Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
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: 6287495
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 33
Found at i:4037845 original size:21 final size:21
Alignment explanation
Indices: 4037814--4037868 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
4037804 ATAGTACATT
* *
4037814 AATATAAACTATAGTTTGTAA
1 AATATAAACTATAGGTTATAA
* *
4037835 ATTATATACTATAGGTTATAA
1 AATATAAACTATAGGTTATAA
4037856 AATATAAACTATA
1 AATATAAACTATA
4037869 TAGTACACTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.38
Consensus pattern (21 bp):
AATATAAACTATAGGTTATAA
Found at i:4037938 original size:20 final size:22
Alignment explanation
Indices: 4037915--4038045 Score: 70
Period size: 24 Copynumber: 5.6 Consensus size: 22
4037905 GGTTACATAT
4037915 ATAGTTTATATA-ACATATA-A
1 ATAGTTTATATATACATATACA
*
4037935 ATAGATTGTATATATACATATACT
1 ATAG-TT-TATATATACATATACA
* *
4037959 ATAGGTTATATATATATATATATA
1 ATA-GTT-TATATATACATATACA
* * *
4037983 TATA-TATATATTATATATACTATA
1 -ATAGTTTATA-TATACATA-TACA
* * *
4038007 CATAGTTTATACATACATGTACT
1 -ATAGTTTATATATACATATACA
4038030 ATAAGTTATATATATA
1 AT-AGTT-TATATATA
4038046 ATTTATATGT
Statistics
Matches: 86, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
20 4 0.05
21 2 0.02
22 12 0.14
23 22 0.26
24 37 0.43
25 9 0.10
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (22 bp):
ATAGTTTATATATACATATACA
Found at i:4037950 original size:2 final size:2
Alignment explanation
Indices: 4037943--4038006 Score: 69
Period size: 2 Copynumber: 32.0 Consensus size: 2
4037933 AAATAGATTG
* **
4037943 TA TA TA TA CA TA TA CTA TA GG T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4037985 TA TA TA TA T- TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA -TA TA
4038007 CATAGTTTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
1 2 0.04
2 47 0.89
3 4 0.08
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:4038136 original size:21 final size:21
Alignment explanation
Indices: 4038112--4038177 Score: 55
Period size: 21 Copynumber: 3.0 Consensus size: 21
4038102 TGTTTAGGGC
4038112 TTAGGTTTTAGGGTTTAAAAT
1 TTAGGTTTTAGGGTTTAAAAT
* * *
4038133 TTAGAG-TTTAAGATTTAACAT
1 TTAG-GTTTTAGGGTTTAAAAT
4038154 TTA-GTGTTTAGGGCTTTATAAAT
1 TTAGGT-TTTAGGG-TTTA-AAAT
4038177 T
1 T
4038178 ATATACTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
19 1 0.03
21 24 0.71
22 5 0.15
23 4 0.12
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (21 bp):
TTAGGTTTTAGGGTTTAAAAT
Found at i:4038198 original size:17 final size:17
Alignment explanation
Indices: 4038167--4038205 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
4038157 GTGTTTAGGG
4038167 CTTTA-TAAATTATATA
1 CTTTATTAAATTATATA
*
4038183 CTTTATTAATTTATATA
1 CTTTATTAAATTATATA
*
4038200 GTTTAT
1 CTTTAT
4038206 GCATATTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (17 bp):
CTTTATTAAATTATATA
Found at i:4038248 original size:2 final size:2
Alignment explanation
Indices: 4038241--4038274 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4038231 AATAATTTAT
4038241 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4038275 GTTTATACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4039655 original size:36 final size:36
Alignment explanation
Indices: 4039601--4039703 Score: 170
Period size: 36 Copynumber: 2.9 Consensus size: 36
4039591 GAAACGCCTC
*
4039601 AGATGCATGAGATATTTTGAAGAATAACTATACCCT
1 AGATGCATGAGATATTTTGAAGAATAACTATACCAT
* *
4039637 AGATTCGTGAGATATTTTGAAGAATAACTATACCAT
1 AGATGCATGAGATATTTTGAAGAATAACTATACCAT
*
4039673 AGATGCATGAGATATTTAGAAGAATAACTAT
1 AGATGCATGAGATATTTTGAAGAATAACTAT
4039704 CTCATGCAGA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 61 1.00
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (36 bp):
AGATGCATGAGATATTTTGAAGAATAACTATACCAT
Found at i:4040467 original size:7 final size:7
Alignment explanation
Indices: 4040456--4040494 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
4040446 AGTTTATAAA
4040456 GTTTAGG
1 GTTTAGG
*
4040463 ATTTAGG
1 GTTTAGG
*
4040470 GTTTATG
1 GTTTAGG
*
4040477 TTTTAGG
1 GTTTAGG
4040484 GTTTAGG
1 GTTTAGG
4040491 GTTT
1 GTTT
4040495 TTATAAACTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.51
Consensus pattern (7 bp):
GTTTAGG
Found at i:4041689 original size:64 final size:64
Alignment explanation
Indices: 4041581--4041801 Score: 236
Period size: 64 Copynumber: 3.5 Consensus size: 64
4041571 TAATGAAGGT
* * * * *
4041581 ATGCATCGATGCACTACTGATGCATCGGTGCA-TAAAATGTATTCGATGTTGT-ATTATTACTGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACT-AATTGCATTCGATGTT-TCATTATTAATGG
4041644 A
64 A
* * *
4041645 ATGCATCGATGCA-TGTCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACTAATTGCATTCGATGTTTCATTATTAATGGA
* **
4041709 ATGCATCGATGCACTACTTATGCATCGATGCAC-AGATTGCATTCGATGTATTTATT-TTAAAAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACTA-ATTGCATTCGATGT-TTCATTATTAATGG
4041772 A
64 A
* **
4041773 GTGCATCGATGCACTACCAATGCATCGAT
1 ATGCATCGATGCACTACTTATGCATCGAT
4041802 ACACCTTCAA
Statistics
Matches: 134, Mismatches: 17, Indels: 12
0.82 0.10 0.07
Matches are distributed among these distances:
63 3 0.02
64 125 0.93
65 6 0.04
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGTTTCATTATTAATGGA
Found at i:4046480 original size:64 final size:64
Alignment explanation
Indices: 4046372--4046592 Score: 245
Period size: 64 Copynumber: 3.5 Consensus size: 64
4046362 TAATGAAGGT
* * * * *
4046372 ATGCATCGATGCACTACTGATGCATCGGTGCA-TAAAATGTATTCGATGTTGT-ATTATTACTGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACT-AATTGCATTCGATGTT-TCATTATTAATGG
4046435 G
64 G
* *
4046436 ATGCATCGATGCA-TGTCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACTAATTGCATTCGATGTTTCATTATTAATGGG
* * **
4046500 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTATTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGT-TTCATTATTAATGGG
**
4046563 AGTGCATCGATGCACTACCAATGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
4046593 ACACCTTCAA
Statistics
Matches: 136, Mismatches: 15, Indels: 12
0.83 0.09 0.07
Matches are distributed among these distances:
63 4 0.03
64 126 0.93
65 6 0.04
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGTTTCATTATTAATGGG
Found at i:4047432 original size:18 final size:18
Alignment explanation
Indices: 4047388--4047446 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
4047378 AAACATAATT
* *
4047388 TATATATATAGCTTATAA
1 TATAAATATAGTTTATAA
*
4047406 TA-ATTATATAGTTTATAA
1 TATA-AATATAGTTTATAA
*
4047424 TATAAATATATTTTAT-A
1 TATAAATATAGTTTATAA
4047441 TATAAA
1 TATAAA
4047447 CTTATATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 8 0.22
18 27 0.75
19 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (18 bp):
TATAAATATAGTTTATAA
Found at i:4047445 original size:17 final size:17
Alignment explanation
Indices: 4047400--4047475 Score: 75
Period size: 17 Copynumber: 4.4 Consensus size: 17
4047390 TATATATAGC
*
4047400 TTATA-ATAATTATATA
1 TTATATATAAATATATA
*
4047416 GTTTATAATATAAATATATT
1 --TTAT-ATATAAATATATA
4047436 TTATATATAAACT-TATA
1 TTATATATAAA-TATATA
*
4047453 TTATATATATATATATA
1 TTATATATAAATATATA
4047470 TTATAT
1 TTATAT
4047476 TTTTTCAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
16 1 0.02
17 30 0.60
18 9 0.18
19 1 0.02
20 9 0.18
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (17 bp):
TTATATATAAATATATA
Found at i:4050489 original size:28 final size:27
Alignment explanation
Indices: 4050444--4050565 Score: 118
Period size: 28 Copynumber: 4.3 Consensus size: 27
4050434 AATTGTTGTT
* *
4050444 AGGTGATATTCTGGGAAATATTGCGATAA
1 AGGTGACATT-TGGGAAATATTTCGA-AA
* *
4050473 AGGTGACATTTTGGAAATTATTTTGAAA
1 AGGTGACATTTGGGAAA-TATTTCGAAA
*
4050501 AGGTTACATTATGGGAAATATTTCGAAA
1 AGGTGACATT-TGGGAAATATTTCGAAA
* * *
4050529 AAGTAACATATTGGGAATTATTTCGTAAA
1 AGGTGACAT-TTGGGAAATATTTCG-AAA
4050558 AGGTGACA
1 AGGTGACA
4050566 CTCTGGAAAT
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
28 46 0.60
29 31 0.40
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.33
Consensus pattern (27 bp):
AGGTGACATTTGGGAAATATTTCGAAA
Found at i:4050577 original size:29 final size:28
Alignment explanation
Indices: 4050457--4050605 Score: 122
Period size: 29 Copynumber: 5.2 Consensus size: 28
4050447 TGATATTCTG
*
4050457 GGAAA-TATTGCGATAAAGGTGACATTTT
1 GGAAATTATTTCGA-AAAGGTGACATTTT
* * *
4050485 GGAAATTATTTTGAAAAGGTTACATTATG
1 GGAAATTATTTCGAAAAGGTGACATT-TT
* * *
4050514 GGAAA-TATTTCGAAAAAGTAACATATT
1 GGAAATTATTTCGAAAAGGTGACATTTT
* * *
4050541 GGGAATTATTTCGTAAAAGGTGACACTCT
1 GGAAATTATTTCG-AAAAGGTGACATTTT
** *
4050570 GGAAATTATTTTAAAAAAAGTGACATTTT
1 GGAAATTA-TTTCGAAAAGGTGACATTTT
*
4050599 GGGAATT
1 GGAAATT
4050606 TTCAAATGTT
Statistics
Matches: 94, Mismatches: 22, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
27 5 0.05
28 39 0.41
29 47 0.50
30 3 0.03
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.34
Consensus pattern (28 bp):
GGAAATTATTTCGAAAAGGTGACATTTT
Found at i:4050586 original size:56 final size:57
Alignment explanation
Indices: 4050455--4050605 Score: 153
Period size: 57 Copynumber: 2.6 Consensus size: 57
4050445 GGTGATATTC
* * * * * * * *
4050455 TGGGAAATATTGCGATAAAGGTGACATTTTGGAAATTATTTTGAAAAGGTTACATTA
1 TGGGAAATATTTCGAAAAAAGTAACATTTTGGGAATTATTTCGAAAAGGTGACACTA
* *
4050512 TGGGAAATATTTCG-AAAAAGTAACATATTGGGAATTATTTCGTAAAAGGTGACACTC
1 TGGGAAATATTTCGAAAAAAGTAACATTTTGGGAATTATTTCG-AAAAGGTGACACTA
** *
4050569 T-GGAAATTATTTTAAAAAAAGTGACATTTTGGGAATT
1 TGGGAAA-TATTTCGAAAAAAGTAACATTTTGGGAATT
4050606 TTCAAATGTT
Statistics
Matches: 77, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
56 27 0.35
57 30 0.39
58 20 0.26
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (57 bp):
TGGGAAATATTTCGAAAAAAGTAACATTTTGGGAATTATTTCGAAAAGGTGACACTA
Found at i:4054405 original size:18 final size:18
Alignment explanation
Indices: 4054379--4054428 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
4054369 AAATTAAAGG
* *
4054379 CGGTTTTGACTCAAGCAC
1 CGGTATTGATTCAAGCAC
4054397 CGGTATTGATTCAAGCAC
1 CGGTATTGATTCAAGCAC
4054415 CGGTATTGATTCAA
1 CGGTATTGATTCAA
4054429 CCAGAGTCCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (18 bp):
CGGTATTGATTCAAGCAC
Found at i:4057120 original size:29 final size:29
Alignment explanation
Indices: 4057088--4057162 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
4057078 AATTGTTGTT
*
4057088 AGGTGATATTCTGGGAAATT-TTGTGATAA
1 AGGTGATATTATGGGAAATTATTGTGA-AA
* *
4057117 AGGTGATATTTTGGG-AATTATTTTGAAA
1 AGGTGATATTATGGGAAATTATTGTGAAA
*
4057145 A-GTGACATTATGGGAAAT
1 AGGTGATATTATGGGAAAT
4057163 ATTTCGAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 11 0.28
28 10 0.25
29 19 0.47
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (29 bp):
AGGTGATATTATGGGAAATTATTGTGAAA
Found at i:4057247 original size:29 final size:29
Alignment explanation
Indices: 4057115--4057249 Score: 139
Period size: 29 Copynumber: 4.7 Consensus size: 29
4057105 ATTTTGTGAT
* *
4057115 AAAGGTGATATTTTGGGAATTATTTTG-A
1 AAAGGTGACATTTTGGGAATTATTTCGAA
* *
4057143 AAA-GTGACATTATGGGAAATATTTCGAA
1 AAAGGTGACATTTTGGGAATTATTTCGAA
* * *
4057171 AAAGGTAACATATTGGGAATTATTTCGTA
1 AAAGGTGACATTTTGGGAATTATTTCGAA
* * * **
4057200 AAAGGTGACACTCTAGGAATTATTTTAAA
1 AAAGGTGACATTTTGGGAATTATTTCGAA
*
4057229 AAATGTGACATTTTGGGAATT
1 AAAGGTGACATTTTGGGAATT
4057250 TTCAAATGTT
Statistics
Matches: 84, Mismatches: 21, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
27 19 0.23
28 7 0.08
29 58 0.69
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (29 bp):
AAAGGTGACATTTTGGGAATTATTTCGAA
Found at i:4067794 original size:31 final size:31
Alignment explanation
Indices: 4067758--4067820 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
4067748 CCCAAGAGTT
4067758 TGGGAGTTCCTAATGAGAAGGACATATTGAA
1 TGGGAGTTCCTAATGAGAAGGACATATTGAA
*
4067789 TGGGAGTTCCTAGTGAGAAGGACATATTGAA
1 TGGGAGTTCCTAATGAGAAGGACATATTGAA
4067820 T
1 T
4067821 TCACCGAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (31 bp):
TGGGAGTTCCTAATGAGAAGGACATATTGAA
Found at i:4076580 original size:115 final size:115
Alignment explanation
Indices: 4076378--4076605 Score: 447
Period size: 115 Copynumber: 2.0 Consensus size: 115
4076368 ATTGTATTGG
4076378 ACAAAAAATATTAAATAAAAATATATAAAACTAATTTAAAAATTGATGACATGTCATTTGTGTCA
