Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 12 of 221
Found at i:3987252 original size:25 final size:24
Alignment explanation
Indices: 3987213--3987261 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
3987203 TATAATTAAG
3987213 TTATGAAAAAAATATATAATATTTTT
1 TTATGAAAAAAATATAT--TATTTTT
*
3987239 TTAT-AAATAAATATATTATTTTT
1 TTATGAAAAAAATATATTATTTTT
3987262 ATAATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 7 0.32
25 11 0.50
26 4 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TTATGAAAAAAATATATTATTTTT
Found at i:3987260 original size:21 final size:21
Alignment explanation
Indices: 3987222--3987265 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3987212 GTTATGAAAA
*
3987222 AAATATATAATATTTTTTTAT
1 AAATAAATAATATTTTTTTAT
3987243 AAATAAAT-ATATTATTTTTAT
1 AAATAAATAATATT-TTTTTAT
3987264 AA
1 AA
3987266 TATATATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AAATAAATAATATTTTTTTAT
Found at i:3987270 original size:18 final size:19
Alignment explanation
Indices: 3987226--3987275 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
3987216 TGAAAAAAAT
3987226 ATATAATATT-TTTTTATAA
1 ATAT-ATATTATTTTTATAA
3987245 ATAAATATATTATTTTTAT-A
1 AT--ATATATTATTTTTATAA
3987265 ATATATATTAT
1 ATATATATTAT
3987276 GGACTCGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
18 9 0.32
19 2 0.07
20 8 0.29
21 9 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATATATTATTTTTATAA
Found at i:3990711 original size:6 final size:6
Alignment explanation
Indices: 3990664--3990692 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
3990654 GCCGGTTTTT
3990664 AATTAA AATTAA AATTAA AATTAA AATTA
1 AATTAA AATTAA AATTAA AATTAA AATTA
3990693 TTTTTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AATTAA
Found at i:3990730 original size:22 final size:23
Alignment explanation
Indices: 3990677--3990732 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
3990667 TAAAATTAAA
* * *
3990677 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
3990700 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
3990722 ATTAAAATTAA
1 ATTAAAATTAA
3990733 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:3990745 original size:16 final size:16
Alignment explanation
Indices: 3990708--3990747 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
3990698 TTAATAAAAT
* *
3990708 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
3990724 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
3990740 TAAAATTA
1 TAAAATTA
3990748 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:3990817 original size:66 final size:67
Alignment explanation
Indices: 3990736--3990878 Score: 261
Period size: 68 Copynumber: 2.1 Consensus size: 67
3990726 AAATTAATTG
3990736 TTAGTAAAATTATCAAATTATTAATTG-TTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
1 TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
3990800 GA
66 GA
*
3990802 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAATTG-ATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
3990867 TGA
65 TGA
3990870 TTAGTAAAA
1 TTAGTAAAA
3990879 CAAACTTGAT
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
66 26 0.36
68 47 0.64
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.45
Consensus pattern (67 bp):
TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
GA
Found at i:3990853 original size:9 final size:9
Alignment explanation
Indices: 3990820--3990847 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
3990810 TTTATCAAAT
3990820 TATTAATTG
1 TATTAATTG
3990829 TATTAATTG
1 TATTAATTG
3990838 TATTAATTG
1 TATTAATTG
3990847 T
1 T
3990848 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:3991237 original size:19 final size:18
Alignment explanation
Indices: 3991213--3991265 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
3991203 TTAAAAAAGC
3991213 ATAAAAAT-TATTAAATA
1 ATAAAAATATATTAAATA
*
3991230 TATAAAAATATATTTAATA
1 -ATAAAAATATATTAAATA
*
3991249 ATAAAAAATATAATAAA
1 AT-AAAAATATATTAAA
3991266 AGTCTATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 10 0.33
19 20 0.67
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAAAAATATATTAAATA
Found at i:3994016 original size:30 final size:30
Alignment explanation
Indices: 3993976--3994077 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
3993966 TTTTTTTAAA
* *
3993976 AAATTGCATTTTGACCCTTAAACTTTTC-CT
1 AAATTTCATTTTGACCCTTAAAC-TTTCATT
*
3994006 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCTTAAACTTTCATT
* * * *
3994036 AAATTTCACTTAGACCCCTAAACCTTCATT
1 AAATTTCATTTTGACCCTTAAACTTTCATT
3994066 AAATTTCATTTT
1 AAATTTCATTTT
3994078 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 4 0.06
30 58 0.94
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTGACCCTTAAACTTTCATT
Found at i:3995321 original size:17 final size:17
Alignment explanation
Indices: 3995301--3995340 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
3995291 CGTTTTTAAA
3995301 AAAAATT-TCATGTCTTC
1 AAAAATTCTCATGT-TTC
*
3995318 AAAATTTCTCATGTTTC
1 AAAAATTCTCATGTTTC
3995335 AAAAAT
1 AAAAAT
3995341 AATAATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.40
Consensus pattern (17 bp):
AAAAATTCTCATGTTTC
Found at i:3995417 original size:16 final size:16
Alignment explanation
Indices: 3995396--3995444 Score: 73
Period size: 16 Copynumber: 3.0 Consensus size: 16
3995386 TTCTTTCTAA
3995396 AAAAATTCGTGTTTTC
1 AAAAATTCGTGTTTTC
3995412 AAAAATTTCCGTG-TTTC
1 AAAAA-TT-CGTGTTTTC
3995429 AAAAATTCGTGTTTTC
1 AAAAATTCGTGTTTTC
3995445 GTGTTTTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.13
16 11 0.37
17 11 0.37
18 4 0.13
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (16 bp):
AAAAATTCGTGTTTTC
Found at i:3995505 original size:18 final size:17
Alignment explanation
Indices: 3995476--3995586 Score: 93
Period size: 18 Copynumber: 6.4 Consensus size: 17
3995466 TGTTTCAAAA
*
3995476 AAAAAATATCGTGTTTT
1 AAAAAATTTCGTGTTTT
*
3995493 AAGAAAATTTCGTTTTTTCT
1 AA-AAAATTTCG-TGTTT-T
*
3995513 AAAAATTTTCGTGTTTCT
1 AAAAAATTTCGTGTTT-T
*
3995531 -AAAATTTTCGTG-TTT
1 AAAAAATTTCGTGTTTT
*
3995546 -ACAAATTCTCGTGTTTT
1 AAAAAATT-TCGTGTTTT
*
3995563 CAAAAATTCTCGTGTTTT
1 AAAAAATT-TCGTGTTTT
3995581 AAAAAA
1 AAAAAA
3995587 AAACTTTCGT
Statistics
Matches: 80, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
15 6 0.08
16 7 0.09
17 17 0.21
18 35 0.44
19 12 0.15
20 3 0.04
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (17 bp):
AAAAAATTTCGTGTTTT
Found at i:3995557 original size:16 final size:17
Alignment explanation
Indices: 3995508--3995585 Score: 86
Period size: 17 Copynumber: 4.5 Consensus size: 17
3995498 AATTTCGTTT
*
3995508 TTTCTAAAAATTTTCGTG
1 TTTC-AAAAATTCTCGTG
* *
3995526 TTTCTAAAATTTTCGTG
1 TTTCAAAAATTCTCGTG
*
3995543 TTT-ACAAATTCTCGTG
1 TTTCAAAAATTCTCGTG
3995559 TTTTCAAAAATTCTCGTG
1 -TTTCAAAAATTCTCGTG
*
3995577 TTTTAAAAA
1 TTTCAAAAA
3995586 AAAACTTTCG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
16 10 0.19
17 26 0.50
18 16 0.31
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.47
Consensus pattern (17 bp):
TTTCAAAAATTCTCGTG
Found at i:3999310 original size:16 final size:16
Alignment explanation
Indices: 3999285--3999343 Score: 75
Period size: 16 Copynumber: 3.7 Consensus size: 16
3999275 CGACAGTCAT
3999285 AAAAAGAAAAAGAAAA
1 AAAAAGAAAAAGAAAA
*
3999301 AAAAACAAAAAGAAAA
1 AAAAAGAAAAAGAAAA
* *
3999317 AAAAAGGACAAGAAAA
1 AAAAAGAAAAAGAAAA
3999333 AATAAA-AAAAA
1 AA-AAAGAAAAA
3999344 ATCAAATGCC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
16 33 0.92
17 3 0.08
ACGTcount: A:0.85, C:0.03, G:0.10, T:0.02
Consensus pattern (16 bp):
AAAAAGAAAAAGAAAA
Found at i:3999332 original size:22 final size:22
Alignment explanation
Indices: 3999285--3999344 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
3999275 CGACAGTCAT
3999285 AAAAAGAAAAAGAAAAAAAAAC-
1 AAAAAGAAAAA-AAAAAAAAACA
* * *
3999307 AAAAAGAAAAAAAAAGGACAAGA
1 AAAAAGAAAAAAAAA-AAAAACA
*
3999330 AAAAATAAAAAAAAA
1 AAAAAGAAAAAAAAA
3999345 TCAAATGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 4 0.12
22 14 0.44
23 14 0.44
ACGTcount: A:0.85, C:0.03, G:0.10, T:0.02
Consensus pattern (22 bp):
AAAAAGAAAAAAAAAAAAAACA
Found at i:4001626 original size:72 final size:72
Alignment explanation
Indices: 4001529--4001717 Score: 269
Period size: 72 Copynumber: 2.7 Consensus size: 72
4001519 TGATGCTTTT
*
4001529 ATTTCTG-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
1 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGT
4001593 AATTTCA
66 AATTTCA
4001600 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGT
1 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGT
* *
4001665 ATTTTTA
66 AATTTCA
* * * ** *
4001672 GTTTATGTTTT--AAATT-GACTCATATTGCGAGAGGTGAGTTAAGCCT
1 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
4001718 TTTAATTTTT
Statistics
Matches: 108, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
69 26 0.24
70 5 0.05
71 7 0.06
72 70 0.65
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (72 bp):
ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGT
AATTTCA
Found at i:4001988 original size:72 final size:72
Alignment explanation
Indices: 4001717--4002050 Score: 474
Period size: 72 Copynumber: 4.8 Consensus size: 72
4001707 GAGTTAAGCC
*
4001717 TTTT-AATTTTTGTTTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
4001780 TTGAGG--
65 TTGAGGTA
4001786 ---T-AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
1 TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
4001847 TGAGGTA
66 TGAGGTA
*
4001854 TTTTCAATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
4001919 TTGAGGTA
65 TTGAGGTA
* *
4001927 ATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACAT
1 TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
4001992 TGAGGTA
66 TGAGGTA
* * * * ** *
4001999 TTTTTAGTTTATGTTTT--AAATT-GACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
4002051 TTTAATTTTT
Statistics
Matches: 244, Mismatches: 13, Indels: 16
0.89 0.05 0.06
Matches are distributed among these distances:
65 9 0.04
66 55 0.23
69 26 0.11
70 5 0.02
71 1 0.00
72 78 0.32
73 70 0.29
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.35
Consensus pattern (72 bp):
TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
TGAGGTA
Found at i:4002182 original size:75 final size:71
Alignment explanation
Indices: 4002054--4002289 Score: 337
Period size: 72 Copynumber: 3.2 Consensus size: 71
4002044 TAAGCCTTTT
* * *
4002054 AATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTG-TTTTAAAAATTAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
4002119 TAATTTC
65 TAATTTC
4002126 AATTTCTGTTGTTAGAAAAAATTAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTG
1 AATTTCTGTT-TT---AAAAATTAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTG
4002191 AGGTAATTTC
62 AGGTAATTTC
* * * *
4002201 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTAAAAATT-AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
*
4002266 TATTTTC
65 TAATTTC
*
4002273 AATTTCTGTTTCAAAAA
1 AATTTCTGTTTTAAAAA
4002290 AAAAGAGAAT
Statistics
Matches: 149, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
71 8 0.05
72 72 0.48
74 2 0.01
75 67 0.45
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (71 bp):
AATTTCTGTTTTAAAAATTAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGT
AATTTC
Found at i:4002273 original size:72 final size:72
Alignment explanation
Indices: 4002054--4002288 Score: 350
Period size: 75 Copynumber: 3.2 Consensus size: 72
4002044 TAAGCCTTTT
*
4002054 AATTTTTGTTTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
4002118 GTAATTTC
65 GTAATTTC
*
4002126 AATTTCTGTTGTTAGAAAAAATT-AACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCT
1 AATTTCTGTT-TT---CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCT
4002190 GAGGTAATTTC
62 GAGGTAATTTC
* * *
4002201 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
*
4002266 TATTTTC
66 TAATTTC
4002273 AATTTCTG-TTTCAAAA
1 AATTTCTGTTTTCAAAA
4002289 AAAAAGAGAA
Statistics
Matches: 150, Mismatches: 7, Indels: 13
0.88 0.04 0.08
Matches are distributed among these distances:
71 16 0.11
72 65 0.43
74 2 0.01
75 66 0.44
76 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (72 bp):
AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTC
Found at i:4002401 original size:135 final size:128
Alignment explanation
Indices: 4002201--4002726 Score: 443
Period size: 145 Copynumber: 4.0 Consensus size: 128
4002191 AGGTAATTTC
* *
4002201 AATTTCTG-TTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTTTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
*
4002265 GTATTTTCAATTTCTGTTTCAAAAAAAAAGAGAATCAACTCATATTGCGAGAGGTGGGTTGAA-C
66 GTATTTTCAATTTCTGTTTC-----AAAAGA-AATCAACTCATATTGCGAGAGGTGAGTT-AAGC
4002329 CTTTT
124 CTTTT
* ** * **
4002334 AATTTCTACT-TTTTTCAAAA-TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCC
1 AATTT-T--TGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
* * * * **
4002397 GAGGTATTTTTAGTTTATGTTT-----TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTT
63 GAGGTATTTTCAATTTCTGTTTCAAAAGAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTT
4002457 T
128 T
4002458 AATTTTTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTTTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
* *
4002523 GTATTTTCAATTTCTGCTTTTC--AA-AATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
66 GTATTTTCAATTTCTG--TTTCAAAAGAAATCAACTCATATTGCGAG--A-G-G-TGAG--TTAA
*
4002585 GACACGTTGAGGT
122 G-C-C-TT---TT
* *
4002598 AATTTCAATCTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACA
1 AATTT---T-TGT-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
* * * *
4002663 TTGAGGTATTTTCAATTTCTGCTTTTC--AA-AACTTAACTCATATTGCGAGAGATGAGTTGAGC
61 TTGAGGTATTTTCAATTTCTG--TTTCAAAAGAAATCAACTCATATTGCGAGAGGTGAGTTAAGC
4002725 CT
124 CT
4002727 CAAGGCACGC
Statistics
Matches: 327, Mismatches: 36, Indels: 58
0.78 0.09 0.14
Matches are distributed among these distances:
121 1 0.00
122 10 0.03
123 56 0.17
124 36 0.11
125 4 0.01
127 17 0.05
129 1 0.00
130 1 0.00
131 1 0.00
132 4 0.01
133 5 0.02
134 4 0.01
135 57 0.17
136 12 0.04
137 3 0.01
138 3 0.01
140 10 0.03
142 1 0.00
143 2 0.01
144 2 0.01
145 97 0.30
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (128 bp):
AATTTTTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
GTATTTTCAATTTCTGTTTCAAAAGAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTT
Found at i:4002647 original size:145 final size:146
Alignment explanation
Indices: 4002462--4002751 Score: 512
Period size: 145 Copynumber: 2.0 Consensus size: 146
4002452 CCTTTTAATT
*
4002462 TTTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAT
1 TTTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAT
4002527 TTTCAATTTCTGCTTTTCAAAA-TTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
66 TTTCAATTTCTGCTTTTCAAAACTT-AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
*
4002591 TTGAGGTAATTTCAATC
130 CTGAGGTAATTTCAATC
4002608 TTTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAT
1 TTTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAT
* *
4002672 TTTCAATTTCTGCTTTTCAAAACTTAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGGCACGC
66 TTTCAATTTCTGCTTTTCAAAACTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
*
4002737 TGAGGTATTTTCAAT
131 TGAGGTAATTTCAAT
4002752 TTCTGCTTTA
Statistics
Matches: 138, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
145 132 0.96
146 6 0.04
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (146 bp):
TTTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAT
TTTCAATTTCTGCTTTTCAAAACTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
TGAGGTAATTTCAATC
Found at i:4002657 original size:72 final size:73
Alignment explanation
Indices: 4002454--4002760 Score: 505
Period size: 73 Copynumber: 4.2 Consensus size: 73
4002444 GAGTTAAGCC
* *
4002454 TTTT-AATTTTTGTTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
4002518 TTGAGGTA
66 TTGAGGTA
4002526 TTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
4002591 TTGAGGTA
66 TTGAGGTA
*
4002599 ATTTCAATCTT-TG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
1 TTTTCAAT-TTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
*
4002662 ATTGAGGTA
65 GTTGAGGTA
* *
4002671 TTTTCAATTTCTGCTTTTCAAAACTT-AACTCATATTGCGAGAGATGAGTTGAGCCTCAAGGCAC
1 TTTTCAATTTCTGCTTTTCAAAA-TTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
*
4002735 GCTGAGGTA
65 GTTGAGGTA
4002744 TTTTCAATTTCTGCTTT
1 TTTTCAATTTCTGCTTT
4002761 ACTAATTCTA
Statistics
Matches: 221, Mismatches: 9, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
71 2 0.01
72 71 0.32
73 144 0.65
74 4 0.02
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (73 bp):
TTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
TTGAGGTA
Found at i:4002891 original size:92 final size:87
Alignment explanation
Indices: 4002671--4002990 Score: 348
Period size: 87 Copynumber: 3.6 Consensus size: 87
4002661 CATTGAGGTA
* * * *
4002671 TTTTCAATTTCTGCT-TTTCAAAACTTAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGG-CA
