Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 8 of 193
Found at i:2901469 original size:21 final size:19
Alignment explanation
Indices: 2901428--2901481 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 19
2901418 CATTTTAGTC
**
2901428 AAATAAATTATTGTATCGA
1 AAATAAATTATTGTAAAGA
2901447 AAATGAAATTTATTGTAAAGA
1 AAAT-AAA-TTATTGTAAAGA
*
2901468 AAA-AAATCATTGTA
1 AAATAAATTATTGTA
2901482 CTGAAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 7 0.23
19 7 0.23
20 3 0.10
21 13 0.43
ACGTcount: A:0.52, C:0.04, G:0.11, T:0.33
Consensus pattern (19 bp):
AAATAAATTATTGTAAAGA
Found at i:2902448 original size:18 final size:18
Alignment explanation
Indices: 2902425--2902459 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2902415 TTGATTAAAT
2902425 TTTATTAGTAAAATTTGA
1 TTTATTAGTAAAATTTGA
* *
2902443 TTTATTATTGAAATTTG
1 TTTATTAGTAAAATTTG
2902460 TTATTCAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (18 bp):
TTTATTAGTAAAATTTGA
Found at i:2904234 original size:2 final size:2
Alignment explanation
Indices: 2904221--2904251 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2904211 CGTTAATTTC
*
2904221 TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2904252 TTTTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:2916884 original size:52 final size:52
Alignment explanation
Indices: 2916806--2916962 Score: 305
Period size: 52 Copynumber: 3.0 Consensus size: 52
2916796 ATAGAAGTGC
*
2916806 TAACACTTTCTTTTACTGGTCAAACTAGTGACAATATTGCTCAAAGAATTAT
1 TAACACTTCCTTTTACTGGTCAAACTAGTGACAATATTGCTCAAAGAATTAT
2916858 TAACACTTCCTTTTACTGGTCAAACTAGTGACAATATTGCTCAAAGAATTAT
1 TAACACTTCCTTTTACTGGTCAAACTAGTGACAATATTGCTCAAAGAATTAT
2916910 TAACACTTCCTTTTACTGGTCAAACTAGTGACAATATTGCTCAAAGAATTAT
1 TAACACTTCCTTTTACTGGTCAAACTAGTGACAATATTGCTCAAAGAATTAT
2916962 T
1 T
2916963 TTCTCTAAAA
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 104 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (52 bp):
TAACACTTCCTTTTACTGGTCAAACTAGTGACAATATTGCTCAAAGAATTAT
Found at i:2917219 original size:27 final size:25
Alignment explanation
Indices: 2917170--2917238 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 25
2917160 AATATACAAA
* **
2917170 AATTAAAAATAAATA-ATCAATATAT
1 AATTAAAAATAATTATATTGATAT-T
2917195 AATTTAAAAA-ATATTATATTGATATT
1 AA-TTAAAAATA-ATTATATTGATATT
2917221 AATTAAAAATAATTATAT
1 AATTAAAAATAATTATAT
2917239 AGATTACTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
25 17 0.46
26 14 0.38
27 6 0.16
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (25 bp):
AATTAAAAATAATTATATTGATATT
Found at i:2918046 original size:15 final size:16
Alignment explanation
Indices: 2918026--2918066 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
2918016 ATGAGAGTAT
2918026 AATAAA-ATATTAAAA
1 AATAAATATATTAAAA
*
2918041 AATAAATATTTTAAAA
1 AATAAATATATTAAAA
2918057 ACA-AAATATA
1 A-ATAAATATA
2918067 CACGTCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 6 0.27
16 15 0.68
17 1 0.05
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAAATATATTAAAA
Found at i:2921717 original size:24 final size:25
Alignment explanation
Indices: 2921689--2921735 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
2921679 AATTCAGGTA
*
2921689 ATAAATAAT-ATATTAAGATTTTAC
1 ATAAAAAATAATATTAAGATTTTAC
*
2921713 ATAAAAAATAATATTAATATTTT
1 ATAAAAAATAATATTAAGATTTT
2921736 TATATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
ATAAAAAATAATATTAAGATTTTAC
Found at i:2923834 original size:17 final size:17
Alignment explanation
Indices: 2923801--2923834 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2923791 TATTTTTACT
* *
2923801 AATTTAAAATTTTTAAA
1 AATTTAAAAATTCTAAA
2923818 AATTTAAAAATTCTAAA
1 AATTTAAAAATTCTAAA
2923835 TAAAAATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
AATTTAAAAATTCTAAA
Found at i:2932051 original size:29 final size:29
Alignment explanation
Indices: 2932018--2932073 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
2932008 ATTCGATTTT
* *
2932018 TTTAATAATATAGAGATTAAATTGATACA
1 TTTAATAATAGAGAAATTAAATTGATACA
*
2932047 TTTAATAATAGAGAAATTAATTTGATA
1 TTTAATAATAGAGAAATTAAATTGATA
2932074 AATTCTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (29 bp):
TTTAATAATAGAGAAATTAAATTGATACA
Found at i:2932857 original size:31 final size:30
Alignment explanation
Indices: 2932799--2932859 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 30
2932789 ATTGAATTTA
2932799 AAATTTTAAAATTTAAAAAGTAAAAAGATT
1 AAATTTTAAAATTTAAAAAGTAAAAAGATT
*
2932829 AAATTTT-AAATTTACAAAGAGTACAAAGATT
1 AAATTTTAAAATTTA-AAA-AGTAAAAAGATT
2932860 TATAACATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 7 0.25
30 10 0.36
31 11 0.39
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (30 bp):
AAATTTTAAAATTTAAAAAGTAAAAAGATT
Found at i:2933632 original size:23 final size:23
Alignment explanation
Indices: 2933606--2933649 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
2933596 TTGTTTCATG
*
2933606 AAAAAATTTAAATTATAAAAAAT
1 AAAAAAATTAAATTATAAAAAAT
2933629 AAAAAAATTAAATTATAAAAA
1 AAAAAAATTAAATTATAAAAA
2933650 GAATGAGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (23 bp):
AAAAAAATTAAATTATAAAAAAT
Found at i:2937399 original size:11 final size:11
Alignment explanation
Indices: 2937372--2937402 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2937362 GGTTTATTTT
*
2937372 TAATTATTTAA
1 TAATTTTTTAA
2937383 TAATTTTTTAA
1 TAATTTTTTAA
2937394 TAATTTTTT
1 TAATTTTTT
2937403 TCATATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TAATTTTTTAA
Found at i:2940474 original size:28 final size:24
Alignment explanation
Indices: 2940424--2940478 Score: 65
Period size: 28 Copynumber: 2.1 Consensus size: 24
2940414 TTTTTTAATT
*
2940424 AAATTTATTGGTATAATATTTAAA
1 AAATTTATTGGTATAATAATTAAA
2940448 AAATTTATTTGGTAATCACATAATTAAA
1 AAATTTA-TTGGT-AT-A-ATAATTAAA
2940476 AAA
1 AAA
2940479 ATGACATCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 7 0.27
25 5 0.19
26 2 0.08
27 1 0.04
28 11 0.42
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (24 bp):
AAATTTATTGGTATAATAATTAAA
Found at i:2950431 original size:12 final size:14
Alignment explanation
Indices: 2950414--2950447 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2950404 TTATATTTTG
2950414 AATAAAAT-CA-AT
1 AATAAAATACATAT
2950426 AATAAAATACATAT
1 AATAAAATACATAT
2950440 AATAAAAT
1 AATAAAAT
2950448 TTGAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 2 0.10
14 10 0.50
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (14 bp):
AATAAAATACATAT
Found at i:2952307 original size:6 final size:6
Alignment explanation
Indices: 2952296--2952332 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
2952286 CAGGAGAGAA
2952296 GGGTGG GGGTGG GGGTGG GGGTGG TGGG-GG GGG-GG GG
1 GGGTGG GGGTGG GGGTGG GGGTGG -GGGTGG GGGTGG GG
2952333 AATATTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 7 0.23
6 20 0.67
7 3 0.10
ACGTcount: A:0.00, C:0.00, G:0.86, T:0.14
Consensus pattern (6 bp):
GGGTGG
Found at i:2956196 original size:173 final size:173
Alignment explanation
Indices: 2955785--2956199 Score: 485
Period size: 173 Copynumber: 2.4 Consensus size: 173
2955775 TGCTGGTCAT
* * *
2955785 ATACTAAAATATGAGGTCATAGTGGAATCGAATGTCATCCTATAGTGTTCAAGAGATGTTTCGAT
1 ATACTAAAATACGAGGTCATAGTGGAATCGAATGTCATCCTATAGTGTTCATGAGATGTTTCTAT
* ** *** *
2955850 TGAAATCACTATTATGTTGATGATGCCATAAAGCAATGTTAGTGTGGCTTGAGGGAAAAGAGAGT
66 TGTAATCACTATTACATTGATGATGCCATAAAGCAATGTTAGTGTGGCTTGAACCAAAAAAGAGT
**
2955915 CTCATCTCCAAGATGTCTCTAATCTGCTGGGTGGAACAGAAAA
131 CTCATCTCCAAGATGTCTCTAATCTGCTGGAAGGAACAGAAAA
* * * * ** * * *
2955958 ATACTAAAATGCAAGTTCCTAGTGGAATCGAATACCATCCTATAATTTTTATGAGATGTTTCTAT
1 ATACTAAAATACGAGGTCATAGTGGAATCGAATGTCATCCTATAGTGTTCATGAGATGTTTCTAT
*** *
2956023 TGTAATCACTATTACATTGATGATGCCATAAATTGATGTTTA-TGTGGCTTGAACCAAAAAAGGG
66 TGTAATCACTATTACATTGATGATGCCATAAAGCAATG-TTAGTGTGGCTTGAACCAAAAAAGAG
* * * *
2956087 TCTC-TCTCCTGAGATGTCTCTAATCTGCTGTAAGGAGCAGTAAA
130 TCTCATCTCC-AAGATGTCTCTAATCTGCTGGAAGGAACAGAAAA
* * * *
2956131 ATACTAAAATACGAGGGTCATAGT-GAATCGAATGTCGTTCTATAGTGTTCATGAGGTGCTTCTA
1 ATACTAAAATACGA-GGTCATAGTGGAATCGAATGTCATCCTATAGTGTTCATGAGATGTTTCTA
2956195 TTGTA
65 TTGTA
2956200 TATTTTTAAA
Statistics
Matches: 197, Mismatches: 42, Indels: 6
0.80 0.17 0.02
Matches are distributed among these distances:
172 5 0.03
173 182 0.92
174 10 0.05
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (173 bp):
ATACTAAAATACGAGGTCATAGTGGAATCGAATGTCATCCTATAGTGTTCATGAGATGTTTCTAT
TGTAATCACTATTACATTGATGATGCCATAAAGCAATGTTAGTGTGGCTTGAACCAAAAAAGAGT
CTCATCTCCAAGATGTCTCTAATCTGCTGGAAGGAACAGAAAA
Found at i:2963850 original size:30 final size:29
Alignment explanation
Indices: 2963816--2963902 Score: 75
Period size: 29 Copynumber: 2.9 Consensus size: 29
2963806 CTAGTGATTT
*
2963816 AAATGAAAATTTTTAATAATTCAGTGACCA
1 AAATGAAAATTTTT-ATAATTAAGTGACCA
* ** *
2963846 AAATGTATCTTTTTTTAATTAAGTGACCA
1 AAATGAAAATTTTTATAATTAAGTGACCA
* * *
2963875 AAAAGAAAACTTATCTATAATTTAGTGA
1 AAATGAAAA-TT-TTTATAATTAAGTGA
2963903 TTAATATTGT
Statistics
Matches: 43, Mismatches: 12, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
29 18 0.42
30 13 0.30
31 12 0.28
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.37
Consensus pattern (29 bp):
AAATGAAAATTTTTATAATTAAGTGACCA
Found at i:2968989 original size:30 final size:28
Alignment explanation
Indices: 2968919--2969113 Score: 117
Period size: 30 Copynumber: 6.7 Consensus size: 28
2968909 TTTGGATACC
* * **
2968919 CGGGGGCAAAATAGTAATTTTTG-ACTTT
1 CGGGGTCAAAAT-GTAATTTTGGAAAATT
*
2968947 CGGGGGCAAAAATGTAATTTTGGGAAAATT
1 CGGGGTC-AAAATGTAATTTT-GGAAAATT
** * *
2968977 CGGGGTTCAAAATGGGATTTTAGAATATT
1 CGGGG-TCAAAATGTAATTTTGGAAAATT
* *
2969006 CGAGGGT-AAAGTGGTAATTTTTGGTGAAATT
1 CG-GGGTCAAAAT-GTAA-TTTTGG-AAAATT
* *
2969037 -GGGGTCAAAATGGAATTTTGGAAAGTT
1 CGGGGTCAAAATGTAATTTTGGAAAATT
* ** **
2969064 TGAAGTCAAAATAGTAATTTTTGGAAGTTT
1 CGGGGTCAAAAT-GTAA-TTTTGGAAAATT
2969094 CGGGGTCAAAATGTAATTTT
1 CGGGGTCAAAATGTAATTTT
2969114 TTGAAGTTTT
Statistics
Matches: 129, Mismatches: 26, Indels: 24
0.72 0.15 0.13
Matches are distributed among these distances:
27 4 0.03
28 38 0.29
29 31 0.24
30 51 0.40
31 5 0.04
ACGTcount: A:0.32, C:0.06, G:0.28, T:0.34
Consensus pattern (28 bp):
CGGGGTCAAAATGTAATTTTGGAAAATT
Found at i:2969082 original size:29 final size:28
Alignment explanation
Indices: 2969040--2969122 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 28
2969030 TGAAATTGGG
*
2969040 GTCAAAATGGAATTTTGGAAAGTTT-GAA
1 GTCAAAATGTAATTTTGG-AAGTTTCGAA
**
2969068 GTCAAAATAGTAATTTTTGGAAGTTTCGGG
1 GTCAAAAT-GTAA-TTTTGGAAGTTTCGAA
*
2969098 GTCAAAATGTAATTTTTTGAAGTTT
1 GTCAAAATGTAA-TTTTGGAAGTTT
2969123 TAGGGTCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 8 0.17
29 25 0.52
30 15 0.31
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.39
Consensus pattern (28 bp):
GTCAAAATGTAATTTTGGAAGTTTCGAA
Found at i:2969115 original size:30 final size:28
Alignment explanation
Indices: 2969035--2969152 Score: 112
Period size: 30 Copynumber: 4.0 Consensus size: 28
2969025 TTTGGTGAAA
*
2969035 TTGGGGTCAAAATGGAA-TTTTGGAAAGT
1 TTGGGGTCAAAATGTAATTTTTGG-AAGT
**
2969063 TTGAAGTCAAAATAGTAATTTTTGGAAGT
1 TTGGGGTCAAAAT-GTAATTTTTGGAAGT
*
2969092 TTCGGGGTCAAAATGTAATTTTTTGAAGTT
1 TT-GGGGTCAAAATGTAATTTTTGGAAG-T
* * *
2969122 TTAGGGTCAAAAATATAGTTTTTGGATAGT
1 TTGGGGTC-AAAATGTAATTTTTGGA-AGT
2969152 T
1 T
2969153 CAGGGACCTA
Statistics
Matches: 74, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
28 11 0.15
29 27 0.36
30 34 0.46
31 2 0.03
ACGTcount: A:0.32, C:0.04, G:0.25, T:0.39
Consensus pattern (28 bp):
TTGGGGTCAAAATGTAATTTTTGGAAGT
Found at i:2970554 original size:16 final size:16
Alignment explanation
Indices: 2970518--2970572 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 16
2970508 ATATTAAGTC
*
2970518 TTAAATTTAAATATGAAT
1 TTAAATTCAAATA--AAT
2970536 TTAAATTCAAATAAAT
1 TTAAATTCAAATAAAT
2970552 TTAAATTCAAAATAAAT
1 TTAAATTC-AAATAAAT
2970569 TTAA
1 TTAA
2970573 TCTTTAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
16 11 0.31
17 12 0.34
18 12 0.34
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (16 bp):
TTAAATTCAAATAAAT
Found at i:2970580 original size:13 final size:13
Alignment explanation
Indices: 2970571--2970595 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2970561 AAATAAATTT
2970571 AATCTTTAAAATA
1 AATCTTTAAAATA
2970584 AATCTTTAAAAT
1 AATCTTTAAAAT
2970596 GGGTTTAAAT
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
AATCTTTAAAATA
Found at i:2970583 original size:18 final size:17
Alignment explanation
Indices: 2970518--2970586 Score: 77
Period size: 18 Copynumber: 4.0 Consensus size: 17
2970508 ATATTAAGTC
* *
2970518 TTAAATTTAAATATGAAT
1 TTAAATTCAAA-ATAAAT
2970536 TTAAATTC-AAATAAAT
1 TTAAATTCAAAATAAAT
2970552 TTAAATTCAAAATAAAT
1 TTAAATTCAAAATAAAT
* *
2970569 TTAATCTTTAAAATAAAT
1 TTAA-ATTCAAAATAAAT
2970587 CTTTAAAATG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
16 13 0.29
17 14 0.31
18 18 0.40
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (17 bp):