1 ACAAAAAATATTAAATAAAAATATATAAAACTAATTTAAAAATTGATGACATGTCATTTGTGTCA
4076443 CGTCATTTATAGTGTCATATAAGATTTTCACGTCATCTTATTGAGTGTAT
66 CGTCATTTATAGTGTCATATAAGATTTTCACGTCATCTTATTGAGTGTAT
*
4076493 ACAAAAAATATTAAATAAAAATATATAAAACTAATTTAAAAATTGATGGCATGTCATTTGTGTCA
1 ACAAAAAATATTAAATAAAAATATATAAAACTAATTTAAAAATTGATGACATGTCATTTGTGTCA
4076558 CGTCATTTATAGTGTCATATAAGATTTTCACGTCATCTTATTGAGTGT
66 CGTCATTTATAGTGTCATATAAGATTTTCACGTCATCTTATTGAGTGT
4076606 GAATTGACTA
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 112 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (115 bp):
ACAAAAAATATTAAATAAAAATATATAAAACTAATTTAAAAATTGATGACATGTCATTTGTGTCA
CGTCATTTATAGTGTCATATAAGATTTTCACGTCATCTTATTGAGTGTAT
Found at i:4078714 original size:20 final size:20
Alignment explanation
Indices: 4078673--4078714 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
4078663 TAATGACCAT
*
4078673 TTAAAATAATAATTTATTAA
1 TTAAAATAATAATTTATCAA
*
4078693 TTAAATTAAT-ATTTGATCAA
1 TTAAAATAATAATTT-ATCAA
4078713 TT
1 TT
4078715 GTATGTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (20 bp):
TTAAAATAATAATTTATCAA
Found at i:4079618 original size:20 final size:20
Alignment explanation
Indices: 4079593--4079643 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
4079583 TGGAGCGTGG
4079593 GGGGAATCGGTACCCCTCAT
1 GGGGAATCGGTACCCCTCAT
4079613 GGGGAATCGGTACCCCTCAT
1 GGGGAATCGGTACCCCTCAT
4079633 GGGGAATCGGT
1 GGGGAATCGGT
4079644 TCCCTAAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.25, G:0.35, T:0.20
Consensus pattern (20 bp):
GGGGAATCGGTACCCCTCAT
Found at i:4082029 original size:23 final size:22
Alignment explanation
Indices: 4081980--4082060 Score: 64
Period size: 23 Copynumber: 3.8 Consensus size: 22
4081970 AGAACCCATT
*
4081980 GGGGGTATCGATTCCC-TC-AA
1 GGGGGAATCGATTCCCTTCAAA
4082000 GGAGGGAATCGATTCCCATTCAAA
1 GG-GGGAATCGATTCCC-TTCAAA
* *
4082024 GGGGGAATGGGTTCCCCTTC-AA
1 GGGGGAATCGATT-CCCTTCAAA
*
4082046 --GGGTATCGATTCCCT
1 GGGGGAATCGATTCCCT
4082061 CTGCCCTATA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
19 4 0.08
20 10 0.20
21 13 0.26
22 2 0.04
23 14 0.28
24 7 0.14
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (22 bp):
GGGGGAATCGATTCCCTTCAAA
Found at i:4088277 original size:199 final size:199
Alignment explanation
Indices: 4087922--4089000 Score: 1236
Period size: 199 Copynumber: 5.4 Consensus size: 199
4087912 TGGAAAATTA
* * * * * *
4087922 TTGTAATTTATAAGATTAGAGGGGCAGTATTGCAACTAATCTTTCATTTGAGGATAATATCATCA
1 TTGTAATTTTTAAGCTTAGAGGCGTAGTATTGCAACTTATCTTTCATTTGAGGATAATATCAGCA
* * *
4087987 CATACAAGACATTGTAAGCGAGGTAAAAATCTCGTTGAAAATGATTCCAAAGCTTGGTTTTGTGC
66 CATACAAGACATTGTAAGCGGGGTAAAAATCACGTTGAAAATGGTTCCAAAGCTTGGTTTTGTGC
** * * *
4088052 ATGAAGAACAAGCTAAAATGGCTTGATAGTTATGTTCGAGGGGTATTTATGGGAAGTCAATCAAT
131 ATGAAGAACAAGCTAAAATGGCTTGATAGGCATGTTCGAGGGGTATTTCTGGGAAGTTAATCAAA
4088117 TTTT
196 TTTT
* * *
4088121 TTGTAAGTTTTAAGCTTAGAGGTGTAGTATTGCAACTTATCTTTCATTTGAGGATAATATCAACA
1 TTGTAATTTTTAAGCTTAGAGGCGTAGTATTGCAACTTATCTTTCATTTGAGGATAATATCAGCA
* * * *
4088186 CATACAAGACATTGTAAGCGGGGTAAAATTCGCGTTGAAAATGGTTCCAAAGCTTAGTTTTATGC
66 CATACAAGACATTGTAAGCGGGGTAAAAATCACGTTGAAAATGGTTCCAAAGCTTGGTTTTGTGC
* ** *
4088251 ATGAAGAACAAGCTAAAATGGCTTGATAGGCCTGTTCGAGGGGTATTTCTATGAAGTCAATCAAA
131 ATGAAGAACAAGCTAAAATGGCTTGATAGGCATGTTCGAGGGGTATTTCTGGGAAGTTAATC--A
***
4088316 AAAAAT
194 AATTTT
* * *
4088322 TTGTAATTTTTAAGC-TAGAGGCGTAGTATTGCAACTTATATTTCATTTGATGTTAATATCAGCA
1 TTGTAATTTTTAAGCTTAGAGGCGTAGTATTGCAACTTATCTTTCATTTGAGGATAATATCAGCA
** * * * * * *
4088386 CATATGATAAATTGTAAGC-GGGAAAAAATAACATTGAAAATGGTTTCAAAGCTTGGTTTTGTGC
66 CATACAAGACATTGTAAGCGGGGTAAAAATCACGTTGAAAATGGTTCCAAAGCTTGGTTTTGTGC
* ** * * * *
4088450 ATGAAGAACAATCTAAAATGGCTTGATAGGCATGTTCGAATGGTATTT-TACGAAACTTAATCGA
131 ATGAAGAACAAGCTAAAATGGCTTGATAGGCATGTTCGAGGGGTATTTCT-GGGAAGTTAATCAA
*
4088514 TTTTT
195 ATTTT
* *
4088519 TTGTAATTTTTAAGCTTAGAGGCGTAGTATTGCAAATTATCTTTCATTTGAGGGTAATATCAGCA
1 TTGTAATTTTTAAGCTTAGAGGCGTAGTATTGCAACTTATCTTTCATTTGAGGATAATATCAGCA
* * * * * * * * *
4088584 CATACGAGATAATATAAGTGGAGTAAAAATCACGTTGAAAATGGTTCTATAGCTTGGTCTTGTGC
66 CATACAAGACATTGTAAGCGGGGTAAAAATCACGTTGAAAATGGTTCCAAAGCTTGGTTTTGTGC
* * * * * *
4088649 ATGAAGAACAAGCTAAAATGGCTTAATAGGCATTTTCGATGGTTATTTCTGAGAATTTAATCGAA
131 ATGAAGAACAAGCTAAAATGGCTTGATAGGCATGTTCGAGGGGTATTTCTGGGAAGTTAATC--A
*
4088714 AATGTT
194 AATTTT
* * * *
4088720 TTGTAATTTTTAAGCTTAGAGGCGTAGTATTACAACTTATCTTTTATTT-AAGAGTAATATCAGT
1 TTGTAATTTTTAAGCTTAGAGGCGTAGTATTGCAACTTATCTTTCATTTGAGGA-TAATATCAGC
* * ** * ** * *
4088784 ATAAATGAGACATTGTAAGCTGTATAAAAATCGCGTTGAAAATGGTTTCAAAGCTTGGTTTTGTG
65 ACATACAAGACATTGTAAGCGGGGTAAAAATCACGTTGAAAATGGTTCCAAAGCTTGGTTTTGTG
* * ** *
4088849 CATGAAGAACAAACTAAAATGGCTTGATATGCATGTTTAAGGGGTATTCCTGGGAAGTTAATCAA
130 CATGAAGAACAAGCTAAAATGGCTTGATAGGCATGTTCGAGGGGTATTTCTGGGAAGTTAATCAA
4088914 ATTTT
195 ATTTT
* ** *
4088919 TCGTAA-TTTTAAG-TATAGAGTTGTAGTATTGCAACTTATATTTCATTTGAAGG-TAATATCAG
1 TTGTAATTTTTAAGCT-TAGAGGCGTAGTATTGCAACTTATCTTTCATTTG-AGGATAATATCAG
* *
4088981 CACATATAAGACATTATAAG
64 CACATACAAGACATTGTAAG
4089001 TGGTTGTAAC
Statistics
Matches: 737, Mismatches: 131, Indels: 25
0.83 0.15 0.03
Matches are distributed among these distances:
197 18 0.02
198 118 0.16
199 359 0.49
200 64 0.09
201 178 0.24
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (199 bp):
TTGTAATTTTTAAGCTTAGAGGCGTAGTATTGCAACTTATCTTTCATTTGAGGATAATATCAGCA
CATACAAGACATTGTAAGCGGGGTAAAAATCACGTTGAAAATGGTTCCAAAGCTTGGTTTTGTGC
ATGAAGAACAAGCTAAAATGGCTTGATAGGCATGTTCGAGGGGTATTTCTGGGAAGTTAATCAAA
TTTT
Found at i:4092567 original size:22 final size:21
Alignment explanation
Indices: 4092534--4092575 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
4092524 TTATTAAGCA
4092534 TAATAAATTATTATTGAAATAT
1 TAATAAATTATTATT-AAATAT
*
4092556 TAAT-AATGTATTGTTAAATA
1 TAATAAAT-TATTATTAAATA
4092576 AATATTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (21 bp):
TAATAAATTATTATTAAATAT
Found at i:4092663 original size:18 final size:20
Alignment explanation
Indices: 4092629--4092671 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
4092619 ATAGTTGAAC
*
4092629 TATATTCAATTTTTAAGAT-
1 TATATTCAATCTTTAAGATA
4092648 TATATTCAA-CTTTAAGATA
1 TATATTCAATCTTTAAGATA
4092667 TATAT
1 TATAT
4092672 ATATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.49
Consensus pattern (20 bp):
TATATTCAATCTTTAAGATA
Found at i:4092671 original size:2 final size:2
Alignment explanation
Indices: 4092664--4092728 Score: 105
Period size: 2 Copynumber: 32.5 Consensus size: 2
4092654 CAACTTTAAG
4092664 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
4092706 AT AT -T AT AGT AA AT AT AT AT AT A
1 AT AT AT AT A-T AT AT AT AT AT AT A
4092729 GAACACGAGG
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.02
2 56 0.95
3 2 0.03
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4093065 original size:112 final size:110
Alignment explanation
Indices: 4092870--4093074 Score: 284
Period size: 112 Copynumber: 1.8 Consensus size: 110
4092860 TTTCAAAACC
* * * *
4092870 ATAAGTGATTTTTTGCTATTGCATTTGTAGTTTTAAAACACCTAATGAAGTTTTCAAAACTAGAA
1 ATAAGTGATTTTTTGCTACTGCATCTGTAGTTTTAAAACACCTAATGAAGATTTCAAAACCAGAA
4092935 ACAAATTTTTGACTTTTACTATTTTTTTTTCATTTGTTTGATACT
66 ACAAATTTTTGACTTTTACTATTTTTTTTTCATTTGTTTGATACT
* * * * * *
4092980 ATAAGTGATTTTTTTGCTACTGCCTCTGTGGTTTCTAAACCACCTAATGAGGATTTCGAAACCAT
1 ATAAGTGA-TTTTTTGCTACTGCATCTGTAGTTT-TAAAACACCTAATGAAGATTTCAAAACCAG
* *
4093045 AAACAATTTTTTTACTTTTACTATTTTTTT
64 AAACAAATTTTTGACTTTTACTATTTTTTT
4093075 ATATTTTATT
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
110 8 0.10
111 21 0.26
112 52 0.64
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.47
Consensus pattern (110 bp):
ATAAGTGATTTTTTGCTACTGCATCTGTAGTTTTAAAACACCTAATGAAGATTTCAAAACCAGAA
ACAAATTTTTGACTTTTACTATTTTTTTTTCATTTGTTTGATACT
Found at i:4094360 original size:18 final size:18
Alignment explanation
Indices: 4094329--4094363 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4094319 AATATTATTA
* *
4094329 TTTTTCATATTATAAATT
1 TTTTTAATAATATAAATT
4094347 TTTTTAATAATATAAAT
1 TTTTTAATAATATAAAT
4094364 ATAAAATTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTAATAATATAAATT
Found at i:4095643 original size:18 final size:20
Alignment explanation
Indices: 4095616--4095686 Score: 67
Period size: 21 Copynumber: 3.6 Consensus size: 20
4095606 ATATATTTTT
*
4095616 AGTATTGATACTCAT-GG-G
1 AGTATCGATACTCATAGGAG
4095634 AGTATCGATACT-ATAGGTAG
1 AGTATCGATACTCATAGG-AG
* *
4095654 AGTATCGATACTCCTAGTAGG
1 AGTATCGATACTCATAGGA-G
*
4095675 GGTATCGATACT
1 AGTATCGATACT
4095687 GAGGCATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
17 2 0.05
18 13 0.30
20 14 0.32
21 15 0.34
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (20 bp):
AGTATCGATACTCATAGGAG
Found at i:4095673 original size:20 final size:21
Alignment explanation
Indices: 4095632--4095686 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
4095622 GATACTCATG
4095632 GGAGTATCGATACTATAGGTA
1 GGAGTATCGATACTATAGGTA
*
4095653 -GAGTATCGATACTCCTA-GTA
1 GGAGTATCGATACT-ATAGGTA
*
4095673 GGGGTATCGATACT
1 GGAGTATCGATACT
4095687 GAGGCATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (21 bp):
GGAGTATCGATACTATAGGTA
Found at i:4102411 original size:18 final size:18
Alignment explanation
Indices: 4102388--4102432 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
4102378 ATTTTTGGTG
*
4102388 TCGATACTCGAGGTAGTA
1 TCGATACCCGAGGTAGTA
4102406 TCGATACCCGAGGTAGTA
1 TCGATACCCGAGGTAGTA
4102424 TCGATACCC
1 TCGATACCC
4102433 TCCCATGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (18 bp):
TCGATACCCGAGGTAGTA
Found at i:4104571 original size:30 final size:31
Alignment explanation
Indices: 4104489--4104577 Score: 83
Period size: 32 Copynumber: 2.9 Consensus size: 31
4104479 AAAAAATAGA
* * *
4104489 TTTTTAAATAAGGATGTTTTTTAATTATAAT
1 TTTTTAATTAAGGATATTTTTAAATTATAAT
** *
4104520 TTTTTAATTAGAATATATTTTTAAATTATGAT
1 TTTTTAATTA-AGGATATTTTTAAATTATAAT
*
4104552 TTTATT-ATTAAGGAT-TTTTTATATTA
1 TTT-TTAATTAAGGATATTTTTAAATTA
4104578 ATTTATGATT
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
30 10 0.21
31 12 0.26
32 23 0.49
33 2 0.04
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (31 bp):
TTTTTAATTAAGGATATTTTTAAATTATAAT
Found at i:4104576 original size:19 final size:19
Alignment explanation
Indices: 4104554--4104598 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
4104544 ATTATGATTT
4104554 TATTATTAAGGATTTTTTA
1 TATTATTAAGGATTTTTTA
* *
4104573 TATTAATTTATGATTTTTTA
1 TATT-ATTAAGGATTTTTTA
*
4104593 AATTAT
1 TATTAT
4104599 ATATATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (19 bp):
TATTATTAAGGATTTTTTA
Found at i:4104589 original size:20 final size:21
Alignment explanation
Indices: 4104564--4104615 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
4104554 TATTATTAAG
* *
4104564 GATTTTTTATATTA-ATTTAT
1 GATTTTTTAAATTATATATAT
4104584 GATTTTTTAAATTATATATAT
1 GATTTTTTAAATTATATATAT
4104605 -A-TTTTTAAATT
1 GATTTTTTAAATT
4104616 TTGTTCAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 10 0.34
20 14 0.48
21 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (21 bp):
GATTTTTTAAATTATATATAT
Found at i:4106097 original size:30 final size:29
Alignment explanation
Indices: 4106046--4106118 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 29
4106036 TCAAAAGTAT
*
4106046 ATATTTTATCTTAATTTATTAAATATATA
1 ATATTTTATCTTAAATTATTAAATATATA
* *
4106075 ATATTATTATTTTAAATTATTAAATATATT
1 ATATT-TTATCTTAAATTATTAAATATATA
*
4106105 TTATTCTTATCTTA
1 ATATT-TTATCTTA
4106119 CTTTCAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 5 0.14
30 32 0.86
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (29 bp):
ATATTTTATCTTAAATTATTAAATATATA
Found at i:4117143 original size:302 final size:303
Alignment explanation
Indices: 4116597--4117202 Score: 1205
Period size: 302 Copynumber: 2.0 Consensus size: 303
4116587 AAGTTTTAAG
4116597 GGTTTAGAGCGAAATTTAAAAGAGTTTGTTGCAACGGTGCAACCCCCAGCTCTAAGCATCAATCT
1 GGTTTAGAGCGAAATTTAAAAGAGTTTGTTGCAACGGTGCAACCCCCAGCTCTAAGCATCAATCT
4116662 GTTGGGTCAAACAGGTCACCATCGCTTCTGTTTTAATTTTCTTCTTCTTAAAGTTAAACCACCAG
66 GTTGGGTCAAACAGGTCACCATCGCTTCTGTTTTAATTTTCTTCTTCTTAAAGTTAAACCACCAG
4116727 AGGTTTTTCATGGCTAATTCTAAATCAATTTTGGTAATTCGGGTAAAATATATATTGATAGTGCA