1 TTTTCAATTTCTG-TGTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGACA
* *
4002734 CGCTGAGGTATTTTCAATTTCTGC
64 CGCTGAGGTATTTTCAAATTCTAC
* * *
4002758 TTTACTAA-TTCTACT-TTTC--AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCA
1 TTTTC-AATTTCT-GTGTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG--A
* *
4002819 CACGCTGAGGTCTTTTCAAATTCT-G
62 CACGCTGAGGTATTTTCAAATTCTAC
* *
4002844 TTTTTAATTTCTGTGTTTCAAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGG
1 TTTTCAATTTCTGTGTTTC----AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGA
*
4002909 CACGCTGAGGTATTTTCAATTTCTAC
62 CACGCTGAGGTATTTTCAAATTCTAC
* * *
4002935 TTTTCAGTTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTTCAATTTCTGTGTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
4002991 TTTAATTTCT
Statistics
Matches: 197, Mismatches: 22, Indels: 28
0.80 0.09 0.11
Matches are distributed among these distances:
84 3 0.02
85 34 0.17
86 11 0.06
87 71 0.36
88 2 0.01
90 22 0.11
91 16 0.08
92 38 0.19
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (87 bp):
TTTTCAATTTCTGTGTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTATTTTCAAATTCTAC
Found at i:4003017 original size:54 final size:54
Alignment explanation
Indices: 4002942--4003315 Score: 644
Period size: 54 Copynumber: 6.9 Consensus size: 54
4002932 TACTTTTCAG
4002942 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
1 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
4002996 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
1 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
* *
4003050 TTTCTGTTTTTCAAAAATCAACTTATATTGCGAGAGATGAGTTGAGCCTTTTAA
1 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
* *
4003104 TTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
1 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
4003158 TTTCTGTTTTTCAAAAATCAAC-CATATTGCGAGAGGTGAGTTGAGCCTTTTAA
1 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
* *
4003211 TTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGCAA
1 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT--AA
* *
4003267 ATTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
1 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
4003316 GGCTCACGTG
Statistics
Matches: 303, Mismatches: 14, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
53 51 0.17
54 205 0.68
55 41 0.14
56 6 0.02
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (54 bp):
TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
Found at i:4003629 original size:30 final size:30
Alignment explanation
Indices: 4003589--4003690 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
4003579 TTTTAAAAAA
* *
4003589 AAATTGCATTTTGACCCTTAAACTTTTC-CT
1 AAATTTCATTTTGACCCTTAAAC-TTTCATT
*
4003619 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCTTAAACTTTCATT
* * * *
4003649 AAATTTCACTTAGACCCCTAAACCTTCATT
1 AAATTTCATTTTGACCCTTAAACTTTCATT
4003679 AAATTTCATTTT
1 AAATTTCATTTT
4003691 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 4 0.06
30 58 0.94
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTGACCCTTAAACTTTCATT
Found at i:4004932 original size:17 final size:17
Alignment explanation
Indices: 4004912--4004951 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
4004902 CGTTTTTAAA
4004912 AAAAATT-TCATGTCTTC
1 AAAAATTCTCATGT-TTC
*
4004929 AAAATTTCTCATGTTTC
1 AAAAATTCTCATGTTTC
4004946 AAAAAT
1 AAAAAT
4004952 AATAATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.40
Consensus pattern (17 bp):
AAAAATTCTCATGTTTC
Found at i:4005027 original size:16 final size:16
Alignment explanation
Indices: 4005006--4005054 Score: 73
Period size: 16 Copynumber: 3.0 Consensus size: 16
4004996 TTCTTTCTAA
4005006 AAAAATTCGTGTTTTC
1 AAAAATTCGTGTTTTC
4005022 AAAAATTTCCGTG-TTTC
1 AAAAA-TT-CGTGTTTTC
4005039 AAAAATTCGTGTTTTC
1 AAAAATTCGTGTTTTC
4005055 GTGTTTTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.13
16 11 0.37
17 11 0.37
18 4 0.13
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (16 bp):
AAAAATTCGTGTTTTC
Found at i:4005098 original size:20 final size:20
Alignment explanation
Indices: 4005053--4005101 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
4005043 ATTCGTGTTT
*
4005053 TCGTGTTTTCAAAAAAAATTC
1 TCGTG-TTTCAAAAAAAAATC
* *
4005074 CCGTGTTTCAAAAAAAAATG
1 TCGTGTTTCAAAAAAAAATC
4005094 TCGTGTTT
1 TCGTGTTT
4005102 TAAGAAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (20 bp):
TCGTGTTTCAAAAAAAAATC
Found at i:4005109 original size:20 final size:18
Alignment explanation
Indices: 4005052--4005144 Score: 60
Period size: 19 Copynumber: 4.8 Consensus size: 18
4005042 AATTCGTGTT
4005052 TTCGTGTTTTCAAAAAAAA
1 TTCGTGTTTT-AAAAAAAA
*
4005071 TTCCCGTGTTTCAAAAAAAAA
1 TT--CGTGTTT-TAAAAAAAA
* *
4005092 TGTCGTGTTTTAAGAAAAT
1 T-TCGTGTTTTAAAAAAAA
* * **
4005111 TTCGTTTTTTCTAAAAATT
1 TTCGTGTTTT-AAAAAAAA
4005130 TTCGTGTTTCTAAAA
1 TTCGTGTTT-TAAAA
4005145 TTTTCGTGTT
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
18 8 0.14
19 25 0.43
20 8 0.14
21 16 0.28
22 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (18 bp):
TTCGTGTTTTAAAAAAAA
Found at i:4005109 original size:21 final size:19
Alignment explanation
Indices: 4005052--4005109 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 19
4005042 AATTCGTGTT
*
4005052 TTCGTGTTTTCAAAAAAAA
1 TTCGTGTTTTAAAAAAAAA
*
4005071 TTCCCGTGTTTCAAAAAAAAA
1 TT--CGTGTTTTAAAAAAAAA
*
4005092 TGTCGTGTTTTAAGAAAA
1 T-TCGTGTTTTAAAAAAA
4005110 TTTCGTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
19 2 0.06
20 13 0.41
21 16 0.50
22 1 0.03
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (19 bp):
TTCGTGTTTTAAAAAAAAA
Found at i:4005115 original size:18 final size:17
Alignment explanation
Indices: 4005086--4005196 Score: 93
Period size: 18 Copynumber: 6.4 Consensus size: 17
4005076 GTGTTTCAAA
*
4005086 AAAAAATGTCGTGTTTT
1 AAAAAATTTCGTGTTTT
*
4005103 AAGAAAATTTCGTTTTTTCT
1 AA-AAAATTTCG-TGTTT-T
*
4005123 AAAAATTTTCGTGTTTCT
1 AAAAAATTTCGTGTTT-T
*
4005141 -AAAATTTTCGTG-TTT
1 AAAAAATTTCGTGTTTT
*
4005156 -ACAAATTCTCGTGTTTT
1 AAAAAATT-TCGTGTTTT
*
4005173 CAAAAATTCTCGTGTTTT
1 AAAAAATT-TCGTGTTTT
4005191 AAAAAA
1 AAAAAA
4005197 AAACTTTCGT
Statistics
Matches: 80, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
15 6 0.08
16 7 0.09
17 17 0.21
18 35 0.44
19 12 0.15
20 3 0.04
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (17 bp):
AAAAAATTTCGTGTTTT
Found at i:4005167 original size:16 final size:17
Alignment explanation
Indices: 4005118--4005195 Score: 86
Period size: 17 Copynumber: 4.5 Consensus size: 17
4005108 AATTTCGTTT
*
4005118 TTTCTAAAAATTTTCGTG
1 TTTC-AAAAATTCTCGTG
* *
4005136 TTTCTAAAATTTTCGTG
1 TTTCAAAAATTCTCGTG
*
4005153 TTT-ACAAATTCTCGTG
1 TTTCAAAAATTCTCGTG
4005169 TTTTCAAAAATTCTCGTG
1 -TTTCAAAAATTCTCGTG
*
4005187 TTTTAAAAA
1 TTTCAAAAA
4005196 AAAACTTTCG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
16 10 0.19
17 26 0.50
18 16 0.31
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.47
Consensus pattern (17 bp):
TTTCAAAAATTCTCGTG
Found at i:4007211 original size:9 final size:9
Alignment explanation
Indices: 4007197--4007221 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4007187 AATGTAATTA
4007197 TAAAATAGT
1 TAAAATAGT
4007206 TAAAATAGT
1 TAAAATAGT
4007215 TAAAATA
1 TAAAATA
4007222 AAAAATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (9 bp):
TAAAATAGT
Found at i:4012078 original size:42 final size:42
Alignment explanation
Indices: 4012007--4012190 Score: 188
Period size: 42 Copynumber: 4.3 Consensus size: 42
4011997 AAGACGAATA
* * * * *
4012007 AATTATACTGGCATGCGTAGTGCATCATCGAATAAACCAAAGC
1 AATTATACTAGCACGC-AAGTGCATCATCGGATATACCAAAGC
* * * *
4012050 AATTATGCTAGCACGTAAGTGCATCATCGGATGTACCAAAGA
1 AATTATACTAGCACGCAAGTGCATCATCGGATATACCAAAGC
* * * *
4012092 AAATATATTTGCACGCAAGTGCATCATCGGATATACCGAAGC
1 AATTATACTAGCACGCAAGTGCATCATCGGATATACCAAAGC
* * * *
4012134 AACTATACTAGCACACACAATGCATCATCCGATATACCAAAGC
1 AATTATACTAGCACGCA-AGTGCATCATCGGATATACCAAAGC
*
4012177 AATTATACTGGCAC
1 AATTATACTAGCAC
4012191 ACACGGTGCA
Statistics
Matches: 114, Mismatches: 26, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
42 68 0.60
43 46 0.40
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (42 bp):
AATTATACTAGCACGCAAGTGCATCATCGGATATACCAAAGC
Found at i:4012210 original size:41 final size:43
Alignment explanation
Indices: 4012111--4012205 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 43
4012101 TGCACGCAAG
* * *
4012111 TGCATCATCGGATATACCGAAGCAACTATACTAGCACACACAA
1 TGCAACATCCGATATACCAAAGCAACTATACTAGCACACACAA
