Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 351 of 438
Found at i:109507444 original size:20 final size:20
Alignment explanation
Indices: 109507419--109507489 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
109507409 ATTTTGATAA
*
109507419 ACATGATATGTATGATATGT
1 ACATGATATGTATGATATGC
*
109507439 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
109507459 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
109507479 ACATGAGATGT
1 ACATGATATGT
109507490 TCATAAATGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:109507615 original size:24 final size:24
Alignment explanation
Indices: 109507535--109507698 Score: 246
Period size: 23 Copynumber: 7.0 Consensus size: 24
109507525 GGAGGAAGTG
109507535 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
109507559 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
109507582 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
109507605 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
109507629 -TAAAGGGCTTATGCCCCAGTGAT
1 CAAAAGGGCTTATGCCCCAGTTAT
109507652 CAAAAGGGCTTATGCCCCAGTTA-
1 CAAAAGGGCTTATGCCCCAGTTAT
*
109507675 CAAAAAGGGCTTTTGCCCCAGTTA
1 C-AAAAGGGCTTATGCCCCAGTTA
109507699 CTAAAAGAGG
Statistics
Matches: 130, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
23 67 0.52
24 63 0.48
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:109507628 original size:47 final size:47
Alignment explanation
Indices: 109507537--109507698 Score: 263
Period size: 47 Copynumber: 3.4 Consensus size: 47
109507527 AGGAAGTGCA
*
109507537 AAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
109507583 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* **
109507630 AAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTATGCCCCAGTTACAA
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-TT
*
109507678 AAAGGGCTTTTGCCCCAGTTA
1 AAAGGGCTTATGCCCCAGTTA
109507699 CTAAAAGAGG
Statistics
Matches: 108, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
46 22 0.20
47 67 0.62
48 19 0.18
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:109507699 original size:24 final size:24
Alignment explanation
Indices: 109507536--109507710 Score: 234
Period size: 24 Copynumber: 7.4 Consensus size: 24
109507526 GAGGAAGTGC
109507536 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTACT
*
109507559 TAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTACT
*
109507582 TAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTACT
109507605 CAAAAGGGCTTATGCCCCAGTTA-T
1 -AAAAGGGCTTATGCCCCAGTTACT
* *
109507629 TAAAGGGCTTATGCCCCAGTGA-T
1 AAAAGGGCTTATGCCCCAGTTACT
*
109507652 CAAAAGGGCTTATGCCCCAGTTACA
1 -AAAAGGGCTTATGCCCCAGTTACT
*
109507677 AAAAGGGCTTTTGCCCCAGTTACT
1 AAAAGGGCTTATGCCCCAGTTACT
109507701 AAAAGAGGCT
1 AAAAG-GGCT
109507711 AGGCCTCCAG
Statistics
Matches: 139, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
23 66 0.47
24 69 0.50
25 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTACT
Found at i:109515586 original size:15 final size:17
Alignment explanation
Indices: 109515556--109515588 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
109515546 GAAAACATCT
109515556 CAAAAGCATAAAGAAAA
1 CAAAAGCATAAAGAAAA
109515573 CAAAA-CAT-AAGAAAA
1 CAAAAGCATAAAGAAAA
109515588 C
1 C
109515589 CCAAAACTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.70, C:0.15, G:0.09, T:0.06
Consensus pattern (17 bp):
CAAAAGCATAAAGAAAA
Found at i:109521760 original size:40 final size:39
Alignment explanation
Indices: 109521633--109521762 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
109521623 ATGCTGGAAA
* *
109521633 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
109521673 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
109521713 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
109521753 TTATATCCGG
1 TTATATCCGG
109521763 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:109530280 original size:79 final size:80
Alignment explanation
Indices: 109530132--109530337 Score: 220
Period size: 79 Copynumber: 2.6 Consensus size: 80
109530122 AATTGAATGA
* * ** ** ** * *
109530132 TATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
109530197 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* *
109530210 TACATCCGGGCTAAGACCCGAAGGCA-TCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGC
* *
109530274 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
109530291 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGG
109530338 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
78 1 0.01
79 62 0.58
80 41 0.39
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:109530335 original size:40 final size:40
Alignment explanation
Indices: 109530131--109530337 Score: 197
Period size: 40 Copynumber: 5.2 Consensus size: 40
109530121 CAATTGAATG
* * ** **
109530131 ATATCCGGGCTAAGTCCCGAAGACATTTATGC-TGGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAT-GTGGTT
* **
109530171 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGC-TAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAT-GTGGTT
* * *
109530211 ACATCCGGGCTAAGACCCGAAGGCA-TCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
* * * * *
109530250 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
*
109530290 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
109530330 ATATCCGG
1 ATATCCGG
109530338 TTGTATTCCG
Statistics
Matches: 139, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
38 1 0.01
39 31 0.22
40 104 0.75
41 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
Found at i:109541152 original size:40 final size:39
Alignment explanation
Indices: 109540970--109541177 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
109540960 CAATTGAATG
* * * ** *
109540970 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-GTT
* * * *
109541010 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTG-TT
* * *
109541050 ACATCCGGGCTAAGACCCGAAGGCAATCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG-TGTT
* *
109541090 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-GTT
* * *
109541130 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-GTT
109541170 ATATCCGG
1 ATATCCGG
109541178 TTGTGTTCCG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 138 0.98
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGTT
Found at i:109550476 original size:40 final size:39
Alignment explanation
Indices: 109550417--109550584 Score: 212
Period size: 40 Copynumber: 4.2 Consensus size: 39
109550407 CAGAATACAA
*
109550417 CCGGATATAATCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-CACTCGCACGAATGCCTTCGGGTCTTAGC
* *
109550457 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTCGCACGAATGCCTTCGGGTCTTAGC
*
109550497 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACTCGCACGAATGCCTTCGGGTCTTAGC
* * *
109550537 CCGGATATAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACACTCGCACGAA-TGCCTTCGGGTCTTAGC
*
109550577 CCAGATAT
1 CCGGATAT
109550585 CATTCAATTG
Statistics
Matches: 114, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.03
40 110 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
CCGGATATAACACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:109550557 original size:80 final size:80
Alignment explanation
Indices: 109550417--109550584 Score: 234
Period size: 80 Copynumber: 2.1 Consensus size: 80
109550407 CAGAATACAA
*
109550417 CCGGATATAATCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAATCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
109550482 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
*
109550497 CCGGATATAA-CA-ACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAA
1 CCGGATATAATCACAC--GCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAA
* *
109550559 TTGCCTTCGGGTCTTAAC
63 ATGCCTTCGGGTATTAAC
*
109550577 CCAGATAT
1 CCGGATAT
109550585 CATTCAATTG
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
78 2 0.03
79 2 0.03
80 74 0.94
81 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
CCGGATATAATCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:109550692 original size:124 final size:125
Alignment explanation
Indices: 109550541--109550766 Score: 310
Period size: 124 Copynumber: 1.8 Consensus size: 125
109550531 CTTAGCCCGG
* * * * * *
109550541 ATATAGTCACTAGCACAATTGCCTTCGGGTCTTAACCCAGATATCATTCAATTGCTCATGCACAC
1 ATATAATCACTAGCACAATTGCCTTCGGGACTTAACCCAGATACCATTCAAATACTCATACACAC
* *
109550606 ATACATCAATAATCATTACACATTCAT-GTTTCATTTTCGTTACTAAGGCTCAAACACAA
66 ATACATCAATAATCATTACACATCCATAATTTCATTTTCGTTACTAAGGCTCAAACACAA
* * * *
109550665 ATATAATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACAC
1 ATATAATCACTAGCACAATTGCCTTCGGGACTTAACCCAGATACCATTCAAATACTCATACACAC
* * *
109550730 GTATATCAGTAATCATTACACATCCATAATTTCATTT
66 ATACATCAATAATCATTACACATCCATAATTTCATTT
109550767 CACATAATTC
Statistics
Matches: 86, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
124 78 0.91
125 8 0.09
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (125 bp):
ATATAATCACTAGCACAATTGCCTTCGGGACTTAACCCAGATACCATTCAAATACTCATACACAC
ATACATCAATAATCATTACACATCCATAATTTCATTTTCGTTACTAAGGCTCAAACACAA
Found at i:109558075 original size:40 final size:39
Alignment explanation
Indices: 109558030--109558194 Score: 192
Period size: 40 Copynumber: 4.1 Consensus size: 39
109558020 AATACAACCA
109558030 GATATAATCACACGCACGAATGCCTTCGGGTCTTAGCCCG
1 GATATAA-CACACGCACGAATGCCTTCGGGTCTTAGCCCG
* * *
109558070 GATATAACGACTCGCACAAATGCCTTCGGGTATTAGCCCG
1 GATATAAC-ACACGCACGAATGCCTTCGGGTCTTAGCCCG
109558110 GATATAACA-ACTTGCACGAATGCCTTCGGGTCTTAGCCCG
1 GATATAACACAC--GCACGAATGCCTTCGGGTCTTAGCCCG
* * *
109558150 GATATAGTCACTA-GCAC-AATTGCCTTTGGGTCTTAACCCG
1 GATATA-ACAC-ACGCACGAA-TGCCTTCGGGTCTTAGCCCG
109558190 GATAT
1 GATAT
109558195 CATTCAATTG
Statistics
Matches: 109, Mismatches: 9, Indels: 14
0.83 0.07 0.11
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 101 0.93
41 2 0.02
43 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