131 AGGTTTTTCATGGCTAATTCTAAATCAATTTTGGTAATTCGGGTAAAATATATATTGATAGTGCA
4116792 ACGTGGAAAGTGAGCCTTAAGAGAGATCAACATCATAATGCAATACAAATGAACAATTACGAC-A
196 ACGTGGAAAGTGAGCCTTAAGAGAGATCAACATCATAATGCAATACAAATGAACAATTACGACAA
4116856 TGATATTCGGATGCCCTAACCGCTTTACTTACATCACCATGTT
261 TGATATTCGGATGCCCTAACCGCTTTACTTACATCACCATGTT
4116899 GGTTTAGAGCGAAATTTAAAAGAGTTTGTTGCAACGGTGCAACCCCCAGCTCTAAGCATCAATCT
1 GGTTTAGAGCGAAATTTAAAAGAGTTTGTTGCAACGGTGCAACCCCCAGCTCTAAGCATCAATCT
4116964 GTTGGGTCAAACAGGTCACCATCGCTTCTGTTTTAATTTTCTTCTTCTTAAAGTTAAACCACCAG
66 GTTGGGTCAAACAGGTCACCATCGCTTCTGTTTTAATTTTCTTCTTCTTAAAGTTAAACCACCAG
4117029 AGGTTTTTCATGGCTAATTCTAAATCAATTTTGGTAATTCGGGTAAAATATATATTGATAGTGCA
131 AGGTTTTTCATGGCTAATTCTAAATCAATTTTGGTAATTCGGGTAAAATATATATTGATAGTGCA
4117094 ACGTGGAAAGTGAGCCTTAAGAGAGATCAACATCATAATGCAATACAAATGAACAATTACGACAA
196 ACGTGGAAAGTGAGCCTTAAGAGAGATCAACATCATAATGCAATACAAATGAACAATTACGACAA
4117159 TGATATTCGGATGCCCTAACCGCTTTACTTACATCACCATGTT
261 TGATATTCGGATGCCCTAACCGCTTTACTTACATCACCATGTT
4117202 G
1 G
4117203 AATCTTAACC
Statistics
Matches: 303, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
302 258 0.85
303 45 0.15
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (303 bp):
GGTTTAGAGCGAAATTTAAAAGAGTTTGTTGCAACGGTGCAACCCCCAGCTCTAAGCATCAATCT
GTTGGGTCAAACAGGTCACCATCGCTTCTGTTTTAATTTTCTTCTTCTTAAAGTTAAACCACCAG
AGGTTTTTCATGGCTAATTCTAAATCAATTTTGGTAATTCGGGTAAAATATATATTGATAGTGCA
ACGTGGAAAGTGAGCCTTAAGAGAGATCAACATCATAATGCAATACAAATGAACAATTACGACAA
TGATATTCGGATGCCCTAACCGCTTTACTTACATCACCATGTT
Found at i:4117412 original size:34 final size:34
Alignment explanation
Indices: 4117369--4117487 Score: 229
Period size: 34 Copynumber: 3.5 Consensus size: 34
4117359 ATTATATATA
*
4117369 TATATATATAATATTTTATATTTTTCATATTAAT
1 TATATATATAATATTTTATATTTTTTATATTAAT
4117403 TATATATATAATATTTTATATTTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTTATATTAAT
4117437 TATATATATAATATTTTATATTTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTTATATTAAT
4117471 TATATATATAATATTTT
1 TATATATATAATATTTT
4117488 CGGGTTTGGG
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
34 84 1.00
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.61
Consensus pattern (34 bp):
TATATATATAATATTTTATATTTTTTATATTAAT
Found at i:4117996 original size:22 final size:22
Alignment explanation
Indices: 4117966--4118019 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
4117956 ATTAATTCAA
4117966 ATTAGTTGATTAGTAAATCATAT
1 ATTA-TTGATTAGTAAATCATAT
4117989 ATTATTGATTAGTAAATCATAT
1 ATTATTGATTAGTAAATCATAT
*
4118011 ACTATTGAT
1 ATTATTGAT
4118020 CATAAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (22 bp):
ATTATTGATTAGTAAATCATAT
Found at i:4131407 original size:3 final size:3
Alignment explanation
Indices: 4131399--4131458 Score: 93
Period size: 3 Copynumber: 19.7 Consensus size: 3
4131389 CGTTTTAGTT
* *
4131399 TTA TTA TTA ATA ATA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4131445 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
4131459 TGTGTTTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
3 52 0.96
4 2 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:4131904 original size:22 final size:23
Alignment explanation
Indices: 4131850--4131902 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 23
4131840 CTCGGTTTTT
*
4131850 AAAAAAA-AGAACAATCGAAAGAA
1 AAAAAAAGAGAACAACCGAAAG-A
*
4131873 AAAAAGAAGAGAATAACCGAAAGA
1 AAAAA-AAGAGAACAACCGAAAGA
4131897 AAAAAA
1 AAAAAA
4131903 GATTAGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 6 0.23
24 8 0.31
25 12 0.46
ACGTcount: A:0.74, C:0.08, G:0.15, T:0.04
Consensus pattern (23 bp):
AAAAAAAGAGAACAACCGAAAGA
Found at i:4132820 original size:36 final size:33
Alignment explanation
Indices: 4132734--4132822 Score: 88
Period size: 36 Copynumber: 2.5 Consensus size: 33
4132724 GAAATATATG
* * *
4132734 ATTTTGTATAAATATATTTAATTTATTTATCTT
1 ATTTTGTATATATATATTTAATTTATGTATCAT
*
4132767 ATTTTTTTACTACTATATATTTAATTATATGTATACAT
1 A-TTTTGTA-TA-TATATATTTAATT-TATGTAT-CAT
4132805 ATTTTGTATTATATATAT
1 ATTTTGTA-TATATATAT
4132823 AATATAATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
33 1 0.02
34 6 0.13
35 2 0.04
36 19 0.42
37 14 0.31
38 3 0.07
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.58
Consensus pattern (33 bp):
ATTTTGTATATATATATTTAATTTATGTATCAT
Found at i:4133730 original size:129 final size:130
Alignment explanation
Indices: 4133499--4133853 Score: 457
Period size: 129 Copynumber: 2.7 Consensus size: 130
4133489 TGTGAATAGT
* *
4133499 TATATCTTTTTATTTCGGTTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTCT
1 TATATCTCTTTATTTTGGTTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTCT
* * * *
4133564 CGATTGGAAATAATTTA-ATATTACCATTTTCTCTCGAATTAATATTGA-TTTTAAGAGGGAATA
66 CGATTGGAAATAA-TTAGATATTATCATTTTCACTCGAATCAATATTGATTTTTAAGA-CGAA-A
4133627 T-G
128 TGG
* * *
4133629 -ATATCTCTTTATTTTGATTGGAGCAATAAATGACTGCTTTAAGGTATGAGAGGTCATTTATTCT
1 TATATCTCTTTATTTTGGTTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTCT
* * *
4133693 CGATTGGAAATCATCAGATATTATCATTTTCACTCGAATCAATATTTATTTTTAAGACGAAATGG
66 CGATTGGAAATAATTAGATATTATCATTTTCACTCGAATCAATATTGATTTTTAAGACGAAATGG
* * ** * * *
4133758 TATTATCTCTTCATTTTGGTTGTAGTAATAAATGACTATTTTAAGGCATGAAATGTCAATTATTC
1 TA-TATCTCTTTATTTTGGTTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTC
* *
4133823 TTGATTAGAAATAATTAGATATTATCATTTT
65 TCGATTGGAAATAATTAGATATTATCATTTT
4133854 GCCTCTTAAA
Statistics
Matches: 194, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
128 4 0.02
129 102 0.53
130 9 0.05
131 79 0.41
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (130 bp):
TATATCTCTTTATTTTGGTTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTCT
CGATTGGAAATAATTAGATATTATCATTTTCACTCGAATCAATATTGATTTTTAAGACGAAATGG
Found at i:4137467 original size:19 final size:19
Alignment explanation
Indices: 4137440--4137483 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
4137430 TTTTAATTGC
* *
4137440 GAAAATTAAAAGTTAAATT
1 GAAATTTAAAAATTAAATT
*
4137459 GAAATTTAAAAATTCAATT
1 GAAATTTAAAAATTAAATT
*
4137478 CAAATT
1 GAAATT
4137484 ATTTACCTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (19 bp):
GAAATTTAAAAATTAAATT
Found at i:4137609 original size:18 final size:18
Alignment explanation
Indices: 4137573--4137619 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
4137563 GAGAGAGAAA
4137573 AAAAATAAATTAAGAAAAT
1 AAAAATAAA-TAAGAAAAT
4137592 AAAAATAAATAA-ATAAAT
1 AAAAATAAATAAGA-AAAT
*
4137610 AAATATAAAT
1 AAAAATAAAT
4137620 TTAAAGGATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 16 0.62
19 9 0.35
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (18 bp):
AAAAATAAATAAGAAAAT
Found at i:4138901 original size:16 final size:14
Alignment explanation
Indices: 4138870--4139008 Score: 64
Period size: 14 Copynumber: 10.3 Consensus size: 14
4138860 CCAAATAAAA
*
4138870 AATAAAATTAATAT
1 AATAAAAATAATAT
4138884 AATAAAAATAATA-
1 AATAAAAATAATAT
*
4138897 CATAATAAAT-ATAT
1 AATAA-AAATAATAT
*
4138911 -ATAAATATAATAT
1 AATAAAAATAATAT
* * *
4138924 TATAATATATGATAT
1 AATAA-AAATAATAT
*
4138939 AAT--ATATAGATAT
1 AATAAAAATA-ATAT
*
4138952 -A-AATAATAATAT
1 AATAAAAATAATAT
* *
4138964 AAATAATATTAATAT
1 -AATAAAAATAATAT
*
4138979 AAT-ATAAT-ATAT
1 AATAAAAATAATAT
4138991 AATAAAAACT-ATAT
1 AATAAAAA-TAATAT
4139005 AATA
1 AATA
4139009 TTATATTTTC
Statistics
Matches: 101, Mismatches: 11, Indels: 26
0.73 0.08 0.19
Matches are distributed among these distances:
12 19 0.19
13 29 0.29
14 33 0.33
15 20 0.20
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (14 bp):
AATAAAAATAATAT
Found at i:4138914 original size:10 final size:10
Alignment explanation
Indices: 4138901--4139006 Score: 69
Period size: 10 Copynumber: 10.4 Consensus size: 10
4138891 ATAATACATA
4138901 ATAAATATAT
1 ATAAATATAT
4138911 ATAAATATAAT
1 ATAAATAT-AT
4138922 ATTATAATATAT
1 A-TA-AATATAT
*
4138934 GATATA-ATAT
1 -ATAAATATAT
* *
4138944 ATAGATATAA
1 ATAAATATAT
4138954 AT-AATA-AT
1 ATAAATATAT
4138962 ATAAATA-AT
1 ATAAATATAT
*
4138971 ATTAATATA-
1 ATAAATATAT
4138980 ATATAATATAT
1 ATA-AATATAT
*
4138991 AATAAAAACTAT
1 -ATAAATA-TAT
4139003 ATAA
1 ATAA
4139007 TATTATATTT
Statistics
Matches: 77, Mismatches: 8, Indels: 21
0.73 0.08 0.20
Matches are distributed among these distances:
8 3 0.04
9 21 0.27
10 24 0.31
11 11 0.14
12 12 0.16
13 6 0.08
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (10 bp):
ATAAATATAT
Found at i:4138919 original size:35 final size:32
Alignment explanation
Indices: 4138904--4139008 Score: 68
Period size: 32 Copynumber: 2.9 Consensus size: 32
4138894 ATACATAATA
*
4138904 AATATATATAAATATAATATTATAATATATGATATAAT
1 AATA-ATATAAATATAATA--AAAATA-AT-A-ATAAT
* *
4138942 ATATAGATATAAATAATAATATAAATAATATTAAT
1 A-ATA-ATATAAAT-ATAATAAAAATAATAATAAT
4138977 -ATAATATAATATATAATAAAAACTATATAATA
1 AATAATATAA-ATATAATAAAAA-TA-ATAATA
4139009 TTATATTTTC
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
32 15 0.27
33 7 0.12
34 5 0.09
35 4 0.07
36 1 0.02
37 2 0.04
38 5 0.09
39 11 0.20
40 6 0.11
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (32 bp):
AATAATATAAATATAATAAAAATAATAATAAT
Found at i:4138933 original size:25 final size:25
Alignment explanation
Indices: 4138880--4139009 Score: 100
Period size: 26 Copynumber: 5.4 Consensus size: 25
4138870 AATAAAATTA
*
4138880 ATATAATA-AAA-ATAATACATAAT
1 ATATAATATAAATATAATATATAAT
*
4138903 AAATATATATAAATATAATATTATAAT
1 ATATA-ATATAAATATAATA-TATAAT
*
4138930 ATATGATATAATATATAGATATA-AAT
1 ATATAATATAA-ATATA-ATATATAAT
4138956 A-ATAATAT-AA-ATAATAT-T-A-
1 ATATAATATAAATATAATATATAAT
*
4138975 ATATAATATAATATATAATA-AAAACT
1 ATATAATATAA-ATATAATATATAA-T
4139001 ATATAATAT
1 ATATAATAT
4139010 TATATTTTCG
Statistics
Matches: 86, Mismatches: 6, Indels: 27
0.72 0.05 0.23
Matches are distributed among these distances:
19 1 0.01
20 8 0.09
21 5 0.06
22 4 0.05
23 11 0.13
24 5 0.06
25 9 0.10
26 25 0.29
27 15 0.17
28 3 0.03
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
ATATAATATAAATATAATATATAAT
Found at i:4138958 original size:37 final size:37
Alignment explanation
Indices: 4138898--4139009 Score: 102
Period size: 39 Copynumber: 2.8 Consensus size: 37
4138888 AAAATAATAC
* *
4138898 ATAATAAATATATATAAATATAATATTATAATATA-TGAT
1 ATAATATATATATAT-AA-ATAATA-TATAATATATTAAT
*
4138937 ATAATATATAGATATAAATAATAATATAAATAATATTAAT
1 ATAATATATATATATAAATAAT-ATAT-AAT-ATATTAAT
4138977 ATAATATAATATATAATAAA-AACTATATAATAT
1 ATAATAT-ATATAT-ATAAATAA-TATATAATAT
4139010 TATATTTTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 14
0.77 0.05 0.17
Matches are distributed among these distances:
37 8 0.13
38 6 0.10
39 18 0.29
40 13 0.21
41 11 0.18
42 6 0.10
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (37 bp):
ATAATATATATATATAAATAATATATAATATATTAAT
Found at i:4139010 original size:37 final size:37
Alignment explanation
Indices: 4138880--4139011 Score: 102
Period size: 37 Copynumber: 3.7 Consensus size: 37
4138870 AATAAAATTA
*
4138880 ATATAATAAAA-ATA-ATACATAATAA-ATATATATAA-
1 ATATAATAAAATATATATA-ATATTAATATA-ATATAAT
** * *
4138915 ATATAATATTATAATATATGATA-TAATAT-ATA-GAT
1 ATATAATAAAAT-ATATATAATATTAATATAATATAAT
*
4138950 ATA-AATAATAATATAAATAATATTAATATAATATAAT
1 ATATAATAA-AATATATATAATATTAATATAATATAAT
4138987 ATATAATAAAA-ACTATATAATATTA
1 ATATAATAAAATA-TATATAATATTA
4139012 TATTTTCGAA
Statistics
Matches: 76, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
34 13 0.17
35 23 0.30
36 7 0.09
37 26 0.34
38 7 0.09
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (37 bp):
ATATAATAAAATATATATAATATTAATATAATATAAT
Found at i:4139099 original size:21 final size:21
Alignment explanation
Indices: 4139074--4139131 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
4139064 AAAGCAATCG
*
4139074 TTTTAAAAAAATTATATATGT
1 TTTTAAAAAAATTATATACGT
*
4139095 TTTTAAAACTATATTATATACGT
1 TTTTAAAA--AAATTATATACGT
*
4139118 TTTCAAAAATAATT
1 TTTTAAAAA-AATT
4139132 TTTTAAAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
21 9 0.30
22 3 0.10
23 18 0.60
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (21 bp):
TTTTAAAAAAATTATATACGT
Found at i:4139160 original size:38 final size:37
Alignment explanation
Indices: 4139094--4139226 Score: 125
Period size: 37 Copynumber: 3.6 Consensus size: 37
4139084 ATTATATATG
4139094 TTTTTAAAACTAT--ATTATATACGTTTTCAAAAATAAT
1 TTTTTAAAACTATGCATTATAT--GTTTTCAAAAATAAT