TTAAATTCAAAATAAAT
Found at i:2973933 original size:27 final size:28
Alignment explanation
Indices: 2973903--2973959 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
2973893 TGTTCAGTTC
2973903 GATACTTAAGTTTTTTTTT-TCCAATTT
1 GATACTTAAGTTTTTTTTTGTCCAATTT
* *
2973930 GATACTTGAGTTTTTTTTTGTCCCATTT
1 GATACTTAAGTTTTTTTTTGTCCAATTT
2973958 GA
1 GA
2973960 GTATTCGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 18 0.67
28 9 0.33
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.56
Consensus pattern (28 bp):
GATACTTAAGTTTTTTTTTGTCCAATTT
Found at i:2980089 original size:14 final size:14
Alignment explanation
Indices: 2980070--2980100 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
2980060 ATTTAGTCCC
2980070 AATACATCAGATCA
1 AATACATCAGATCA
2980084 AATACATCAGATCA
1 AATACATCAGATCA
2980098 AAT
1 AAT
2980101 TGATCCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.19, G:0.06, T:0.23
Consensus pattern (14 bp):
AATACATCAGATCA
Found at i:2981278 original size:30 final size:30
Alignment explanation
Indices: 2981244--2981300 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
2981234 GAGTAAATTT
*
2981244 TAAAAGTAAAGGTCAAAATGA-TAAATAAAA
1 TAAAA-TAAAGATCAAAATGAGTAAATAAAA
2981274 TAAAATAAAGATCAAAATGAGTAAATA
1 TAAAATAAAGATCAAAATGAGTAAATA
2981301 TTAAGAGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.63, C:0.04, G:0.12, T:0.21
Consensus pattern (30 bp):
TAAAATAAAGATCAAAATGAGTAAATAAAA
Found at i:2997068 original size:21 final size:21
Alignment explanation
Indices: 2997025--2997065 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
2997015 TATTTTTAGA
2997025 ATTTTCTAAAAAAGAATTTTT
1 ATTTTCTAAAAAAGAATTTTT
*
2997046 ATTTT-TAAAAAATAATTTTT
1 ATTTTCTAAAAAAGAATTTTT
2997066 TATATAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTTTCTAAAAAAGAATTTTT
Found at i:2997459 original size:30 final size:30
Alignment explanation
Indices: 2997423--2997495 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 30
2997413 TTGTATATAT
*
2997423 AAATTTTAATTTGGTACAATTATACACGTA
1 AAATTTTAATTTGGTACAAATATACACGTA
* * * *
2997453 AAATTTTAATTGTGGTTCAAATATATACTTG
1 AAATTTTAATT-TGGTACAAATATACACGTA
*
2997484 AAACTTTAATTT
1 AAATTTTAATTT
2997496 TGATTTAATC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
30 12 0.33
31 24 0.67
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (30 bp):
AAATTTTAATTTGGTACAAATATACACGTA
Found at i:2998461 original size:29 final size:29
Alignment explanation
Indices: 2998429--2998488 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
2998419 GTTGATTTTT
*
2998429 ATATTTAATAAAAGGTCTTATACATTTGA
1 ATATTTAATAAAAGATCTTATACATTTGA
*
2998458 ATATTTAATAAAAGATTTTATACATTTGA
1 ATATTTAATAAAAGATCTTATACATTTGA
2998487 AT
1 AT
2998489 GGTGACAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.43
Consensus pattern (29 bp):
ATATTTAATAAAAGATCTTATACATTTGA
Found at i:3000355 original size:16 final size:18
Alignment explanation
Indices: 3000314--3000348 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3000304 TGTGGAAAAC
*
3000314 TAAA-TAAAAAAATAAAT
1 TAAACTAAAAAAACAAAT
3000331 TAAACTAAAAAAACAAAT
1 TAAACTAAAAAAACAAAT
3000349 AACTAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (18 bp):
TAAACTAAAAAAACAAAT
Found at i:3005157 original size:20 final size:20
Alignment explanation
Indices: 3005110--3005158 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
3005100 GTTGTGAAAG
*
3005110 TTTTAGATTTAATTTTTATA
1 TTTTAAATTTAATTTTTATA
* * *
3005130 TTTT-AATTTGATTTTTTTT
1 TTTTAAATTTAATTTTTATA
3005149 TTTTAAATTT
1 TTTTAAATTT
3005159 TAGTTTTCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTTAAATTTAATTTTTATA
Found at i:3010875 original size:205 final size:203
Alignment explanation
Indices: 3010532--3010914 Score: 520
Period size: 205 Copynumber: 1.9 Consensus size: 203
3010522 TATATACATG
* *
3010532 ATTGAGAATTTGAGTAAATGCTTCGGAGTTGCCAAATTTAAGATATAGATATGCTTATTTTTGAA
1 ATTGAGAATTTGAGTAAATGCTTCGGAGTTGCCAAATTTAAGATATAGACA-GCTTATTATTGAA
* * * *
3010597 TTTTTGATTAAGAATTGAAGTGCTGAGCCTAGTTGTTGTTGTTCTTTTCACCTGAGTATTGCTGG
65 ATTTCGATCAAGAATTGAAGTGCTGAGCCTAGTTGTTGTTGTTCTTTTCACCTGAATATTGCTGG
* * *
3010662 CTCAGTGGCTCTCTTAGTTTATTGTTATTAATTCTATGTACTTATTTTTGTGTGTGGAATTTAGA
130 CTCAGTGGCTCTCTTAATTTATTGTTATTAAGTCTATATACTTATTTTTGTGTGTGGAATTTAGA
3010727 TAATATATA
195 TAATATATA
* ** * *
3010736 ATTGAGAATTTGAGTAAATGCTTTGGAGTTGCTGAATTTAACGCGT-TCG-CA-CTTATTATTGA
1 ATTGAGAATTTGAGTAAATGCTTCGGAGTTGCCAAATTTAA-G-ATATAGACAGCTTATTATTGA
*
3010798 AATTTCGATCAAGAATTGAAGTGCTGAGCCTAGTTGTTGTTGTTGTTGTTTTCACCTGAATATTG
64 AATTTCGATCAAGAATTGAAGTGCTGAGCCTA---GTTGTTGTTGTTCTTTTCACCTGAATATTG
* * * *
3010863 CTGGCTCAGTGGCTCTTTTAATTTCTTGTTATTCAGTCTATATATTTATTTT
126 CTGGCTCAGTGGCTCTCTTAATTTATTGTTATTAAGTCTATATACTTATTTT
3010915 GTGGAAAAGG
Statistics
Matches: 155, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
202 39 0.25
204 39 0.25
205 76 0.49
206 1 0.01
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.44
Consensus pattern (203 bp):
ATTGAGAATTTGAGTAAATGCTTCGGAGTTGCCAAATTTAAGATATAGACAGCTTATTATTGAAA
TTTCGATCAAGAATTGAAGTGCTGAGCCTAGTTGTTGTTGTTCTTTTCACCTGAATATTGCTGGC
TCAGTGGCTCTCTTAATTTATTGTTATTAAGTCTATATACTTATTTTTGTGTGTGGAATTTAGAT
AATATATA
Found at i:3029196 original size:16 final size:16
Alignment explanation
Indices: 3029177--3029225 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
3029167 ACTCAAACTT
3029177 ATTTAAATTCAAAATA
1 ATTTAAATTCAAAATA
3029193 ATTT---TT-ATAAATA
1 ATTTAAATTCA-AAATA
*
3029206 ATTAAAATTCAAAATA
1 ATTTAAATTCAAAATA
3029222 ATTT
1 ATTT
3029226 TACTCTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
12 1 0.04
13 10 0.38
16 14 0.54
17 1 0.04
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (16 bp):
ATTTAAATTCAAAATA
Found at i:3038753 original size:17 final size:20
Alignment explanation
Indices: 3038717--3038752 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 20
3038707 AAAAATAATT
3038717 AATTATAATATTATTTTTTA
1 AATTATAATATTATTTTTTA
3038737 AATTAT-ATA-TATTTTT
1 AATTATAATATTATTTTT
3038753 ATTAGTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.44
19 3 0.19
20 6 0.38
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
AATTATAATATTATTTTTTA
Found at i:3038857 original size:51 final size:51
Alignment explanation
Indices: 3038766--3038875 Score: 112
Period size: 51 Copynumber: 2.2 Consensus size: 51
3038756 AGTATAATAT
** * * * * * *
3038766 TAAATTTAGTTTTTAAAATTTACATATTTTATTAAATTGATTTTTATTTAA
1 TAAATTTAGTTAATAAAATTTACAAATTATATCAAATTGATCTTAATTAAA
* * *
3038817 TAAATTTAGTTAATAATATTTATAAATTATATCAATTTGATCTTAATTAAA
1 TAAATTTAGTTAATAAAATTTACAAATTATATCAAATTGATCTTAATTAAA
*
3038868 CAAATTTA
1 TAAATTTA
3038876 TCTCGTAATA
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (51 bp):
TAAATTTAGTTAATAAAATTTACAAATTATATCAAATTGATCTTAATTAAA
Found at i:3043674 original size:27 final size:27
Alignment explanation
Indices: 3043644--3043696 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
3043634 TAAAAAGCAC
*
3043644 TTAAGCAATGTCTAATCGCGAACCAGT
1 TTAAACAATGTCTAATCGCGAACCAGT
*
3043671 TTAAACAATGTCTAATCGTGAACCAG
1 TTAAACAATGTCTAATCGCGAACCAG
3043697 CTAGCAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (27 bp):
TTAAACAATGTCTAATCGCGAACCAGT
Found at i:3044477 original size:30 final size:30
Alignment explanation
Indices: 3044441--3044504 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
3044431 AATTCCATAA
3044441 ATTACTATCAAAATTCTTAGTCTAGTATTC
1 ATTACTATCAAAATTCTTAGTCTAGTATTC
3044471 ATTACTATCAAAATTCTTAGTCTAGTATTC
1 ATTACTATCAAAATTCTTAGTCTAGTATTC
3044501 ATTA
1 ATTA
3044505 ACGAAATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.44
Consensus pattern (30 bp):
ATTACTATCAAAATTCTTAGTCTAGTATTC
Found at i:3049383 original size:23 final size:20
Alignment explanation
Indices: 3049333--3049384 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
3049323 TAAATGCTTA
*
3049333 TGTTTCTATTATTATTTATT
1 TGTTTTTATTATTATTTATT
*
3049353 TGTGTTTATTATTATTATATGT
1 TGTTTTTATTATTATT-TAT-T
3049375 TCGTTTTTAT
1 T-GTTTTTAT
3049385 AAATTCTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 14 0.54
21 3 0.12
22 2 0.08
23 7 0.27
ACGTcount: A:0.19, C:0.04, G:0.10, T:0.67
Consensus pattern (20 bp):
TGTTTTTATTATTATTTATT
Found at i:3049909 original size:31 final size:31
Alignment explanation
Indices: 3049874--3049934 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
3049864 TAATTTGGTT
*
3049874 ATTAAATTACTCAAAAATTTTTATTTAAGTC
1 ATTAAACTACTCAAAAATTTTTATTTAAGTC
* * *
3049905 ATTAAACTATTCAACAGTTTTTATTTAAGT
1 ATTAAACTACTCAAAAATTTTTATTTAAGT
3049935 TACTAGACTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (31 bp):
ATTAAACTACTCAAAAATTTTTATTTAAGTC
Found at i:3058445 original size:26 final size:27
Alignment explanation
Indices: 3058399--3058451 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
3058389 AATTAAATTT
3058399 TAAAAAATATAAATAGTTCA-TAAAAA
1 TAAAAAATATAAATAGTTCATTAAAAA
* *
3058425 TAAAAAATA-AAGTATTCTCATTAAAAA
1 TAAAAAATATAAATAGT-TCATTAAAAA
3058452 ACATCATTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 5 0.22
26 12 0.52
27 6 0.26
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (27 bp):
TAAAAAATATAAATAGTTCATTAAAAA
Found at i:3059510 original size:28 final size:30
Alignment explanation
Indices: 3059440--3059511 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
3059430 AGAGTTTAAG
*
3059440 TTTAAAAATATTTTTCATATTTTTTAACTTT
1 TTTAAAAA-ATTTTTCATATTTTTAAACTTT
* * *
3059471 TTAAAAATAATTTTT-TTA-TTTTAAATTTT
1 TTTAAAA-AATTTTTCATATTTTTAAACTTT
3059500 TTTAAAAAATTT
1 TTTAAAAAATTT
3059512 ATTAATTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 5 0.14
29 15 0.43
30 2 0.06
31 12 0.34
32 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTAAAAAATTTTTCATATTTTTAAACTTT
Found at i:3062807 original size:21 final size:22
Alignment explanation
Indices: 3062782--3062823 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
3062772 ATGCTTTGGG
*
3062782 TTTCTAGATCTGTTA-TGTTTA
1 TTTCTAGATCTGGTATTGTTTA
*
3062803 TTTCTTGATCTGGTATTGTTT
1 TTTCTAGATCTGGTATTGTTT
3062824 GGATGATGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.14, C:0.10, G:0.17, T:0.60
Consensus pattern (22 bp):
TTTCTAGATCTGGTATTGTTTA
Found at i:3065211 original size:7 final size:7
Alignment explanation
Indices: 3065191--3065224 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
3065181 GTGGGGGTGG
*
3065191 TGGATGG
1 TGGATGT
*
3065198 TGCATGT
1 TGGATGT
3065205 TGGATGT
1 TGGATGT
3065212 TGGATGT
1 TGGATGT
3065219 TGGATG
1 TGGATG
3065225 GTCCTGCCGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.15, C:0.03, G:0.44, T:0.38
Consensus pattern (7 bp):
TGGATGT
Found at i:3074575 original size:72 final size:74
Alignment explanation
Indices: 3074457--3074602 Score: 224
Period size: 72 Copynumber: 2.0 Consensus size: 74
3074447 GCAGATCTGC
*** *
3074457 TCTGACATGCTTGCCCTTGCCAATCATTCCTGGAACTACCATTGGTATT-TTTTATTGAACCCAT
1 TCTGACATGCTTGCCCTTGCCAATCATTCCTGGAACTACCATTGGTATTCTAGCACTGAACCCAT
3074521 TTGTTTCAG
66 TTGTTTCAG
* *
3074530 TCTGACATGCTTG-CCTTGCCAATCATTCCTGGAACTGCCGTTGGTATTCTAGCACTGAACCCAT
1 TCTGACATGCTTGCCCTTGCCAATCATTCCTGGAACTACCATTGGTATTCTAGCACTGAACCCAT
3074594 TTGTTTCAG
66 TTGTTTCAG
3074603 GTTGACCAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 33 0.50
73 33 0.50
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (74 bp):
TCTGACATGCTTGCCCTTGCCAATCATTCCTGGAACTACCATTGGTATTCTAGCACTGAACCCAT
TTGTTTCAG
Found at i:3077933 original size:29 final size:26
Alignment explanation
Indices: 3077872--3078054 Score: 80
Period size: 29 Copynumber: 6.3 Consensus size: 26
3077862 TAGATACCCG
***
3077872 GGGGTAAAATAGTAATTTTGGACTTTC
1 GGGGTAAAAT-GTAATTTTGGAAAATC
3077899 GAGGGTAAAATAGTAATTTTTGGTAAAATC
1 G-GGGTAAAAT-GTAA-TTTTGG-AAAATC
* *
3077929 GGGGTTTAAAATGGAATTTT-GAAAAGTTT
1 GGGG--TAAAATGTAATTTTGGAAAA--TC
*
3077958 GAGGGTAAAATGGTAATTTTTGGTGAAATC
1 G-GGGTAAAAT-GTAA-TTTTGG-AAAATC
* * *
3077988 AGGGTCAAAATGGAATTTTGGAAAGTTC
1 GGGGT-AAAATGTAATTTTGGAAA-ATC
* *
3078016 GGGGGTAAAATGGTGATTTTTGGTGAAATC
1 -GGGGTAAAAT-GT-AATTTTGG-AAAATC
*
3078046 GAGGTAAAA
1 GGGGTAAAA
3078055 ATTTTTTTTG
Statistics
Matches: 120, Mismatches: 18, Indels: 34
0.70 0.10 0.20
Matches are distributed among these distances:
27 7 0.06
28 34 0.28
29 38 0.32
30 29 0.24
31 9 0.08
32 3 0.03
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (26 bp):
GGGGTAAAATGTAATTTTGGAAAATC
Found at i:3077947 original size:58 final size:57
Alignment explanation
Indices: 3077870--3078056 Score: 205
Period size: 58 Copynumber: 3.2 Consensus size: 57
3077860 TTTAGATACC
* * * * *
3077870 CGGGGGTAAAATAGTAATTTTGGACTTTCGAGGGTAAAATAGTAATTTTTGGTAAAAT
1 CGGGGTTAAAAT-GGAATTTTGGAATTTCGAGGGTAAAATGGTAATTTTTGGTGAAAT
*
3077928 CGGGGTTTAAAATGGAATTTTGAAAAGTTT-GAGGGTAAAATGGTAATTTTTGGTGAAAT
1 CGGGG-TTAAAATGGAATTTTG-GAA-TTTCGAGGGTAAAATGGTAATTTTTGGTGAAAT
* * * * *
3077987 CAGGGTCAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTGATTTTTGGTGAAAT
1 CGGGGTTAAAATGGAATTTTGG-AATTTCGAGGGTAAAATGGTAATTTTTGGTGAAAT
* *
3078045 CGAGGTAAAAAT
1 CGGGGTTAAAAT
3078057 TTTTTTTGGA
