Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2
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: 5794061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 68655 characters in sequence are not A, C, G, or T
File 17 of 38
Found at i:2611463 original size:8 final size:8
Alignment explanation
Indices: 2611452--2611484 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
2611442 ATTACATTTT
2611452 TTTTATTA
1 TTTTATTA
2611460 TTTTATT-
1 TTTTATTA
*
2611467 TTTTATTT
1 TTTTATTA
2611475 TTTTATTA
1 TTTTATTA
2611483 TT
1 TT
2611485 CATGTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTATTA
Found at i:2611468 original size:15 final size:15
Alignment explanation
Indices: 2611450--2611481 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2611440 CTATTACATT
2611450 TTTTTTATTATTTTA
1 TTTTTTATTATTTTA
*
2611465 TTTTTTATTTTTTTA
1 TTTTTTATTATTTTA
2611480 TT
1 TT
2611482 ATTCATGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTATTATTTTA
Found at i:2614859 original size:20 final size:20
Alignment explanation
Indices: 2614834--2614911 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
2614824 GTAAAAAGAC
2614834 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
2614854 AGAATGTATTGATACATTCA
1 AGAATGTATCGATACATTGA
*
2614874 TACAA-GTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
* *
2614894 AAAAAGTATCGATACATT
1 AGAATGTATCGATACATT
2614912 TGGGTAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 3 0.06
20 44 0.88
21 3 0.06
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:2614868 original size:51 final size:50
Alignment explanation
Indices: 2614786--2614963 Score: 153
Period size: 51 Copynumber: 3.7 Consensus size: 50
2614776 TTTTAACTAG
** *
2614786 ATGTATCGATACATT-ATTCAATGTACCGATACATCTGGGTAAAAAGACAGA
1 ATGTATCGATACATTGA-AGAATGTATCGATACAT-TGGGTAAAAAGACAGA
* * *
2614837 ATGTATCGATACATTGAAGAATGTATTGATACA-T---T---CATAC--A
1 ATGTATCGATACATTGAAGAATGTATCGATACATTGGGTAAAAAGACAGA
* *
2614878 A-GTATCGATACATTGAAAAAAGTATCGATACATTTGGGTAAAAAGACAGA
1 ATGTATCGATACATTGAAGAATGTATCGATACA-TTGGGTAAAAAGACAGA
* * *
2614928 ATGTATCAACACATTGAAGAATGTATCGATATATTG
1 ATGTATCGATACATTGAAGAATGTATCGATACATTG
2614964 AAGAAATCAA
Statistics
Matches: 99, Mismatches: 16, Indels: 25
0.71 0.11 0.18
Matches are distributed among these distances:
40 28 0.28
41 2 0.02
42 1 0.01
43 3 0.03
45 1 0.01
46 1 0.01
48 3 0.03
49 1 0.01
50 5 0.05
51 53 0.54
52 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.29
Consensus pattern (50 bp):
ATGTATCGATACATTGAAGAATGTATCGATACATTGGGTAAAAAGACAGA
Found at i:2614950 original size:20 final size:20
Alignment explanation
Indices: 2614925--2614968 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2614915 GTAAAAAGAC
2614925 AGAATGTATCAACACATTGA
1 AGAATGTATCAACACATTGA
* * *
2614945 AGAATGTATCGATATATTGA
1 AGAATGTATCAACACATTGA
2614965 AGAA
1 AGAA
2614969 ATCAATACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.09, G:0.18, T:0.27
Consensus pattern (20 bp):
AGAATGTATCAACACATTGA
Found at i:2622281 original size:51 final size:50
Alignment explanation
Indices: 2622205--2622316 Score: 188
Period size: 51 Copynumber: 2.2 Consensus size: 50
2622195 TTCTGAGGGC
*
2622205 ATACTCTAACCTCGATTTTATTTCCAAAACACTGATTTTTCACCATCGGGG
1 ATACTCCAACCTCGATTTTATTTCCAAAACACTGATTTTTCA-CATCGGGG
* *
2622256 ATACTCCAACCTCGGTTTTATTTCCAAAACACTGGTTTTTCACATCGGGG
1 ATACTCCAACCTCGATTTTATTTCCAAAACACTGATTTTTCACATCGGGG
2622306 ATACTCCAACC
1 ATACTCCAACC
2622317 CCGTTATTTC
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
50 19 0.33
51 39 0.67
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (50 bp):
ATACTCCAACCTCGATTTTATTTCCAAAACACTGATTTTTCACATCGGGG
Found at i:2622338 original size:50 final size:50
Alignment explanation
Indices: 2622221--2622329 Score: 170
Period size: 51 Copynumber: 2.2 Consensus size: 50
2622211 TAACCTCGAT
*
2622221 TTTATTTCCAAAACACTGATTTTTCACCATCGGGGATACTCCAACCTCGG
1 TTTATTTCCAAAACACTGATTTTTCACCATCGGGGATACTCCAACCTCCG
*
2622271 TTTTATTTCCAAAACACTGGTTTTTCA-CATCGGGGATACTCCAACC-CCG
1 -TTTATTTCCAAAACACTGATTTTTCACCATCGGGGATACTCCAACCTCCG
2622320 -TTATTTCCAA
1 TTTATTTCCAA
2622330 GGGGACACTC
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
47 10 0.18
49 2 0.04
50 19 0.34
51 25 0.45
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.34
Consensus pattern (50 bp):
TTTATTTCCAAAACACTGATTTTTCACCATCGGGGATACTCCAACCTCCG
Found at i:2622432 original size:79 final size:78
Alignment explanation
Indices: 2622252--2622460 Score: 251
Period size: 79 Copynumber: 2.7 Consensus size: 78
2622242 TTTCACCATC
* * *
2622252 GGGGATACTCCAACCTCGGTTTTATTTCCAAAACACTGGTTTTTCACATCGGGGATACTCCAACC
1 GGGGATACTCCAACCTCAGTTTTATTTCCAAAACACCGTTTTTTCACATCGGGGATACTCCAACC
*
2622317 CCGTTATTTCCAA
66 CCATTATTTCCAA
* * * *
2622330 GGGGACACTCTAACCCCAGTTTTATTGCCAAAACACCGTTTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCTCAGTTTTATTTCCAAAACACCGTTTTTTCAC-ATCGGGGATACTCCAAC
* **
2622395 CCTATTACTTT-TGA
65 CCCATTA-TTTCCAA
* *
2622409 GGGGATACTCCAACCTCAATTTTATTTCCAAAACATC-TATTTTTCACTATCG
1 GGGGATACTCCAACCTCAGTTTTATTTCCAAAACACCGT-TTTTTCAC-ATCG
2622461 AGGAATGTAC
Statistics
Matches: 110, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
78 41 0.37
79 66 0.60
80 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.32
Consensus pattern (78 bp):
GGGGATACTCCAACCTCAGTTTTATTTCCAAAACACCGTTTTTTCACATCGGGGATACTCCAACC
CCATTATTTCCAA
Found at i:2624958 original size:32 final size:33
Alignment explanation
Indices: 2624917--2624980 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 33
2624907 AGCCAAACTT
2624917 GTATCGATACAC-AAAATATGTATCGATACAAC
1 GTATCGATACACAAAAATATGTATCGATACAAC
2624949 GTATCGATACACAAAAAATATGTATCGATACA
1 GTATCGATACAC-AAAAATATGTATCGATACA
2624981 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 12 0.40
34 18 0.60
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.25
Consensus pattern (33 bp):
GTATCGATACACAAAAATATGTATCGATACAAC
Found at i:2629031 original size:15 final size:15
Alignment explanation
Indices: 2629011--2629041 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2629001 TAAAAATGTC
*
2629011 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2629026 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2629041 C
1 C
2629042 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2631142 original size:13 final size:13
Alignment explanation
Indices: 2631124--2631160 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
2631114 ATTTTTCTTC
2631124 GTATCGATACAAT
1 GTATCGATACAAT
*
2631137 GTATCGATACACT
1 GTATCGATACAAT
2631150 GTATCGATACA
1 GTATCGATACA
2631161 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (13 bp):
GTATCGATACAAT
Found at i:2638921 original size:21 final size:20
Alignment explanation
Indices: 2638874--2638927 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
2638864 TATTTCGGGC
*
2638874 ATGTATCGATACATTCACTT
1 ATGTATCGATACATGCACTT
2638894 ATGTATCGATACATAGC-CTT
1 ATGTATCGATACAT-GCACTT
2638914 ATTGTATCGATACA
1 A-TGTATCGATACA
2638928 AATTGTTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATGCACTT
Found at i:2642872 original size:176 final size:175
Alignment explanation
Indices: 2642636--2643015 Score: 552
Period size: 176 Copynumber: 2.2 Consensus size: 175
2642626 GATTTCTATT
* * * *
2642636 ACAGAAAATCGTAGGAATTTTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATGATAA
1 ACAGAAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATGATAA
* * *
2642701 AATAATATTTATTTATTATTTTATTTATTTTTAGT-TTTTTCAAAAATTTCATTTCGTACCTTAA
66 AATAATATTTATTTATTACTTTATTTATTTTTA-TATTTTTCAAAAATTTCATTCCATACCTTAA
* *
2642765 TGGAGAACCAAAAAGATATGAAAAGTTTTAAAA-ATTCCTATACCCC
130 TGAAGAACCAAAAAGATACGAAAAG-TTTAAAAGATTCCTATACCCC
2642811 -CACGAAAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGATAAT-ATCTTTTATTTAATGA
1 ACA-G-AAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGATAATAAT-TTTTATTTAATGA
2642874 TAAAATAATATTTATTTATTACTTTATTTATTTTTATATTTTTCAAAAATTTCATTCCATACCTT
63 TAAAATAATATTTATTTATTACTTTATTTATTTTTATATTTTTCAAAAATTTCATTCCATACCTT
***
2642939 AATGAAGAACTGTAAAGATACGAAAAGTTTAAAAGATTCCTATACCCC
128 AATGAAGAACCAAAAAGATACGAAAAGTTTAAAAGATTCCTATACCCC
* * *
2642987 ACAGAAAATCATAGGAATATTACAAATCT
1 ACAGAAAACCATAAGAATATTAGAAATCT
2643016 AAAAAATATG
Statistics
Matches: 184, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
174 2 0.01
175 33 0.18
176 147 0.80
177 2 0.01
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (175 bp):
ACAGAAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATGATAA
AATAATATTTATTTATTACTTTATTTATTTTTATATTTTTCAAAAATTTCATTCCATACCTTAAT
GAAGAACCAAAAAGATACGAAAAGTTTAAAAGATTCCTATACCCC
Found at i:2644241 original size:151 final size:153
Alignment explanation
Indices: 2643954--2644309 Score: 468
Period size: 152 Copynumber: 2.3 Consensus size: 153
2643944 TGTTTTAAAC
* * * *
2643954 TTTTCAAAACTAATTTGATATCAATTAACCAATAATATTTGAAGGATTTT-AAAATTATAAACTT
1 TTTTCAAAACTAATTTTATATCAATTAAACAATAATATTTGAAGAATTTTAAAAATTATAAACTA
* ** *
2644018 AGAAAAATCTTACCAAAAAATTTAAGGAGAAGAAAACTTTGTATTTTAATAATAAGAAAAATTCT
66 AGAAAAATCTTACCAAAAAATTTAAGGAGAAGAAAACTCTGTATTCCAATAACAAGAAAAATTCT
**
2644083 AAAACTCATAAAATAAATTGAA-
131 AAAACTCATAAAATAAATCAAAT
*
2644105 TTTTCAAAACTGATTTTATATCAATTAAACAATAATATTTGAAGAATTTTAAAAATTATAAACTA
1 TTTTCAAAACTAATTTTATATCAATTAAACAATAATATTTGAAGAATTTTAAAAATTATAAACTA
* *** * *
2644170 AGAGAAATCTTATTGAAAAATTTACGGAGAAGAAAACTCTGTATTCCAATAACAAG-AAAATTTT
66 AGAAAAATCTTACCAAAAAATTTAAGGAGAAGAAAACTCTGTATTCCAATAACAAGAAAAATTCT
2644234 AAAACTCATAAAATAAATCAAAT
131 AAAACTCATAAAATAAATCAAAT
* * * * * *
2644257 TTTTCAAAACTAATTTTAAACTGATTTAAA-GACAATATTTAAAGAATTTTAAA
1 TTTTCAAAACTAATTTTATA-TCAATTAAACAATAATATTTGAAGAATTTTAAA
2644310 GTTTAAAATA
Statistics
Matches: 178, Mismatches: 24, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
151 73 0.41
152 98 0.55
153 7 0.04
ACGTcount: A:0.50, C:0.09, G:0.08, T:0.34
Consensus pattern (153 bp):
TTTTCAAAACTAATTTTATATCAATTAAACAATAATATTTGAAGAATTTTAAAAATTATAAACTA
AGAAAAATCTTACCAAAAAATTTAAGGAGAAGAAAACTCTGTATTCCAATAACAAGAAAAATTCT
AAAACTCATAAAATAAATCAAAT
Found at i:2648358 original size:22 final size:20
Alignment explanation
Indices: 2648311--2648388 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
2648301 CAAAAACCAG
2648311 AATGTATCGATACAATGAAT
1 AATGTATCGATACAATGAAT
* *
2648331 AATGTATCGATATAATTTAAGT
1 AATGTATCGATACAA-TGAA-T
* * * *
2648353 AATGTATTGATACATTCACT
1 AATGTATCGATACAATGAAT
*
2648373 TATGTATCGATACAAT
1 AATGTATCGATACAAT
2648389 TTCTTTCCAG
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
20 28 0.61
21 5 0.11
22 13 0.28
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (20 bp):
AATGTATCGATACAATGAAT
Found at i:2649689 original size:15 final size:16
Alignment explanation
Indices: 2649669--2649698 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2649659 AAAGTGAACT
2649669 AAAAACCA-AAAAAAA
1 AAAAACCATAAAAAAA
2649684 AAAAACCATAAAAAA
1 AAAAACCATAAAAAA
2649699 TAAGCTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.83, C:0.13, G:0.00, T:0.03
Consensus pattern (16 bp):
AAAAACCATAAAAAAA
Found at i:2651358 original size:18 final size:17
Alignment explanation
Indices: 2651318--2651356 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
2651308 AAATTTGGTT
*
2651318 ATTTTATTTAAATTATC
1 ATTTTATTTAAAATATC
2651335 ATTTTAGTTTAAAAT-TC
1 ATTTTA-TTTAAAATATC
2651352 ATTTT
1 ATTTT
2651357 TATCAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (17 bp):
ATTTTATTTAAAATATC
Found at i:2652190 original size:19 final size:18
Alignment explanation
Indices: 2652166--2652229 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 18