* *
4139131 TTTTTAAAAACTATGCATTATATGCTTTCAAAAA-ACGT
1 TTTTT-AAAACTATGCATTATATGTTTTCAAAAATA-AT
* **
4139169 TTTCTAAAACTATATATTATATGTTTTCAAAACAT-AT
1 TTTTTAAAACTATGCATTATATGTTTTCAAAA-ATAAT
4139206 TTTTTAAAA--ACTGCATTATAT
1 TTTTTAAAACTA-TGCATTATAT
4139227 TATAGTAAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
35 1 0.01
36 8 0.10
37 39 0.49
38 24 0.30
40 7 0.09
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.44
Consensus pattern (37 bp):
TTTTTAAAACTATGCATTATATGTTTTCAAAAATAAT
Found at i:4155191 original size:5 final size:5
Alignment explanation
Indices: 4155181--4155823 Score: 1013
Period size: 5 Copynumber: 131.0 Consensus size: 5
4155171 ACCTGGACCA
4155181 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT -ATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
4155230 AA-AT AATAT AATAT AATAT AATA- AATAT -A-AT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
4155276 AATAT AA-AT AATAT AATAT -ATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
4155324 AATAT AATAT AATAT AATAT AA-AT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
* * *
4155373 AATAT AATAT AATAT AATAT AATATCT AATCT AATCT AATAT AATCT AATAT
1 AATAT AATAT AATAT AATAT AATA--T AATAT AATAT AATAT AATAT AATAT
*
4155425 AATAT AATCT AATAT AATAT AATAAT AAATAT AATAT AATAT -ATAT AATAT
1 AATAT AATAT AATAT AATAT AAT-AT -AATAT AATAT AATAT AATAT AATAT
4155476 AATATAT AATAT AATAT -ATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 -A-ATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
4155527 AATAT AATAT AATAT AATAT AATAT AATAT AAT-T AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
4155576 AATAT AATAT AATAT AATAT AATAT -ATAT -ATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
4155624 -ATAT AATAT AATAT AATAT AA-AT AATAT -ATAT AATAT AAATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT -AATAT AATAT
4155672 AATAT -A-AT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
4155720 AATAT -ATAT AATAT AATAT -ATAT AATAT AATAAT ATATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AAT-AT A-ATAT AATAT AATAT
*
4155770 AATAT AATAT -ATAT AATAT AATAT AATAT AATAT AATAT AATAT TATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
4155819 AATAT
1 AATAT
4155824 TTTCGGAAAT
Statistics
Matches: 601, Mismatches: 8, Indels: 58
0.90 0.01 0.09
Matches are distributed among these distances:
3 4 0.01
4 72 0.12
5 495 0.82
6 17 0.03
7 13 0.02
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:4155886 original size:37 final size:37
Alignment explanation
Indices: 4155835--4156086 Score: 198
Period size: 38 Copynumber: 6.8 Consensus size: 37
4155825 TTCGGAAATA
4155835 ATATGTTTTC-AAAATATATTTTTAAAACTATATTAT
1 ATATGTTTTCAAAAATATATTTTTAAAACTATATTAT
* * **
4155871 ATACGTTTTTAAAAAT-CGTTTTTAAAACTATATATATT
1 ATATGTTTTCAAAAATATATTTTTAAAACTATAT-TA-T
* * * * *
4155909 ATACGTTTTCAAAAATGTGTTTTCAAAACTATATAAT
1 ATATGTTTTCAAAAATATATTTTTAAAACTATATTAT
* * *
4155946 ATATGTTTTCAAAAACT-TATTTTCAGAACCATATTAT
1 ATATGTTTTCAAAAA-TATATTTTTAAAACTATATTAT
*
4155983 ATA--TTTTCAAAAACTGATTTTTTTTAAAAACTATA-TAT
1 ATATGTTTTCAAAAA-T-A-TATTTTT-AAAACTATATTAT
* *
4156021 CATATGCTTTCAAAAA-ATGTTTTCTAAAAACTATA-TATT
1 -ATATGTTTTCAAAAATATATTTT-T-AAAACTATATTA-T
*
4156060 ATATGTTTTC-AAAACATATTTTTAAAA
1 ATATGTTTTCAAAAATATATTTTTAAAA
4156087 ACTTCATTAT
Statistics
Matches: 180, Mismatches: 21, Indels: 30
0.78 0.09 0.13
Matches are distributed among these distances:
35 12 0.07
36 27 0.15
37 51 0.28
38 55 0.31
39 26 0.14
41 9 0.05
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.45
Consensus pattern (37 bp):
ATATGTTTTCAAAAATATATTTTTAAAACTATATTAT
Found at i:4155914 original size:38 final size:36
Alignment explanation
Indices: 4155839--4156086 Score: 190
Period size: 37 Copynumber: 6.6 Consensus size: 36
4155829 GAAATAATAT
*
4155839 GTTTTCAAAATATATTTTTAAAACTATAT-TATATAC
1 GTTTTCAAAA-ATGTTTTTAAAACTATATATATATAC
*
4155875 GTTTTTAAAAATCGTTTTTAAAACTATATATATTATAC
1 GTTTTCAAAAAT-GTTTTTAAAACTATATATA-TATAC
*
4155913 GTTTTCAAAAATGTGTTTTCAAAACTATATA-ATATAT
1 GTTTTCAAAAATGT-TTTT-AAAACTATATATATATAC
* *
4155950 GTTTTCAAAAACT-TATTTTCAGAACCATAT-TATATA-
1 GTTTTCAAAAA-TGT-TTTT-AAAACTATATATATATAC
4155986 -TTTTCAAAAACTGATTTTTTTTAAAAACTATATATCATAT--
1 GTTTTCAAAAA-TG----TTTTT-AAAACTATATAT-ATATAC
* *
4156026 GCTTTCAAAAAATGTTTTCTAAAAACTATATAT-TATAT
1 GTTTTC-AAAAATGTTTT-T-AAAACTATATATATATAC
*
4156064 GTTTTCAAAACATATTTTTAAAA
1 GTTTTCAAAA-ATGTTTTTAAAA
4156087 ACTTCATTAT
Statistics
Matches: 179, Mismatches: 13, Indels: 40
0.77 0.06 0.17
Matches are distributed among these distances:
35 14 0.08
36 31 0.17
37 47 0.26
38 47 0.26
39 23 0.13
40 2 0.01
41 10 0.06
42 5 0.03
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.45
Consensus pattern (36 bp):
GTTTTCAAAAATGTTTTTAAAACTATATATATATAC
Found at i:4157747 original size:33 final size:32
Alignment explanation
Indices: 4157689--4157757 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 32
4157679 TACATCTATC
* *
4157689 TGAGTCACCAAAGTCATACCATTACCTCTCTT
1 TGAGACACCAAAATCATACCATTACCTCTCTT
4157721 TGAGACACTCAAAATCATACTC-TTACCTCTCTT
1 TGAGACAC-CAAAATCATAC-CATTACCTCTCTT
4157754 TGAG
1 TGAG
4157758 GCAATAAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 7 0.21
33 25 0.76
34 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (32 bp):
TGAGACACCAAAATCATACCATTACCTCTCTT
Found at i:4158499 original size:16 final size:16
Alignment explanation
Indices: 4158480--4158523 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
4158470 AGAAAACAAC
*
4158480 GAAGAGAAAAGTAAAA
1 GAAGAGAAAAGAAAAA
*
4158496 GAAGAGACAAGAAAAA
1 GAAGAGAAAAGAAAAA
*
4158512 AAAGA-AAAAGAA
1 GAAGAGAAAAGAA
4158524 CAAATCAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 6 0.25
16 18 0.75
ACGTcount: A:0.73, C:0.02, G:0.23, T:0.02
Consensus pattern (16 bp):
GAAGAGAAAAGAAAAA
Found at i:4160828 original size:3 final size:3
Alignment explanation
Indices: 4160809--4160885 Score: 136
Period size: 3 Copynumber: 25.7 Consensus size: 3
4160799 GGTTTTAGTT
* *
4160809 TTA TTA TTG TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4160857 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4160886 TGTGTTTTCA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:4163020 original size:130 final size:130
Alignment explanation
Indices: 4162774--4163026 Score: 339
Period size: 130 Copynumber: 1.9 Consensus size: 130
4162764 TTGATATTGT
* * * * *
4162774 GAATAGTAATATCTTTTTATTTCGGTTGGAGTAATAAATGACTACTTTAAGGCATGAGATGTCAT
1 GAATAGTAACATCTCTTTATTTCGATTGGAGCAATAAATGACTACTTTAAGGCATGAGAGGTCAT
* * *
4162839 TTATTCTCGATTGGAAATAATTCGATAGTACCATTTTCTCTCGAATTAATATTGATTTTAAGAGG
66 TTATTCTCGATTGGAAATAATTCAATAGTACCATTTTCACTCGAATCAATATTGATTTTAAGAGG
* *
4162904 GAATAGTGACATCTCTTTATTTCGATTGGAGCAATAAATGACTACTTTAAGGTATTG-GAGGTCA
1 GAATAGTAACATCTCTTTATTTCGATTGGAGCAATAAATGACTACTTTAAGGCA-TGAGAGGTCA
* * * * *
4162968 TTTATTCTCGATTGGAAATCA-TCAAATATTATCGTTTTCACTGGAATCAATATTGATTT
65 TTTATTCTCGATTGGAAATAATTC-AATAGTACCATTTTCACTCGAATCAATATTGATTT
4163027 ATTCTCAATT
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
129 2 0.02
130 102 0.96
131 2 0.02
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (130 bp):
GAATAGTAACATCTCTTTATTTCGATTGGAGCAATAAATGACTACTTTAAGGCATGAGAGGTCAT
TTATTCTCGATTGGAAATAATTCAATAGTACCATTTTCACTCGAATCAATATTGATTTTAAGAGG
Found at i:4164026 original size:3 final size:3
Alignment explanation
Indices: 4164020--4164050 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4164010 TGCACTATAT
4164020 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4164051 CCACTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4173608 original size:17 final size:19
Alignment explanation
Indices: 4173572--4173609 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
4173562 ACCCTAGTTA
*
4173572 AAATATATTATTTTTATTT
1 AAATATATTAATTTTATTT
4173591 AAATAT-TTAATTTT-TTT
1 AAATATATTAATTTTATTT
4173608 AA
1 AA
4173610 CAAAATTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 7 0.39
19 6 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
AAATATATTAATTTTATTT
Found at i:4177497 original size:18 final size:18
Alignment explanation
Indices: 4177474--4177527 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
4177464 ATATAAGACA
*
4177474 TATGTCCCGAATGACCAC
1 TATGTCCCGAAGGACCAC
4177492 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
*
4177510 TATGTTCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
4177528 GTAGACCCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.20
Consensus pattern (18 bp):
TATGTCCCGAAGGACCAC
Found at i:4178346 original size:24 final size:20
Alignment explanation
Indices: 4178292--4178349 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
4178282 TTCCCCTTGA
4178292 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
*
4178312 AATGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
4178335 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
4178350 CTACCCATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 16 0.50
22 1 0.03
23 3 0.09
24 12 0.38
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:4178414 original size:64 final size:63
Alignment explanation
Indices: 4178337--4178497 Score: 198
Period size: 64 Copynumber: 2.5 Consensus size: 63
4178327 TCTTTAACAT
* * * *
4178337 GTGCATCGATGCACTACCCATGCATCGATACACTAATCACCTTTGATGTTTTCA-TTTTAAGGGG
1 GTGCATCGATGCACT-CCTATGCATCGATACACTAATCACATTCGATGTTTCCATTTTTAA-GGG
* ** *
4178401 GTGCATCGATGCACTCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCATTTTTAATGG
1 GTGCATCGATGCACTCC-TATGCATCGATACACTAATCACATTCGATGTTTCCATTTTTAAGGG
*
4178465 GTGCATCGATGCACTTCTTATGCATCGATACAC
1 GTGCATCGATGCAC-TCCTATGCATCGATACAC
4178498 ACTGAATAAT
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
63 2 0.02
64 74 0.88
65 8 0.10
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTATGCATCGATACACTAATCACATTCGATGTTTCCATTTTTAAGGG
Found at i:4181020 original size:17 final size:17
Alignment explanation
Indices: 4180998--4181032 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4180988 TCTTGCTCCA
4180998 CATTGCTCTTTACTCTT
1 CATTGCTCTTTACTCTT
4181015 CATTGCTCTTTACTCTT
1 CATTGCTCTTTACTCTT
4181032 C
1 C
4181033 TCAAAACCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.31, G:0.06, T:0.51
Consensus pattern (17 bp):
CATTGCTCTTTACTCTT
Found at i:4181777 original size:18 final size:18
Alignment explanation
Indices: 4181754--4181802 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
4181744 ATATAAGACA
4181754 TATGTCCCGAAGGACAAC
1 TATGTCCCGAAGGACAAC
*
4181772 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACAAC
* *
4181790 TATATCCTGAAGG
1 TATGTCCCGAAGG
4181803 CCCGCGTAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (18 bp):
TATGTCCCGAAGGACAAC
Found at i:4182596 original size:20 final size:22
Alignment explanation
Indices: 4182571--4182628 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
4182561 TTTCCCTTGA
4182571 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
4182591 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
4182614 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
4182629 CTACCCATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 17 0.50
22 1 0.03
23 3 0.09
24 13 0.38
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:4182728 original size:64 final size:64
Alignment explanation
Indices: 4182616--4182753 Score: 163
Period size: 64 Copynumber: 2.2 Consensus size: 64
4182606 TCTTTAACAT
* * *
4182616 GTGCATCGATGCACTACCCATGCATCGATTCACTAATCACCTTCGATGTTTTCA-TTTTAAGGGG
1 GTGCATCGATGCACTACCCATGCATCGATGCACTAATCACATTCGATGTTTCCATTTTTAA-GGG
* *** * *
4182680 GTGCATCGATGCACT-CCTTATGCATCGATGCACTAATTGTATTTGATGTTTCCATTTTTAATGG
1 GTGCATCGATGCACTACC-CATGCATCGATGCACTAATCACATTCGATGTTTCCATTTTTAAGGG
4182744 GTGCATCGAT
1 GTGCATCGAT
4182754 ACACACTGAA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
63 2 0.03
64 55 0.87
65 6 0.10
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (64 bp):
GTGCATCGATGCACTACCCATGCATCGATGCACTAATCACATTCGATGTTTCCATTTTTAAGGG
Found at i:4185178 original size:21 final size:23
Alignment explanation
Indices: 4185134--4185184 Score: 70
Period size: 21 Copynumber: 2.3 Consensus size: 23
4185124 TGTATAATTA
*
4185134 TAAATTAGTTGAAAATTTAAAGG
1 TAAATTAGTTGAAAATTAAAAGG
*
4185157 TAAATT-GTTTAAAA-TAAAAGG
1 TAAATTAGTTGAAAATTAAAAGG
4185178 TAAATTA