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
57 2 0.02
58 66 0.61
59 38 0.35
60 3 0.03
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (57 bp):
CGGGGTTAAAATGGAATTTTGGAATTTCGAGGGTAAAATGGTAATTTTTGGTGAAAT
Found at i:3077968 original size:28 final size:28
Alignment explanation
Indices: 3077935--3078028 Score: 86
Period size: 28 Copynumber: 3.3 Consensus size: 28
3077925 AATCGGGGTT
*
3077935 TAAAATGGAATTTTGAAAAGTTTGAGGG
1 TAAAATGGAATTTTGGAAAGTTTGAGGG
*
3077963 TAAAATGGTAATTTTTGGTGAAA---TCAGGG
1 TAAAATGG-AA-TTTT-G-GAAAGTTTGAGGG
* *
3077992 TCAAAATGGAATTTTGGAAAGTTCGGGGG
1 T-AAAATGGAATTTTGGAAAGTTTGAGGG
3078021 TAAAATGG
1 TAAAATGG
3078029 TGATTTTTGG
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
26 4 0.08
27 1 0.02
28 19 0.36
29 14 0.26
30 11 0.21
31 1 0.02
32 3 0.06
ACGTcount: A:0.36, C:0.03, G:0.30, T:0.31
Consensus pattern (28 bp):
TAAAATGGAATTTTGGAAAGTTTGAGGG
Found at i:3078056 original size:30 final size:29
Alignment explanation
Indices: 3077961--3078054 Score: 81
Period size: 29 Copynumber: 3.2 Consensus size: 29
3077951 AAAGTTTGAG
*
3077961 GGTAAAATGGTAATTTTTGGTGAAATC-A
1 GGTAAAATGGTGATTTTTGGTGAAATCGA
* *
3077989 GGGTCAAAAT-G-GAATTTT-G-GAAAGTTCGGG
1 -GGT-AAAATGGTGATTTTTGGTGAAA--TC-GA
3078019 GGTAAAATGGTGATTTTTGGTGAAATCGA
1 GGTAAAATGGTGATTTTTGGTGAAATCGA
3078048 GGTAAAA
1 GGTAAAA
3078055 ATTTTTTTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
26 4 0.08
27 1 0.02
28 12 0.24
29 16 0.31
30 13 0.25
31 1 0.02
32 4 0.08
ACGTcount: A:0.34, C:0.04, G:0.31, T:0.31
Consensus pattern (29 bp):
GGTAAAATGGTGATTTTTGGTGAAATCGA
Found at i:3078084 original size:58 final size:58
Alignment explanation
Indices: 3077896--3078082 Score: 225
Period size: 58 Copynumber: 3.2 Consensus size: 58
3077886 ATTTTGGACT
* * * * * *
3077896 TTCGAGGGTAAAATAGTAATTTTTGGTAAAATCGGGGTTTAAAATGGAATTTTGAAAAG
1 TTCGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGG-TAAAAATGGAATTTTGGAAAG
* * *
3077955 TTTGAGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTCAAAATGGAATTTTGGAAAG
1 TTCGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTAAAAATGGAATTTTGGAAAG
* ***
3078013 TTCGGGGGTAAAATGGTGATTTTTGGTGAAATC-GAGGTAAAAAT-TTTTTTTGGAAAG
1 TTCGGGGGTAAAATGGTAATTTTTGGTGAAATCAG-GGTAAAAATGGAATTTTGGAAAG
3078070 TTCGGGGGTAAAA
1 TTCGGGGGTAAAA
3078083 ATATAATTTT
Statistics
Matches: 114, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
57 24 0.21
58 57 0.50
59 33 0.29
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.34
Consensus pattern (58 bp):
TTCGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTAAAAATGGAATTTTGGAAAG
Found at i:3079945 original size:7 final size:6
Alignment explanation
Indices: 3079898--3079976 Score: 54
Period size: 6 Copynumber: 13.3 Consensus size: 6
3079888 TATAATAAGT
* * * *
3079898 TTTAAA TTCATA TATAAA TCTAAA TTTAAA -TTAAA TTTAAA TTTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA
*** * *
3079946 ACAAAA TTTAAA ATTAAA -ATAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT
3079977 CAAAAACCAA
Statistics
Matches: 54, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
5 9 0.17
6 39 0.72
7 6 0.11
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:3079969 original size:36 final size:35
Alignment explanation
Indices: 3079898--3080010 Score: 109
Period size: 36 Copynumber: 3.2 Consensus size: 35
3079888 TATAATAAGT
* * * * * *
3079898 TTTAAATTCATATATAAATCTAAATTTAAATTAAA
1 TTTAAATTCAAAAACAAATTTAAAATTAAAATAAA
**
3079933 TTTAAATTTTAAAACAAAATTTAAAATTAAAATAAA
1 TTTAAATTCAAAAAC-AAATTTAAAATTAAAATAAA
* * *
3079969 TTTAAATTCAAAAACCAATTTAAACTTAAAATTAA
1 TTTAAATTCAAAAACAAATTTAAAATTAAAATAAA
3080004 TCTTAAA
1 T-TTAAA
3080011 ATGGGTTTAA
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
35 28 0.44
36 35 0.56
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (35 bp):
TTTAAATTCAAAAACAAATTTAAAATTAAAATAAA
Found at i:3079982 original size:18 final size:17
Alignment explanation
Indices: 3079911--3079999 Score: 65
Period size: 17 Copynumber: 5.0 Consensus size: 17
3079901 AAATTCATAT
* *
3079911 ATAAATCTAAATTTAAA
1 ATAAATTTAAATTAAAA
*
3079928 TTAAATTTAAATTTTAAAA
1 ATAAATTTAAA--TTAAAA
3079947 CA-AAATTTAAAATT-AAA
1 -ATAAATTT-AAATTAAAA
3079964 ATAAATTTAAATTCAAAA
1 ATAAATTTAAATT-AAAA
**
3079982 ACCAATTTAAACTTAAAA
1 ATAAATTTAAA-TTAAAA
3080000 TTAATCTTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
16 6 0.10
17 18 0.31
18 18 0.31
19 13 0.22
20 3 0.05
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAAATTTAAATTAAAA
Found at i:3080728 original size:200 final size:201
Alignment explanation
Indices: 3080362--3082280 Score: 2823
Period size: 200 Copynumber: 9.6 Consensus size: 201
3080352 GTTTCGTTAA
* *
3080362 CTTCGACCTGCTTCTCAGTGTCTCATCAGAAAGCTGGGTTCGAAGATTTGCTCGCATCGAGCATT
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGC---
* * * * * *
3080427 GGTTTGATTTGATTTTCTTCTCAATGTA--TCATCAGAAAGATGACTGCCTCGATTGTTTTAA-T
63 -GTTTGAGTTGGTATTCTTCTC--TGTACCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATT
* * * *
3080489 CTGCTTCTCTGGATCTCCTCAGGAAAACGAATCTGGTCCACTTCTCTGTATCTCATCAAGAAGCT
125 C-GCTTCTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCT
3080554 AACCATTTTATTG
189 AACCATTTTATTG
* * * *
3080567 CTTCGACCTGCTTTTTAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGCGTTGAGCG-T
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTT
* * * *
3080631 TGAGTTGGTATTCTTCTCTGTAACTCATCAAGAAGATGATCGCTTCGCTTGTTTTAATTCGCTTC
66 TGAGTTGGTATTCTTCTCTGTACCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTC
* **
3080696 TCAGGATCTCCTCAAAAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCA-GAGAGCTAACCAT
131 TCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGA-AGCTAACCAT
3080760 TTTATTG
195 TTTATTG
* * * *
3080767 CTTCGACTTGCTTCTCAGTGTTTCATCAGGAAGCTGGGTTCAAAGATTTTCTCGCATTGAGCGTT
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTT
* *
3080832 TGAGTTGGTATTCTTCTCTGTACCTCATTAGGAAGATGACCGCCTTGCTTGTTTTAATTCGCTTC
66 TGAGTTGGTATTCTTCTCTGTACCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTC
* * * *
3080897 TCTGGATCTCCTTAGGAAGACGAATCTGGTCCACTTCTCTGTATCTCATCAGAAAGCTAACCATT
131 TCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATT
*
3080962 TTATTA
196 TTATTG
* * *
3080968 CTTCGACCTGTTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGCGTTGAGCG-T
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTT
* * * *
3081032 TGAGTTGGTATTCTTCTCTGCATCTCATCAGGAAGATGATCGCCTCGCTTGTTTTAATTCGCCTC
66 TGAGTTGGTATTCTTCTCTGTACCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTC
* *
3081097 TCTGGATCTCCTTAGGAAGATGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATT
131 TCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATT
3081162 TTATTG
196 TTATTG
* * *
3081168 CTTCGATCTACTTCTCAGTGTCTCATTAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTT
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTT
*
3081233 TGAGTTAGTATTCTTCTCTGTACCTCATCAGGAAGATGACC-CCATCGCTTGTTTTAATTCGCTT
66 TGAGTTGGTATTCTTCTCTGTACCTCATCAGGAAGATGACCGCC-TCGCTTGTTTTAATTCGCTT
* * * *
3081297 CTCTGGATCTCCTCAAGAAGACGAATCTAGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCAT
130 CTCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCAT
3081362 TTTATTG
195 TTTATTG
* * * * * * *
3081369 TTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGTTGGGTTCAAAGATTGGCTCACGTTGAACG-T
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTT
*
3081433 TGAGTTGGTATTCTTCTCTGTAACTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTC
66 TGAGTTGGTATTCTTCTCTGTACCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTC
* * *
3081498 TCTGGATCTCCTCCGGAAGACGAATTTGATCCACTTCTCTATGTCTCATCAGGAAGCTAACCATT
131 TCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATT
3081563 TTATTG
196 TTATTG
* *
3081569 CTTCGACCTGCTTCTCAGTGTCTCATCAAGAAGCTGGGTTCGAAAATTTGCTCGCATTGAGCGTT
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTT
* * * *
3081634 TAAGTTGGTATTCTTCTCTGTACCTCATCAGGAAGATGATCGCCTCGCTTATTTTAATTCGTTTC
66 TGAGTTGGTATTCTTCTCTGTACCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTC
* * * * *
3081699 TCTGGATCTCCTAAGGAAGACGAATCTGGTCCACTTATCTGTATCTCATCAAGAAGCTAACCATT
131 TCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATT
3081764 TTATTG
196 TTATTG
* * * *
3081770 CTTTGACCTGCTTCTCAGTGTCTTATCAGGAAGCTGGGTTCGAAGATTGGCTCGCGTTGAGCG-T
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTT
* * * * * *
3081834 TGAGTTGGTATTGTTCTCTATATCTCATCAGGAAGATGATCGTCTCGCTTGTTTTAATTCGCTTT
66 TGAGTTGGTATTCTTCTCTGTACCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTC
* * *
3081899 TCTGGATCTCCTCAGGAAGACGATTTTGATCCACTTCTCTGTGTCCCATCAGGAAGCTAACCATT
131 TCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATT
3081964 TTATTG
196 TTATTG
*
3081970 CTTCGACCTGCTTCTCAGTGTCTCATTAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTT
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTT
*
3082035 TGAGTTGGTATTCTTCTCTGTACCTCATTAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTC
66 TGAGTTGGTATTCTTCTCTGTACCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTC
*
3082100 TCTGGATCTCCTTAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATT
131 TCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATT
*
3082165 TTATTA
196 TTATTG
* * *
3082171 TTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTAGGTTCGAAAATTTGCTCGCATTGAGCG-T
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTT
** *
3082235 TGAGTTGGTACACTTCTCTGTATCTCATCAGGAAGATGACCGCCTC
66 TGAGTTGGTATTCTTCTCTGTACCTCATCAGGAAGATGACCGCCTC
3082281 AATTTTTTGG
Statistics
Matches: 1537, Mismatches: 166, Indels: 27
0.89 0.10 0.02
Matches are distributed among these distances:
198 4 0.00
199 2 0.00
200 751 0.49
201 723 0.47
202 1 0.00
205 56 0.04
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (201 bp):
CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTT
TGAGTTGGTATTCTTCTCTGTACCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTC
TCTGGATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATT
TTATTG
Found at i:3081000 original size:401 final size:401
Alignment explanation
Indices: 3080362--3082280 Score: 2979
Period size: 401 Copynumber: 4.8 Consensus size: 401
3080352 GTTTCGTTAA
* *
3080362 CTTCGACCTGCTTCTCAGTGTCTCATCAGAAAGCTGGGTTCGAAGATTTGCTCGCATCGAGCATT
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGC---
* * * * * *
3080427 GGTTTGATTTGATTTTCTTCTCAATGTA--TCATCAGAAAGATGACTGCCTCGATTGTTTTAA-T
63 -GTTTGAGTTGGTATTCTTCTC--TGTACCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATT
*
3080489 CTGCTTCTCTGGATCTCCTCAGGAAAACGAATCTGGTCCACTTCTCTGTATCTCATCA-AGAAGC
125 C-GCTTCTCTGGATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTATCTCATCAGA-AAGC
* *
3080553 TAACCATTTTATTGCTTCGACCTGCTTTTTAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGC
188 TAACCATTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGC
* * *
3080618 TCGCGTTGAGCGTTGAGTTGGTATTCTTCTCTGTAACTCATCAAGAAGATGATCGCTTCGCTTGT
253 TCGCGTTGAGCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGATCGCCTCGCTTGT
* ** *
3080683 TTTAATTCGCTTCTCAGGATCTCCTCAAAAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCA-
318 TTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGATCCACTTCTCTGTGTCTCATCAG
3080747 GAGAGCTAACCATTTTATTG
383 GA-AGCTAACCATTTTATTG
* * * *
3080767 CTTCGACTTGCTTCTCAGTGTTTCATCAGGAAGCTGGGTTCAAAGATTTTCTCGCATTGAGCGTT
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTT
* *
3080832 TGAGTTGGTATTCTTCTCTGTACCTCATTAGGAAGATGACCGCCTTGCTTGTTTTAATTCGCTTC
66 TGAGTTGGTATTCTTCTCTGTACCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTC
*
3080897 TCTGGATCTCCTTAGGAAGACGAATCTGGTCCACTTCTCTGTATCTCATCAGAAAGCTAACCATT
131 TCTGGATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTATCTCATCAGAAAGCTAACCATT
* *
3080962 TTATTACTTCGACCTGTTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGCGTTG
196 TTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGCGTTG
*
3081027 AGCGTTGAGTTGGTATTCTTCTCTGCATCTCATCAGGAAGATGATCGCCTCGCTTGTTTTAATTC
261 AGCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGATCGCCTCGCTTGTTTTAATTC
* * * *
3081092 GCCTCTCTGGATCTCCTTAGGAAGATGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAA
326 GCTTCTCTGGATCTCCTCAGGAAGACGAATTTGATCCACTTCTCTGTGTCTCATCAGGAAGCTAA
3081157 CCATTTTATTG
391 CCATTTTATTG
* * *
3081168 CTTCGATCTACTTCTCAGTGTCTCATTAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTT
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTT
*
3081233 TGAGTTAGTATTCTTCTCTGTACCTCATCAGGAAGATGACC-CCATCGCTTGTTTTAATTCGCTT
66 TGAGTTGGTATTCTTCTCTGTACCTCATCAGGAAGATGACCGCC-TCGCTTGTTTTAATTCGCTT
* * *
3081297 CTCTGGATCTCCTCAAGAAGACGAATCTAGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCAT
130 CTCTGGATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTATCTCATCAGAAAGCTAACCAT
* * * *
3081362 TTTATTGTTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGTTGGGTTCAAAGATTGGCTCACGTT
195 TTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGCGTT
* * *
3081427 GAACGTTGAGTTGGTATTCTTCTCTGTAACTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATT
260 GAGCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGATCGCCTCGCTTGTTTTAATT
* *
3081492 CGCTTCTCTGGATCTCCTCCGGAAGACGAATTTGATCCACTTCTCTATGTCTCATCAGGAAGCTA
325 CGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGATCCACTTCTCTGTGTCTCATCAGGAAGCTA
3081557 ACCATTTTATTG
390 ACCATTTTATTG
* *
3081569 CTTCGACCTGCTTCTCAGTGTCTCATCAAGAAGCTGGGTTCGAAAATTTGCTCGCATTGAGCGTT
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTT
* * * *
3081634 TAAGTTGGTATTCTTCTCTGTACCTCATCAGGAAGATGATCGCCTCGCTTATTTTAATTCGTTTC
66 TGAGTTGGTATTCTTCTCTGTACCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTC
* *
3081699 TCTGGATCTCCTAAGGAAGACGAATCTGGTCCACTTATCTGTATCTCATCA-AGAAGCTAACCAT
131 TCTGGATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTATCTCATCAGA-AAGCTAACCAT
* *
3081763 TTTATTGCTTTGACCTGCTTCTCAGTGTCTTATCAGGAAGCTGGGTTCGAAGATTGGCTCGCGTT
195 TTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGCGTT
* * *
3081828 GAGCGTTGAGTTGGTATTGTTCTCTATATCTCATCAGGAAGATGATCGTCTCGCTTGTTTTAATT
260 GAGCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGATCGCCTCGCTTGTTTTAATT
* * *
3081893 CGCTTTTCTGGATCTCCTCAGGAAGACGATTTTGATCCACTTCTCTGTGTCCCATCAGGAAGCTA
325 CGCTTCTCTGGATCTCCTCAGGAAGACGAATTTGATCCACTTCTCTGTGTCTCATCAGGAAGCTA
3081958 ACCATTTTATTG
390 ACCATTTTATTG
*
3081970 CTTCGACCTGCTTCTCAGTGTCTCATTAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTT
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTT
*
3082035 TGAGTTGGTATTCTTCTCTGTACCTCATTAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTC
66 TGAGTTGGTATTCTTCTCTGTACCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTC
* * * *
3082100 TCTGGATCTCCTTAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATT
131 TCTGGATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTATCTCATCAGAAAGCTAACCATT
** * * * *
3082165 TTATTATTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTAGGTTCGAAAATTTGCTCGCATTG
196 TTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGCGTTG
** *
3082230 AGCGTTGAGTTGGTACACTTCTCTGTATCTCATCAGGAAGATGACCGCCTC
261 AGCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGATCGCCTC
3082281 AATTTTTTGG
Statistics
Matches: 1386, Mismatches: 119, Indels: 22
0.91 0.08 0.01
Matches are distributed among these distances:
399 4 0.00
400 2 0.00
401 1317 0.95
402 7 0.01
405 56 0.04
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (401 bp):
CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTT
TGAGTTGGTATTCTTCTCTGTACCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTC
TCTGGATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTATCTCATCAGAAAGCTAACCATT
TTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGCGTTG
AGCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGATCGCCTCGCTTGTTTTAATTC
GCTTCTCTGGATCTCCTCAGGAAGACGAATTTGATCCACTTCTCTGTGTCTCATCAGGAAGCTAA
CCATTTTATTG
Found at i:3092724 original size:96 final size:96
Alignment explanation
Indices: 3092551--3092731 Score: 228
Period size: 96 Copynumber: 1.9 Consensus size: 96
3092541 AGGATATTTA
* *
3092551 ATTATTTCGACTTGAAGAAAGATTGCACCTAGTAAGTTAAGACGCAAATTTTCATAACCGAACAT
1 ATTATTTCGACTTGAAGAAAGATCGCACCTAGTAAGCTAAGACGCAAATTTTCATAACCGAACAT
*
3092616 AAGGAAACATTGCCTCGATTAAGGGTATTCG
66 AAAGAAACATTGCCTCGATTAAGGGTATTCG
* *
3092647 ATTATTTCGATTTGAAGAGAA-ATCGCACCTAGTAAGCTAAGGA-GCAAAATTTTGA-AACTCGA
1 ATTATTTCGACTTGAAGA-AAGATCGCACCTAGTAAGCTAA-GACGC-AAATTTTCATAAC-CGA
*
3092709 A-ATAAA-AGAATATTGCCTCGATT
62 ACATAAAGA-AACATTGCCTCGATT
3092732 TTAAATTTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
95 1 0.01
96 57 0.77
97 16 0.22
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (96 bp):
ATTATTTCGACTTGAAGAAAGATCGCACCTAGTAAGCTAAGACGCAAATTTTCATAACCGAACAT
AAAGAAACATTGCCTCGATTAAGGGTATTCG
Found at i:3093109 original size:29 final size:29
Alignment explanation
Indices: 3093077--3093146 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
3093067 TTTGGTGAAA
*
3093077 TTAGGGTTAAAAATGGAATTTTAAAAAGT
1 TTAGGGTCAAAAATGGAATTTTAAAAAGT
* * *
3093106 TTAGGGACAAAAATGTAATTTTAAGAAGT
1 TTAGGGTCAAAAATGGAATTTTAAAAAGT
*
3093135 TTTGGGTCAAAA
1 TTAGGGTCAAAA
3093147 CGTAATTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.43, C:0.03, G:0.21, T:0.33
Consensus pattern (29 bp):
TTAGGGTCAAAAATGGAATTTTAAAAAGT
Found at i:3093127 original size:59 final size:60
Alignment explanation
Indices: 3092996--3093127 Score: 157
Period size: 59 Copynumber: 2.2 Consensus size: 60
3092986 TTTCGAGGGC
* * *
3092996 AAAATGGTAATTTTTGGTAAAATTGAGGTTTAAAATGGAATTTTGAAAAGTTTGGGGGTAA
1 AAAAT-GTAATTTTTGGTAAAATTGAGGTTAAAAATGGAATTTTAAAAAGTTTGAGGGTAA
*
3093057 AATAATG--ATTTTTGGTGAAATT-AGGGTTAAAAATGGAATTTTAAAAAGTTT-AGGG-ACA
1 AA-AATGTAATTTTTGGTAAAATTGA-GGTTAAAAATGGAATTTTAAAAAGTTTGAGGGTA-A
3093115 AAAATGTAATTTT
1 AAAATGTAATTTT
3093128 AAGAAGTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 12
0.79 0.05 0.15
Matches are distributed among these distances:
57 5 0.08
58 7 0.11
59 44 0.71
61 3 0.05
62 3 0.05
ACGTcount: A:0.40, C:0.01, G:0.23, T:0.36
Consensus pattern (60 bp):
AAAATGTAATTTTTGGTAAAATTGAGGTTAAAAATGGAATTTTAAAAAGTTTGAGGGTAA
Found at i:3093156 original size:29 final size:29
Alignment explanation
Indices: 3093093--3093155 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
3093083 TTAAAAATGG
*
3093093 AATTTTAAAAAGTTTAGGGACAAAAATGT
1 AATTTTAAAAAGTTTAGGGACAAAAACGT
* * *
3093122 AATTTTAAGAAGTTTTGGGTC-AAAACGT
1 AATTTTAAAAAGTTTAGGGACAAAAACGT
3093150 AATTTT
1 AATTTT
3093156 TGGATAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 12 0.40
29 18 0.60
ACGTcount: A:0.41, C:0.05, G:0.17, T:0.37
Consensus pattern (29 bp):
AATTTTAAAAAGTTTAGGGACAAAAACGT
Found at i:3095168 original size:18 final size:17
Alignment explanation
Indices: 3095138--3095204 Score: 71
Period size: 18 Copynumber: 3.8 Consensus size: 17
3095128 TATAATAAAT
3095138 TTTAAATTTTAAAACAAAA
1 TTTAAA-TTTAAAA-AAAA
*
3095157 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAAAAAA
* *
3095174 TTTAAATTCAAAAATCAA
1 TTTAAATTTAAAAA-AAA
*
3095192 TTTAAACTTAAAA
1 TTTAAATTTAAAA
3095205 TTGATCTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
17 15 0.37
18 20 0.49
19 6 0.15
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (17 bp):
TTTAAATTTAAAAAAAA
Found at i:3095676 original size:86 final size:86
Alignment explanation
Indices: 3095496--3095676 Score: 301
Period size: 86 Copynumber: 2.1 Consensus size: 86
3095486 CGATGTAGCT
*
3095496 ACGTTTAAACCAGCCAACTCCTGAAAATTCACATAAACTGAAACCATTCAAGCTTTAAAACAAAA
1 ACGTTTAAACCAGCCAACTCCTGAAAAGTCACATAAACTGAAACCATTCAAGCTTTAAAACAAAA
* *
3095561 AAGAACGGGAAAAATGACTTG
66 AAGAACAGGAAAAATGAATTG
* *
3095582 ACGCTTAAACCAGCCAATTCCTGAAAAGTCACATAAACTGAAACCATTCAAGCTTTAAAACAAAA
1 ACGTTTAAACCAGCCAACTCCTGAAAAGTCACATAAACTGAAACCATTCAAGCTTTAAAAC-AAA
3095647 AAAGAACAGGAAAAATGAATTG
65 AAAGAACAGGAAAAATGAATTG
3095669 A-GTTTAAA
1 ACGTTTAAA
3095677 AAATGTTAAC
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
86 64 0.73
87 24 0.27
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.20
Consensus pattern (86 bp):
ACGTTTAAACCAGCCAACTCCTGAAAAGTCACATAAACTGAAACCATTCAAGCTTTAAAACAAAA
AAGAACAGGAAAAATGAATTG
Found at i:3104039 original size:23 final size:24
Alignment explanation
Indices: 3104009--3104064 Score: 89
Period size: 22 Copynumber: 2.4 Consensus size: 24
3103999 AAACCACATC
3104009 TTAAAAAAATAGATTAAATTATT-
1 TTAAAAAAATAGATTAAATTATTA
3104032 TT-AAAAAATAGATTAAATTATTA
1 TTAAAAAAATAGATTAAATTATTA
*
3104055 GTAAAAAAAT
1 TTAAAAAAAT
3104065 TTAAACGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 20 0.67
23 3 0.10
24 7 0.23
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (24 bp):
TTAAAAAAATAGATTAAATTATTA
Found at i:3105296 original size:7 final size:7
Alignment explanation
Indices: 3105284--3105309 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
3105274 ATTTCGATAA
3105284 AAATTTT
1 AAATTTT
3105291 AAATTTT
1 AAATTTT
3105298 AAATTTT
1 AAATTTT
3105305 AAATT
1 AAATT
3105310 ATTTGAGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
AAATTTT
Found at i:3106894 original size:24 final size:24
Alignment explanation
Indices: 3106848--3106894 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
3106838 AATATTAAAA
* *
3106848 ACATTAAAATAAATTTTTTTTAAC
1 ACATTAAAATAAATTTGTATTAAC
3106872 ACATTAAAA-AATATTTGTATTAA
1 ACATTAAAATAA-ATTTGTATTAA
3106895 AAAACACTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (24 bp):
ACATTAAAATAAATTTGTATTAAC
Found at i:3111472 original size:465 final size:465
Alignment explanation
Indices: 3110601--3111999 Score: 2771
Period size: 465 Copynumber: 3.0 Consensus size: 465
3110591 ATGCGGAAAG
*
3110601 TGGTTGCACATGTATTTCTATAAGATTTAGAATGTAGCTTTAAGATAATCTTTACAACTACTTTG
1 TGGTTGCACATGTATTTCTATAAGATTTAGAATGTAGCTTTAAGATAATCTTTACAACTATTTTG
3110666 TTTATACCTTAGGGTTGGCTTTGCAATCCTAATATATTCTTTTTTTCCTTGTTTGTTTTGGTTTT
66 TTTATACCTTAGGGTTGGCTTTGCAATCCTAATATATTCTTTTTTTCCTTGTTTGTTTTGGTTTT
3110731 GATTGTTCAGAAATTTCCTATGTAATATAGTTTGTTAATTAACCCATCTCTATGATAAGTTCATT
131 GATTGTTCAGAAATTTCCTATGTAATATAGTTTGTTAATTAACCCATCTCTATGATAAGTTCATT
3110796 TTCTCAAGCCAGCTAGATCAAAGATGGTTAGGGCTACTTTTAGTATCTGAATTTTGCATGGATCT
196 TTCTCAAGCCAGCTAGATCAAAGATGGTTAGGGCTACTTTTAGTATCTGAATTTTGCATGGATCT
3110861 ATGAATGCCAAACAAGTTCTAGGATGGAACATTGTTCACATGAATGGTCTACCTTCAGTGGAAAA
261 ATGAATGCCAAACAAGTTCTAGGATGGAACATTGTTCACATGAATGGTCTACCTTCAGTGGAAAA
3110926 CATAATATGTTGCTTAAGATAGTAGCACTAAGTTTGTTGATTGCGTTGTTTTTCTTCTAAAAATA
326 CATAATATGTTGCTTAAGATAGTAGCACTAAGTTTGTTGATTGCGTTGTTTTTCTTCTAAAAATA
*
3110991 TGGATTAGGTGTGGATTCTGGAGATACAATACGTGTACCAGAAGCTGGTAATATTAGGCGACAAG
391 TGGATTAGGTGTGGATTCTGGAGATACAATTCGTGTACCAGAAGCTGGTAATATTAGGCGACAAG
3111056 GAAGTCAACC
456 GAAGTCAACC
3111066 TGGTTGCACATGTATTTCTATAAGATTTAGAATGTAGCTTTAAGATAATCTTTACAACTATTTTG
1 TGGTTGCACATGTATTTCTATAAGATTTAGAATGTAGCTTTAAGATAATCTTTACAACTATTTTG
3111131 TTTATACCTTAGGGTTGGCTTTGCAATCCTAATATATTCTTTTTTTCCTTGTTTGTTTTGGTTTT
66 TTTATACCTTAGGGTTGGCTTTGCAATCCTAATATATTCTTTTTTTCCTTGTTTGTTTTGGTTTT
3111196 GATTGTTCAGAAATTTCCTATGTAATATAGTTTGTTAATTAACCCATCTCTATGATAAGTTCATT
131 GATTGTTCAGAAATTTCCTATGTAATATAGTTTGTTAATTAACCCATCTCTATGATAAGTTCATT
3111261 TTCTCAAGCCAGCTAGATCAAAGATGGTTAGGGCTACTTTTAGTATCTGAATTTTGCATGGATCT
196 TTCTCAAGCCAGCTAGATCAAAGATGGTTAGGGCTACTTTTAGTATCTGAATTTTGCATGGATCT
3111326 ATGAATGCCAAACAAGTTCTAGGATGGAACATTGTTCACATGAATGGTCTACCTTCAGTGGAAAA
261 ATGAATGCCAAACAAGTTCTAGGATGGAACATTGTTCACATGAATGGTCTACCTTCAGTGGAAAA
3111391 CATAATATGTTGCTTAAGATAGTAGCACTAAGTTTGTTGATTGCGTTGTTTTTCTTCTAAAAATA
326 CATAATATGTTGCTTAAGATAGTAGCACTAAGTTTGTTGATTGCGTTGTTTTTCTTCTAAAAATA
3111456 TGGATTAGGTGTGGATTCTGGAGATACAATTCGTGTACCAGAAGCTGGTAATATTAGGCGACAAG
391 TGGATTAGGTGTGGATTCTGGAGATACAATTCGTGTACCAGAAGCTGGTAATATTAGGCGACAAG
3111521 GAAGTCAACC
456 GAAGTCAACC
3111531 TGGTTGCACATGTATTTCTATAAGATTTAGAATGTAGCTTTAAGATAATCTTTACAACTATTTTG
1 TGGTTGCACATGTATTTCTATAAGATTTAGAATGTAGCTTTAAGATAATCTTTACAACTATTTTG
*
3111596 TTTATACCTTAGGGTTGGCTTTGCAATCCTAATATATTCTTTTTTTCCTTTTTTGTTTTGGTTTT
66 TTTATACCTTAGGGTTGGCTTTGCAATCCTAATATATTCTTTTTTTCCTTGTTTGTTTTGGTTTT
3111661 GATTGTTCAGAAATTTCCTATGTAATATAGTTTGTTAATTAACCCATCTCTATGATAAGTTCATT
131 GATTGTTCAGAAATTTCCTATGTAATATAGTTTGTTAATTAACCCATCTCTATGATAAGTTCATT
3111726 TTCTCAAGCCAGCTAGATCAAAGATGGTTAGGGCTACTTTTAGTATCTGAATTTTGCATGGATCT
196 TTCTCAAGCCAGCTAGATCAAAGATGGTTAGGGCTACTTTTAGTATCTGAATTTTGCATGGATCT
3111791 ATGAATGCCAAACAAGTTCTAGGATGGAACATTGTTCACATGAATGGTCTACCTTCAGTGGAAAA
261 ATGAATGCCAAACAAGTTCTAGGATGGAACATTGTTCACATGAATGGTCTACCTTCAGTGGAAAA
3111856 CATAATATGTTGCTTAAGATAGTAGCACTAAGTTTGTTGATTGCGTTGTTTTTCTTCTAAAAATA
326 CATAATATGTTGCTTAAGATAGTAGCACTAAGTTTGTTGATTGCGTTGTTTTTCTTCTAAAAATA
3111921 TGGATTAGGTGTGGATTCTGGAGATACAATTCGTGTACCAGAAGCTGGTAATATTAGGCGACAAG
391 TGGATTAGGTGTGGATTCTGGAGATACAATTCGTGTACCAGAAGCTGGTAATATTAGGCGACAAG
3111986 GAAGTCAACC
456 GAAGTCAACC
3111996 TGGT
1 TGGT
3112000 AACTTGTTCA
Statistics
Matches: 931, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
465 931 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (465 bp):
TGGTTGCACATGTATTTCTATAAGATTTAGAATGTAGCTTTAAGATAATCTTTACAACTATTTTG
TTTATACCTTAGGGTTGGCTTTGCAATCCTAATATATTCTTTTTTTCCTTGTTTGTTTTGGTTTT
GATTGTTCAGAAATTTCCTATGTAATATAGTTTGTTAATTAACCCATCTCTATGATAAGTTCATT
TTCTCAAGCCAGCTAGATCAAAGATGGTTAGGGCTACTTTTAGTATCTGAATTTTGCATGGATCT
ATGAATGCCAAACAAGTTCTAGGATGGAACATTGTTCACATGAATGGTCTACCTTCAGTGGAAAA
CATAATATGTTGCTTAAGATAGTAGCACTAAGTTTGTTGATTGCGTTGTTTTTCTTCTAAAAATA
TGGATTAGGTGTGGATTCTGGAGATACAATTCGTGTACCAGAAGCTGGTAATATTAGGCGACAAG
GAAGTCAACC
Found at i:3114487 original size:16 final size:16
Alignment explanation
Indices: 3114468--3114498 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3114458 ATCTGAATCT
*
3114468 AAAACTACTTGAACTC
1 AAAACGACTTGAACTC
3114484 AAAACGACTTGAACT
1 AAAACGACTTGAACT
3114499 TGAACTTACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.23, G:0.10, T:0.23
Consensus pattern (16 bp):
AAAACGACTTGAACTC
Found at i:3117068 original size:111 final size:111
Alignment explanation
Indices: 3116938--3117139 Score: 332
Period size: 111 Copynumber: 1.8 Consensus size: 111