* * * **
4012154 TGCATCATCCGATATACCAAAGCAATTATACTGGCACACACGG
1 TGCAACATCCGATATACCAAAGCAACTATACTAGCACACACAA
4012197 TGCAACATC
1 TGCAACATC
4012206 ATATATATCG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.37, C:0.28, G:0.15, T:0.20
Consensus pattern (43 bp):
TGCAACATCCGATATACCAAAGCAACTATACTAGCACACACAA
Found at i:4012653 original size:35 final size:35
Alignment explanation
Indices: 4012607--4012676 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
4012597 CAGGTCAATG
4012607 TTAGCCACGAATAATCACAAAACATATAGTACTAT
1 TTAGCCACGAATAATCACAAAACATATAGTACTAT
*
4012642 TTAGCCACGAATAATCGCAAAACATATAGTACTAT
1 TTAGCCACGAATAATCACAAAACATATAGTACTAT
4012677 CACTTTCCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (35 bp):
TTAGCCACGAATAATCACAAAACATATAGTACTAT
Found at i:4013251 original size:22 final size:21
Alignment explanation
Indices: 4013208--4013251 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
4013198 TTGTTTTATT
* **
4013208 TTATACCTTTTATAATTTTAA
1 TTATACCTTTAATAATAATAA
4013229 TTATAACCTTTAATAATAATAA
1 TTAT-ACCTTTAATAATAATAA
4013251 T
1 T
4013252 AAAACAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (21 bp):
TTATACCTTTAATAATAATAA
Found at i:4013762 original size:13 final size:13
Alignment explanation
Indices: 4013755--4013779 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4013745 TTATTCTTGC
4013755 AATTTATTTTGTA
1 AATTTATTTTGTA
4013768 AATTTATTTTGT
1 AATTTATTTTGT
4013780 GTTTCCTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
AATTTATTTTGTA
Found at i:4015866 original size:41 final size:40
Alignment explanation
Indices: 4015809--4016083 Score: 226
Period size: 41 Copynumber: 6.6 Consensus size: 40
4015799 GGATCCCGGT
* * *
4015809 GGAATCAGCACTTAGCAACCACCTTATAATCAATTATACGG
1 GGAATCAACACATAGCAACC-CCTTATAATCAATGATACGG
* *
4015850 GGAATCAACACATAGCAACCCCTTTCACAATCAAGGATACGG
1 GGAATCAACACATAGCAACCCC-TT-ATAATCAATGATACGG
* *
4015892 TGGAATCAACACTTAGCAACCACCTTATAATCAATAATACGG
1 -GGAATCAACACATAGCAACC-CCTTATAATCAATGATACGG
* * * *
4015934 GGAATCAGCACATTGCAACCCCTTTCACAATCAAGGATACGG
1 GGAATCAACACATAGCAACCCC-TT-ATAATCAATGATACGG
* * * * * **
4015976 TAGAATTAGCACTTAGCAAACACCTTATAATCAATGATACAA
1 -GGAATCAACACATAGC-AACCCCTTATAATCAATGATACGG
* * * **
4016018 AGAATCAACACATAGCAACCCCTTTTTGATCAATGATTTGG
1 GGAATCAACACATAGCAACCCC-TTATAATCAATGATACGG
** *
4016059 GGAATCTTCACTTAGCAACCCCTTA
1 GGAATCAACACATAGCAACCCCTTA
4016084 CATTAAAAGA
Statistics
Matches: 186, Mismatches: 39, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
40 11 0.06
41 82 0.44
42 51 0.27
43 35 0.19
44 7 0.04
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (40 bp):
GGAATCAACACATAGCAACCCCTTATAATCAATGATACGG
Found at i:4015914 original size:84 final size:84
Alignment explanation
Indices: 4015805--4016042 Score: 377
Period size: 84 Copynumber: 2.8 Consensus size: 84
4015795 CAAAGGATCC
*
4015805 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATTATACGGGGAATCAACACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATAATACGGGGAATCAACACATAGCAACC
4015870 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
* * *
4015889 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATAATACGGGGAATCAGCACATTGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATAATACGGGGAATCAACACATAGCAACC
4015954 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
* * * * ***
4015973 CGGTAGAATTAGCACTTAGCAAACACCTTATAATCAATGATACAAAGAATCAACACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATAATACGGGGAATCAACACATAGCAACC
4016038 CCTTT
66 CCTTT
4016043 TTGATCAATG
Statistics
Matches: 140, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 140 1.00
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (84 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATAATACGGGGAATCAACACATAGCAACC
CCTTTCACAATCAAGGATA
Found at i:4032268 original size:25 final size:25
Alignment explanation
Indices: 4032230--4032286 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
4032220 TGGCTCTCAT
* *
4032230 GAGCTTCCCGTTAAATGGTTCTTAC
1 GAGCTTCCCATTAAATAGTTCTTAC
* *
4032255 GAGCTTCTCATTAAATAGTTCTTGC
1 GAGCTTCCCATTAAATAGTTCTTAC
4032280 GAGCTTC
1 GAGCTTC
4032287 AGAGCATCCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (25 bp):
GAGCTTCCCATTAAATAGTTCTTAC
Found at i:4034348 original size:33 final size:33
Alignment explanation
Indices: 4034311--4034394 Score: 125
Period size: 33 Copynumber: 2.6 Consensus size: 33
4034301 ATTTGTTATG
*
4034311 AAAATGAACATGTTATATGGAAATATGATAAGA
1 AAAATGAACATGTTATATGGAAATATGATAAAA
*
4034344 AAAATGTACATGTTATATGGAAATATGATAAAA
1 AAAATGAACATGTTATATGGAAATATGATAAAA
* *
4034377 AAAAAGAATATG-TATATG
1 AAAATGAACATGTTATATG
4034395 AAAGTTATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 6 0.13
33 40 0.87
ACGTcount: A:0.52, C:0.02, G:0.17, T:0.29
Consensus pattern (33 bp):
AAAATGAACATGTTATATGGAAATATGATAAAA
Found at i:4037310 original size:45 final size:45
Alignment explanation
Indices: 4037255--4037357 Score: 170
Period size: 45 Copynumber: 2.3 Consensus size: 45
4037245 CTGATACATA
* *
4037255 TTCATGCAATTCACAAGTCTTAATAATTCAATACTTCATTTTCAT
1 TTCATTCAATTCACAAGTCTTAATAATTCAATACTTCATTTCCAT
* *
4037300 TTCATTCAATTCACAAGTCTTAATAATTTAATGCTTCATTTCCAT
1 TTCATTCAATTCACAAGTCTTAATAATTCAATACTTCATTTCCAT
4037345 TTCATTCAATTCA
1 TTCATTCAATTCA
4037358 TAAATTTCTC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.32, C:0.20, G:0.04, T:0.44
Consensus pattern (45 bp):
TTCATTCAATTCACAAGTCTTAATAATTCAATACTTCATTTCCAT
Found at i:4040003 original size:15 final size:15
Alignment explanation
Indices: 4039983--4040013 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4039973 AATAAAAACA
4039983 ATAGAGAAGAGTAGT
1 ATAGAGAAGAGTAGT
4039998 ATAGAGAAGAGTAGT
1 ATAGAGAAGAGTAGT
4040013 A
1 A
4040014 GACACCCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.32, T:0.19
Consensus pattern (15 bp):
ATAGAGAAGAGTAGT
Found at i:4044048 original size:7 final size:7
Alignment explanation
Indices: 4044032--4044068 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
4044022 CTTTTTTTTT
*
4044032 AAGTAAA
1 AAGTTAA
*
4044039 AAGTTGA
1 AAGTTAA
4044046 AAGTTAA
1 AAGTTAA
4044053 AAGTTAA
1 AAGTTAA
4044060 AAGTTAA
1 AAGTTAA
4044067 AA
1 AA
4044069 TAGGTTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.24
Consensus pattern (7 bp):
AAGTTAA
Found at i:4049713 original size:4 final size:4
Alignment explanation
Indices: 4049704--4049768 Score: 94
Period size: 4 Copynumber: 16.2 Consensus size: 4
4049694 GTGCCCCCGT
* * * *
4049704 TACA TACA TACA TACA TACA TTCA TTCA TACA TACC TACA TACA TACG
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
4049752 TACA TACA TACA TACA T
1 TACA TACA TACA TACA T
4049769 GCTACTCAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 55 1.00
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.29
Consensus pattern (4 bp):
TACA
Found at i:4052160 original size:17 final size:18
Alignment explanation
Indices: 4052138--4052178 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
4052128 CTTTTCTTTC
4052138 TTTCTTTTC-TTTTTCTT
1 TTTCTTTTCGTTTTTCTT
4052155 TTTC-TTTCGTTTTTCTT
1 TTTCTTTTCGTTTTTCTT
4052172 TTTCTTT
1 TTTCTTT
4052179 CCGCTTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.18
17 16 0.73
18 2 0.09
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTCTTTTCGTTTTTCTT
Found at i:4052169 original size:7 final size:6
Alignment explanation
Indices: 4052129--4052178 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
4052119 ATTATCCCTC
4052129 TTTTCT TTCTT-T CTTTTCT TTTTCT TTTTC- -TTTCGT TTTTCT TTTTCT
1 TTTTCT TT-TTCT -TTTTCT TTTTCT TTTTCT TTTTC-T TTTTCT TTTTCT
4052177 TT
1 TT
4052179 CCGCTTTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
4 4 0.11
6 25 0.66
7 9 0.24
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTCT
Found at i:4052179 original size:17 final size:16
Alignment explanation
Indices: 4052134--4052179 Score: 67
Period size: 17 Copynumber: 2.9 Consensus size: 16
4052124 CCCTCTTTTC
*
4052134 TTTCTTTCT-TTTCTT
1 TTTCTTTTTCTTTCTT
4052149 TTTCTTTTTCTTTCGTT
1 TTTCTTTTTCTTTC-TT
4052166 TTTCTTTTTCTTTC
1 TTTCTTTTTCTTTC
4052180 CGCTTTCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 8 0.29
16 4 0.14
17 16 0.57
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (16 bp):
TTTCTTTTTCTTTCTT
Found at i:4056581 original size:3 final size:3
Alignment explanation
Indices: 4056568--4056624 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
4056558 CCTCCTAAAC
*
4056568 TCA TTA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
4056616 TCA TCA TCA