1 TAAATTA
4185185 TACTAATGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 12 0.48
22 7 0.28
23 6 0.24
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.35
Consensus pattern (23 bp):
TAAATTAGTTGAAAATTAAAAGG
Found at i:4186476 original size:23 final size:23
Alignment explanation
Indices: 4186429--4186476 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
4186419 AATAACATAT
**
4186429 TAGGTACCGCTTATATAATGTAA
1 TAGGTACCGCTTATATAATAAAA
*
4186452 TAGGTAGCGCTTATATAATAAAA
1 TAGGTACCGCTTATATAATAAAA
4186475 TA
1 TA
4186477 TGTTAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (23 bp):
TAGGTACCGCTTATATAATAAAA
Found at i:4186533 original size:23 final size:23
Alignment explanation
Indices: 4186507--4186566 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
4186497 ATCAAACACA
* *
4186507 ATAACATAATAGGTATCGCTTAT
1 ATAATATAATAGGTAACGCTTAT
*
4186530 ATAATGTAATAGGTAACGCTTAT
1 ATAATATAATAGGTAACGCTTAT
*
4186553 ATAATAAAATAGGT
1 ATAATATAATAGGT
4186567 TAATTACTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.33
Consensus pattern (23 bp):
ATAATATAATAGGTAACGCTTAT
Found at i:4186550 original size:87 final size:87
Alignment explanation
Indices: 4186401--4186661 Score: 423
Period size: 87 Copynumber: 3.0 Consensus size: 87
4186391 TCATTTAACA
*
4186401 GGAAACATTATCAAGTACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAGCGCTTAT
1 GGAAACATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAGCGCTTAT
* *
4186466 ATAATAAAATATGTTAATTATT
66 ATAATAAAATAGGTTAATTACT
* * * *
4186488 GGAAACATTATCAAACACAATAACATAATAGGTATCGCTTATATAATGTAATAGGTAACGCTTAT
1 GGAAACATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAGCGCTTAT
4186553 ATAATAAAATAGGTTAATTACT
66 ATAATAAAATAGGTTAATTACT
* * *
4186575 GGAAACATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAGCGTTTAT
1 GGAAACATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAGCGCTTAT
*
4186640 ATATTAAAATAGGTTAATTACT
66 ATAATAAAATAGGTTAATTACT
4186662 TAATTTGTTA
Statistics
Matches: 160, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 160 1.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (87 bp):
GGAAACATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAGCGCTTAT
ATAATAAAATAGGTTAATTACT
Found at i:4186620 original size:23 final size:23
Alignment explanation
Indices: 4186594--4186642 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
4186584 ATCAAGCACA
*
4186594 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
4186617 ATAACGTAATAGGTAGCGTTTAT
1 ATAACATAATAGGTAGCGCTTAT
4186640 ATA
1 ATA
4186643 TTAAAATAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:4187383 original size:109 final size:110
Alignment explanation
Indices: 4187068--4187498 Score: 634
Period size: 111 Copynumber: 3.9 Consensus size: 110
4187058 CTATCGATAT
* * *
4187068 TTTACAATATAACAGGTAAAAATATAAC-AACCAATTTCATTATGACAAAACCGGTAAAATTTAC
1 TTTACAATATAACATGTAAAAATATAACAAACCAGTTTCATTATGACAAAAACGGTAAAATTTAC
* *
4187132 TTGATATGTTGAAAGTATCGATCCTTTTATAAAAATGATAGATAC
66 CTGATATGTTGAAAGTATCGATCCTTTTATAAAAATGATAAATAC
*
4187177 TTTACAATATAACA-GATAAAAATATAACAAAACCAGTTTCATAATGACAAAAACGGTAAAATTT
1 TTTACAATATAACATG-TAAAAATATAAC-AAACCAGTTTCATTATGACAAAAACGGTAAAATTT
* * *
4187241 ACTTAATATGTTGAAAATATCGATCCTTTTATAAAAATGATAAATAC
64 ACCTGATATGTTGAAAGTATCGATCCTTTTATAAAAATGATAAATAC
*
4187288 TTTACAATATAACATGTAAAAATATAAC-AATCAGTTTCATTATGACAAAAACGGTAAAATTTAC
1 TTTACAATATAACATGTAAAAATATAACAAACCAGTTTCATTATGACAAAAACGGTAAAATTTAC
* * *
4187352 CTGATATGTTGAAAGTTTCGATCATTTTATAAAAATGATTAATAC
66 CTGATATGTTGAAAGTATCGATCCTTTTATAAAAATGATAAATAC
* * *
4187397 TTTACAATATAACATGTAAAAATATGACAAAACTAGTTTCATTATGACAAAACCGGTAAAATTTA
1 TTTACAATATAACATGTAAAAATATAAC-AAACCAGTTTCATTATGACAAAAACGGTAAAATTTA
** *
4187462 CCTGATATGTTGAAAGTATAAATACTTTTTATAAAAA
65 CCTGATATGTTGAAAGTATCGAT-CCTTTTATAAAAA
4187499 AGATCGATAC
Statistics
Matches: 293, Mismatches: 22, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
108 1 0.00
109 126 0.43
111 153 0.52
112 13 0.04
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.33
Consensus pattern (110 bp):
TTTACAATATAACATGTAAAAATATAACAAACCAGTTTCATTATGACAAAAACGGTAAAATTTAC
CTGATATGTTGAAAGTATCGATCCTTTTATAAAAATGATAAATAC
Found at i:4187419 original size:220 final size:220
Alignment explanation
Indices: 4187034--4187476 Score: 676
Period size: 220 Copynumber: 2.0 Consensus size: 220
4187024 TAGCGCCTAT
* ** *
4187034 AAAATATCGATACTTTATAAAAATCTATCGATATTTTACAATATAACAGGTAAAAATATAACAAC
1 AAAATATCGATACTTTATAAAAATCGATAAATACTTTACAATATAACAGGTAAAAATATAACAAC
* * *
4187099 CAATTTCATTATGACAAAACCGGTAAAATTTACTTGATATGTTGAAAGTATCGATCCTTTTATAA
66 CAATTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAGTATCGATCATTTTATAA
4187164 AAATGATAGATACTTTACAATATAACAGATAAAAATATAACAAAACCAGTTTCATAATGACAAAA
131 AAATGATAGATACTTTACAATATAACAGATAAAAATATAACAAAACCAGTTTCATAATGACAAAA
*
4187229 ACGGTAAAATTTACTTAATATGTTG
196 ACGGTAAAATTTACCTAATATGTTG
* *
4187254 AAAATATCGATCCTTTTATAAAAAT-GATAAATACTTTACAATATAACATGTAAAAATATAACAA
1 AAAATATCGATAC-TTTATAAAAATCGATAAATACTTTACAATATAACAGGTAAAAATATAACAA
* * *
4187318 TCAGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAGTTTCGATCATTTTATA
65 CCAATTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAGTATCGATCATTTTATA
* * *
4187383 AAAATGATTA-ATACTTTACAATATAACATG-TAAAAATATGACAAAACTAGTTTCATTATGACA
130 AAAATGA-TAGATACTTTACAATATAACA-GATAAAAATATAACAAAACCAGTTTCATAATGACA
* *
4187446 AAACCGGTAAAATTTACCTGATATGTTG
193 AAAACGGTAAAATTTACCTAATATGTTG
4187474 AAA
1 AAA
4187477 GTATAAATAC
Statistics
Matches: 202, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
220 188 0.93
221 14 0.07
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.33
Consensus pattern (220 bp):
AAAATATCGATACTTTATAAAAATCGATAAATACTTTACAATATAACAGGTAAAAATATAACAAC
CAATTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAGTATCGATCATTTTATAA
AAATGATAGATACTTTACAATATAACAGATAAAAATATAACAAAACCAGTTTCATAATGACAAAA
ACGGTAAAATTTACCTAATATGTTG
Found at i:4188139 original size:111 final size:111
Alignment explanation
Indices: 4187945--4188421 Score: 644
Period size: 111 Copynumber: 4.3 Consensus size: 111
4187935 TAGCGCCTAT
* * * * * *
4187945 AAAGTATCGATAC-TTTATAAAAATCTATCGATATTTTACAATATAACATGTTAAAATATGACAA
1 AAAGTATCGATCCTTTTATAAAAAT-GATAGATACTTTACAATATAACAGGTAAAAATATGACAA
* * * *
4188009 AACCAATTTCATTCTGACAAAACCGGTAAAATTTACTTGATATGTTG
65 AACCAGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTG
* **
4188056 AAAGTATCGATCCTTTTATAAAAAAGATAGATACTTTACAATATAACAAATAAAAATATGACAAA
1 AAAGTATCGATCCTTTTATAAAAATGATAGATACTTTACAATATAACAGGTAAAAATATGACAAA
* *
4188121 ATCAGTTTCATTATGAC-AAAA---TAAAATTTACCTAATATGTTG
66 ACCAGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTG
* *
4188163 AAAGTATCGATCCTTTTATAAAAATGATATATACTTTATAATATAACAGGTAAAAATATGACAAA
1 AAAGTATCGATCCTTTTATAAAAATGATAGATACTTTACAATATAACAGGTAAAAATATGACAAA
* *
4188228 ACCAGTTTCATTATGAAAAAAAGGGTAAAATTTACCTGATATGTTG
66 ACCAGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTG
* *
4188274 AAAGTATCGATCATTTTATAAAAATGATAAATACTTTAC-ATATAACAGGTAAAAATATGACAAA
1 AAAGTATCGATCCTTTTATAAAAATGATAGATACTTTACAATATAACAGGTAAAAATATGACAAA
* *
4188338 ATCAGTTTCATTATGACAAAAACGGTAAAAATTACCTGATATGTTG
66 ACCAGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTG
* **
4188384 AAAGTATAGATATTTTTTATAAAAATGATCA-ATACTTT
1 AAAGTATCGAT-CCTTTTATAAAAATGAT-AGATACTTT
4188422 TTTGAAAGTT
Statistics
Matches: 327, Mismatches: 32, Indels: 14
0.88 0.09 0.04
Matches are distributed among these distances:
107 94 0.29
108 4 0.01
110 80 0.24
111 138 0.42
112 11 0.03
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.33
Consensus pattern (111 bp):
AAAGTATCGATCCTTTTATAAAAATGATAGATACTTTACAATATAACAGGTAAAAATATGACAAA
ACCAGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTG
Found at i:4188855 original size:906 final size:911
Alignment explanation
Indices: 4186932--4189577 Score: 4479
Period size: 911 Copynumber: 2.9 Consensus size: 911
4186922 ATGCGTCACT
* ** *
4186932 TATTACAATAAACTACCTACCGGGTATGTTGAAAGTATCGATTTCATTTAAATAAGTATCGACAC
1 TATTACATTAAACTACCTACCGAATATGTTGAAAGTATCGATTTCATTTAAATAAGTATCGAAAC
* *
4186997 TTTTGGAATTTAAAAGAAAAGCATTAATAGCGCCTATAAAATATCGATACTTTATAAAAATCTAT
66 TTTTGGAATTTAAAAGAAAAGCAGTAATAGCGCCTATAAAGTATCGATACTTTATAAAAATCTAT
*
4187062 CGATATTTTACAATATAACAGGTAAAAATAT-A-ACAACCAATTTCATTATGACAAAACCGGTAA
131 CGATATTTTACAATATAACAGGTAAAAATATGACAAAACCAATTTCATTATGACAAAACCGGTAA
4187125 AATTTACTTGATATGTTGAAAGTATCGATCCTTTTATAAAAATGATAGATACTTTACAATATAAC
196 AATTTACTTGATATGTTGAAAGTATCGATCCTTTTATAAAAATGATAGATACTTTACAATATAAC
* * * *
4187190 AGATAAAAATATAACAAAACCAGTTTCATAATGACAAAAACGGTAAAATTTACTTAATATGTTGA
261 AGATAAAAATATGACAAAATCAGTTTCATTATGACAAAAA--GTAAAATTTACCTAATATGTTGA
* * * * *
4187255 AAATATCGATCCTTTTATAAAAATGATAAATACTTTACAATATAACATGTAAAAATAT-A-ACAA
324 AAGTATCGATCCTTTTATAAAAATGATATATACTTTATAATATAACAGGTAAAAATATGACAAAA
* *
4187318 TCAGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAGTTTCGATCATTTTATA
389 CCAGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAGTATCGATCATTTTATA
* *
4187383 AAAATGATTAATACTTTACAATATAACATGTAAAAATATGACAAAACTAGTTTCATTATGACAAA
454 AAAATGATAAATACTTTACAATATAACAGGTAAAAATATGACAAAACTAGTTTCATTATGACAAA
* * *
4187448 ACCGGTAAAATTTACCTGATATGTTGAAAGTATAAATACTTTTTATAAAAAAGATCGATACGTTT
519 ACCGGTAAAATTTACCTGATATGTTGAAAGTATAGATACTTTTTATAAAAATGATCGATACTTTT
*
4187513 TTGAAAGTTATGTAATTTATGTTTCAAAAATTTTTAATAGTGTTTCATGTTTGCCACCTACAATA
584 TTGAAAGTTATGTAATTTATGTTTCAAAAATTTTTAATAGTGTTTCATGTTTTCCACCTACAATA
4187578 TTAATTTAATAATTTCATTTACACAAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTA
649 TTAATTTAATAATTTCATTTACAC--AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTA
4187643 TTTAGAATTTAAATTTAACAATTTTAACCAAAGATAATAATAAATATGTAATATCTATGTTTATT
712 TTTAGAATTTAAATTTAACAATTTTAACCAAAGATAATAATAAATATGTAATATCTATGTTTATT
4187708 GTTTTTAATTTAATAATAATATATACCGTAACATAAAAAATAAATCATTAAACGCGTATAATTAC
777 GTTTTTAATTTAATAATAATATATACCGTAACATAAAAAATAAATCATTAAACGCGTATAATTAC
* * **
4187773 TAAATTAATATGTTAAATCTCACTCAAAAGATAACCTTAAATTAATGTTTTTCATTGTGAAATAC
842 TAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTTCACAGTGAAATAC
4187838 CTACC
907 CTACC
*
4187843 TATTACATTAAACTACCTATC-AGATATGTTGAAAGTATCGATTTCATTTAAATAAGTATCGAAA
1 TATTACATTAAACTACCTACCGA-ATATGTTGAAAGTATCGATTTCATTTAAATAAGTATCGAAA
4187907 CTTTTGGAATTTAAAAGAAAAGCAGTAATAGCGCCTATAAAGTATCGATACTTTATAAAAATCTA
65 CTTTTGGAATTTAAAAGAAAAGCAGTAATAGCGCCTATAAAGTATCGATACTTTATAAAAATCTA
* * *
4187972 TCGATATTTTACAATATAACATGTTAAAATATGACAAAACCAATTTCATTCTGACAAAACCGGTA
130 TCGATATTTTACAATATAACAGGTAAAAATATGACAAAACCAATTTCATTATGACAAAACCGGTA
*
4188037 AAATTTACTTGATATGTTGAAAGTATCGATCCTTTTATAAAAAAGATAGATACTTTACAATATAA
195 AAATTTACTTGATATGTTGAAAGTATCGATCCTTTTATAAAAATGATAGATACTTTACAATATAA
*
4188102 CAAATAAAAATATGACAAAATCAGTTTCATTATGAC-AAAA-TAAAATTTACCTAATATGTTGAA
260 CAGATAAAAATATGACAAAATCAGTTTCATTATGACAAAAAGTAAAATTTACCTAATATGTTGAA
4188165 AGTATCGATCCTTTTATAAAAATGATATATACTTTATAATATAACAGGTAAAAATATGACAAAAC
325 AGTATCGATCCTTTTATAAAAATGATATATACTTTATAATATAACAGGTAAAAATATGACAAAAC
* *
4188230 CAGTTTCATTATGAAAAAAAGGGTAAAATTTACCTGATATGTTGAAAGTATCGATCATTTTATAA
390 CAGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAGTATCGATCATTTTATAA
4188295 AAATGATAAATACTTTAC-ATATAACAGGTAAAAATATGACAAAA-TCAGTTTCATTATGACAAA
455 AAATGATAAATACTTTACAATATAACAGGTAAAAATATGACAAAACT-AGTTTCATTATGACAAA
* * * *
4188358 AACGGTAAAAATTACCTGATATGTTGAAAGTATAGATATTTTTTATAAAAATGATCAATACTTTT
519 ACCGGTAAAATTTACCTGATATGTTGAAAGTATAGATACTTTTTATAAAAATGATCGATACTTTT
* * *
4188423 TTGAAAGTTAGGTAATTTATGTTTCAAAAGTTTTTAATATTGTTTCATGTTTTCCACCTACAATA
584 TTGAAAGTTATGTAATTTATGTTTCAAAAATTTTTAATAGTGTTTCATGTTTTCCACCTACAATA
4188488 TTAATTTAATAATTTCATTTACACAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
649 TTAATTTAATAATTTCATTTACACAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
* *
4188553 TAGAATTTAAATTTAACAATTTTAACCAAAGATAATAATAAGTATATAATATCTATGTTTATTGT
714 TAGAATTTAAATTTAACAATTTTAACCAAAGATAATAATAAATATGTAATATCTATGTTTATTGT
*
4188618 TTTTAATTTAATAATAATATATACCGTAACAT-AAAAA-AAATCATTAGACGCGTATAATTACTA
779 TTTTAATTTAATAATAATATATACCGTAACATAAAAAATAAATCATTAAACGCGTATAATTACTA
4188681 AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTTCACAGTGAAATACCT
844 AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTTCACAGTGAAATACCT
4188746 ACC
909 ACC