2652156 TAGCCAAACT
2652166 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAA-A
2652185 TGTATCGAT--AC---AA
1 TGTATCGATACACAAAAA
2652198 TGTATCGATACACAAAAAA
1 TGTATCGATACAC-AAAAA
2652217 TTGTATCGATACA
1 -TGTATCGATACA
2652230 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 11 0.29
20 12 0.32
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (18 bp):
TGTATCGATACACAAAAA
Found at i:2652202 original size:13 final size:13
Alignment explanation
Indices: 2652184--2652209 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2652174 TACACAAAAT
2652184 ATGTATCGATACA
1 ATGTATCGATACA
2652197 ATGTATCGATACA
1 ATGTATCGATACA
2652210 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2652207 original size:32 final size:33
Alignment explanation
Indices: 2652166--2652229 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
2652156 TAGCCAAACT
*
2652166 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
2652198 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2652230 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2654457 original size:21 final size:21
Alignment explanation
Indices: 2654424--2654473 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
2654414 TTGCAAGTTG
*
2654424 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2654446 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
2654467 AAATAAA
1 AAATAAA
2654474 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2656838 original size:21 final size:21
Alignment explanation
Indices: 2656812--2656868 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
2656802 ACATGTTGCA
2656812 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
2656833 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
2656854 ATGTATCGATACATG
1 ATGTATCGATACATG
2656869 TCATTGGGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.26
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:2656923 original size:19 final size:18
Alignment explanation
Indices: 2656899--2656962 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 18
2656889 TAGCCAAACT
2656899 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAA-A
2656918 TGTATCGAT--AC---AA
1 TGTATCGATACACAAAAA
2656931 TGTATCGATACACAAAAAA
1 TGTATCGATACAC-AAAAA
2656950 TTGTATCGATACA
1 -TGTATCGATACA
2656963 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 11 0.29
20 12 0.32
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (18 bp):
TGTATCGATACACAAAAA
Found at i:2656935 original size:13 final size:13
Alignment explanation
Indices: 2656917--2656942 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2656907 TACACAAAAT
2656917 ATGTATCGATACA
1 ATGTATCGATACA
2656930 ATGTATCGATACA
1 ATGTATCGATACA
2656943 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2656940 original size:32 final size:33
Alignment explanation
Indices: 2656899--2656962 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
2656889 TAGCCAAACT
*
2656899 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
2656931 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2656963 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2660640 original size:18 final size:20
Alignment explanation
Indices: 2660602--2660640 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
2660592 GTGTTCCCAT
2660602 ATGCATACAAAGAAAGAAAA
1 ATGCATACAAAGAAAGAAAA
*
2660622 ATGCA-ACAAA-AAGGAAAA
1 ATGCATACAAAGAAAGAAAA
2660640 A
1 A
2660641 GTAAATGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 5 0.28
20 5 0.28
ACGTcount: A:0.67, C:0.10, G:0.15, T:0.08
Consensus pattern (20 bp):
ATGCATACAAAGAAAGAAAA
Found at i:2661063 original size:33 final size:32
Alignment explanation
Indices: 2661005--2661068 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
2660995 TAGCCAAACT
* **
2661005 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTACCGATACACAAAAAATGTATCGATACAA
2661037 TGTACCGATACACCAAAAAATGTATCGATACA
1 TGTACCGATACA-CAAAAAATGTATCGATACA
2661069 TTAGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (32 bp):
TGTACCGATACACAAAAAATGTATCGATACAA
Found at i:2667240 original size:20 final size:20
Alignment explanation
Indices: 2667169--2667246 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 20
2667159 ATTTCCAAAA
* *
2667169 TGTATCGATACATGTTTCTG
1 TGTATCGATACATCTTTCTC
*
2667189 TGTATCGATACATCTGGAAAATTCAC
1 TGTATCGATACATCT------TTCTC
*
2667215 TGTATCGATACATCTTTCTT
1 TGTATCGATACATCTTTCTC
2667235 TGTATCGATACA
1 TGTATCGATACA
2667247 GGGGGATTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
20 29 0.62
26 18 0.38
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATCTTTCTC
Found at i:2669543 original size:32 final size:32
Alignment explanation
Indices: 2669502--2669572 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
2669492 AGCTTTGTAG
2669502 CGATACATTGTATCGATACAACACTTATATAT
1 CGATACATTGTATCGATACAACACTTATATAT
* *
2669534 CGATACATTGTATCGATACAGCACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATATAT
*
2669566 TGATACA
1 CGATACA
2669573 AATCGCTGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATATAT
Found at i:2670478 original size:26 final size:26
Alignment explanation
Indices: 2670449--2670538 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
2670439 GTGTGGGCTT
2670449 TGAAAGGTGTCATGCTCTTTGAGGAC
1 TGAAAGGTGTCATGCTCTTTGAGGAC
* * * * *
2670475 TGAAAGGTGCCA-CCAACTTATGTGGGC
1 TGAAAGGTGTCATGC-TCTT-TGAGGAC
* *
2670502 TTTGAAAGGCGTCCTGCTCTTTGAGGAC
1 --TGAAAGGTGTCATGCTCTTTGAGGAC
2670530 TGAAAGGTG
1 TGAAAGGTG
2670539 CCACCAACTT
Statistics
Matches: 46, Mismatches: 13, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
25 1 0.02
26 22 0.48
27 5 0.11
28 5 0.11
29 12 0.26
30 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCATGCTCTTTGAGGAC
Found at i:2670490 original size:55 final size:55
Alignment explanation
Indices: 2670403--2670925 Score: 628
Period size: 55 Copynumber: 9.3 Consensus size: 55
2670393 ATAAAGTGTA
* * *
2670403 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
2670458 TCATGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
2670513 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
2670568 TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
2670623 TCCTACTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * * **
2670678 CCCTGCTCTTTGGGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
2670733 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCATTGAAAGGAGAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGC-TT----TGA-AAGGTG
* *
2670794 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTATGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* ** * **
2670853 TCCTGCTCTTTGTGGACTGAAAAATGCCACCCACTTGTGTGGGCTTTGACAA-GCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGA-AAGGTG
2670908 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
2670926 AAAAAGCGGA
Statistics
Matches: 419, Mismatches: 32, Indels: 34
0.86 0.07 0.07
Matches are distributed among these distances:
54 2 0.00
55 310 0.74
56 11 0.03
59 28 0.07
60 46 0.11
61 22 0.05
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:2670728 original size:28 final size:28
Alignment explanation
Indices: 2670642--2670728 Score: 76
Period size: 28 Copynumber: 3.1 Consensus size: 28
2670632 TTGAGGACTG
2670642 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTGTGTGGGCTTT
* * *
2670670 GAAAGGTGCC-CTGC-TCTT-TG-GGGAC-TG
1 GAAA-ATGCCAC--CAACTTGTGTGGG-CTTT
2670697 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTGTGTGGGCTTT
2670725 GAAA
1 GAAA
2670729 GGCATCCTGC
Statistics
Matches: 44, Mismatches: 6, Indels: 18
0.65 0.09 0.26
Matches are distributed among these distances:
25 1 0.02
26 7 0.16
27 12 0.27
28 16 0.36
29 7 0.16
30 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (28 bp):
GAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:2671919 original size:16 final size:16
Alignment explanation
Indices: 2671894--2671924 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2671884 AAGCAGATTC
*
2671894 CTTTTTTTTTTTTTTG
1 CTTTTGTTTTTTTTTG
2671910 CTTTTGTTTTTTTTT
1 CTTTTGTTTTTTTTT
2671925 TTTAGAAAAG
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:0.00, C:0.06, G:0.06, T:0.87
Consensus pattern (16 bp):
CTTTTGTTTTTTTTTG
Found at i:2684513 original size:28 final size:28
Alignment explanation
Indices: 2684473--2684544 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
2684463 GGAATAAAGG
**
2684473 CGAGGTTGGAGTATCCCCTCA-GAGGTAA
1 CGAGGTTGGAGTATCCCC-CATGAAATAA
*
2684501 CGAGGTTGGAGTATCCCCGATGAAATAA
1 CGAGGTTGGAGTATCCCCCATGAAATAA
2684529 CGAGGTTGGAGTATCC
1 CGAGGTTGGAGTATCC
2684545 TCGATTGTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 1 0.03
28 39 0.98
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.22
Consensus pattern (28 bp):
CGAGGTTGGAGTATCCCCCATGAAATAA
Found at i:2684748 original size:51 final size:51
Alignment explanation
Indices: 2684532--2684752 Score: 235
Period size: 52 Copynumber: 4.3 Consensus size: 51
2684522 GAAATAACGA
* * *
2684532 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTCTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTATTT-TGGAAATAAAATCGG
* * * * * * *
2684584 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATCAG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTAGTATTTTGGAAATAAAATCGG
* * * *
2684636 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGTAATAAAATCGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTAGTATTTTGGAAATAAAATCGG
* * * * **
2684688 GGTTAGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAATCGG
2684739 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
2684753 TTCGGAGGTA
Statistics
Matches: 139, Mismatches: 28, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
51 35 0.25
52 91 0.65
53 13 0.09
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAATCGG
Found at i:2684933 original size:51 final size:51
Alignment explanation
Indices: 2684871--2685036 Score: 192
Period size: 51 Copynumber: 3.3 Consensus size: 51
2684861 AAATAACGGG
* * *
2684871 GTTGGAATATCCCCGATTGTGAAAAGTTGATGCTTTGGAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTATGAAAAGTTGATGTTTTGGAAATAAAATTGGA
* * * * *
2684922 GTTGGAGTATCCCCGATTATGGAAAGTGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAGTTGATGTTTTGGAAATAAAATTGGA
* * *
2684973 GTTGGAGTATCCCCGATTAAGAGAAA-TTGATGTTTTGGAAATGAAACTGG-
1 GTTGGAGTATCCCCGATTATGA-AAAGTTGATGTTTTGGAAATAAAATTGGA
*
2685023 GATTAGAGTATCCC
1 G-TTGGAGTATCCC
2685037 TTCGGATATA
Statistics
Matches: 96, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
50 1 0.01
51 92 0.96
52 3 0.03
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAGTTGATGTTTTGGAAATAAAATTGGA
Found at i:2685063 original size:79 final size:79
Alignment explanation
Indices: 2684973--2685143 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
2684963 TAAAATCGGA
** * * *
2684973 GTTGGAGTATCCCCGATTAAGAGAAATTGATGTTTT-GGAAATGAAA-CTGGGATTAGAGTATCC
1 GTTGGAGTATCCCCGATTAAGAGAAATCAATATTTTAAG-AAT-AAAGCAGGGATTAGAGTATCC
* * *
2685036 CTTCGGATATAACGGG
64 CCTCGAAAATAACGGG
* * *
2685052 GTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAAGAATAAAGCAGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTAAGAGAAATCAATATTTTAAGAATAAAGCAGGGATTAGAGTATCCCC
2685117 TCGAAAATAACGGG
66 TCGAAAATAACGGG
2685131 GTTGGAGTATCCC
1 GTTGGAGTATCCC
2685144 TGATGATTAA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
78 3 0.04
79 75 0.95
80 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTAAGAGAAATCAATATTTTAAGAATAAAGCAGGGATTAGAGTATCCCC
TCGAAAATAACGGG
Found at i:2685134 original size:28 final size:28
Alignment explanation
Indices: 2685100--2685171 Score: 103
Period size: 27 Copynumber: 2.6 Consensus size: 28
