAAATCATGG
25558773 TTGA
1 TTGA
25558777 ATGAATGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.45
Consensus pattern (19 bp):
TTGATTTTGAAAATCATGG
Found at i:25561011 original size:26 final size:27
Alignment explanation
Indices: 25560962--25561017 Score: 96
Period size: 26 Copynumber: 2.1 Consensus size: 27
25560952 TCACTTACTT
25560962 TTTCTACTCGTTAAATTTTCTTTTTGA
1 TTTCTACTCGTTAAATTTTCTTTTTGA
*
25560989 TTTCTAGTCGTT-AATTTTCTTTTTGA
1 TTTCTACTCGTTAAATTTTCTTTTTGA
25561015 TTT
1 TTT
25561018 ATTTTCTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 17 0.61
27 11 0.39
ACGTcount: A:0.16, C:0.12, G:0.09, T:0.62
Consensus pattern (27 bp):
TTTCTACTCGTTAAATTTTCTTTTTGA
Found at i:25594624 original size:26 final size:26
Alignment explanation
Indices: 25594595--25594655 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
25594585 ATTTACTAAA
* *
25594595 ATACCCCTAAGTATAAAATTACCATT
1 ATACCCCTAAGTACAAAATGACCATT
* * *
25594621 ATACCCCTAGGTGCAAAGTGACCATT
1 ATACCCCTAAGTACAAAATGACCATT
25594647 ATACCCCTA
1 ATACCCCTA
25594656 GGGTTAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.28, G:0.10, T:0.26
Consensus pattern (26 bp):
ATACCCCTAAGTACAAAATGACCATT
Found at i:25594832 original size:27 final size:26
Alignment explanation
Indices: 25594759--25594873 Score: 106
Period size: 27 Copynumber: 4.3 Consensus size: 26
25594749 TGGAGGAAGA
* *
25594759 GTTCTGGTGGCTATGCCACAAATATTT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
* * *
25594786 ATTTTTGATGGCTAC-GCCACAAATATCT
1 -GTTCTGGTGGCT-CTGCCAC-AATATCT
25594814 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* **
25594840 GTATCTGGTGACTCTATCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
25594867 GTTCTGG
1 GTTCTGG
25594874 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
26 15 0.21
27 37 0.51
28 21 0.29
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:25602668 original size:27 final size:26
Alignment explanation
Indices: 25602638--25602699 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
25602628 ATTTACTAAA
* *
25602638 ATACCCCTAAGTATAAAAGTTACCATT
1 ATACCCCTAAGT-GAAAAGTGACCATT
* *
25602665 ATACCCCTAGGTGCAAAGTGACCATT
1 ATACCCCTAAGTGAAAAGTGACCATT
25602691 ATACCCCTA
1 ATACCCCTA
25602700 GGGTTAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.26
Consensus pattern (26 bp):
ATACCCCTAAGTGAAAAGTGACCATT
Found at i:25602849 original size:28 final size:27
Alignment explanation
Indices: 25602806--25602869 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 27
25602796 AGGAAGCGTA
**
25602806 CTGGTGGCTATGCCACAAATATCTGTTT
1 CTGGTGGCTACACCACAAATATCTG-TT
25602834 CTGGTGGCTACACCACAAATATCTGTT
1 CTGGTGGCTACACCACAAATATCTGTT
25602861 CTGGTGGCT
1 CTGGTGGCT
25602870 CTGCATAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 11 0.32
28 23 0.68
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTACACCACAAATATCTGTT
Found at i:25602897 original size:26 final size:26
Alignment explanation
Indices: 25602851--25602914 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
25602841 CTACACCACA
* * *
25602851 AATATCTGTTCTGGTGGCTCTG-CAT
1 AATATCTATTCTGGTGACTCTGTCAC
25602876 AATATCTATATCTGGTGACTCTGTCAC
1 AATATCTAT-TCTGGTGACTCTGTCAC
*
25602903 AATATCTGTTCT
1 AATATCTATTCT
25602915 AGCAGCCATG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 8 0.24
26 15 0.45
27 10 0.30
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (26 bp):
AATATCTATTCTGGTGACTCTGTCAC
Found at i:25611610 original size:46 final size:46
Alignment explanation
Indices: 25611560--25611735 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
25611550 TGGTTGAGCA
25611560 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
25611606 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGC-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
25611651 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
25611699 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25611736 GCGGGTTACA
Statistics
Matches: 113, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 6 0.05
45 3 0.03
46 63 0.56
47 29 0.26
48 3 0.03
50 5 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:25611716 original size:93 final size:93
Alignment explanation
Indices: 25611557--25611728 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
25611547 GGATGGTTGA
* *
25611557 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
25611622 TGAGTCCGAGTTCGTGAGATGCAACTAG
66 TGAGTCCGAGTTCGTGAGATGCAACTAG
*
25611650 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
25611715 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
25611729 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGCAACTAG
Found at i:25616108 original size:162 final size:160
Alignment explanation
Indices: 25615853--25616165 Score: 473
Period size: 162 Copynumber: 1.9 Consensus size: 160
25615843 ATTACCACAA
* * * * *
25615853 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGCCTGCGGGTCTTAGCC
* * * *
25615918 CGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAAT
66 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATA-AAATC-ACTAGCACAAAT
*
25615983 GCCTGCGGGTCTTAGCCCGGATATATCAACTC
129 GCCTGCGGGACTTAGCCCGGATATATCAACTC
* * *
25616015 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGCCTGCGGGTCTTAGCC
*
25616080 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGC
66 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGC
*
25616145 CTTCGGGACTTAGCCCGGATA
131 CTGCGGGACTTAGCCCGGATA
25616166 AAATTCAAAT
Statistics
Matches: 136, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
160 31 0.23
161 4 0.03
162 101 0.74
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (160 bp):
GCACAAATGCCTGCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGCCTGCGGGTCTTAGCC
CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGC
CTGCGGGACTTAGCCCGGATATATCAACTC
Found at i:25616169 original size:40 final size:40
Alignment explanation
Indices: 25615853--25616165 Score: 457
Period size: 40 Copynumber: 7.8 Consensus size: 40
25615843 ATTACCACAA
* * ** *
25615853 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
25615893 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
25615933 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGG--ATATATCAACTC
*
25615975 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
25616015 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
25616055 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
25616095 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
25616135 GCACAATTGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
25616166 AAATTCAAAT
Statistics
Matches: 253, Mismatches: 17, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
39 1 0.00
40 211 0.83
41 4 0.02
42 37 0.15
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:25624778 original size:78 final size:80
Alignment explanation
Indices: 25624541--25624888 Score: 492
Period size: 78 Copynumber: 4.4 Consensus size: 80
25624531 ATTACTACAA
* * * *
25624541 GCACAATTGCCTTCGGGTCTTAACCCGG-CATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
*
25624605 CGGATATATCAACTT
66 CGGATATATCAACTC
* *
25624620 GCACAATTGCCTTC-GGTCTTAGCCCAGATATATATCAACTCGCACAAATGCCTGC-GGTCTTAG
1 GCACAATTGCCTTCGGGTCTTAGCCC-G-GATATATCAACTCGCACAAATGCCTTCGGGTCTTAG
25624683 CCCGGATATATCAACTC
64 CCCGGATATATCAACTC
* *
25624700 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCC-TC-GGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
*
25624763 CGGATATATCTACTC
66 CGGATATATCAACTC
* *
25624778 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* *
25624843 CGGATAAAATC-ACTA
66 CGGAT-ATATCAACTC
*
25624858 GCACAATTGCCTTCGGGACTTAGCCCGGATA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATA
25624889 AAATTCAAAT
Statistics
Matches: 245, Mismatches: 17, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
78 86 0.35
79 40 0.16
80 83 0.34
81 36 0.15
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (80 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATATATCAACTC
Found at i:25624892 original size:40 final size:40
Alignment explanation
Indices: 25624541--25624888 Score: 483
Period size: 40 Copynumber: 8.8 Consensus size: 40
25624531 ATTACTACAA
* * * *
25624541 GCACAATTGCCTTCGGGTCTTAACCCGG-CATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
25624580 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
25624620 GCACAATTGCCTTC-GGTCTTAGCCCAGATATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCC-G-GATATATCAACTC
*
25624661 GCACAAATGCCTGC-GGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
25624700 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
25624740 GCACAAATGCC-TC-GGTCTTAGCCCGGATATATCTACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
25624778 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
25624818 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
25624858 GCACAATTGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
25624889 AAATTCAAAT
Statistics
Matches: 280, Mismatches: 22, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
38 35 0.12
39 65 0.23
40 142 0.51
41 38 0.14
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:25633308 original size:44 final size:42
Alignment explanation
Indices: 25633198--25633315 Score: 132
Period size: 42 Copynumber: 2.8 Consensus size: 42