GATATAACACACGCACGAATGCCTTCGGGTCTTAGCCCG
Found at i:109558167 original size:80 final size:80
Alignment explanation
Indices: 109558043--109558194 Score: 234
Period size: 80 Copynumber: 1.9 Consensus size: 80
109558033 ATAATCACAC
* *
109558043 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGCC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATGCCTTCGGGTATTAACC
109558108 CGGATATAACAACTT
66 CGGATATAACAACTT
* * * *
109558123 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAATTGCCTTTGGGTCTTAAC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAATGCCTTCGGGTATTAAC
109558187 CCGGATAT
65 CCGGATAT
109558195 CATTCAATTG
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
80 64 0.98
81 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATGCCTTCGGGTATTAACC
CGGATATAACAACTT
Found at i:109561158 original size:18 final size:18
Alignment explanation
Indices: 109561110--109561166 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
109561100 GCTAAGAGAG
*
109561110 TTGAGGGAGGAGAGAATGA
1 TTGAGGGATGAG-GAATGA
**
109561129 -TGAATGAGTGAGGAATGA
1 TTGAGGGA-TGAGGAATGA
*
109561147 TTGAGGGATGAGGGATGA
1 TTGAGGGATGAGGAATGA
109561165 TT
1 TT
109561167 AGAAAAGTGA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
18 22 0.73
19 8 0.27
ACGTcount: A:0.33, C:0.00, G:0.44, T:0.23
Consensus pattern (18 bp):
TTGAGGGATGAGGAATGA
Found at i:109569786 original size:17 final size:18
Alignment explanation
Indices: 109569754--109569787 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
109569744 TTTGAGTAAT
109569754 TAAGAATATCTTTAAAAC
1 TAAGAATATCTTTAAAAC
*
109569772 TAAGGATAT-TTTAAAA
1 TAAGAATATCTTTAAAA
109569788 GACATTAGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (18 bp):
TAAGAATATCTTTAAAAC
Found at i:109574653 original size:11 final size:11
Alignment explanation
Indices: 109574624--109574693 Score: 62
Period size: 9 Copynumber: 6.9 Consensus size: 11
109574614 ATTTTGATAA
*
109574624 ACATGATATGT
1 ACATGATATGC
109574635 AC--GATATGC
1 ACATGATATGC
109574644 ACATGATATG-
1 ACATGATATGC
*
109574654 -TATGATATGC
1 ACATGATATGC
*
109574664 ACATGACATG-
1 ACATGATATGC
*
109574674 -TATGATATGC
1 ACATGATATGC
109574684 ACATGATATG
1 ACATGATATG
109574694 TAAGATATAC
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
9 23 0.50
11 23 0.50
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ACATGATATGC
Found at i:109574714 original size:20 final size:20
Alignment explanation
Indices: 109574624--109574706 Score: 130
Period size: 20 Copynumber: 4.2 Consensus size: 20
109574614 ATTTTGATAA
*
109574624 ACATGATATGTACGATATGC
1 ACATGATATGTATGATATGC
109574644 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
109574664 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
109574684 ACATGATATGTAAGATATAC
1 ACATGATATGTATGATATGC
109574704 ACA
1 ACA
109574707 CGAGATGTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:109574849 original size:24 final size:24
Alignment explanation
Indices: 109574760--109574877 Score: 163
Period size: 23 Copynumber: 5.0 Consensus size: 24
109574750 GAGGAAGTGC
*
109574760 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
109574784 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
109574807 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
109574830 GAAAAGGGCTT-TGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
*
109574854 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
109574878 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 2, Indels: 9
0.89 0.02 0.09
Matches are distributed among these distances:
23 51 0.59
24 19 0.22
25 17 0.20
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:109577109 original size:28 final size:28
Alignment explanation
Indices: 109577042--109577113 Score: 94
Period size: 28 Copynumber: 2.5 Consensus size: 28
109577032 ATAGTGAATC
*
109577042 CGCACACTTAGTGCTATCTATATTCAGCT
1 CGCACACTTAGTGCTA-CTATATTCAACT
109577071 CGCACACTTAGTGCTA-TATGA-TCAAACT
1 CGCACACTTAGTGCTACTAT-ATTC-AACT
109577099 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
109577114 GTACAATTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 5 0.12
28 19 0.47
29 16 0.40
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTACTATATTCAACT
Found at i:109585106 original size:27 final size:28
Alignment explanation
Indices: 109585049--109585119 Score: 101
Period size: 27 Copynumber: 2.5 Consensus size: 28
109585039 ATAGTGAATC
*
109585049 CGCACACTTAGTGCTATCTATATTCAGCT
1 CGCACACTTAGTGCTA-CTATATTCAACT
109585078 CGCACACTTAGTGCTA-TATA-TCAAACT
1 CGCACACTTAGTGCTACTATATTC-AACT
109585105 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
109585120 GTACAATTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
26 2 0.05
27 22 0.55
29 16 0.40
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTACTATATTCAACT
Found at i:109586529 original size:16 final size:17
Alignment explanation
Indices: 109586505--109586537 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
109586495 ACACACATTA
*
109586505 TTTCTTTTCTTT-TTTT
1 TTTCATTTCTTTATTTT
109586521 TTTCATTTCTTTATTTT
1 TTTCATTTCTTTATTTT
109586538 CCTTCCATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTCATTTCTTTATTTT
Found at i:109587770 original size:47 final size:47
Alignment explanation
Indices: 109587718--109587838 Score: 206
Period size: 47 Copynumber: 2.6 Consensus size: 47
109587708 ATGCCTTGGG
* * * *
109587718 ATGGTCTTACATGATATCCTTATCTTACCAAATGCCTTGTTCCAAAT
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
109587765 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
109587812 ATGGTCTTACATGGTATCCTTGTCTTA
1 ATGGTCTTACATGGTATCCTTGTCTTA
109587839 TTGCCAATGC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (47 bp):
ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
Found at i:109593285 original size:20 final size:20
Alignment explanation
Indices: 109593243--109593285 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
109593233 AGATTTATGG
**
109593243 TATGATATGATAAGTATTGT
1 TATGATATGATAAACATTGT
* *
109593263 TATGATTTGATAAACATTTT
1 TATGATATGATAAACATTGT
109593283 TAT
1 TAT
109593286 AATCTCATGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (20 bp):
TATGATATGATAAACATTGT
Found at i:109595600 original size:28 final size:28
Alignment explanation
Indices: 109595531--109595631 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
109595521 GACAAGATTG
* * * *
109595531 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
109595561 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
109595589 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
109595618 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
109595632 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:109603475 original size:30 final size:28
Alignment explanation
Indices: 109603439--109603539 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
109603429 GACAAGATTG
* *
109603439 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
* *
109603469 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* * *
109603497 GCACTAAGTGTGCGAGTTGAATACATAGA
1 GCACTAAGTGTGCGAGTTTAAT-TATACA
109603526 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
109603540 GATTCACTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 26 0.42
29 18 0.29
30 18 0.29
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:109605735 original size:54 final size:54
Alignment explanation
Indices: 109605672--109605781 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
109605662 TAGACTTAGT
*
109605672 TCACAAATTAAAATGCTAACAATTCTAAAAGCAATATGGATATATGTACAATCA
1 TCACAAATTAAAATGCTAACAATTCTAAAAGCAATATGGATATATATACAATCA
109605726 TCACAAATTAAAATGCTAACAATTCTAAAAGCAATATGGATATATATACAATCA
1 TCACAAATTAAAATGCTAACAATTCTAAAAGCAATATGGATATATATACAATCA
109605780 TC
1 TC
109605782 TTATCCATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.48, C:0.15, G:0.08, T:0.28
Consensus pattern (54 bp):
TCACAAATTAAAATGCTAACAATTCTAAAAGCAATATGGATATATATACAATCA
Found at i:109607101 original size:25 final size:26
Alignment explanation
Indices: 109607034--109607105 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
109607024 TCCCATTCAT
*
109607034 ATTTTACCCCTAGCAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
* *
109607060 ATTTTACCCCTGGTAAACTTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
*
109607086 ATTTT-TCCCTAGTAAAATTT
1 ATTTTACCCCTAGTAAAATTT
109607106 CGAGAAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
25 12 0.30
26 28 0.70
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACG
Found at i:109607271 original size:6 final size:6
Alignment explanation
Indices: 109607255--109607288 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
109607245 CAAATGAATT
* *
109607255 ATTTTC ATTTCC TTTTCC ATTTCC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
109607289 TTAGAAACCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.15, C:0.26, G:0.00, T:0.59
Consensus pattern (6 bp):
ATTTCC
Found at i:109608268 original size:21 final size:21
Alignment explanation
Indices: 109608242--109608284 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
109608232 AATTAGAGTA
109608242 AGGACATGTTGATGTTCATCT
1 AGGACATGTTGATGTTCATCT
109608263 AGGACATGTTGATGTTCATCT
1 AGGACATGTTGATGTTCATCT
109608284 A
1 A
109608285 CTAATACAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (21 bp):
AGGACATGTTGATGTTCATCT
Found at i:109611718 original size:25 final size:25
Alignment explanation
Indices: 109611690--109611741 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
109611680 CGAAGAATAT
109611690 GTGTGAATGGATTTAGCCCGGACGG
1 GTGTGAATGGATTTAGCCCGGACGG
* *
109611715 GTGTGAATGGATTTAGCCTGGATGG
1 GTGTGAATGGATTTAGCCCGGACGG
109611740 GT
1 GT
109611742 AAACCGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.19, C:0.12, G:0.40, T:0.29
Consensus pattern (25 bp):
GTGTGAATGGATTTAGCCCGGACGG
Found at i:109618712 original size:68 final size:67
Alignment explanation