2685090 GAATAAAGCA
2685100 GGGGTTGGAGTATCCCCTCGA-AAATAAC
1 GGGGTTGGAGTATCCCCT-GATAAATAAC
* *
2685128 GGGGTTGGAGTAT-CCCTGATGATTAAC
1 GGGGTTGGAGTATCCCCTGATAAATAAC
2685155 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
2685172 GATTGTGAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 2 0.05
27 22 0.55
28 16 0.40
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.25
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCTGATAAATAAC
Found at i:2685273 original size:51 final size:52
Alignment explanation
Indices: 2685158--2685275 Score: 159
Period size: 51 Copynumber: 2.3 Consensus size: 52
2685148 GATTAACGGG
* * *
2685158 GTTGGAGTATCCCCGATTGTGAAAAACTAGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAACTAGTG-TTTTTGAAAATAAAATCGAA
*
2685211 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTG-TTTTGAAAATAAAATCGAA
1 GTTGGAGTATCCCCGATTATGA-AAAACTAGTGTTTTTGAAAATAAAATCGAA
*
2685262 GTTGGAATATCCCC
1 GTTGGAGTATCCCC
2685276 CCAATTGCGG
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
51 30 0.51
52 1 0.02
53 28 0.47
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTATGAAAAACTAGTGTTTTTGAAAATAAAATCGAA
Found at i:2687662 original size:13 final size:13
Alignment explanation
Indices: 2687644--2687669 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2687634 ACAAAGATCC
2687644 ATGTATCGATACA
1 ATGTATCGATACA
2687657 ATGTATCGATACA
1 ATGTATCGATACA
2687670 TGGAATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2688644 original size:55 final size:54
Alignment explanation
Indices: 2688560--2689087 Score: 585
Period size: 55 Copynumber: 9.4 Consensus size: 54
2688550 AATAAAGTGT
* **
2688560 ATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTGAAAGGC
1 ATCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
*
2688615 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGT
1 ATCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAA-AGGC
* * * *
2688670 GTCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGG-TTTTAAGAGGT
1 ATCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAA-AGGC
* * *
2688725 GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGT
1 ATCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
* * *
2688780 GTCCTGCTCTTTG-GTGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGC
1 ATCCTGCTCTTTGAG-GACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
*
2688835 ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGC
1 ATCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGC
* * *
2688896 GTCTTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
1 ATCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGC
* * * *
2688955 GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGAAAAGC
1 ATCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
* *
2689010 ATCCTACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
1 ATCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGC
2689069 ATCCTGCTCTTTGAGGACT
1 ATCCTGCTCTTTGAGGACT
2689088 AAAAAGCGGA
Statistics
Matches: 423, Mismatches: 30, Indels: 36
0.87 0.06 0.07
Matches are distributed among these distances:
54 34 0.08
55 252 0.60
56 11 0.03
58 1 0.00
59 50 0.12
60 53 0.13
61 22 0.05
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (54 bp):
ATCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
Found at i:2688845 original size:165 final size:165
Alignment explanation
Indices: 2688561--2689092 Score: 653
Period size: 165 Copynumber: 3.1 Consensus size: 165
2688551 ATAAAGTGTA
* ** *
2688561 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTGAAAGGCATCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* * ** *
2688626 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCTTGCTCTTTGAGGACTG
65 TGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTG
*
2688690 AAAGGTGCCACCAACTTGTGTGGGTTTTAAG-AGGTG
129 AAAGGTGCCACCAACTTGTGTGGGTTTTAAGAAGGCG
*
2688726 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
2688791 TG-GTGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTG
65 TGAG-GACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACT-
* *
2688855 GAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCG
128 GAAAGGTGCCACCAACTTGTGTGGG-TTT--TA--AGAAGGCG
* **
2688897 TCTTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGC
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTCCTGC
* *
2688962 TCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGAAAA-GCATCCTACTCTTTGAGG
61 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGGCATCCTGCTCTTTGAGG
* *
2689026 ACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCA
125 ACTGAAAGGTGCCACCAACTTGTGTGGG-TTT-TAAG--AAGGCG
*
2689070 TCCTGCTCTTTGAGGACTAAAAA
1 TCCTGCTCTTTGAGGACTGAAAA
2689093 GCGGAAGGAA
Statistics
Matches: 322, Mismatches: 25, Indels: 32
0.85 0.07 0.08
Matches are distributed among these distances:
164 1 0.00
165 125 0.39
166 15 0.05
168 1 0.00
170 28 0.09
171 23 0.07
173 29 0.09
174 25 0.08
175 70 0.22
176 5 0.02
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (165 bp):
TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTT
GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTGAA
AGGTGCCACCAACTTGTGTGGGTTTTAAGAAGGCG
Found at i:2694462 original size:13 final size:13
Alignment explanation
Indices: 2694444--2694478 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
2694434 CATTATCTGC
*
2694444 ATCGATACATTGT
1 ATCGATACAGTGT
2694457 ATCGATACAGTGT
1 ATCGATACAGTGT
2694470 ATCGATACA
1 ATCGATACA
2694479 AAGGGTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (13 bp):
ATCGATACAGTGT
Found at i:2697087 original size:13 final size:13
Alignment explanation
Indices: 2697069--2697094 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2697059 TACACACAAG
2697069 ATGTATCGATACA
1 ATGTATCGATACA
2697082 ATGTATCGATACA
1 ATGTATCGATACA
2697095 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2697111 original size:33 final size:32
Alignment explanation
Indices: 2697051--2697114 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
2697041 CTTAACTATT
*
2697051 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
2697083 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
2697115 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:2698880 original size:122 final size:124
Alignment explanation
Indices: 2698668--2698916 Score: 315
Period size: 122 Copynumber: 2.0 Consensus size: 124
2698658 TATTGGAAAG
* * *
2698668 AAATGGAAAATTCAAAATGAATTTAAGTTTTGAAAAAAAAAAGGCTAAATCCAAAATGCTTAATT
1 AAATGAAAAATTCAAAATGAATTAAAGTTTAGAAAAAAAAAAGGCTAAATCCAAAATGCTTAATT
* * *
2698733 TAAAATTTTTAACAATAATAAAAGAATAAAAAAATCTAAAACTTAAAAAGAGTTTAC-AA
66 GAAAATATTTAACAATAATAAAAGAAT-AAAAAATCTAAAACTCAAAAAGAGTTTACTAA
*** *
2698792 AAATGAAAAATTCAAAATGAATTAAAGTTTAG-AAAAAGCTA-GTTAAATCCAAAATGCTTAATT
1 AAATGAAAAATTCAAAATGAATTAAAGTTTAGAAAAAAAAAAGGCTAAATCCAAAATGCTTAATT
* ** * * * *
2698855 GAACATATTTAATGATGATAAAAGAATAAAAAATTTAAAACTCATAAAGGGTTTACTAA
66 GAAAATATTTAACAATAATAAAAGAATAAAAAATCTAAAACTCAAAAAGAGTTTACTAA
2698914 AAA
1 AAA
2698917 CATTCATAGA
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
121 25 0.23
122 47 0.44
123 6 0.06
124 29 0.27
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.28
Consensus pattern (124 bp):
AAATGAAAAATTCAAAATGAATTAAAGTTTAGAAAAAAAAAAGGCTAAATCCAAAATGCTTAATT
GAAAATATTTAACAATAATAAAAGAATAAAAAATCTAAAACTCAAAAAGAGTTTACTAA
Found at i:2699963 original size:43 final size:43
Alignment explanation
Indices: 2699902--2699986 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
2699892 CACATGTAAC
2699902 GATCGAACCTCTTGTGGTGCCTGAAAATTAGTACCTTATTAAA
1 GATCGAACCTCTTGTGGTGCCTGAAAATTAGTACCTTATTAAA
2699945 GATCGAACCTCTTGTGGTGCCTGAAAATTAGTACCTTATTAA
1 GATCGAACCTCTTGTGGTGCCTGAAAATTAGTACCTTATTAA
2699987 CCATGTGTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (43 bp):
GATCGAACCTCTTGTGGTGCCTGAAAATTAGTACCTTATTAAA
Found at i:2701585 original size:20 final size:19
Alignment explanation
Indices: 2701539--2701613 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 19
2701529 GTATCGATAC
*
2701539 AATGTATCGATACATAAGTT
1 AATGTATCGATACATGA-TT
*
2701559 -TTGTATCGATACATGATT
1 AATGTATCGATACATGATT
*
2701577 GAATGTATCGATACATCATT
1 -AATGTATCGATACATGATT
2701597 CAATGTATCGATACATG
1 -AATGTATCGATACATG
2701614 CAGGCAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
18 2 0.04
19 14 0.30
20 31 0.66
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (19 bp):
AATGTATCGATACATGATT
Found at i:2704908 original size:19 final size:19
Alignment explanation
Indices: 2704868--2704908 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
2704858 ATACGAAAAG
*
2704868 TTTTGAAGATTTAGGATTA
1 TTTTGAAGATTTAGGATCA
2704887 TTTTGAAGATTTGAGG-TCA
1 TTTTGAAGATTT-AGGATCA
2704906 TTT
1 TTT
2704909 GTGTGCCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (19 bp):
TTTTGAAGATTTAGGATCA
Found at i:2712523 original size:30 final size:30
Alignment explanation
Indices: 2712450--2712905 Score: 386
Period size: 30 Copynumber: 15.0 Consensus size: 30
2712440 TCAAATCTTT
* *
2712450 TTCCTCAAAGTCCATGACTCAGAGGCATCTTTT
1 TTCC-CAAAGTCCATGACTCAGTGGCATC--TC
*
2712483 TTCCCAAAGTCCATGACTCAGTAGCATCTC
1 TTCCCAAAGTCCATGACTCAGTGGCATCTC
* ** *
2712513 TTCTCAAAGTCCACAACTTAGTGGCATCTC
1 TTCCCAAAGTCCATGACTCAGTGGCATCTC
* *
2712543 TTTTCCCAAAGTCCATGACTCAGTTGCATCTT
1 --TTCCCAAAGTCCATGACTCAGTGGCATCTC
*
2712575 TTCCCAAAGTCCATGACTCAGTGGCATCTT
1 TTCCCAAAGTCCATGACTCAGTGGCATCTC
* * *
2712605 TTCCCAAAGTCCATGACTTAGTGGTATCCC
1 TTCCCAAAGTCCATGACTCAGTGGCATCTC
** *
2712635 TTCTTAAAGTCCACGACTCAGTGGCATC-C
1 TTCCCAAAGTCCATGACTCAGTGGCATCTC
** * * *
2712664 GTTCCCAAAGTCCACAACTTAGTGGCGTCCC
1 -TTCCCAAAGTCCATGACTCAGTGGCATCTC
** *
2712695 TTCCCAAAGTCCACAACTTAGTGGCATCTC
1 TTCCCAAAGTCCATGACTCAGTGGCATCTC
*
2712725 TTCTCC-AAGTCCATGACTCAGTGGCATCTTTTTT
1 TTC-CCAAAGTCCATGACTCAGTGGCATC----TC
***
2712759 TTCCC-AAGTCCCCAACTCAGTGGCATCTC
1 TTCCCAAAGTCCATGACTCAGTGGCATCTC
* * * *
2712788 ATTCCTAAAGTCTACGACTTAGTGGCATCTC
1 -TTCCCAAAGTCCATGACTCAGTGGCATCTC
* *
2712819 TTTTCC-AAGTCCATGACTCTGTGGCA-C-C
1 -TTCCCAAAGTCCATGACTCAGTGGCATCTC
* *
2712847 TTCCCAAAATCCATGACTTAGTGGCATCTC
1 TTCCCAAAGTCCATGACTCAGTGGCATCTC
* * *
2712877 TTTTCC-AAGTCCACGACTTAGTGGCATCT
1 -TTCCCAAAGTCCATGACTCAGTGGCATCT
2712906 TTTTTCTTCT
Statistics
Matches: 350, Mismatches: 58, Indels: 33
0.79 0.13 0.07
Matches are distributed among these distances:
27 4 0.01
28 18 0.05
29 4 0.01
30 219 0.63
31 30 0.09
32 46 0.13
33 25 0.07
34 4 0.01
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (30 bp):
TTCCCAAAGTCCATGACTCAGTGGCATCTC
Found at i:2712644 original size:60 final size:60
Alignment explanation
Indices: 2712456--2712976 Score: 386
Period size: 60 Copynumber: 8.4 Consensus size: 60
2712446 CTTTTTCCTC
* * * * *
2712456 AAAGTCCATGACTCAGAGGCATCTTTTTTCCCAAAGTCCATGACTCAGTAGCATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCATC--TTTTCCCAAAGTCCATGACTTAGTGGCATCTCTTCTT
* * * * * **
2712518 AAAGTCCACAACTTAGTGGCATCTCTTTTCCCAAAGTCCATGACTCAGTTGCATCTTTTCCC
1 AAAGTCCACGACTCAGTGGCA--TCTTTTCCCAAAGTCCATGACTTAGTGGCATCTCTTCTT
* * *
2712580 AAAGTCCATGACTCAGTGGCATCTTTTCCCAAAGTCCATGACTTAGTGGTATCCCTTCTT
1 AAAGTCCACGACTCAGTGGCATCTTTTCCCAAAGTCCATGACTTAGTGGCATCTCTTCTT
** ** * * **
2712640 AAAGTCCACGACTCAGTGGCATCCGTTCCCAAAGTCCACAACTTAGTGGCGTCCCTTCCC
1 AAAGTCCACGACTCAGTGGCATCTTTTCCCAAAGTCCATGACTTAGTGGCATCTCTTCTT
* * * * * *
2712700 AAAGTCCACAACTTAGTGGCATCTCTTCTCC-AAGTCCATGACTCAGTGGCATCTTTTTTTT
1 AAAGTCCACGACTCAGTGGCATCTTTTC-CCAAAGTCCATGACTTAGTGGCATC-TCTTCTT
* * * * * * *
2712761 CCCAAGTCCCCAACTCAGTGGCATCTCATTCCTAAAGTCTACGACTTAGTGGCATCTCTT-TT