25633188 ATTCACTATT
* *
25633198 GATGCCTTTGTCCCAGACACGGTCTTACACGAAATCAGATAC
1 GATGCCTATGTCCCAGACACGGTCTTACACGAAATCAAATAC
* * *
25633240 GATGCCAATGTCTCAGACATGGTCTTACACGTAAATCTCAAAT-C
1 GATGCCTATGTCCCAGACACGGTCTTACACG-AAA--TCAAATAC
*
25633284 G-TAGCCTGTGTCCCAGACACGGTCTTACACGA
1 GAT-GCCTATGTCCCAGACACGGTCTTACACGA
25633316 TATTTCAGAT
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
42 27 0.43
43 5 0.08
44 26 0.41
45 5 0.08
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (42 bp):
GATGCCTATGTCCCAGACACGGTCTTACACGAAATCAAATAC
Found at i:25640633 original size:40 final size:40
Alignment explanation
Indices: 25640578--25640795 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
25640568 CGGATGATAA
* *
25640578 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
25640618 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
25640658 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
25640698 TCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
25640738 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
25640778 CC-GGCTAAATCTCGAAGG
1 CCGGGCTAAGTCCCGAAGG
25640796 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 146 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:25644195 original size:24 final size:24
Alignment explanation
Indices: 25644163--25644211 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
25644153 ACACCGATTT
25644163 CGATAGCTCCGTATCGTATGGCAC
1 CGATAGCTCCGTATCGTATGGCAC
25644187 CGATAGCTCCGTATCGTATGGCAC
1 CGATAGCTCCGTATCGTATGGCAC
25644211 C
1 C
25644212 AACTGAGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.31, G:0.24, T:0.24
Consensus pattern (24 bp):
CGATAGCTCCGTATCGTATGGCAC
Found at i:25648954 original size:40 final size:40
Alignment explanation
Indices: 25648899--25649076 Score: 245
Period size: 40 Copynumber: 4.5 Consensus size: 40
25648889 CGGATGATAA
* * *
25648899 CCGGGATAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
25648939 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
25648979 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
25649019 CCGGGCTAGGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
25649059 CC-GGCTAAATCTCGAAGG
1 CCGGGCTAAGTCCCGAAGG
25649077 TACTTGGTTT
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 15 0.12
40 110 0.87
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:25652452 original size:48 final size:48
Alignment explanation
Indices: 25652381--25652699 Score: 234
Period size: 48 Copynumber: 6.6 Consensus size: 48
25652371 TATGTGTGCT
* * * *
25652381 AGTGTAAGACCATGTTTAGGACATGGCATCGGCCACATTACGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAAATTATGAGAGCC
* * * *** * * *
25652429 AGTGTAATATCATGTCTGGGACATGGCATCGACGTTGA-TATGTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CAAATTATGAGAGCC
* *
25652477 AGTGTAACACCATGTCTGGGACATGGCATTGGCCAAATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAAATTATGAGAGCC
* * * * ** *
25652525 AATGTAAGACCATGTCTGTGACATGGCATCAGCCTCAA-TATGCTAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCC-AAATTATGAGAGCC
* * * ** * *
25652573 AGTGTAAGA-CATGTTTAGAACATGGCATCGG-CATTCTTAT-ATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-AATTATGA-GAGCC
* **
25652620 AGTGTAAGACCATGTCTGGGACATGGCATCAGCACCGATGTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CAAAT-TATGAGAGCC
* * *
25652670 AGTGTAAGACAATGTCTGGAACTTGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
25652700 AGCATTTTAC
Statistics
Matches: 203, Mismatches: 57, Indels: 20
0.73 0.20 0.07
Matches are distributed among these distances:
46 1 0.00
47 31 0.15
48 132 0.65
49 4 0.02
50 34 0.17
51 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAAATTATGAGAGCC
Found at i:25652531 original size:96 final size:96
Alignment explanation
Indices: 25652366--25652649 Score: 290
Period size: 96 Copynumber: 3.0 Consensus size: 96
25652356 AAGACATTTG
* * * *
25652366 GTTGATATGTGTGCTAGTGTAAGACCATGTTTAGGACATGGCATCGGCCACATTACGAGAGCCAG
1 GTTGATATGTGTGCTAGTGTAACACCATGTCTAGGACATGGCATCGGCCAAATTACGAGAGCCAA
* *
25652431 TGTAATATCATGTCTGGGACATGGCATCGAC
66 TGTAAGACCATGTCTGGGACATGGCATCGAC
* * *
25652462 GTTGATATGTGTGCTAGTGTAACACCATGTCTGGGACATGGCATTGGCCAAATTATGAGAGCCAA
1 GTTGATATGTGTGCTAGTGTAACACCATGTCTAGGACATGGCATCGGCCAAATTACGAGAGCCAA
*
25652527 TGTAAGACCATGTCTGTGACATGGCATC-AGC
66 TGTAAGACCATGTCTGGGACATGGCATCGA-C
* ** * * * * ** * * *
25652558 CTCAATATGCT-AGCTAGTGTAAGA-CATGTTTAGAACATGGCATCGG-CATTCTTA-TATGTGT
1 GTTGATATG-TGTGCTAGTGTAACACCATGTCTAGGACATGGCATCGGCCA-AATTACGA-GAGC
*
25652619 CAGTGTAAGACCATGTCTGGGACATGGCATC
63 CAATGTAAGACCATGTCTGGGACATGGCATC
25652650 AGCACCGATG