Indices: 109618640--109618789 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
109618630 CATCATGTGT
* * * *
109618640 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
109618702 ATGTAG
62 ATGTAG
** * *
109618708 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
109618773 AG
66 AG
109618775 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
109618790 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:109618745 original size:64 final size:64
Alignment explanation
Indices: 109618664--109618847 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
109618654 AGACATTATG
* *
109618664 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
109618728 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
109618793 AA
63 AA
* * * *
109618795 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
109618848 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:109622910 original size:43 final size:43
Alignment explanation
Indices: 109622848--109623006 Score: 209
Period size: 42 Copynumber: 3.7 Consensus size: 43
109622838 TACCGTACCA
* *
109622848 ATGCCATATCCTAGATATGGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATATCCTAGATATGGTCTTACACGTAAGTCTCATATCG
* * * * *
109622890 ATGCCCATAGCCAAGCTATGGTCTTACAC-AAAGTCTCATATCA
1 ATG-CCATATCCTAGATATGGTCTTACACGTAAGTCTCATATCG
109622933 ATGCCATATCCTAGATATGGTCTTACACG-AAGTCTCATA-CTG
1 ATGCCATATCCTAGATATGGTCTTACACGTAAGTCTCATATC-G
109622975 ATGCCATATCCTAGATATGGTCTTACACGTAA
1 ATGCCATATCCTAGATATGGTCTTACACGTAA
109623007 TCGTAGTAGC
Statistics
Matches: 101, Mismatches: 11, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
41 1 0.01
42 66 0.65
43 34 0.34
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (43 bp):
ATGCCATATCCTAGATATGGTCTTACACGTAAGTCTCATATCG
Found at i:109629426 original size:42 final size:42
Alignment explanation
Indices: 109629315--109629468 Score: 168
Period size: 42 Copynumber: 3.6 Consensus size: 42
109629305 TACCGTACCA
* ** *
109629315 ATGCCATATCCCAGATATGGTCTTACATTTAA-TCTCGTATCG
1 ATGCTATATCCCAGATATGGTCTTACA-CAAAGTCTCATATCG
* * * * *
109629357 ATGCCAATAGCCCAGCTTTGGTCTTACACAAAGTCTTATATCG
1 ATG-CTATATCCCAGATATGGTCTTACACAAAGTCTCATATCG
*
109629400 ATGCTATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
1 ATGCTATATCCCAGATATGGTCTTACACAAAGTCTCATATCG
*
109629442 ATG-TCATATCCGAGATATGGTCTTACA
1 ATGCT-ATATCCCAGATATGGTCTTACA
109629469 TGTAATCTCA
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
41 1 0.01
42 62 0.66
43 31 0.33
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCTATATCCCAGATATGGTCTTACACAAAGTCTCATATCG
Found at i:109631782 original size:26 final size:26
Alignment explanation
Indices: 109631752--109631821 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
109631742 TCATCCCAAA
*
109631752 TTTACCCCAATAAAATTTTTGACAAT
1 TTTACCCCAGTAAAATTTTTGACAAT
* * *
109631778 TTTACCTTCGGTAAAA-TTTTGACGAT
1 TTTACC-CCAGTAAAATTTTTGACAAT
*
109631804 TTTATCCCAGTAAAATTT
1 TTTACCCCAGTAAAATTT
109631822 CGAGAAAATT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
25 7 0.20
26 22 0.63
27 6 0.17
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (26 bp):
TTTACCCCAGTAAAATTTTTGACAAT
Found at i:109632726 original size:12 final size:13
Alignment explanation
Indices: 109632698--109632730 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
109632688 TTATTTCTTT
109632698 TTCTCCATCTACC
1 TTCTCCATCTACC
*
109632711 TTCTCC-TCTTCC
1 TTCTCCATCTACC
109632723 TTCTCCAT
1 TTCTCCAT
109632731 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:109633830 original size:28 final size:28
Alignment explanation
Indices: 109633798--109633862 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
109633788 ATTTACTAGA
*
109633798 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
109633826 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
109633854 ATACCCCTA
1 ATACCCCTA
109633863 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:109634026 original size:27 final size:28
Alignment explanation
Indices: 109633968--109634057 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
109633958 AGGAAGCGTC
*
109633968 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
109633996 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
109634023 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
109634052 CTGGTG
1 CTGGTG
109634058 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:109634068 original size:29 final size:28
Alignment explanation
Indices: 109633978--109634068 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
109633968 CTGGTGGCTA
* * *
109633978 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
109634006 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
109634033 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
109634062 TGTCACA
1 TGCCACA
109634069 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:109634076 original size:55 final size:56
Alignment explanation
Indices: 109633968--109634082 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
109633958 AGGAAGCGTC
* * *
109633968 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
109634023 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
109634079 CTGG
1 CTGG
109634083 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:109639766 original size:69 final size:68
Alignment explanation
Indices: 109639643--109639882 Score: 194
Period size: 69 Copynumber: 3.5 Consensus size: 68
109639633 CATGTGGCCT
* * * * *
109639643 AAAACAATTAGCGAAAGC-AAGACTCTCAGTTGTCATATTAAGGTTCGAAGGCGAAGAGCCGCAA
1 AAAACAATTAGCGAGAGCAAAG-CTCCCAATTGTCATATTAAGGTTCCAA-GCGAAGAGCCACAA
109639707 CCTCC
64 CCTCC
* ** ** * *
109639712 AAAACAATTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAATTTCTCAAGCGAAGAGTTATATC
1 AAAACAATTAGCGAGAGCAAAGCTCCCAATTGTCATATTAAGGTTC-CAAGCGAAGAGCCACAAC
*
109639777 CTCT
65 CTCC
* * ** * * * *
109639781 AAAACAGTTACCGAGATTAAAGCTCCCAATTGCCATATTAAGGTTCGCAGGCAAAAAGCCACAAC
1 AAAACAATTAGCGAGAGCAAAGCTCCCAATTGTCATATTAAGGTTC-CAAGCGAAGAGCCACAAC
*
109639846 CTTC
65 CTCC
* * * * *
109639850 AAAATAGTTAGCAAGAGTAAAGCTCCCAGTTGT
1 AAAACAATTAGCGAGAGCAAAGCTCCCAATTGT
109639883 GTCGCGTGTG
Statistics
Matches: 132, Mismatches: 37, Indels: 4
0.76 0.21 0.02
Matches are distributed among these distances:
69 127 0.96
70 5 0.04
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.22
Consensus pattern (68 bp):
AAAACAATTAGCGAGAGCAAAGCTCCCAATTGTCATATTAAGGTTCCAAGCGAAGAGCCACAACC
TCC
Found at i:109641540 original size:69 final size:69
Alignment explanation
Indices: 109641420--109641783 Score: 444
Period size: 69 Copynumber: 5.3 Consensus size: 69
109641410 AGAGTTATCA
* * * *
109641420 AGCTGTCATATTAAGGTTCGCAGGCAAAGAGCTGCAACCTCTAAAATAGTTAGCTAGAGCAAAGC
1 AGCTGTCATATTAAGGTTCACAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCTAGAGCAAAGC
109641485 TCCC
66 TCCC
* * *
109641489 AGCTGTCATATTAAGGTTCACGGGCGAAGAGCCACAACCTCCAAAACAGTTAG-TGAGAGCAAAG
1 AGCTGTCATATTAAGGTTCACAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCT-AGAGCAAAG
*
109641553 CTCCT
65 CTCCC
* * *
109641558 AGTTGTCATATTAAGGTTCACAGGCGAAGAGCTGCAACCTCCAAAATAGTTAG-TGAGAGAAAAG
1 AGCTGTCATATTAAGGTTCACAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCT-AGAGCAAAG
*
109641622 TTCCC
65 CTCCC
* * * * * *
109641627 AGCTGTCATATTAAGATTTACAGGCGAAGAGCCGCAAGCTTCAAAATAGTTAGCAAGAACAAAGC
1 AGCTGTCATATTAAGGTTCACAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCTAGAGCAAAGC
* *
109641692 TTCT
66 TCCC
* * * * * *
109641696 AGCTATCATATTAAGGTTCACAAGCAAAGAGCCGTAACCTCCAAAATAGTTAACGAGAGCAAAGC
1 AGCTGTCATATTAAGGTTCACAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCTAGAGCAAAGC
109641761 TCCC
66 TCCC
* *
109641765 AGCTATCATATAAAGGTTC
1 AGCTGTCATATTAAGGTTC
109641784 GTAGACGAAT
Statistics
Matches: 251, Mismatches: 42, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
68 1 0.00
69 250 1.00
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (69 bp):
AGCTGTCATATTAAGGTTCACAGGCGAAGAGCCGCAACCTCCAAAATAGTTAGCTAGAGCAAAGC
TCCC
Found at i:109644468 original size:46 final size:46
Alignment explanation
Indices: 109644418--109644557 Score: 112
Period size: 46 Copynumber: 3.2 Consensus size: 46
109644408 AAATTACCTT
109644418 TGTTTTAATTGTAGAAACCATACTATTGATAAAAGAAGGAAATAGA
1 TGTTTTAATTGTAGAAACCATACTATTGATAAAAGAAGGAAATAGA
** * * * * * * * ** ** *
109644464 TGTTTTAAAAGAAAAAAGCAAAGT-TT-CT-GAA-AATTACCT--T
1 TGTTTTAATTGTAGAAACCATACTATTGATAAAAGAAGGAAATAGA
109644504 TGTTTTAATTGTAGAAACCATACTATTGATAAAAGAAGGAAATAGA
1 TGTTTTAATTGTAGAAACCATACTATTGATAAAAGAAGGAAATAGA
109644550 TGTTTTAA
1 TGTTTTAA
109644558 AAGAAAAAAT
Statistics
Matches: 60, Mismatches: 28, Indels: 12
0.60 0.28 0.12
Matches are distributed among these distances:
40 17 0.28
41 2 0.03
42 5 0.08
43 4 0.07
44 5 0.08
45 2 0.03
46 25 0.42
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (46 bp):
TGTTTTAATTGTAGAAACCATACTATTGATAAAAGAAGGAAATAGA
Found at i:109644497 original size:86 final size:86
Alignment explanation
Indices: 109644348--109644606 Score: 473
Period size: 86 Copynumber: 3.0 Consensus size: 86
109644338 TCTTACCCTC
* *
109644348 ACCATACTATCGATAAAAGAAGGAAATAGATGTTTTAAAAGAAAAAAGCAAAGTTTCTAAAAATT
1 ACCATACTATTGATAAAAGAAGGAAATAGATGTTTTAAAAGAAAAAAGCAAAGTTTCTGAAAATT
109644413 ACCTTTGTTTTAATTGTAGAA
66 ACCTTTGTTTTAATTGTAGAA
109644434 ACCATACTATTGATAAAAGAAGGAAATAGATGTTTTAAAAGAAAAAAGCAAAGTTTCTGAAAATT
1 ACCATACTATTGATAAAAGAAGGAAATAGATGTTTTAAAAGAAAAAAGCAAAGTTTCTGAAAATT
109644499 ACCTTTGTTTTAATTGTAGAA
66 ACCTTTGTTTTAATTGTAGAA
* *
109644520 ACCATACTATTGATAAAAGAAGGAAATAGATGTTTTAAAAGAAAAAATCGAAGTTTCTGAAAATT
1 ACCATACTATTGATAAAAGAAGGAAATAGATGTTTTAAAAGAAAAAAGCAAAGTTTCTGAAAATT
*
109644585 ACCTTTATTTTAATTGTAGAA
66 ACCTTTGTTTTAATTGTAGAA
109644606 A
1 A
109644607 ACGCTGAGAA
Statistics
Matches: 168, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 168 1.00
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.31
Consensus pattern (86 bp):
ACCATACTATTGATAAAAGAAGGAAATAGATGTTTTAAAAGAAAAAAGCAAAGTTTCTGAAAATT