1 --AAAGTCCACGACTCAGTGGCATCT-TTTCCCAAAGTCCATGACTTAGTGGCATCTCTTCTT
* * * * *
2712823 CCAAGTCCATGACTCTGTGGCA-C-CTTCCCAAAATCCATGACTTAGTGGCATCTCTT-TT
1 -AAAGTCCACGACTCAGTGGCATCTTTTCCCAAAGTCCATGACTTAGTGGCATCTCTTCTT
* * * * * * * * *
2712881 CCAAGTCCACGACTTAGTGGCATCTTTTTTCTTCTAGGTCTACGATTTAGTGGCATCCTTTTCCT
1 -AAAGTCCACGACTCAGTGGCATC--TTTTC-CCAAAGTCCATGACTTAGTGGCAT-CTCTT-CT
2712946 CCT
60 --T
2712949 AAAGTCCACGACTCAGTGGCATCCTTTT
1 AAAGTCCACGACTCAGTGGCAT-CTTTT
2712977 TCTTTCAAGT
Statistics
Matches: 369, Mismatches: 71, Indels: 34
0.78 0.15 0.07
Matches are distributed among these distances:
58 49 0.13
59 1 0.00
60 126 0.34
61 22 0.06
62 74 0.20
63 42 0.11
64 28 0.08
66 5 0.01
67 20 0.05
68 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.32
Consensus pattern (60 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCCCAAAGTCCATGACTTAGTGGCATCTCTTCTT
Found at i:2712911 original size:30 final size:31
Alignment explanation
Indices: 2712444--2712978 Score: 335
Period size: 30 Copynumber: 17.3 Consensus size: 31
2712434 AATTCTTCAA
* * * *
2712444 ATCTTTTTCCTCAAAGTCCATGACTCAGAGGC
1 ATCTTTTTTC-CAAAGTCCACGACTTAGTGGC
* * *
2712476 ATCTTTTTTCCCAAAGTCCATGACTCAGTAGC
1 ATCTTTTTT-CCAAAGTCCACGACTTAGTGGC
* * *
2712508 ATCTCTTCT-CAAAGTCCACAACTTAGTGGC
1 ATCTTTTTTCCAAAGTCCACGACTTAGTGGC
* * * *
2712538 ATCTCTTTTCCCAAAGTCCATGACTCAGTTGC
1 ATCT-TTTTTCCAAAGTCCACGACTTAGTGGC
* * *
2712570 ATC-TTTTCCCAAAGTCCATGACTCAGTGGC
1 ATCTTTTTTCCAAAGTCCACGACTTAGTGGC
* * *
2712600 ATC-TTTTCCCAAAGTCCATGACTTAGTGGT
1 ATCTTTTTTCCAAAGTCCACGACTTAGTGGC
* * *
2712630 ATCCCTTCTT--AAAGTCCACGACTCAGTGGC
1 AT-CTTTTTTCCAAAGTCCACGACTTAGTGGC
** * *
2712660 ATC-CGTTCCCAAAGTCCACAACTTAGTGGC
1 ATCTTTTTTCCAAAGTCCACGACTTAGTGGC
* ** * *
2712690 GTC-CCTTCCCAAAGTCCACAACTTAGTGGC
1 ATCTTTTTTCCAAAGTCCACGACTTAGTGGC
* * * *
2712720 ATCTCTTCTCC-AAGTCCATGACTCAGTGGC
1 ATCTTTTTTCCAAAGTCCACGACTTAGTGGC
* * * *
2712750 ATCTTTTTTTTCCCAAGTCCCCAACTCAGTGGC
1 ATC--TTTTTTCCAAAGTCCACGACTTAGTGGC
** *
2712783 ATC-TCATTCCTAAAGTCTACGACTTAGTGGC
1 ATCTTTTTTCC-AAAGTCCACGACTTAGTGGC
* *
2712814 ATCTCTTTTCC-AAGTCCATGACTCT-GTGGC
1 ATCTTTTTTCCAAAGTCCACGACT-TAGTGGC
* * * *
2712844 A-C--CTTCCCAAAATCCATGACTTAGTGGC
1 ATCTTTTTTCCAAAGTCCACGACTTAGTGGC
*
2712872 ATCTCTTTTCC-AAGTCCACGACTTAGTGGC
1 ATCTTTTTTCCAAAGTCCACGACTTAGTGGC
* * * *
2712902 ATCTTTTTTCTTCTAGGTCTACGATTTAGTGGC
1 ATCTTTTTTC--CAAAGTCCACGACTTAGTGGC
* *
2712935 ATCCTTTTCCTCCTAAAGTCCACGACTCAGTGGC
1 AT-CTTTT-TTCC-AAAGTCCACGACTTAGTGGC
*
2712969 ATCCTTTTTC
1 ATCTTTTTTC
2712979 TTTCAAGTCC
Statistics
Matches: 403, Mismatches: 75, Indels: 50
0.76 0.14 0.09
Matches are distributed among these distances:
27 5 0.01
28 18 0.04
29 3 0.01
30 210 0.52
31 30 0.07
32 70 0.17
33 43 0.11
34 22 0.05
35 2 0.00
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (31 bp):
ATCTTTTTTCCAAAGTCCACGACTTAGTGGC
Found at i:2712935 original size:33 final size:33
Alignment explanation
Indices: 2712446--2713041 Score: 159
Period size: 30 Copynumber: 19.2 Consensus size: 33
2712436 TTCTTCAAAT
* * * * *
2712446 CTTTTTCCTCAAAGTCCATGACTCAGAGGCATC
1 CTTTTTCTTCTAAGTCCACGACTTAGTGGCATC
* * * * * *
2712479 TTTTTTC-CCAAAGTCCATGACTCAGTAGCAT-
1 CTTTTTCTTCTAAGTCCACGACTTAGTGGCATC
* * *
2712510 C-TCTTC-TCAAAGTCCACAACTTAGTGGCAT-
1 CTTTTTCTTCTAAGTCCACGACTTAGTGGCATC
* * * * *
2712540 CTCTTTTC-CCAAAGTCCATGACTCAGTTGCAT-
1 CT-TTTTCTTCTAAGTCCACGACTTAGTGGCATC
* * * *
2712572 C-TTTTC-CCAAAGTCCATGACTCAGTGGCAT-
1 CTTTTTCTTCTAAGTCCACGACTTAGTGGCATC
* * * *
2712602 C-TTTTC-CCAAAGTCCATGACTTAGTGGTATC
1 CTTTTTCTTCTAAGTCCACGACTTAGTGGCATC
* * *
2712633 C--CTTCTT-AAAGTCCACGACTCAGTGGCATC
1 CTTTTTCTTCTAAGTCCACGACTTAGTGGCATC
* * * * *
2712663 C--GTTC-CCAAAGTCCACAACTTAGTGGCGTC
1 CTTTTTCTTCTAAGTCCACGACTTAGTGGCATC
* * * *
2712693 C--CTTC-CCAAAGTCCACAACTTAGTGGCAT-
1 CTTTTTCTTCTAAGTCCACGACTTAGTGGCATC
* * * *
2712722 C-TCTTC-TCCAAGTCCATGACTCAGTGGCAT-
1 CTTTTTCTTCTAAGTCCACGACTTAGTGGCATC
* * * * *
2712752 CTTTTTTTTCCCAAGTCCCCAACTCAGTGGCAT-
1 CTTTTTCTT-CTAAGTCCACGACTTAGTGGCATC
** *
2712785 CTCATTC--CTAAAGTCTACGACTTAGTGGCAT-
1 CTTTTTCTTCT-AAGTCCACGACTTAGTGGCATC
*
2712816 CTCTTTTC--C-AAGTCCATGACTCT-GTGGCA-C
1 CT-TTTTCTTCTAAGTCCACGACT-TAGTGGCATC
* * * *
2712846 C---TTC-CCAAAATCCATGACTTAGTGGCAT-
1 CTTTTTCTTCTAAGTCCACGACTTAGTGGCATC
2712874 CTCTTTTC--C-AAGTCCACGACTTAGTGGCATC
1 CT-TTTTCTTCTAAGTCCACGACTTAGTGGCATC
* * * *
2712905 TTTTTTCTTCTAGGTCTACGATTTAGTGGCATC
1 CTTTTTCTTCTAAGTCCACGACTTAGTGGCATC
* * *
2712938 CTTTTCCTCCTAAAGTCCACGACTCAGTGGCATC
1 CTTTTTCTTCT-AAGTCCACGACTTAGTGGCATC
** *
2712972 CTTTTTCTT-TCAAGTCCACGACTCCGTAGCA-C
1 CTTTTTCTTCT-AAGTCCACGACTTAGTGGCATC
* ** *
2713004 C-TTTTCTTTTTAAGTCCATAACTTCGTGGCA-C
1 CTTTTTC-TTCTAAGTCCACGACTTAGTGGCATC
2713036 CTTTTT
1 CTTTTT
2713042 AAGTCCACAA
Statistics
Matches: 457, Mismatches: 77, Indels: 58
0.77 0.13 0.10
Matches are distributed among these distances:
26 3 0.01
27 2 0.00
28 18 0.04
29 1 0.00
30 220 0.48
31 31 0.07
32 76 0.17
33 81 0.18
34 25 0.05
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (33 bp):
CTTTTTCTTCTAAGTCCACGACTTAGTGGCATC
Found at i:2713068 original size:59 final size:59
Alignment explanation
Indices: 2712987--2713469 Score: 322
Period size: 59 Copynumber: 7.9 Consensus size: 59
2712977 TCTTTCAAGT
* * * * * *
2712987 CCACGACTCCGTAGCACCTTTTCTTTTTAAGTCCATAACTTCGTGGCACCTTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGC
* * * * *
2713046 CCACAACTCTGTGGCACCTTTTCCTTTTAAGTCTATAACTCCGTGGCACCCTTTAAAGC
1 CCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGC
* ** *
2713105 CCACAACTCCGTGGCACCCTTTTCCCTTTTAAGTCTACAACTTTGTGACACCTTTTTCTTTTCAA
1 CCACAACTCCGTGGCA-CCTTTT-CCTTTTAAGTCCACAACTCCGTGGCACC----T-TTTT--A
2713170 AGC
57 AGC
* ** * * *
2713173 CCACAGCTCCGTGGCA-----AACTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGC
* * * *
2713227 CCACAACACCGTGGCACCTTTTTCTTTTAAGTCTAGAACTCCGTGGCA-CTTTTTAAAGC
1 CCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTT-AAGC
***
2713286 CCACAACTTTATGGCACCCTTTTCCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAA
1 CCACAACTCCGTGGCA-CCTTTT-CCTTTTAAGTCCACAACTCCGTGGCACC----T-TTTT--A
2713351 AGC
57 AGC
* * * *
2713354 CCATAACTCCGTAGCA-C----CCTCTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACC---T--TTTTAAGC
* * * *
2713413 CCACAACTCTGTGGCACCTTTTTCTTTTCAAAGCCCACAACTTCGTGGCACTCTTTT
1 CCACAACTCCGTGGCACCTTTTCCTTTT--AAGTCCACAACTCCGTGGCAC-CTTTT
2713470 CCCTCCAAAA
Statistics
Matches: 337, Mismatches: 54, Indels: 63
0.74 0.12 0.14
Matches are distributed among these distances:
54 17 0.05
56 4 0.01
58 5 0.01
59 118 0.35
60 17 0.05
61 103 0.31
62 4 0.01
64 5 0.01
66 24 0.07
67 5 0.01
68 35 0.10
ACGTcount: A:0.22, C:0.32, G:0.13, T:0.34
Consensus pattern (59 bp):
CCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGC
Found at i:2713216 original size:181 final size:181
Alignment explanation
Indices: 2713011--2713440 Score: 601
Period size: 181 Copynumber: 2.3 Consensus size: 181
2713001 CACCTTTTCT
* *
2713011 TTTTAAGTCCATAACT-TCGTGGCACCTTTTTAAGTCCACAACTCTGTGGCACCTTTTCCTTTTA
1 TTTTAAGTCCACAACTCT-GTGGCACCTTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTA
* *
2713075 AGTCTATAACTCCGTGGCACCCTTTAAAGCCCACAACTCCGTGGCACCCTTTTCCCTTTTAAGTC
65 AGTCTAGAACTCCGTGGCACCCTTTAAAGCCCACAACTCCATGGCACCCTTTTCCCTTTTAAGTC
* ** * *
2713140 TACAACTTTGTGACACCTTTTTCTTTTCAAAGCCCACAGCTCCGTGGCAAAC
130 CACAACTCCGTGACACCTTTTTCTTTTCAAAGCCCACAACTCCGTAGCAAAC
* * *
2713192 TTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACACCGTGGCACCTTTTTCTTTTAA
1 TTTTAAGTCCACAACTCTGTGGCACCTTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTAA
** **
2713257 GTCTAGAACTCCGTGGCACTTTTTAAAGCCCACAACTTTATGGCACCCTTTTCCCTTTTAAGTCC
66 GTCTAGAACTCCGTGGCACCCTTTAAAGCCCACAACTCCATGGCACCCTTTTCCCTTTTAAGTCC
* * **
2713322 ACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCATAACTCCGTAGCACCC
131 ACAACTCCGTGACACCTTTTTCTTTTCAAAGCCCACAACTCCGTAGCAAAC
* *
2713373 TCTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCT
1 TTTTAAGTCCACAACTCTGTGGCACC---T--TTTTAAGTCCACAACTCTGTGGCACCTTTTTCT
2713438 TTT
61 TTT
2713441 CAAAGCCCAC
Statistics
Matches: 218, Mismatches: 25, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
181 183 0.84
182 1 0.00
186 34 0.16
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.34
Consensus pattern (181 bp):
TTTTAAGTCCACAACTCTGTGGCACCTTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTAA
GTCTAGAACTCCGTGGCACCCTTTAAAGCCCACAACTCCATGGCACCCTTTTCCCTTTTAAGTCC
ACAACTCCGTGACACCTTTTTCTTTTCAAAGCCCACAACTCCGTAGCAAAC
Found at i:2713335 original size:34 final size:32
Alignment explanation
Indices: 2712930--2713471 Score: 352
Period size: 27 Copynumber: 17.4 Consensus size: 32
2712920 CTACGATTTA
* * * *
2712930 GTGGCATCCTTTTCCTCCTAAAGTCCACGACTCA
1 GTGGCA-CCTTTTCCT-TTTAAGTCCACAACTCC
* * *
2712964 GTGGCATCCTTTTTCTTTCAAGTCCACGACTCC
1 GTGGCA-CCTTTTCCTTTTAAGTCCACAACTCC
* * * *
2712997 GTAGCACCTTTTCTTTTTAAGTCCATAACTTC
1 GTGGCACCTTTTCCTTTTAAGTCCACAACTCC
*
2713029 GTGGCACC---T--TTTTAAGTCCACAACTCT
1 GTGGCACCTTTTCCTTTTAAGTCCACAACTCC
* *
2713056 GTGGCACCTTTTCCTTTTAAGTCTATAACTCC
1 GTGGCACCTTTTCCTTTTAAGTCCACAACTCC
* *
2713088 GTGGCA-C----CCTTTAAAGCCCACAACTCC
1 GTGGCACCTTTTCCTTTTAAGTCCACAACTCC
* **
2713115 GTGGCACCCTTTTCCCTTTTAAGTCTACAACTTT
1 GTGGCA-CCTTTT-CCTTTTAAGTCCACAACTCC
* * * *
2713149 GTGACACCTTTTTCTTTTCAAAGCCCACAGCTCC
1 GTGGCACCTTTTCCTTTT--AAGTCCACAACTCC
** *
2713183 GTGGCA-----AACTTTTAAGTCCACAACTCT
1 GTGGCACCTTTTCCTTTTAAGTCCACAACTCC
*
2713210 GTGGCA-C----CCTTTTAAGTCCACAACACC
1 GTGGCACCTTTTCCTTTTAAGTCCACAACTCC
* * *
2713237 GTGGCACCTTTTTCTTTTAAGTCTAGAACTCC
1 GTGGCACCTTTTCCTTTTAAGTCCACAACTCC
* * **
2713269 GTGGCA-C--TT--TTTAAAGCCCACAACTTT
1 GTGGCACCTTTTCCTTTTAAGTCCACAACTCC
*
2713296 ATGGCACCCTTTTCCCTTTTAAGTCCACAACTCC
1 GTGGCA-CCTTTT-CCTTTTAAGTCCACAACTCC
* * *
2713330 GTGGCACCTTTTTCTTTTCAAAGCCCATAACTCC
1 GTGGCACCTTTTCCTTTT--AAGTCCACAACTCC
* *
2713364 GTAGCA-C----CCTCTTAAGTCCACAACTCC
1 GTGGCACCTTTTCCTTTTAAGTCCACAACTCC
*
2713391 GTGGCACCTTTTCCTTTTAAGTCCACAACTCT
1 GTGGCACCTTTTCCTTTTAAGTCCACAACTCC
* * *
2713423 GTGGCACCTTTTTCTTTTCAAAGCCCACAACTTC
1 GTGGCACCTTTTCCTTTT--AAGTCCACAACTCC
2713457 GTGGCACTCTTTTCC
1 GTGGCAC-CTTTTCC
2713472 CTCCAAAAGT
Statistics
Matches: 396, Mismatches: 75, Indels: 73
0.73 0.14 0.13
Matches are distributed among these distances:
27 119 0.30
28 2 0.01
29 14 0.04
30 1 0.00
31 4 0.01
32 115 0.29
33 32 0.08
34 103 0.26
35 6 0.02
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (32 bp):
GTGGCACCTTTTCCTTTTAAGTCCACAACTCC
Found at i:2713720 original size:32 final size:32
Alignment explanation
Indices: 2713679--2713860 Score: 217
Period size: 32 Copynumber: 5.7 Consensus size: 32
2713669 AACCTTCTTC
*
2713679 AAAGGCCACACAAGTTAGTGGCAACCCTTTCT
1 AAAGCCCACACAAGTTAGTGGCAACCCTTTCT
*
2713711 AAAGCCCACACAAGTTGGTGGCAACCCTTTCT
1 AAAGCCCACACAAGTTAGTGGCAACCCTTTCT
* *
2713743 AAAGCCCACACAAGTTAGGGGCAA-CCTTCTTT
1 AAAGCCCACACAAGTTAGTGGCAACCCTT-TCT
** * * *
2713775 AAAGCCCACGTAATTTGGTGGCAA-CCTTCTTT
1 AAAGCCCACACAAGTTAGTGGCAACCCTT-TCT
* *
2713807 AAAGCCCACA-AAGTCAGTGGCAACCCTTTCA
1 AAAGCCCACACAAGTTAGTGGCAACCCTTTCT
*
2713838 AAAGCCCACACAAGTTGGTGGCA
1 AAAGCCCACACAAGTTAGTGGCA
2713861 TTTTCTTTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
31 25 0.19
32 104 0.81
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (32 bp):
AAAGCCCACACAAGTTAGTGGCAACCCTTTCT
Found at i:2713852 original size:95 final size:96
Alignment explanation
Indices: 2713669--2713853 Score: 257
Period size: 96 Copynumber: 1.9 Consensus size: 96
2713659 CCAGTGGAGA
* **
2713669 AACCTTCTTCAAAGGCCACACAAGTTAGTGGCAACCCTTTCTAAAGCCCACACAAGTTGGTGGCA
1 AACCTTCTTCAAAGCCCACACAAGTTAGTGGCAACCCTTTCTAAAGCCCACACAAGTCAGTGGCA