1 TCA TCA TCA
4056625 ATTTTACCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:4059819 original size:26 final size:27
Alignment explanation
Indices: 4059790--4059840 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
4059780 ATGTTGTAAT
4059790 ATATAATATTA-AAAAATAAAAGAAGA
1 ATATAATATTATAAAAATAAAAGAAGA
* *
4059816 ATATCATATTATAAAATTAAAAGAA
1 ATATAATATTATAAAAATAAAAGAA
4059841 AGGATTGGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (27 bp):
ATATAATATTATAAAAATAAAAGAAGA
Found at i:4063130 original size:12 final size:13
Alignment explanation
Indices: 4063104--4063135 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
4063094 TTATTTCTTC
4063104 AATTT-TCTCTAA
1 AATTTCTCTCTAA
4063116 AATTTCTCTCT-A
1 AATTTCTCTCTAA
4063128 AATTTCTC
1 AATTTCTC
4063136 AAAGCTCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.28, C:0.22, G:0.00, T:0.50
Consensus pattern (13 bp):
AATTTCTCTCTAA
Found at i:4065084 original size:122 final size:122
Alignment explanation
Indices: 4064867--4065113 Score: 494
Period size: 122 Copynumber: 2.0 Consensus size: 122
4064857 TTCAAACACC
4064867 TCCGCCGTGGGTGATGCAAACGCCTCTGCATTATTTATTCTATCAAGGTGGGTCATCCTGCCACA
1 TCCGCCGTGGGTGATGCAAACGCCTCTGCATTATTTATTCTATCAAGGTGGGTCATCCTGCCACA
4064932 ACCACAACCCTAGCCGGAGCAACCACAACCCCCGTCGGAAGCTGAACCAAGGAGAAA
66 ACCACAACCCTAGCCGGAGCAACCACAACCCCCGTCGGAAGCTGAACCAAGGAGAAA
4064989 TCCGCCGTGGGTGATGCAAACGCCTCTGCATTATTTATTCTATCAAGGTGGGTCATCCTGCCACA
1 TCCGCCGTGGGTGATGCAAACGCCTCTGCATTATTTATTCTATCAAGGTGGGTCATCCTGCCACA
4065054 ACCACAACCCTAGCCGGAGCAACCACAACCCCCGTCGGAAGCTGAACCAAGGAGAAA
66 ACCACAACCCTAGCCGGAGCAACCACAACCCCCGTCGGAAGCTGAACCAAGGAGAAA
4065111 TCC
1 TCC
4065114 AGCGTGTAAC
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 125 1.00
ACGTcount: A:0.28, C:0.32, G:0.22, T:0.18
Consensus pattern (122 bp):
TCCGCCGTGGGTGATGCAAACGCCTCTGCATTATTTATTCTATCAAGGTGGGTCATCCTGCCACA
ACCACAACCCTAGCCGGAGCAACCACAACCCCCGTCGGAAGCTGAACCAAGGAGAAA
Found at i:4065248 original size:24 final size:24
Alignment explanation
Indices: 4065221--4065276 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
4065211 CATTTAATAA
*
4065221 AATAAAAGTTGTTTTTA-ATATTTT
1 AATAAAAGTTATTTTTATAT-TTTT
* *
4065245 AATAGTAATTTATTTTTATATTTTT
1 AATA-AAAGTTATTTTTATATTTTT
4065270 AATAAAA
1 AATAAAA
4065277 TAGAAGTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
24 6 0.23
25 18 0.69
26 2 0.08
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (24 bp):
AATAAAAGTTATTTTTATATTTTT
Found at i:4070098 original size:25 final size:25
Alignment explanation
Indices: 4070062--4070111 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
4070052 GTGTTTTTTT
4070062 GTATAAGATATAATAATAAATTTAA
1 GTATAAGATATAATAATAAATTTAA
*
4070087 GTATAAGGTATAATAATAAATTTAA
1 GTATAAGATATAATAATAAATTTAA
4070112 CTCTTAACCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (25 bp):
GTATAAGATATAATAATAAATTTAA
Found at i:4071946 original size:24 final size:24
Alignment explanation
Indices: 4071919--4071970 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4071909 TTAGTAAGTC
*
4071919 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
4071943 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
4071967 AAAT
1 AAAT
4071971 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:4073916 original size:24 final size:24
Alignment explanation
Indices: 4073889--4073940 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4073879 TTAGTAAGTC
*
4073889 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
4073913 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
4073937 AAAT
1 AAAT
4073941 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:4076450 original size:12 final size:12
Alignment explanation
Indices: 4076435--4076465 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4076425 CTCATATATA
4076435 AACAAGACCTAG
1 AACAAGACCTAG
*
4076447 AACAAGGCCTAG
1 AACAAGACCTAG
4076459 AACAAGA
1 AACAAGA
4076466 TAAATTTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.23, G:0.19, T:0.06
Consensus pattern (12 bp):
AACAAGACCTAG
Found at i:4080722 original size:12 final size:12
Alignment explanation
Indices: 4080705--4080734 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4080695 TTGAGGGAGT
4080705 CGACCCGAGAAC
1 CGACCCGAGAAC
*
4080717 CGACCCGAGAGC
1 CGACCCGAGAAC
4080729 CGACCC
1 CGACCC
4080735 TCACAGATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.47, G:0.27, T:0.00
Consensus pattern (12 bp):
CGACCCGAGAAC
Found at i:4081559 original size:12 final size:12
Alignment explanation
Indices: 4081544--4081574 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4081534 CTCATATATA
4081544 AACAAGACCTAG
1 AACAAGACCTAG
*
4081556 AACAAGGCCTAG
1 AACAAGACCTAG
4081568 AACAAGA
1 AACAAGA
4081575 TAAATTTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.23, G:0.19, T:0.06
Consensus pattern (12 bp):
AACAAGACCTAG
Found at i:4082015 original size:43 final size:43
Alignment explanation
Indices: 4081970--4082192 Score: 268
Period size: 43 Copynumber: 5.2 Consensus size: 43
4081960 CGAAAAAAAT
* * * *
4081970 GCCGCTAAAGGTCAGGGTCTTTAGCTGCGCTTTTTCCACAAAT
1 GCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCACAAAC
* ** *
4082013 GCCGCTAAAGATCATGTTCTTTAGCAACGCATTTTCCACAAAC
1 GCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCACAAAC
* * *
4082056 GCTGCTACAGATCATGTTCTTTAGCGGCGCTTTTTCCACAAAC
1 GCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCACAAAC
* * * *
4082099 GTCACTAAATGTCATGTTCTTTAGCGGCGCTTTTTTCACAAAC
1 GCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCACAAAC
* *
4082142 GCCGCTAAAGGTCATGATCTTTAGCGGCGCTATTTT-CAAAAAC
1 GCCGCTAAAGGTCATGTTCTTTAGCGGCGCT-TTTTCCACAAAC
*
4082185 GCCACTAA
1 GCCGCTAA
4082193 TTTTAGCAGA
Statistics
Matches: 154, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
43 150 0.97
44 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
GCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCACAAAC
Found at i:4084316 original size:9 final size:9
Alignment explanation
Indices: 4084302--4084418 Score: 54
Period size: 9 Copynumber: 13.9 Consensus size: 9
4084292 ATAATGTAAT
4084302 TAAGTTATG
1 TAAGTTATG
*
4084311 TAAGTTGTG
1 TAAGTTATG
4084320 T-A-TTAT-
1 TAAGTTATG
*
4084326 TAAAGTTAAG
1 T-AAGTTATG
4084336 T-A-TTATG
1 TAAGTTATG
*
4084343 TAAGTTATT
1 TAAGTTATG
*
4084352 TAAGTTACG
1 TAAGTTATG
**
4084361 TAAGTGGTG
1 TAAGTTATG
4084370 T-A-TTATG
1 TAAGTTATG
*
4084377 TAAGTTAAG
1 TAAGTTATG
* *
4084386 CAAGTTACG
1 TAAGTTATG
* *
4084395 TAGGCTATG
1 TAAGTTATG
4084404 T-A-TTATG
1 TAAGTTATG
*
4084411 CAAGTTAT
1 TAAGTTAT
4084419 TTATGTAAGT
Statistics
Matches: 76, Mismatches: 22, Indels: 20
0.64 0.19 0.17
Matches are distributed among these distances:
6 1 0.01
7 16 0.21
8 7 0.09
9 51 0.67
10 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.42
Consensus pattern (9 bp):
TAAGTTATG
Found at i:4084320 original size:29 final size:31
Alignment explanation
Indices: 4084280--4084348 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
4084270 TTATGATATG
*
4084280 TGTATGTTGTGTATAATGT-AA-TTAAG-TTA
1 TGTAAGTTGTGTATAAT-TAAAGTTAAGATTA
*
4084309 TGTAAGTTGTGTATTATTAAAGTTAAGTATTA
1 TGTAAGTTGTGTATAATTAAAGTTAAG-ATTA
4084341 TGTAAGTT
1 TGTAAGTT
4084349 ATTTAAGTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 1 0.03
29 17 0.50
30 5 0.15
32 11 0.32
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (31 bp):
TGTAAGTTGTGTATAATTAAAGTTAAGATTA
Found at i:4084331 original size:25 final size:24
Alignment explanation
Indices: 4084300--4084391 Score: 80
Period size: 25 Copynumber: 3.7 Consensus size: 24
4084290 GTATAATGTA
*
4084300 ATTAAGTTATGTAAGTTGTGTATT
1 ATTAAGTTAAGTAAGTTGTGTATT
*
4084324 ATTAAAGTTAAGT-A-TTATGTAAGTT
1 ATT-AAGTTAAGTAAGTTGTGT-A-TT
* *
4084349 ATTTAAGTTACGTAAGTGGTGTATT
1 A-TTAAGTTAAGTAAGTTGTGTATT
*
4084374 ATGTAAGTTAAGCAAGTT
1 AT-TAAGTTAAGTAAGTT
4084392 ACGTAGGCTA
Statistics
Matches: 53, Mismatches: 8, Indels: 13
0.72 0.11 0.18
Matches are distributed among these distances:
23 5 0.09
24 6 0.11
25 34 0.64
26 4 0.08
27 4 0.08
ACGTcount: A:0.34, C:0.02, G:0.21, T:0.43
Consensus pattern (24 bp):
ATTAAGTTAAGTAAGTTGTGTATT
Found at i:4084378 original size:34 final size:29
Alignment explanation
Indices: 4084335--4084476 Score: 131
Period size: 29 Copynumber: 4.6 Consensus size: 29
4084325 TTAAAGTTAA
4084335 GTATTATGTAAGTTATTTAAGTTACGTAAGTGGT
1 GTATTATGTAAGTTATTT-A--T--GTAAGTGGT
*** * *
4084369 GTATTATGTAAGTTAAGCAAGTTACGTAGGCT
1 GTATTATGTAAGTTATTTATG-TAAGT-GG-T
*
4084401 ATGTATTATGCAAGTTATTTATGTAAGTGGT