Statistics
Matches: 158, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
94 3 0.02
95 53 0.34
96 101 0.64
97 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (96 bp):
GTTGATATGTGTGCTAGTGTAACACCATGTCTAGGACATGGCATCGGCCAAATTACGAGAGCCAA
TGTAAGACCATGTCTGGGACATGGCATCGAC
Found at i:25656048 original size:52 final size:52
Alignment explanation
Indices: 25655970--25656073 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
25655960 GATTTTTTAT
* *
25655970 AATCGTGATATTAGACGAAAGCATTGTCAGCATGACTAGTTTATAATCTATG
1 AATCGTGATATTAGACGAAAACATTGTCAACATGACTAGTTTATAATCTATG
25656022 AATCGTGATATTAGACGAAAACATTGTCAACATGACTAGTTTATAATCTATG
1 AATCGTGATATTAGACGAAAACATTGTCAACATGACTAGTTTATAATCTATG
25656074 TTGCTCTATT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (52 bp):
AATCGTGATATTAGACGAAAACATTGTCAACATGACTAGTTTATAATCTATG
Found at i:25670446 original size:40 final size:40
Alignment explanation
Indices: 25670363--25670745 Score: 556
Period size: 40 Copynumber: 9.6 Consensus size: 40
25670353 TTGAATGCTG
* * * * * *
25670363 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
25670403 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
25670443 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
25670483 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
25670523 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
25670563 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
25670603 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
25670643 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
25670683 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
25670722 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
25670746 TGAACGAGGA
Statistics
Matches: 321, Mismatches: 19, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
39 35 0.11
40 278 0.87
41 8 0.02
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:25686342 original size:29 final size:29
Alignment explanation
Indices: 25686255--25686369 Score: 110
Period size: 29 Copynumber: 4.0 Consensus size: 29
25686245 TACTTGTATC
* *
25686255 TGGCCCATTAAG-CCTAATCATATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
* * * *
25686283 TGGCCCATTAAGCCGAAACCACCTGT-TTA
1 TGGCCCATTAAGCCCAAATCACAT-TCATA
*
25686312 TGGCCCATTAAGCCCAAATCACATTTATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
* * *
25686341 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
25686369 T
1 T
25686370 TCATGCTCAC
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
28 25 0.36
29 44 0.63
30 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAAGCCCAAATCACATTCATA
Found at i:25686604 original size:16 final size:16
Alignment explanation
Indices: 25686580--25686625 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
25686570 GTAGGCAAAC
* * *
25686580 TTTCAGCTTTTCGGTA
1 TTTCGGCTTTTCAGCA
25686596 TTTCGGCTTTTCAGCA
1 TTTCGGCTTTTCAGCA
*
25686612 TTTCGGCATTTCAG
1 TTTCGGCTTTTCAG
25686626 TTTTTGCCGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.13, C:0.22, G:0.20, T:0.46
Consensus pattern (16 bp):
TTTCGGCTTTTCAGCA
Found at i:25686630 original size:24 final size:24
Alignment explanation
Indices: 25686580--25686630 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
25686570 GTAGGCAAAC
* * *
25686580 TTTCAGCTTTTCGGTATTTCGGCT
1 TTTCAGCATTTCGGCATTTCAGCT
*
25686604 TTTCAGCATTTCGGCATTTCAGTT
1 TTTCAGCATTTCGGCATTTCAGCT
25686628 TTT
1 TTT
25686631 GCCGATTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.20, G:0.18, T:0.51
Consensus pattern (24 bp):
TTTCAGCATTTCGGCATTTCAGCT
Found at i:25692101 original size:27 final size:27
Alignment explanation
Indices: 25692071--25692248 Score: 259
Period size: 27 Copynumber: 6.6 Consensus size: 27
25692061 CCCTAATTGA
* * *
25692071 TAAAATGATTGTTTTGCCCTTTTGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
25692098 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
25692125 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
25692152 TAAAATGACTGTTTT-CTCCTTATGTGG
1 TAAAATGACTATTTTGC-CCTTATGTGG
*
25692179 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* *
25692206 TAAAATGACTATTTTGCCCTTATATTG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
25692233 TAAATTGACTACTTTT
1 TAAAATGACTA-TTTT
25692249 CTCATATGTG
Statistics
Matches: 140, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
26 1 0.01
27 134 0.96
28 5 0.04
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGG
Found at i:25692613 original size:17 final size:18
Alignment explanation
Indices: 25692580--25692616 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
25692570 AGGACTGGTA
25692580 TACTGTTACTGCACTGAT
1 TACTGTTACTGCACTGAT