*
2713734 ACCCTTTCTAAAGCCCACACAAGTTAGGGGC
66 ACCCTTTCAAAAGCCCACACAAGTTAGGGGC
* ** * * *
2713765 AACCTTCTTTAAAGCCCACGTAATTTGGTGGCAA-CCTTCTTTAAAGCCCACA-AAGTCAGTGGC
1 AACCTTCTTCAAAGCCCACACAAGTTAGTGGCAACCCTT-TCTAAAGCCCACACAAGTCAGTGGC
2713828 AACCCTTTCAAAAGCCCACACAAGTT
65 AACCCTTTCAAAAGCCCACACAAGTT
2713854 GGTGGCATTT
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
95 38 0.49
96 40 0.51
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.23
Consensus pattern (96 bp):
AACCTTCTTCAAAGCCCACACAAGTTAGTGGCAACCCTTTCTAAAGCCCACACAAGTCAGTGGCA
ACCCTTTCAAAAGCCCACACAAGTTAGGGGC
Found at i:2713914 original size:43 final size:43
Alignment explanation
Indices: 2713874--2714193 Score: 217
Period size: 52 Copynumber: 6.8 Consensus size: 43
2713864 TCTTTTAAAC
* *
2713874 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
1 CCAATATCACTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
* * * * *
2713917 GCATTATCACTGGCATTGAATCACCATATTGGCGCATTTGTCATCTTTAAGT
1 CCAATATCACTGGCCTTGAATCAGCACATT-G-GCA-----C--CTTTAAGT
* * *
2713969 CCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTTAAGT
1 CCAATATCACTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
*
2714012 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGT
1 CCAATATCACTGGCCTTGAATCAGCACATTGGCA-------C--CTTTAAGT
* ** *
2714064 CCAATGTCACTGGCCTTGAATCAATACATTAGCACCTTTAAGT
1 CCAATATCACTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
* * * *
2714107 CCAGTATCTCTGGCCTTGAATCACCACAATGGCACCTTCACCATCTTTAAGT
1 CCAATATCACTGGCCTTGAATCAGCACATTGG------CA-C--CTTTAAGT
*
2714159 CCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
1 CCAATATCACTGGCCTTGAATCAGCACATTGGCAC
2714194 TTTCATCTTT
Statistics
Matches: 215, Mismatches: 35, Indels: 52
0.71 0.12 0.17
Matches are distributed among these distances:
43 94 0.44
44 1 0.00
45 6 0.03
46 2 0.01
49 2 0.01
50 6 0.03
51 1 0.00
52 103 0.48
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (43 bp):
CCAATATCACTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
Found at i:2713988 original size:52 final size:51
Alignment explanation
Indices: 2713909--2714395 Score: 261
Period size: 52 Copynumber: 9.8 Consensus size: 51
2713899 ACATTGGCAC
* * * * *
2713909 CTTTAAGTGCATTATCACTGGCATTGAATCACCATATTGGCGCATTTGTCAT
1 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCATATTGG-GCATTTGTCAT
* * *
2713961 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATT-GGCA-----C--
1 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCATATTGGGCATTTGTCAT
*
2714004 CTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATT-GGCACCTTTGTCAT
1 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCATATTGGGCA--TTTGTCAT
* *
2714056 CTTTAAGTCCAATGTCACTGGCCTTGAATCA--ATA-----CATTAG-CAC
1 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCATATTGGGCATTTGTCAT
* * * * * * ***
2714099 CTTTAAGTCCAGTATCTCTGGCCTTGAATCACCACAAT-GGCACCTTCACCAT
1 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCATATTGGGCA--TTTGTCAT
* *
2714151 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATT-GGCACTT-TCAT
1 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCATATTGGGCATTTGTCAT
* ** *
2714200 CTTTAAGTCTAATGTTGCTGGCCTTGAATCAGCATATT-GGTATCTT-TAACAT
1 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCATATTGGGCAT-TTGT--CAT
* ** * * * * *
2714252 -TCCTAAACCCGATGTCACTGGCCTTAAATCAGCACATT-AGCATTCTTCTCAT
1 CT-TTAAGTCCAATGTCACTGGCCTTGAATCAGCATATTGGGCA-T-TTGTCAT
* * ** * * *
2714304 CTTCAAGTCTAATGTCGTTGGCCGTGAATCAGCACATT-GACATTCT-TCACAT
1 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCATATTGGGCATT-TGT--CAT
* * * *
2714356 CTTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGG
1 CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCATATTGG
2714396 CACTTTTATC
Statistics
Matches: 340, Mismatches: 66, Indels: 57
0.73 0.14 0.12
Matches are distributed among these distances:
43 68 0.20
44 3 0.01
45 3 0.01
46 2 0.01
49 42 0.12
50 13 0.04
51 6 0.02
52 196 0.58
53 6 0.02
54 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (51 bp):
CTTTAAGTCCAATGTCACTGGCCTTGAATCAGCATATTGGGCATTTGTCAT
Found at i:2714006 original size:21 final size:21
Alignment explanation
Indices: 2713982--2714049 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
2713972 ATGTCGCTGG
2713982 CCTTGAATCAACACATTGGCA
1 CCTTGAATCAACACATTGGCA
* * *
2714003 CCTTTAAGTCCAATATCACTGG--
1 CCTTGAA-T-CAACA-CATTGGCA
* *
2714025 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAACACATTGGCA
2714046 CCTT
1 CCTT
2714050 TGTCATCTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
19 4 0.12
20 3 0.09
21 11 0.32
22 7 0.21
23 4 0.12
24 5 0.15
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (21 bp):
CCTTGAATCAACACATTGGCA
Found at i:2714028 original size:22 final size:22
Alignment explanation
Indices: 2713961--2714028 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
2713951 CATTTGTCAT
* *
2713961 CTTTAAGTCCAATGTCGCTGGC
1 CTTTAAGTCCAATATCACTGGC
* * *
2713983 CTTGAA-T-CAACA-CATTGGCAC
1 CTTTAAGTCCAATATCACTGG--C
2714004 CTTTAAGTCCAATATCACTGGC
1 CTTTAAGTCCAATATCACTGGC
2714026 CTT
1 CTT
2714029 GAATCAGCAT
Statistics
Matches: 33, Mismatches: 8, Indels: 10
0.65 0.16 0.20
Matches are distributed among these distances:
19 4 0.12
20 3 0.09
21 7 0.21
22 10 0.30
23 4 0.12
24 5 0.15
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (22 bp):
CTTTAAGTCCAATATCACTGGC
Found at i:2714031 original size:95 final size:95
Alignment explanation
Indices: 2713874--2714193 Score: 469
Period size: 95 Copynumber: 3.4 Consensus size: 95
2713864 TCTTTTAAAC
* * * * *
2713874 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTGCATTATCACTGGCATTGAATC
1 CCAATGTCACTGGCCTTGAATCAACACATTGGCACCTTTAAGTCCAATATCACTGGCCTTGAATC
* *
2713939 ACCATATTGGCGCATTTGTCATCTTTAAGT
66 ACCATATTGGCACCTTTGTCATCTTTAAGT
*
2713969 CCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTTAAGTCCAATATCACTGGCCTTGAATC
1 CCAATGTCACTGGCCTTGAATCAACACATTGGCACCTTTAAGTCCAATATCACTGGCCTTGAATC
*
2714034 AGCATATTGGCACCTTTGTCATCTTTAAGT
66 ACCATATTGGCACCTTTGTCATCTTTAAGT
* * * *
2714064 CCAATGTCACTGGCCTTGAATCAATACATTAGCACCTTTAAGTCCAGTATCTCTGGCCTTGAATC
1 CCAATGTCACTGGCCTTGAATCAACACATTGGCACCTTTAAGTCCAATATCACTGGCCTTGAATC
* * ***
2714129 ACCACAATGGCACCTTCACCATCTTTAAGT
66 ACCATATTGGCACCTTTGTCATCTTTAAGT
*
2714159 CCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
1 CCAATGTCACTGGCCTTGAATCAACACATTGGCAC
2714194 TTTCATCTTT
Statistics
Matches: 204, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 204 1.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (95 bp):
CCAATGTCACTGGCCTTGAATCAACACATTGGCACCTTTAAGTCCAATATCACTGGCCTTGAATC
ACCATATTGGCACCTTTGTCATCTTTAAGT
Found at i:2714154 original size:190 final size:192
Alignment explanation
Indices: 2713874--2714293 Score: 495
Period size: 190 Copynumber: 2.2 Consensus size: 192
2713864 TCTTTTAAAC
* * * * *
2713874 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTGCATTATCACTGGCATTGAATC
1 CCAATGTCACTGGCCTTGAATCAACACATTAGCACCTTTAAGTCCAGTATCACTGGCATTGAATC
* * * *** *
2713939 ACCATATTGGCGCATTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCA-
66 ACCACAATGGCACATTCACCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAACACATTGGCAT
2714003 C-CTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGT
131 CACTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGT
* * *
2714064 CCAATGTCACTGGCCTTGAATCAATACATTAGCACCTTTAAGTCCAGTATCTCTGGCCTTGAATC
1 CCAATGTCACTGGCCTTGAATCAACACATTAGCACCTTTAAGTCCAGTATCACTGGCATTGAATC
* *
2714129 ACCACAATGGCACCTTCACCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
66 ACCACAATGGCACATTCACCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAACACATTGGCA-
* * ** * * ** *
2714194 TTTCATCTTTAAGTCTAATGTTGCTGGCCTTGAATCAGCATATTGGTATCTTTAACAT-TCCTAA
130 --TCA-CTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCT-TTAA
**
2714258 AC
191 GT
* * *
2714260 CCGATGTCACTGGCCTTAAATCAGCACATTAGCA
1 CCAATGTCACTGGCCTTGAATCAACACATTAGCA
2714294 TTCTTCTCAT
Statistics
Matches: 191, Mismatches: 32, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
190 112 0.59
194 1 0.01
195 1 0.01
196 77 0.40
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (192 bp):
CCAATGTCACTGGCCTTGAATCAACACATTAGCACCTTTAAGTCCAGTATCACTGGCATTGAATC
ACCACAATGGCACATTCACCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAACACATTGGCAT
CACTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGT
Found at i:2714380 original size:104 final size:100
Alignment explanation
Indices: 2713958--2714401 Score: 329
Period size: 95 Copynumber: 4.5 Consensus size: 100
2713948 GCGCATTTGT
* * * * *
2713958 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCAC---C-T-TT-AAGTCCAAT
1 CATCTTTAAGCCCAATGTCACTGGCCTTGAATCAGCACATTAGCACTTTCATCTTCAAGTCTAAT
* * * * * * **
2714017 ATCACTGGCCTTGAATCAGCATATTGGCACCTTTGT
66 GTCGCTGGCCGTGAATCAGCACATTGACATC-TTCA
* ** * *
2714053 CATCTTTAAGTCCAATGTCACTGGCCTTGAATCAATACATTAGCAC---C-T-TT-AAGTCCAGT
1 CATCTTTAAGCCCAATGTCACTGGCCTTGAATCAGCACATTAGCACTTTCATCTTCAAGTCTAAT
* * * * * * *
2714112 ATCTCTGGCCTTGAATCACCACAATGGCACCTTCA
66 GTCGCTGGCCGTGAATCAGCACATTGACATCTTCA
* * *
2714147 CCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACTTTCATCTTTAAGTCTAA
1 -CATCTTTAAGCCCAATGTCACTGGCCTTGAATCAGCACATTAGCACTTTCATCTTCAAGTCTAA
* * * ** *
2714212 TGTTGCTGGCCTTGAATCAGCATATTGGTATCTTTAA
65 TGTCGCTGGCCGTGAATCAGCACATTGACATC-TTCA
* * * *
2714249 CAT-TCCTAAACCCGATGTCACTGGCCTTAAATCAGCACATTAGCATTCTTCTCATCTTCAAGTC
1 CATCT-TTAAGCCCAATGTCACTGGCCTTGAATCAGCACATTAGCA--CTT-TCATCTTCAAGTC
*
2714313 TAATGTCGTTGGCCGTGAATCAGCACATTGACATTCTTCA
62 TAATGTCGCTGGCCGTGAATCAGCACATTGACA-TCTTCA
* * * * *
2714353 CATCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACTTT
1 CATCTTTAAGCCCAATGTCACTGGCCTTGAATCAGCACATTAGCACTTT
2714402 TATCATCCTT
Statistics
Matches: 288, Mismatches: 47, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
94 2 0.01
95 125 0.43
98 1 0.00
99 1 0.00
100 3 0.01
101 68 0.24
102 6 0.02
103 3 0.01
104 76 0.26
105 3 0.01
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (100 bp):
CATCTTTAAGCCCAATGTCACTGGCCTTGAATCAGCACATTAGCACTTTCATCTTCAAGTCTAAT
GTCGCTGGCCGTGAATCAGCACATTGACATCTTCA
Found at i:2714408 original size:104 final size:102
Alignment explanation
Indices: 2714116--2714408 Score: 288
Period size: 104 Copynumber: 2.8 Consensus size: 102
2714106 TCCAGTATCT
* * * * * *
2714116 CTGGCCTTGAATCACCACAATGGCACCTTCACCATCTTTAAGTCCAATGTCACTGGCCTTGAATC
1 CTGGCCGTGAATCAGCACATTGACATCTTCA-CATCTTTAAGCCCAATGTCACTGGCCTTGAATC
* *
2714181 AGCACATTGGCAC--TTTCATCTTTAAGTCTAATGTTG
65 AGCACATTGGCACTTTTTCATCTTCAAGTCTAATGTCG
* * ** * * * * *
2714217 CTGGCCTTGAATCAGCATATTGGTATCTTTAACAT-TCCTAAACCCGATGTCACTGGCCTTAAAT
1 CTGGCCGTGAATCAGCACATTGACATC-TTCACATCT-TTAAGCCCAATGTCACTGGCCTTGAAT
*
2714281 CAGCACATTAGCA-TTCTTCTCATCTTCAAGTCTAATGTCG
64 CAGCACATTGGCACTT-TT-TCATCTTCAAGTCTAATGTCG
* * * *
2714321 TTGGCCGTGAATCAGCACATTGACATTCTTCACATCTTTAAGCCCAATATCGCTAGCCTTGAATC
1 CTGGCCGTGAATCAGCACATTGACA-TCTTCACATCTTTAAGCCCAATGTCACTGGCCTTGAATC
*
2714386 AGCATATTGGCACTTTTATCATC
65 AGCACATTGGCACTTTT-TCATC
2714409 CTTCTCATCT
Statistics
Matches: 153, Mismatches: 30, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
100 1 0.01
101 59 0.39
102 3 0.02
103 2 0.01
104 83 0.54
105 5 0.03
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.33
Consensus pattern (102 bp):
CTGGCCGTGAATCAGCACATTGACATCTTCACATCTTTAAGCCCAATGTCACTGGCCTTGAATCA
GCACATTGGCACTTTTTCATCTTCAAGTCTAATGTCG
Found at i:2714448 original size:61 final size:61
Alignment explanation
Indices: 2714347--2714480 Score: 200
Period size: 61 Copynumber: 2.2 Consensus size: 61