ACCTTTGTTTTAATTGTAGAA
Found at i:109644575 original size:21 final size:22
Alignment explanation
Indices: 109644533--109644575 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
109644523 ATACTATTGA
* *
109644533 TAAAAGAAGGAAATAGATGTTT
1 TAAAAGAAGAAAATAGAAGTTT
*
109644555 TAAAAGAA-AAAATCGAAGTTT
1 TAAAAGAAGAAAATAGAAGTTT
109644576 CTGAAAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.53, C:0.02, G:0.19, T:0.26
Consensus pattern (22 bp):
TAAAAGAAGAAAATAGAAGTTT
Found at i:109653952 original size:24 final size:24
Alignment explanation
Indices: 109653924--109653971 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
109653914 TAAGGAGTTA
109653924 AGTCTTATTTTAATTTGTCACATT
1 AGTCTTATTTTAATTTGTCACATT
109653948 AGTCTTATTTTAATTTGTCACATT
1 AGTCTTATTTTAATTTGTCACATT
109653972 TGTACGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.08, T:0.54
Consensus pattern (24 bp):
AGTCTTATTTTAATTTGTCACATT
Found at i:109655944 original size:22 final size:21
Alignment explanation
Indices: 109655895--109655949 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
109655885 AGATGAAAAA
*
109655895 AAATGTATATAATATGGTATT
1 AAATGTATATAATATAGTATT
* *
109655916 AGTATGTGTATAATATAGTATTT
1 A-AATGTATATAATATAGTA-TT
109655939 AAATGTATATA
1 AAATGTATATA
109655950 CATAATGTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 1 0.04
22 23 0.85
23 3 0.11
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.44
Consensus pattern (21 bp):
AAATGTATATAATATAGTATT
Found at i:109656035 original size:2 final size:2
Alignment explanation
Indices: 109656028--109656060 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
109656018 TGTATGTGAA
109656028 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
109656061 ATGCTTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:109656885 original size:4 final size:4
Alignment explanation
Indices: 109656876--109656905 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
109656866 AATTTTTCTC
109656876 TTAT TTAT TTAT TTAT TTA- TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA
109656906 ATATATATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:109657344 original size:12 final size:12
Alignment explanation
Indices: 109657327--109657351 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
109657317 TTGGATTAGT
109657327 GTTTTGGGCTAA
1 GTTTTGGGCTAA
109657339 GTTTTGGGCTAA
1 GTTTTGGGCTAA
109657351 G
1 G
109657352 GGTTTTGGGT
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:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (12 bp):
GTTTTGGGCTAA
Found at i:109657372 original size:11 final size:11
Alignment explanation
Indices: 109657356--109657394 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
109657346 GCTAAGGGTT
*
109657356 TTGGGTTTGCA
1 TTGGGTTTGAA
*
109657367 TTGGGTTTTAA
1 TTGGGTTTGAA
*
109657378 TTGGGTTTTAA
1 TTGGGTTTGAA
109657389 TTGGGT
1 TTGGGT
109657395 AGTTGGGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.13, C:0.03, G:0.33, T:0.51
Consensus pattern (11 bp):
TTGGGTTTGAA
Found at i:109657991 original size:44 final size:44
Alignment explanation
Indices: 109657938--109658218 Score: 137
Period size: 44 Copynumber: 6.4 Consensus size: 44
109657928 TTTCAACCTA
109657938 TTACCCTACTGCTTAGGGGGTTAAAGCTCATCATCTTCGATCTG
1 TTACCCTACTGCTTAGGGGGTTAAAGCTCATCATCTTCGATCTG
* * * * * * *
109657982 TTTCCCTACTGCTTAGGGTGAT-AAGATCTGTAAATCTTC-AGCCTG
1 TTACCCTACTGCTTAGGGGGTTAAAGCTC-AT-CATCTTCGA-TCTG
* ** * * * *
109658027 TTACCCTACTACTTAGGGATTTAAGGTTTA-CAAT-TT-GGTCTG
1 TTACCCTACTGCTTAGGGGGTTAAAGCTCATC-ATCTTCGATCTG
* * *
109658069 TTACCCTACTGCTTA-GGGGTTTAAGACCCTTCATCTTCGATCTG
1 TTACCCTACTGCTTAGGGGGTTAAAG-CTCATCATCTTCGATCTG
* * * * * * * * *
109658113 TTTCCCTACTACTTAGGGCGAT-AAGATCTATAAACTT-TAGCTTG
1 TTACCCTACTGCTTAGGGGGTTAAAGCTC-ATCATCTTCGATC-TG
* * * *** *
109658157 TTACTCTACTACTTAGGGGGTTAAAGCTCGTTGCCTTTGATCTG
1 TTACCCTACTGCTTAGGGGGTTAAAGCTCATCATCTTCGATCTG
*
109658201 TTTCCCTACTGCTTAGGG
1 TTACCCTACTGCTTAGGG
109658219 AGACAAGATC
Statistics
Matches: 168, Mismatches: 54, Indels: 30
0.67 0.21 0.12
Matches are distributed among these distances:
41 6 0.04
42 19 0.11
43 13 0.08
44 90 0.54
45 37 0.22
46 3 0.02
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (44 bp):
TTACCCTACTGCTTAGGGGGTTAAAGCTCATCATCTTCGATCTG
Found at i:109661052 original size:41 final size:41
Alignment explanation
Indices: 109660995--109661073 Score: 158
Period size: 41 Copynumber: 1.9 Consensus size: 41
109660985 GGGCCATCCT
109660995 CCCGTTCAAAGCAGTCGACTCCATCAAGTACTTCAGAGTGG
1 CCCGTTCAAAGCAGTCGACTCCATCAAGTACTTCAGAGTGG
109661036 CCCGTTCAAAGCAGTCGACTCCATCAAGTACTTCAGAG
1 CCCGTTCAAAGCAGTCGACTCCATCAAGTACTTCAGAG
109661074 GGTCCATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (41 bp):
CCCGTTCAAAGCAGTCGACTCCATCAAGTACTTCAGAGTGG
Found at i:109668768 original size:2 final size:2
Alignment explanation
Indices: 109668761--109668795 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
109668751 TAGTTATAAA
109668761 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
109668796 AAATAGAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:109669105 original size:22 final size:21
Alignment explanation
Indices: 109669056--109669110 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
109669046 AGATGAAAAA
*
109669056 AAATGTATATAATATGGTATT
1 AAATGTATATAATATAGTATT
*
109669077 AATATGTGTATAATATAGTATTT
1 AA-ATGTATATAATATAGTA-TT
109669100 AAATGTATATA
1 AAATGTATATA
109669111 CATAATGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 23 0.79
23 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (21 bp):
AAATGTATATAATATAGTATT
Found at i:109669194 original size:2 final size:2
Alignment explanation
Indices: 109669187--109669222 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
109669177 TGTATGTGAA
109669187 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
109669223 GCTTAAAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109670132 original size:23 final size:23
Alignment explanation
Indices: 109670083--109670132 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
109670073 GTTGTTTTAT
* *
109670083 TAAAAATGGGGTAATATGTTTAT
1 TAAAAATGGGGTAATATGTTAAA
*
109670106 TAAAAATGGGGATAATCTG-TAAA
1 TAAAAATGGGG-TAATATGTTAAA
109670129 TAAA
1 TAAA
109670133 TTCGAAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.46, C:0.02, G:0.20, T:0.32
Consensus pattern (23 bp):
TAAAAATGGGGTAATATGTTAAA
Found at i:109670525 original size:12 final size:12
Alignment explanation
Indices: 109670508--109670532 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
109670498 TTGGGTTAGT
109670508 GTTTTGGGCTAA
1 GTTTTGGGCTAA
109670520 GTTTTGGGCTAA
1 GTTTTGGGCTAA
109670532 G
1 G
109670533 GGTTTTGGGT
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:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (12 bp):
GTTTTGGGCTAA
Found at i:109672704 original size:16 final size:16
Alignment explanation
Indices: 109672683--109672713 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
109672673 ATACCAACTC
*
109672683 ATTTAATATAAATAAG
1 ATTTAACATAAATAAG
109672699 ATTTAACATAAATAA
1 ATTTAACATAAATAA
109672714 CTCCTCGGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (16 bp):
ATTTAACATAAATAAG
Found at i:109676259 original size:28 final size:28
Alignment explanation
Indices: 109676219--109676310 Score: 121
Period size: 28 Copynumber: 3.3 Consensus size: 28
109676209 TCGGAAGTAG
109676219 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
**
109676247 TTGGGCCTGATGGAACATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * * * *
109676275 TTAGGCCTAATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
109676303 TTGGGCCT
1 TTGGGCCT
109676311 AAAGGGGCCA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:109676311 original size:28 final size:28
Alignment explanation
Indices: 109676219--109676327 Score: 119
Period size: 28 Copynumber: 3.9 Consensus size: 28
109676209 TCGGAAGTAG
*
109676219 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTAATGGGCCATATGAATGTGA
* **
109676247 TTGGGCCTGATGGAACATATGAATGTGA
1 TTGGGCCTAATGGGCCATATGAATGTGA
* * * *
109676275 TTAGGCCTAATGGGCCATGTGAACGAGA
1 TTGGGCCTAATGGGCCATATGAATGTGA
* *
109676303 TTGGGCCTAAAGGGGCCAAATGAAT
1 TTGGGCCT-AATGGGCCATATGAAT
109676328 AAGTGTGGAT
Statistics
Matches: 66, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
28 54 0.82
29 12 0.18
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.25
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATGTGA
Found at i:109676657 original size:27 final size:27
Alignment explanation
Indices: 109676627--109676913 Score: 317
Period size: 27 Copynumber: 10.7 Consensus size: 27
109676617 TAATGAAGAG
* *
109676627 AAATTATCAAAATACCCTCGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
109676654 AAATTACCGAAGTACCCTCGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
109676681 AAATTACCAAAATACCCTCGA-TTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
** * * *
109676707 AAATTACTGAAATACCATCAATTTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
109676734 AAATTACCAAAACACCCTTGATTTTTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
109676761 AAGTTACCGAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
109676788 AAATTACCAAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
109676815 AAATTACCAAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
** * * *
109676842 AAATTACTGAAACACCCCCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
109676869 AAATTATCAAAATACCCTTG-TAGTGTA
1 AAATTACCAAAATACCCTCGAT-TTGTA
*
109676896 AAATTACCGAAATACCCT
1 AAATTACCAAAATACCCT
109676914 TGTAGTGCAA
Statistics
Matches: 215, Mismatches: 43, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
26 22 0.10
27 193 0.90
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:109676925 original size:27 final size:27
Alignment explanation
Indices: 109676868--109676937 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
109676858 CCCGATTTAT