3116928 GTATGAAGGT
** *
3116938 GAAGATTTTGGTGGTTTTGCTGCTCCTGGTGGTGTTTTACTAATGTATGGTCTTGGTGCAGAAGC
1 GAAGATTTTGGTGGTTTTGCCCCTCCTGGTGGTGTTTTACTAATGTATGGTCCTGGTGCAGAAGC
3117003 TGGCAGTGGTACTTTACCTGGTGGTGGCGAGTATGAAGGTGACGAC
66 TGGCAGTGGTACTTTACCTGGTGGTGGCGAGTATGAAGGTGACGAC
* * * *
3117049 GAAGATTTTGGTGGTTTTGCCCCTGCTGGTGGTGTTTTGCTACTGTATGGTCCTGGTGCAGCAGC
1 GAAGATTTTGGTGGTTTTGCCCCTCCTGGTGGTGTTTTACTAATGTATGGTCCTGGTGCAGAAGC
*
3117114 TGGCGGTGGTACTTTACCTGGTGGTG
66 TGGCAGTGGTACTTTACCTGGTGGTG
3117140 ATTTTGGTGG
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
111 83 1.00
ACGTcount: A:0.14, C:0.15, G:0.36, T:0.35
Consensus pattern (111 bp):
GAAGATTTTGGTGGTTTTGCCCCTCCTGGTGGTGTTTTACTAATGTATGGTCCTGGTGCAGAAGC
TGGCAGTGGTACTTTACCTGGTGGTGGCGAGTATGAAGGTGACGAC
Found at i:3117187 original size:18 final size:18
Alignment explanation
Indices: 3117139--3117191 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
3117129 ACCTGGTGGT
*
3117139 GATTTTGGTGGTGGAGGAA
1 GATTTTGGTGGT-GATGAA
* * *
3117158 -AGTGTGGAGGTGATGAA
1 GATTTTGGTGGTGATGAA
3117175 GATTTTGGTGGTGATGA
1 GATTTTGGTGGTGATGA
3117192 GGAGTGAGGT
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
17 5 0.19
18 21 0.81
ACGTcount: A:0.23, C:0.00, G:0.45, T:0.32
Consensus pattern (18 bp):
GATTTTGGTGGTGATGAA
Found at i:3117206 original size:36 final size:35
Alignment explanation
Indices: 3117139--3117207 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 35
3117129 ACCTGGTGGT
*
3117139 GATTTTGGTGGTGGAGGAAAGTGTGGAGGTGATGAA
1 GATTTTGGTGGTGGAGG-AAGTGAGGAGGTGATGAA
*
3117175 GATTTTGGTGGTGATGAGG-AGTGAGGTGGTGAT
1 GATTTTGGTGGTG--GAGGAAGTGAGGAGGTGAT
3117208 CCCTTGGAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 25 0.86
38 4 0.14
ACGTcount: A:0.22, C:0.00, G:0.48, T:0.30
Consensus pattern (35 bp):
GATTTTGGTGGTGGAGGAAGTGAGGAGGTGATGAA
Found at i:3120975 original size:15 final size:15
Alignment explanation
Indices: 3120955--3120984 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3120945 CAATTTAGCC
*
3120955 ACCATAGCTTTCTTA
1 ACCATAGCTTACTTA
3120970 ACCATAGCTTACTTA
1 ACCATAGCTTACTTA
3120985 GCTTATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (15 bp):
ACCATAGCTTACTTA
Found at i:3121116 original size:23 final size:23
Alignment explanation
Indices: 3121067--3121194 Score: 127
Period size: 23 Copynumber: 5.4 Consensus size: 23
3121057 GAAGTACTAG
*
3121067 ACAGAGAGCACATA-AGTGCTGGGTA
1 ACAGAGAGCACACACAGTGCT---TA
*
3121092 ACAGAGAGCACATACAGTGCTTA
1 ACAGAGAGCACACACAGTGCTTA
*
3121115 ACAGAGAGCACACAAAGTGC-TA
1 ACAGAGAGCACACACAGTGCTTA
3121137 ATCAGAGAGCACACACAGTGCTAATA
1 A-CAGAGAGCACACACAGTGCT--TA
* *
3121163 ACAGAGAGCACGAGAC-GTGCTAA
1 ACAGAGAGCAC-ACACAGTGCTTA
3121186 ACAGAGAGC
1 ACAGAGAGC
3121195 GCACTAGTGT
Statistics
Matches: 92, Mismatches: 5, Indels: 14
0.83 0.05 0.13
Matches are distributed among these distances:
22 3 0.03
23 48 0.52
25 29 0.32
26 12 0.13
ACGTcount: A:0.41, C:0.21, G:0.26, T:0.12
Consensus pattern (23 bp):
ACAGAGAGCACACACAGTGCTTA
Found at i:3121184 original size:48 final size:46
Alignment explanation
Indices: 3121091--3121194 Score: 138
Period size: 48 Copynumber: 2.2 Consensus size: 46
3121081 AGTGCTGGGT
*
3121091 AACAGAGAGCACATACAGTGCTTAACAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACACACAGTGCTTAACAGAGAGCACACAAAGTGCTA
* * *
3121137 ATCAGAGAGCACACACAGTGCTAATAACAGAGAGCACGA-GACGTGCTA
1 AACAGAGAGCACACACAGTGCT--TAACAGAGAGCAC-ACAAAGTGCTA
3121185 AACAGAGAGC
1 AACAGAGAGC
3121195 GCACTAGTGT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
46 20 0.40
48 29 0.58
49 1 0.02
ACGTcount: A:0.42, C:0.22, G:0.24, T:0.12
Consensus pattern (46 bp):
AACAGAGAGCACACACAGTGCTTAACAGAGAGCACACAAAGTGCTA
Found at i:3121198 original size:25 final size:22
Alignment explanation
Indices: 3121043--3121203 Score: 115
Period size: 23 Copynumber: 6.9 Consensus size: 22
3121033 TAAACGGAAC
* ** *
3121043 AAACAGAGAGTACTGAAGTACT
1 AAACAGAGAGCACACAAGTGCT
* *
3121065 AGACAGAGAGCACATAAGTGCT
1 AAACAGAGAGCACACAAGTGCT
* *
3121087 GGGTAACAGAGAGCACATACAGTGCT
1 ---AAACAGAGAGCACACA-AGTGCT
*
3121113 TAACAGAGAGCACACAAAGTGCT
1 AAACAGAGAGCACAC-AAGTGCT
*
3121136 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACA-AGTGCT
* *
3121159 AATAACAGAGAGCACGAGACGTGCT
1 -A-AACAGAGAGCAC-ACAAGTGCT
* *
3121184 AAACAGAGAGCGCACTAGTG
1 AAACAGAGAGCACACAAGTG
3121204 TTCCTTAATG
Statistics
Matches: 113, Mismatches: 17, Indels: 18
0.76 0.11 0.12
Matches are distributed among these distances:
22 22 0.19
23 50 0.44
24 3 0.03
25 30 0.27
26 8 0.07
ACGTcount: A:0.40, C:0.20, G:0.26, T:0.14
Consensus pattern (22 bp):
AAACAGAGAGCACACAAGTGCT
Found at i:3126241 original size:20 final size:21
Alignment explanation
Indices: 3126216--3126255 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
3126206 CTTCAAATAT
3126216 ATAAATTTA-AAATAAATAAG
1 ATAAATTTAGAAATAAATAAG
*
3126236 ATAAATTTAGAAATATATAA
1 ATAAATTTAGAAATAAATAA
3126256 ATTTAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
ATAAATTTAGAAATAAATAAG
Found at i:3126265 original size:14 final size:15
Alignment explanation
Indices: 3126210--3126270 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 15
3126200 AATAAACTTC
3126210 AAATATATAAATTTA
1 AAATATATAAATTTA
3126225 AAATAAATAAGATAAATTTA
1 AAAT--AT---ATAAATTTA
3126245 GAAATATATAAATTTA
1 -AAATATATAAATTTA
3126261 AATATATATA
1 AA-ATATATA
3126271 TATACAAGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
15 6 0.15
16 16 0.41
17 2 0.05
19 2 0.05
20 9 0.23
21 4 0.10
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (15 bp):
AAATATATAAATTTA
Found at i:3133470 original size:16 final size:16
Alignment explanation
Indices: 3133449--3133481 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
3133439 ATCGACAACC
3133449 ACTCTAATTGTATACA
1 ACTCTAATTGTATACA
3133465 ACTCTAATTGTATACA
1 ACTCTAATTGTATACA
3133481 A
1 A
3133482 TACAATGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.36
Consensus pattern (16 bp):
ACTCTAATTGTATACA
Found at i:3134479 original size:31 final size:31
Alignment explanation
Indices: 3134444--3134537 Score: 152
Period size: 31 Copynumber: 3.0 Consensus size: 31
3134434 TTATCAACTT
*
3134444 AAAAAAAATGTCAAGTTTAGGTATTAAATTA
1 AAAAAAAATGTCAAGTTTAAGTATTAAATTA
*
3134475 AAAAAAATTGTCAAGTTTAAGTATTAAATTA
1 AAAAAAAATGTCAAGTTTAAGTATTAAATTA
*
3134506 ATAAAAAAATGTCAAATTTAAGTATTAAATTA
1 A-AAAAAAATGTCAAGTTTAAGTATTAAATTA
3134538 GATCAAAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
31 30 0.52
32 28 0.48
ACGTcount: A:0.53, C:0.03, G:0.10, T:0.34
Consensus pattern (31 bp):
AAAAAAAATGTCAAGTTTAAGTATTAAATTA
Found at i:3134480 original size:32 final size:32
Alignment explanation
Indices: 3134444--3134537 Score: 145
Period size: 32 Copynumber: 3.0 Consensus size: 32
3134434 TTATCAACTT
*
3134444 AAAAAAAATGTCAAGTTTAGGTATTAAATT-A
1 AAAAAAAATGTCAAGTTTAAGTATTAAATTAA
*
3134475 AAAAAAATTGTCAAGTTTAAGTATTAAATTAA
1 AAAAAAAATGTCAAGTTTAAGTATTAAATTAA
* *
3134507 TAAAAAAATGTCAAATTTAAGTATTAAATTA
1 AAAAAAAATGTCAAGTTTAAGTATTAAATTA
3134538 GATCAAAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
31 28 0.49
32 29 0.51
ACGTcount: A:0.53, C:0.03, G:0.10, T:0.34
Consensus pattern (32 bp):
AAAAAAAATGTCAAGTTTAAGTATTAAATTAA
Found at i:3134546 original size:32 final size:31
Alignment explanation
Indices: 3134442--3134547 Score: 144
Period size: 31 Copynumber: 3.4 Consensus size: 31
3134432 GATTATCAAC
*
3134442 TTAA-AAAAAATGTCAAGTTTAGGTATTAAA
1 TTAATAAAAAATGTCAAGTTTAAGTATTAAA
3134472 TTAA-AAAAAATTGTCAAGTTTAAGTATTAAA
1 TTAATAAAAAA-TGTCAAGTTTAAGTATTAAA
*
3134503 TTAATAAAAAAATGTCAAATTTAAGTATTAAA
1 TTAAT-AAAAAATGTCAAGTTTAAGTATTAAA
3134535 TTAGATCAAAAAA
1 TTA-AT-AAAAAA
3134548 AGTTTAAGTA
Statistics
Matches: 69, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
30 10 0.14
31 23 0.33
32 22 0.32
33 14 0.20
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (31 bp):
TTAATAAAAAATGTCAAGTTTAAGTATTAAA
Found at i:3144642 original size:11 final size:11
Alignment explanation
Indices: 3144623--3144656 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
3144613 TGTTTACTAC
*
3144623 TGTTATGTTGT
1 TGTTATGTTAT
*
3144634 TGTTTTGTTAT
1 TGTTATGTTAT
3144645 TGTTATGTTAT
1 TGTTATGTTAT
3144656 T
1 T
3144657 ATTTTACTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.12, C:0.00, G:0.21, T:0.68
Consensus pattern (11 bp):
TGTTATGTTAT
Found at i:3145074 original size:23 final size:22
Alignment explanation
Indices: 3145041--3145083 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
3145031 CATCTCTTTA
*
3145041 CTTTTATTTTTAAGAATTTAATC
1 CTTTTAATTTT-AGAATTTAATC
*
3145064 CTTTTAATTTTTGAATTTAA
1 CTTTTAATTTTAGAATTTAA
3145084 AAGTTCAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (22 bp):
CTTTTAATTTTAGAATTTAATC
Found at i:3145082 original size:22 final size:22
Alignment explanation
Indices: 3145041--3145083 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
3145031 CATCTCTTTA
3145041 CTTTTATTTTTAAGAATTTAATC
1 CTTTTATTTTT-AGAATTTAATC
3145064 CTTTTAATTTTT-GAATTTAA
1 CTTTT-ATTTTTAGAATTTAA
3145084 AAGTTCAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.42
23 5 0.26
24 6 0.32
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (22 bp):
CTTTTATTTTTAGAATTTAATC
Found at i:3145521 original size:23 final size:23
Alignment explanation
Indices: 3145475--3145521 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
3145465 TAAAATTTAA
* *
3145475 TAAAAAAAAATCAAATTTCTCTT
1 TAAAAAAAAATAAAATTTCGCTT
3145498 TAAAATAAAAATAAAATTT-GCTT
1 TAAAA-AAAAATAAAATTTCGCTT
3145521 T
1 T
3145522 TAGAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (23 bp):
TAAAAAAAAATAAAATTTCGCTT
Found at i:3147488 original size:11 final size:11
Alignment explanation
Indices: 3147469--3147502 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
3147459 TGTTTACTAC
*
3147469 TGTTATGTTGT
1 TGTTATGTTAT
*
3147480 TGTTTTGTTAT
1 TGTTATGTTAT
3147491 TGTTATGTTAT
1 TGTTATGTTAT
3147502 T
1 T
3147503 ATTTTACTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.12, C:0.00, G:0.21, T:0.68
Consensus pattern (11 bp):
TGTTATGTTAT
Found at i:3147920 original size:23 final size:22
Alignment explanation
Indices: 3147887--3147929 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
3147877 CATCTCTTTA
*
3147887 CTTTTATTTTTAAGAATTTAATC
1 CTTTTAATTTT-AGAATTTAATC
*
3147910 CTTTTAATTTTTGAATTTAA
1 CTTTTAATTTTAGAATTTAA
3147930 AAGTTCAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (22 bp):
CTTTTAATTTTAGAATTTAATC
Found at i:3147928 original size:22 final size:22
Alignment explanation
Indices: 3147887--3147929 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
3147877 CATCTCTTTA
3147887 CTTTTATTTTTAAGAATTTAATC
1 CTTTTATTTTT-AGAATTTAATC
3147910 CTTTTAATTTTT-GAATTTAA
1 CTTTT-ATTTTTAGAATTTAA
3147930 AAGTTCAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.42
23 5 0.26
24 6 0.32
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (22 bp):
CTTTTATTTTTAGAATTTAATC
Found at i:3148368 original size:23 final size:23
Alignment explanation
Indices: 3148322--3148368 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
3148312 TAAAATTTAA
* *
3148322 TAAAAAAAAATCAAATTTCTCTT
1 TAAAAAAAAATAAAATTTCGCTT
3148345 TAAAATAAAAATAAAATTT-GCTT
1 TAAAA-AAAAATAAAATTTCGCTT
3148368 T
1 T
3148369 TAGAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (23 bp):
TAAAAAAAAATAAAATTTCGCTT
Found at i:3150463 original size:22 final size:21
Alignment explanation
Indices: 3150438--3150479 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
3150428 TCCTCACCAA
*
3150438 AAAAGAAAATCCCAGCAAAAAT
1 AAAAGAAAATCCAAG-AAAAAT
*
3150460 AAAAGATAATCCAAGAAAAA
1 AAAAGAAAATCCAAGAAAAA
3150480 GAGAGAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.67, C:0.14, G:0.10, T:0.10
Consensus pattern (21 bp):
AAAAGAAAATCCAAGAAAAAT
Found at i:3150969 original size:13 final size:15
Alignment explanation
Indices: 3150939--3150968 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
3150929 AAATGTGGAA
3150939 TTATTGACATTTTTT
1 TTATTGACATTTTTT
3150954 TTATTGA-ATTTTTT
1 TTATTGACATTTTTT
3150968 T
1 T
3150969 AAGGCGGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (15 bp):
TTATTGACATTTTTT
Found at i:3153548 original size:19 final size:17
Alignment explanation
Indices: 3153501--3153535 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3153491 GGGATTAATG
*
3153501 AAATGTAAAATTAATCCA
1 AAAT-TAAAATTAATACA
3153519 AAATTAAAATTAATACA
1 AAATTAAAATTAATACA
3153536 TAACATTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.60, C:0.09, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATTAAAATTAATACA
Found at i:3159546 original size:10 final size:11
Alignment explanation
Indices: 3159522--3159550 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
3159512 GCGGGTGTTG
3159522 TGGTGGTGATA
1 TGGTGGTGATA
3159533 TGGTGGTG-TA
1 TGGTGGTGATA
3159543 TGGTGGTG
1 TGGTGGTG
3159551 CAGAGGCTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.10, C:0.00, G:0.52, T:0.38
Consensus pattern (11 bp):
TGGTGGTGATA
Found at i:3161074 original size:31 final size:33