2714337 ACATTGACAT
* * *
2714347 TCTTCACATCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCA-CTTTTATCA-
1 TCTTCTCATCTTTAAGCCCAATATCGCTAACCCTGAATCAGCATATTGGCATC-TTTATCAC
2714407 TCCTTCTCATCTTTAAGCCCAATATCGCTAACCCTGAATCAGCATATTGGCATCTTTATCAC
1 T-CTTCTCATCTTTAAGCCCAATATCGCTAACCCTGAATCAGCATATTGGCATCTTTATCAC
*
2714469 TCTTTTCATCTT
1 TCTTCTCATCTT
2714481 CATCATCTTT
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
60 1 0.01
61 64 0.96
62 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.10, T:0.37
Consensus pattern (61 bp):
TCTTCTCATCTTTAAGCCCAATATCGCTAACCCTGAATCAGCATATTGGCATCTTTATCAC
Found at i:2714480 original size:18 final size:17
Alignment explanation
Indices: 2714457--2714490 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2714447 AGCATATTGG
*
2714457 CATCTTTATCACTCTTTT
1 CATCTTCATCA-TCTTTT
2714475 CATCTTCATCATCTTT
1 CATCTTCATCATCTTT
2714491 AAGTCCAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.18, C:0.29, G:0.00, T:0.53
Consensus pattern (17 bp):
CATCTTCATCATCTTTT
Found at i:2719044 original size:20 final size:20
Alignment explanation
Indices: 2719019--2719076 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
2719009 GTTGGGCACA
*
2719019 ATGTATCGATATATTTCATC
1 ATGTATCGATAAATTTCATC
*
2719039 ATGTATCGATACAATGT-ATC
1 ATGTATCGATA-AATTTCATC
* *
2719059 ATGTATCTATACATTTCA
1 ATGTATCGATAAATTTCA
2719077 CTTTGGGTGG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 3 0.10
20 25 0.81
21 3 0.10
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (20 bp):
ATGTATCGATAAATTTCATC
Found at i:2719149 original size:19 final size:20
Alignment explanation
Indices: 2719100--2719194 Score: 124
Period size: 19 Copynumber: 4.8 Consensus size: 20
2719090 CTGCTAGTTT
*
2719100 CATGTATCGATACAATCGA-
1 CATGTATCGATACAATGGAG
*
2719119 CTATGGATCGATACAA-GGAG
1 C-ATGTATCGATACAATGGAG
*
2719139 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATGGAG
*
2719159 TATGTATCGATACAA-GGAG
1 CATGTATCGATACAATGGAG
2719178 CATGTATCGATACAATG
1 CATGTATCGATACAATG
2719195 CATCGATACA
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
19 33 0.51
20 32 0.49
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (20 bp):
CATGTATCGATACAATGGAG
Found at i:2719149 original size:39 final size:39
Alignment explanation
Indices: 2719100--2719193 Score: 161
Period size: 39 Copynumber: 2.4 Consensus size: 39
2719090 CTGCTAGTTT
2719100 CATGTATCGATACAATCGACTATGGATCGATACAAGGAG
1 CATGTATCGATACAATCGACTATGGATCGATACAAGGAG
* * *
2719139 CATGTATCGATACAATTGAGTATGTATCGATACAAGGAG
1 CATGTATCGATACAATCGACTATGGATCGATACAAGGAG
2719178 CATGTATCGATACAAT
1 CATGTATCGATACAAT
2719194 GCATCGATAC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (39 bp):
CATGTATCGATACAATCGACTATGGATCGATACAAGGAG
Found at i:2732455 original size:33 final size:33
Alignment explanation
Indices: 2732418--2732487 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
2732408 TTCAACGATT
2732418 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2732451 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2732484 TGTA
1 TGTA
2732488 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2732456 original size:13 final size:13
Alignment explanation
Indices: 2732438--2732462 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2732428 CATAAAATGT
2732438 TGTATCGATACAA
1 TGTATCGATACAA
2732451 TGTATCGATACA
1 TGTATCGATACA
2732463 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2733835 original size:52 final size:51
Alignment explanation
Indices: 2733705--2733873 Score: 146
Period size: 52 Copynumber: 3.3 Consensus size: 51
2733695 AATAACGAGG
* * * *
2733705 TTGGAGTATCCTCGATTGT-GAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 TTGGAGTATCCCCGATTGTGGAAAAATTGG-AGTTTTGAAAATAAAACCGGA
* ** *
2733756 GTTGGAGTATCCCCAATTAAAGG-AAAATTGGCGTTTTGAAAATAAAACCAGGA
1 -TTGGAGTATCCCCGATT-GTGGAAAAATTGGAGTTTTGAAAATAAAACC-GGA
* * ** *
2733809 TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCGATAAAACCGGGG
1 TTGGAGTATCCCCGATTGTGGAAAAATTGGAGTTTTGA-AAATAAAACC-GGA
2733861 TTGGAGTATCCCC
1 TTGGAGTATCCCC
2733874 TCGAAAATAA
Statistics
Matches: 95, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
51 3 0.03
52 80 0.84
53 11 0.12
54 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (51 bp):
TTGGAGTATCCCCGATTGTGGAAAAATTGGAGTTTTGAAAATAAAACCGGA
Found at i:2733919 original size:27 final size:27
Alignment explanation
Indices: 2733847--2733931 Score: 111
Period size: 27 Copynumber: 3.1 Consensus size: 27
2733837 AGTGTTTTAG
*
2733847 CGATAAA-ACCGGGGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTAT-CCC
2733874 TCGA-AAATAACGGGGTTGGAGTATCCC
1 -CGATAAATAACGGGGTTGGAGTATCCC
* *
2733901 CGATGATTAACGGGGTTGGAGTATCCC
1 CGATAAATAACGGGGTTGGAGTATCCC
2733928 CGAT
1 CGAT
2733932 TGTGAAGAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 3 0.06
27 31 0.60
28 18 0.35
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (27 bp):
CGATAAATAACGGGGTTGGAGTATCCC
Found at i:2736425 original size:13 final size:13
Alignment explanation
Indices: 2736407--2736432 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2736397 ACAAAGATCC
2736407 ATGTATCGATACA
1 ATGTATCGATACA
2736420 ATGTATCGATACA
1 ATGTATCGATACA
2736433 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2736428 original size:33 final size:33
Alignment explanation
Indices: 2736386--2736452 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2736376 AAAATTTCCA
***
2736386 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2736419 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2736452 A
1 A
2736453 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2736496 original size:19 final size:18
Alignment explanation
Indices: 2736472--2736539 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2736462 CAGTAGCTAA
2736472 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2736491 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2736506 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2736523 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2736540 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2736512 original size:13 final size:13
Alignment explanation
Indices: 2736494--2736518 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2736484 ACAATACTTA
2736494 TGTATCGATACAT
1 TGTATCGATACAT
2736507 TGTATCGATACA
1 TGTATCGATACA
2736519 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2736516 original size:32 final size:32
Alignment explanation
Indices: 2736475--2736537 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2736465 TAGCTAATTA
*
2736475 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2736507 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2736538 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2740013 original size:55 final size:55
Alignment explanation
Indices: 2739930--2740992 Score: 1614
Period size: 55 Copynumber: 19.3 Consensus size: 55
2739920 ATAAAGTGTA
* * ** * ** *
2739930 TCCTGCTCATTGAGGAGTAAAAAATGCCACAAACACGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* * *
2739985 TCCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
2740040 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
2740095 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
2740150 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
2740205 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
2740260 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
2740315 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
2740370 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
2740425 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
2740480 TCCTGCTCCTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* * * *
2740535 TCCTGCTCTTTGGGGACTGGAAAATGCCACCAACTTGTGTGGGCATTGATAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
2740590 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
2740645 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
2740700 TCCTGCTCCTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
2740755 TCCTGCTCTTTGGGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* * *
2740810 TCCTGCTCTTTGGGGACT-GAAAGGTGCCATCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
2740865 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
2740920 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
2740975 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
2740993 AAAAAAGCGG
Statistics
Matches: 953, Mismatches: 39, Indels: 32
0.93 0.04 0.03
Matches are distributed among these distances:
54 25 0.03
55 908 0.95
56 20 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:2740172 original size:27 final size:27
Alignment explanation
Indices: 2740090--2740172 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
2740080 GGGCTTTAAG
2740090 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
* ** * * * *
2740117 A-ATG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGGAA
2740145 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
2740172 A
1 A
2740173 ATGCCACCAA
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (27 bp):
AGGTGTCCTGCTCTTTGAGGACTGGAA
Found at i:2740830 original size:26 final size:26
Alignment explanation
Indices: 2740801--2740945 Score: 93
Period size: 26 Copynumber: 5.3 Consensus size: 26
2740791 GTGTGGGCTT
2740801 TGAAAGGTGTCCTGCTCTTTGGGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
*
2740827 TGAAAGGTG-CCAT-CAACTTGTGTGGG-C
1 TGAAAGGTGTCC-TGC-TCTT-TG-GGGAC
*
2740854 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
** *
2740882 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
* *
2740909 TTTAAGAGGTGTCCTGCTCTTTGAGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
2740937 TGAAAGGTG
1 TGAAAGGTG
2740946 CCACCAACTT
Statistics
Matches: 90, Mismatches: 13, Indels: 32
0.67 0.10 0.24
Matches are distributed among these distances:
25 6 0.07
26 26 0.29
27 17 0.19
28 18 0.20
29 17 0.19
30 6 0.07
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.30
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:2740864 original size:29 final size:29
Alignment explanation
Indices: 2740831--2740974 Score: 94
Period size: 29 Copynumber: 5.2 Consensus size: 29
2740821 GGGGACTGAA
2740831 AGGTGCCATCAACTTGTGTGGGCTTTAAG
1 AGGTGCCATCAACTTGTGTGGGCTTTAAG
* *
2740860 AGGTGTCC-TGC-TCTT-TG-GGGAC-TGAA-
1 AGGTG-CCAT-CAACTTGTGTGGG-CTTTAAG
*
2740886 AGGTGCCACCAACTTGTGTGGGCTTTAAG
1 AGGTGCCATCAACTTGTGTGGGCTTTAAG
* * * *
2740915 AGGTGTCC-TGC-TCTT-TGAGGAC-TGAA-
1 AGGTG-CCAT-CAACTTGTGTGGGCTTTAAG
*
2740941 AGGTGCCACCAACTTGTGTGGGCTTTAAG
1 AGGTGCCATCAACTTGTGTGGGCTTTAAG
2740970 AGGTG
1 AGGTG
2740975 TCCTGCTCTT
Statistics
Matches: 84, Mismatches: 15, Indels: 32
0.64 0.11 0.24
Matches are distributed among these distances:
25 6 0.07
26 16 0.19
27 17 0.20
28 17 0.20
29 22 0.26
30 6 0.07
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.29
Consensus pattern (29 bp):
AGGTGCCATCAACTTGTGTGGGCTTTAAG
Found at i:2741999 original size:13 final size:12
Alignment explanation
Indices: 2741975--2742016 Score: 59
Period size: 13 Copynumber: 3.5 Consensus size: 12
2741965 CTTTTATCTC
*
2741975 TTTTTCTTTGTT
1 TTTTTTTTTGTT
2741987 TTGTTTTTTTGTT
1 TT-TTTTTTTGTT
2742000 TTTTTTTTT-TT
1 TTTTTTTTTGTT
2742011 TTTTTT
1 TTTTTT
2742017 GAAGAGAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 8 0.29
12 9 0.32
13 11 0.39
ACGTcount: A:0.00, C:0.02, G:0.07, T:0.90
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:2754542 original size:28 final size:28
Alignment explanation
Indices: 2754473--2754546 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 28
2754463 ATAAAGCCGG
* *