* * *
109676868 AAAATTATCAAAATACCCTTGTAGTGT
1 AAAATTACCGAAATACCCTTGTAGTGC
109676895 AAAATTACCGAAATACCCTTGTAGTGC
1 AAAATTACCGAAATACCCTTGTAGTGC
* *
109676922 AAAATGACCGACATAC
1 AAAATTACCGAAATAC
109676938 ACCTGCAGGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTTGTAGTGC
Found at i:109681204 original size:34 final size:34
Alignment explanation
Indices: 109681165--109681233 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
109681155 CCAGGGGTGT
* * *
109681165 TTTGGTTTGTACAATTAAATATTAAACATGAGAG
1 TTTGGTCTGTACAATCAAATATTAAACATAAGAG
*
109681199 TTTGGTCTGTACAATCAAATATTAAGCATAAGAG
1 TTTGGTCTGTACAATCAAATATTAAACATAAGAG
109681233 T
1 T
109681234 GTCAGCTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (34 bp):
TTTGGTCTGTACAATCAAATATTAAACATAAGAG
Found at i:109682600 original size:71 final size:71
Alignment explanation
Indices: 109682516--109682679 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
109682506 CGATTTGTCT
109682516 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
109682581 CTTTCA
66 CTTTCA
109682587 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
109682652 CTTTCA
66 CTTTCA
109682658 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
109682680 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:109682717 original size:71 final size:70
Alignment explanation
Indices: 109682516--109682713 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
109682506 CGATTTGTCT
* * * *
109682516 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
109682581 CTTTCA
65 CTTTCA
* * * *
109682587 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
109682652 CTTTCA
65 CTTTCA
* *
109682658 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
109682714 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:109690108 original size:66 final size:68
Alignment explanation
Indices: 109690030--109690216 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
109690020 TAGTACCACT
*
109690030 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
109690092 CACG
65 CACG
109690096 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
109690161 ATCACG
63 ATCACG
109690167 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
109690217 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:109690141 original size:71 final size:71
Alignment explanation
Indices: 109690053--109690216 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
109690043 CGATTTGTCT
109690053 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
109690118 CTTTCA
66 CTTTCA
109690124 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
109690189 CTTTCA
66 CTTTCA
109690195 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
109690217 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:109690254 original size:71 final size:70
Alignment explanation
Indices: 109690053--109690250 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
109690043 CGATTTGTCT
* * * *
109690053 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
109690118 CTTTCA
65 CTTTCA
* * * *
109690124 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
109690189 CTTTCA
65 CTTTCA
* *
109690195 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
109690251 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:109693469 original size:47 final size:47
Alignment explanation
Indices: 109693304--109693665 Score: 240
Period size: 47 Copynumber: 7.7 Consensus size: 47
109693294 GGGTTATATT
* *
109693304 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTAT-ATAC-G-CG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGG-GC-TATCAT-CTGTAG
* *
109693353 TGCTGATGCATGTCCCAGACATGTCTTACACT-AGC-A-CAACTCT-TA-
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGGCTATC-A-TCTGTAG
*
109693398 GTCGATGCATGTCCCAGACATGTCTTACA-TGGGCTATC-TCTGTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGGCTATCATCTGT--AG
* *
109693445 GCCGATGCATGTCCCAGACATGTCTTACACT-AGC-ACTCATCTCT-G
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGGCTA-TCATCTGTAG
*
109693490 TGCCGATGCCATGTCCCAGACATGGTCTTACACT-GGCTATCAT-AGTATG
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGGCTATCATCTGTA-G
* ** ** * * *
109693539 GCTGATGCATGTCCCAGACATGTCTTACAC-AAGCCCTCGTCTGGAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGGCTATCATCTGTAG
* **
109693585 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GGCTCTCATAAGGT-G
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGGCTATCAT-CTGTAG
*
109693633 GCCAAAT-CATGTCCCAGACATGTCTTACACTGG
1 GCC-GATGCATGTCCCAGACATGTCTTACACTGG
109693666 CGCACAAATC
Statistics
Matches: 253, Mismatches: 30, Indels: 61
0.74 0.09 0.18
Matches are distributed among these distances:
43 4 0.02
44 31 0.12
45 4 0.02
46 42 0.17
47 92 0.36
48 55 0.22
49 19 0.08
50 6 0.02
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGGCTATCATCTGTAG
Found at i:109693553 original size:141 final size:140
Alignment explanation
Indices: 109693304--109693663 Score: 400
Period size: 141 Copynumber: 2.6 Consensus size: 140
109693294 GGGTTATATT
* *
109693304 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATATACGCGTGCTGATGCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGCCGATGCATGTCCC
* *** *
109693369 AGACATGTCTTACACTAGCACAACTCTTAGTCGATGCATGTCCCAGACATGTCTTACATGGGCTA
66 AGACATGTCTTACACTAGCACAACTCATAGTCGATGCATGTCCCAGACATGTCTTACACAAGCCA
109693434 TC-TCTGTCGAG
131 TCGTCTG--GAG
* * * *
109693445 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCATCT-C-TGTGCCGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGCCGATG-CATGTCC
* * *
109693506 CAGACATGGTCTTACACTGGCTATCATAGT-AT-GGCTGATGCATGTCCCAGACATGTCTTACAC
65 CAGACAT-GTCTTACACTAGC-A-CA-ACTCATAGTC-GATGCATGTCCCAGACATGTCTTACAC
* *
109693569 AAGCCCTCGTCTGGAT
125 AAGCCATCGTCTGGAG
*
109693585 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-A-G-GTGGCCAAAT-CATGTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGT-GCC-GATGCATGTC
109693646 CCAGACATGTCTTACACT
64 CCAGACATGTCTTACACT
109693664 GGCGCACAAA
Statistics
Matches: 186, Mismatches: 20, Indels: 27
0.80 0.09 0.12
Matches are distributed among these distances:
137 8 0.04
138 15 0.08
139 29 0.16
140 36 0.19
141 70 0.38
142 26 0.14
143 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (140 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGCCGATGCATGTCCC
AGACATGTCTTACACTAGCACAACTCATAGTCGATGCATGTCCCAGACATGTCTTACACAAGCCA
TCGTCTGGAG
Found at i:109693559 original size:94 final size:95
Alignment explanation
Indices: 109693303--109693663 Score: 406
Period size: 94 Copynumber: 3.9 Consensus size: 95
109693293 TGGGTTATAT
* * **
109693303 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATATACGCGT-GCTGATGCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATA-A-GTATGGCTGATGCATGTC
*
109693367 CCAGACATGTCTTACACTAGCA--CAACTCT-
64 CCAGACATGTCTTACACTAGCACTCATCTCTG
* ** *
109693396 TAGTCGATG-CATGTCCCAGACAT-GTCTTACA-TGGGCTATC-TCTGTCGA-GGCCGATGCATG
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT-GGCTATCATAAGT--ATGGCTGATGCATG
109693456 TCCCAGACATGTCTTACACTAGCACTCATCTCTG
62 TCCCAGACATGTCTTACACTAGCACTCATCTCTG
109693490 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGTATGGCTGATGCATGTCCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAAGTATGGCTGATGCATGTCCC
* * * *
109693554 AGACATGTCTTACACAAGCCCTCGTCT-GG
66 AGACATGTCTTACACTAGCACTCATCTCTG
* * **
109693583 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAG-GTGGCCAAAT-CATGTC
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAAGTATGG-CTGATGCATGTC
109693646 CCAGACATGTCTTACACT
64 CCAGACATGTCTTACACT
109693664 GGCGCACAAA
Statistics
Matches: 231, Mismatches: 21, Indels: 31
0.82 0.07 0.11
Matches are distributed among these distances:
89 1 0.00
91 36 0.16
92 13 0.06
93 29 0.13
94 128 0.55
95 22 0.10
96 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (95 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAAGTATGGCTGATGCATGTCCC
AGACATGTCTTACACTAGCACTCATCTCTG
Found at i:109701973 original size:26 final size:26
Alignment explanation
Indices: 109701932--109701992 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
109701922 TGAATATCAA
* * *
109701932 GCCTTGAGTCGGTGTTTATTTAGCAT
1 GCCTTGAGCCGCTGTTTATTTAGCAG
109701958 GCCTTGAGCCGCTGTTTATTTAGCAG
1 GCCTTGAGCCGCTGTTTATTTAGCAG
*
109701984 GCTTTGAGC
1 GCCTTGAGC
109701993 TGATGATGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.15, C:0.20, G:0.28, T:0.38
Consensus pattern (26 bp):
GCCTTGAGCCGCTGTTTATTTAGCAG
Found at i:109709968 original size:19 final size:19
Alignment explanation
Indices: 109709944--109709984 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
109709934 ACAACTCTAT
109709944 AACATTATCAACCGAATTA
1 AACATTATCAACCGAATTA
109709963 AACATTATCAACCGAATTA
1 AACATTATCAACCGAATTA
109709982 AAC
1 AAC
109709985 CAAGACAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.49, C:0.22, G:0.05, T:0.24
Consensus pattern (19 bp):
AACATTATCAACCGAATTA
Found at i:109709993 original size:19 final size:19
Alignment explanation
Indices: 109709950--109709993 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
109709940 CTATAACATT
**
109709950 ATCAACCGAATTAAACATT
1 ATCAACCGAATTAAACAAG
109709969 ATCAACCGAATTAAACCAAG
1 ATCAACCGAATTAAA-CAAG
109709989 A-CAAC
1 ATCAAC
109709994 TTACAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.50, C:0.25, G:0.07, T:0.18
Consensus pattern (19 bp):
ATCAACCGAATTAAACAAG
Found at i:109711397 original size:31 final size:31
Alignment explanation
Indices: 109711359--109711421 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
109711349 AATCTATTGC
109711359 ATGTCAACCTCATCTCATTGGTTAATTACAT
1 ATGTCAACCTCATCTCATTGGTTAATTACAT
109711390 ATGTCAACCTCATCTCATTGGTTAATTACAT
1 ATGTCAACCTCATCTCATTGGTTAATTACAT
109711421 A
1 A
109711422 CTCAACTATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (31 bp):
ATGTCAACCTCATCTCATTGGTTAATTACAT
Found at i:109719972 original size:13 final size:13
Alignment explanation
