Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 50 of 295
Found at i:14413822 original size:20 final size:20
Alignment explanation
Indices: 14413797--14413834 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14413787 CATCTGTTAC
14413797 TTTAGACTTTTACTTTTAGT
1 TTTAGACTTTTACTTTTAGT
* *
14413817 TTTAGATTTTTATTTTTA
1 TTTAGACTTTTACTTTTA
14413835 TTTATTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.66
Consensus pattern (20 bp):
TTTAGACTTTTACTTTTAGT
Found at i:14413888 original size:23 final size:23
Alignment explanation
Indices: 14413861--14413905 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
14413851 TAATTTTTAT
14413861 GGTTGGGTTGGGTAATTGGGTTG
1 GGTTGGGTTGGGTAATTGGGTTG
*
14413884 GGTTGGGTTGGGTACTTGGGTT
1 GGTTGGGTTGGGTAATTGGGTT
14413906 TATACTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.07, C:0.02, G:0.51, T:0.40
Consensus pattern (23 bp):
GGTTGGGTTGGGTAATTGGGTTG
Found at i:14414196 original size:26 final size:27
Alignment explanation
Indices: 14414167--14414218 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
14414157 TTTTACACAC
*
14414167 CTCTA-CTAAAGGGTACGTTTTCACTG
1 CTCTATCTAAAGGGCACGTTTTCACTG
**
14414193 CTCTATCTGTAGGGCACGTTTTCACT
1 CTCTATCTAAAGGGCACGTTTTCACT
14414219 TAGGTGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (27 bp):
CTCTATCTAAAGGGCACGTTTTCACTG
Found at i:14416028 original size:23 final size:23
Alignment explanation
Indices: 14416002--14416063 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
14415992 TAAACCCCAC
14416002 ATGGTGTGTAGGGATACTCAGAG
1 ATGGTGTGTAGGGATACTCAGAG
* * *
14416025 ATGGTGTGTAAGGATAGTCGGAG
1 ATGGTGTGTAGGGATACTCAGAG
* *
14416048 ATAGTATGTAGAGGAT
1 ATGGTGTGTAG-GGAT
14416064 GGTGGGTAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 28 0.88
24 4 0.12
ACGTcount: A:0.29, C:0.05, G:0.39, T:0.27
Consensus pattern (23 bp):
ATGGTGTGTAGGGATACTCAGAG
Found at i:14420283 original size:31 final size:31
Alignment explanation
Indices: 14420248--14420306 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
14420238 TATTTGGTCA
* *
14420248 AAAGTGACACCTAAATTATATTTTGTTATTC
1 AAAGTGACACATAAATTATACTTTGTTATTC
*
14420279 AAAGTGATACATAAATTATACTTTGTTA
1 AAAGTGACACATAAATTATACTTTGTTA
14420307 CCTAAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (31 bp):
AAAGTGACACATAAATTATACTTTGTTATTC
Found at i:14420842 original size:15 final size:15
Alignment explanation
Indices: 14420810--14420847 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
14420800 AAACATAGAA
*
14420810 AAGTTTTAATTTAATT
1 AAGTTTT-ATTCAATT
14420826 AAGTTTTATTCAATT
1 AAGTTTTATTCAATT
14420841 AA-TTTTA
1 AAGTTTTA
14420848 ATATAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.24
15 9 0.43
16 7 0.33
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (15 bp):
AAGTTTTATTCAATT
Found at i:14421174 original size:45 final size:45
Alignment explanation
Indices: 14421120--14421210 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
14421110 AAATTTCCAA
*
14421120 TGAATTATCTCTAAAATGGAAAATTCCTTTTGATGGATTGTTATT
1 TGAATTATCTCTAAAATGGAAAATTCCTTTTGATGGATTGATATT
* * **
14421165 TGAATTATCTCTAAAATGGGAAATTTCTTTTTTTGGATTGATATT
1 TGAATTATCTCTAAAATGGAAAATTCCTTTTGATGGATTGATATT
14421210 T
1 T
14421211 AAAAGGAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.47
Consensus pattern (45 bp):
TGAATTATCTCTAAAATGGAAAATTCCTTTTGATGGATTGATATT
Found at i:14422090 original size:16 final size:16
Alignment explanation
Indices: 14422069--14422105 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
14422059 TTTCTGTGCT
14422069 AGAGACAGAGAGAGAG
1 AGAGACAGAGAGAGAG
* *
14422085 AGAGACAGAGGGGGAG
1 AGAGACAGAGAGAGAG
14422101 AGAGA
1 AGAGA
14422106 GAGGGGTGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.49, T:0.00
Consensus pattern (16 bp):
AGAGACAGAGAGAGAG
Found at i:14427699 original size:22 final size:22
Alignment explanation
Indices: 14427657--14427700 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
14427647 TTGCTTTTCC
* *
14427657 TTGCTTTTTTTTACTTTTTTTT
1 TTGCTTTTTCTTACTTATTTTT
14427679 TTGCTATTTTCTTA-TTATTTTT
1 TTGCT-TTTTCTTACTTATTTTT
14427701 CACTATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.09, C:0.09, G:0.05, T:0.77
Consensus pattern (22 bp):
TTGCTTTTTCTTACTTATTTTT
Found at i:14433246 original size:21 final size:21
Alignment explanation
Indices: 14433220--14433259 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14433210 TTTGGGTGGA
*
14433220 TCAGCTCTTACAAGCTTCTGT
1 TCAGCTCTCACAAGCTTCTGT
*
14433241 TCAGCTCTCACGAGCTTCT
1 TCAGCTCTCACAAGCTTCT
14433260 ATTGGCGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.33, G:0.15, T:0.35
Consensus pattern (21 bp):
TCAGCTCTCACAAGCTTCTGT
Found at i:14438389 original size:26 final size:26
Alignment explanation
Indices: 14438352--14438435 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
14438342 TGATACAAAT
* *
14438352 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
14438378 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
14438404 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
14438430 TGATAA
1 TGATAA
14438436 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:14445075 original size:3 final size:3
Alignment explanation
Indices: 14445067--14445123 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
14445057 GGTGGTTGTT
14445067 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14445115 TTA TTA TTA
1 TTA TTA TTA
14445124 AAGAAGCTGC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:14450211 original size:40 final size:38
Alignment explanation
Indices: 14450088--14450227 Score: 113
Period size: 40 Copynumber: 3.6 Consensus size: 38
14450078 CCTTTGGTGG
* * *
14450088 CTTTAGCGGCGCTTTCTAAAAACGCCGCTAAAGATCGAGT
1 CTTTAGCGGCGCTTTTTAAAAACGCCGCTAATG-TAGA-T
* * * *
14450128 -ATTAGCGGCGCTGTTTTAAAAACGCCACTATATGTACAC
1 CTTTAGCGGCGCT-TTTTAAAAACGCCGCTA-ATGTAGAT
* *
14450167 CTTTAGCAGCGCTTTTTAGAAAACGCCGCTAATGCTTGAT
1 CTTTAGCGGCGCTTTTTA-AAAACGCCGCTAATG-TAGAT
* *
14450207 CTTTAGTGGCG-TTTTAAAAAA
1 CTTTAGCGGCGCTTTTTAAAAA
14450228 AACGTTGCAA
Statistics
Matches: 79, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
38 4 0.05
39 24 0.30
40 49 0.62
41 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (38 bp):
CTTTAGCGGCGCTTTTTAAAAACGCCGCTAATGTAGAT
Found at i:14450345 original size:37 final size:38
Alignment explanation
Indices: 14450290--14450387 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 38
14450280 TGGCTTTCGT
*
14450290 GGCGCTTTTTTAAGAAACGCCGCTATATG-TC-CTTTAGC
1 GGCGC-TTTTTAAAAAACGCCGCTA-ATGCTCACTTTAGC
14450328 GGCGCTTTTTAAAAAACGCCGCTAATGCTCGATCTTTAGC
1 GGCGCTTTTTAAAAAACGCCGCTAATGCTC-A-CTTTAGC
* **
14450368 GGCGTTTTTTTTAAAACGCC
1 GGCGCTTTTTAAAAAACGCC
14450388 ACAAAAATGG
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
36 3 0.06
37 20 0.38
38 5 0.10
40 24 0.46
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.34
Consensus pattern (38 bp):
GGCGCTTTTTAAAAAACGCCGCTAATGCTCACTTTAGC
Found at i:14450695 original size:14 final size:14
Alignment explanation
Indices: 14450676--14450799 Score: 72
Period size: 14 Copynumber: 8.7 Consensus size: 14
14450666 TTTTAGGGGG
*
14450676 TTAGGGTTTAAAGT
1 TTAGGGTTTAAGGT
*
14450690 TTAGGGGTTAAGGGT
1 TTAGGGTTTAA-GGT
* *
14450705 TAAGGGTTT-ATGT
1 TTAGGGTTTAAGGT
*
14450718 TTAGGGGTTAACGGT
1 TTAGGGTTTAA-GGT
* * *
14450733 TAAGGGTTTATGTT
1 TTAGGGTTTAAGGT
**
14450747 TTATTGTTTAAGGT
1 TTAGGGTTTAAGGT
*
14450761 TTAAGGG-TTAAGGG
1 TT-AGGGTTTAAGGT
** *
14450775 TTAGGGGCTAATAGT
1 TTAGGGTTTAA-GGT
14450790 TTAGGGTTTA
1 TTAGGGTTTA
14450800 GATTAATTAG
Statistics
Matches: 79, Mismatches: 25, Indels: 11
0.69 0.22 0.10
Matches are distributed among these distances:
13 13 0.16
14 36 0.46
15 30 0.38
ACGTcount: A:0.23, C:0.02, G:0.34, T:0.41
Consensus pattern (14 bp):
TTAGGGTTTAAGGT
Found at i:14450714 original size:22 final size:22
Alignment explanation
Indices: 14450653--14450705 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 22
14450643 TGGTTTAAAA
14450653 GTTAGGGTTT-AAGTTTTAGGGG
1 GTTAGGGTTTAAAG-TTTAGGGG
14450675 GTTAGGGTTTAAAGTTTA-GGG
1 GTTAGGGTTTAAAGTTTAGGGG
14450696 GTTAAGGGTT
1 GTT-AGGGTT
14450706 AAGGGTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.21
22 20 0.69
23 3 0.10
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.40
Consensus pattern (22 bp):
GTTAGGGTTTAAAGTTTAGGGG
Found at i:14450761 original size:28 final size:28
Alignment explanation
Indices: 14450674--14450747 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 28
14450664 AGTTTTAGGG
* *
14450674 GGTT-AGGGTTTAAAGTTTAGGGGTTAAG
1 GGTTAAGGGTTT-ATGTTTAGGGGTTAAC
14450702 GGTTAAGGGTTTATGTTTAGGGGTTAAC
1 GGTTAAGGGTTTATGTTTAGGGGTTAAC
14450730 GGTTAAGGGTTTATGTTT
1 GGTTAAGGGTTTATGTTT
14450748 TATTGTTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 36 0.84
29 7 0.16
ACGTcount: A:0.22, C:0.01, G:0.36, T:0.41
Consensus pattern (28 bp):
GGTTAAGGGTTTATGTTTAGGGGTTAAC
Found at i:14450800 original size:7 final size:7
Alignment explanation
Indices: 14450654--14450780 Score: 51
Period size: 7 Copynumber: 17.9 Consensus size: 7
14450644 GGTTTAAAAG
14450654 TTAGGGT
1 TTAGGGT
* *
14450661 TTAAGTT
1 TTAGGGT
*
14450668 TTAGGGGG
1 TTA-GGGT
14450676 TTAGGGT
1 TTAGGGT
**
14450683 TTAAAGT
1 TTAGGGT
14450690 TTAGGGGT
1 TTA-GGGT
*
14450698 TAAGGGT
1 TTAGGGT
*
14450705 TAAGGGT
1 TTAGGGT
*
14450712 TTA-TGT
1 TTAGGGT
14450718 TTAGGGGT
1 TTA-GGGT
* *
14450726 TAACGGT
1 TTAGGGT
*
14450733 TAAGGGT
1 TTAGGGT
* *
14450740 TTATGTT
1 TTAGGGT
**
14450747 TTATTGT
1 TTAGGGT
*
14450754 TTAAGGT
1 TTAGGGT
14450761 TTAAGGGT
1 TT-AGGGT
*
14450769 TAAGGG-
1 TTAGGGT
14450775 TTAGGG
1 TTAGGG
14450781 GCTAATAGTT
Statistics
Matches: 88, Mismatches: 27, Indels: 11
0.70 0.21 0.09
Matches are distributed among these distances:
6 10 0.11
7 61 0.69
8 17 0.19
ACGTcount: A:0.22, C:0.01, G:0.36, T:0.41
Consensus pattern (7 bp):
TTAGGGT
Found at i:14457846 original size:43 final size:43
Alignment explanation
Indices: 14457783--14457897 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 43
14457773 AAATAATTTT
** *
14457783 TTAAAAGGTCATAATTTTTAGCGGCGTTTGTAGGAAAAGCGTCG
1 TTAAAA-GTCATAACCTTTAGCGGCGTTTGTAGGAAAAGCGCCG
* *
14457827 TTAAAAGTCATAACCTTTAGCGGCGTTTGTGGGATAAGCGCCG
1 TTAAAAGTCATAACCTTTAGCGGCGTTTGTAGGAAAAGCGCCG
* * * *
14457870 CTAAAGGCCATGACCTTTAGCGGCGTTT
1 TTAAAAGTCATAACCTTTAGCGGCGTTT
14457898 TTTTTCATAA
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
43 56 0.90
44 6 0.10
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
TTAAAAGTCATAACCTTTAGCGGCGTTTGTAGGAAAAGCGCCG
Found at i:14459001 original size:14 final size:12
Alignment explanation
Indices: 14458982--14459020 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 12
14458972 TTTATTACTA
14458982 TTTTCTTCTGTTTT
1 TTTTCTT-T-TTTT
14458996 TTTTCTTTTTTT
1 TTTTCTTTTTTT
14459008 TTTTCCTTTTTTT
1 TTTT-CTTTTTTT
14459021 ATTCAAATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 8 0.33
13 9 0.38
14 7 0.29
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.85
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:14459007 original size:12 final size:12
Alignment explanation
Indices: 14458982--14459020 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
14458972 TTTATTACTA
14458982 TTTTCTTCTGTTTT
1 TTTTCTT-T-TTTT
14458996 TTTTCTTTTTTT
1 TTTTCTTTTTTT
*
14459008 TTTTCCTTTTTT
1 TTTTCTTTTTTT
14459020 T
1 T