2754473 GGTTGGAGTATCCCCTCG--GAAGTAACGG
1 GGTTGGAGTAT--CCTCGATGAAATAACGA
2754501 GGTTGGAGTATCCTCGATGAAATAACGA
1 GGTTGGAGTATCCTCGATGAAATAACGA
2754529 GGTTGGAGTATCCTCGAT
1 GGTTGGAGTATCCTCGAT
2754547 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 5 0.12
28 37 0.88
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (28 bp):
GGTTGGAGTATCCTCGATGAAATAACGA
Found at i:2754599 original size:52 final size:52
Alignment explanation
Indices: 2754530--2754866 Score: 185
Period size: 52 Copynumber: 6.4 Consensus size: 52
2754520 AAATAACGAG
*
2754530 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
** * ** * *
2754582 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAATC-GGA
* * * * *
2754635 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG--ATAAAACCGGG
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTATTTTTG-GAAATAAAATCGGA
* * **** * * *
2754686 GTTGGAGTATCCCC--TCG-AAAATAACGGGGTTGG-AGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTGTGAAA-AA-----TTGGTA-T-TTTTGGA-AATAAAATCGGA
*
2754741 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGA
* * * * *
2754795 GTTAGAGTATCCCCGATTAT-AGAAAATTAGT-GTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTATTTTTGGAAATAAAATCGGA
*
2754846 GTTGGAATATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
2754867 GAGAATTGAT
Statistics
Matches: 214, Mismatches: 44, Indels: 54
0.69 0.14 0.17
Matches are distributed among these distances:
48 3 0.01
49 2 0.01
50 2 0.01
51 37 0.17
52 79 0.37
53 33 0.15
54 28 0.13
55 19 0.09
56 2 0.01
57 4 0.02
58 4 0.02
59 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
Found at i:2754745 original size:27 final size:27
Alignment explanation
Indices: 2754673--2754757 Score: 111
Period size: 27 Copynumber: 3.1 Consensus size: 27
2754663 AGTGTTTTAG
*
2754673 CGATAAA-ACCGGGGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTAT-CCC
2754700 TCGA-AAATAACGGGGTTGGAGTATCCC
1 -CGATAAATAACGGGGTTGGAGTATCCC
* *
2754727 CGATGATTAACGGGGTTGGAGTATCCC
1 CGATAAATAACGGGGTTGGAGTATCCC
2754754 CGAT
1 CGAT
2754758 TGTGAAGAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 3 0.06
27 31 0.60
28 18 0.35
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (27 bp):
CGATAAATAACGGGGTTGGAGTATCCC
Found at i:2754836 original size:212 final size:212
Alignment explanation
Indices: 2754463--2754868 Score: 638
Period size: 212 Copynumber: 1.9 Consensus size: 212
2754453 ATGATTAGAA
* * * *
2754463 ATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCTCGATGAAATAACG
1 ATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
* *
2754528 AGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATC
66 AGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATC
* *
2754593 CCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA-TTGGAGTATCCCCGATTGTGGA
131 CCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACC-GGAGTTGGAATATCCCCGATTGTGGA
2754657 AAAATTAGTGTTTTAGCG
195 AAAATTAGTGTTTTAGCG
*
2754675 ATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACG
1 ATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
* *
2754739 GGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTA
66 AGGTTGGAGTATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTAGAGTA
* * *
2754804 TCCCCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGG
129 TCCCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGG
2754868 A
194 A
2754869 GAATTGATAA
Statistics
Matches: 177, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
211 32 0.18
212 106 0.60
213 39 0.22
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (212 bp):
ATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
AGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATC
CCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAA
AAATTAGTGTTTTAGCG
Found at i:2754841 original size:51 final size:53
Alignment explanation
Indices: 2754745--2754863 Score: 154
Period size: 51 Copynumber: 2.3 Consensus size: 53
2754735 AACGGGGTTG
* * *
2754745 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
*
2754799 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
*
2754850 GAATATCCCCGATT
1 GAGTATCCCCGATT
2754864 GTGGAGAATT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 34 0.58
52 2 0.03
53 8 0.14
54 15 0.25
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.32
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:2757233 original size:20 final size:20
Alignment explanation
Indices: 2757206--2757260 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
2757196 TAAAATTTCC
*
2757206 AAATGTATCGATACAAAGAT
1 AAATGTATCGATACAAAGAA
** *
2757226 CCATGTATCGATACACAGAA
1 AAATGTATCGATACAAAGAA
2757246 AAATGTATCGATACA
1 AAATGTATCGATACA
2757261 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (20 bp):
AAATGTATCGATACAAAGAA
Found at i:2757320 original size:13 final size:13
Alignment explanation
Indices: 2757302--2757326 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2757292 ACAATACTTA
2757302 TGTATCGATACAT
1 TGTATCGATACAT
2757315 TGTATCGATACA
1 TGTATCGATACA
2757327 AATCGTTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2757408 original size:20 final size:20
Alignment explanation
Indices: 2757364--2757439 Score: 107
Period size: 21 Copynumber: 3.7 Consensus size: 20
2757354 GTTGGGACCC
***
2757364 TGTATCGATACATTTGTAGAA
1 TGTATCGATACATTCACA-AA
2757385 TGTATCGATACATTCACAAA
1 TGTATCGATACATTCACAAA
2757405 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTC-ACAAA
2757426 TGTATCGATACATT
1 TGTATCGATACATT
2757440 TGGAATTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
20 17 0.33
21 34 0.67
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTCACAAA
Found at i:2761773 original size:35 final size:35
Alignment explanation
Indices: 2761730--2761799 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
2761720 GTTTTGAAAA
* *
2761730 TAAATTTTTATCAAGGGGGAGAAAATCTTTTTAAC
1 TAAATTTTTATCAAGAGGGAGAAAATATTTTTAAC
2761765 TAAATTTTTATCAAGAGGGAGAAAATATTTTTAAC
1 TAAATTTTTATCAAGAGGGAGAAAATATTTTTAAC
2761800 CGTTTATCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (35 bp):
TAAATTTTTATCAAGAGGGAGAAAATATTTTTAAC
Found at i:2762472 original size:20 final size:19
Alignment explanation
Indices: 2762426--2762484 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
2762416 TTGTTTTGAT
*
2762426 ACATTGTATCGATACATGC
1 ACATTGTATCGATACATGA
* *
2762445 TCATTGTATCCATACATGA
1 ACATTGTATCGATACATGA
*
2762464 ACAATTGTATTGATACATGA
1 AC-ATTGTATCGATACATGA
2762484 A
1 A
2762485 ACTGGCAGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGA
Found at i:2765794 original size:20 final size:20
Alignment explanation
Indices: 2765769--2765824 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
2765759 TGGGCACAAT
2765769 GTATCGATACATTTCATCAC
1 GTATCGATACATTTCATCAC
* *
2765789 GTATCGATACAATGT-ATCAT
1 GTATCGATAC-ATTTCATCAC
2765809 GTATCGATACATTTCA
1 GTATCGATACATTTCA
2765825 CTTAAGGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 3 0.10
20 25 0.81
21 3 0.10
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (20 bp):
GTATCGATACATTTCATCAC
Found at i:2765899 original size:19 final size:20
Alignment explanation
Indices: 2765848--2765901 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
2765838 CTACCAGTTT
*
2765848 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATGGAG
* * *
2765868 TATATATCAATACAA-GGAG
1 CATGTATCGATACAATGGAG
2765887 CATGTATCGATACAA
1 CATGTATCGATACAA
2765902 AGCATAATGT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.28
Consensus pattern (20 bp):
CATGTATCGATACAATGGAG
Found at i:2778475 original size:20 final size:22
Alignment explanation
Indices: 2778446--2778486 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
2778436 CCAACTCCAG
*
2778446 GTCGCGATCG-GCA-CTCCCAA
1 GTCGCAATCGAGCAGCTCCCAA
2778466 GTCGCAATCGAGCAGCTCCCA
1 GTCGCAATCGAGCAGCTCCCA
2778487 CACCTACTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.22, C:0.39, G:0.24, T:0.15
Consensus pattern (22 bp):
GTCGCAATCGAGCAGCTCCCAA
Found at i:2779028 original size:20 final size:22
Alignment explanation
Indices: 2778990--2779039 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
2778980 CCTAGGCAGC
* *
2778990 CAACT-CCAGGTCGCGATCG-G
1 CAACTCCCAAGTCGCAATCGAG
2779010 C-ACTCCCAAGTCGCAATCGAG
1 CAACTCCCAAGTCGCAATCGAG
2779031 CAACTCCCA
1 CAACTCCCA
2779040 CACCTACTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 3 0.12
20 13 0.52
21 2 0.08
22 7 0.28
ACGTcount: A:0.26, C:0.40, G:0.20, T:0.14
Consensus pattern (22 bp):
CAACTCCCAAGTCGCAATCGAG
Found at i:2779181 original size:553 final size:553
Alignment explanation
Indices: 2778135--2779242 Score: 2144
Period size: 553 Copynumber: 2.0 Consensus size: 553
2778125 AATTTCTTAT
*
2778135 TTTTCACTTCAAAATACTTCATTTTTCATCAAAATCATCAACAAAAACGGTTTTAAACTCATCAA
1 TTTTCACTTCAAAATACTTCATTTTTCATCAAAATCATCAACAAAAACGGTTTTAAAATCATCAA
2778200 ATCTGTCATTCAAAATCTGTCAAAAACAATTTTCTATCACCCTTTTAATTCCTTCAAAACTCATC
66 ATCTGTCATTCAAAATCTGTCAAAAACAATTTTCTATCACCCTTTTAATTCCTTCAAAACTCATC
2778265 TTTAGGAGTGTTTTTAAGCCCAATCTTTATTCCTTCCCATACATAGACACTCTTAGTTTAGGTTT
131 TTTAGGAGTGTTTTTAAGCCCAATCTTTATTCCTTCCCATACATAGACACTCTTAGTTTAGGTTT
2778330 ATGGTCTTTGTTTTCATCAAAAACTCCCATATTTCAAAATCCAAGCCCTCAAAGTAGTGACCGCC
196 ATGGTCTTTGTTTTCATCAAAAACTCCCATATTTCAAAATCCAAGCCCTCAAAGTAGTGACCGCC
2778395 ACCTGTTCGGTGAAAAGCCTAAACCAAAATCCCCTAGGCAGCCAACTCCAGGTCGCGATCGGCAC
261 ACCTGTTCGGTGAAAAGCCTAAACCAAAATCCCCTAGGCAGCCAACTCCAGGTCGCGATCGGCAC
*
2778460 TCCCAAGTCGCAATCGAGCAGCTCCCACACCTACTGCCTAAACCACCCGAAACTATCCCACTTTA
326 TCCCAAGTCGCAATCGAGCAACTCCCACACCTACTGCCTAAACCACCCGAAACTATCCCACTTTA
*
2778525 CACTGAAACACCTATTAACCAAATCGATGGCTCTTTGAATTAAATTACCTGCTCAAAGACGCACT
391 CACCGAAACACCTATTAACCAAATCGATGGCTCTTTGAATTAAATTACCTGCTCAAAGACGCACT
2778590 CGAGGTGCTTCTTCGTCAAATCCTCAAAATCAAACCTTCATCGAAGGTTGTTTTCGAACCCAAGC
456 CGAGGTGCTTCTTCGTCAAATCCTCAAAATCAAACCTTCATCGAAGGTTGTTTTCGAACCCAAGC
2778655 CAACCTCGAACACTTTAACCGAACCTTCCACGG
521 CAACCTCGAACACTTTAACCGAACCTTCCACGG
2778688 TTTTCACTTCAAAATACTTCATTTTTCATCAAAATCATCAACAAAAACGGTTTTAAAATCATCAA
1 TTTTCACTTCAAAATACTTCATTTTTCATCAAAATCATCAACAAAAACGGTTTTAAAATCATCAA
*
2778753 ATCTGTCATTCAAAATCTGTCAAAAATAATTTTCTATCACCCTTTTAATTCCTTCAAAACTCATC
66 ATCTGTCATTCAAAATCTGTCAAAAACAATTTTCTATCACCCTTTTAATTCCTTCAAAACTCATC
2778818 TTTAGGAGTGTTTTTAAGCCCAATCTTTATTCCTTCCCATACATAGACACTCTTAGTTTAGGTTT
131 TTTAGGAGTGTTTTTAAGCCCAATCTTTATTCCTTCCCATACATAGACACTCTTAGTTTAGGTTT
*
2778883 ATGGTCTTTTTTTTCATCAAAAACTCCCATATTTCAAAATCCAAGCCCTCAAAGTAGTGACCGCC
196 ATGGTCTTTGTTTTCATCAAAAACTCCCATATTTCAAAATCCAAGCCCTCAAAGTAGTGACCGCC
2778948 ACCTGTTCGGTGAAAAGCCTAAACCAAAATCCCCTAGGCAGCCAACTCCAGGTCGCGATCGGCAC
261 ACCTGTTCGGTGAAAAGCCTAAACCAAAATCCCCTAGGCAGCCAACTCCAGGTCGCGATCGGCAC
*
2779013 TCCCAAGTCGCAATCGAGCAACTCCCACACCTACTGCCTAAACCACCCGAAACTATCCCGCTTTA
326 TCCCAAGTCGCAATCGAGCAACTCCCACACCTACTGCCTAAACCACCCGAAACTATCCCACTTTA
*
2779078 CACCGAAACACCTATTAACCAAATCGATGGCTTTTTGAATTAAATTACCTGCTCAAAGACGCACT
391 CACCGAAACACCTATTAACCAAATCGATGGCTCTTTGAATTAAATTACCTGCTCAAAGACGCACT
*
2779143 CGAGGTGCTTCTTCGTCAAATCCTCAAAATCAAACCTTCTTCGAAGGTTGTTTTCGAACCCAAGC
456 CGAGGTGCTTCTTCGTCAAATCCTCAAAATCAAACCTTCATCGAAGGTTGTTTTCGAACCCAAGC
2779208 CAACCTCGAACACTTTAACCGAACCTTCCACGG
521 CAACCTCGAACACTTTAACCGAACCTTCCACGG
2779241 TT
1 TT
2779243 GGCTGTCCAA
Statistics
Matches: 547, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
553 547 1.00
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.29
Consensus pattern (553 bp):
TTTTCACTTCAAAATACTTCATTTTTCATCAAAATCATCAACAAAAACGGTTTTAAAATCATCAA
ATCTGTCATTCAAAATCTGTCAAAAACAATTTTCTATCACCCTTTTAATTCCTTCAAAACTCATC
TTTAGGAGTGTTTTTAAGCCCAATCTTTATTCCTTCCCATACATAGACACTCTTAGTTTAGGTTT