Indices: 109719954--109719978 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109719944 AGCATGAACC
109719954 ACGGCCGTGTGAT
1 ACGGCCGTGTGAT
109719967 ACGGCCGTGTGA
1 ACGGCCGTGTGA
109719979 AAACAGGGCA
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:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACGGCCGTGTGAT
Found at i:109726640 original size:29 final size:29
Alignment explanation
Indices: 109726583--109726640 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
109726573 CCAAAAAGAA
*
109726583 CAAAATAAAAATAAAAATAAAAATCAATG
1 CAAAATAAAAATAAAAATAAAAATAAATG
* * * *
109726612 CAAAATGATAATACAAATAAATATAAATG
1 CAAAATAAAAATAAAAATAAAAATAAATG
109726641 GTCATATATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.67, C:0.07, G:0.05, T:0.21
Consensus pattern (29 bp):
CAAAATAAAAATAAAAATAAAAATAAATG
Found at i:109727574 original size:13 final size:13
Alignment explanation
Indices: 109727553--109727587 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
109727543 CGTTTGCCAT
*
109727553 ATACAGCCTACTC
1 ATACGGCCTACTC
109727566 ATACGGCCTACTC
1 ATACGGCCTACTC
109727579 ATACGGCCT
1 ATACGGCCT
109727588 TGTGTCTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.26, C:0.37, G:0.14, T:0.23
Consensus pattern (13 bp):
ATACGGCCTACTC
Found at i:109737705 original size:40 final size:40
Alignment explanation
Indices: 109737622--109737775 Score: 143
Period size: 40 Copynumber: 3.9 Consensus size: 40
109737612 AAATTGAATG
* * * **
109737622 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA--AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGCT
* * *
109737662 ATATTCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGCT
* *
109737702 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAGCT
* * *
109737742 AAATCCAGGCTAAGACCCGAAGGCATTTGTGCAA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAA
109737776 ATCGTGATAT
Statistics
Matches: 94, Mismatches: 16, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
38 1 0.01
39 3 0.03
40 88 0.94
41 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGCT
Found at i:109745179 original size:40 final size:40
Alignment explanation
Indices: 109745077--109745260 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
109745067 AAATTGAATG
* * * * *
109745077 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
109745117 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
109745157 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
109745197 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
109745237 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
109745261 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:109754817 original size:39 final size:39
Alignment explanation
Indices: 109754768--109754963 Score: 268
Period size: 39 Copynumber: 5.0 Consensus size: 39
109754758 GATGTGTATG
*
109754768 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCA
* * *
109754807 AATGTTCGAATTATGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCA
*
109754846 ATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGC-
1 AATGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCA
* *
109754884 AATGGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCA
1 AAT-GTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCA
* ** *
109754924 ATTGTGTTAGTTGTGATATCCGGGTTAAGTCCCGAAGGCA
1 AATGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCA
109754964 TTTGTGCGGG
Statistics
Matches: 139, Mismatches: 15, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
38 2 0.01
39 125 0.90
40 12 0.09
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (39 bp):
AATGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCA
Found at i:109754861 original size:78 final size:79
Alignment explanation
Indices: 109754770--109754963 Score: 302
Period size: 78 Copynumber: 2.5 Consensus size: 79
109754760 TGTGTATGAA
* * *
109754770 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAAT-GTTCGAATTATGATATCCGGGCTA
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAATGGTGCGAACTATGATATCCGGGCTA
109754834 AGCCCGAAGGCAAT
66 AGCCCGAAGGCAAT
*
109754848 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGC-AATGGTGCGAGCTATGATATCCGGGCTA
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAATGGTGCGAACTATGATATCCGGGCTA
109754912 AGCCCGAAGGCAAT
66 AGCCCGAAGGCAAT
** *
109754926 TGTGTTAGTTGTGATATCCGGGTTAAGTCCCGAAGGCA
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCA
109754964 TTTGTGCGGG
Statistics
Matches: 106, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
77 3 0.03
78 94 0.89
79 9 0.08
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (79 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAATGGTGCGAACTATGATATCCGGGCTA
AGCCCGAAGGCAAT
Found at i:109757473 original size:27 final size:26
Alignment explanation
Indices: 109757425--109757484 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
109757415 GCGAGGCTGC
*
109757425 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
109757452 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
109757478 GAGATAT
1 CAGATAT
109757485 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:109770783 original size:29 final size:29
Alignment explanation
Indices: 109770745--109770847 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
109770735 GTGATGAGAT
* *
109770745 TGGCACTAAGTGTGCAAGCTTGAAAT-GTA
1 TGGCACTAAGTGTGCGAGCTT-AAATCATA
*
109770774 TGGCACTAAGTGTGCGAGTTTAAATCATA
1 TGGCACTAAGTGTGCGAGCTTAAATCATA
*
109770803 TGGCACTAAGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAATCATA
109770832 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
109770848 TGATCAATTA
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
28 4 0.06
29 64 0.94
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTAAATCATA
Found at i:109778807 original size:29 final size:29
Alignment explanation
Indices: 109778769--109778871 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
109778759 GTGATGAGAT
* *
109778769 TGGCACTAAGTGTGCAAGCTTGAAAT-GTA
1 TGGCACTAAGTGTGCGAGCTT-AAATCATA
*
109778798 TGGCACTAAGTGTGCGAGTTTAAATCATA
1 TGGCACTAAGTGTGCGAGCTTAAATCATA
*
109778827 TGGCACTAAGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAATCATA
109778856 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
109778872 TGATCAATTA
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
28 4 0.06
29 64 0.94
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTAAATCATA
Found at i:109781741 original size:8 final size:8
Alignment explanation
Indices: 109781728--109781756 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
109781718 GATAATAGAA
109781728 GAATTGAT
1 GAATTGAT
109781736 GAATTGAT
1 GAATTGAT
109781744 GAATTGAT
1 GAATTGAT
109781752 GAATT
1 GAATT
109781757 TGAAATCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (8 bp):
GAATTGAT
Found at i:109785892 original size:29 final size:29
Alignment explanation
Indices: 109785864--109785966 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
109785854 CCTCCGAGCT
** * * *
109785864 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
109785893 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
109785922 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
109785951 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
109785967 ATCTCGTCAC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:109793894 original size:29 final size:29
Alignment explanation
Indices: 109793866--109793968 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
109793856 CCTCCGAGCT
** * * *
109793866 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
109793895 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
109793924 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
109793953 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
109793969 ATCTCGTCAG
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:109804712 original size:40 final size:40
Alignment explanation
Indices: 109804657--109804868 Score: 336
Period size: 40 Copynumber: 5.3 Consensus size: 40
109804647 CATTTGAATG
109804657 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
109804697 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
109804737 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* *
109804777 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * ** *
109804817 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
109804857 ATATCC-GGCTAA
1 ATATCCGGGCTAA
109804869 ATTCCGAAGA
Statistics
Matches: 158, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 5 0.03
40 153 0.97
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:109807870 original size:40 final size:40
Alignment explanation
Indices: 109807808--109808025 Score: 282
Period size: 40 Copynumber: 5.5 Consensus size: 40
109807798 AAACCAAGTA
* * *
109807808 CCTTCGGGATTTA-ACCGGATATAGTTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTCGCACAAATG
*
109807847 CCTTCGGGACTTAGCCCGGATATAG-TAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTA-CTCGCACAAATG
* *
109807887 CCTTCGAGACTTAGCTCGGATATAG-TACCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTA-CTCGCACAAATG
* *
109807927 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTCGCACAAATG
* *
109807967 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTTACTCGCACAAATG
*
109808007 CCTTCGCGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
109808026 TTATCATCCG
Statistics
Matches: 159, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 15 0.09
40 143 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTTACTCGCACAAATG
Found at i:109810787 original size:25 final size:25
Alignment explanation
Indices: 109810758--109810805 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
109810748 TTATACCATG
* * *
109810758 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
109810783 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
109810806 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:109810877 original size:20 final size:20