14459021 ATTCAAATCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 16 0.67
13 1 0.04
14 7 0.29
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.85
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:14460937 original size:3 final size:3
Alignment explanation
Indices: 14460929--14460982 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
14460919 CCATTATTTA
* * *
14460929 TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAG TAT T-T GTTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
14460974 TAT TAT TAT
1 TAT TAT TAT
14460983 GTATATATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
2 1 0.02
3 42 0.95
4 1 0.02
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:14461093 original size:24 final size:24
Alignment explanation
Indices: 14461031--14461096 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
14461021 TTCTAATATG
*
14461031 TATATATTATGTAAATA-TTTTAA
1 TATATATTATGTATATATTTTTAA
* * *
14461054 TACTATATCATATATATATTTTTCA
1 TA-TATATTATGTATATATTTTTAA
*
14461079 TATATGTTATGTATATAT
1 TATATATTATGTATATAT
14461097 GTTATTTTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
23 2 0.06
24 25 0.74
25 7 0.21
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (24 bp):
TATATATTATGTATATATTTTTAA
Found at i:14461119 original size:14 final size:14
Alignment explanation
Indices: 14461100--14461127 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14461090 TATATATGTT
14461100 ATTTTTTAATATTA
1 ATTTTTTAATATTA
14461114 ATTTTTTAATATTA
1 ATTTTTTAATATTA
14461128 TATATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTTTTAATATTA
Found at i:14461209 original size:21 final size:20
Alignment explanation
Indices: 14461180--14461220 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
14461170 TTTATACTAT
*
14461180 TGTATGTATATTTCTAATAC
1 TGTATGTATATTTCAAATAC
14461200 TGTATTGTATATTTCAAATAC
1 TGTA-TGTATATTTCAAATAC
14461221 CGTTATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.49
Consensus pattern (20 bp):
TGTATGTATATTTCAAATAC
Found at i:14461331 original size:24 final size:23
Alignment explanation
Indices: 14461292--14461434 Score: 102
Period size: 22 Copynumber: 6.2 Consensus size: 23
14461282 ATCATTTCTA
*
14461292 ATATATAT-ATTGTATAT-GTTTT
1 ATATATATCA-TGTATATATTTTT
14461314 ATATATATCATGTATATATTTTT
1 ATATATATCATGTATATATTTTT
*
14461337 A-ATATTATTA-GTTATATATTTCTT
1 ATATA-TATCATG-TATATATTT-TT
*
14461361 ATACTAT-TCCATGTACATATTTTT
1 ATA-TATAT-CATGTATATATTTTT
* *
14461385 ATATCATCTCATGTATATATTCTT
1 ATAT-ATATCATGTATATATTTTT
* *
14461409 AAATACTAT-AT-TATATATTTAT
1 ATATA-TATCATGTATATATTTTT
14461431 ATAT
1 ATAT
14461435 TTTTAATACC
Statistics
Matches: 98, Mismatches: 11, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
22 31 0.32
23 23 0.23
24 29 0.30
25 12 0.12
26 3 0.03
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (23 bp):
ATATATATCATGTATATATTTTT
Found at i:14461625 original size:13 final size:14
Alignment explanation
Indices: 14461542--14461632 Score: 60
Period size: 16 Copynumber: 6.1 Consensus size: 14
14461532 TATATATACT
*
14461542 TTTTATATAGTATTA
1 TTTTA-ATATTATTA
*
14461557 TTTTCATATATCATTA
1 TTTT-A-ATATTATTA
14461573 TATTTATTATACTTATTA
1 T-TTTA--ATA-TTATTA
*
14461591 TTTTAACTATTGTTA
1 TTTTAA-TATTATTA
*
14461606 -TTCAATATT-TTA
1 TTTTAATATTATTA
14461618 TTTTAATATTATTA
1 TTTTAATATTATTA
14461632 T
1 T
14461633 GCATTATTTG
Statistics
Matches: 63, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
12 3 0.05
13 12 0.19
14 8 0.13
15 10 0.16
16 13 0.21
17 11 0.17
18 6 0.10
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.60
Consensus pattern (14 bp):
TTTTAATATTATTA
Found at i:14461640 original size:26 final size:27
Alignment explanation
Indices: 14461588--14461641 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
14461578 ATTATACTTA
* *
14461588 TTATTTTAACTATTGTTATTCAATATT
1 TTATTTTAACTATTATTATGCAATATT
*
14461615 TTATTTTAA-TATTATTATGCATTATT
1 TTATTTTAACTATTATTATGCAATATT
14461641 T
1 T
14461642 GGTATACATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.61
Consensus pattern (27 bp):
TTATTTTAACTATTATTATGCAATATT
Found at i:14469592 original size:16 final size:17
Alignment explanation
Indices: 14469556--14469592 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
14469546 AGTAGGAAAT
14469556 GGGGCATTGCCTGGAAG
1 GGGGCATTGCCTGGAAG
14469573 GGGGCATTGCCTGGAAG
1 GGGGCATTGCCTGGAAG
14469590 GGG
1 GGG
14469593 ACTTGGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.16, C:0.16, G:0.51, T:0.16
Consensus pattern (17 bp):
GGGGCATTGCCTGGAAG
Found at i:14474820 original size:64 final size:64
Alignment explanation
Indices: 14474745--14474868 Score: 221
Period size: 64 Copynumber: 1.9 Consensus size: 64
14474735 TCATTCATAA
*
14474745 CACATTTAGTTAAGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAACAT
1 CACATCTAGTTAAGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAACAT
* *
14474809 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGGCATAA
1 CACATCTAGTTAAGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAA
14474869 GCATATGAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAAGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAACAT
Found at i:14475254 original size:44 final size:43
Alignment explanation
Indices: 14475121--14475256 Score: 125
Period size: 44 Copynumber: 3.2 Consensus size: 43
14475111 GTAAATAGAT
* *
14475121 CTTATCT-CTCTGAAGTTGCAGTAGAGCA-GATCATA-GCAAAC
1 CTTATCTCCT-TGAAGTTGCAGTGGAGCAGGATCATATGCAAGC
* * ** * * *
14475162 CTTATCTCCATAAAGTTATAGTGGAGTAGGTTCAAATGACAAGC
1 CTTATCTCCTTGAAGTTGCAGTGGAGCAGGATCATATG-CAAGC
* *
14475206 CTTATCTCCTTGAAGTTGCAGTGGAGCAGGCTCTATATGCAAGT
1 CTTATCTCCTTGAAGTTGCAGTGGAGCAGGATC-ATATGCAAGC
14475250 CTTATCT
1 CTTATCT
14475257 TCCTGAGGTA
Statistics
Matches: 73, Mismatches: 17, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
41 20 0.27
42 6 0.08
43 1 0.01
44 42 0.58
45 4 0.05
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (43 bp):
CTTATCTCCTTGAAGTTGCAGTGGAGCAGGATCATATGCAAGC
Found at i:14475589 original size:177 final size:177
Alignment explanation
Indices: 14475203--14475612 Score: 489
Period size: 177 Copynumber: 2.3 Consensus size: 177
14475193 TCAAATGACA
* ** * *
14475203 AGCCTTATCTCCTTGAAGTTGCAGTGGAGCAGGCTCTATATGCAAGTCTTATCTTCCTGAGGTAG
1 AGCCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAG
* * * * **
14475268 CAATGAAGTAGATTGAAATTATAGATCTTATTTTTAAGTATCGACTATGGAGCAGATCGAAGATG
66 CAAGGAAGTAGACTGAAATTACAGATCTTATCTCCAAGTATCGACTATGGAGCAGATCGAAGATG
* *
14475333 GCGAATCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACC
131 GCGAATCTTATCTCCAAGTATCGGCTATGGAGCAGATTTTAACCACC
* * * *** *
14475380 AGCCTTATCTCTTTGAGGTAGCAAAAGAGCAGGTTGAAGATACAAGTTTTATCTTCCTGAGGTAG
1 AGCCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAG
* *
14475445 CAAGGAAGTAGACTGAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATG
66 CAAGGAAGTAGACTGAAATTACAGATCTTATCTCCAAGTATCGACTATGGAGCAGATCGAAGATG
* * * * * *
14475510 GTGAGTCTTATCTCTAAGTATCGGCTATGGAGCAGGTTTTAATCACT
131 GCGAATCTTATCTCCAAGTATCGGCTATGGAGCAGATTTTAACCACC
* * * * * **
14475557 GGCTTTGTCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAG-TCACAAACCTTATCTTC
1 AGCCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAGAT-ACAAGTCTTATCTTC
14475613 TTGAAGTTAC
Statistics
Matches: 190, Mismatches: 42, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
176 1 0.01
177 189 0.99
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (177 bp):
AGCCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAG
CAAGGAAGTAGACTGAAATTACAGATCTTATCTCCAAGTATCGACTATGGAGCAGATCGAAGATG
GCGAATCTTATCTCCAAGTATCGGCTATGGAGCAGATTTTAACCACC
Found at i:14478545 original size:6 final size:6
Alignment explanation
Indices: 14478519--14478561 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
14478509 AGTCAACGTT
*
14478519 AATATA CAAT-TA AAT-TA AATATA AATATA AATATA AATTTA AA
1 AATATA -AATATA AATATA AATATA AATATA AATATA AATATA AA
14478562 ATGTTACTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
5 8 0.24
6 23 0.68
7 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (6 bp):
AATATA
Found at i:14485789 original size:59 final size:59
Alignment explanation
Indices: 14485697--14485812 Score: 223
Period size: 59 Copynumber: 2.0 Consensus size: 59
14485687 ATTGGGTTGG
*
14485697 CTCTCTTGATGATAGAAGGTCTACAACGGGTTATTGTTCTCTTGTGGGAGGAAACTTTA
1 CTCTCTTGATGATAGAAGGTCTACAACGGGTTATTGTACTCTTGTGGGAGGAAACTTTA
14485756 CTCTCTTGATGATAGAAGGTCTACAACGGGTTATTGTACTCTTGTGGGAGGAAACTT
1 CTCTCTTGATGATAGAAGGTCTACAACGGGTTATTGTACTCTTGTGGGAGGAAACTT
14485813 AGTCACTTGG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (59 bp):
CTCTCTTGATGATAGAAGGTCTACAACGGGTTATTGTACTCTTGTGGGAGGAAACTTTA
Found at i:14488546 original size:18 final size:18
Alignment explanation
Indices: 14488523--14488560 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
14488513 AATATATATT
14488523 AACCCAAATACCCAACCC
1 AACCCAAATACCCAACCC
*
14488541 AACCCAATTACCCAACCC
1 AACCCAAATACCCAACCC
14488559 AA
1 AA
14488561 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.47, G:0.00, T:0.08
Consensus pattern (18 bp):
AACCCAAATACCCAACCC
Found at i:14488553 original size:13 final size:13
Alignment explanation
Indices: 14488537--14488561 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14488527 CAAATACCCA
14488537 ACCCAACCCAATT
1 ACCCAACCCAATT
14488550 ACCCAACCCAAT
1 ACCCAACCCAAT
14488562 CATAAAAATT
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:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:14488653 original size:9 final size:9
Alignment explanation
Indices: 14488639--14488715 Score: 111
Period size: 9 Copynumber: 8.6 Consensus size: 9
14488629 TTTATACAAA
14488639 TAATTCGGT
1 TAATTCGGT
*
14488648 TAATTCGGG
1 TAATTCGGT
14488657 TAATTCGAG-
1 TAATTCG-GT
14488666 TAATTCGGT
1 TAATTCGGT
*
14488675 TAATTCGAT
1 TAATTCGGT
*
14488684 TAATTCGAT
1 TAATTCGGT
14488693 TAATTCGGT
1 TAATTCGGT
14488702 TAATTCGGT
1 TAATTCGGT
14488711 TAATT
1 TAATT
14488716 TTATACTTAA
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
8 1 0.02
9 61 0.97
10 1 0.02
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.43
Consensus pattern (9 bp):
TAATTCGGT
Found at i:14488677 original size:27 final size:27
Alignment explanation
Indices: 14488639--14488715 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
14488629 TTTATACAAA
*
14488639 TAATTCGGTTAATTCGGGTAATTCGAG
1 TAATTCGGTTAATTCGGTTAATTCGAG
* *
14488666 TAATTCGGTTAATTCGATTAATTCGAT
1 TAATTCGGTTAATTCGGTTAATTCGAG
14488693 TAATTCGGTTAATTCGGTTAATT
1 TAATTCGGTTAATTCGGTTAATT
14488716 TTATACTTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.43
Consensus pattern (27 bp):
TAATTCGGTTAATTCGGTTAATTCGAG
Found at i:14489167 original size:16 final size:16
Alignment explanation
Indices: 14489148--14489208 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
14489138 AAATCATTTC
14489148 TCAATTAAATCTCATT
1 TCAATTAAATCTCATT
* *
14489164 TCAATTCAAAACATACCTT
1 TCAATT-AAATC-T-CATT
* * *
14489183 TCAATTTAATCACAAT
1 TCAATTAAATCTCATT
14489199 TCAATTAAAT
1 TCAATTAAAT
14489209 ACATTTTCCA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
16 17 0.50
17 4 0.12
18 4 0.12
19 9 0.26
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.38
Consensus pattern (16 bp):
TCAATTAAATCTCATT
Found at i:14489527 original size:11 final size:12
Alignment explanation
Indices: 14489511--14489539 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