ATGGTCTTTGTTTTCATCAAAAACTCCCATATTTCAAAATCCAAGCCCTCAAAGTAGTGACCGCC
ACCTGTTCGGTGAAAAGCCTAAACCAAAATCCCCTAGGCAGCCAACTCCAGGTCGCGATCGGCAC
TCCCAAGTCGCAATCGAGCAACTCCCACACCTACTGCCTAAACCACCCGAAACTATCCCACTTTA
CACCGAAACACCTATTAACCAAATCGATGGCTCTTTGAATTAAATTACCTGCTCAAAGACGCACT
CGAGGTGCTTCTTCGTCAAATCCTCAAAATCAAACCTTCATCGAAGGTTGTTTTCGAACCCAAGC
CAACCTCGAACACTTTAACCGAACCTTCCACGG
Found at i:2780465 original size:35 final size:35
Alignment explanation
Indices: 2780421--2780492 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
2780411 GTTTTGAAAA
2780421 TAAATTTTTATCAAGGGGGAGAAAATCTTTCTAAC
1 TAAATTTTTATCAAGGGGGAGAAAATCTTTCTAAC
*
2780456 TAAATTTTTATCAAGGGGGAGAAAATCTTTTTAAC
1 TAAATTTTTATCAAGGGGGAGAAAATCTTTCTAAC
2780491 TA
1 TA
2780493 TTTATCAGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (35 bp):
TAAATTTTTATCAAGGGGGAGAAAATCTTTCTAAC
Found at i:2784494 original size:21 final size:22
Alignment explanation
Indices: 2784470--2784510 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2784460 TAAAAATTAC
2784470 TTAATATATAA-AAATATAAAA
1 TTAATATATAATAAATATAAAA
*
2784491 TTAATATATAATATATATAA
1 TTAATATATAATAAATATAA
2784511 TTGTAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAATATATAATAAATATAAAA
Found at i:2785082 original size:20 final size:21
Alignment explanation
Indices: 2785035--2785089 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
2785025 AAAACCCTAG
*
2785035 AATGTATCAATACA-CATCTA
1 AATGTATCAATACATCATCGA
*
2785055 AATATATCAATACATCAT-GA
1 AATGTATCAATACATCATCGA
* *
2785075 ATTGTATCGATACAT
1 AATGTATCAATACAT
2785090 AAAATTGGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 26 0.90
21 3 0.10
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (21 bp):
AATGTATCAATACATCATCGA
Found at i:2785165 original size:14 final size:14
Alignment explanation
Indices: 2785146--2785236 Score: 78
Period size: 14 Copynumber: 7.3 Consensus size: 14
2785136 CATTAATGTT
2785146 TATCACTGTTCATA
1 TATCACTGTTCATA
2785160 TATCACTGTT--T-
1 TATCACTGTTCATA
*
2785171 CATCACTGTTCATA
1 TATCACTGTTCATA
2785185 TATCACTGTTC--A
1 TATCACTGTTCATA
*
2785197 TA--ACTGTTCATG
1 TATCACTGTTCATA
*
2785209 TATCATTGTTC---
1 TATCACTGTTCATA
2785220 -ATCACTGTTCATA
1 TATCACTGTTCATA
2785233 TATC
1 TATC
2785237 GATACAGTGT
Statistics
Matches: 61, Mismatches: 5, Indels: 22
0.69 0.06 0.25
Matches are distributed among these distances:
10 16 0.26
11 9 0.15
12 6 0.10
13 1 0.02
14 29 0.48
ACGTcount: A:0.25, C:0.22, G:0.09, T:0.44
Consensus pattern (14 bp):
TATCACTGTTCATA
Found at i:2785170 original size:24 final size:24
Alignment explanation
Indices: 2785142--2785236 Score: 145
Period size: 24 Copynumber: 3.9 Consensus size: 24
2785132 TATTCATTAA
*
2785142 TGTTTATCACTGTTCATATATCAC
1 TGTTCATCACTGTTCATATATCAC
2785166 TGTTTCATCACTGTTCATATATCAC
1 TG-TTCATCACTGTTCATATATCAC
* * *
2785191 TGTTCATAACTGTTCATGTATCAT
1 TGTTCATCACTGTTCATATATCAC
2785215 TGTTCATCACTGTTCATATATC
1 TGTTCATCACTGTTCATATATC
2785237 GATACAGTGT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
24 41 0.64
25 23 0.36
ACGTcount: A:0.24, C:0.21, G:0.09, T:0.45
Consensus pattern (24 bp):
TGTTCATCACTGTTCATATATCAC
Found at i:2786591 original size:24 final size:22
Alignment explanation
Indices: 2786544--2786599 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
2786534 TTAATTAACG
*
2786544 TAATATAGTAATAAATGATAAA
1 TAATATAATAATAAATGATAAA
*
2786566 TAATATAATAAT-AATGATGAA
1 TAATATAATAATAAATGATAAA
* *
2786587 CAATACAATAATA
1 TAATATAATAATA
2786600 GAAGATTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (22 bp):
TAATATAATAATAAATGATAAA
Found at i:2787083 original size:22 final size:24
Alignment explanation
Indices: 2787058--2787106 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 24
2787048 TGTGTTTTAC
*
2787058 AAAAATGAAATT-T-AAATTTTCA
1 AAAAAGGAAATTATAAAATTTTCA
*
2787080 AAAAGGGAAATTAATAAAATTTTCA
1 AAAAAGGAAATT-ATAAAATTTTCA
2787105 AA
1 AA
2787107 CTCCATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 10 0.45
24 1 0.05
25 11 0.50
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (24 bp):
AAAAAGGAAATTATAAAATTTTCA
Found at i:2787277 original size:22 final size:20
Alignment explanation
Indices: 2787252--2787315 Score: 67
Period size: 19 Copynumber: 3.1 Consensus size: 20
2787242 AAATTATTTT
2787252 TTATTATTTAAAAATACATAAA
1 TTATTATTT-AAAATACA-AAA
*
2787274 TTATTATGTAAAATA-AAAA
1 TTATTATTTAAAATACAAAA
* * *
2787293 TTTTTATTTCAAATACAATA
1 TTATTATTTAAAATACAAAA
2787313 TTA
1 TTA
2787316 ATTGTTATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 15 0.43
20 6 0.17
21 6 0.17
22 8 0.23
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (20 bp):
TTATTATTTAAAATACAAAA
Found at i:2792233 original size:18 final size:16
Alignment explanation
Indices: 2792194--2792237 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
2792184 TTTTCTTTTC
2792194 ATTTTTAATT-TAAAA
1 ATTTTTAATTATAAAA
2792209 A-TTTTAATTATAAAA
1 ATTTTTAATTATAAAA
2792224 TTATTTTTAATTAT
1 --ATTTTTAATTAT
2792238 TATTAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 8 0.32
15 6 0.24
17 1 0.04
18 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTTAATTATAAAA
Found at i:2792245 original size:21 final size:22
Alignment explanation
Indices: 2792215--2792256 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
2792205 AAAAATTTTA
*
2792215 ATTATAAAATT-ATTTTTAATT
1 ATTATAAAATTAAATTTTAATT
*
2792236 ATTATTAAATTAAATTTTAAT
1 ATTATAAAATTAAATTTTAAT
2792257 CAAATTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTATAAAATTAAATTTTAATT
Found at i:2792837 original size:16 final size:16
Alignment explanation
Indices: 2792813--2792852 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
2792803 CATACACTTA
*
2792813 AATTAAATTAGA-TTAT
1 AATTTAATTAGAGTT-T
2792829 AATTTAATTAGAGTTT
1 AATTTAATTAGAGTTT
2792845 AATTTAAT
1 AATTTAAT
2792853 AATAATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 20 0.91
17 2 0.09
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (16 bp):
AATTTAATTAGAGTTT
Found at i:2793096 original size:114 final size:113
Alignment explanation
Indices: 2792958--2793188 Score: 374
Period size: 114 Copynumber: 2.0 Consensus size: 113
2792948 TTAAAAAGAT
* *
2792958 TATATTTATTTTCATTCAAAATTAATTTAAAAATAATA-TCTAGTGGTTAGTTTATTTTATGCCA
1 TATATTTATTTTCATTCAAAATTAATTTAAAAATAATATTC-AGTAGTTAGTATATTTTATGCCA
2793022 AACCTTGGTACAGCTCCCCTCCATTGCTTTTTGGTTTGTTATTATCCAA
65 AACCTTGGTACAGCTCCCCTCCATTGCTTTTTGGTTTGTTATTATCCAA
* *
2793071 TATATTTATTTTTCATTCAAAATTAATTTAGAAATAATATTCAGTAGTTGGTATATTTTATGCCA
1 TATATTTA-TTTTCATTCAAAATTAATTTAAAAATAATATTCAGTAGTTAGTATATTTTATGCCA
* * *
2793136 AACCTTGGTATAGCTCCCCTCCATTGCTTTTTTGTTTGTTATTATTCAA
65 AACCTTGGTACAGCTCCCCTCCATTGCTTTTTGGTTTGTTATTATCCAA
2793185 TATA
1 TATA
2793189 AATTTAATCA
Statistics
Matches: 109, Mismatches: 7, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
113 8 0.07
114 99 0.91
115 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (113 bp):
TATATTTATTTTCATTCAAAATTAATTTAAAAATAATATTCAGTAGTTAGTATATTTTATGCCAA
ACCTTGGTACAGCTCCCCTCCATTGCTTTTTGGTTTGTTATTATCCAA
Found at i:2794988 original size:16 final size:15
Alignment explanation
Indices: 2794962--2795010 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
2794952 ATTTTATTAT
2794962 TTAAAAATATAATAA
1 TTAAAAATATAATAA
*
2794977 TTAAAAATTATATTAAA
1 TTAAAAA-TATAAT-AA
2794994 TTAAATAA-ATAATAA
1 TTAAA-AATATAATAA
2795009 TT
1 TT
2795011 TAATTTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
15 11 0.38
16 9 0.31
17 7 0.24
18 2 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TTAAAAATATAATAA
Found at i:2795257 original size:2 final size:2
Alignment explanation
Indices: 2795246--2795277 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2795236 AAAACACATG
2795246 CT CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
2795278 ACAACTAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2795548 original size:17 final size:16
Alignment explanation
Indices: 2795526--2795566 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
2795516 TGTTAAGTTT
*
2795526 AAAAATAAATTTTAAAA
1 AAAAATAAA-TGTAAAA
*
2795543 AAAAATAAATGTAATA
1 AAAAATAAATGTAAAA
2795559 AAAAATAA
1 AAAAATAA
2795567 TTGAGTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (16 bp):
AAAAATAAATGTAAAA
Found at i:2795648 original size:25 final size:26
Alignment explanation
Indices: 2795608--2795700 Score: 97
Period size: 25 Copynumber: 3.7 Consensus size: 26
2795598 ATTTTAATCT
2795608 ATTTTACTATTATATAATATATAT-TA
1 ATTTTA-TATTATATAATATATATATA
*
2795634 ATTTTATATTTTAT-ATAT-TATATA
1 ATTTTATATTATATAATATATATATA
* *
2795658 ATTTT-TATAATATAAAATATATATA
1 ATTTTATATTATATAATATATATATA
* *
2795683 ATATTATAATATA-AATAT
1 ATTTTATATTATATAATAT
2795701 TAAAATTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
23 9 0.16
24 14 0.25
25 21 0.38
26 11 0.20
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (26 bp):
ATTTTATATTATATAATATATATATA
Found at i:2795699 original size:14 final size:14
Alignment explanation
Indices: 2795662--2795711 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
2795652 TATATAATTT
2795662 TTATAATATAAA-A
1 TTATAATATAAATA
2795675 -TAT-ATAT-AATA
1 TTATAATATAAATA
2795686 TTATAATATAAATA
1 TTATAATATAAATA
*
2795700 TTAAAAT-TAAAT
1 TTATAATATAAAT
2795712 TAAATTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
10 2 0.06
11 5 0.16
12 6 0.19
13 9 0.28
14 10 0.31
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TTATAATATAAATA
Found at i:2795751 original size:18 final size:16
Alignment explanation
Indices: 2795728--2795814 Score: 64
Period size: 14 Copynumber: 5.8 Consensus size: 16
2795718 ATTTATATTT
2795728 TTAAATTTAATAAAATTA
1 TTAAATTTAATAAAA--A
2795746 TTAAA-TTAATAAAAA
1 TTAAATTTAATAAAAA
2795761 TTAAATTT--TAAAAA
1 TTAAATTTAATAAAAA
* *
2795775 TATATATTT-TTAAAAA
1 T-TAAATTTAATAAAAA
*
2795791 ATAAA-TT-ATAAAAA
1 TTAAATTTAATAAAAA
2795805 -T-AATTTAATA
1 TTAAATTTAATA
2795815 TGTCTAAATA
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
12 2 0.03
13 3 0.05
14 18 0.30
15 15 0.25
16 8 0.13
17 9 0.15
18 5 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TTAAATTTAATAAAAA
Found at i:2795765 original size:15 final size:15
Alignment explanation
Indices: 2795728--2795814 Score: 63
Period size: 15 Copynumber: 5.7 Consensus size: 15
2795718 ATTTATATTT
2795728 TTAAATTTAATAAAATTA
1 TTAAA-TTAATAAAA--A
2795746 TTAAATTAATAAAAA
1 TTAAATTAATAAAAA
*
2795761 TTAAATT-TTAAAAA
1 TTAAATTAATAAAAA
* **
2795775 TATATATTTTTAAAAA
1 T-TAAATTAATAAAAA
*
2795791 ATAAATT-ATAAAAA
1 TTAAATTAATAAAAA
*
2795805 -TAATTTAATA
1 TTAAATTAATA
2795815 TGTCTAAATA
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
13 5 0.08
14 16 0.27
15 18 0.30
16 7 0.12
17 9 0.15
18 5 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAATTAATAAAAA
Found at i:2796314 original size:78 final size:79
Alignment explanation
Indices: 2796227--2796391 Score: 221
Period size: 79 Copynumber: 2.1 Consensus size: 79
2796217 AATAAAATAT
* * * *
2796227 TTTAAAAATAA-TTTT-TATATAATTTTATAATTAAATATTATTATTATTAAATTATAATTTAAA
1 TTTAAAAATAACTTTTATAAAAAAATTTA-AATAAAATATTATTATTATTAAATTATAATTTAAA
2796290 TTAAA-CTAAT-TCTAA
65 TTAAACCT--TCTCTAA
* *
2796305 TTTAAAAATAACTTTTATAAAAAAATTTAAATAAAATATTTTTATTATTAAATTATAATTTCAAT
1 TTTAAAAATAACTTTTATAAAAAAATTTAAATAAAATATTATTATTATTAAATTATAATTTAAAT
2796370 TAAACCTTCTCTAA
66 TAAACCTTCTCTAA
2796384 TTTAAAAA
1 TTTAAAAA
2796392 AAAACATATC
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
78 12 0.16
79 54 0.70
80 11 0.14
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (79 bp):
TTTAAAAATAACTTTTATAAAAAAATTTAAATAAAATATTATTATTATTAAATTATAATTTAAAT
TAAACCTTCTCTAA
Done.