*
4188749 TATTACATTAAACTACCTACCGAATATGTTGAAAGTATCGATTCCATTTAAATAAGTATCGAAAC
1 TATTACATTAAACTACCTACCGAATATGTTGAAAGTATCGATTTCATTTAAATAAGTATCGAAAC
* *
4188814 TTTTGGAATTTAAAAGAAAAGCAGTAATAGCGCCTATAAAGTATCGATACTTTATAAATATGTAT
66 TTTTGGAATTTAAAAGAAAAGCAGTAATAGCGCCTATAAAGTATCGATACTTTATAAAAATCTAT
* *
4188879 CGATATTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAAACGGTAA
131 CGATATTTTACAATATAACAGGTAAAAATATGACAAAACCAATTTCATTATGACAAAACCGGTAA
* * *
4188944 AATTTACATGATATGTTGAAAGTATCTATCCTTTTTATAAAAATGATCGATACTTTACAATATAA
196 AATTTACTTGATATGTTGAAAGTATCGATCC-TTTTATAAAAATGATAGATACTTTACAATATAA
* *
4189009 CAGGTAAAAATATGATAAAATCAGTTTCATTATGACAAAAATGGTAAAATTTACCTAATATGTTG
260 CAGATAAAAATATGACAAAATCAGTTTCATTATGACAAAAA--GTAAAATTTACCTAATATGTTG
*
4189074 AAAGTATCGATCCTTTTATAAAAAGGATATATACTTTATAATATAACAGGTAAAAATATGACAAA
323 AAAGTATCGATCCTTTTATAAAAATGATATATACTTTATAATATAACAGGTAAAAATATGACAAA
* * *
4189139 ACTAGTTTCATTATGACAAAAACAGTAAAATTTACCTGATATGTTGAAAGTATCGATCCTTTTAT
388 ACCAGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAGTATCGATCATTTTAT
* * * *
4189204 AAAAAGGATAGATACTTTACAATATAATAGGTACAAATATGACAAAACTAGTTTCATTATGACAA
453 AAAAATGATAAATACTTTACAATATAACAGGTAAAAATATGACAAAACTAGTTTCATTATGACAA
*
4189269 AACCGATAAAATTTACCTGATATGTTGAAAGTATAGATACTTTTTATAAAAATGATCGATACTTT
518 AACCGGTAAAATTTACCTGATATGTTGAAAGTATAGATACTTTTTATAAAAATGATCGATACTTT
*
4189334 TTTAAAAGTTATGTAATTTATGTTTCAAAAATTTTTAATAGTGTTTCATGTTTTCCACCTACAAT
583 TTTGAAAGTTATGTAATTTATGTTTCAAAAATTTTTAATAGTGTTTCATGTTTTCCACCTACAAT
* * *
4189399 ATTAATTTAATAATTTTATTTACAC-AAAATTATATGATTGTTTTTATATTTTATAAAATATTAT
648 ATTAATTTAATAATTTCATTTACACAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTAT
* * *
4189463 GTAGAATTTAAATTTAACAATTTTAACGAAAGATAATAATAAATATGTAATATTTATGTTTATTG
713 TTAGAATTTAAATTTAACAATTTTAACCAAAGATAATAATAAATATGTAATATCTATGTTTATTG
4189528 TTTTTAATTTAATAATAATATATACCGTAACATAAAAAATAAATCATTAA
778 TTTTTAATTTAATAATAATATATACCGTAACATAAAAAATAAATCATTAA
4189578 CAATTTTAAC
Statistics
Matches: 1629, Mismatches: 90, Indels: 30
0.93 0.05 0.02
Matches are distributed among these distances:
906 302 0.19
907 70 0.04
908 140 0.09
909 76 0.05
910 186 0.11
911 526 0.32
912 195 0.12
913 134 0.08
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (911 bp):
TATTACATTAAACTACCTACCGAATATGTTGAAAGTATCGATTTCATTTAAATAAGTATCGAAAC
TTTTGGAATTTAAAAGAAAAGCAGTAATAGCGCCTATAAAGTATCGATACTTTATAAAAATCTAT
CGATATTTTACAATATAACAGGTAAAAATATGACAAAACCAATTTCATTATGACAAAACCGGTAA
AATTTACTTGATATGTTGAAAGTATCGATCCTTTTATAAAAATGATAGATACTTTACAATATAAC
AGATAAAAATATGACAAAATCAGTTTCATTATGACAAAAAGTAAAATTTACCTAATATGTTGAAA
GTATCGATCCTTTTATAAAAATGATATATACTTTATAATATAACAGGTAAAAATATGACAAAACC
AGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTGAAAGTATCGATCATTTTATAAA
AATGATAAATACTTTACAATATAACAGGTAAAAATATGACAAAACTAGTTTCATTATGACAAAAC
CGGTAAAATTTACCTGATATGTTGAAAGTATAGATACTTTTTATAAAAATGATCGATACTTTTTT
GAAAGTTATGTAATTTATGTTTCAAAAATTTTTAATAGTGTTTCATGTTTTCCACCTACAATATT
AATTTAATAATTTCATTTACACAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTA
GAATTTAAATTTAACAATTTTAACCAAAGATAATAATAAATATGTAATATCTATGTTTATTGTTT
TTAATTTAATAATAATATATACCGTAACATAAAAAATAAATCATTAAACGCGTATAATTACTAAA
TTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTTCACAGTGAAATACCTAC
C
Found at i:4189074 original size:112 final size:111
Alignment explanation
Indices: 4188851--4189333 Score: 718
Period size: 111 Copynumber: 4.3 Consensus size: 111
4188841 TAGCGCCTAT
* * *
4188851 AAAGTATCGATAC-TTTATAAATATGTATCGATATTTTACAATATAACAGGTAAAAATATGACAA
1 AAAGTATCGATCCTTTTATAAAAATG-ATCGATACTTTACAATATAACAGGTAAAAATATGACAA
* *
4188915 AACCAGTTTCATTATGACAAAAACGGTAAAATTTACATGATATGTTG
65 AACTAGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTG
* *
4188962 AAAGTATCTATCCTTTTTATAAAAATGATCGATACTTTACAATATAACAGGTAAAAATATGATAA
1 AAAGTATCGATCC-TTTTATAAAAATGATCGATACTTTACAATATAACAGGTAAAAATATGACAA
* *
4189027 AA-TCAGTTTCATTATGACAAAAATGGTAAAATTTACCTAATATGTTG
65 AACT-AGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTG
* ** *
4189074 AAAGTATCGATCCTTTTATAAAAAGGATATATACTTTATAATATAACAGGTAAAAATATGACAAA
1 AAAGTATCGATCCTTTTATAAAAATGATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
*
4189139 ACTAGTTTCATTATGACAAAAACAGTAAAATTTACCTGATATGTTG
66 ACTAGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTG
* * * *
4189185 AAAGTATCGATCCTTTTATAAAAAGGATAGATACTTTACAATATAATAGGTACAAATATGACAAA
1 AAAGTATCGATCCTTTTATAAAAATGATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
* *
4189250 ACTAGTTTCATTATGACAAAACCGATAAAATTTACCTGATATGTTG
66 ACTAGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTG
* *
4189296 AAAGTATAGATACTTTTTATAAAAATGATCGATACTTT
1 AAAGTATCGAT-CCTTTTATAAAAATGATCGATACTTT
4189334 TTTAAAAGTT
Statistics
Matches: 338, Mismatches: 29, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
111 213 0.63
112 114 0.34
113 11 0.03
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (111 bp):
AAAGTATCGATCCTTTTATAAAAATGATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
ACTAGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTG
Found at i:4189333 original size:223 final size:223
Alignment explanation
Indices: 4188851--4189333 Score: 729
Period size: 223 Copynumber: 2.2 Consensus size: 223
4188841 TAGCGCCTAT
* *
4188851 AAAGTATCGATAC-TTTATAAATATGTATCGATATTTTACAATATAACAGGTAAAAATATGACAA
1 AAAGTATCGATACTTTTATAAAAATG-ATCGATACTTTACAATATAACAGGTAAAAATATGACAA
* *
4188915 AACCAGTTTCATTATGACAAAAACGGTAAAATTTACATGATATGTTGAAAGTATCTATCCTTTTT
65 AACCAGTTTCATTATGACAAAAACAGTAAAATTTACATGATATGTTGAAAGTATCGATCCTTTTT
* * *
4188980 ATAAAAATGATCGATACTTTACAATATAACAGGTAAAAATATGATAAAATCAGTTTCATTATGAC
130 ATAAAAAGGATAGATACTTTACAATATAACAGGTAAAAATATGACAAAATCAGTTTCATTATGAC
* *
4189045 AAAAATGGTAAAATTTACCTAATATGTTG
195 AAAAACGATAAAATTTACCTAATATGTTG
* * ** *
4189074 AAAGTATCGATCCTTTTATAAAAAGGATATATACTTTATAATATAACAGGTAAAAATATGACAAA
1 AAAGTATCGATACTTTTATAAAAATGATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
* *
4189139 ACTAGTTTCATTATGACAAAAACAGTAAAATTTACCTGATATGTTGAAAGTATCGATCC-TTTTA
66 ACCAGTTTCATTATGACAAAAACAGTAAAATTTACATGATATGTTGAAAGTATCGATCCTTTTTA
* *
4189203 TAAAAAGGATAGATACTTTACAATATAATAGGTACAAATATGACAAAA-CTAGTTTCATTATGAC
131 TAAAAAGGATAGATACTTTACAATATAACAGGTAAAAATATGACAAAATC-AGTTTCATTATGAC
* *
4189267 AAAACCGATAAAATTTACCTGATATGTTG
195 AAAAACGATAAAATTTACCTAATATGTTG
*
4189296 AAAGTATAGATACTTTTTATAAAAATGATCGATACTTT
1 AAAGTATCGATAC-TTTTATAAAAATGATCGATACTTT
4189334 TTTAAAAGTT
Statistics
Matches: 232, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
221 1 0.00
222 98 0.42
223 123 0.53
224 10 0.04
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (223 bp):
AAAGTATCGATACTTTTATAAAAATGATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
ACCAGTTTCATTATGACAAAAACAGTAAAATTTACATGATATGTTGAAAGTATCGATCCTTTTTA
TAAAAAGGATAGATACTTTACAATATAACAGGTAAAAATATGACAAAATCAGTTTCATTATGACA
AAAACGATAAAATTTACCTAATATGTTG
Found at i:4189590 original size:98 final size:98
Alignment explanation
Indices: 4189476--4189674 Score: 389
Period size: 98 Copynumber: 2.0 Consensus size: 98
4189466 GAATTTAAAT
4189476 TTAACAATTTTAACGAAAGATAATAATAAATATGTAATATTTATGTTTATTGTTTTTAATTTAAT
1 TTAACAATTTTAACGAAAGATAATAATAAATATGTAATATTTATGTTTATTGTTTTTAATTTAAT
*
4189541 AATAATATATACCGTAACATAAAAAATAAATCA
66 AATAATATATACCGTAACAAAAAAAATAAATCA
4189574 TTAACAATTTTAACGAAAGATAATAATAAATATGTAATATTTATGTTTATTGTTTTTAATTTAAT
1 TTAACAATTTTAACGAAAGATAATAATAAATATGTAATATTTATGTTTATTGTTTTTAATTTAAT
4189639 AATAATATATACCGTAACAAAAAAAATAAATCA
66 AATAATATATACCGTAACAAAAAAAATAAATCA
4189672 TTA
1 TTA
4189675 GACACGTATA
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 100 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (98 bp):
TTAACAATTTTAACGAAAGATAATAATAAATATGTAATATTTATGTTTATTGTTTTTAATTTAAT
AATAATATATACCGTAACAAAAAAAATAAATCA
Found at i:4189974 original size:111 final size:111
Alignment explanation
Indices: 4189777--4190018 Score: 412
Period size: 111 Copynumber: 2.2 Consensus size: 111
4189767 TTAAACTACC
* *
4189777 TACCTGATATTTTGAAAGTATCGATCCTTTTATAAAAAGGATAGATACTTTACAATATAACATGT
1 TACCTGATATGTTGAAAGTAACGATCCTTTTATAAAAAGGATAGATACTTTACAATATAACATGT
* *
4189842 AAAAATATGACAAAACCAGTTTCATTATGACAAAAATGGTAAAATT
66 AAAAATATGACAAAACAAGTTTCATTATGACAAAAACGGTAAAATT
4189888 TACCTGATATGTTGAAAGTAACGATCCTTTTATAAAAAGGATAGATACTTTACAATATAACATGT
1 TACCTGATATGTTGAAAGTAACGATCCTTTTATAAAAAGGATAGATACTTTACAATATAACATGT
* *
4189953 AAAAATATGACAAATCAAGTTTCATTATGACAAAACCGGTAAAATT
66 AAAAATATGACAAAACAAGTTTCATTATGACAAAAACGGTAAAATT
* *
4189999 TACCTAATATGTTAAAAGTA
1 TACCTGATATGTTGAAAGTA
4190019 TAGATATTTT
Statistics
Matches: 123, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
111 123 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (111 bp):
TACCTGATATGTTGAAAGTAACGATCCTTTTATAAAAAGGATAGATACTTTACAATATAACATGT
AAAAATATGACAAAACAAGTTTCATTATGACAAAAACGGTAAAATT
Found at i:4190786 original size:111 final size:111
Alignment explanation
Indices: 4190485--4190967 Score: 689
Period size: 111 Copynumber: 4.3 Consensus size: 111
4190475 TAGCGCCTAT
* * *
4190485 AAAGTATCGATAC-TTTATAAAAATGTATAAATATTTTATAATATAATAGGTAAAAATATGACAA
1 AAAGTATCGATCCTTTTATAAAAATG-ATAAATACTTTATAATATAACAGGTAAAAATATGACAA
* *
4190549 AACAAGTTTCATTATGACAAAAATGGTAAAATTTACCTAATATGTTG
65 AACCAGTTTCATTATGACAAAAATGATAAAATTTACCTAATATGTTG
** * *
4190596 AAAGTATCGATCCTTTTTATAAAAATGATCGATACTTTACAATATAACATGTAAAAATATGACAA
1 AAAGTATCGATCC-TTTTATAAAAATGATAAATACTTTATAATATAACAGGTAAAAATATGACAA
* * * *
4190661 AATCAGTTTTATTATGACAAAAATGGTAAAATTTACCTGATATGTTG
65 AACCAGTTTCATTATGACAAAAATGATAAAATTTACCTAATATGTTG
*
4190708 AAAGTATCGATCCTTTTATAAAAATGATAGATACTTTATAATATAACAGGTAAAAATATGACAAA
1 AAAGTATCGATCCTTTTATAAAAATGATAAATACTTTATAATATAACAGGTAAAAATATGACAAA
* *
4190773 ACCAGTTTCATTATGACAAAAATGATAAAATTTACCTAATATATTA
66 ACCAGTTTCATTATGACAAAAATGATAAAATTTACCTAATATGTTG
* * *
4190819 AAAGTATCGTTTCTTTTATAAAAAGGATAAATACTTTATAATATAACAGGTAAAAATATGACAAA
1 AAAGTATCGATCCTTTTATAAAAATGATAAATACTTTATAATATAACAGGTAAAAATATGACAAA
* * **
4190884 ACCAATTTCATTATGATAAAACCGATAAAATTTACCTAATATGTTG
66 ACCAGTTTCATTATGACAAAAATGATAAAATTTACCTAATATGTTG
* * * *
4190930 AAAGTATAGATACTTTTTATAAAAAGGATTAATACTTT
1 AAAGTATCGAT-CCTTTTATAAAAATGATAAATACTTT
4190968 TTTGAAAGTT
Statistics
Matches: 334, Mismatches: 35, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
111 211 0.63
112 111 0.33
113 12 0.04
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (111 bp):
AAAGTATCGATCCTTTTATAAAAATGATAAATACTTTATAATATAACAGGTAAAAATATGACAAA
ACCAGTTTCATTATGACAAAAATGATAAAATTTACCTAATATGTTG
Found at i:4190950 original size:223 final size:222
Alignment explanation
Indices: 4190485--4190967 Score: 691
Period size: 223 Copynumber: 2.2 Consensus size: 222
4190475 TAGCGCCTAT
* *
4190485 AAAGTATCGATAC-TTTATAAAAATGTATAAATATTTTATAATATAATAGGTAAAAATATGACAA
1 AAAGTATCGATACTTTTATAAAAATG-AT-AATACTTTATAATATAACAGGTAAAAATATGACAA
* * *
4190549 AACAAGTTTCATTATGACAAAAATGGTAAAATTTACCTAATATGTTGAAAGTATCGATCCTTTTT
64 AACAAGTTTCATTATGACAAAAATGATAAAATTTACCTAATATATTAAAAGTATCGATCCTTTTT
* ** * * * *
4190614 ATAAAAATGATCGATACTTTACAATATAACATGTAAAAATATGACAAAATCAGTTTTATTATGAC
129 ATAAAAAGGATAAATACTTTACAATATAACAGGTAAAAATATGACAAAACCAATTTCATTATGAC
* * *
4190679 AAAAATGGTAAAATTTACCTGATATGTTG
194 AAAAACGATAAAATTTACCTAATATGTTG
*
4190708 AAAGTATCGATCCTTTTATAAAAATGATAGATACTTTATAATATAACAGGTAAAAATATGACAAA
1 AAAGTATCGATACTTTTATAAAAATGATA-ATACTTTATAATATAACAGGTAAAAATATGACAAA
* * *
4190773 ACCAGTTTCATTATGACAAAAATGATAAAATTTACCTAATATATTAAAAGTATCGTTTC-TTTTA
65 ACAAGTTTCATTATGACAAAAATGATAAAATTTACCTAATATATTAAAAGTATCGATCCTTTTTA
* *
4190837 TAAAAAGGATAAATACTTTATAATATAACAGGTAAAAATATGACAAAACCAATTTCATTATGATA
130 TAAAAAGGATAAATACTTTACAATATAACAGGTAAAAATATGACAAAACCAATTTCATTATGACA
*
4190902 AAACCGATAAAATTTACCTAATATGTTG
195 AAAACGATAAAATTTACCTAATATGTTG
* *
4190930 AAAGTATAGATACTTTTTATAAAAAGGATTAATACTTT
1 AAAGTATCGATAC-TTTTATAAAAATGA-TAATACTTT
4190968 TTTGAAAGTT
Statistics
Matches: 231, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
222 97 0.42
223 120 0.52
224 14 0.06
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (222 bp):
AAAGTATCGATACTTTTATAAAAATGATAATACTTTATAATATAACAGGTAAAAATATGACAAAA
CAAGTTTCATTATGACAAAAATGATAAAATTTACCTAATATATTAAAAGTATCGATCCTTTTTAT
AAAAAGGATAAATACTTTACAATATAACAGGTAAAAATATGACAAAACCAATTTCATTATGACAA
AAACGATAAAATTTACCTAATATGTTG