14489501 TAAATAATTT
14489511 AATTTCTAT-TC
1 AATTTCTATCTC
14489522 AATTTCTATCTC
1 AATTTCTATCTC
14489534 AATTTC
1 AATTTC
14489540 AATTTGGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.52
Consensus pattern (12 bp):
AATTTCTATCTC
Found at i:14489946 original size:12 final size:12
Alignment explanation
Indices: 14489922--14489968 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
14489912 AAACCCTAGT
14489922 TTTTCCTTT-TCC
1 TTTT-CTTTCTCC
14489934 TTTTCTTTCTCC
1 TTTTCTTTCTCC
*
14489946 TTTTTTTTCTCCC
1 TTTTCTTTCT-CC
14489959 TTTTCGTTTC
1 TTTTC-TTTC
14489969 AGGTTTTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 4 0.13
12 16 0.53
13 6 0.20
14 4 0.13
ACGTcount: A:0.00, C:0.30, G:0.02, T:0.68
Consensus pattern (12 bp):
TTTTCTTTCTCC
Found at i:14489999 original size:24 final size:23
Alignment explanation
Indices: 14489972--14490020 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
14489962 TCGTTTCAGG
**
14489972 TTTTTGTTTCTTTTATGCTTTGTT
1 TTTTTGTTT-TTTTAACCTTTGTT
14489996 TTTTTGTTTTTTTAACCTTTGTT
1 TTTTTGTTTTTTTAACCTTTGTT
14490019 TT
1 TT
14490021 ATTTACTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.06, C:0.08, G:0.10, T:0.76
Consensus pattern (23 bp):
TTTTTGTTTTTTTAACCTTTGTT
Found at i:14503852 original size:28 final size:28
Alignment explanation
Indices: 14503808--14503880 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
14503798 TATATATCGA
*
14503808 ATTCGCACACTTAGTGCT-AGATACTTAAG
1 ATTCGCACACTTAGTGCTCA-ATAATT-AG
*
14503837 CTT-GCACACTTAGTGCTCAATAATTAG
1 ATTCGCACACTTAGTGCTCAATAATTAG
14503864 ATTCGCACACTTAGTGC
1 ATTCGCACACTTAGTGC
14503881 AATTTTTACA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
27 4 0.10
28 32 0.82
29 3 0.08
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (28 bp):
ATTCGCACACTTAGTGCTCAATAATTAG
Found at i:14507704 original size:21 final size:21
Alignment explanation
Indices: 14507662--14507704 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14507652 CGATCTCAAA
**
14507662 ACAATCCTTATAGCAATACTT
1 ACAATCCTTATAAAAATACTT
*
14507683 ACAATCCTTATAAAAATCCTT
1 ACAATCCTTATAAAAATACTT
14507704 A
1 A
14507705 TAGGAATCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.23, G:0.02, T:0.33
Consensus pattern (21 bp):
ACAATCCTTATAAAAATACTT
Found at i:14519399 original size:15 final size:15
Alignment explanation
Indices: 14519367--14519395 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14519357 ATTTTATGTG
14519367 TTTATAATGTGTGAA
1 TTTATAATGTGTGAA
14519382 TTTAT-ATGTGTGAA
1 TTTATAATGTGTGAA
14519396 ATTTTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (15 bp):
TTTATAATGTGTGAA
Found at i:14520583 original size:43 final size:43
Alignment explanation
Indices: 14520522--14520691 Score: 168
Period size: 43 Copynumber: 4.0 Consensus size: 43
14520512 ATAGGATTTC
* * *
14520522 AGATATGTGTTTTTGTGTAAGACCACGTCTGGGACGTTGGCAT
1 AGATATGTGATTATGTGTAAGACCACGTCTGGGACATTGGCAT
* * * *
14520565 AGATATGCGATTATGTGTAAGACCATGTCTGGGACATCGACAT
1 AGATATGTGATTATGTGTAAGACCACGTCTGGGACATTGGCAT
* * * *
14520608 TG-TATTTGATTCA--TGTAAGACC-CTGTCTGGGACAGTAGCAT
1 AGATATGTGATT-ATGTGTAAGACCAC-GTCTGGGACATTGGCAT
* **
14520649 CGATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCAT
1 AGATATGTGATTATGTGTAAGACCACGTCTGGGACATTGGCAT
14520692 TGAATGATAT
Statistics
Matches: 102, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
41 24 0.24
42 15 0.15
43 62 0.61
44 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (43 bp):
AGATATGTGATTATGTGTAAGACCACGTCTGGGACATTGGCAT
Found at i:14523684 original size:21 final size:21
Alignment explanation
Indices: 14523658--14523702 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
14523648 TATATAGTTG
14523658 TACATATTTCTAATAAATACA
1 TACATATTTCTAATAAATACA
14523679 TACATATTTCTAATAAATACA
1 TACATATTTCTAATAAATACA
14523700 TAC
1 TAC
14523703 TTTTAGAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.38
Consensus pattern (21 bp):
TACATATTTCTAATAAATACA
Found at i:14523905 original size:25 final size:25
Alignment explanation
Indices: 14523871--14523921 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
14523861 TACTCCCAAG
14523871 TGGAGAAAAGAGAAGAAATAGTCTA
1 TGGAGAAAAGAGAAGAAATAGTCTA
14523896 TGGAGAAAAGAGAAGAAATAGTCTA
1 TGGAGAAAAGAGAAGAAATAGTCTA
14523921 T
1 T
14523922 CTTGGAGACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.51, C:0.04, G:0.27, T:0.18
Consensus pattern (25 bp):
TGGAGAAAAGAGAAGAAATAGTCTA
Found at i:14527643 original size:33 final size:33
Alignment explanation
Indices: 14527606--14527740 Score: 225
Period size: 33 Copynumber: 4.1 Consensus size: 33
14527596 CTTCAGCCGC
* *
14527606 CGCATACCCCTCAGTCTTGGCCACCACGCCCCA
1 CGCATGCCCCTCAGCCTTGGCCACCACGCCCCA
*
14527639 CGCATGCCCCACAGCCTTGGCCACCACGCCCCA
1 CGCATGCCCCTCAGCCTTGGCCACCACGCCCCA
14527672 CGCATGCCCCTCAGCCTTGGCCACCACGCCCCA
1 CGCATGCCCCTCAGCCTTGGCCACCACGCCCCA
* *
14527705 CGCATGCCCCTCAGCCTTGGTCACCACGCTCCA
1 CGCATGCCCCTCAGCCTTGGCCACCACGCCCCA
14527738 CGC
1 CGC
14527741 GTCTGACACT
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 96 1.00
ACGTcount: A:0.16, C:0.53, G:0.18, T:0.13
Consensus pattern (33 bp):
CGCATGCCCCTCAGCCTTGGCCACCACGCCCCA
Found at i:14528682 original size:36 final size:36
Alignment explanation
Indices: 14528616--14528688 Score: 89
Period size: 36 Copynumber: 2.0 Consensus size: 36
14528606 ACTCTTTTTT
*
14528616 TTGTTTCATTTATATGTTATTTCTAATATTTTATATG
1 TTGTTTCATTTATATGCTATTTCTAATATTTTA-ATG
14528653 TTGTTT-ATTTATAT-CTA-TTCTAACTTATTTTAATG
1 TTGTTTCATTTATATGCTATTTCTAA--TATTTTAATG
14528688 T
1 T
14528689 ACTATTTACT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
34 6 0.18
35 6 0.18
36 15 0.45
37 6 0.18
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.62
Consensus pattern (36 bp):
TTGTTTCATTTATATGCTATTTCTAATATTTTAATG
Found at i:14529156 original size:27 final size:26
Alignment explanation
Indices: 14529097--14529176 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 26
14529087 TTTTGCTTTG
** * *
14529097 TGTATTATAGATTTTAAAATGCTTTA
1 TGTATTATTCATTTTAAATTGTTTTA
** *
14529123 TCCATTATTTATTTTAAACTTGTTTTA
1 TGTATTATTCATTTTAAA-TTGTTTTA
14529150 TGTATTATTCATTTTAAATTGTTTTA
1 TGTATTATTCATTTTAAATTGTTTTA
14529176 T
1 T
14529177 TGTTTACTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 23 0.52
27 21 0.48
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.57
Consensus pattern (26 bp):
TGTATTATTCATTTTAAATTGTTTTA
Found at i:14532308 original size:19 final size:19
Alignment explanation
Indices: 14532284--14532329 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
14532274 CTTCCTTTCT
14532284 TTTGCATT-CATT-CTATGCA
1 TTTGCATTGCATTAC-AT-CA
14532303 TTTGCATTGCATTACATCA
1 TTTGCATTGCATTACATCA
14532322 TTTGCATT
1 TTTGCATT
14532330 AAACTTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 18 0.72
20 6 0.24
21 1 0.04
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.48
Consensus pattern (19 bp):
TTTGCATTGCATTACATCA
Found at i:14536236 original size:64 final size:64
Alignment explanation
Indices: 14536135--14536258 Score: 178
Period size: 64 Copynumber: 1.9 Consensus size: 64
14536125 CATATAATAA
* * *
14536135 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATA-ACATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATATGAATCATTTCAATCATAGA-ATCCTAATTATTTGACATAAGCAT
* * *
14536199 CACATTTATTTAGGAGCATATGAATCATTTCAATCATAGAATCCTAATTATTTGGCATAA
1 CACATCTAGTTAGGAGCATATGAATCATTTCAATCATAGAATCCTAATTATTTGACATAA
14536259 ACATAGATGC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
64 52 0.98
65 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATATGAATCATTTCAATCATAGAATCCTAATTATTTGACATAAGCAT
Found at i:14536465 original size:87 final size:86
Alignment explanation
Indices: 14536319--14537082 Score: 547
Period size: 87 Copynumber: 8.8 Consensus size: 86
14536309 ATTCACAAGC
* * *
14536319 CTTAACCCCCTAAACAGTAGGGTAACGGGCTGAAGTTCCAGATCTTAACCCCCTAAGCAGTAGGG
1 CTTAACCCCCTAAGCAGTAGGGTAAC-AGCTGAAGTTGCAGATCTTAACCCCCTAAGCAGTAGGG
*
14536384 AAATAGATCGAAGATGAAGGGT
65 AAACAGATCGAAGATGAAGGGT
* * ***
14536406 CTTAAACCCCCTAAGGAGTAGGGTAACAGAATGAA-TTGCAGATCTTATTTCCCTAAGCAGTAGT
1 CTT-AACCCCCTAAGCAGTAGGGTAACAG-CTGAAGTTGCAGATCTTAACCCCCTAAGCAGTAG-
* ** *
14536470 GG-AGCAGATCGAAGACAAAGGGC
63 GGAAACAGATCGAAGATGAAGGGT
* * *
14536493 CTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAACCCCCTAAACAGTAGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACA-GCTGAAGTTGCAGATCTTAACCCCCTAAGCAGTAGGG
* *
14536557 AAATAGATCGAAGACGAAGGGT
65 AAACAGATCGAAGATGAAGGGT
* * * * *
14536579 CTTAAACCCCTAAGTAGTAGGGTAACAGACCGGA-TTGCAGATCTTATCCCCCTAAGCAGTAGTG
1 CTTAACCCCCTAAGCAGTAGGGTAACAG-CTGAAGTTGCAGATCTTAACCCCCTAAGCAGTAG-G
** * * * *
14536643 G-GGCAAATCAAAGACGGAA-GAT
64 GAAACAGATCGAAGA-TGAAGGGT
* * *
14536665 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAG--GC-GATGGCCTTAAACCCCTAAGCAGTA
1 CTTAACCCCCTAAGCAGTAGGGTAACAGCT-GAAGTTGCAGAT---CTTAACCCCCTAAGCAGTA
* * * * *
14536727 GGGTAACAG-GCTAA-ATTTACA-GAT
62 GGGAAACAGATCGAAGA-TGA-AGGGT
* * * * *
14536751 CTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGTGATAGA-CTTTAACCCCCTAAGCAGTAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGCT-GAAGTTG-CAGATC-TTAACCCCCTAAGCAGTAG
* * * * ** **
14536815 GGTAACA-AGCCGAA-TTTACTGAC
63 GGAAACAGA-TCGAAGATGAAGGGT
* * * * *
14536838 CTTAAACCCCTAAGCAGTAGGGTAACATGTTGAA-TTCACAGATCTTATCACCCTAAGCAGTAGG
1 CTTAACCCCCTAAGCAGTAGGGTAACA-GCTGAAGTT-GCAGATCTTAACCCCCTAAGCAGTAGG
* * *
14536902 GAAACAGATCAAAGACGAAGGGC
64 GAAACAGATCGAAGATGAAGGGT
* * * * *
14536925 CTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAATTTACAGATCTTAACACCCTAAGCAGTAGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACA-GCTGAAGTTGCAGATCTTAACCCCCTAAGCAGTAGGG
* *
14536990 AAACAGATCGAAGGTGATGGG-
65 AAACAGATCGAAGATGAAGGGT
* * * * *
14537011 CTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAA-TTAACAGACCTTAAACTCCTAAGCAGTAG
1 C-TTAACCCCCTAAGCAGTAGGGTAAC-AGCTGAAGTT-GCAGATCTTAACCCCCTAAGCAGTAG
*
14537075 GGTAACAG
63 GGAAACAG
14537083 GTTGAATTCA
Statistics
Matches: 546, Mismatches: 97, Indels: 68
0.77 0.14 0.10
Matches are distributed among these distances:
84 3 0.01
85 30 0.05
86 188 0.34
87 287 0.53
88 36 0.07
90 2 0.00
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (86 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGCTGAAGTTGCAGATCTTAACCCCCTAAGCAGTAGGGA
AACAGATCGAAGATGAAGGGT
Found at i:14536677 original size:173 final size:174
Alignment explanation
Indices: 14536318--14537038 Score: 565
Period size: 173 Copynumber: 4.2 Consensus size: 174
14536308 AATTCACAAG
* * *
14536318 CCTTAACCCCCTAAACAGTAGGGTAACGGGCTGAAGTTCCAGATCTTAACCCCCTAAGCAGTAGG
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGTTCCAGATCTTAACCCCCTAAACAGTAGG
* *
14536383 GAAATAGATCGAAGATGAAGGGTCTTAAACCCCCTAAGGAGTAGGGTAACAGAATGAATTGCAGA
66 GAAATAGATCGAAGACGAAGGGTCTTAAACCCCCTAAGGAGTAGGGTAACAGAACGAATTGCAGA
** * * *
14536448 TCTTATTTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAAAGGG
131 TCTTATCCCCCTAAGCAGTAGTGGAGCAAATCAAAGACAAAGGA
*
14536492 CCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAACCCCCTAAACAGTAGG
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGTTCCAGATCTTAACCCCCTAAACAGTAGG
* * *
14536556 GAAATAGATCGAAGACGAAGGGTCTTAAA-CCCCTAAGTAGTAGGGTAACAGACCGGATTGCAGA
66 GAAATAGATCGAAGACGAAGGGTCTTAAACCCCCTAAGGAGTAGGGTAACAGAACGAATTGCAGA
* *
14536620 TCTTATCCCCCTAAGCAGTAGTGGGGCAAATCAAAGACGGAA-GA