Alignment explanation
Indices: 3161033--3161105 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 33
3161023 AGCCTATATC
* * * *
3161033 ATTATAATTTTCAATGGA-TTAAATCAATTTTT
1 ATTATTATTTTCAAGGGACTAAAATAAATTTTT
*
3161065 -TTATTATTTTTAAGGGACTAAAATAAATTTTT
1 ATTATTATTTTCAAGGGACTAAAATAAATTTTT
3161097 ATTATTATT
1 ATTATTATT
3161106 AATTTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 14 0.41
32 12 0.35
33 8 0.24
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (33 bp):
ATTATTATTTTCAAGGGACTAAAATAAATTTTT
Found at i:3162176 original size:26 final size:27
Alignment explanation
Indices: 3162107--3162178 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 27
3162097 CATTCCGGTT
3162107 TATATCA-T-AATAAAAATATTACTGA
1 TATATCATTAAATAAAAATATTACTGA
3162132 TATATC-TATAATATAAAAATATTACTGA
1 TATATCAT-TAA-ATAAAAATATTACTGA
3162160 TATATCATTAAATAAAAAT
1 TATATCATTAAATAAAAAT
3162179 GATGACACCT
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
25 6 0.14
26 1 0.02
27 9 0.21
28 25 0.60
29 1 0.02
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.38
Consensus pattern (27 bp):
TATATCATTAAATAAAAATATTACTGA
Found at i:3170621 original size:30 final size:30
Alignment explanation
Indices: 3170587--3170651 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
3170577 AACTAGAATG
3170587 ACCAGAATATGTCTATTCCTCCCCCATAAT
1 ACCAGAATATGTCTATTCCTCCCCCATAAT
3170617 ACCAGAATATGTCTATTCCTCCCCCATAAT
1 ACCAGAATATGTCTATTCCTCCCCCATAAT
3170647 ACCAG
1 ACCAG
3170652 CACCATGGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.31, C:0.34, G:0.08, T:0.28
Consensus pattern (30 bp):
ACCAGAATATGTCTATTCCTCCCCCATAAT
Found at i:3173492 original size:242 final size:242
Alignment explanation
Indices: 3173057--3173518 Score: 739
Period size: 242 Copynumber: 1.9 Consensus size: 242
3173047 TTTTTGCCTG
* * * *
3173057 TTAGAATGGCTTCACGGGACATGAACGAAATAATGAAAGTTCGTCAAACATATCTATACCAGCTG
1 TTAGAAGGGCTTCACCGCACATGAACGAAATAATGAAAGTTCATCAAACATATCTATACCAGCTG
* *
3173122 ATTCGGGGGGAATTGTTAGAGCTTAGCCAGTTTGTAAAACAACCCTACCGGTACTAGATCAGACA
66 ACTCGGGGGGAATTGTTAGAGCTTAGCCAGTTTGT-AAACAACCCTACCGGCACTAGATCAGACA
* * * *
3173187 GGAAGTCTATTGCTTAAACTAATGTTATTATTGTCAAGTATTGCTCTACAAACATCTAGGCAATT
130 GAAAGTCTATTGCTTAAACTAACGTTATTATTGTCAAGTACTGCTCTACAAACATCAAGGCAATT
3173252 AGACAATGCTGCCCAAATATATATACACATATATTGCAAATCTGTCTA
195 AGACAATGCTGCCCAAATATATATACACATATATTGCAAATCTGTCTA
*
3173300 TTAGAAGGGCTTCACCGCACATGAACTAAATAATGAAAGTTCATCAAACATATCTATACCAGCTG
1 TTAGAAGGGCTTCACCGCACATGAACGAAATAATGAAAGTTCATCAAACATATCTATACCAGCTG
* * *
3173365 ACTCGAGGGGGAATTGTTAGAGCTTAGCCAGTTTGT-AA-AACCCTACCCTGCAGTAGATCAGGC
66 ACTCG-GGGGGAATTGTTAGAGCTTAGCCAGTTTGTAAACAACCCTA-CCGGCACTAGATCAGAC
*
3173428 AGAAAGTCTGTTGCTTAAACTAACGTTATTATTGTCAAGTACTGCTCTACAAACATCAAGGCAAT
129 AGAAAGTCTATTGCTTAAACTAACGTTATTATTGTCAAGTACTGCTCTACAAACATCAAGGCAAT
*
3173493 TAGACAATGGTGCCCAAATATATATA
194 TAGACAATGCTGCCCAAATATATATA
3173519 TATTGCAAAT
Statistics
Matches: 201, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
241 7 0.03
242 100 0.50
243 64 0.32
244 30 0.15
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (242 bp):
TTAGAAGGGCTTCACCGCACATGAACGAAATAATGAAAGTTCATCAAACATATCTATACCAGCTG
ACTCGGGGGGAATTGTTAGAGCTTAGCCAGTTTGTAAACAACCCTACCGGCACTAGATCAGACAG
AAAGTCTATTGCTTAAACTAACGTTATTATTGTCAAGTACTGCTCTACAAACATCAAGGCAATTA
GACAATGCTGCCCAAATATATATACACATATATTGCAAATCTGTCTA
Found at i:3177924 original size:20 final size:20
Alignment explanation
Indices: 3177878--3177926 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
3177868 TCAGAAGTTT
*
3177878 AAATAATAGTATAAATAGAT
1 AAATAATAGTATAAATAGAC
* *
3177898 AAATAATAGTATAGATATAC
1 AAATAATAGTATAAATAGAC
*
3177918 AATTAATAG
1 AAATAATAG
3177927 AAGTAATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.31
Consensus pattern (20 bp):
AAATAATAGTATAAATAGAC
Found at i:3183723 original size:8 final size:9
Alignment explanation
Indices: 3183700--3183726 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
3183690 TTTTGTTAGT
3183700 TATTTTTAA
1 TATTTTTAA
3183709 TATTTTTAA
1 TATTTTTAA
3183718 TATTTTTAA
1 TATTTTTAA
3183727 AAACAAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TATTTTTAA
Found at i:3184370 original size:15 final size:14
Alignment explanation
Indices: 3184350--3184388 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
3184340 TATATAAGGT
3184350 TTTTATAAATTATTA
1 TTTTATAAATTA-TA
3184365 TTTTATATAATTATA
1 TTTTATA-AATTATA
*
3184380 TATTATAAA
1 TTTTATAAA
3184389 AAAAGCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 15 0.68
16 5 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTTATAAATTATA
Found at i:3189507 original size:364 final size:359
Alignment explanation
Indices: 3188916--3191116 Score: 2389
Period size: 364 Copynumber: 6.1 Consensus size: 359
3188906 TAATTTTTAG
* * ** * * *
3188916 AATCTAAATCTAAAAATGTTATTCCGAAATCTTACATTACCTTTAACAGTGTGAGATTATTGAAC
1 AATCCAAATATAAAAATGTTATTATGAAATCTTATATTACCTTTGACAATGTGAGATTATTGAAC
* * * * * * *** *
3188981 TAGA-ATTTCATAAACCTAACAAATTTGAATGGGAAGAAAACATTGGCAGAGTTC--T-TTTTCT
66 CATATCTTTC-TAAACCTAATAAATTTGAATGGCAAGAGAACATCAAC-GAATTCTTTCTTTTCT
* *
3189042 TTTCTTTTCCATGTGTGCCATTCCTTAAAACAGCAAGCACTTGCCT-AGGACATACT-GACCAAA
129 TTTCTTTTCCATGTGTGCCATTCCTTAAAACAACAAGCACTTGTCTAAGG-CATA-TAGACCAAA
* * *
3189105 TAGACTCACACCACACTATTTCCATTAAAAAGAAAACGATAAATCTCTCGAAGTTATTAGATCTT
192 TAGACTCACA-C-CACTATTTCCATTAAAAAGAAAACGACAAATCTCTCAAAGTTACTAGATCTT
* * **
3189170 AAAATTTAGGGTGCT-ATTTGATTAAGGAAAAATAAGATTAAATCTGAAAACAGAATTATCGAAA
255 -AAATTTAGGGTG-TGATTTGGTTAAGGAAAAATAAAATTATCTCT-AAAACAGAATTATCGAAA
*
3189234 TATAAAATTACTTATTACATTATGGGCTCAAAGTAATCTTTGA
317 TGTAAAATTACTTATTACATTATGGGCTCAAAGTAATCTTTGA
* * * * *
3189277 AATCCAAATATAAAAATGTTATTATGAAATATTGCATTACTACCTTTAACAACGTGAGATTATTA
1 AATCCAAATATAAAAATGTTATTATGAAATCTT--A-TATTACCTTTGACAATGTGAGATTATTG
* *
3189342 AACCATAGCTTTCTAAACCTAATAAATTTGAATGGCAAGAGAGCATCAACGGAATTCTTTCTTTT
63 AACCATATCTTTCTAAACCTAATAAATTTGAATGGCAAGAGAACATCAAC-GAATTCTTTCTTTT
* * * *
3189407 CTTTTCTTTTTCACGTGTGCCTTTCCTTAAAAC-A-AA-CACTTG-CTTAAGGCATATAAACCAA
127 CTTTTCTTTTCCATGTGTGCCATTCCTTAAAACAACAAGCACTTGTC-TAAGGCATATAGACCAA
* *
3189468 ATAGACTCACACCATCTTATTTCCATTAAAAAAAAAACGATAAATCTCTCAAAGTTACTAGATCT
191 ATAGACTCACACCA-C-TATTTCCATTAAAAAGAAAACGACAAATCTCTCAAAGTTACTAGATCT
* *
3189533 TAAATTTAGGGTGTGATTTGGTTAAGTG-AAAATAAAATTATC-CTTGATAACAGAATTGTCGAA
254 TAAATTTAGGGTGTGATTTGGTTAAG-GAAAAATAAAATTATCTC-T-AAAACAGAATTATCGAA
* * * * *
3189596 ATGTAAAATTACTTATTAAATTATAGGCTCAATGTAACCTATGA
316 ATGTAAAATTACTTATTACATTATGGGCTCAAAGTAATCTTTGA
* ** * * * *
3189640 AATTCAAATGCAAAAATGTTATTCTAAAATCTTAAATTGCCTTTGACAATGTGAGATTATTGAA-
1 AATCCAAATATAAAAATGTTATTATGAAATCTTATATTACCTTTGACAATGTGAGATTATTGAAC
3189704 C----C---CT-AA-C---T-AATTTGAATGGCAAGAGAACATCAACGAAGTTCTTTCTTTTCTT
66 CATATCTTTCTAAACCTAATAAATTTGAATGGCAAGAGAACATCAACGAA-TTCTTTCTTTTCTT
* * * * * *
3189756 TTCTTTTCCGTGTGTGCCATTCCTTAAAACAACAAGCACTTGCCTAGGGCATACAGTCCGAATAG
130 TTCTTTTCCATGTGTGCCATTCCTTAAAACAACAAGCACTTGTCTAAGGCATATAGACCAAATAG
* *
3189821 ACTCACACCACTCTATTTCCATTAAAAAGAAAATGACAAATCTCTCACAGTTACTAGATCTTAAA
195 ACTCACACCA--CTATTTCCATTAAAAAGAAAACGACAAATCTCTCAAAGTTACTAGATCTTAAA
* * *
3189886 TTTAGGGTGTGATTTGGTTAAGGAAAAATAAAATTATCTCTGATAGCATAATTA-CTGAAATGTA
258 TTTAGGGTGTGATTTGGTTAAGGAAAAATAAAATTATCTCT-AAAACAGAATTATC-GAAATGTA
* *
3189950 AAATTACTTATTACATCATGGGCTCAAAGTGATCTTTGA
321 AAATTACTTATTACATTATGGGCTCAAAGTAATCTTTGA
* * * * *
3189989 AATTCAAATGTAAAAATGTTATTCTGAAATCTTAAATTACCTTTGACAATGTGAGGTTATTGAAC
1 AATCCAAATATAAAAATGTTATTATGAAATCTTATATTACCTTTGACAATGTGAGATTATTGAAC
* * *
3190054 CATATCTTTCTAAACCTAACAAATTTGAATGGCAAGAGAAAATCAACTAAGTTC-TT-TTTT-TT
66 CATATCTTTCTAAACCTAATAAATTTGAATGGCAAGAGAACATCAACGAA-TTCTTTCTTTTCTT
*
3190116 TTCTTTTCCATGTGTGTCATTCCTTAAAACAACAAGCACTTGTCTAAGGC--ATAGACCAAATAG
130 TTCTTTTCCATGTGTGCCATTCCTTAAAACAACAAGCACTTGTCTAAGGCATATAGACCAAATAG
* *** * *
3190179 ACTCACCACC-CGATTTTTGTT--AAA-AAAATGACAAATCTCTCAAAGTTACTAGATCTTAGAT
195 ACTCA-CACCACTATTTCCATTAAAAAGAAAACGACAAATCTCTCAAAGTTACTAGATCTTAAAT
* * * *
3190240 TTAAGGTATGATCTGGTTAA-GAGAAAATAAGATTATCTCTAATAACAGAATTATCGAAATGTAA
259 TTAGGGTGTGATTTGGTTAAGGA-AAAATAAAATTATCTCTAA-AACAGAATTATCGAAATGTAA
* *
3190304 ACTTACTTATTACATTATGGGCTCAAAGTAATTTTTGA
322 AATTACTTATTACATTATGGGCTCAAAGTAATCTTTGA
* * * *
3190342 AATCCAAATGTAAAAATGTTTTTTTATGAAATCTTATATTACCTTTGACAATGTGAAATTATTAA
1 AATCCAAATATAAAAATG--TTATTATGAAATCTTATATTACCTTTGACAATGTGAGATTATTGA
* * * * *
3190407 ACCATATCTTTATAAACCTAATAAATTTGAATGGCAAGAAAACATAAATAGAGTTCTTTCTTTTC
64 ACCATATCTTTCTAAACCTAATAAATTTGAATGGCAAGAGAACATCAA-CGAATTCTTTCTTTTC
** * * *
3190472 TTTTCTTTTCCATGCATTCCATTCCTTAAAACAACAAGTACTTGTCTAAGGCATGTAGACCAAAT
128 TTTTCTTTTCCATGTGTGCCATTCCTTAAAACAACAAGCACTTGTCTAAGGCATATAGACCAAAT
* * * * * *
3190537 AAACTTACACCACCCTATTTCCATTAAAAAGAAAATGACAAATCTTTTAAAGTTATTAGATCTTA
193 AGACTCACACCA--CTATTTCCATTAAAAAGAAAACGACAAATCTCTCAAAGTTACTAGATCTTA
** * *
3190602 AATTTAATGTGTGATTTGGTTAAGGGAAAATAAAATTATCTCTAATAACATAATTATCGAAATGT
256 AATTTAGGGTGTGATTTGGTTAAGGAAAAATAAAATTATCTCTAA-AACAGAATTATCGAAATGT
*
3190667 AAAATTACTTATTACATTATGGGCTTAAAGTAATCTTTGA
320 AAAATTACTTATTACATTATGGGCTCAAAGTAATCTTTGA
* * * ** *
3190707 AATCC-ACTCAT-AAAATGTTATCATAAAATCTTGCATTATCTTTGACAATGTGAGATTATTGAA
1 AATCCAAAT-ATAAAAATGTTATTATGAAATCTTATATTACCTTTGACAATGTGAGATTATTGAA
* * * *
3190770 CCATATCTTTCTAAACCTAACAAATTTGAATGGCAAGAGAACATAAACAGAGTTTTTTCTTTTCT
65 CCATATCTTTCTAAACCTAATAAATTTGAATGGCAAGAGAACATCAAC-GAATTCTTTCTTTTCT
* * * *
3190835 TTTCTTTTCTTTCTCATGTGTGCCATTCCTTAAAACATCAAGCACTTGTCTAGGGCATACAAACC
129 TTTC---T-TTTC-CATGTGTGCCATTCCTTAAAACAACAAGCACTTGTCTAAGGCATATAGACC
* * * * * * * *
3190900 AAATGGACTTACACC-CCATTTCCTTTAACAAGAAAACGACAAATCTTTTAAAGCTT-TTAGATC
189 AAATAGACTCACACCACTATTTCCATTAAAAAGAAAACGACAAATCTCTCAAAG-TTACTAGATC
* * * * * * *
3190963 GTAAATTTAGGGTGTGATTTGGTTAAGGGAAAATAATATTTTTTCTATTAACAAAATTATCGAAA
253 TTAAATTTAGGGTGTGATTTGGTTAAGGAAAAATAAAATTATCTCTA-AAACAGAATTATCGAAA
* * * *
3191028 TGTAAAATTACTTATTATATTATGGGTTCAAAGTAATATTTAA
317 TGTAAAATTACTTATTACATTATGGGCTCAAAGTAATCTTTGA
* *
3191071 AATCCAAACATAAAAATGTTATTATGAAATCTTACATTACCTTTGA
1 AATCCAAATATAAAAATGTTATTATGAAATCTTATATTACCTTTGA
3191117 AAAGTTCTTT
Statistics
Matches: 1574, Mismatches: 198, Indels: 132
0.83 0.10 0.07
Matches are distributed among these distances:
345 3 0.00
346 65 0.04
347 2 0.00
348 4 0.00
349 227 0.14
350 6 0.00
351 2 0.00
352 5 0.00
353 136 0.09
354 5 0.00
355 86 0.05
356 10 0.01
357 6 0.00
358 64 0.04
359 10 0.01
360 87 0.06
361 33 0.02
362 114 0.07
363 151 0.10
364 290 0.18
365 173 0.11
366 6 0.00
367 89 0.06
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.34
Consensus pattern (359 bp):
AATCCAAATATAAAAATGTTATTATGAAATCTTATATTACCTTTGACAATGTGAGATTATTGAAC
CATATCTTTCTAAACCTAATAAATTTGAATGGCAAGAGAACATCAACGAATTCTTTCTTTTCTTT
TCTTTTCCATGTGTGCCATTCCTTAAAACAACAAGCACTTGTCTAAGGCATATAGACCAAATAGA
CTCACACCACTATTTCCATTAAAAAGAAAACGACAAATCTCTCAAAGTTACTAGATCTTAAATTT
AGGGTGTGATTTGGTTAAGGAAAAATAAAATTATCTCTAAAACAGAATTATCGAAATGTAAAATT
ACTTATTACATTATGGGCTCAAAGTAATCTTTGA
Found at i:3190580 original size:718 final size:711
Alignment explanation
Indices: 3188941--3191116 Score: 2485
Period size: 718 Copynumber: 3.0 Consensus size: 711
3188931 ATGTTATTCC
* * * *
3188941 GAAATCTTACATTACCTTTAACAGTGTGAGATTATTGAACTAGAAT-TTCATAAACCTAACAAAT
1 GAAATCTTACATTACCTTTGACAATGTGAGATTATTGAAC--CAATCTT-ATAAACCTAATAAAT
* ***
3189005 TTGAATGGGAAGAAAACATTGGCAGAGTTC--T-TTTTCTTTTCTTTTCCATGTGTGCCATTCCT
63 TTGAATGGCAAGAAAACA-TAAAAGAGTTCTTTCTTTTCTTTTCTTTTCCATGTGTGCCATTCCT
*
3189067 TAAAACAGCAAGCACTTGCCT-AGGACATACT-GACCAAATAGACTCACACCACACTATTTCCAT
127 TAAAACAACAAGCACTTGCCTAAGG-CATA-TAGACCAAATAGACTCACACCACACTATTTCCAT
* * *
3189130 TAAAAAGAAAACGATAAATCTCTCGAAGTTATTAGATCTTAAAATTTAGGGTGCT-ATTTGATTA
190 TAAAAAGAAAATGACAAATCTCTC-AAGTTATTAGATCTT-AAATTTAGGGTG-TGATTTGGTTA
* ** * * *
3189194 AGGAAAAATAAGATTAAATCTGAAAACAGAATTATCGAAATATAAAATTACTTATTACATTATGG
252 AGGAAAAATAAAATTATCTCTGATAACATAATTATCGAAATGTAAAATTACTTATTACATTATGG
* * * * *
3189259 GCTCAAAGTAATCTTTGAAATCCAAATATAAAAATGTTATTATGAAATATTGCATTACTACCTTT
317 GCTCAAAGTAATCTTTGAAATTCAAAT-TAAAAATGTTATTCTGAAATCTT--A-AATTACCTTT
* * * * * *
3189324 AACAACGTGAGATTATTAAACCATAGCTTTCTAAACCTAATAAATTTGAATGGCAAGAGAGCATC
378 GACAATGTGAGATTATTGAACCATATCTTTCTAAACCTAACAAATTTGAATGGCAAGAGAACATC
* * *
3189389 AACGGAA-TTCTTTCTTTTCTTTTCTTTTTCACGTGTGCCTTTCCTTAAAAC-A-AA-CACTTG-
443 AAC--AAGTTC-TT-TTTT-TTTTCTTTTCCATGTGTGCCATTCCTTAAAACAACAAGCACTTGT
* * *
3189449 CTTAAGGCATATAAACCAAATAGACTCACACCATCTTATTTCCATTAAAAAAAAAACGATAAATC
503 C-TAAGGC--ATAAACCAAATAGACTCACACC--C-CATTT-C-TT-TAAAAAAAACGACAAATC
*
3189514 TCTCAAAGTTACTAGATCTTAAATTTAGGGTGTGATTTGGTTAAGTGAAAATAAAATTATC-CTT
559 TCTCAAAGTTACTAGATCTTAAATTTAGGGTGTGATTTGGTTAAGAGAAAATAAAATTATCTC-T
* * * * ** *
3189578 GATAACAGAATTGTCGAAATGTAAAATTACTTATTAAATTATAGGCTCAATGTAACCTATGAAAT
623 AATAACAGAATTATCGAAATGTAAAATTACTTATTAAATTATGGGCTCAAAGTAATATTTGAAAT
* * * *
3189643 TCAAATGCAAAAATGTTATTCTA-