25692598 TACTGTTACT-CACTGAT
1 TACTGTTACTGCACTGAT
25692615 TA
1 TA
25692617 TTATTTCTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.41
Consensus pattern (18 bp):
TACTGTTACTGCACTGAT
Found at i:25697645 original size:19 final size:19
Alignment explanation
Indices: 25697609--25697647 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
25697599 TTTTCATCAT
* *
25697609 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
25697628 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
25697647 A
1 A
25697648 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:25698151 original size:55 final size:56
Alignment explanation
Indices: 25698086--25698200 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
25698076 AGCATGGCTG
* * *
25698086 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTATGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTATGGCA-TAGCCA
* * * *
25698142 CCAGA-ACAGATAAACGTGGCAGGGCCACCAGAATAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTATGGCATAGCCA
25698197 CCAG
1 CCAG
25698201 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 27 0.54
56 22 0.44
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTATGGCATAGCCA
Found at i:25698197 original size:28 final size:27
Alignment explanation
Indices: 25698111--25698200 Score: 83
Period size: 27 Copynumber: 3.2 Consensus size: 27
25698101 GTGACAGAGT
* *
25698111 CACCAGATACAGATATTTTATGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
25698140 CACCAGAACAGATAA-ACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
25698167 CACCAGAATAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
25698195 CACCAG
1 CACCAG
25698201 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.44
28 21 0.42
29 7 0.14
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:25698353 original size:28 final size:28
Alignment explanation
Indices: 25698309--25698370 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
25698299 TTAACCCTAA
*
25698309 GGGTATAAAGGTCATTTTGCACACATAG
1 GGGTATAAAGGTAATTTTGCACACATAG
* * *
25698337 GGGTATAATGGTAATTTTGCATACGTAG
1 GGGTATAAAGGTAATTTTGCACACATAG
25698365 GGGTAT
1 GGGTAT
25698371 TCTAGTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.32
Consensus pattern (28 bp):
GGGTATAAAGGTAATTTTGCACACATAG
Found at i:25707382 original size:100 final size:100
Alignment explanation
Indices: 25707267--25707454 Score: 315
Period size: 100 Copynumber: 1.9 Consensus size: 100
25707257 AAAGCTATCT
*
25707267 GGTACGCATAGTAGCCAGCACTTAGTACTACACATGCGACCAA-TAACCTGGTACACGTAGTAGC
1 GGTACACATAGTAGCCAGCACTTAGTACTACACATGCGACCAATTAACC-GGTACACGTAGTAGC
*
25707331 CTGCACTTAGTACTACACATGTGATCACAGTTTTCG
65 CTGCACTTAGTACTACACACGTGATCACAGTTTTCG
* * *
25707367 GGTACACATAGTAGCCTGCATTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACACATAGTAGCCAGCACTTAGTACTACACATGCGACCAATTAACCGGTACACGTAGTAGCC
25707432 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
25707455 CATCACAATA
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 78 0.95
101 4 0.05
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (100 bp):
GGTACACATAGTAGCCAGCACTTAGTACTACACATGCGACCAATTAACCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:25707386 original size:51 final size:49
Alignment explanation
Indices: 25707262--25707449 Score: 243
Period size: 49 Copynumber: 3.8 Consensus size: 49
25707252 TAGCCAAAGC
* * *
25707262 TATCTGGTACGCATAGTAGCCAGCACTTAGTACTACACATGCGACCAA-
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
25707310 TAACCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCACAGT
1 TATCC-GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * *
25707362 TTTCGGGTACACATAGTAGCCTGCATTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
*
25707411 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
25707450 CGTGACATCA
Statistics
Matches: 118, Mismatches: 18, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
48 3 0.03
49 73 0.62
50 2 0.02
51 38 0.32
52 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:25717521 original size:37 final size:37
Alignment explanation
Indices: 25717471--25717550 Score: 115
Period size: 37 Copynumber: 2.2 Consensus size: 37
25717461 CTTATTACGA
* *
25717471 AGTCTTACCCGGACATAATCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATCTCCACACGAAGTCATCG
* *
25717508 AGTCTTACCCGGACAAAATTTCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATCTCCACACGAAGTCATCG
*
25717545 GGTCTT
1 AGTCTT
25717551 TAGAGCCCGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATCTCCACACGAAGTCATCG
Found at i:25717740 original size:47 final size:47
Alignment explanation
Indices: 25717669--25718485 Score: 1321