131 TCTTATCCCCCTAAGCAGTAGTGGAGCAAATCAAAGAC-AAAGGA
* * * * * ** * *
14536664 TCTTAACCCCCTAAGCAGTAGGGAAACA-GATCGAAG-GCGATGGCCTTAAACCCCTAAGCAGTA
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAGTTCCA-GATCTTAACCCCCTAAACAGTA
* * * * ** * * * * * *
14536727 GGGTAACAG-GCTAA-ATTTACA-GATCTT-AACACCCTAAGCAGTAGGGAAACAGATCGAAGGT
64 GGGAAATAGATCGAAGA-CGA-AGGGTCTTAAACCCCCTAAGGAGTAGGGTAACAGAACGAA-TT
* * * ** * *** **
14536788 GATAGA-CTTTAACCCCCTAAGCAGTAG-GGTAACAAGCCGAA-TTTACTGA
126 G-CAGATC-TTATCCCCCTAAGCAGTAGTGG-AGCAAATCAAAGACAAAGGA
* * * * * *
14536837 CCTTAAACCCCTAAGCAGTAGGGTAACATGTTGAA-TTCACAGATCTTATCACCCTAAGCAGTAG
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGTTC-CAGATCTTAACCCCCTAAACAGTAG
* * * * * * *
14536901 GGAAACAGATCAAAGACGAAGGGCCTT-AACCCCCTAAGTAGTAGGGTAACAG-GCTAAATTTAC
65 GGAAATAGATCGAAGACGAAGGGTCTTAAACCCCCTAAGGAGTAGGGTAACAGAAC-GAA-TTGC
* * * * * *** * *
14536964 AGATCTTAACACCCTAAGCAGTAG-GGAAACAGATCGAAGGTGATGGG
128 AGATCTTATCCCCCTAAGCAGTAGTGG-AGCAAATCAAAGACAAAGGA
*
14537011 CTTTAACCCCCTAAGCAGTAGGGTAACA
1 CCTTAACCCCCTAAGCAGTAGGGTAACA
14537039 AGCCGAATTA
Statistics
Matches: 437, Mismatches: 89, Indels: 42
0.77 0.16 0.07
Matches are distributed among these distances:
171 3 0.01
172 107 0.24
173 227 0.52
174 99 0.23
175 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (174 bp):
CCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGTTCCAGATCTTAACCCCCTAAACAGTAGG
GAAATAGATCGAAGACGAAGGGTCTTAAACCCCCTAAGGAGTAGGGTAACAGAACGAATTGCAGA
TCTTATCCCCCTAAGCAGTAGTGGAGCAAATCAAAGACAAAGGA
Found at i:14536750 original size:130 final size:130
Alignment explanation
Indices: 14536531--14536952 Score: 448
Period size: 130 Copynumber: 3.2 Consensus size: 130
14536521 CTGAATTTCC
* * * * *
14536531 AGATCTTAACCCCCTAAACAGTAGGGAAATAGATCGAAGACGAAGGGTCTTAAACCCCTAAGTAG
1 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACG-ATGGCCTTAAACCCCTAAGCAG
* * * * * ** *
14536596 TAGGGTAACAGACCGGA-TTGCAGATCTTATCCCCCTAAGCAGTAGTGG-GGCAAATCAAAGACG
65 TAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAG-GGAAACAGATCAAAGACG
14536659 GA
129 GA
*
14536661 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGCCTTAAACCCCTAAGCAGT
1 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGCCTTAAACCCCTAAGCAGT
* * *
14536726 AGGGTAACAGGCTAAATTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAG--GTG
66 AGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCAAAGACG-G
14536789 A
130 A
* * * *
14536790 TAGA-CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAATTTAC--TGACCTTAAACCCCTAA
1 -AGATC-TTAACCCCCTAAGCAGTAGGGAAACAGA-TCGAA--GACGATGGCCTTAAACCCCTAA
* * *
14536851 GCAGTAGGGTAACATGTTGAATTCACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCAAAG
61 GCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCAAAG
14536916 AC-GA
126 ACGGA
** * *
14536920 AGGGCCTTAACCCCCTAAGTAGTAGGGTAACAG
1 A-GATCTTAACCCCCTAAGCAGTAGGGAAACAG
14536953 GCTAAATTTA
Statistics
Matches: 249, Mismatches: 30, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
128 1 0.00
129 39 0.16
130 207 0.83
131 1 0.00
132 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (130 bp):
AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGCCTTAAACCCCTAAGCAGT
AGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCAAAGACGGA
Found at i:14536961 original size:130 final size:127
Alignment explanation
Indices: 14536579--14536995 Score: 426
Period size: 130 Copynumber: 3.2 Consensus size: 127
14536569 GACGAAGGGT
* * * * *
14536579 CTTAAACCCCTAAGTAGTAGGGTAACAGACCGGATTGCAGATCTTATCCCCCTAAGCAGTAGTGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAG-CTGAATTACAGATCTTATCACCCTAAGCAGTAG-GG
** * * * * * **** *
14536644 -GGCAAATCAAAGACGGAAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGA-TGG
64 AAACAGATCAAAGAC-GAAGACCTTAACCCCCTAAGCAGTAGGGTAACAG-GCCAAATTTACTGA
14536707 C
127 C
* *
14536708 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACACCCTAAGCAGTAGGG
1 CTTAAACCCCTAAGCAGTAGGGTAACA-GCTGAA-TTACAGATCTTATCACCCTAAGCAGTAGGG
* ** * * *
14536773 AAACAGATCGAAGGTGATAGACTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACTGAC
64 AAACAGATCAAAGACGA-AGACCTTAACCCCCTAAGCAGTAGGGTAACAGGCCAAATTTACTGAC
*
14536838 CTTAAACCCCTAAGCAGTAGGGTAACATGTTGAATTCACAGATCTTATCACCCTAAGCAGTAGGG
1 CTTAAACCCCTAAGCAGTAGGGTAACA-GCTGAATT-ACAGATCTTATCACCCTAAGCAGTAGGG
* * * * *
14536903 AAACAGATCAAAGACGAAGGGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAATTTACAGAT
64 AAACAGATCAAAGACGAA-GACCTTAACCCCCTAAGCAGTAGGGTAACAGGCCAAATTTACTGAC
*
14536968 CTT-AACACCCTAAGCAGTAGGGAAACAG
1 CTTAAAC-CCCTAAGCAGTAGGGTAACAG
14536996 ATCGAAGGTG
Statistics
Matches: 239, Mismatches: 41, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
129 42 0.18
130 197 0.82
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (127 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGCTGAATTACAGATCTTATCACCCTAAGCAGTAGGGAA
ACAGATCAAAGACGAAGACCTTAACCCCCTAAGCAGTAGGGTAACAGGCCAAATTTACTGAC
Found at i:14536981 original size:217 final size:217
Alignment explanation
Indices: 14536406--14537390 Score: 1340
Period size: 217 Copynumber: 4.5 Consensus size: 217
14536396 GATGAAGGGT
* ** * **
14536406 CTTAAACCCCCTAAGGAGTAGGGTAACAGAATGAATT-GCAGATCTTATTTCCCTAAGCAGTAGT
1 CTTAAA-CCCCTAAGCAGTAGGGTAACAGGTTGAATTCACAGATCTTATCACCCTAAGCAGTAG-
* * * *
14536470 GG-AGCAGATCGAAGACAAAGGGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAG
64 GGAAACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAG
* * * ** * * *
14536533 ATCTTAACCCCCTAAACAGTAGGGAAATAGATCGAAGACGA-AGGGTCTTAAACCCCTAAGTAGT
129 ATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGTGATAGGCT-TTAACCCCCTAAGCAGT
* * *
14536597 AGGGTAAC-AGACCGGA-TTGCAGAT
193 AGGGTAACAAG-CCGAATTTACAGAC
** ** ** ** ** * *
14536621 CTTATCCCCCTAAGCAGTAGTGG-GGCAAATCAAAGACGGA-AGATCTTAACCCCCTAAGCAGTA
1 CTTAAACCCCTAAGCAGTAG-GGTAACAGGTTGAATTC--ACAGATCTTATCACCCTAAGCAGTA
* * *
14536684 GGGAAACAGATCGAAGGCG-ATGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACA
63 GGGAAACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACA
*
14536748 GATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGTGATAGACTTTAACCCCCTAAGCAGT
128 GATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGTGATAGGCTTTAACCCCCTAAGCAGT
*
14536813 AGGGTAACAAGCCGAATTTACTGAC
193 AGGGTAACAAGCCGAATTTACAGAC
*
14536838 CTTAAACCCCTAAGCAGTAGGGTAACATGTTGAATTCACAGATCTTATCACCCTAAGCAGTAGGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTCACAGATCTTATCACCCTAAGCAGTAGGG
* *
14536903 AAACAGATCAAAGACGAAGGGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAATTTACAGAT
66 AAACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGAT
*
14536968 CTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGCTTTAACCCCCTAAGCAGTAGG
131 CTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGTGATAGGCTTTAACCCCCTAAGCAGTAGG
*
14537033 GTAACAAGCCGAATTAACAGAC
196 GTAACAAGCCGAATTTACAGAC
* *
14537055 CTTAAACTCCTAAGCAGTAGGGTAACAGGTTGAATTCACAGATCTTATCACCCTAAGCAGTAAGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTCACAGATCTTATCACCCTAAGCAGTAGGG
* * *
14537120 AAATAGATCAAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAAT
66 AAACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGAT
*
14537185 CTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGCTTTAACCCCCTAAGCAGTAGG
131 CTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGTGATAGGCTTTAACCCCCTAAGCAGTAGG
14537250 GTAACAAGCCGAATTTACAGAC
196 GTAACAAGCCGAATTTACAGAC
* *
14537272 TTTAAACCCCTTAGCAGTAGGGTAACAGGTTGAATTCACAGATCTTATCACCCTAAGCAGTAGGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTCACAGATCTTATCACCCTAAGCAGTAGGG
* * * * *
14537337 AAATAGATCGAAGGCGATGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTA
66 AAACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTA
14537391 GAAATCAAAT
Statistics
Matches: 687, Mismatches: 71, Indels: 22
0.88 0.09 0.03
Matches are distributed among these distances:
214 18 0.03
215 18 0.03
216 169 0.25
217 482 0.70
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (217 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTCACAGATCTTATCACCCTAAGCAGTAGGG
AAACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGAT
CTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGTGATAGGCTTTAACCCCCTAAGCAGTAGG
GTAACAAGCCGAATTTACAGAC
Found at i:14537265 original size:87 final size:87
Alignment explanation
Indices: 14536661--14537299 Score: 394
Period size: 87 Copynumber: 7.4 Consensus size: 87
14536651 CAAAGACGGA
* * * *
14536661 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGAT-GGCCTTAAACCCCTAAGCAG
1 AGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGTGATAGGCTTTAACCCCCTAAGCAG
* **
14536725 TAGGGTAACAGGCTAAATTTAC
66 TAGGGTAACAAGCCGAATTTAC
*
14536747 AGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGTGATAGACTTTAACCCCCTAAGCAG
1 AGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGTGATAGGCTTTAACCCCCTAAGCAG
14536812 TAGGGTAACAAGCCGAATTTAC
66 TAGGGTAACAAGCCGAATTTAC
* * * * * * * * * *
14536834 TGACCTTAA-ACCCCTAAGCAGTAGGGTAACATG-TTGAA-TTCACA-GATCTTATCACCCTAAG
1 AGATCTTAACA-CCCTAAGCAGTAGGGAAACA-GATCGAAGGTGATAGGCT-TTAACCCCCTAAG
* * **
14536895 CAGTAGGGAAAC-AGATC-AA-AGAC
63 CAGTAGGGTAACAAG-CCGAATTTAC
** * * * * * ** * * * *
14536918 GAAGGGCCTTAACCCCCTAAGTAGTAGGGTAACAG-GCTAAATTTACA-GATCTTAACACCCTAA
1 --A-GATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGTGATAGGCT-TTAACCCCCTAA
* * * *
14536981 GCAGTAGGGAAAC-AGATCGAAGGTGA-
62 GCAGTAGGGTAACAAG-CCGAA-TTTAC
* ** * * * * * * * * * *
14537007 TGGGCTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTAACAGACCTTAAACTCCTAAGC
1 AGATC-TTAACACCCTAAGCAGTAGGGAAACAGA-TCGAAGGTGATAGGCTTTAACCCCCTAAGC
* ** *
14537070 AGTAGGGTAACAGGTTGAATTCAC
64 AGTAGGGTAACAAGCCGAATTTAC
* * * * ** *
14537094 AGATCTTATCACCCTAAGCAGTAAGGAAATAGATCAAAGACGA-AGGGCCTTAACCCCCTAAGCA
1 AGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGTGATA-GGCTTTAACCCCCTAAGCA
* **
14537158 GTAGGGTAACAGGCTAAATTTAC
65 GTAGGGTAACAAGCCGAATTTAC
* *
14537181 AAATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGCTTTAACCCCCTAAGCAG
1 AGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGTGATAGGCTTTAACCCCCTAAGCAG
14537246 TAGGGTAACAAGCCGAATTTAC
66 TAGGGTAACAAGCCGAATTTAC
* *
14537268 AGA-CTTTAA-ACCCCTTAGCAGTAGGGTAACAG
1 AGATC-TTAACA-CCCTAAGCAGTAGGGAAACAG
14537300 GTTGAATTCA
Statistics
Matches: 444, Mismatches: 84, Indels: 49
0.77 0.15 0.08
Matches are distributed among these distances:
84 2 0.00
85 5 0.01
86 104 0.23
87 324 0.73
88 7 0.02
90 2 0.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (87 bp):
AGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGGTGATAGGCTTTAACCCCCTAAGCAG
TAGGGTAACAAGCCGAATTTAC
Found at i:14537282 original size:130 final size:130
Alignment explanation
Indices: 14536496--14537385 Score: 380
Period size: 130 Copynumber: 6.8 Consensus size: 130
14536486 AAAGGGCCTT
* * * *
14536496 AACCCCTAAGCAGTAGGGTAACAGGCTGAATTTC-CAGATCTTAACCCCCTAAACAGTAGGGAAA
1 AACCCCTAAGCAGTAGGGTAACAGGCT-AAATTCACAAATCTTAACACCCTAAGCAGTAGGGAAA
* * * * * * * * *
14536560 TAGATCGAAGACGAAGGGTCTTAAACCCCTAAGTAGTAGGGTAAC-AGACCGGA-TTGCAGA-TC
65 CAGATCGAAGGCGATGAGCCTTAACCCCCTAAGCAGTAGGGTAACAAG-CCGAATTTACAGACT-
14536622 TTA
128 TTA
** * * ** ** *
14536625 TCCCCCTAAGCAGTAGTGGGGCAA-A-TC-AAAGACGGAAGATCTTAACCCCCTAAGCAGTAGGG
1 AACCCCTAAGCAGTA---GGGTAACAGGCTAAATTCACAA-ATCTTAACACCCTAAGCAGTAGGG
* * **