Alignment explanation
Indices: 109810849--109810907 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
109810839 TAAATATGGT
*
109810849 ATGTTTGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
109810869 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
109810889 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
109810908 GGTAATCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:109810889 original size:11 final size:11
Alignment explanation
Indices: 109810854--109810907 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
109810844 ATGGTATGTT
109810854 TGATATGCACA
1 TGATATGCACA
* *
109810865 TGAAATG--TA
1 TGATATGCACA
109810874 TGATATGCACA
1 TGATATGCACA
*
109810885 TGATATG--TA
1 TGATATGCACA
109810894 TGATATGCACA
1 TGATATGCACA
109810905 TGA
1 TGA
109810908 GGTAATCATA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
TGATATGCACA
Found at i:109810985 original size:24 final size:24
Alignment explanation
Indices: 109810958--109811076 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
109810948 GAGGAAGTGA
*
109810958 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
109810982 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
109811005 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
109811029 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
109811053 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
109811077 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:109811027 original size:47 final size:48
Alignment explanation
Indices: 109810958--109811076 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
109810948 GAGGAAGTGA
109810958 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
109811005 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
109811053 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
109811077 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:109811303 original size:31 final size:31
Alignment explanation
Indices: 109811268--109811331 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
109811258 CGTTTACAGT
109811268 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
109811299 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
109811330 AA
1 AA
109811332 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:109818883 original size:25 final size:25
Alignment explanation
Indices: 109818854--109818901 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
109818844 TTATACCATG
* * *
109818854 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
109818879 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
109818902 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:109818970 original size:20 final size:20
Alignment explanation
Indices: 109818945--109819003 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
109818935 TAAATATGGT
109818945 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
109818965 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
109818985 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
109819004 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:109818985 original size:11 final size:11
Alignment explanation
Indices: 109818949--109819003 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
109818939 TATGGTATGT
109818949 ATGATATGCAC
1 ATGATATGCAC
* *
109818960 ATGAAATG--T
1 ATGATATGCAC
109818969 ATGATATGCAC
1 ATGATATGCAC
*
109818980 ATGATATG--T
1 ATGATATGCAC
109818989 ATGATATGCAC
1 ATGATATGCAC
109819000 ATGA
1 ATGA
109819004 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:109819108 original size:23 final size:23
Alignment explanation
Indices: 109819054--109819196 Score: 207
Period size: 24 Copynumber: 6.0 Consensus size: 23
109819044 GAGGAAGTGA
109819054 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
109819077 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
109819101 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
109819124 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
* *
109819148 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
109819172 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
109819196 A
1 A
109819197 TGATAAAGCA
Statistics
Matches: 111, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
23 45 0.41
24 56 0.50
25 10 0.09
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:109819123 original size:47 final size:46
Alignment explanation
Indices: 109819054--109819196 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 46
109819044 GAGGAAGTGA
109819054 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTAT
109819101 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTA-T
* * *
109819148 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
109819196 A
1 A
109819197 TGATAAAGCA
Statistics
Matches: 88, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
46 22 0.25
47 44 0.50
48 12 0.14
49 10 0.11
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
Found at i:109819421 original size:31 final size:31
Alignment explanation
Indices: 109819386--109819449 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
109819376 CGTTTACAGT
109819386 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
109819417 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
109819448 AA
1 AA
109819450 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:109826985 original size:40 final size:40
Alignment explanation
Indices: 109826923--109827099 Score: 245
Period size: 40 Copynumber: 4.5 Consensus size: 40
109826913 AAACCAAGTA
* * *
109826923 CCTTCGGGATTTA-ACCGGATATAGTTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTCGCACAAATG
*
109826962 CCTTCGGGACTTAGCCCGGATATAG-TAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTA-CTCGCACAAATG
*
109827002 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTTACTCGCACAAATG
* *
109827042 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTTACTCGCACAAATG
109827082 CCTTC-GGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
109827100 TTATCATCCG
Statistics
Matches: 126, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
39 28 0.22
40 97 0.77
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTTACTCGCACAAATG
Found at i:109831067 original size:40 final size:40
Alignment explanation
Indices: 109831009--109831211 Score: 257
Period size: 40 Copynumber: 5.1 Consensus size: 40
109830999 TGAATGATAC
* * *
109831009 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* * *
109831049 CCGGGATAAGACCGGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
109831089 CTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
109831129 CCGGGCTAAAACCCGAAGGCATTTGTGCGAGTTGCTATA-
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
109831168 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
109831208 CCGG
1 CCGG
109831212 TTAAATTCCG
Statistics
Matches: 141, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
39 32 0.23
40 107 0.76
41 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:109835196 original size:21 final size:21
Alignment explanation
Indices: 109835170--109835231 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
109835160 CCCAACCCAT
* * *
109835170 GCATATAATGTGTATATTATA
1 GCATATCATGTGCATATCATA
109835191 GCATATCATGTGCATATCATA
1 GCATATCATGTGCATATCATA
*
109835212 ACATATCATGTGCATATCAT
1 GCATATCATGTGCATATCAT
109835232 GTCCTATCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (21 bp):
GCATATCATGTGCATATCATA
Found at i:109835239 original size:10 final size:11
Alignment explanation
Indices: 109835169--109835243 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
109835159 ACCCAACCCA
*
109835169 TGCATATAATG
1 TGCATATCATG
* *
109835180 TGTATATTAT-
1 TGCATATCATG
*
109835190 AGCATATCATG
1 TGCATATCATG
109835201 TGCATATCAT-
1 TGCATATCATG
**
109835211 AACATATCATG
1 TGCATATCATG
109835222 TGCATATCATG
1 TGCATATCATG
*
109835233 T-CCTATCATG
1 TGCATATCATG
109835243 T
1 T
109835244 ATAACAATAT
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
10 24 0.47
11 27 0.53
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (11 bp):
TGCATATCATG
Found at i:109835514 original size:21 final size:21
Alignment explanation
Indices: 109835485--109835525 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
109835475 GTACAGGGGT
*
109835485 ATTTTAGTAACTCTACCCTAC
1 ATTTCAGTAACTCTACCCTAC
*
109835506 ATTTCAGTAATTCTACCCTA
1 ATTTCAGTAACTCTACCCTA
109835526 TAGGGGGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.27, G:0.05, T:0.39
Consensus pattern (21 bp):
ATTTCAGTAACTCTACCCTAC
Found at i:109835544 original size:27 final size:27
Alignment explanation
Indices: 109835356--109835536 Score: 176
Period size: 27 Copynumber: 6.9 Consensus size: 27
109835346 GGGCAAAATG
* * * * * *
109835356 GTAATTTTACCCCACAAGGTTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
109835383 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
109835410 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
109835437 GTAATTCTACCCTGCAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
** *
109835464 GTAATTCTACTGTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
109835491 GTAACTCTACCCTAC------ATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
109835512 GTAATTCTACCCTATAGGGGGATTT
1 GTAATTCTACCCTACAGGGGTATTT
109835537 TGGTAATTTT
Statistics
Matches: 125, Mismatches: 23, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
21 18 0.14
27 107 0.86
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:109835556 original size:27 final size:27
Alignment explanation
Indices: 109835526--109835978 Score: 491
Period size: 27 Copynumber: 16.8 Consensus size: 27
109835516 TTCTACCCTA
*
109835526 TAGGGGGATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
*
109835553 TAGGGGTATTTTGGTAATTTTATAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * *
109835580 CAAGGGTATTTTGGTAATTTTACAAGGC
1 TAGGGGTATTTTGGTAATTTTACAA-AC
* ** * *
109835608 GA-GGGTATTTCAGTAATTTCACAAAT