1 --GTATTATGTAAGTTATTTATGTAAGTGGT
*
4084432 GTATTATGCAAGTTATTTATGTAAGTGGT
1 GTATTATGTAAGTTATTTATGTAAGTGGT
4084461 GTATTATGTAAGTTAT
1 GTATTATGTAAGTTAT
4084477 GTAGGCTGTG
Statistics
Matches: 91, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
29 45 0.49
30 4 0.04
31 3 0.03
32 3 0.03
33 5 0.05
34 31 0.34
ACGTcount: A:0.30, C:0.04, G:0.23, T:0.43
Consensus pattern (29 bp):
GTATTATGTAAGTTATTTATGTAAGTGGT
Found at i:4084444 original size:29 final size:29
Alignment explanation
Indices: 4084402--4084476 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
4084392 ACGTAGGCTA
4084402 TGTATTATGCAAGTTATTTATGTAAGTGG
1 TGTATTATGCAAGTTATTTATGTAAGTGG
4084431 TGTATTATGCAAGTTATTTATGTAAGTGG
1 TGTATTATGCAAGTTATTTATGTAAGTGG
*
4084460 TGTATTATGTAAGTTAT
1 TGTATTATGCAAGTTAT
4084477 GTAGGCTGTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.28, C:0.03, G:0.23, T:0.47
Consensus pattern (29 bp):
TGTATTATGCAAGTTATTTATGTAAGTGG
Found at i:4084479 original size:16 final size:16
Alignment explanation
Indices: 4084306--4084479 Score: 101
Period size: 16 Copynumber: 11.0 Consensus size: 16
4084296 TGTAATTAAG
*
4084306 TTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTA
*
4084322 TTAT-TAAAGTTAAGTA
1 TTATGT-AAGTTATGTA
*
4084338 TTATGTAAGTTATTTAA
1 TTATGTAAGTTATGT-A
* **
4084355 GTTACGTAAGTGGTGTA
1 -TTATGTAAGTTATGTA
* *
4084372 TTATGTAAGTTAAGCAA
1 TTATGTAAGTTATG-TA
* * *
4084389 GTTACGTAGGCTATGTA
1 -TTATGTAAGTTATGTA
*
4084406 TTATGCAAGTTA--T-
1 TTATGTAAGTTATGTA
**
4084419 TTATGTAAGTGGTGTA
1 TTATGTAAGTTATGTA
*
4084435 TTATGCAAGTTA--T-
1 TTATGTAAGTTATGTA
**
4084448 TTATGTAAGTGGTGTA
1 TTATGTAAGTTATGTA
4084464 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
4084480 GGCTGTGTAT
Statistics
Matches: 113, Mismatches: 33, Indels: 24
0.66 0.19 0.14
Matches are distributed among these distances:
13 18 0.16
14 2 0.02
15 3 0.03
16 64 0.57
17 5 0.04
18 21 0.19
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.44
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:4084487 original size:25 final size:22
Alignment explanation
Indices: 4084459--4084522 Score: 69
Period size: 25 Copynumber: 2.9 Consensus size: 22
4084449 TATGTAAGTG
4084459 GTGTATTATGTAAGTTATGTAGGCT
1 GTGTATTATGTAAGTTATGTA---T
* *
4084484 GTGTATTATCTAAGTT-TTTAT
1 GTGTATTATGTAAGTTATGTAT
4084505 GT-TATTATGTAAGTTATG
1 GTGTATTATGTAAGTTATG
4084523 CAAGTTTCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 12 0.35
21 4 0.12
24 3 0.09
25 15 0.44
ACGTcount: A:0.25, C:0.03, G:0.22, T:0.50
Consensus pattern (22 bp):
GTGTATTATGTAAGTTATGTAT
Found at i:4084526 original size:83 final size:78
Alignment explanation
Indices: 4084387--4084599 Score: 193
Period size: 83 Copynumber: 2.7 Consensus size: 78
4084377 TAAGTTAAGC
* * *
4084387 AAGTTACGTAGGCTATGTATTATGCAAGTTATTTATGTAAGTGGTGTATTATGCAAGTTATTTAT
1 AAGTTATGTAGGCTATGTATTATGCAAGTTATTTATGTAAGTGATGTATTATGCAAGTT-TCTAT
* *
4084452 GTAAGTGGTGTATTATGT
65 ATAAGT--T-T-CTATGT
* * *
4084470 AAGTTATGTAGGCTGTGTATTAT-CTAAGTT-TTTATGTTA-TTATGTAAGTTATGCAAGTTTCT
1 AAGTTATGTAGGCTATGTATTATGC-AAGTTATTTATGTAAGTGATGT-A-TTATGCAAGTTTCT
4084532 ATATAAGTTTCTATGT
63 ATATAAGTTTCTATGT
* * * * *
4084548 AAGTTATGTAGGTTAT-TATTTATGTAGGTTA-TTATTTAAGTTATGTATTATG
1 AAGTTATGTAGGCTATGTA-TTATGCAAGTTATTTATGTAAGTGATGTATTATG
4084600 TAAGAATAAA
Statistics
Matches: 109, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
77 7 0.06
78 34 0.31
79 7 0.06
80 1 0.01
81 4 0.04
82 19 0.17
83 37 0.34
ACGTcount: A:0.28, C:0.04, G:0.21, T:0.47
Consensus pattern (78 bp):
AAGTTATGTAGGCTATGTATTATGCAAGTTATTTATGTAAGTGATGTATTATGCAAGTTTCTATA
TAAGTTTCTATGT
Found at i:4084572 original size:16 final size:16
Alignment explanation
Indices: 4084551--4084585 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
4084541 TCTATGTAAG
4084551 TTATGTAGGTTATTAT
1 TTATGTAGGTTATTAT
4084567 TTATGTAGGTTATTAT
1 TTATGTAGGTTATTAT
4084583 TTA
1 TTA
4084586 AGTTATGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.17, T:0.57
Consensus pattern (16 bp):
TTATGTAGGTTATTAT
Found at i:4087992 original size:15 final size:15
Alignment explanation
Indices: 4087972--4088025 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
4087962 CTAGCACGTT
4087972 TAACCCCTAAACCCC
1 TAACCCCTAAACCCC
* *
4087987 TAACCCTTTAACCCC
1 TAACCCCTAAACCCC
* * *
4088002 TAAACCTTAAATCCC
1 TAACCCCTAAACCCC
4088017 -AACCCCTAA
1 TAACCCCTAA
4088026 TCCATAATCC
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 7 0.22
15 25 0.78
ACGTcount: A:0.35, C:0.44, G:0.00, T:0.20
Consensus pattern (15 bp):
TAACCCCTAAACCCC
Found at i:4088538 original size:74 final size:73
Alignment explanation
Indices: 4088431--4088680 Score: 331
Period size: 74 Copynumber: 3.4 Consensus size: 73
4088421 AAGGTATGAA
* * *
4088431 CTTTAGCGGCGTTTTC-CTAAAAACGCCGTAAAATCCCCGGAAGCTCACAAAAACGGTATCGTTG
1 CTTT-GCGGCGCTTTCTC-AAAAACGCCGCAAAATCCCCGAAAGCTCAC-AAAACGGTATCGTTG
4088495 GGCATATGTTT
63 GGCATATGTTT
*
4088506 CTTTGCGGCGCTTTCTCAAAAACGCCGCAAAATCCCCGAAAGCTTACGAAAACGGTATCGTTGGG
1 CTTTGCGGCGCTTTCTCAAAAACGCCGCAAAATCCCCGAAAGCTCAC-AAAACGGTATCGTTGGG
4088571 CATATGTTT
65 CATATGTTT
* * * * * *
4088580 TTTTGCGGCGCTTTCTCGAAAACACCACAAATTCCCCGAAAGCTCACAAAACGGCATCGTTGGGC
1 CTTTGCGGCGCTTTCTCAAAAACGCCGCAAAATCCCCGAAAGCTCACAAAACGGTATCGTTGGGC
4088645 ATATGTTT
66 ATATGTTT
* * * *
4088653 TTTTGCGGCACTTCCTAAAAAACGCCGC
1 CTTTGCGGCGCTTTCTCAAAAACGCCGC
4088681 TAAAGTCCTG
Statistics
Matches: 156, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
73 47 0.30
74 104 0.67
75 5 0.03
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (73 bp):
CTTTGCGGCGCTTTCTCAAAAACGCCGCAAAATCCCCGAAAGCTCACAAAACGGTATCGTTGGGC
ATATGTTT
Found at i:4088788 original size:114 final size:114
Alignment explanation
Indices: 4088598--4088911 Score: 432
Period size: 114 Copynumber: 2.8 Consensus size: 114
4088588 CGCTTTCTCG
* * *
4088598 AAAACACCACAAATTCCCCGAAAGCTCACAAAACGGCATCGTTGGGCATATGTTTTTTTGCGGCA
1 AAAACGCCACAAAATCCCCGAAAGCTCACAAAACGGCATCGTTGGGCATATGTTTTTTTGCGGCG
* * * *
4088663 CTTCCTAAAAAACGCCGCTAAAGTCCTGACCTTTAGCGACGCTTTTCTA
66 CTTTCTAAAAAACGCCGCTAAAGCCCTGACCTTTAGCGACGCGTTCCTA
*
4088712 AAAACGCCACAAAATCCCCGAAAGCCCACAAAACGGCATCGTTGGGCATATGTTTTTTTGCGGCG
1 AAAACGCCACAAAATCCCCGAAAGCTCACAAAACGGCATCGTTGGGCATATGTTTTTTTGCGGCG
* *
4088777 CTTTCTCAAAAACGCCGCTAAAGCCCTGACCTTTAGCGGCGCGTTCCTA
66 CTTTCTAAAAAACGCCGCTAAAGCCCTGACCTTTAGCGACGCGTTCCTA
* * * * * * * * * *
4088826 AAATCGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGTGCTTA-ATTTGTTTGCGGCG
1 AAAACGCCACAAAATCCCCGAAAGCTCACAAAACGGCATCGTTGGGCATATGTTTTTTTGCGGCG
*
4088890 CTTTCTTAAAAACGCCGCTAAA
66 CTTTCTAAAAAACGCCGCTAAA
4088912 TACCCGAAAG
Statistics
Matches: 178, Mismatches: 22, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
113 33 0.19
114 145 0.81
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (114 bp):
AAAACGCCACAAAATCCCCGAAAGCTCACAAAACGGCATCGTTGGGCATATGTTTTTTTGCGGCG
CTTTCTAAAAAACGCCGCTAAAGCCCTGACCTTTAGCGACGCGTTCCTA
Found at i:4088908 original size:72 final size:72
Alignment explanation
Indices: 4088812--4088947 Score: 193
Period size: 72 Copynumber: 1.9 Consensus size: 72
4088802 CTGACCTTTA
* * * *
4088812 GCGGCGCGTTCCTAAAATCGCCGCTAAATCCCCAAAAGCTCAG-AAAACGGCGTCGTTGTGCTTA
1 GCGGCGCGTTCCTAAAAACGCCGCTAAATACCCAAAAGCTC-GTAAAACGGCATCGTTGGGCTTA
4088876 ATTTGTTT
65 ATTTGTTT
* * *
4088884 GCGGCGCTTTCTTAAAAACGCCGCTAAATACCCGAAAGCTCGTAAAACGGCATCGTTGGGCTTA
1 GCGGCGCGTTCCTAAAAACGCCGCTAAATACCCAAAAGCTCGTAAAACGGCATCGTTGGGCTTA
4088948 GGTTTTTTTG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
71 1 0.02
72 55 0.98
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.24
Consensus pattern (72 bp):
GCGGCGCGTTCCTAAAAACGCCGCTAAATACCCAAAAGCTCGTAAAACGGCATCGTTGGGCTTAA
TTTGTTT
Found at i:4089015 original size:39 final size:41
Alignment explanation
Indices: 4088972--4089058 Score: 101
Period size: 39 Copynumber: 2.2 Consensus size: 41
4088962 GCTTTCTGGC
*
4088972 AAACGCCAATAATGCTT-AT-TTTAAGCGGCGTTTTCAT-T-A
1 AAACGCCAATAATGATTGATCTTT-AGCGGCGTTTT-ATGTCA
**
4089011 AAACGCCGCTAATGATTGATCTTTAGCGGCGTTTTATGTCA
1 AAACGCCAATAATGATTGATCTTTAGCGGCGTTTTATGTCA
4089052 AAACGCC
1 AAACGCC
4089059 GCTAAATGCG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
39 16 0.39
40 14 0.34
41 11 0.27
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (41 bp):
AAACGCCAATAATGATTGATCTTTAGCGGCGTTTTATGTCA
Found at i:4106840 original size:21 final size:21
Alignment explanation
Indices: 4106807--4106847 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4106797 TGATTCAGCT
**
4106807 TCCGGTGGGGGTTATGGTTGC