14536687 AAACAGATCGAAGGCGATG-GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGA-
62 AAACAGATCGAAGGCGATGAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAGAC
14536750 TCTT-
127 T-TTA
* * * ** * * * * *
14536754 AACACCCTAAGCAGTAGGGAAACAGATCGAAGGTGATAGA-CTTTAACCCCCTAAGCAGTAGGGT
1 AAC-CCCTAAGCAGTAGGGTAACAG-GCTAAATTCACAAATC-TTAACACCCTAAGCAGTAGGGA
* *** * * ** *
14536818 AACA-AGCCGAA-TTTACTGA-CCTTAAACCCCTAAGCAGTAGGGTAACATGTTGAATTCACAGA
63 AACAGA-TCGAAGGCGA-TGAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAGA
14536880 -TCTT-
126 CT-TTA
* * * * ** * *
14536884 ATCACCCTAAGCAGTAGGGAAACA-GATCAAA--GACGAAGGGCCTTAACCCCCTAAGTAGTAGG
1 AAC-CCCTAAGCAGTAGGGTAACAGGCT-AAATTCAC-AA--ATCTTAACACCCTAAGCAGTAGG
* * * **** * * * * * * * *
14536946 GTAACAG-GCTAAATTTA-CAGATCTTAACACCCTAAGCAGTAGGGAAAC-AGATCGAAGGTGAT
61 GAAACAGATCGAAGGCGATGAG-CCTTAACCCCCTAAGCAGTAGGGTAACAAG-CCGAA-TTTAC
* *
14537008 GGGCTTTA
123 AGACTTTA
* * ** * * * *
14537016 ACCCCCTAAGCAGTAGGGTAACAAGCCGAATTAACAGACCTTAA-ACTCCTAAGCAGTAGGGTAA
1 AACCCCTAAGCAGTAGGGTAACAGGCTAAATTCACAAATCTTAACAC-CCTAAGCAGTAGGGAAA
* * ** * * * * * * **
14537080 CAGGTTGAATTC-A-CAGATCTTATCACCCTAAGCAGTAAGG-AA-ATAGATC-AA-AGACGAAG
65 CAGATCGAAGGCGATGAG-CCTTAACCCCCTAAGCAGTAGGGTAACA-AG-CCGAATTTAC--A-
* *
14537139 GGCCTTA
124 GACTTTA
* *
14537146 ACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAAATCTTAACACCCTAAGCAGTAGGGAAAC
1 AACCCCTAAGCAGTAGGGTAACAGGCTAAATTCACAAATCTTAACACCCTAAGCAGTAGGGAAAC
* * *
14537211 AGATCGAAGGTGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAGACTTTA
66 AGATCGAAGGCGATGAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAGACTTTA
* * * * * *
14537276 AACCCCTTAGCAGTAGGGTAACAGGTTGAATTCACAGATCTTATCACCCTAAGCAGTAGGGAAAT
1 AACCCCTAAGCAGTAGGGTAACAGGCTAAATTCACAAATCTTAACACCCTAAGCAGTAGGGAAAC
*
14537341 AGATCGAAGGCGATGAGCCTTAACCCCCTAAGTAGTAGGGTAACA
66 AGATCGAAGGCGATGAGCCTTAACCCCCTAAGCAGTAGGGTAACA
14537386 GGCTAGAAAT
Statistics
Matches: 597, Mismatches: 118, Indels: 91
0.74 0.15 0.11
Matches are distributed among these distances:
127 9 0.02
128 6 0.01
129 57 0.10
130 445 0.75
131 58 0.10
132 17 0.03
133 5 0.01
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (130 bp):
AACCCCTAAGCAGTAGGGTAACAGGCTAAATTCACAAATCTTAACACCCTAAGCAGTAGGGAAAC
AGATCGAAGGCGATGAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAGACTTTA
Found at i:14538107 original size:33 final size:33
Alignment explanation
Indices: 14538070--14538171 Score: 143
Period size: 33 Copynumber: 3.1 Consensus size: 33
14538060 CTTCAGCCGC
* *
14538070 CGCATACCCCTCAGTCTTGGCCACCACGCCCCA
1 CGCATGCCCCTCAGCCTTGGCCACCACGCCCCA
14538103 CGCATGCCCCAT-AGCCTTGGCCACCACGCCCCA
1 CGCATGCCCC-TCAGCCTTGGCCACCACGCCCCA
* * *
14538136 CGCATGCCCCTCAGCCTTGGTCACCATGCTCCA
1 CGCATGCCCCTCAGCCTTGGCCACCACGCCCCA
14538169 CGC
1 CGC
14538172 GTTTGACACT
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
32 1 0.02
33 60 0.97
34 1 0.02
ACGTcount: A:0.17, C:0.50, G:0.18, T:0.16
Consensus pattern (33 bp):
CGCATGCCCCTCAGCCTTGGCCACCACGCCCCA
Found at i:14539115 original size:36 final size:36
Alignment explanation
Indices: 14539049--14539121 Score: 89
Period size: 36 Copynumber: 2.0 Consensus size: 36
14539039 CTCTTTTTTT
*
14539049 TTGTTTCATTTATATGTTATTTCTAATATTTTATATG
1 TTGTTTCATTTATATGCTATTTCTAATATTTTA-ATG
14539086 TTGTTT-ATTTATAT-CTA-TTCTAACTTATTTTAATG
1 TTGTTTCATTTATATGCTATTTCTAA--TATTTTAATG
14539121 T
1 T
14539122 ACTATTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
34 6 0.18
35 6 0.18
36 15 0.45
37 6 0.18
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.62
Consensus pattern (36 bp):
TTGTTTCATTTATATGCTATTTCTAATATTTTAATG
Found at i:14539591 original size:27 final size:26
Alignment explanation
Indices: 14539532--14539611 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 26
14539522 TTTTGCTTTG
** * *
14539532 TGTATTATAGATTTTAAAATGCTTTA
1 TGTATTATTCATTTTAAATTGTTTTA
** *
14539558 TACATTATTTATTTTAAACTTGTTTTA
1 TGTATTATTCATTTTAAA-TTGTTTTA
14539585 TGTATTATTCATTTTAAATTGTTTTA
1 TGTATTATTCATTTTAAATTGTTTTA
14539611 T
1 T
14539612 TGTTTACTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 23 0.52
27 21 0.48
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (26 bp):
TGTATTATTCATTTTAAATTGTTTTA
Found at i:14542038 original size:52 final size:49
Alignment explanation
Indices: 14541941--14542307 Score: 422
Period size: 46 Copynumber: 7.6 Consensus size: 49
14541931 TTTGAGTACT
* * **
14541941 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAACTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
14541987 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
14542039 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
14542085 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACCTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
14542131 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
14542183 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
14542235 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
14542281 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
14542308 GCTACACTTA
Statistics
Matches: 289, Mismatches: 18, Indels: 28
0.86 0.05 0.08
Matches are distributed among these distances:
46 154 0.53
48 1 0.00
49 2 0.01
50 1 0.00
52 131 0.45
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:14542061 original size:98 final size:97
Alignment explanation
Indices: 14541941--14542307 Score: 483
Period size: 98 Copynumber: 3.7 Consensus size: 97
14541931 TTTGAGTACT
* * *
14541941 TCTGATCAAGTGATAAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
14542006 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
14542039 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
14542099 AAAGTGATAAGTGATAGCTTCAGCTACACCTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
14542131 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
14542196 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * * *
14542235 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
14542300 GATAAGTG
65 GA-AAGTG
14542308 GCTACACTTA
Statistics
Matches: 237, Mismatches: 18, Indels: 27
0.84 0.06 0.10
Matches are distributed among these distances:
92 40 0.17
95 1 0.00
96 1 0.00
98 144 0.61
99 10 0.04
101 1 0.00
104 40 0.17
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:14542289 original size:196 final size:196
Alignment explanation
Indices: 14541955--14542307 Score: 598
Period size: 196 Copynumber: 1.8 Consensus size: 196
14541945 ATCAAGTGAT
* * *
14541955 AAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAACTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * *
14542020 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
14542085 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACCTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACCTATCTGATCAAGTGACAAGTG
14542150 G
196 G
* * *
14542151 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAACTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
14542216 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
14542281 TCTGATCAAGAGACAAAGTGATAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTG
14542308 GCTACACTTA
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
196 145 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (196 bp):
AAAGTGATAAGTGATAACTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACCTATCTGATCAAGTGACAAGTG
G
Found at i:14542315 original size:37 final size:37
Alignment explanation
Indices: 14542271--14542416 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
14542261 GATAGCTTTA
*
14542271 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
14542308 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
14542345 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
14542382 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
14542417 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:14545957 original size:14 final size:15
Alignment explanation
Indices: 14545938--14546047 Score: 69
Period size: 18 Copynumber: 6.5 Consensus size: 15
14545928 AATCTTCAAT
14545938 GATATG-CAATCTTA
1 GATATGACAATCTTA
14545952 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
14545969 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
14545987 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
*
14546006 GATATGATACAAGCTTA
1 GATATG--ACAATCTTA
*
14546023 GATATAATTGCAATCTTA
1 GATATGA---CAATCTTA
14546041 GATATGA
1 GATATGA
14546048 TATGCAATCT
Statistics
Matches: 81, Mismatches: 4, Indels: 18
0.79 0.04 0.17
Matches are distributed among these distances:
14 6 0.07
15 2 0.02
17 26 0.32
18 27 0.33
19 19 0.23
20 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:14545960 original size:19 final size:19
Alignment explanation
Indices: 14545936--14546061 Score: 192
Period size: 19 Copynumber: 6.9 Consensus size: 19
14545926 ATAATCTTCA
14545936 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
14545955 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
14545972 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
14545990 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
14546009 ATGATA--CAAGCTTAGAT
1 ATGATATGCAATCTTAGAT
*
14546026 ATAAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
14546044 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
14546062 AGATATGATT
Statistics
Matches: 97, Mismatches: 4, Indels: 12
0.86 0.04 0.11
Matches are distributed among these distances:
17 30 0.31
18 30 0.31
19 37 0.38
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:14545982 original size:35 final size:36
Alignment explanation
Indices: 14545936--14546061 Score: 177
Period size: 35 Copynumber: 3.5 Consensus size: 36
14545926 ATAATCTTCA
14545936 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
14545972 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATA--CAATCTTAGAT
* * *
14546009 ATGATA--CAAGCTTAGATATAATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGA-TACAATCTTAGAT
14546044 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
14546062 AGATATGATT
Statistics
Matches: 80, Mismatches: 4, Indels: 11
0.84 0.04 0.12
Matches are distributed among these distances:
35 36 0.45
36 18 0.22
37 26 0.32
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (36 bp):
ATGATATGCAATCTTAGATATGATACAATCTTAGAT
Found at i:14545994 original size:54 final size:54
Alignment explanation
Indices: 14545936--14546061 Score: 234
Period size: 54 Copynumber: 2.3 Consensus size: 54
14545926 ATAATCTTCA
* *
14545936 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAAGCTTAGATATAATTGCAATCTTAGAT
14545990 ATGATATGCAATCTTAGATATGATACAAGCTTAGATATAATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAAGCTTAGATATAATTGCAATCTTAGAT
14546044 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
14546062 AGATATGATT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 70 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (54 bp):
ATGATATGCAATCTTAGATATGATACAAGCTTAGATATAATTGCAATCTTAGAT
Found at i:14546087 original size:22 final size:22
Alignment explanation
Indices: 14546040--14546084 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
14546030 TTGCAATCTT
*
14546040 AGATATGATATGCAATCTTAGA
1 AGATATGATATGAAATCTTAGA
*
14546062 AGATATGATTTTGAAATCTTAGA
1 AGATATGA-TATGAAATCTTAGA
14546085 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.36
Consensus pattern (22 bp):
AGATATGATATGAAATCTTAGA
Found at i:14550282 original size:27 final size:27