Period size: 47 Copynumber: 17.4 Consensus size: 47
25717659 CCCTTCGGGA
** * * *
25717669 CTTATCACATTTATACACT-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACA-TGTTCACTTTCATCACATTGGCCATTCGGC
* * * * *
25717716 CTTATCTCACATACACATGCTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
* *
25717763 CTTATCACACATACACCTGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
* *
25717810 TTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGT
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
*
25717857 CTTATCACACATACACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
* *
25717904 TTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGT
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
*
25717951 CTTATCACACATACACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
25717998 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
* * *
25718045 CTTATCACACATACACATGTTTACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
* * * *
25718092 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
25718139 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
25718186 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
* *
25718233 TTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGT
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
*
25718280 CTTATCACACATACACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
25718327 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
* * *
25718374 CTTATCACACATACACATGTTTACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
25718421 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
*
25718468 CCTATTCACACATATACA
1 CTTA-TCACACATATACA
25718486 CTTTCACATT
Statistics
Matches: 716, Mismatches: 52, Indels: 3
0.93 0.07 0.00
Matches are distributed among these distances:
46 1 0.00
47 702 0.98
48 13 0.02
ACGTcount: A:0.26, C:0.30, G:0.10, T:0.34
Consensus pattern (47 bp):
CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGC
Found at i:25718171 original size:25 final size:25
Alignment explanation
Indices: 25718142--25718266 Score: 77
Period size: 25 Copynumber: 5.2 Consensus size: 25
25718132 ATTCGGCCTT
25718142 ATCACACATATACATGTTCACTTTC
1 ATCACACATATACATGTTCACTTTC
* *** * *
25718167 ATCACA-TTGGCCA--TTCGGCCTT-
1 ATCACACATATACATGTTC-ACTTTC
25718189 ATCACACATATACATGTTCACTTTC
1 ATCACACATATACATGTTCACTTTC
* *** *
25718214 ATCACA-TTGGCCA--TTCGGCTTT-
1 ATCACACATATACATGTTC-ACTTTC
25718236 ATCACACATATACATGTTCACTTTC
1 ATCACACATATACATGTTCACTTTC
25718261 ATCACA
1 ATCACA
25718267 TTGGCCATTC
Statistics
Matches: 68, Mismatches: 22, Indels: 20
0.62 0.20 0.18
Matches are distributed among these distances:
22 18 0.26
23 13 0.19
24 13 0.19
25 24 0.35
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (25 bp):
ATCACACATATACATGTTCACTTTC
Found at i:25720094 original size:13 final size:13
Alignment explanation
Indices: 25720076--25720100 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25720066 TACTAAATTT
25720076 TCATGGATTCAAG
1 TCATGGATTCAAG
25720089 TCATGGATTCAA
1 TCATGGATTCAA
25720101 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:25726586 original size:40 final size:40
Alignment explanation
Indices: 25726492--25726636 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
25726482 TACTCGAATG
*
25726492 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
25726533 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
25726573 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
25726613 ATATCCAGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
25726637 CTTGTGTGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:25730775 original size:23 final size:23
Alignment explanation
Indices: 25730745--25730841 Score: 83
Period size: 22 Copynumber: 4.3 Consensus size: 23
25730735 TGATGAACGG
*
25730745 TAAGCTCTATTAAGCTAAACCGA
1 TAAGCTCTATCAAGCTAAACCGA
** * *
25730768 TAAGCTCTATTGAGCTGAA-TGA
1 TAAGCTCTATCAAGCTAAACCGA
* *
25730790 TAAGCTCTATCGAGCTAAACAG-
1 TAAGCTCTATCAAGCTAAACCGA
* *
25730812 TAAGCTC-ATACAAGCTAAAACGG
1 TAAGCTCTAT-CAAGCTAAACCGA
25730835 TAAGCTC
1 TAAGCTC
25730842 CAATGAGCTG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
21 2 0.03
22 35 0.56
23 25 0.40
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.25
Consensus pattern (23 bp):
TAAGCTCTATCAAGCTAAACCGA
Found at i:25730794 original size:22 final size:23
Alignment explanation
Indices: 25730745--25730818 Score: 89
Period size: 22 Copynumber: 3.3 Consensus size: 23
25730735 TGATGAACGG
*
25730745 TAAGCTCTATTAAGCTAAACCGA
1 TAAGCTCTATTGAGCTAAACCGA
* *
25730768 TAAGCTCTATTGAGCTGAA-TGA
1 TAAGCTCTATTGAGCTAAACCGA
* *
25730790 TAAGCTCTATCGAGCTAAACAG-