1 TCCGGTGAAGGTTATGGTTGC
*
4106828 TCCGGTGAAGGTTGTGGTTG
1 TCCGGTGAAGGTTATGGTTG
4106848 TTGGTGTTGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.12, G:0.46, T:0.34
Consensus pattern (21 bp):
TCCGGTGAAGGTTATGGTTGC
Found at i:4108653 original size:18 final size:18
Alignment explanation
Indices: 4108624--4108668 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
4108614 AAAATTAATT
*
4108624 AAAATTACATAA-ATTAA
1 AAAATTAAATAATATTAA
*
4108641 AATAATTAAATAATATTGA
1 AA-AATTAAATAATATTAA
4108660 AAAATTAAA
1 AAAATTAAA
4108669 ATTAACCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 2 0.08
18 16 0.67
19 6 0.25
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (18 bp):
AAAATTAAATAATATTAA
Found at i:4108805 original size:11 final size:11
Alignment explanation
Indices: 4108779--4108818 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
4108769 AGAGTGCTTC
4108779 GAGAAATTTAGA
1 GAGAAATTT-GA
4108791 GAGAAATTTGA
1 GAGAAATTTGA
*
4108802 GAGAAAATTGA
1 GAGAAATTTGA
4108813 -AGAAAT
1 GAGAAAT
4108819 AATGTGTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 5 0.19
11 12 0.46
12 9 0.35
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.23
Consensus pattern (11 bp):
GAGAAATTTGA
Found at i:4115842 original size:50 final size:50
Alignment explanation
Indices: 4115727--4115969 Score: 371
Period size: 50 Copynumber: 4.8 Consensus size: 50
4115717 GATAATAACA
* ** *
4115727 TGCCAAAGCCATGTCTCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAATGCCATGTCTCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* *
4115778 TGACC-ATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TG-CCAATGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
4115828 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCATCTCGG
4115878 TGCCAATGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
4115928 TGCCAATGCCATGTCTCAGACATGGTCTTACATGAGACCTCT
1 TGCCAATGCCATGTCTCAGACATGGTCTTACATGGGACCTCT
4115970 TTACCCAAAT
Statistics
Matches: 177, Mismatches: 13, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
49 2 0.01
50 142 0.80
51 31 0.18
52 2 0.01
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:4116085 original size:13 final size:13
Alignment explanation
Indices: 4116064--4116093 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4116054 GCTTGGATCA
4116064 TCATCAAATAAAT
1 TCATCAAATAAAT
*
4116077 TCATGAAATAAAT
1 TCATCAAATAAAT
4116090 TCAT
1 TCAT
4116094 AGTTGCTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
TCATCAAATAAAT
Found at i:4117051 original size:21 final size:19
Alignment explanation
Indices: 4117013--4117060 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
4117003 GAAGCGCGGT
4117013 ATTTCTTTTTTAAAACGA-A
1 ATTT-TTTTTTAAAACGAGA
4117032 AGTTTTTTTTTAAAATACGAGA
1 A-TTTTTTTTT-AAA-ACGAGA
4117054 ATTTTTT
1 ATTTTTT
4117061 AAAACACGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 7 0.28
20 6 0.24
21 10 0.40
22 2 0.08
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.52
Consensus pattern (19 bp):
ATTTTTTTTTAAAACGAGA
Found at i:4117058 original size:18 final size:18
Alignment explanation
Indices: 4117037--4117474 Score: 105
Period size: 17 Copynumber: 24.6 Consensus size: 18
4117027 ACGAAAGTTT
*
4117037 TTTTTTAAAATACGAGAA
1 TTTTTTAAAACACGAGAA
4117055 TTTTTTAAAACACGAGAA
1 TTTTTTAAAACACGAGAA
*
4117073 -TTTGT-AAACAC--GAA
1 TTTTTTAAAACACGAGAA
* *
4117087 TATTTTAGAAACACGAAAA
1 TTTTTTA-AAACACGAGAA
* * *
4117106 TTTTTGGAAAAAAATGA-AA
1 TTTTT--TAAAACACGAGAA
***
4117125 TTTTCTTAAAACACGACTTT
1 TTTT-TTAAAACACGA-GAA
* *
4117145 TTTTTTGAAACACGGGAA
1 TTTTTTAAAACACGAGAA
* * *
4117163 -TTTTTAAAACAAGACAT
1 TTTTTTAAAACACGAGAA
* * ***
4117180 TTTTTTGAAACA-AATTT
1 TTTTTTAAAACACGAGAA
4117197 TTTTCTTAAAA-A--A-AA
1 TTTT-TTAAAACACGAGAA
** *
4117212 -AATTT-AAATACGAGAA
1 TTTTTTAAAACACGAGAA
4117228 -TTTTTAAAACACGA-AA
1 TTTTTTAAAACACGAGAA
* *
4117244 ATTTTTAAAACACGGAAATA
1 TTTTTTAAAACAC-GAGA-A
4117264 TTTTTTTTAAAACACGA-AA
1 --TTTTTTAAAACACGAGAA
*
4117283 TTTTTTTTTGAAAACAAGA-AA
1 ---TTTTTT-AAAACACGAGAA
* * *
4117304 ATTTTTGAAACACTAGAA
1 TTTTTTAAAACACGAGAA
*
4117322 -TTTTGAAAACACGA-AGA
1 TTTTTTAAAACACGAGA-A
* *
4117339 -TTTTTGAAACATGAGAA
1 TTTTTTAAAACACGAGAA
*
4117356 -TTTTTAAAAGCACGAGGA
1 TTTTTTAAAA-CACGAGAA
* * *
4117374 TTATTGAAAGCACGA-AGA
1 TTTTTTAAAACACGAGA-A
* * * *
4117392 TTTATAAAAAAACGACAA
1 TTTTTTAAAACACGAGAA
* *
4117410 -TTTTTGAAATACGAGAAA
1 TTTTTTAAAACACGAG-AA
* *
4117428 TTTTTT-AAACGCGAAAA
1 TTTTTTAAAACACGAGAA
* *
4117445 TTTTTTTCAAACACGAAAA
1 -TTTTTTAAAACACGAGAA
* *
4117464 CTTTTGAAAAC
1 TTTTTTAAAAC
4117475 GCGAAAATTC
Statistics
Matches: 312, Mismatches: 72, Indels: 72
0.68 0.16 0.16
Matches are distributed among these distances:
12 3 0.01
13 3 0.01
14 4 0.01
15 4 0.01
16 15 0.05
17 98 0.31
18 94 0.30
19 45 0.14
20 21 0.07
21 13 0.04
22 12 0.04
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (18 bp):
TTTTTTAAAACACGAGAA
Found at i:4117083 original size:16 final size:18
Alignment explanation
Indices: 4117037--4117085 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
4117027 ACGAAAGTTT
* *
4117037 TTTTTTAAAATACGAGAA
1 TTTTGTAAAACACGAGAA
*
4117055 TTTTTTAAAACACGAGAA
1 TTTTGTAAAACACGAGAA
4117073 -TTTGT-AAACACGA
1 TTTTGTAAAACACGA
4117086 ATATTTTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.28
17 4 0.14
18 17 0.59
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (18 bp):
TTTTGTAAAACACGAGAA
Found at i:4117272 original size:22 final size:20
Alignment explanation
Indices: 4117228--4117309 Score: 89
Period size: 22 Copynumber: 4.0 Consensus size: 20
4117218 AATACGAGAA
*
4117228 TTTTTAAAACACGAAA---A
1 TTTTTAAAACACGAAATTTT
4117245 TTTTTAAAACACGGAAATATTT
1 TTTTTAAAACAC-GAAAT-TTT
4117267 TTTTTAAAACACGAAATTTT
1 TTTTTAAAACACGAAATTTT
*
4117287 TTTTTGAAAACAAGAAAATTTT
1 TTTTT-AAAACACG-AAATTTT
4117309 T
1 T
4117310 GAAACACTAG
Statistics
Matches: 56, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
17 12 0.21
18 4 0.07
20 8 0.14
21 12 0.21
22 20 0.36
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (20 bp):
TTTTTAAAACACGAAATTTT
Found at i:4117282 original size:21 final size:20
Alignment explanation
Indices: 4117228--4117309 Score: 98
Period size: 21 Copynumber: 4.1 Consensus size: 20
4117218 AATACGAGAA
4117228 TTTTTAAAACACGAAAA---
1 TTTTTAAAACACGAAAATTT
4117245 TTTTTAAAACACGGAAATATTT
1 TTTTTAAAACAC-GAAA-ATTT
*
4117267 TTTTTAAAACACGAAATTTT
1 TTTTTAAAACACGAAAATTT
*
4117287 TTTTTGAAAACAAGAAAATTT
1 TTTTT-AAAACACGAAAATTT
4117308 TT
1 TT
4117310 GAAACACTAG
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
17 12 0.21
18 4 0.07
19 1 0.02
20 8 0.14
21 19 0.34
22 12 0.21
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (20 bp):
TTTTTAAAACACGAAAATTT
Found at i:4117450 original size:19 final size:19
Alignment explanation
Indices: 4117428--4117483 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 19
4117418 ATACGAGAAA
4117428 TTTTTT-AAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
* *
4117446 TTTTTTCAAACACGAAAA-
1 TTTTTTAAAACGCGAAAAT
* *
4117464 CTTTTGAAAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
4117483 T
1 T
4117484 CGAAAATTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 20 0.67
19 10 0.33
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (19 bp):
TTTTTTAAAACGCGAAAAT
Found at i:4117527 original size:18 final size:17
Alignment explanation
Indices: 4117478--4117528 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
4117468 TGAAAACGCG
4117478 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
4117495 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
4117513 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
4117529 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:4118039 original size:7 final size:7
Alignment explanation
Indices: 4118022--4118098 Score: 84
Period size: 7 Copynumber: 10.1 Consensus size: 7
4118012 TGAACCCCCT
4118022 TTTTCTTC
1 TTTT-TTC
4118030 TTTTTTC
1 TTTTTTC
4118037 TTTTTTC
1 TTTTTTC
4118044 TTTTTTCC
1 TTTTTT-C
4118052 TTTTTTC
1 TTTTTTC
4118059 TTTTTTTC
1 -TTTTTTC
4118067 TTTTTTC
1 TTTTTTC
4118074 TTCTTTTTC
1 -T-TTTTTC
4118083 TTCCTTTT-
1 TT--TTTTC
4118091 TTTTTTC
1 TTTTTTC
4118098 T
1 T
4118099 GCTGGGCTGC
Statistics
Matches: 62, Mismatches: 0, Indels: 15
0.81 0.00 0.19
Matches are distributed among these distances:
6 4 0.06
7 26 0.42
8 22 0.35
9 10 0.16
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:4118048 original size:15 final size:15
Alignment explanation
Indices: 4118030--4118098 Score: 95