Alignment explanation
Indices: 14550244--14550297 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
14550234 GCCAGAAGAT
14550244 GTGGATTTGAGTGCATTAAAACGCATA
1 GTGGATTTGAGTGCATTAAAACGCATA
* *
14550271 GTGGATTTGAGTGCGTTAAAGCGCATA
1 GTGGATTTGAGTGCATTAAAACGCATA
14550298 ATTCTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.30
Consensus pattern (27 bp):
GTGGATTTGAGTGCATTAAAACGCATA
Found at i:14552459 original size:28 final size:28
Alignment explanation
Indices: 14552418--14552473 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
14552408 CACTTAGCGA
14552418 ACCCTCTTCACCAACTATTCATTTGAGG
1 ACCCTCTTCACCAACTATTCATTTGAGG
* *
14552446 ACCCTCTTCGCCAACTGTTCATTTGAGG
1 ACCCTCTTCACCAACTATTCATTTGAGG
14552474 CTTACTTCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.21, C:0.32, G:0.14, T:0.32
Consensus pattern (28 bp):
ACCCTCTTCACCAACTATTCATTTGAGG
Found at i:14556307 original size:14 final size:14
Alignment explanation
Indices: 14556288--14556327 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
14556278 CATGTCTATA
14556288 TTAAATAATAAAAT
1 TTAAATAATAAAAT
**
14556302 TTAAATTGTATAAAT
1 TTAAATAATA-AAAT
14556317 TTAAATAATAA
1 TTAAATAATAA
14556328 TTAAAAGTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (14 bp):
TTAAATAATAAAAT
Found at i:14559949 original size:41 final size:42
Alignment explanation
Indices: 14559890--14559972 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 42
14559880 ATCAAGAACC
14559890 ATTTTTTAAAAAGAAAATAAGTTATATCATTATGAAGGTGAT
1 ATTTTTTAAAAAGAAAATAAGTTATATCATTATGAAGGTGAT
* *
14559932 ATTTTTTTAAAA-AAAATAAGTTATATCGTTATGAAGGTGAT
1 ATTTTTTAAAAAGAAAATAAGTTATATCATTATGAAGGTGAT
14559973 GAGGTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 28 0.72
42 11 0.28
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.40
Consensus pattern (42 bp):
ATTTTTTAAAAAGAAAATAAGTTATATCATTATGAAGGTGAT
Found at i:14560215 original size:19 final size:19
Alignment explanation
Indices: 14560193--14560229 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14560183 AAATCTTAAA
14560193 TTAAATAATAAAATATTAT
1 TTAAATAATAAAATATTAT
* *
14560212 TTAAATTATTAAATATTA
1 TTAAATAATAAAATATTA
14560230 ATACTAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAAATAATAAAATATTAT
Found at i:14561152 original size:18 final size:18
Alignment explanation
Indices: 14561131--14561190 Score: 66
Period size: 18 Copynumber: 3.1 Consensus size: 18
14561121 ATAAAGAAAG
14561131 AAAAAGAAATAGAAAGAA
1 AAAAAGAAATAGAAAGAA
*
14561149 AAAACGAAATAGAAAGGAA
1 AAAAAGAAATAGAAA-GAA
14561168 AAGGAAAGAAAATGAGAAAGAA
1 AA--AAAG-AAAT-AGAAAGAA
14561190 A
1 A
14561191 CAGACGCAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 14 0.40
19 5 0.14
21 3 0.09
22 8 0.23
23 5 0.14
ACGTcount: A:0.72, C:0.02, G:0.22, T:0.05
Consensus pattern (18 bp):
AAAAAGAAATAGAAAGAA
Found at i:14565412 original size:34 final size:35
Alignment explanation
Indices: 14565339--14565448 Score: 145
Period size: 34 Copynumber: 3.2 Consensus size: 35
14565329 CCTGTTCCTG
*
14565339 CACATGGAGGAAGGCTTACAAGGGGTCTTGCTCCCA
1 CACATGGGGGAAGGCTTACAA-GGGTCTTGCTCCCA
* *
14565375 CACATGGGGGAA-GCTTAC-AGGAGTCCTACTCCCA
1 CACATGGGGGAAGGCTTACAAGG-GTCTTGCTCCCA
*
14565409 CACAT-GGGGAAGGCTTACGAGGGTCTTGCTCCCA
1 CACATGGGGGAAGGCTTACAAGGGTCTTGCTCCCA
14565443 CACATG
1 CACATG
14565449 AGAGACACTT
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
33 8 0.12
34 37 0.57
35 9 0.14
36 11 0.17
ACGTcount: A:0.25, C:0.27, G:0.29, T:0.19
Consensus pattern (35 bp):
CACATGGGGGAAGGCTTACAAGGGTCTTGCTCCCA
Found at i:14567342 original size:28 final size:29
Alignment explanation
Indices: 14567297--14567374 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 29
14567287 GCCCAAACAA
* *
14567297 GCCTACAT-ACATGCATATGGCCCACTAG
1 GCCTAAATCACATTCATATGGCCCACTAG
* * ** *
14567325 GCC-CAATCTCATTCATATGGCGTATTAG
1 GCCTAAATCACATTCATATGGCCCACTAG
14567353 GCCTAAATCACATTCATATGGC
1 GCCTAAATCACATTCATATGGC
14567375 TCATCCGGCC
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
27 2 0.05
28 21 0.54
29 16 0.41
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (29 bp):
GCCTAAATCACATTCATATGGCCCACTAG
Found at i:14567384 original size:29 final size:29
Alignment explanation
Indices: 14567329--14567395 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
14567319 CACTAGGCCC
* *
14567329 AATCTCATTCATATGGCGTATTAGGCCTA
1 AATCACATTCATATGGCGTATCAGGCCTA
* *
14567358 AATCACATTCATATGGC-TCATCCGGCCTG
1 AATCACATTCATATGGCGT-ATCAGGCCTA
14567387 AATCA-ATTC
1 AATCACATTC
14567396 TAAGCCATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 5 0.15
29 28 0.85
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.31
Consensus pattern (29 bp):
AATCACATTCATATGGCGTATCAGGCCTA
Found at i:14567718 original size:42 final size:42
Alignment explanation
Indices: 14567659--14567753 Score: 181
Period size: 42 Copynumber: 2.3 Consensus size: 42
14567649 TGTAGTGTAT
*
14567659 GTACACACCTTCTGCTTTATATCAAGCTATCATAGGGTAGAA
1 GTACACACCTTCGGCTTTATATCAAGCTATCATAGGGTAGAA
14567701 GTACACACCTTCGGCTTTATATCAAGCTATCATAGGGTAGAA
1 GTACACACCTTCGGCTTTATATCAAGCTATCATAGGGTAGAA
14567743 GTACACACCTT
1 GTACACACCTT
14567754 ATCACCTGGA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (42 bp):
GTACACACCTTCGGCTTTATATCAAGCTATCATAGGGTAGAA
Found at i:14569471 original size:302 final size:303
Alignment explanation
Indices: 14568925--14569533 Score: 1148
Period size: 302 Copynumber: 2.0 Consensus size: 303
14568915 ACCTCTCAAA
*
14568925 TCCATAGCATGCTTCTCGCCACTGCCCCCTAGGCATTCTTATGCCATATTTCCACCAAACATATT
1 TCCATAGCATGCTTCTCGCCACTGCCCCCTAGGCACTCTTATGCCATATTTCCACCAAACATATT
*
14568990 TATAAGGCCTAAATGCTAGCTTCCCTACTAATTATATGCACAATAAAAATTTTCGCCAAGGCCAG
66 TATAAGGCCTAAATGCTAGCTTCCCTACTAATTATATGCACAATAAAAATTTTCGCCAAGGCCAA
14569055 GACTTGAACCCTGGACTTCCTGCTTGCTACCAACACCTTTTGCCACTAAGCCAAGCATTACCTTG
131 GACTTGAACCCTGGACTTCCTGCTTGCTACCAACACCTTTTGCCACTAAGCCAAGCATTACCTTG
*
14569120 TGTTAAATTTTACCAGGCCTTATTAATAAGCCTTCCACCTAATGCTCAGGGTATTTT-TAAAAAA
196 TGTTAAATTTTACCAGGCCTTATTAATAAGCCTTCCACCTAATGCTCAGGGTATTTTAAAAAAAA
14569184 ATGCAAAATTTTGCTAAAGCCCTGGATCGAACCCAGAACTTTT
261 ATGCAAAATTTTGCTAAAGCCCTGGATCGAACCCAGAACTTTT
* *
14569227 TCCATAGTATGCTTCTCGCCACTGCCCCCTAGGCACTCTTATGTCATATTTCCACCAAACATATT
1 TCCATAGCATGCTTCTCGCCACTGCCCCCTAGGCACTCTTATGCCATATTTCCACCAAACATATT
*
14569292 TATAAGGCCTAAATGCTAGCTTCCCTACTAATTATATGCGCAATAAAAATTTTCGCCAAGGCCAA
66 TATAAGGCCTAAATGCTAGCTTCCCTACTAATTATATGCACAATAAAAATTTTCGCCAAGGCCAA
*
14569357 GACTTGAACCCTGGACTTCCTGCTTGCTACCAACGCCTTTTGCCACTAAGCCAAGCATTACCTTG
131 GACTTGAACCCTGGACTTCCTGCTTGCTACCAACACCTTTTGCCACTAAGCCAAGCATTACCTTG
14569422 TGTTAAATTTTACCAGGCCTTATTAATAAGCCTTCCACCTAATGCTCAGGGTATTTTAAAAAAAA
196 TGTTAAATTTTACCAGGCCTTATTAATAAGCCTTCCACCTAATGCTCAGGGTATTTTAAAAAAAA
14569487 ATGCAAAATTTTGCTAAAGCCCTGGATCGAACCCAGAACTTTT
261 ATGCAAAATTTTGCTAAAGCCCTGGATCGAACCCAGAACTTTT
14569530 TCCA
1 TCCA
14569534 CACTACCAAC
Statistics
Matches: 299, Mismatches: 7, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
302 246 0.82
303 53 0.18
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (303 bp):
TCCATAGCATGCTTCTCGCCACTGCCCCCTAGGCACTCTTATGCCATATTTCCACCAAACATATT
TATAAGGCCTAAATGCTAGCTTCCCTACTAATTATATGCACAATAAAAATTTTCGCCAAGGCCAA
GACTTGAACCCTGGACTTCCTGCTTGCTACCAACACCTTTTGCCACTAAGCCAAGCATTACCTTG
TGTTAAATTTTACCAGGCCTTATTAATAAGCCTTCCACCTAATGCTCAGGGTATTTTAAAAAAAA
ATGCAAAATTTTGCTAAAGCCCTGGATCGAACCCAGAACTTTT
Found at i:14569994 original size:16 final size:17
Alignment explanation
Indices: 14569973--14570007 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
14569963 AATTTAAATT
*
14569973 AATTAATTCA-TTTCTC
1 AATTAAATCATTTTCTC
14569989 AATTAAATCATTTTCTC
1 AATTAAATCATTTTCTC
14570006 AA
1 AA
14570008 CCCGATTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTAAATCATTTTCTC
Found at i:14573008 original size:52 final size:52
Alignment explanation
Indices: 14572946--14573051 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
14572936 TAAGATATCA
14572946 AAAGTAACAAAAAGTTTTCATCCAAACAACTTACACAACCAAGTTCATACTT
1 AAAGTAACAAAAAGTTTTCATCCAAACAACTTACACAACCAAGTTCATACTT
14572998 AAAGTAACAAAAAGTTTTCATCCAAACAACTTACACAACCAAGTTCATACTT
1 AAAGTAACAAAAAGTTTTCATCCAAACAACTTACACAACCAAGTTCATACTT
14573050 AA
1 AA
14573052 CTCTTTACAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.47, C:0.23, G:0.06, T:0.25
Consensus pattern (52 bp):
AAAGTAACAAAAAGTTTTCATCCAAACAACTTACACAACCAAGTTCATACTT
Found at i:14578547 original size:17 final size:16
Alignment explanation
Indices: 14578520--14578561 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
14578510 ATTAGAATTT
14578520 ATATATTTTA-TAATTAA
1 ATAT-TTTTATTAA-TAA
14578537 ATACTTTTTATTAATAA
1 ATA-TTTTTATTAATAA
14578554 ATATTTTT
1 ATATTTTT
14578562 CAAAAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 5 0.22
17 14 0.61
18 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
ATATTTTTATTAATAA
Found at i:14580441 original size:14 final size:14
Alignment explanation
Indices: 14580422--14580464 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
14580412 AATTTAAAAC
*
14580422 ATTATATAAATTTA
1 ATTATATAAATATA
*
14580436 ATTATAAAAATATA
1 ATTATATAAATATA
*
14580450 ATAATATAAA-ATA
1 ATTATATAAATATA
14580463 AT
1 AT
14580465 ACATTTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 5 0.20
14 20 0.80
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATTATATAAATATA
Found at i:14582010 original size:22 final size:22
Alignment explanation
Indices: 14581976--14582018 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
14581966 CACCCAAACA
14581976 ATAATAACAAAAT-AGCAGCAAC
1 ATAATAACAAAATGA-CAGCAAC
**
14581998 ATAATAATGAAATGACAGCAA
1 ATAATAACAAAATGACAGCAA
14582019 AACAGTGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.58, C:0.14, G:0.12, T:0.16
Consensus pattern (22 bp):
ATAATAACAAAATGACAGCAAC
Found at i:14582683 original size:16 final size:15
Alignment explanation
Indices: 14582641--14582686 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
14582631 TATTGAACAC
14582641 TTTATAAATTTT-T-
1 TTTATAAATTTTATA
**
14582654 TTTATAAAGGTTATA
1 TTTATAAATTTTATA
14582669 TATTATAAATTTTATA
1 T-TTATAAATTTTATA
14582685 TT
1 TT
14582687 ATTTTTTACT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
15 2 0.08
16 13 0.50
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (15 bp):
TTTATAAATTTTATA
Found at i:14583799 original size:18 final size:19
Alignment explanation
Indices: 14583765--14583800 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14583755 TTAGATTAAA
14583765 AAAATAAAAATTATTTTAT
1 AAAATAAAAATTATTTTAT
*
14583784 AAAATAATAA-TATTTTA
1 AAAATAAAAATTATTTTA
14583801 GTAATAGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATAAAAATTATTTTAT
Found at i:14588516 original size:21 final size:22
Alignment explanation
Indices: 14588487--14588543 Score: 89
Period size: 21 Copynumber: 2.6 Consensus size: 22
14588477 TTTAGGTTTC
*
14588487 TTTTATTTATTTGGGCTTGTAA
1 TTTTTTTTATTTGGGCTTGTAA
14588509 -TTTTTTTATTTGGGCTTGTAA
1 TTTTTTTTATTTGGGCTTGTAA
14588530 TTTATTTTTATTTG
1 TTT-TTTTTATTTG
14588544 TTTGTAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 20 0.62
22 2 0.06
23 10 0.31
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.65
Consensus pattern (22 bp):
TTTTTTTTATTTGGGCTTGTAA
Found at i:14591501 original size:26 final size:26
Alignment explanation
Indices: 14591465--14591525 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