688 CCAAATGTAAAAATGTTTTTTTAT
* *
3189666 -AAATCTTAAATTGCCTTTGACAATGTGAGATTATTGAACC---C---T-AA-C---T-AATTTG
1 GAAATCTTACATTACCTTTGACAATGTGAGATTATTGAACCAATCTTATAAACCTAATAAATTTG
* * * *
3189718 AATGGCAAGAGAACATCAACGAAGTTCTTTCTTTTCTTTTCTTTTCCGTGTGTGCCATTCCTTAA
66 AATGGCAAGAAAACATAAAAG-AGTTCTTTCTTTTCTTTTCTTTTCCATGTGTGCCATTCCTTAA
* * * * *
3189783 AACAACAAGCACTTGCCTAGGGCATACAGTCCGAATAGACTCACACCACTCTATTTCCATTAAAA
130 AACAACAAGCACTTGCCTAAGGCATATAGACCAAATAGACTCACACCACACTATTTCCATTAAAA
*
3189848 AGAAAATGACAAATCTCTCACAGTTACTAGATCTTAAATTTAGGGTGTGATTTGGTTAAGGAAAA
195 AGAAAATGACAAATCTCTCA-AGTTATTAGATCTTAAATTTAGGGTGTGATTTGGTTAAGGAAAA
* *
3189913 ATAAAATTATCTCTGATAGCATAATTA-CTGAAATGTAAAATTACTTATTACATCATGGGCTCAA
259 ATAAAATTATCTCTGATAACATAATTATC-GAAATGTAAAATTACTTATTACATTATGGGCTCAA
*
3189977 AGTGATCTTTGAAATTCAAATGTAAAAATGTTATTCTGAAATCTTAAATTACCTTTGACAATGTG
323 AGTAATCTTTGAAATTCAAAT-TAAAAATGTTATTCTGAAATCTTAAATTACCTTTGACAATGTG
* *
3190042 AGGTTATTGAACCATATCTTTCTAAACCTAACAAATTTGAATGGCAAGAGAAAATCAACTAAGTT
387 AGATTATTGAACCATATCTTTCTAAACCTAACAAATTTGAATGGCAAGAGAACATCAAC-AAGTT
* *
3190107 CTTTTTTTTTTCTTTTCCATGTGTGTCATTCCTTAAAACAACAAGCACTTGTCTAAGGCATAGAC
451 CTTTTTTTTTTCTTTTCCATGTGTGCCATTCCTTAAAACAACAAGCACTTGTCTAAGGCATAAAC
* * *
3190172 CAAATAGACTCACCACCCGATTT-TTGTTAAAAAAATGACAAATCTCTCAAAGTTACTAGATCTT
516 CAAATAGACTCA-CACCCCATTTCTT-TAAAAAAAACGACAAATCTCTCAAAGTTACTAGATCTT
* * * * *
3190236 AGATTTAAGGTATGATCTGGTTAAGAGAAAATAAGATTATCTCTAATAACAGAATTATCGAAATG
579 AAATTTAGGGTGTGATTTGGTTAAGAGAAAATAAAATTATCTCTAATAACAGAATTATCGAAATG
* * *
3190301 TAAACTTACTTATTACATTATGGGCTCAAAGTAATTTTTGAAATCCAAATGTAAAAATGTTTTTT
644 TAAAATTACTTATTAAATTATGGGCTCAAAGTAATATTTGAAATCCAAATGTAAAAATGTTTTTT
3190366 TAT
709 TAT
* * *
3190369 GAAATCTTATATTACCTTTGACAATGTGAAATTATTAAACCATATCTTTATAAACCTAATAAATT
1 GAAATCTTACATTACCTTTGACAATGTGAGATTATTGAACCA-ATC-TTATAAACCTAATAAATT
** *
3190434 TGAATGGCAAGAAAACATAAATAGAGTTCTTTCTTTTCTTTTCTTTTCCATGCATTCCATTCCTT
64 TGAATGGCAAGAAAACATAAA-AGAGTTCTTTCTTTTCTTTTCTTTTCCATGTGTGCCATTCCTT
* * * * * *
3190499 AAAACAACAAGTACTTGTCTAAGGCATGTAGACCAAATAAACTTACACCACCCTATTTCCATTAA
128 AAAACAACAAGCACTTGCCTAAGGCATATAGACCAAATAGACTCACACCACACTATTTCCATTAA
* * ** *
3190564 AAAGAAAATGACAAATCTTTTAAAGTTATTAGATCTTAAATTTAATGTGTGATTTGGTTAAGGGA
193 AAAGAAAATGACAAATC-TCTCAAGTTATTAGATCTTAAATTTAGGGTGTGATTTGGTTAAGGAA
* *
3190629 AAATAAAATTATCTCTAATAACATAATTATCGAAATGTAAAATTACTTATTACATTATGGGCTTA
257 AAATAAAATTATCTCTGATAACATAATTATCGAAATGTAAAATTACTTATTACATTATGGGCTCA
* * * * ** *
3190694 AAGTAATCTTTGAAA-TCCACTCATAAAATGTTA-TCATAAAATCTTGCATTATCTTTGACAATG
322 AAGTAATCTTTGAAATTCAAATTA-AAAATGTTATTC-TGAAATCTTAAATTACCTTTGACAATG
*
3190757 TGAGATTATTGAACCATATCTTTCTAAACCTAACAAATTTGAATGGCAAGAGAACATAAACAGAG
385 TGAGATTATTGAACCATATCTTTCTAAACCTAACAAATTTGAATGGCAAGAGAACATCAACA-AG
* *
3190822 TTTTTTCTTTTCTTTTCTTTTCTTTCTCATGTGTGCCATTCCTTAAAACATCAAGCACTTGTCTA
449 ----TTCTTTT-TTTT-TTCT-TTTC-CATGTGTGCCATTCCTTAAAACAACAAGCACTTGTCTA
* * * * *
3190887 GGGCATACAAACCAAATGGACTTACACCCCATTTCCTTTAACAAGAAAACGACAAATCTTTTAAA
506 AGGCAT--AAACCAAATAGACTCACACCCCATTT-CTTTAA-AA-AAAACGACAAATCTCTCAAA
* * * * * * *
3190952 GCTT-TTAGATCGTAAATTTAGGGTGTGATTTGGTTAAGGGAAAATAATATTTTTTCTATTAACA
566 G-TTACTAGATCTTAAATTTAGGGTGTGATTTGGTTAAGAGAAAATAAAATTATCTCTAATAACA
* * * * **
3191016 AAATTATCGAAATGTAAAATTACTTATTATATTATGGGTTCAAAGTAATATTTAAAATCCAAACA
630 GAATTATCGAAATGTAAAATTACTTATTAAATTATGGGCTCAAAGTAATATTTGAAATCCAAATG
*
3191081 TAAAAATG--TTATTAT
695 TAAAAATGTTTTTTTAT
3191096 GAAATCTTACATTACCTTTGA
1 GAAATCTTACATTACCTTTGA
3191117 AAAGTTCTTT
Statistics
Matches: 1245, Mismatches: 152, Indels: 106
0.83 0.10 0.07
Matches are distributed among these distances:
702 147 0.12
703 1 0.00
704 36 0.03
705 4 0.00
706 29 0.02
707 22 0.02
708 11 0.01
709 85 0.07
710 26 0.02
711 2 0.00
712 124 0.10
713 120 0.10
714 4 0.00
715 2 0.00
716 5 0.00
717 97 0.08
718 243 0.20
719 5 0.00
721 7 0.01
722 4 0.00
723 3 0.00
724 39 0.03
725 41 0.03
726 9 0.01
727 41 0.03
728 4 0.00
729 132 0.11
730 2 0.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.34
Consensus pattern (711 bp):
GAAATCTTACATTACCTTTGACAATGTGAGATTATTGAACCAATCTTATAAACCTAATAAATTTG
AATGGCAAGAAAACATAAAAGAGTTCTTTCTTTTCTTTTCTTTTCCATGTGTGCCATTCCTTAAA
ACAACAAGCACTTGCCTAAGGCATATAGACCAAATAGACTCACACCACACTATTTCCATTAAAAA
GAAAATGACAAATCTCTCAAGTTATTAGATCTTAAATTTAGGGTGTGATTTGGTTAAGGAAAAAT
AAAATTATCTCTGATAACATAATTATCGAAATGTAAAATTACTTATTACATTATGGGCTCAAAGT
AATCTTTGAAATTCAAATTAAAAATGTTATTCTGAAATCTTAAATTACCTTTGACAATGTGAGAT
TATTGAACCATATCTTTCTAAACCTAACAAATTTGAATGGCAAGAGAACATCAACAAGTTCTTTT
TTTTTTCTTTTCCATGTGTGCCATTCCTTAAAACAACAAGCACTTGTCTAAGGCATAAACCAAAT
AGACTCACACCCCATTTCTTTAAAAAAAACGACAAATCTCTCAAAGTTACTAGATCTTAAATTTA
GGGTGTGATTTGGTTAAGAGAAAATAAAATTATCTCTAATAACAGAATTATCGAAATGTAAAATT
ACTTATTAAATTATGGGCTCAAAGTAATATTTGAAATCCAAATGTAAAAATGTTTTTTTAT
Found at i:3190665 original size:365 final size:363
Alignment explanation
Indices: 3189705--3191116 Score: 1793
Period size: 365 Copynumber: 3.9 Consensus size: 363
3189695 ATTATTGAAC
* * * * *
3189705 CCTAACTAATTTGAATGGCAAGAGAACATCAA-CGAAGTTCTTTCTTTTCTTTTCTTTTCCGTGT
1 CCTAACAAATTTGAATGGCAAGAAAACATAAATAG-AGTTCTTTCTTTTCTTTTCTTTTCCATGT
* * * * * *
3189769 GTGCCATTCCTTAAAACAACAAGCACTTGCCTAGGGCATACAGTCCGAATAGACTCACACCACTC
65 GTGCCATTCCTTAAAACAACAAGCACTTGTCTAAGGCATACAGACCAAATAGACTTACACCACCC
* *
3189834 TATTTCCATTAAAAAGAAAATGACAAATCTCTCACAGTTACTAGATCTTAAATTTAGGGTGTGAT
130 TATTTCCATTAAAAAGAAAATGACAAATCTCTCAAAGTTACTAGATCTTAAATTTAAGGTGTGAT
* * *
3189899 TTGGTTAAGGAAAAATAAAATTATCTCTGATAGCATAATTA-CTGAAATGTAAAATTACTTATTA
195 TTGGTTAAGGGAAAATAAAATTATCTCTAATAACATAATTATC-GAAATGTAAAATTACTTATTA
* * * * *
3189963 CATCATGGGCTCAAAGTGATCTTTGAAATTCAAATGTAAAAATGTTATTCTGAAATCTTAAATTA
259 CATTATGGGCTCAAAGTAATCTTTGAAATCCAAATGTAAAAATGTTATTATGAAATCTTACATTA
*
3190028 CCTTTGACAATGTGAGGTTATTGAACCATATCTTTCTAAA
324 CCTTTGACAATGTGAGATTATTGAACCATATCTTTCTAAA
*
3190068 CCTAACAAATTTGAATGGCAAGAGAAA-ATCAACTA-AGTTC-TT-TTTT-TTTTCTTTTCCATG
1 CCTAACAAATTTGAATGGCAAGA-AAACAT-AAATAGAGTTCTTTCTTTTCTTTTCTTTTCCATG
*
3190128 TGTGTCATTCCTTAAAACAACAAGCACTTGTCTAAGGCAT--AGACCAAATAGAC-T-CACCACC
64 TGTGCCATTCCTTAAAACAACAAGCACTTGTCTAAGGCATACAGACCAAATAGACTTACACCACC
* *** * *
3190189 CGATTTTTGTT--AAA-AAAATGACAAATCTCTCAAAGTTACTAGATCTTAGATTTAAGGTATGA
129 CTATTTCCATTAAAAAGAAAATGACAAATCTCTCAAAGTTACTAGATCTTAAATTTAAGGTGTGA
* * * * *
3190251 TCTGGTTAAGAGAAAATAAGATTATCTCTAATAACAGAATTATCGAAATGTAAACTTACTTATTA
194 TTTGGTTAAGGGAAAATAAAATTATCTCTAATAACATAATTATCGAAATGTAAAATTACTTATTA
* * *
3190316 CATTATGGGCTCAAAGTAATTTTTGAAATCCAAATGTAAAAATGTTTTTTTATGAAATCTTATAT
259 CATTATGGGCTCAAAGTAATCTTTGAAATCCAAATGTAAAAATG--TTATTATGAAATCTTACAT
* * *
3190381 TACCTTTGACAATGTGAAATTATTAAACCATATCTTTATAAA
322 TACCTTTGACAATGTGAGATTATTGAACCATATCTTTCTAAA
* **
3190423 CCTAATAAATTTGAATGGCAAGAAAACATAAATAGAGTTCTTTCTTTTCTTTTCTTTTCCATGCA
1 CCTAACAAATTTGAATGGCAAGAAAACATAAATAGAGTTCTTTCTTTTCTTTTCTTTTCCATGTG
* * ** *
3190488 TTCCATTCCTTAAAACAACAAGTACTTGTCTAAGGCATGTAGACCAAATAAACTTACACCACCCT
66 TGCCATTCCTTAAAACAACAAGCACTTGTCTAAGGCATACAGACCAAATAGACTTACACCACCCT
* * * *
3190553 ATTTCCATTAAAAAGAAAATGACAAATCTTTTAAAGTTATTAGATCTTAAATTTAATGTGTGATT
131 ATTTCCATTAAAAAGAAAATGACAAATCTCTCAAAGTTACTAGATCTTAAATTTAAGGTGTGATT
3190618 TGGTTAAGGGAAAATAAAATTATCTCTAATAACATAATTATCGAAATGTAAAATTACTTATTACA
196 TGGTTAAGGGAAAATAAAATTATCTCTAATAACATAATTATCGAAATGTAAAATTACTTATTACA
* * * * * * *
3190683 TTATGGGCTTAAAGTAATCTTTGAAATCC-ACT-CATAAAATGTTATCATAAAATCTTGCATTAT
261 TTATGGGCTCAAAGTAATCTTTGAAATCCAAATGTA-AAAATGTTATTATGAAATCTTACATTAC
3190746 CTTTGACAATGTGAGATTATTGAACCATATCTTTCTAAA
325 CTTTGACAATGTGAGATTATTGAACCATATCTTTCTAAA
* * *
3190785 CCTAACAAATTTGAATGGCAAGAGAACATAAACAGAGTTTTTTCTTTTCTTTTCTTTTCTTTCTC
1 CCTAACAAATTTGAATGGCAAGAAAACATAAATAGAGTTCTTTCTTTTCTTTTC---T-TTTC-C
* * * *
3190850 ATGTGTGCCATTCCTTAAAACATCAAGCACTTGTCTAGGGCATACAAACCAAATGGACTTACA-C
61 ATGTGTGCCATTCCTTAAAACAACAAGCACTTGTCTAAGGCATACAGACCAAATAGACTTACACC
* * * * * * * *
3190914 -CCC-ATTTCCTTTAACAAGAAAACGACAAATCTTTTAAAGCTT-TTAGATCGTAAATTTAGGGT
126 ACCCTATTTCCATTAAAAAGAAAATGACAAATCTCTCAAAG-TTACTAGATCTTAAATTTAAGGT
* * * * *
3190976 GTGATTTGGTTAAGGGAAAATAATATTTTTTCTATTAACAAAATTATCGAAATGTAAAATTACTT
190 GTGATTTGGTTAAGGGAAAATAAAATTATCTCTAATAACATAATTATCGAAATGTAAAATTACTT
* * * * **
3191041 ATTATATTATGGGTTCAAAGTAATATTTAAAATCCAAACATAAAAATGTTATTATGAAATCTTAC
255 ATTACATTATGGGCTCAAAGTAATCTTTGAAATCCAAATGTAAAAATGTTATTATGAAATCTTAC
3191106 ATTACCTTTGA
320 ATTACCTTTGA
3191117 AAAGTTCTTT
Statistics
Matches: 908, Mismatches: 114, Indels: 52
0.85 0.11 0.05
Matches are distributed among these distances:
353 139 0.15
354 11 0.01
355 83 0.09
356 15 0.02
357 4 0.00
358 60 0.07
360 62 0.07
361 5 0.01
362 118 0.13
363 30 0.03
364 154 0.17
365 168 0.19
366 6 0.01
367 53 0.06
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (363 bp):
CCTAACAAATTTGAATGGCAAGAAAACATAAATAGAGTTCTTTCTTTTCTTTTCTTTTCCATGTG
TGCCATTCCTTAAAACAACAAGCACTTGTCTAAGGCATACAGACCAAATAGACTTACACCACCCT
ATTTCCATTAAAAAGAAAATGACAAATCTCTCAAAGTTACTAGATCTTAAATTTAAGGTGTGATT
TGGTTAAGGGAAAATAAAATTATCTCTAATAACATAATTATCGAAATGTAAAATTACTTATTACA
TTATGGGCTCAAAGTAATCTTTGAAATCCAAATGTAAAAATGTTATTATGAAATCTTACATTACC
TTTGACAATGTGAGATTATTGAACCATATCTTTCTAAA
Found at i:3191341 original size:41 final size:40
Alignment explanation
Indices: 3191296--3191412 Score: 123
Period size: 40 Copynumber: 2.9 Consensus size: 40
3191286 GCGGTACTTT
3191296 TAGCGGCGTTTGGACAGAAAACGTCGCAAAAGGTAAAGCAA
1 TAGCGGCGTTT-GACAGAAAACGTCGCAAAAGGTAAAGCAA
*
3191337 TAGCGGCGTTTTTG-CA-TAAACGTCGCAAAAGGTAAAGCAA
1 TAGCGGCG--TTTGACAGAAAACGTCGCAAAAGGTAAAGCAA
** * *
3191377 TAATGGCATTT-ATAGGAAAAACGTCGCAAAAGGTAA
1 TAGCGGCGTTTGACA-G-AAAACGTCGCAAAAGGTAA
3191413 GAAAAACACC
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
38 4 0.06
40 28 0.44
41 28 0.44
42 1 0.02
43 3 0.05
ACGTcount: A:0.39, C:0.15, G:0.26, T:0.20
Consensus pattern (40 bp):
TAGCGGCGTTTGACAGAAAACGTCGCAAAAGGTAAAGCAA
Found at i:3191364 original size:40 final size:41
Alignment explanation
Indices: 3191313--3191412 Score: 139
Period size: 40 Copynumber: 2.5 Consensus size: 41
3191303 GTTTGGACAG
* * *
3191313 AAAACGTCGCAAAAGGTAAAGCAATAGCGGCGTTT-TTGCA
1 AAAACGTCGCAAAAGGTAAAGCAATAACGGCATTTATAGCA
* * *
3191353 TAAACGTCGCAAAAGGTAAAGCAATAATGGCATTTATAGGA
1 AAAACGTCGCAAAAGGTAAAGCAATAACGGCATTTATAGCA
3191394 AAAACGTCGCAAAAGGTAA
1 AAAACGTCGCAAAAGGTAA
3191413 GAAAAACACC
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
40 31 0.60
41 21 0.40
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (41 bp):
AAAACGTCGCAAAAGGTAAAGCAATAACGGCATTTATAGCA
Found at i:3191482 original size:41 final size:41
Alignment explanation
Indices: 3191421--3191606 Score: 196
Period size: 41 Copynumber: 4.5 Consensus size: 41
3191411 AAGAAAAACA
* * *
3191421 CCGCTAAATGTCAGATCATTAGCGGCGTTTATGGGAAAGCG
1 CCGCTAAAGGTCGGAGCATTAGCGGCGTTTATGGGAAAGCG
* *
3191462 CCACTAAAGGTCGGAGCATTAGCGGCGTTTATAGGAAAGCG
1 CCGCTAAAGGTCGGAGCATTAGCGGCGTTTATGGGAAAGCG
* ** * *
3191503 CCGCTAAAGGTCGGAGCGTTAGCAACATTTCA-GGGAAAGCA
1 CCGCTAAAGGTCGGAGCATTAGCGGCGTTT-ATGGGAAAGCG
* *** *
3191544 CTGCTAAAGGTCGGAGCATTAGCGGCGTTT-TCCCATAAACG
1 CCGCTAAAGGTCGGAGCATTAGCGGCGTTTATGGGA-AAGCG
*
3191585 CCGCTAAAGGTCAGAGCATTAG
1 CCGCTAAAGGTCGGAGCATTAG
3191607 AAGCGCTTTC
Statistics
Matches: 118, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
40 1 0.01
41 116 0.98
42 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (41 bp):
CCGCTAAAGGTCGGAGCATTAGCGGCGTTTATGGGAAAGCG
Found at i:3191622 original size:41 final size:41
Alignment explanation
Indices: 3191546--3191662 Score: 137
Period size: 41 Copynumber: 2.9 Consensus size: 41
3191536 GGAAAGCACT
* ** *
3191546 GCTAAAGGTCGGAGCATTAGCGGCGTTTTCCCATAAACGCC
1 GCTAAAGGTCAGAGCATTAGAAGCGCTTTCCCATAAACGCC
*
3191587 GCTAAAGGTCAGAGCATTAGAAGCGCTTTCTCATAAACGCC
1 GCTAAAGGTCAGAGCATTAGAAGCGCTTTCCCATAAACGCC
* * * **
3191628 GCTAAAGGTTA-AGCAATAGCAGCTTTTTCCCATAA
1 GCTAAAGGTCAGAGCATTAGAAGCGCTTTCCCATAA
3191663 GCAGCGCTAA
Statistics
Matches: 65, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
40 19 0.29
41 46 0.71
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (41 bp):
GCTAAAGGTCAGAGCATTAGAAGCGCTTTCCCATAAACGCC
Found at i:3191632 original size:82 final size:81
Alignment explanation
Indices: 3191455--3191662 Score: 181
Period size: 82 Copynumber: 2.5 Consensus size: 81
3191445 GCGTTTATGG
* *** * *
3191455 GAAAGCGCCACTAAAGGTCGGAGCATTAGCGGCGTTTATAGGA-AAGCGCCGCTAAAGGTCGGAG
1 GAAA-CGCCGCTAAAGGTCGGAGCATTAGCGGCGTTT-TCCCATAAACGCCGCTAAAGGTCAGAG
* **
3191519 CGTTAGCAACATTTCAGG
64 CATTAGCAACATTTCACA
3191537 GAAA-GCACTGCTAAAGGTCGGAGCATTAGCGGCGTTTTCCCATAAACGCCGCTAAAGGTCAGAG
1 GAAACGC-C-GCTAAAGGTCGGAGCATTAGCGGCGTTTTCCCATAAACGCCGCTAAAGGTCAGAG
* *
3191601 CATTAG-AAGCGCTTTCTCA
64 CATTAGCAA-C-ATTTCACA
* ** * * *
3191620 TAAACGCCGCTAAAGGT-TAAGCAATAGCAGCTTTTTCCCATAA
1 GAAACGCCGCTAAAGGTCGGAGCATTAGCGGCGTTTTCCCATAA
3191663 GCAGCGCTAA
Statistics
Matches: 103, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
80 2 0.02
81 26 0.25
82 65 0.63
83 8 0.08