1 TAGGGGTATTTTGGTAATTTTACAAAC
109835634 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* *
109835661 AAGGGGTATTTTGGTAATTTCACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* *
109835688 CAGAGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * *
109835715 CAGGTGTATTTTAGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * * *
109835742 CAGGGGTATTTTAGTAATTTTA-TAAG
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * * *
109835768 TGGAGGGTATTTTAGTAATTTCACAAAT
1 TAG-GGGTATTTTGGTAATTTTACAAAC
* *
109835796 TAGGGGTATTTTGATAATTTCACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* *
109835823 TAGGGGTATTTTTGTAATTTTAC-AAG
1 TAGGGGTATTTTGGTAATTTTACAAAC
* ** *
109835849 TCGAGGGTATTTCAGTAATTTCACAAA-
1 TAG-GGGTATTTTGGTAATTTTACAAAC
* * *
109835876 TCAGGGGTATTTTAGTAATTTCACAAAT
1 T-AGGGGTATTTTGGTAATTTTACAAAC
*
109835904 TAGGGGTATTTTGGTAATTTCACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
109835931 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* *
109835958 CAGGGGTATTTTAGTAATTTT
1 TAGGGGTATTTTGGTAATTTT
109835979 GCTAATCGAG
Statistics
Matches: 366, Mismatches: 52, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.02
27 348 0.95
28 10 0.03
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:109841679 original size:39 final size:39
Alignment explanation
Indices: 109841614--109841846 Score: 339
Period size: 39 Copynumber: 6.0 Consensus size: 39
109841604 AATGTTCGGA
* * * *
109841614 TGATAACCGGGCTAAGTCCCGAAGGCATTTGTTCTAG-TG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTG
*
109841653 ACT-AAATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 --TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
109841693 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGC--GTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
109841730 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
109841769 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
* *
109841808 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTT
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTT
109841847 ACTATAATCG
Statistics
Matches: 179, Mismatches: 8, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
37 37 0.21
38 1 0.01
39 105 0.59
40 35 0.20
41 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
Found at i:109841748 original size:76 final size:76
Alignment explanation
Indices: 109841614--109841846 Score: 342
Period size: 76 Copynumber: 3.0 Consensus size: 76
109841604 AATGTTCGGA
* * * *
109841614 TGATAACCGGGCTAAGTCCCGAAGGCATTTGTTC-TAGTGACTAAATCCGGGCTAAGCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGTTGTGA-T--ATCCGGGCTAAGCCCGAAGG
109841678 CAATTGTGCGAGTTG
62 CAATTGTGCGAGTTG
109841693 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
109841758 TGTGCGAGTTG
66 TGTGCGAGTTG
*
109841769 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGC--GTTGTGATATCCGGGCTAAG-CCCGAAGGC
*
109841834 ATTTGTGCGAGTT
63 AATTGTGCGAGTT
109841847 ACTATAATCG
Statistics
Matches: 144, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
76 68 0.47
78 35 0.24
79 41 0.28
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (76 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
TGTGCGAGTTG
Found at i:109845659 original size:27 final size:27
Alignment explanation
Indices: 109845570--109845661 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
109845560 AGGGGCAAAA
* * * *
109845570 TGGTAATTTTACCCTATAAGGGTATCT
1 TGGTAATTCTACCCTACAGGGGTATTT
109845597 TGGTAATTCTACCCTAC-GGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * * *
109845623 CGATATTTCTACCATACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
109845650 TGGTAATTCTAC
1 TGGTAATTCTAC
109845662 AATTTATCCA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 20 0.38
27 33 0.62
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:109850491 original size:68 final size:66
Alignment explanation
Indices: 109850419--109850565 Score: 163
Period size: 67 Copynumber: 2.2 Consensus size: 66
109850409 CATCATGTGT
** * *
109850419 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCATGATACCAGTGAAGTACACCA
109850482 TGTAG
62 TGTAG
** * *
109850487 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCATGGTTCCAGGTGAAGTACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCATGATACCA-GTGAAGTACACCATGT
109850552 AG
65 AG
109850554 ACAAGAGAGCTA
1 ACAAGAGAGCTA
109850566 TGAGATAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 23 0.34
65 3 0.04
66 4 0.06
67 25 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCATGATACCAGTGAAGTACACCATGTA
G
Found at i:109853299 original size:41 final size:41
Alignment explanation
Indices: 109853248--109853551 Score: 441
Period size: 41 Copynumber: 7.3 Consensus size: 41
109853238 TATTCGGGCT
* *
109853248 TTATTTCCTAGCAGGCTTTGTGCCGGTGTATTTTATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
* *
109853289 TTATTGCCTAGCAGGCTTTGTGCCGGTGCATTATATAAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
109853330 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
* * *
109853371 TTATTGCCTAGCAGACTTTATATGCCGGTGTATTAAATCAGGC
1 TTATTGCCTAGCAGGC-TT-TGTGCCGGTGTATTATATCAGGC
109853414 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
* *
109853455 TTATTGCCTAGCAGACTTTATATGCCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGC-TT-TGTGCCGGTGTATTATATCAGGC
* *
109853498 TTATTACCTAGCAGGCTTTGTGCTGGTGTATTATA-CTAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATC-AGGC
109853539 TT-TATGCCTAGCA
1 TTAT-TGCCTAGCA
109853552 AATTTTATGT
Statistics
Matches: 238, Mismatches: 19, Indels: 12
0.88 0.07 0.04
Matches are distributed among these distances:
40 2 0.01
41 156 0.66
42 8 0.03
43 72 0.30
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
Found at i:109853443 original size:84 final size:84
Alignment explanation
Indices: 109853248--109853551 Score: 481
Period size: 84 Copynumber: 3.6 Consensus size: 84
109853238 TATTCGGGCT
* * * *
109853248 TTATTTCCTAGCAGGCTTTGTGCCGGTGTATTTTATCAGGCTTATTGCCTAGCAGGC-TT-TGTG
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGACTTTATATG
* *
109853311 CCGGTGCATTATATAAGGC
66 CCGGTGTATTATATCAGGC
109853330 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGACTTTATATG
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGACTTTATATG
*
109853395 CCGGTGTATTAAATCAGGC
66 CCGGTGTATTATATCAGGC
109853414 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGACTTTATATG
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGACTTTATATG
109853479 CCGGTGTATTATATCAGGC
66 CCGGTGTATTATATCAGGC
* *
109853498 TTATTACCTAGCAGGCTTTGTGCTGGTGTATTATA-CTAGGCTT-TATGCCTAGCA
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATC-AGGCTTAT-TGCCTAGCA
109853552 AATTTTATGT
Statistics
Matches: 208, Mismatches: 10, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
82 54 0.26
83 4 0.02
84 150 0.72
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (84 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGACTTTATATG
CCGGTGTATTATATCAGGC
Found at i:109853526 original size:125 final size:123
Alignment explanation
Indices: 109853248--109853551 Score: 441
Period size: 125 Copynumber: 2.4 Consensus size: 123
109853238 TATTCGGGCT
* *
109853248 TTATTTCCTAGCAGGCTTTGTGCCGGTGTATTTTATCAGGCTTATTGCCTAGCAGGCTTTGTGCC
1 TTATTACCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTGTGCC
* *
109853313 GGTGCATTATATAAGGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
66 GGTGCATTATATAAGGCTTATTGCCTAGCAGACTTTATGCCGGTGTATTATATCAGGC
* * * *
109853371 TTATTGCCTAGCAGACTTTATATGCCGGTGTATTAAATCAGGCTTATTGCCTAGCAGGCTTTGTG
1 TTATTACCTAGCAGGC-TT-TGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTGTG
* *
109853436 CCGGTGTATTATATCAGGCTTATTGCCTAGCAGACTTTATATGCCGGTGTATTATATCAGGC
64 CCGGTGCATTATATAAGGCTTATTGCCTAGCAGAC-TT-TATGCCGGTGTATTATATCAGGC
*
109853498 TTATTACCTAGCAGGCTTTGTGCTGGTGTATTATA-CTAGGCTT-TATGCCTAGCA
1 TTATTACCTAGCAGGCTTTGTGCCGGTGTATTATATC-AGGCTTAT-TGCCTAGCA
109853552 AATTTTATGT
Statistics
Matches: 161, Mismatches: 14, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
123 14 0.09
124 4 0.02
125 103 0.64
126 4 0.02
127 36 0.22
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (123 bp):
TTATTACCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTGTGCC
GGTGCATTATATAAGGCTTATTGCCTAGCAGACTTTATGCCGGTGTATTATATCAGGC
Found at i:109867677 original size:54 final size:54
Alignment explanation
Indices: 109867575--109867688 Score: 144
Period size: 54 Copynumber: 2.1 Consensus size: 54
109867565 CAAAATAGTC
* *
109867575 ATTTTACCCTACAGGGGTATTTCGGTAATTTTACACTACTAGGGTATTTC-ATTA
1 ATTTTACCCTACAAGGGTATTTCGGTAATTTTACACCACTAGGGTATTTCGA-TA
* *
109867629 ATTTTACACC-ACAAGGGTATTTTGGTAATTTTACACCA-TAAGGTTATTTCGATA
1 ATTTTAC-CCTACAAGGGTATTTCGGTAATTTTACACCACT-AGGGTATTTCGATA
109867683 ATTTTA
1 ATTTTA
109867689 AAAATTGAGG
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
53 1 0.02
54 49 0.92
55 3 0.06
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (54 bp):
ATTTTACCCTACAAGGGTATTTCGGTAATTTTACACCACTAGGGTATTTCGATA
Found at i:109867773 original size:27 final size:27
Alignment explanation
Indices: 109867589--109867780 Score: 158
Period size: 27 Copynumber: 7.1 Consensus size: 27
109867579 TACCCTACAG
* *
109867589 GGGTATTTCGGTAATTTTACACTACT-A
1 GGGTATTTCGGTAATTTTACA-AATTGA
** * **
109867616 GGGTATTTCATTAATTTTACACCA-CAA
1 GGGTATTTCGGTAATTTTACA-AATTGA
* * *
109867643 GGGTATTTTGGTAATTTTACACCA-TAA
1 GGGTATTTCGGTAATTTTACA-AATTGA
* * *
109867670 GGTTATTTCGATAATTTTAAAAATTGA
1 GGGTATTTCGGTAATTTTACAAATTGA
* * *
109867697 GGGTATTTCGATAATTTTACAAACTGG
1 GGGTATTTCGGTAATTTTACAAATTGA
** *
109867724 GGGTATTTTAGTAATTTTGCAAATTGA
1 GGGTATTTCGGTAATTTTACAAATTGA
109867751 GGGTATTTCGGTAATTTTACAAATT-A
1 GGGTATTTCGGTAATTTTACAAATTGA
109867777 GGGT
1 GGGT
109867781 CTTAACATCC
Statistics
Matches: 136, Mismatches: 27, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
26 6 0.04
27 130 0.96
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATTGA
Done.