14591455 ACCTGTAAAT
* *
14591465 CCTTTATGGTGATTTATTTGGGGAAG
1 CCTTTGTGGTGATTTATTTGGGAAAG
14591491 CCTTTGTGGTGATTTATTTGGGAAAG
1 CCTTTGTGGTGATTTATTTGGGAAAG
14591517 CCTTTGTGG
1 CCTTTGTGG
14591526 CAAGTCATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.16, C:0.10, G:0.31, T:0.43
Consensus pattern (26 bp):
CCTTTGTGGTGATTTATTTGGGAAAG
Found at i:14591518 original size:77 final size:76
Alignment explanation
Indices: 14591387--14591575 Score: 222
Period size: 77 Copynumber: 2.5 Consensus size: 76
14591377 TTGTTTGGGA
* * * ** *
14591387 AACCTTTATAGG-GATTTATTTGAGAAGACTTTGTGATGATTTATTTAGGGAAGCCTCTGTTTCG
1 AACCTTTAT-GGTGATTTATTTGGGAAGCCTTTGTGGTGATTTATTTAGGGAAGCCTCTGTGGCA
14591451 AGTCACCTGTA-
65 AGTCACCTGTAC
*
14591462 AATCCTTTATGGTGATTTATTTGGGGAAGCCTTTGTGGTGATTTATTT-GGGAAAGCCTTTGTGG
1 AA-CCTTTATGGTGATTTATTT-GGGAAGCCTTTGTGGTGATTTATTTAGGG-AAGCCTCTGTGG
*
14591526 CAAGTCATCTGTAC
63 CAAGTCACCTGTAC
* * *
14591540 AACTTTTGTGGTAATTTATTTGGGAAGCCTTTGTGG
1 AACCTTTATGGTGATTTATTTGGGAAGCCTTTGTGG
14591576 CAGGTTATCT
Statistics
Matches: 98, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
75 4 0.04
76 34 0.35
77 58 0.59
78 2 0.02
ACGTcount: A:0.22, C:0.12, G:0.25, T:0.40
Consensus pattern (76 bp):
AACCTTTATGGTGATTTATTTGGGAAGCCTTTGTGGTGATTTATTTAGGGAAGCCTCTGTGGCAA
GTCACCTGTAC
Found at i:14591583 original size:25 final size:25
Alignment explanation
Indices: 14591478--14591583 Score: 79
Period size: 25 Copynumber: 4.2 Consensus size: 25
14591468 TTATGGTGAT
** *
14591478 TTATTTGGGGAAGCCTTTGTGGTGAT
1 TTATTT-GGGAAGCCTTTGTGGCAAG
14591504 TTATTTGGGAAAGCCTTTGTGGCAAG
1 TTATTTGGG-AAGCCTTTGTGGCAAG
* * * * * * *
14591530 TCATCT-GTACAACTTTTGTGGTAAT
1 TTATTTGGGA-AGCCTTTGTGGCAAG
*
14591555 TTATTTGGGAAGCCTTTGTGGCAGG
1 TTATTTGGGAAGCCTTTGTGGCAAG
14591580 TTAT
1 TTAT
14591584 CTGTAACGTC
Statistics
Matches: 59, Mismatches: 18, Indels: 7
0.70 0.21 0.08
Matches are distributed among these distances:
24 1 0.02
25 33 0.56
26 25 0.42
ACGTcount: A:0.20, C:0.11, G:0.28, T:0.41
Consensus pattern (25 bp):
TTATTTGGGAAGCCTTTGTGGCAAG
Found at i:14591588 original size:50 final size:51
Alignment explanation
Indices: 14591493--14591588 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 51
14591483 TGGGGAAGCC
*
14591493 TTTGTGGTGATTTATTTGGGAAAGCCTTTGTGGCAAGTCATCTGTACAACT
1 TTTGTGGTAATTTATTTGGGAAAGCCTTTGTGGCAAGTCATCTGTACAACT
* *
14591544 TTTGTGGTAATTTATTTGGG-AAGCCTTTGTGGCAGGTTATCTGTA
1 TTTGTGGTAATTTATTTGGGAAAGCCTTTGTGGCAAGTCATCTGTA
14591589 ACGTCTTTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
50 23 0.55
51 19 0.45
ACGTcount: A:0.20, C:0.11, G:0.27, T:0.42
Consensus pattern (51 bp):
TTTGTGGTAATTTATTTGGGAAAGCCTTTGTGGCAAGTCATCTGTACAACT
Found at i:14591598 original size:50 final size:51
Alignment explanation
Indices: 14591492--14591602 Score: 156
Period size: 50 Copynumber: 2.2 Consensus size: 51
14591482 TTGGGGAAGC
*
14591492 CTTTGTGGTGATTTATTTGGGAAAGCCTTTGTGGCAAGTCATCTGTACAACT
1 CTTTGTGGTAATTTATTTGGGAAAGCCTTTGTGGCAAGTCATCTGTA-AACT
* *
14591544 -TTTGTGGTAATTTATTTGGG-AAGCCTTTGTGGCAGGTTATCTGT-AACGT
1 CTTTGTGGTAATTTATTTGGGAAAGCCTTTGTGGCAAGTCATCTGTAAAC-T
14591593 CTTTGTGGTA
1 CTTTGTGGTA
14591603 GGTTACCTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
48 3 0.06
49 1 0.02
50 31 0.57
51 19 0.35
ACGTcount: A:0.19, C:0.13, G:0.27, T:0.41
Consensus pattern (51 bp):
CTTTGTGGTAATTTATTTGGGAAAGCCTTTGTGGCAAGTCATCTGTAAACT
Found at i:14593851 original size:7 final size:7
Alignment explanation
Indices: 14593841--14593884 Score: 70
Period size: 7 Copynumber: 6.1 Consensus size: 7
14593831 ATATTTGAAA
14593841 TTTAATCT
1 TTTAAT-T
*
14593849 TTAAATT
1 TTTAATT
14593856 TTTAATT
1 TTTAATT
14593863 TTTAATT
1 TTTAATT
14593870 TTTAATT
1 TTTAATT
14593877 TTTAATT
1 TTTAATT
14593884 T
1 T
14593885 AATAATTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
7 29 0.85
8 5 0.15
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (7 bp):
TTTAATT
Found at i:14598954 original size:20 final size:20
Alignment explanation
Indices: 14598929--14598967 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14598919 CAATAAACTT
*
14598929 TTGTGATATTTAGAAATTTA
1 TTGTGACATTTAGAAATTTA
14598949 TTGTGACATTTAGAAATTT
1 TTGTGACATTTAGAAATTT
14598968 GTCATATTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.49
Consensus pattern (20 bp):
TTGTGACATTTAGAAATTTA
Found at i:14600682 original size:30 final size:30
Alignment explanation
Indices: 14600646--14600703 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
14600636 ATCCAAAGAC
14600646 ACAAAGGGATAATTAATGATGCACTATGAT
1 ACAAAGGGATAATTAATGATGCACTATGAT
14600676 ACAAAGGGATAATTAATGATGCACTATG
1 ACAAAGGGATAATTAATGATGCACTATG
14600704 TTCTTGTCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (30 bp):
ACAAAGGGATAATTAATGATGCACTATGAT
Found at i:14602864 original size:406 final size:406
Alignment explanation
Indices: 14602112--14602881 Score: 1459
Period size: 406 Copynumber: 1.9 Consensus size: 406
14602102 TAAAAACATA
*
14602112 AAAATTACAAGAAAAAGACTTAATTGCGCTAACCAATTTATGGATTTAAGATGTATTTCTCTCCC
1 AAAATTACAAGAAAAAGACTTAATTGCGCTAACCAATTTATGGATTGAAGATGTATTTCTCTCCC
*
14602177 TTCCCACCGAACATGCGTATATTATATTAAGTTTAAATTATTAATTATATAATTATACCATCCAC
66 TTCCCACCGAACATGCATATATTATATTAAGTTTAAATTATTAATTATATAATTATACCATCCAC
*
14602242 TTACATGAAATTTAACATGGTATAATTTCTATTTTGAACCTTGGGTTAATTACAATTTAAGTCCT
131 TTACATGAAATTTAACATGGTATAATTTCTATTTTGAACATTGGGTTAATTACAATTTAAGTCCT
*
14602307 TAAGCCATTTACTAATTAAAAATCTATAGCGATTAAACTTTACGATTTAGTCCCTGGACCTCAAT
196 TAAGCCATTTACTAATTAAAAATCTATAGCGATTAAACTTTACAATTTAGTCCCTGGACCTCAAT
*
14602372 TAAGCCCTAATACGGCTAAATTACGTGTCCAAAATTCAATTCACTTATAAAACAACTCCATAAAT
261 TAAGCCCTAATACGACTAAATTACGTGTCCAAAATTCAATTCACTTATAAAACAACTCCATAAAT
14602437 ATTTTTATTCAAATTTAATAAAAATATGTACAGGTTCGAAGATGTATTTCTCTCCCTTCCCACCG
326 ATTTTTATTCAAATTTAATAAAAATATGTACAGGTTCGAAGATGTATTTCTCTCCCTTCCCACCG
14602502 AACATGCATATATTAT
391 AACATGCATATATTAT
14602518 AAAATTACAAGAAAAAGACTTAATTGCGCTAACCAATTTATGGATTGAAGATGTATTTCTCTCCC
1 AAAATTACAAGAAAAAGACTTAATTGCGCTAACCAATTTATGGATTGAAGATGTATTTCTCTCCC
14602583 TTCCCACCGAACATGCATATATTATATTAAGTTTAAATTATTAATTATATAATTATACCATCCAC
66 TTCCCACCGAACATGCATATATTATATTAAGTTTAAATTATTAATTATATAATTATACCATCCAC
*
14602648 TTACATGAAATTTAACATGGTATAATTTCTATTTTGAACATTGGGTTAATTGCAATTTAAGTCCT
131 TTACATGAAATTTAACATGGTATAATTTCTATTTTGAACATTGGGTTAATTACAATTTAAGTCCT
*
14602713 TAAGCCATTTACTAATTAAAAATCTATAGCGATTAAACTTTACAATTTAGTCCCTGGACGTCAAT
196 TAAGCCATTTACTAATTAAAAATCTATAGCGATTAAACTTTACAATTTAGTCCCTGGACCTCAAT
* *
14602778 TAAGCCCTAATACGACTAAATTACTTGTCCAACATTCAATTCACTTATAAAACAACTCCATAAAT
261 TAAGCCCTAATACGACTAAATTACGTGTCCAAAATTCAATTCACTTATAAAACAACTCCATAAAT
14602843 ATTTTTATTCAAATTTAATAAAAATATGTACAGGTTCGA
326 ATTTTTATTCAAATTTAATAAAAATATGTACAGGTTCGA
14602882 TTTACAAAAA
Statistics
Matches: 355, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
406 355 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.36
Consensus pattern (406 bp):
AAAATTACAAGAAAAAGACTTAATTGCGCTAACCAATTTATGGATTGAAGATGTATTTCTCTCCC
TTCCCACCGAACATGCATATATTATATTAAGTTTAAATTATTAATTATATAATTATACCATCCAC
TTACATGAAATTTAACATGGTATAATTTCTATTTTGAACATTGGGTTAATTACAATTTAAGTCCT
TAAGCCATTTACTAATTAAAAATCTATAGCGATTAAACTTTACAATTTAGTCCCTGGACCTCAAT
TAAGCCCTAATACGACTAAATTACGTGTCCAAAATTCAATTCACTTATAAAACAACTCCATAAAT
ATTTTTATTCAAATTTAATAAAAATATGTACAGGTTCGAAGATGTATTTCTCTCCCTTCCCACCG
AACATGCATATATTAT
Found at i:14610713 original size:14 final size:14
Alignment explanation
Indices: 14610694--14610720 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14610684 CCAATTTGTG
14610694 AAAATAAAAATAAT
1 AAAATAAAAATAAT
14610708 AAAATAAAAATAA
1 AAAATAAAAATAA
14610721 AATAAAGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAAAAATAAT
Found at i:14614373 original size:43 final size:43
Alignment explanation
Indices: 14614320--14614543 Score: 195
Period size: 43 Copynumber: 5.2 Consensus size: 43
14614310 TTTAGAAAGC
* **
14614320 GCCGTTAAAGAACGTGAACTTTAGCTACGCATTTCACACAAAT
1 GCCGCTAAAGAACGTGAACTTTAGCGGCGCATTTCACACAAAT
* * * * *
14614363 GCCGCTAAAGAACGTG-ACTTTTAACGACTCCTTTCACACAAAC
1 GCCGCTAAAGAACGTGAAC-TTTAGCGGCGCATTTCACACAAAT
* * * *
14614406 GCCGCTAAAGAATGTG-ACATTTAGCGGCACATTTCATACAAGT
1 GCCGCTAAAGAACGTGAAC-TTTAGCGGCGCATTTCACACAAAT
* * * *
14614449 GCCACTAAAGAACAT-AACCTTTAGCGGCGCTTTTCACACAAAC
1 GCCGCTAAAGAACGTGAA-CTTTAGCGGCGCATTTCACACAAAT
* * * * * *
14614492 GTCACTAAAGAACATGACCTTTAGCGGCGC-TTTTACAAAAAT
1 GCCGCTAAAGAACGTGAACTTTAGCGGCGCATTTCACACAAAT
14614534 GCCGCTAAAG
1 GCCGCTAAAG
14614544 GTCATGTTCT
Statistics
Matches: 147, Mismatches: 30, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
42 19 0.13
43 126 0.86
44 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAGAACGTGAACTTTAGCGGCGCATTTCACACAAAT
Found at i:14614439 original size:86 final size:86
Alignment explanation
Indices: 14614349--14614543 Score: 221
Period size: 86 Copynumber: 2.3 Consensus size: 86
14614339 TTTAGCTACG
* * * * *
14614349 CATTTCACACAAATGCCGCTAAAGAACGTGACTTTTAACGACTCCTTTCACACAAACGCCGCTAA
1 CATTTCACACAAATGCCGCTAAAGAACATAACCTTTAACGACGCCTTTCACACAAACGCCACTAA
**
14614414 AGAATGTGACATTTAGCGGCA
66 AGAACATGACATTTAGCGGCA
* * * * * * *
14614435 CATTTCATACAAGTGCCACTAAAGAACATAACCTTTAGCGGCGCTTTTCACACAAACGTCACTAA
1 CATTTCACACAAATGCCGCTAAAGAACATAACCTTTAACGACGCCTTTCACACAAACGCCACTAA
* *
14614500 AGAACATGACCTTTAGCGGCG
66 AGAACATGACATTTAGCGGCA
* *
14614521 C-TTTTACAAAAATGCCGCTAAAG
1 CATTTCACACAAATGCCGCTAAAG
14614544 GTCATGTTCT
Statistics
Matches: 88, Mismatches: 21, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
85 17 0.19
86 71 0.81
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (86 bp):
CATTTCACACAAATGCCGCTAAAGAACATAACCTTTAACGACGCCTTTCACACAAACGCCACTAA
AGAACATGACATTTAGCGGCA
Found at i:14617949 original size:13 final size:14
Alignment explanation
Indices: 14617923--14617951 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
14617913 ACTAAAGATG
14617923 AATTAAACCATTAT
1 AATTAAACCATTAT
14617937 AATTAAA-CATTAT
1 AATTAAACCATTAT
14617950 AA
1 AA
14617952 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:14618224 original size:12 final size:12
Alignment explanation
Indices: 14618209--14618234 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14618199 ATCATCCTCT
14618209 TCATCAGATTCA
1 TCATCAGATTCA
14618221 TCATCAGATTCA
1 TCATCAGATTCA
14618233 TC
1 TC
14618235 CCTCGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:14620073 original size:9 final size:9
Alignment explanation
Indices: 14620059--14620086 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
14620049 TATGTATTAC
14620059 GTAAGTTAT
1 GTAAGTTAT
14620068 GTAAGTTAT
1 GTAAGTTAT
14620077 GTAAGTTAT
1 GTAAGTTAT
14620086 G
1 G
14620087 ATATATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.25, T:0.43
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:14620934 original size:2 final size:2
Alignment explanation
Indices: 14620927--14620981 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
14620917 TGCTTGTTTA
14620927 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
14620969 AC AC AC AC AC AC A
1 AC AC AC AC AC AC A
14620982 TATATGCATC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:14623164 original size:40 final size:40
Alignment explanation
Indices: 14623120--14623197 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
14623110 TTACAGTACG
*
14623120 CTTGGTGTGTAAGGCTGGATGGGTCGATTTTATCCCCATA