84 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (81 bp):
GAAACGCCGCTAAAGGTCGGAGCATTAGCGGCGTTTTCCCATAAACGCCGCTAAAGGTCAGAGCA
TTAGCAACATTTCACA
Found at i:3194040 original size:4 final size:4
Alignment explanation
Indices: 3194031--3194062 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
3194021 TTACTTAATA
*
3194031 TTTG TTTG TTTG TTTG TTTG TTTG TTTA TTTG
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG
3194063 AATAGATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.03, C:0.00, G:0.22, T:0.75
Consensus pattern (4 bp):
TTTG
Found at i:3194799 original size:2 final size:2
Alignment explanation
Indices: 3194792--3194818 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3194782 AAAAAGAAGG
3194792 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
3194819 CAAATTCCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3200116 original size:25 final size:24
Alignment explanation
Indices: 3200075--3200121 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
3200065 CAAAGAGTAA
* *
3200075 ATTCATTTTTTTGTTAAAAATTCT
1 ATTCATTTTTCTATTAAAAATTCT
3200099 ATTCATTTTTACTATTAAAAATT
1 ATTCATTTTT-CTATTAAAAATT
3200122 GATTCATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (24 bp):
ATTCATTTTTCTATTAAAAATTCT
Found at i:3200126 original size:24 final size:24
Alignment explanation
Indices: 3200075--3200128 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
3200065 CAAAGAGTAA
* * *
3200075 ATTCATTTTTTTGTTAAAAATTCT
1 ATTCATTTTTCTATTAAAAATTCG
3200099 ATTCATTTTTACTATTAAAAATT-G
1 ATTCATTTTT-CTATTAAAAATTCG
3200123 ATTCAT
1 ATTCAT
3200129 GTATGTTAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (24 bp):
ATTCATTTTTCTATTAAAAATTCG
Found at i:3202792 original size:21 final size:21
Alignment explanation
Indices: 3202745--3202794 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
3202735 ATCATCTCCA
*
3202745 TCTTCTTCAGTGTCATCTTAT
1 TCTTCTTCAGTGTCAACTTAT
* *
3202766 TATTCTTCAGCT-TCAACTTCT
1 TCTTCTTCAG-TGTCAACTTAT
3202787 TCTTCTTC
1 TCTTCTTC
3202795 TTCTCCGACA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.14, C:0.28, G:0.06, T:0.52
Consensus pattern (21 bp):
TCTTCTTCAGTGTCAACTTAT
Found at i:3214827 original size:119 final size:119
Alignment explanation
Indices: 3214553--3215186 Score: 526
Period size: 123 Copynumber: 5.3 Consensus size: 119
3214543 GATAAAAAAA
* *
3214553 TTTTGGTGTTGGCCATTGCATGGCCAACACCCCTTTTTT-T-AGAT-AAAAATTCAAATTTTTTG
1 TTTTGGTGTTGACCATTGCATGGCCGACACCCCTTTTTTGTCAGATAAAAAATTCAAATTTTTTG
* * *
3214615 GTATTGGCCATTGCATGACCGACA-TTCCCTTTTTTATCTGGTAAAAAATCAATT
66 GTGTTGGCCATTGCATGACCGACACCT-CCTTTTTTATCTGGTAAAAAATTAATT
* * *
3214669 TATTTGGTGTTAACCATTGCATGGCCGATACCCCTTTTTTGTCAGATAAAAAATTCAAATATTTT
1 T-TTTGGTGTTGACCATTGCATGGCCGACACCCCTTTTTTGTCAGATAAAAAATTCAAATTTTTT
* *
3214734 GGTGTTGGCCATTGCAT-AGCCAACACCTCCTTTTTTATTTGGTAAAAAATTAATT
65 GGTGTTGGCCATTGCATGA-CCGACACCTCCTTTTTTATCTGGTAAAAAATTAATT
* * * * *
3214789 TTTTTGTGTTGACCATTGCATTGCCGACATCCCTTTTTTGTCAGATAAAAAATTTAATTTTTTTG
1 TTTTGGTGTTGACCATTGCATGGCCGACACCCCTTTTTTGTCAGATAAAAAATTCAAATTTTTTG
* * * * *
3214854 GTGTTAGCCATTGTATGACCGACACCACCTTTTTAATCTGATAAAAAAATTTAAATTT
66 GTGTTGGCCATTGCATGACCGACACCTCCTTTTTTATCTGGT-AAAAAA-TT-AA-TT
* * * * *
3214912 TTTTGGTGTTGGCCATTGCATGACCGACACCAC-GTTTTATCTA-ATAAAAAAATTCAAATTTTT
1 TTTTGGTGTTGACCATTGCATGGCCGACACCCCTTTTTTGTC-AGAT-AAAAAATTCAAA-TTTT
* * ** * * * * *
3214975 TTTGTGTTGGCCA-TACATTGGTCGGCACCACC--TATTATCTGATAAAAAAAATCAAATT
63 TTGGTGTTGGCCATTGCA-TGACCGACACCTCCTTTTTTATCTGGT--AAAAAAT-TAATT
** *
3215033 TTATTGGTGTTGGTCA-TGCATTGGCTGACACCACCTTTCTATT-T--GATAAAAAAATTCAAAT
1 TT-TTGGTGTTGACCATTGCA-TGGCCGACACC-CCTTT-T-TTGTCAGAT-AAAAAATTCAAAT
* * * * ** *
3215094 ATTTTTTGTGTTGGCCA-TGCATTAACCGACA-CTACATTTTTATCTGAAAAAAAAATCAAATT
60 -TTTTTGGTGTTGGCCATTGCA-TGACCGACACCTCCTTTTTTATCTG-GTAAAAAAT-TAATT
* *
3215156 TTTTGGTGTTGGCCATTGCTTGGCCGACACC
1 TTTTGGTGTTGACCATTGCATGGCCGACACC
3215187 AACTTTCCCT
Statistics
Matches: 427, Mismatches: 62, Indels: 52
0.79 0.11 0.10
Matches are distributed among these distances:
116 1 0.00
117 34 0.08
118 1 0.00
119 94 0.22
120 70 0.16
121 11 0.03
122 68 0.16
123 108 0.25
124 35 0.08
125 3 0.01
126 2 0.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (119 bp):
TTTTGGTGTTGACCATTGCATGGCCGACACCCCTTTTTTGTCAGATAAAAAATTCAAATTTTTTG
GTGTTGGCCATTGCATGACCGACACCTCCTTTTTTATCTGGTAAAAAATTAATT
Found at i:3214900 original size:61 final size:60
Alignment explanation
Indices: 3214553--3215192 Score: 506
Period size: 61 Copynumber: 10.6 Consensus size: 60
3214543 GATAAAAAAA
* * *
3214553 TTTTGGTGTTGGCCATTGCATGGCCAACACC-CCTTTTT-T-TAGAT-AAAAATTCAAATT
1 TTTTGGTGTTGGCCATTGCATGACCGACACCACCTTTTTATCT-GATAAAAAATTCAATTT
* * *
3214610 TTTTGGTATTGGCCATTGCATGACCGACATTCC-CTTTTTTATCTGGTAAAAAA-TCAATTT
1 TTTTGGTGTTGGCCATTGCATGACCGACA--CCACCTTTTTATCTGATAAAAAATTCAATTT
* ** * * * * * *
3214670 ATTTGGTGTTAACCATTGCATGGCCGATACC-CCTTTTTTGTCAGATAAAAAATTCAAATA
1 TTTTGGTGTTGGCCATTGCATGACCGACACCACC-TTTTTATCTGATAAAAAATTCAATTT
* * * *
3214730 TTTTGGTGTTGGCCATTGCAT-AGCCAACACCTCCTTTTTTATTTGGTAAAAAATT-AATTT
1 TTTTGGTGTTGGCCATTGCATGA-CCGACACCACC-TTTTTATCTGATAAAAAATTCAATTT
* * * * *
3214790 TTTT-GTGTTGACCATTGCATTG-CCGACATCC-CTTTTTTGTCAGATAAAAAATTTAATTT
1 TTTTGGTGTTGGCCATTGCA-TGACCGACA-CCACCTTTTTATCTGATAAAAAATTCAATTT
* * *
3214849 TTTTGGTGTTAGCCATTGTATGACCGACACCACCTTTTTAATCTGATAAAAAAATTTAAATTT
1 TTTTGGTGTTGGCCATTGCATGACCGACACCACCTTTTT-ATCTGAT-AAAAAA-TTCAATTT
* *
3214912 TTTTGGTGTTGGCCATTGCATGACCGACACCA-CGTTTTATCTAATAAAAAAATTCAAATTT
1 TTTTGGTGTTGGCCATTGCATGACCGACACCACCTTTTTATCTGAT-AAAAAATTC-AATTT
* * ** * * *
3214973 TTTTTGTGTTGGCCA-TACATTGGTCGGCACCACC-TATTATCTGATAAAAAAAATCAAATTT
1 TTTTGGTGTTGGCCATTGCA-TGACCGACACCACCTTTTTATCTGAT-AAAAAATTC-AATTT
* * * * * *
3215034 TATTGGTGTTGGTCA-TGCATTGGCTGACACCACCTTTCTATTTGATAAAAAAATTCAAATATT
1 TTTTGGTGTTGGCCATTGCA-TGACCGACACCACCTTTTTATCTGAT-AAAAAATTC-AAT-TT
* * * * * *
3215097 TTTT-GTGTTGGCCA-TGCATTAACCGACACTACATTTTTATCTGAAAAAAAAATCAAATT
1 TTTTGGTGTTGGCCATTGCA-TGACCGACACCACCTTTTTATCTGATAAAAAATTCAATTT
* * *
3215156 TTTTGGTGTTGGCCATTGCTTGGCCGACACCAACTTT
1 TTTTGGTGTTGGCCATTGCATGACCGACACCACCTTT
3215193 CCCTCATTTC
Statistics
Matches: 471, Mismatches: 86, Indels: 49
0.78 0.14 0.08
Matches are distributed among these distances:
57 26 0.06
58 19 0.04
59 62 0.13
60 124 0.26
61 133 0.28
62 65 0.14
63 42 0.09
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (60 bp):
TTTTGGTGTTGGCCATTGCATGACCGACACCACCTTTTTATCTGATAAAAAATTCAATTT
Found at i:3216078 original size:30 final size:30
Alignment explanation
Indices: 3216029--3216147 Score: 150
Period size: 30 Copynumber: 4.0 Consensus size: 30
3216019 AAAAAATAAT
* *
3216029 AATTAGAAATGAAATTTAAAATATAAACGA
1 AATTAGAAATTAAAATTAAAATATAAACGA
* * *
3216059 AATTACAAATTAAAATTAAAATATACAGGA
1 AATTAGAAATTAAAATTAAAATATAAACGA
*
3216089 AATTAGAAATTAAATTTAAAATATAAACGA
1 AATTAGAAATTAAAATTAAAATATAAACGA
* *
3216119 AATTAAAAATT-AAATTAAAAAAATAAACG
1 AATTAGAAATTAAAATT-AAAATATAAACG
3216148 GAAAAAAAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
29 4 0.05
30 72 0.95
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (30 bp):
AATTAGAAATTAAAATTAAAATATAAACGA
Found at i:3216133 original size:23 final size:22
Alignment explanation
Indices: 3216094--3216137 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
3216084 CAGGAAATTA
*
3216094 GAAATTAAATTTAAAATATAAAC
1 GAAATTAAAATTAAAAT-TAAAC
3216117 GAAATTAAAAATT-AAATTAAA
1 GAAATT-AAAATTAAAATTAAA
3216138 AAAATAAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 10 0.53
24 5 0.26
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (22 bp):
GAAATTAAAATTAAAATTAAAC
Found at i:3217581 original size:109 final size:112
Alignment explanation
Indices: 3217418--3217617 Score: 289
Period size: 109 Copynumber: 1.8 Consensus size: 112
3217408 CATGGCCAAC
* * * *
3217418 ACCAAAAATATTTGAATTTTTTTATCAGATAGAAAGGTAATGTCGGCCATGCAATGACCAACACA
1 ACCAAAAAAAATTGAATTTTTTTATCAGATAGAAAGATAATGTCGACCATGCAATGACCAACACA
*
3217483 AAAAAATTTG-ATTTTTTTATAAGATAATAGGTGGTGTCGGCTAATG
66 AAAAAATTTGAATTATTTTATAAGATAATAGGTGGTGTCGGCTAATG
* ** *
3217529 ACCAAAAAAAATTGAA-TTTTTTATCAGATA-AAATATGGTGTCGACCATGCAATGGCCAACACA
1 ACCAAAAAAAATTGAATTTTTTTATCAGATAGAAAGATAATGTCGACCATGCAATGACCAACACA
*
3217592 AAAAAATTTGAATTATTTTATCAGAT
66 AAAAAATTTGAATTATTTTATAAGAT
3217618 TAAAAAGGTC
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
109 37 0.47
110 27 0.35
111 14 0.18
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (112 bp):
ACCAAAAAAAATTGAATTTTTTTATCAGATAGAAAGATAATGTCGACCATGCAATGACCAACACA
AAAAAATTTGAATTATTTTATAAGATAATAGGTGGTGTCGGCTAATG
Found at i:3217670 original size:47 final size:48
Alignment explanation
Indices: 3217580--3217672 Score: 125
Period size: 48 Copynumber: 2.0 Consensus size: 48
3217570 CGACCATGCA
**
3217580 ATGGCCAACACAAAAAAATTTGAATTATTTTATCAGATTAAAAAGGTC
1 ATGGCCAACACAAAAAAATTTGAATTATTTTATCAGACAAAAAAGGTC
* * **
3217628 ATGGCCGACACTAAAAAATTTGAATT-TTTTATCTTACAAAAAAGG
1 ATGGCCAACACAAAAAAATTTGAATTATTTTATCAGACAAAAAAGG
3217673 GGTGTCGGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 15 0.38
48 24 0.62
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (48 bp):
ATGGCCAACACAAAAAAATTTGAATTATTTTATCAGACAAAAAAGGTC
Found at i:3217701 original size:108 final size:104
Alignment explanation
Indices: 3217533--3217730 Score: 252
Period size: 107 Copynumber: 1.9 Consensus size: 104
3217523 CTAATGACCA
* * * * *
3217533 AAAAAAATTGAATTTTTTATCAGATAAAATATGGTGTCGACCATGCAATGGCCAACACAAAAAAA
1 AAAAAAATTGAATTTTTTATCAGACAAAAAAGGGTGTCGACCATACAATGACCAACACAAAAAAA
* *
3217598 TTTGAATTATTTTATCAGATTAAAAAGGTCATGGCCGACACT
66 -TTG-ATT-TTTTACCAGATAAAAAAGGTCATGGCCGACACT
* ** * *
3217640 AAAAAATTTGAATTTTTTATCTTACAAAAAAGGGGTGTCGGCCATACAATGACCAAGACAAAAAA
1 AAAAAAATTGAATTTTTTATCAGACAAAAAA-GGGTGTCGACCATACAATGACCAACACAAAAAA
3217705 ATTGATTTTTTACCAGATAAAAAAGG
65 ATTGATTTTTTACCAGATAAAAAAGG
3217731 GGTGTCGGCC
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
105 17 0.22
106 3 0.04
107 29 0.37
108 29 0.37
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (104 bp):
AAAAAAATTGAATTTTTTATCAGACAAAAAAGGGTGTCGACCATACAATGACCAACACAAAAAAA
TTGATTTTTTACCAGATAAAAAAGGTCATGGCCGACACT
Found at i:3217731 original size:58 final size:60
Alignment explanation
Indices: 3217665--3217826 Score: 204
Period size: 61 Copynumber: 2.7 Consensus size: 60
3217655 TTTATCTTAC
*
3217665 AAAAAAGGGGTGTCGGCCATACAATGACCAAGA-CAAAAAAATTGATTTTTTACCAGAT-
1 AAAAAAGGGGTGTCGGCCATACAATGACCAACATCAAAAAAATTGATTTTTTACCAGATA
*** * *
3217723 AAAAAAGGGGTGTCGGCCATACAATGGTTAACATTAAAAAAATTGATTTTTTACCGGATA
1 AAAAAAGGGGTGTCGGCCATACAATGACCAACATCAAAAAAATTGATTTTTTACCAGATA
* ** *
3217783 GAAAAAAGGGGTGTCGGCCATGCAATGGGCAATAT-AAAAAAATT
1 -AAAAAAGGGGTGTCGGCCATACAATGACCAACATCAAAAAAATT
3217827 TCAATTTTTT
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
58 29 0.32
59 23 0.25
60 9 0.10
61 30 0.33
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.23
Consensus pattern (60 bp):
AAAAAAGGGGTGTCGGCCATACAATGACCAACATCAAAAAAATTGATTTTTTACCAGATA
Found at i:3217835 original size:61 final size:58
Alignment explanation
Indices: 3217628--3217826 Score: 218
Period size: 58 Copynumber: 3.3 Consensus size: 58
3217618 TAAAAAGGTC
* * * ** *
3217628 ATGGCCGACACTAAAAAATTTGAATTTTTTATCTTACAAAAAAGGGGTGTCGGCCATACA
1 ATGGCCAACA-TAAAAAAATTG-ATTTTTTACCAGATAAAAAAGGGGTGTCGGCCATACA
* * *
3217688 ATGACCAAGACAAAAAAATTGATTTTTTACCAGATAAAAAAGGGGTGTCGGCCATACA
1 ATGGCCAACATAAAAAAATTGATTTTTTACCAGATAAAAAAGGGGTGTCGGCCATACA
** * *
3217746 ATGGTTAACATTAAAAAAATTGATTTTTTACCGGATAGAAAAAAGGGGTGTCGGCCATGCA
1 ATGGCCAACA-TAAAAAAATTGATTTTTTACCAGAT--AAAAAAGGGGTGTCGGCCATACA
* *
3217807 ATGGGCAATATAAAAAAATT
1 ATGGCCAACATAAAAAAATT
3217827 TCAATTTTTT
Statistics
Matches: 117, Mismatches: 19, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
58 39 0.33
59 32 0.27
60 17 0.15
61 29 0.25
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.26
Consensus pattern (58 bp):
ATGGCCAACATAAAAAAATTGATTTTTTACCAGATAAAAAAGGGGTGTCGGCCATACA
Found at i:3217849 original size:61 final size:59
Alignment explanation
Indices: 3217628--3217849 Score: 205
Period size: 58 Copynumber: 3.7 Consensus size: 59
3217618 TAAAAAGGTC
* * * *
3217628 ATGGCCGACACTAAAAAATTTGAATTTTTTATCTTAC-AAAAAAGGGGTGTCGGCCATACA
1 ATGGCCAACA-TAAAAAAATT-AATTTTTTACCTGACAAAAAAAGGGGTGTCGGCCATACA
* * * * * *
3217688 ATGACCAAGACAAAAAAATTGATTTTTTACCAGA-TAAAAAAGGGGTGTCGGCCATACA
1 ATGGCCAACATAAAAAAATTAATTTTTTACCTGACAAAAAAAGGGGTGTCGGCCATACA
** * * * *
3217746 ATGGTTAACATTAAAAAAATTGATTTTTTACCGGATAGAAAAAAGGGGTGTCGGCCATGCA
1 ATGGCCAACA-TAAAAAAATTAATTTTTTACCTGACA-AAAAAAGGGGTGTCGGCCATACA
* * *
3217807 ATGGGCAATATAAAAAAATTTCAATTTTTTATCTGACAAAAAA
1 ATGGCCAACATAAAAAAA-TT-AATTTTTTACCTGACAAAAAA
3217850 GAATGTCGGT
Statistics
Matches: 132, Mismatches: 24, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
58 39 0.30
59 30 0.23
60 15 0.11
61 36 0.27
62 12 0.09
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (59 bp):
ATGGCCAACATAAAAAAATTAATTTTTTACCTGACAAAAAAAGGGGTGTCGGCCATACA
Done.