Found at i:4191308 original size:20 final size:20
Alignment explanation
Indices: 4191271--4191309 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4191261 TTCCACAGTG
*
4191271 ATATAAGTATGGACACTTAT
1 ATATAAGTATCGACACTTAT
* *
4191291 ATATATGTATCGATACTTA
1 ATATAAGTATCGACACTTA
4191310 CTGATAACCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (20 bp):
ATATAAGTATCGACACTTAT
Found at i:4192517 original size:11 final size:11
Alignment explanation
Indices: 4192501--4192545 Score: 81
Period size: 11 Copynumber: 4.1 Consensus size: 11
4192491 ACTCAAAGTA
4192501 TAATTATAAAT
1 TAATTATAAAT
4192512 TAATTATAAAT
1 TAATTATAAAT
4192523 TAATTATAAAT
1 TAATTATAAAT
*
4192534 TAATTAAAAAT
1 TAATTATAAAT
4192545 T
1 T
4192546 TAAAAGTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TAATTATAAAT
Found at i:4197680 original size:41 final size:41
Alignment explanation
Indices: 4197613--4197812 Score: 199
Period size: 41 Copynumber: 4.9 Consensus size: 41
4197603 CATTTTACAC
* * * *
4197613 AAACGCCACTAAA-ACCTAGTACTTTAGTGGCGTTTTAAGAA
1 AAACGCCGCTAAAGA-CTCGTACTTTAGTGACGTTTTTAGAA
* * * * *
4197654 AAACGCCGTTAAATACTCGTAATTTAGTGACGTTTTTATAT
1 AAACGCCGCTAAAGACTCGTACTTTAGTGACGTTTTTAGAA
* * *
4197695 AAATG-CGCTAAAGACT-ATACTTTAGTGACGTTTTTATAA
1 AAACGCCGCTAAAGACTCGTACTTTAGTGACGTTTTTAGAA
* * * *
4197734 AAACGCCGCTATAGACTTGTACTTTAGTGACATTTTTAGAC
1 AAACGCCGCTAAAGACTCGTACTTTAGTGACGTTTTTAGAA
* * *
4197775 AAACGCCGCTAAAGACTCTTACTTTAGTGGCATTTTTA
1 AAACGCCGCTAAAGACTCGTACTTTAGTGACGTTTTTA
4197813 TACAAACACG
Statistics
Matches: 132, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 24 0.18
40 19 0.14
41 88 0.67
42 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (41 bp):
AAACGCCGCTAAAGACTCGTACTTTAGTGACGTTTTTAGAA
Found at i:4197727 original size:80 final size:82
Alignment explanation
Indices: 4197605--4197803 Score: 217
Period size: 80 Copynumber: 2.5 Consensus size: 82
4197595 TATCATGGCA
* * * * *
4197605 TTTTACACAAACGCCACTAAA-AC-CTAGTACTTTAGTGGCGTTTTAAGAAAAACGCCGTTAAAT
1 TTTTAGACAAACGCCGCTAAAGACTC-A-TACTTTAGTGACGTTTTAAGAAAAACGCCGCTAAAG
*
4197668 ACTCGTAATTTAGTGACGT
64 ACTCGTAATTTAGTGACAT
* * * * * *
4197687 TTTTATATAAATG-CGCTAAAGACT-ATACTTTAGTGACGTTTTTATAAAAACGCCGCTATAGAC
1 TTTTAGACAAACGCCGCTAAAGACTCATACTTTAGTGACGTTTTAAGAAAAACGCCGCTAAAGAC
* *
4197750 TTGTACTTTAGTGACAT
66 TCGTAATTTAGTGACAT
*
4197767 TTTTAGACAAACGCCGCTAAAGACTCTTACTTTAGTG
1 TTTTAGACAAACGCCGCTAAAGACTCATACTTTAGTG
4197804 GCATTTTTAT
Statistics
Matches: 96, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
80 56 0.58
81 18 0.19
82 22 0.23
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (82 bp):
TTTTAGACAAACGCCGCTAAAGACTCATACTTTAGTGACGTTTTAAGAAAAACGCCGCTAAAGAC
TCGTAATTTAGTGACAT
Found at i:4200154 original size:16 final size:17
Alignment explanation
Indices: 4200133--4200189 Score: 73
Period size: 16 Copynumber: 3.4 Consensus size: 17
4200123 CAAGAGATCC
4200133 AGGGGTGGCACTT-TTG
1 AGGGGTGGCACTTGTTG
4200149 AGGGGTGGCACTTCGATT-
1 AGGGGTGGCACTT-G-TTG
*
4200167 AGGGGTGGCACTTGTGG
1 AGGGGTGGCACTTGTTG
4200184 AGGGGT
1 AGGGGT
4200190 TTCTTGGGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
16 14 0.39
17 7 0.19
18 13 0.36
19 2 0.06
ACGTcount: A:0.14, C:0.12, G:0.47, T:0.26
Consensus pattern (17 bp):
AGGGGTGGCACTTGTTG
Found at i:4200239 original size:49 final size:49
Alignment explanation
Indices: 4200183--4200277 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
4200173 GGCACTTGTG
**
4200183 GAGGGGTTTCTTGGGATACCCCGAGCACCATGGAGGTCCACCCTTGGAT
1 GAGGGGTTTCCCGGGATACCCCGAGCACCATGGAGGTCCACCCTTGGAT
* * *
4200232 GAGGGGTTTCCCGGGATACCCCGGGCTCCATGGAGGTCCGCCCTTG
1 GAGGGGTTTCCCGGGATACCCCGAGCACCATGGAGGTCCACCCTTG
4200278 CTTCAGTTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.15, C:0.29, G:0.35, T:0.21
Consensus pattern (49 bp):
GAGGGGTTTCCCGGGATACCCCGAGCACCATGGAGGTCCACCCTTGGAT
Found at i:4205536 original size:2 final size:2
Alignment explanation
Indices: 4205529--4205572 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
4205519 ATAATCCCAA
4205529 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4205571 AT
1 AT
4205573 GGATATTAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4210387 original size:21 final size:20
Alignment explanation
Indices: 4210322--4210388 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 20
4210312 CCAAATTAAG
*
4210322 AAATAAAATTACAAAAATAAA
1 AAATAAAATTACAATAAT-AA
* *
4210343 TAAATAAATACTAAAATGAATAA
1 -AAATAAA-ATTACAAT-AATAA
4210366 AAATAAAATTACAGATAATAA
1 AAATAAAATTACA-ATAATAA
4210387 AA
1 AA
4210389 GAAATTAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
21 11 0.30
22 16 0.43
23 7 0.19
24 3 0.08
ACGTcount: A:0.70, C:0.04, G:0.03, T:0.22
Consensus pattern (20 bp):
AAATAAAATTACAATAATAA
Found at i:4210791 original size:18 final size:18
Alignment explanation
Indices: 4210763--4210797 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
4210753 GTACCTATAC
4210763 ATTAGAAACAAATCAAAGA
1 ATTAGAAACAAAT-AAAGA
4210782 ATTA-AAACAAATAAAG
1 ATTAGAAACAAATAAAG
4210798 GACCAGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.66, C:0.09, G:0.09, T:0.17
Consensus pattern (18 bp):
ATTAGAAACAAATAAAGA
Found at i:4212270 original size:74 final size:74
Alignment explanation
Indices: 4212179--4212324 Score: 240
Period size: 74 Copynumber: 2.0 Consensus size: 74
4212169 TTCTCCCCTT
* * *
4212179 TTGGATGAGTTCTTCTCATTATGAACTCTTCGTTGGAAATGTTGAG-TCAAGGTTGAACAAGCTC
1 TTGGATGAGTTCTTCTCATTATGAACTCTCCGCTGGAAATCTTGAGCT-AAGGTTGAACAAGCTC
4212243 TTCTCATTCG
65 TTCTCATTCG
*
4212253 TTGGATGAGTTCTTCTCATTATGAACTCTCCGCTGGAAATCTTGAGCTAAGGTTGAACAAGTTCT
1 TTGGATGAGTTCTTCTCATTATGAACTCTCCGCTGGAAATCTTGAGCTAAGGTTGAACAAGCTCT
4212318 TCTCATT
66 TCTCATT
4212325 ATGAACTTCT
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
74 66 0.99
75 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (74 bp):
TTGGATGAGTTCTTCTCATTATGAACTCTCCGCTGGAAATCTTGAGCTAAGGTTGAACAAGCTCT
TCTCATTCG
Found at i:4212340 original size:91 final size:91
Alignment explanation
Indices: 4212241--4213015 Score: 1253
Period size: 91 Copynumber: 8.6 Consensus size: 91
4212231 TTGAACAAGC
* *
4212241 TCTTCTCATTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCGCTGGAAAT-CTTGAGCTAAGG
1 TCTTCTCCTTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCGCTGGAAATGC-TGAGCCAAGG
4212305 TTGAACAAGTTCTTCTCATTATGAACT
65 TTGAACAAGTTCTTCTCATTATGAACT
* * *
4212332 TCTTCTCATTCGTTGGATTAG---TTCTCATTATGAACTCTCCGCTGGAAATGATGAGCCAAGGT
1 TCTTCTCCTTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCGCTGGAAATGCTGAGCCAAGGT
4212394 TGAACAAGTTCTTCTCATTATGAACT
66 TGAACAAGTTCTTCTCATTATGAACT
*
4212420 TCTTCTCCTTCATTGGATGAGTTCTTCTCATTATGAACTCTCCGCTGGAAATGCTGAGCCAAGGT
1 TCTTCTCCTTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCGCTGGAAATGCTGAGCCAAGGT
4212485 TGAACAAG-TC--CTCATTATGAACT
66 TGAACAAGTTCTTCTCATTATGAACT
* ** *
4212508 TCTTATCCTTTATTGGATGAGTTCTTCTCATTATGAACTCTCCGCTGGAAATACTGAGCCAAGGT
1 TCTTCTCCTTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCGCTGGAAATGCTGAGCCAAGGT
4212573 TGAACAAGTTCTTCTCATTATGAACT
66 TGAACAAGTTCTTCTCATTATGAACT
* * * * *
4212599 TCTTCTCCTTCGTTAGATGAATTCTTCTCATTATGAACTCTCTGTTGGAAATGCTAAGCCAAGGT
1 TCTTCTCCTTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCGCTGGAAATGCTGAGCCAAGGT
4212664 TGAACAAGTTCTTCTCATTATGAACT
66 TGAACAAGTTCTTCTCATTATGAACT
* *
4212690 TCTTCTCCTTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCGTTGGAAATGATGAGCCAAGGT
1 TCTTCTCCTTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCGCTGGAAATGCTGAGCCAAGGT
* *
4212755 TGAACAAATTTTTCTCATTATGAACT
66 TGAACAAGTTCTTCTCATTATGAACT
4212781 T-TCTCTCCTTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCGCTGGAAATGCTGAGCCAAGG
1 TCT-TCTCCTTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCGCTGGAAATGCTGAGCCAAGG
*
4212845 TTGAACAAGTACTTCTCATTATGAACT
65 TTGAACAAGTTCTTCTCATTATGAACT
* *
4212872 TCTTCTCCTTCGTTGGATGAGTTCTTCTCATTGTGAACTCTCCGTTGGAAATGCTGAGCCAAGGT
1 TCTTCTCCTTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCGCTGGAAATGCTGAGCCAAGGT
4212937 TGAACAAGTTCTTCTCATTATGAACT
66 TGAACAAGTTCTTCTCATTATGAACT
*
4212963 TCTTCTACC-TCGTTGGATGAGTTCTTCTCATTATGAACTCTCCACTGGAAATG
1 TCTTCT-CCTTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCGCTGGAAATG
4213016 TTGATCAGCT
Statistics
Matches: 637, Mismatches: 37, Indels: 20
0.92 0.05 0.03
Matches are distributed among these distances:
88 165 0.26
89 2 0.00
90 3 0.00
91 464 0.73
92 3 0.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.37
Consensus pattern (91 bp):
TCTTCTCCTTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCGCTGGAAATGCTGAGCCAAGGT
TGAACAAGTTCTTCTCATTATGAACT
Found at i:4225276 original size:11 final size:11
Alignment explanation
Indices: 4225262--4225287 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4225252 TTAGAACCTT
4225262 TTAATTATTAA
1 TTAATTATTAA
4225273 TTAATTATTAA
1 TTAATTATTAA
4225284 TTAA
1 TTAA
4225288 ACAACTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TTAATTATTAA
Found at i:4225875 original size:18 final size:18
Alignment explanation
Indices: 4225847--4225881 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
4225837 ATACCTATAC
4225847 ATTAGAAACAAATCAAAGA
1 ATTAGAAACAAAT-AAAGA
4225866 ATTA-AAACAAATAAAG
1 ATTAGAAACAAATAAAG
4225882 GACCAGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.66, C:0.09, G:0.09, T:0.17
Consensus pattern (18 bp):
ATTAGAAACAAATAAAGA
Found at i:4232045 original size:20 final size:20
Alignment explanation
Indices: 4232001--4232321 Score: 170
Period size: 20 Copynumber: 15.9 Consensus size: 20
4231991 AATGACCAAC
4232001 AAAATCGCAACGCGATATC--
1 AAAATCGCAACGCGAT-TCAG
*
4232020 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTCAG
4232040 AAAATCGCAACG-G--TCAAAAG
1 AAAATCGCAACGCGATTC---AG
4232060 AAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
* *
4232082 AGAATCGCAATGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* * **
4232102 AGAATCGCAATGCGAGCCA-
1 AAAATCGCAACGCGATTCAG
* **
4232121 AAGAATCGCAATGCGAGCCA-
1 AA-AATCGCAACGCGATTCAG
*
4232141 AAGAATCGCAATGCGATTCCA-
1 AA-AATCGCAACGCGATT-CAG
* *
4232162 AGAATCGCAATGCGATCTTC-G
1 AAAATCGCAACGCGA--TTCAG
* *
4232183 AAGAATCGTAATGCGATCTTC-G
1 AA-AATCGCAACGCGA--TTCAG
*
4232205 AAGAATCGCAACGCGATTGAG
1 AA-AATCGCAACGCGATTCAG
4232226 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* *
4232246 ATAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTCAG
4232266 AAAATCGCAA--CGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* *
4232284 AGAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTCAG
*
4232304 AAAATCGCAATGCGATTC
1 AAAATCGCAACGCGATTC
4232322 CAAGAATCGC
Statistics
Matches: 253, Mismatches: 25, Indels: 47
0.78 0.08 0.14
Matches are distributed among these distances:
17 1 0.00
18 15 0.06
19 23 0.09
20 154 0.61
21 10 0.04
22 47 0.19
23 1 0.00
25 1 0.00
26 1 0.00
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACGCGATTCAG
Found at i:4232252 original size:124 final size:120
Alignment explanation
Indices: 4232058--4232333 Score: 310
Period size: 124 Copynumber: 2.3 Consensus size: 120
4232048 AACGGTCAAA
* * * *
4232058 AGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATTCCAAGAATCGCAATGCGAGCCAAA
1 AGAAAATCGCAATGCGATCTTCCAAGAATCGCAACGCGATTCCAAAAATCGCAACGCGAGCCAAA
* * *
4232123 GAATCGCAATGCGAGCCA-AAGAATCGCAATGCGATTCCAAGAATCGCAATGCGATCTT
66 GAATCGCAACGCGAGCCAGAA-AATCGCAA--CGATTCCAAGAATCGCAACGCGAT-TG
* * * * *
4232181 CGAAGAATCGTAATGCGATCTTCGAAGAATCGCAACGCGATT-GAGAAAATCGCAACGCGATTCC
1 AGAA-AATCGCAATGCGATCTTCCAAGAATCGCAACGCGATTCCA-AAAATCGCAACGCGA-GCC
* ***
4232245 -AATAATCGCAACGCGATTGAGAAAATCGCAACGATTCCAAGAATCGCAACGCGATTG
63 AAAGAATCGCAACGCGAGCCAGAAAATCGCAACGATTCCAAGAATCGCAACGCGATTG
4232302 AGAAAATCGCAATGCGA--TTCCAAGAATCGCAA
1 AGAAAATCGCAATGCGATCTTCCAAGAATCGCAA
4232334 AACGGCAAAA
Statistics
Matches: 130, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
118 14 0.11
120 12 0.09
121 4 0.03
122 23 0.18
123 4 0.03
124 69 0.53
125 4 0.03
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.17
Consensus pattern (120 bp):
AGAAAATCGCAATGCGATCTTCCAAGAATCGCAACGCGATTCCAAAAATCGCAACGCGAGCCAAA
GAATCGCAACGCGAGCCAGAAAATCGCAACGATTCCAAGAATCGCAACGCGATTG
Found at i:4232329 original size:20 final size:20
Alignment explanation
Indices: 4232062--4232333 Score: 243
Period size: 20 Copynumber: 13.4 Consensus size: 20