1 TAAGCTCTATTGAGCTAAACCGA
25730812 TAAGCTC
1 TAAGCTC
25730819 ATACAAGCTA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
22 26 0.59
23 18 0.41
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (23 bp):
TAAGCTCTATTGAGCTAAACCGA
Found at i:25733952 original size:40 final size:40
Alignment explanation
Indices: 25733882--25734049 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
25733872 CGGGGTTTAG
** * *
25733882 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAAC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * *
25733921 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * **
25733961 CCGGATATAGTCGCTAGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * * **
25734001 CCAGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGG
1 CCGGATATAGTCAC-TAGCACAAATGCCTTCGGGTCTTAAC
25734042 CCGGATAT
1 CCGGATAT
25734050 CATTCGAGTA
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 15 0.14
40 62 0.59
41 28 0.27
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:25741930 original size:28 final size:28
Alignment explanation
Indices: 25741898--25742024 Score: 155
Period size: 29 Copynumber: 4.5 Consensus size: 28
25741888 ATAGTAAGTC
*
25741898 CGCACAGTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGTTATATAATCAAACT
*
25741926 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTG-TTATATAATCAAACT
*
25741955 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGTTATATAATCAAACT
* * ** * *
25741983 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGTTATATAA-TCAAACT
25742012 CGCACACTTAGTG
1 CGCACACTTAGTG
25742025 CAAATCTCAT
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
28 43 0.49
29 44 0.51
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGTTATATAATCAAACT
Found at i:25741966 original size:57 final size:57
Alignment explanation
Indices: 25741897--25742025 Score: 179
Period size: 57 Copynumber: 2.3 Consensus size: 57
25741887 TATAGTAAGT
* *
25741897 CCGCACAGTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
25741954 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
25742011 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
25742026 AAATCTCATG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 60 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:25749927 original size:28 final size:28
Alignment explanation
Indices: 25749844--25749952 Score: 132
Period size: 28 Copynumber: 3.9 Consensus size: 28
25749834 TGACATATGT
25749844 TATAATCAAAC-CGCACACTTAGT-CTTA
1 TATAATCAAACTCGCACACTTAGTGC-TA
*
25749871 CATAATCAAACTCGCACACTTAGTGCTA
1 TATAATCAAACTCGCACACTTAGTGCTA
*
25749899 TATAATCAAACTTGCACACTTAGTGCTA
1 TATAATCAAACTCGCACACTTAGTGCTA
** ** *
25749927 TGCAATTTAACCCGCACACTTAGTGC
1 TATAATCAAACTCGCACACTTAGTGC
25749953 CAATCTCATG
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
27 10 0.14
28 60 0.85
29 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.28
Consensus pattern (28 bp):
TATAATCAAACTCGCACACTTAGTGCTA
Found at i:25755787 original size:39 final size:40
Alignment explanation
Indices: 25755676--25755896 Score: 310
Period size: 39 Copynumber: 5.6 Consensus size: 40
25755666 TGGATGATAA
* * *
25755676 CCGGGTTAAGTCCCGAAGGCATTTGTGCTAGTCACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
25755716 CTGGGCTAAG-CTCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTC-CCGAAGGCATTTGTGCGAGTTACTATAT
*
25755756 CCGGGCTAAGTCCCGAA-GCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
25755795 -CGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
25755834 CC-GGCTAAGACCCGAA-GCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
25755872 CCGGGCTAAGTCCCGAAGGGCATTT
1 CCGGGCTAAGTCCCGAA-GGCATTT
25755897 TGAGCAAGTA
Statistics
Matches: 162, Mismatches: 11, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
38 39 0.24
39 68 0.42
40 47 0.29
41 8 0.05
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:25764600 original size:23 final size:23
Alignment explanation
Indices: 25764568--25764698 Score: 68
Period size: 23 Copynumber: 5.9 Consensus size: 23
25764558 AGCTTGCTGT
*
25764568 TTTCAGCTCAT-TGAAGCTTACCG
1 TTTCAACTCATATG-AGCTTACCG
25764591 TTTCAACTCATATGAGCTTA-C-
1 TTTCAACTCATATGAGCTTACCG
*
25764612 TATTCACACTCA-ATAGAGCTTACTG
1 T-TTCA-ACTCATAT-GAGCTTACCG
*
25764637 TTT-AGCTCGATA-GAGCTTA-C-
1 TTTCAACTC-ATATGAGCTTACCG
* * *
25764657 TGTCAACTGATA-GAGCTTACTG
1 TTTCAACTCATATGAGCTTACCG
*
25764679 -TTCAGCTCA-ATAGAGCTTAC
1 TTTCAACTCATAT-GAGCTTAC
25764699 TGTTCATCAG
Statistics
Matches: 84, Mismatches: 11, Indels: 27
0.69 0.09 0.22
Matches are distributed among these distances:
20 13 0.15
21 10 0.12
22 25 0.30
23 30 0.36
24 5 0.06