1 CTTGGTGTGTAAGGCTGGATGGGTCAATTTTATCCCCATA
* *
14623160 CTTGGTGTGTAGGGCTGGGTGGGTCAATTTTATCCCCA
1 CTTGGTGTGTAAGGCTGGATGGGTCAATTTTATCCCCA
14623198 CATGGTATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.15, C:0.18, G:0.32, T:0.35
Consensus pattern (40 bp):
CTTGGTGTGTAAGGCTGGATGGGTCAATTTTATCCCCATA
Found at i:14624507 original size:7 final size:7
Alignment explanation
Indices: 14624496--14624526 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
14624486 ATGAATCATT
14624496 AACCCTA
1 AACCCTA
*
14624503 CACCCTA
1 AACCCTA
14624510 AACCCTA
1 AACCCTA
14624517 AACCCTA
1 AACCCTA
14624524 AAC
1 AAC
14624527 TTCAACCACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.42, C:0.45, G:0.00, T:0.13
Consensus pattern (7 bp):
AACCCTA
Found at i:14624563 original size:20 final size:20
Alignment explanation
Indices: 14624510--14624566 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
14624500 CTACACCCTA
*
14624510 AACCCTAAACCCTAAACTTC
1 AACCCTAAACCTTAAACTTC
*
14624530 AACCACT-AACCTTAAACTTT
1 AACC-CTAAACCTTAAACTTC
*
14624550 AACCCTAAATCTTAAAC
1 AACCCTAAACCTTAAAC
14624567 ACTGAAACCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 2 0.06
20 28 0.88
21 2 0.06
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.25
Consensus pattern (20 bp):
AACCCTAAACCTTAAACTTC
Found at i:14627295 original size:16 final size:16
Alignment explanation
Indices: 14627253--14627295 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
14627243 AAAAAAGGAA
*
14627253 AGAAGTGAGAGAGGGG
1 AGAAGGGAGAGAGGGG
*
14627269 AGAAGGAAGAGAGGGG
1 AGAAGGGAGAGAGGGG
14627285 A-AAGGG-GAGAG
1 AGAAGGGAGAGAG
14627296 CTCCGGCCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 5 0.21
15 4 0.17
16 15 0.62
ACGTcount: A:0.42, C:0.00, G:0.56, T:0.02
Consensus pattern (16 bp):
AGAAGGGAGAGAGGGG
Found at i:14628939 original size:217 final size:217
Alignment explanation
Indices: 14628660--14629162 Score: 916
Period size: 217 Copynumber: 2.3 Consensus size: 217
14628650 TTGACAACAG
* * ** * *
14628660 AAATTGAAATTACCTCAACGTGTTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGA
14628725 AAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTTGAACACAGAATT
66 AAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTTGAACACAGAATT
* *
14628790 TGCCAAACAGATTTTGAAAATACCTTGGCATGTGATCCGAGGCTCAACTCACCTCTCGCAATATG
131 TGCCAAACAGATTTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
14628855 AGTTGAAATTAAAACACACAAA
196 AGTTGAAATTAAAACACACAAA
* *
14628877 AATTTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGCTGATTTTGA
1 AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGA
14628942 AAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTTGAACACAGAATT
66 AAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTTGAACACAGAATT
14629007 TGCCAAACAGATTTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
131 TGCCAAACAGATTTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
14629072 AGTTGAAATTAAAACACACAAA
196 AGTTGAAATTAAAACACACAAA
14629094 AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGA
1 AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGA
14629159 AAAA
66 AAAA
14629163 CAGAATTTGC
Statistics
Matches: 274, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
217 274 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (217 bp):
AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGA
AAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTTGAACACAGAATT
TGCCAAACAGATTTTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGAAATTAAAACACACAAA
Found at i:14629129 original size:75 final size:76
Alignment explanation
Indices: 14629020--14629478 Score: 510
Period size: 75 Copynumber: 5.8 Consensus size: 76
14629010 CAAACAGATT
* *
14629020 TTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAA
1 TTGAAAATACCTCAGCA-GTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAAATTAAA
14629085 ACACACAAAAAA
65 ACACACAAAAAA
* **
14629097 TTGAAAATACCTCAGC-GTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAA
1 TTGAAAATACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAAATT--AA
* *
14629161 AACAGAATTTGCCAAACAGATT
64 AACA-CA-----CAAA-A-A-A
* *
14629183 TTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAA
1 TTGAAAATACCTCAGCA-GTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAAATTAAA
14629248 ACACACAAAAAA
65 ACACACAAAAAA
* * **
14629260 TTAAAAATACCTCAGC-GTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAA
1 TTGAAAATACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAAATT--AA
* *
14629324 AACAGAATTTGCCAAACAGATT
64 AACA-CA-----CAAA-A-A-A
* *
14629346 TTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAA
1 TTGAAAATACCTCAGCA-GTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAAATTAAA
14629411 ACACACAAAAAA
65 ACACACAAAAAA
*
14629423 TTGAAAATACCTCAGC-GTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGA
1 TTGAAAATACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGA
14629479 TTTTGAAAAA
Statistics
Matches: 323, Mismatches: 33, Indels: 54
0.79 0.08 0.13
Matches are distributed among these distances:
75 118 0.37
77 56 0.17
78 4 0.01
79 2 0.01
80 8 0.02
83 8 0.02
84 2 0.01
85 4 0.01
86 41 0.13
88 80 0.25
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.23
Consensus pattern (76 bp):
TTGAAAATACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAAATTAAAA
CACACAAAAAA
Found at i:14629238 original size:163 final size:163
Alignment explanation
Indices: 14628962--14629490 Score: 1006
Period size: 163 Copynumber: 3.2 Consensus size: 163
14628952 ATTAAAAGGT
* * *
14628962 TCAACCCACCTCTCGCAATATGAGTTGATTTTTG-AACACAGAATTTGCCAAACAGATTTTGAAA
1 TCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAGAATTTGCCAAACAGATTTTGAAA
14629026 ATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAC
65 ATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAC
14629091 AAAAAATTGAAAATACCTCAGCGTGCCCCGAGGC
130 AAAAAATTGAAAATACCTCAGCGTGCCCCGAGGC
14629125 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAGAATTTGCCAAACAGATTTTGAAAA
1 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAGAATTTGCCAAACAGATTTTGAAAA
14629190 TACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACACA
66 TACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACACA
*
14629255 AAAAATTAAAAATACCTCAGCGTGCCCCGAGGC
131 AAAAATTGAAAATACCTCAGCGTGCCCCGAGGC
14629288 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAGAATTTGCCAAACAGATTTTGAAAA
1 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAGAATTTGCCAAACAGATTTTGAAAA
14629353 TACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACACA
66 TACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACACA
14629418 AAAAATTGAAAATACCTCAGCGTGCCCCGAGGC
131 AAAAATTGAAAATACCTCAGCGTGCCCCGAGGC
14629451 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACA
1 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACA
14629491 AAAATTAAAA
Statistics
Matches: 360, Mismatches: 5, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
162 5 0.01
163 355 0.99
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (163 bp):
TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAGAATTTGCCAAACAGATTTTGAAAA
TACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACACA
AAAAATTGAAAATACCTCAGCGTGCCCCGAGGC
Found at i:14629597 original size:122 final size:128
Alignment explanation
Indices: 14629372--14629603 Score: 332
Period size: 122 Copynumber: 1.9 Consensus size: 128
14629362 ATGTGACCCG
* *
14629372 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACACAAAAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACACAAAAAACTAAAAATACCTCA
14629437 GCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 GCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
* * * * *
14629500 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATT-TAA-A-AC-ATAAACTAAAAATACCTCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACACAAAAAACTAAAAATACCTCA
* * *
14629559 GCGTGCCCCGAGGCTCAACTCACTTCTCGCAATTTGAGTTGATTT
66 GCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTT
14629604 AAAAAATTTA
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
122 57 0.61
123 2 0.02
124 1 0.01
125 2 0.02
126 4 0.04
127 1 0.01
128 27 0.29
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (128 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACACAAAAAACTAAAAATACCTCA
GCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
Found at i:14645645 original size:14 final size:13
Alignment explanation
Indices: 14645623--14645675 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 13
14645613 GAATTATTAT
*
14645623 TTAATTAATTATAA
1 TTAAATAATTA-AA
14645637 TTAAATAATTAAA
1 TTAAATAATTAAA
14645650 GTTAGAA-AATTAAA
1 -TTA-AATAATTAAA
14645664 TTAAATTAATTA
1 TTAAA-TAATTA
14645676 GCCATTGTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
12 2 0.06
13 5 0.15
14 25 0.74
15 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (13 bp):
TTAAATAATTAAA
Found at i:14647263 original size:23 final size:22
Alignment explanation
Indices: 14647219--14647277 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
14647209 TAAGAGGTAT
*
14647219 TTACAAATCAAATC-TCTAAGA
1 TTACAAATCATATCTTCTAAGA
14647240 TTACAAAATCATATCTTCTAAGA
1 TTAC-AAATCATATCTTCTAAGA
*
14647263 TTACATATCATATCT
1 TTACAAATCATATCT
14647278 AAGATTGCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 4 0.12
22 19 0.56
23 11 0.32
ACGTcount: A:0.42, C:0.19, G:0.03, T:0.36
Consensus pattern (22 bp):
TTACAAATCATATCTTCTAAGA
Found at i:14647271 original size:17 final size:17
Alignment explanation
Indices: 14647249--14647301 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
14647239 ATTACAAAAT
14647249 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
14647266 CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTA
* *
14647285 CATATCCTCGAAGATTA
1 CATATCTTCTAAGATTA
14647302 TGTTTCCATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 15 0.50
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:14647280 original size:19 final size:20
Alignment explanation
Indices: 14647219--14647290 Score: 65
Period size: 19 Copynumber: 3.5 Consensus size: 20
14647209 TAAGAGGTAT
* *
14647219 TTACAAATCAAATCTCTAAGA
1 TTACATATCATAT-TCTAAGA
*
14647240 TTACAAAATCATATCTTCTAAGA
1 TTAC-ATATCATA--TTCTAAGA
14647263 TTACATATCATA-TCTAAGA
1 TTACATATCATATTCTAAGA
*
14647282 TTGCATATC
1 TTACATATC
14647291 CTCGAAGATT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
19 15 0.33
21 4 0.09
22 14 0.31
23 11 0.24
24 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.35
Consensus pattern (20 bp):
TTACATATCATATTCTAAGA
Found at i:14650707 original size:33 final size:34
Alignment explanation
Indices: 14650586--14650726 Score: 112
Period size: 33 Copynumber: 4.3 Consensus size: 34
14650576 AATTGATGGA
* *
14650586 TAAGACCATGGCTGGGCCATGGCAATA-TATGTG
1 TAAGACCATGGCTGGGCCATGGCAACACGATGTG
* * * * *
14650619 TAAGACCATAGCTAGGCTATGGCATC-CTGATG-A
1 TAAGACCATGGCTGGGCCATGGCAACAC-GATGTG
* ** ** *
14650652 TAAGACTATGTTTGGGATATGGCACCACGA-GTG
1 TAAGACCATGGCTGGGCCATGGCAACACGATGTG
*
14650685 TAAGACCATGGCTGGGCCATGGCAATAC-ATGTG
1 TAAGACCATGGCTGGGCCATGGCAACACGATGTG
14650718 TAAGACCAT
1 TAAGACCAT
14650727 AGTTGGACTA
Statistics
Matches: 81, Mismatches: 22, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
32 2 0.02
33 75 0.93
34 4 0.05
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (34 bp):
TAAGACCATGGCTGGGCCATGGCAACACGATGTG
Done.