4232052 GTCAAAAGAA
*
4232062 AATCGCAACGCGATCTTCCAAG
1 AATCGCAATGCGA--TTCCAAG
4232084 AATCGCAATGCGATTCCAAG
1 AATCGCAATGCGATTCCAAG
*
4232104 AATCGCAATGCGA-GCCAAAG
1 AATCGCAATGCGATTCC-AAG
*
4232124 AATCGCAATGCGA-GCCAAAG
1 AATCGCAATGCGATTCC-AAG
4232144 AATCGCAATGCGATTCCAAG
1 AATCGCAATGCGATTCCAAG
*
4232164 AATCGCAATGCGATCTTCGAAG
1 AATCGCAATGCGA--TTCCAAG
* *
4232186 AATCGTAATGCGATCTTCGAAG
1 AATCGCAATGCGA--TTCCAAG
* * *
4232208 AATCGCAACGCGATT-GAGAA
1 AATCGCAATGCGATTCCA-AG
* *
4232228 AATCGCAACGCGATTCCAAT
1 AATCGCAATGCGATTCCAAG
* * *
4232248 AATCGCAACGCGATT-GAGAA
1 AATCGCAATGCGATTCCA-AG
4232268 AATCGCAA--CGATTCCAAG
1 AATCGCAATGCGATTCCAAG
* * *
4232286 AATCGCAACGCGATT-GAGAA
1 AATCGCAATGCGATTCCA-AG
4232306 AATCGCAATGCGATTCCAAG
1 AATCGCAATGCGATTCCAAG
4232326 AATCGCAA
1 AATCGCAA
4232334 AACGGCAAAA
Statistics
Matches: 219, Mismatches: 19, Indels: 26
0.83 0.07 0.10
Matches are distributed among these distances:
18 14 0.06
19 7 0.03
20 144 0.66
21 4 0.02
22 50 0.23
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (20 bp):
AATCGCAATGCGATTCCAAG
Found at i:4232454 original size:6 final size:6
Alignment explanation
Indices: 4232443--4232470 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
4232433 AGACACGTAT
4232443 GACCAC GACCAC GACCAC GACCAC GACC
1 GACCAC GACCAC GACCAC GACCAC GACC
4232471 CGAGACGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.50, G:0.18, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:4233231 original size:6 final size:6
Alignment explanation
Indices: 4233222--4233294 Score: 146
Period size: 6 Copynumber: 12.2 Consensus size: 6
4233212 CCGTCTCGTC
4233222 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
4233270 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
4233295 AATACGTGTC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.00, C:0.16, G:0.49, T:0.34
Consensus pattern (6 bp):
TCGTGG
Found at i:4233430 original size:20 final size:20
Alignment explanation
Indices: 4233405--4233534 Score: 138
Period size: 20 Copynumber: 6.4 Consensus size: 20
4233395 TTTTGCCGTT
4233405 TTGCGATTCTTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
** *
4233425 TTGCGATT-TTCTCAATCGCA
1 TTGCGATTCTT-GGAATCGCG
*
4233445 TTGCGATTCCTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
**
4233465 TTGCGATT-TTCTCAATCGCG
1 TTGCGATTCTT-GGAATCGCG
* *
4233485 TTGCGATTCTTTGAATCGCA
1 TTGCGATTCTTGGAATCGCG
4233505 TTGCGATTCTTGGAAGATCGCG
1 TTGCGATTCTTGG-A-ATCGCG
4233527 TTGCGATT
1 TTGCGATT
4233535 TTCTTTTGAC
Statistics
Matches: 90, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
19 3 0.03
20 70 0.78
21 4 0.04
22 13 0.14
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.37
Consensus pattern (20 bp):
TTGCGATTCTTGGAATCGCG
Found at i:4233452 original size:40 final size:40
Alignment explanation
Indices: 4233405--4233512 Score: 180
Period size: 40 Copynumber: 2.7 Consensus size: 40
4233395 TTTTGCCGTT
4233405 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
1 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
* *
4233445 TTGCGATTCCTGGAATCGCGTTGCGATTTTCTCAATCGCG
1 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
* *
4233485 TTGCGATTCTTTGAATCGCATTGCGATT
1 TTGCGATTCTTGGAATCGCGTTGCGATT
4233513 CTTGGAAGAT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (40 bp):
TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
Found at i:4233502 original size:60 final size:62
Alignment explanation
Indices: 4233418--4233538 Score: 194
Period size: 60 Copynumber: 2.0 Consensus size: 62
4233408 CGATTCTTGG
4233418 AATCGCGTTGCGATTTTCTCAATCGCATTGCGATTCCTGG-A-ATCGCGTTGCGATTTTCTC
1 AATCGCGTTGCGATTTTCTCAATCGCATTGCGATTCCTGGAAGATCGCGTTGCGATTTTCTC
* *
4233478 AATCGCGTTGCGATTCTT-TGAATCGCATTGCGATTCTTGGAAGATCGCGTTGCGATTTTCT
1 AATCGCGTTGCGATT-TTCTCAATCGCATTGCGATTCCTGGAAGATCGCGTTGCGATTTTCT
4233539 TTTGACCGTT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
60 35 0.62
61 3 0.05
62 18 0.32
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.37
Consensus pattern (62 bp):
AATCGCGTTGCGATTTTCTCAATCGCATTGCGATTCCTGGAAGATCGCGTTGCGATTTTCTC
Found at i:4233590 original size:20 final size:19
Alignment explanation
Indices: 4233418--4233596 Score: 121
Period size: 20 Copynumber: 8.9 Consensus size: 19
4233408 CGATTCTTGG
4233418 AATCGCGTTGCGATTTTCT
1 AATCGCGTTGCGATTTTCT
* *
4233437 CAATCGCATTGCGA-TTCCT
1 -AATCGCGTTGCGATTTTCT
4233456 GGAATCGCGTTGCGATTTTCT
1 --AATCGCGTTGCGATTTTCT
4233477 CAATCGCGTTGCGATTCTT-T
1 -AATCGCGTTGCGATT-TTCT
* **
4233497 GAATCGCATTGCGATTCTTGGA
1 -AATCGCGTTGCGATT-TT-CT
4233519 AGATCGCGTTGCGATTTTCT
1 A-ATCGCGTTGCGATTTTCT
* *
4233539 -TTTGACCGTTGCGATTTTCT
1 AATCG--CGTTGCGATTTTCT
** * *
4233559 TTTCAACATTGCGATTTTCT
1 AATC-GCGTTGCGATTTTCT
4233579 AAATCGCGTTGCGATTTT
1 -AATCGCGTTGCGATTTT
4233597 TGTTTCGCAT
Statistics
Matches: 127, Mismatches: 21, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
18 2 0.02
19 4 0.03
20 95 0.75
21 13 0.10
22 13 0.10
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.40
Consensus pattern (19 bp):
AATCGCGTTGCGATTTTCT
Found at i:4235428 original size:24 final size:23
Alignment explanation
Indices: 4235380--4235466 Score: 86
Period size: 23 Copynumber: 3.7 Consensus size: 23
4235370 CATTTATATC
*
4235380 CGTTTATGTTCATTTATTGTGTT
1 CGTTTACGTTCATTTATTGTGTT
4235403 CGTTTACGTTCATTCGT-TTGTGTT
1 CGTTTACGTTCATT--TATTGTGTT
* **
4235427 CGTTAACGTTTGTTTATTGTGTT
1 CGTTTACGTTCATTTATTGTGTT
* * *
4235450 CATTTATGTTCGTTTAT
1 CGTTTACGTTCATTTAT
4235467 GTTCGTTCAT
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
22 1 0.02
23 33 0.62
24 18 0.34
25 1 0.02
ACGTcount: A:0.13, C:0.11, G:0.18, T:0.57
Consensus pattern (23 bp):
CGTTTACGTTCATTTATTGTGTT
Found at i:4236320 original size:20 final size:20
Alignment explanation
Indices: 4236283--4236321 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4236273 ACGGGGTGAC
*
4236283 ATACGAGCCATACAAGCCAT
1 ATACGAGCCACACAAGCCAT
*
4236303 ATACGAGCCACACGAGCCA
1 ATACGAGCCACACAAGCCA
4236322 ATGGAGAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.33, G:0.18, T:0.10
Consensus pattern (20 bp):
ATACGAGCCACACAAGCCAT
Found at i:4236364 original size:28 final size:28
Alignment explanation
Indices: 4236324--4236380 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
4236314 ACGAGCCAAT
* *
4236324 GGAGAGGTCGCCATGCAGTCTTATACGA
1 GGAGAGGTCGCCATGCAGGCTTAGACGA
4236352 GGAGAGGTCGCCATGCAGGCTTAGACGA
1 GGAGAGGTCGCCATGCAGGCTTAGACGA
4236380 G
1 G
4236381 TCGTACGAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.21, G:0.37, T:0.18
Consensus pattern (28 bp):
GGAGAGGTCGCCATGCAGGCTTAGACGA
Found at i:4236449 original size:29 final size:29
Alignment explanation
Indices: 4236399--4236478 Score: 126
Period size: 29 Copynumber: 2.8 Consensus size: 29
4236389 GCCAATAGAG
* *
4236399 AGGTCGCCATGCAG-CCTAGGCGACCTTGT
1 AGGTCGCCATGTAGTCC-CGGCGACCTTGT
4236428 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
4236457 AGGTCGCCATGTAGTCCCGGCG
1 AGGTCGCCATGTAGTCCCGGCG
4236479 CCATTCCCAT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
29 46 0.96
30 2 0.04
ACGTcount: A:0.15, C:0.31, G:0.33, T:0.21
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:4236590 original size:27 final size:27
Alignment explanation
Indices: 4236554--4236609 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
4236544 CCTACAGCTC
4236554 CCAATGCATGCATGTGAACCATTTGAG
1 CCAATGCATGCATGTGAACCATTTGAG
*
4236581 CCAATTCATGCATGTGAACCATTTGAG
1 CCAATGCATGCATGTGAACCATTTGAG
4236608 CC
1 CC
4236610 GTGAATTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.27
Consensus pattern (27 bp):
CCAATGCATGCATGTGAACCATTTGAG
Found at i:4236781 original size:23 final size:23
Alignment explanation
Indices: 4236755--4236800 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
4236745 AAAAGAAAGA
4236755 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGGGAGAAGAGATTGCAG
*
4236778 AAGAAAGGGATAAGAGATTGCAG
1 AAGAAAGGGAGAAGAGATTGCAG
4236801 TCGAGAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.48, C:0.04, G:0.37, T:0.11
Consensus pattern (23 bp):
AAGAAAGGGAGAAGAGATTGCAG
Found at i:4237016 original size:41 final size:41
Alignment explanation
Indices: 4236971--4237059 Score: 92
Period size: 41 Copynumber: 2.2 Consensus size: 41
4236961 TATATGATTG
* *
4236971 TTAGTTTAAG-TT-ATAGTATACATAAATTAAAAATTATTTAA
1 TTAGTTTAAGTTTGATAGT-TACAT-AATTAAAAAATAATTAA
* * * *
4237012 TTAGTATATGTTTGATAGTTATATAGTTAAAAAATAATTAA
1 TTAGTTTAAGTTTGATAGTTACATAATTAAAAAATAATTAA
4237053 TTAGTTT
1 TTAGTTT
4237060 GTTTTGTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 28 0.72
42 6 0.15
43 5 0.13
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.46
Consensus pattern (41 bp):
TTAGTTTAAGTTTGATAGTTACATAATTAAAAAATAATTAA
Found at i:4237083 original size:47 final size:47
Alignment explanation
Indices: 4237040--4237131 Score: 127
Period size: 46 Copynumber: 2.0 Consensus size: 47
4237030 TTATATAGTT
*
4237040 AAAAAA-TAATTAATTAGTTTGT-TTTGTT-AATAGTTAGTTATATA
1 AAAAAATTAATTAATTAGTTTGTGTTAGTTAAATAGTTAGTTATATA
*
4237084 AAAAAATTTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAAA-TTAATTAATTAGTTTGTGTTAGTTAAATAGTT-AGTTATAT
4237132 TTGTTTGTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
44 6 0.15
46 15 0.37
47 5 0.12
48 7 0.17
49 8 0.20
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (47 bp):
AAAAAATTAATTAATTAGTTTGTGTTAGTTAAATAGTTAGTTATATA
Found at i:4237207 original size:32 final size:33
Alignment explanation
Indices: 4237171--4237247 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 33
4237161 TTAGTTAGTA
4237171 AGTTTATTAGTAG-TATA-TTATAATGAAAA-AAT
1 AGTTTATTAGTAGTTATAGTTAT-AT-AAAAGAAT
*
4237203 AGTTTATTAGTTAGTTTTAGTTATATAAAAGAAT
1 AGTTTATTAG-TAGTTATAGTTATATAAAAGAAT
*
4237237 ATTTTATTAGT
1 AGTTTATTAGT
4237248 TGTTTAAGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
32 10 0.26
33 8 0.21
34 17 0.44
35 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (33 bp):
AGTTTATTAGTAGTTATAGTTATATAAAAGAAT
Found at i:4237325 original size:16 final size:16
Alignment explanation
Indices: 4237293--4237339 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
4237283 TTTAAAAAGT
*
4237293 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
4237309 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
4237325 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
4237340 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:4237334 original size:15 final size:14
Alignment explanation
Indices: 4237314--4237344 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
4237304 GTTTATTAGT
4237314 TTATTATATTATAAG
1 TTATTATATTA-AAG
4237329 TTATTATATTAAAG
1 TTATTATATTAAAG
4237343 TT
1 TT
4237345 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:4239509 original size:17 final size:17
Alignment explanation
Indices: 4239487--4239519 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4239477 CAATGATTTT
*
4239487 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
4239504 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
4239520 AATATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:4239536 original size:24 final size:22
Alignment explanation
Indices: 4239504--4239572 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
4239494 AAATCATTAC
4239504 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
* *
4239526 TAGTAAATCAACTATTTTAAATCA-T
1 TAGT--ATCAAATA-ATTAAAT-ATT
4239551 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
4239573 AACAATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
21 1 0.03
22 11 0.29
23 7 0.18
24 7 0.18
25 11 0.29
26 1 0.03
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (22 bp):
TAGTATCAAATAATTAAATATT
Found at i:4239792 original size:35 final size:37
Alignment explanation
Indices: 4239711--4239797 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 37
4239701 TTAGTATTCT
* * *
4239711 ATAATTATTAGT-AATAATTATTAAATCATTAGTATTAA
1 ATAATTATTA-TAAATAATTACTAAATCAATAG-ACTAA
*
4239749 ATCATTATTATAAATAATTACTAAAT-AATA-ACTAA
1 ATAATTATTATAAATAATTACTAAATCAATAGACTAA
4239784 ATAATTATTATAAA
1 ATAATTATTATAAA
4239798 ATCATTATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
35 17 0.40
37 4 0.09
38 22 0.51
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (37 bp):
ATAATTATTATAAATAATTACTAAATCAATAGACTAA
Done.