25 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (23 bp):
TTTCAACTCATATGAGCTTACCG
Found at i:25764670 original size:20 final size:22
Alignment explanation
Indices: 25764546--25764704 Score: 130
Period size: 22 Copynumber: 7.1 Consensus size: 22
25764536 TATTGATATA
*
25764546 TCAGCTCG-TAAGAGCTTGCTGTTT
1 TCAGCTCGAT-AGAGCTTACTG--T
* *
25764570 TCAGCTC-ATTGAAGCTTACCGTT
1 TCAGCTCGATAG-AGCTTACTG-T
* *
25764593 TCAACTC-ATATGAGCTTACTAT
1 TCAGCTCGATA-GAGCTTACTGT
* *
25764615 TCACACTCAATAGAGCTTACTGT
1 TCA-GCTCGATAGAGCTTACTGT
*
25764638 TTAGCTCGATAGAGCTTACTG-
1 TCAGCTCGATAGAGCTTACTGT
*
25764659 TCAACT-GATAGAGCTTACTGT
1 TCAGCTCGATAGAGCTTACTGT
*
25764680 TCAGCTCAATAGAGCTTACTGT
1 TCAGCTCGATAGAGCTTACTGT
25764702 TCA
1 TCA
25764705 TCAGCTTAAG
Statistics
Matches: 113, Mismatches: 15, Indels: 16
0.78 0.10 0.11
Matches are distributed among these distances:
20 14 0.12
21 9 0.08
22 37 0.33
23 34 0.30
24 19 0.17
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (22 bp):
TCAGCTCGATAGAGCTTACTGT
Found at i:25769444 original size:15 final size:16
Alignment explanation
Indices: 25769426--25769455 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25769416 GAAAGCTGAA
25769426 AATTT-ATTAAATGAC
1 AATTTAATTAAATGAC
25769441 AATTTAATTAAATGA
1 AATTTAATTAAATGA
25769456 AAAAGAACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (16 bp):
AATTTAATTAAATGAC
Found at i:25771086 original size:29 final size:29
Alignment explanation
Indices: 25771044--25771120 Score: 145
Period size: 29 Copynumber: 2.7 Consensus size: 29
25771034 GAATAATTAT
*
25771044 CATGGGCCGAAGCCAAATCATCCGATATG
1 CATGGCCCGAAGCCAAATCATCCGATATG
25771073 CATGGCCCGAAGCCAAATCATCCGATATG
1 CATGGCCCGAAGCCAAATCATCCGATATG
25771102 CATGGCCCGAAGCCAAATC
1 CATGGCCCGAAGCCAAATC
25771121 GGGATAACTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.31, C:0.31, G:0.22, T:0.16
Consensus pattern (29 bp):
CATGGCCCGAAGCCAAATCATCCGATATG
Found at i:25791327 original size:27 final size:27
Alignment explanation
Indices: 25791297--25791496 Score: 170
Period size: 27 Copynumber: 7.4 Consensus size: 27
25791287 GGGGCAAAAT
* * *
25791297 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
25791324 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
25791351 AGTATTTCTACCCTACAAGGGTTTTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
25791378 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* **
25791405 GGTCATTCTATACTAC-AGGAGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
** *
25791432 AATAATTCTACCCTA-AAGGGGTATGTC
1 GGTAATTCTACCCTACAA-GGGTATTTC
* * * * *
25791459 GATAATTATACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
25791486 GGTAATTCTAC
1 GGTAATTCTAC
25791497 AACTTATCCA
Statistics
Matches: 135, Mismatches: 34, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
26 2 0.01
27 130 0.96
28 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:25791343 original size:54 final size:54
Alignment explanation
Indices: 25791285--25791398 Score: 122
Period size: 54 Copynumber: 2.1 Consensus size: 54
25791275 TTTAACACCC
*
25791285 TAGGGGCAAAATGGTAATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTA
1 TAGGGGCAAAATAGT-ATTTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTA
* *** * * * *
25791339 TAGGGGTATTTTAGTATTTCTACCCTACAAGGGTTTTTCGGTAATTCTATCCTA
1 TAGGGGCAAAATAGTATTTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTA
*
25791393 CAGGGG
1 TAGGGG
25791399 TATTTCGGTC
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
53 4 0.08
54 45 0.92
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (54 bp):
TAGGGGCAAAATAGTATTTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTA
Found at i:25791407 original size:81 final size:80
Alignment explanation
Indices: 25791297--25791497 Score: 206
Period size: 81 Copynumber: 2.5 Consensus size: 80
25791287 GGGGCAAAAT
* * * * * * * * * *
25791297 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTTAGTATTTCTAC
1 GGTAATTATA-CCTACAGGGGTATTTCGGTAATTCTACACTACAGGAGTATTTCAATAATTCTAC
* *
25791362 CCTACAA-GGGTTTTTC
65 CCTA-AAGGGGTATGTC
* * *
25791378 GGTAATTCTATCCTACAGGGGTATTTCGGTCATTCTATACTACAGGAGTATTTCAATAATTCTAC
1 GGTAATTATA-CCTACAGGGGTATTTCGGTAATTCTACACTACAGGAGTATTTCAATAATTCTAC
25791443 CCTAAAGGGGTATGTC
65 CCTAAAGGGGTATGTC
* *
25791459 GATAATTATACCTTACAGGGGTATTTTGGTAATTCTACA
1 GGTAATTATACC-TACAGGGGTATTTCGGTAATTCTACA
25791498 ACTTATCCAC
Statistics
Matches: 98, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
80 4 0.04
81 94 0.96
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (80 bp):
GGTAATTATACCTACAGGGGTATTTCGGTAATTCTACACTACAGGAGTATTTCAATAATTCTACC
CTAAAGGGGTATGTC
Done.