Period size: 15 Copynumber: 4.5 Consensus size: 15
4118020 CTTTTTCTTC
4118030 TTTTTTCTTTTTTCT
1 TTTTTTCTTTTTTCT
*
4118045 TTTTTCCTTTTTTCT
1 TTTTTTCTTTTTTCT
4118060 TTTTTTCTTTTTTCT
1 TTTTTTCTTTTTTCT
*
4118075 TCTTTTTCTTCCTTT-T
1 T-TTTTTCTT-TTTTCT
4118091 TTTTTTCT
1 TTTTTTCT
4118099 GCTGGGCTGC
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
15 36 0.73
16 10 0.20
17 3 0.06
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTCTTTTTTCT
Found at i:4118098 original size:24 final size:23
Alignment explanation
Indices: 4118021--4118098 Score: 97
Period size: 24 Copynumber: 3.3 Consensus size: 23
4118011 TTGAACCCCC
4118021 TTTTTCTTCTTTTTTCTTTTTTCT
1 TTTTTCTTC-TTTTTCTTTTTTCT
*
4118045 TTTTTCCT-TTTTTCTTTTTTTCT
1 TTTTTCTTCTTTTTC-TTTTTTCT
4118068 TTTTTCTTCTTTTTCTTCCTTTT-T
1 TTTTTCTTCTTTTTCTT--TTTTCT
4118092 TTTTTCT
1 TTTTTCT
4118099 GCTGGGCTGC
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.12
23 17 0.35
24 21 0.44
25 4 0.08
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTTCTTCTTTTTCTTTTTTCT
Found at i:4118249 original size:12 final size:12
Alignment explanation
Indices: 4118232--4118256 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4118222 CTTTCCCTTC
4118232 TTTTTTTTGCTT
1 TTTTTTTTGCTT
4118244 TTTTTTTTGCTT
1 TTTTTTTTGCTT
4118256 T
1 T
4118257 GATTTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (12 bp):
TTTTTTTTGCTT
Found at i:4118396 original size:3 final size:3
Alignment explanation
Indices: 4118390--4118435 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
4118380 TTTTCTTTCT
*
4118390 TTC TTC TTC CTC TT- TTC TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
4118436 AAAGTCTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:4118419 original size:10 final size:10
Alignment explanation
Indices: 4118404--4118432 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
4118394 TCTTCCTCTT
4118404 TTCTTCTTCC
1 TTCTTCTTCC
4118414 TTCTTCTTCC
1 TTCTTCTTCC
4118424 TTCTTCTTC
1 TTCTTCTTC
4118433 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:4118420 original size:13 final size:13
Alignment explanation
Indices: 4118390--4118435 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
4118380 TTTTCTTTCT
4118390 TTCTTCTTCC-TC
1 TTCTTCTTCCTTC
4118402 TT-TTCTT-CTTCC
1 TTCTTCTTCCTT-C
4118414 TTCTTCTTCCTTC
1 TTCTTCTTCCTTC
4118427 TTCTTCTTC
1 TTCTTCTTC
4118436 AAAGTCTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.20
12 5 0.17
13 15 0.50
14 3 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCTTCTTCCTTC
Found at i:4118526 original size:10 final size:10
Alignment explanation
Indices: 4118491--4118540 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
4118481 ACGCCGGTAC
4118491 TCTT-TCTTT
1 TCTTCTCTTT
* *
4118500 TCTTCTCCTC
1 TCTTCTCTTT
4118510 T-TTCTCTTT
1 TCTTCTCTTT
4118519 TCTTCTCTTT
1 TCTTCTCTTT
*
4118529 TCTTCTTTTT
1 TCTTCTCTTT
4118539 TC
1 TC
4118541 CTTCGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:4118538 original size:19 final size:19
Alignment explanation
Indices: 4118495--4118537 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
4118485 CGGTACTCTT
4118495 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
4118514 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
4118531 TTCTTTT
1 -TCTTTT
4118538 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:4118817 original size:29 final size:29
Alignment explanation
Indices: 4118784--4118900 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
4118774 TGTAATTTTT
*
4118784 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
4118813 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
4118843 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
4118872 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
4118901 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:4118839 original size:30 final size:30
Alignment explanation
Indices: 4118799--4118900 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
4118789 ATTTAGGATT
*
4118799 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
4118829 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
4118859 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
4118889 AAAATGCAATTT
1 AAAATGAAATTT
4118901 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:4119391 original size:53 final size:54
Alignment explanation
Indices: 4119173--4119422 Score: 377
Period size: 53 Copynumber: 4.7 Consensus size: 54
4119163 CACGTGAGCC
* *
4119173 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AA
*
4119228 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* * *
4119278 AAGGCTCAACTCACTTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
4119332 AAGGCTCAACTCACCTCTCGCAATATGA-TTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
4119385 AAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
4119423 TTTTTTGAAA
Statistics
Matches: 180, Mismatches: 9, Indels: 13
0.89 0.04 0.06
Matches are distributed among these distances:
50 47 0.26
52 1 0.01
53 50 0.28
54 38 0.21
55 38 0.21
56 6 0.03
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.31
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:4119473 original size:13 final size:13
Alignment explanation
Indices: 4119434--4119465 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
4119424 TTTTTGAAAC
4119434 ACAGAAATTAAAA
1 ACAGAAATTAAAA
4119447 ACAGAAATTAAAA
1 ACAGAAATTAAAA
4119460 ACAGAA
1 ACAGAA
4119466 TTTGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.12
Consensus pattern (13 bp):
ACAGAAATTAAAA
Found at i:4119718 original size:71 final size:72
Alignment explanation
Indices: 4119548--4120591 Score: 1773
Period size: 71 Copynumber: 14.8 Consensus size: 72
4119538 ATTAGTAAAG
* * * *
4119548 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
4119612 TTTGAAAA
65 TTTGAAAA
* *
4119620 GCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
4119684 TTTGAAAA
65 TTTGAAAA
4119692 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
4119757 TTGAGAAG
66 TTGA-AAA
*
4119765 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
4119830 TTGAAAA
66 TTGAAAA
4119837 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
4119901 TTGAAAA
66 TTGAAAA
4119908 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
4119973 TTGAGAAG
66 TTGA-AAA
*
4119981 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
4120046 TTGAAAA
66 TTGAAAA
4120053 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
4120118 TTG-AAA
66 TTGAAAA
4120124 CAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
4120187 TTG-AAA
66 TTGAAAA
4120193 CAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
4120257 TTG-AAA
66 TTGAAAA
4120263 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT-TC-C-A-AT-A--TGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
4120321 TTG-AAA
66 TTGAAAA
4120327 -A-AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
4120390 TTG-AAA
66 TTGAAAA
4120396 CAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
4120460 TTGAAAA
66 TTGAAAA
4120467 CAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
4120530 TTG-AAA
66 TTGAAAA
4120536 CAGAAATTGAAATTACCTC-ACGTGTC-TGAGGCTCAACTCA-TTCTCGCAATATGAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
4120592 NNNNNNNNNN
Statistics
Matches: 939, Mismatches: 14, Indels: 41
0.94 0.01 0.04
Matches are distributed among these distances:
62 42 0.04
63 3 0.00
64 13 0.01
65 1 0.00
66 3 0.00
67 3 0.00
68 31 0.03
69 104 0.11
70 158 0.17
71 211 0.22
72 189 0.20
73 181 0.19
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAA
Found at i:4119878 original size:145 final size:143
Alignment explanation
Indices: 4119548--4120591 Score: 1774
Period size: 145 Copynumber: 7.4 Consensus size: 143
4119538 ATTAGTAAAG
* * * *
4119548 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
*
4119612 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATG
65 TTTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
4119676 AGTTGAATTTTGAAAA
129 AGTTGAATTTTG-AAA
4119692 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
4119757 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
4119822 GTTGAATTTTGAAAA
130 GTTGAATTTTG-AAA
4119837 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
4119901 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
4119966 TTGAATTTTGAGAA
131 TTGAATTTTGA-AA
*
4119980 GCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
*
4120045 TTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
65 TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
4120110 GTTGAATTTTGAAA
130 GTTGAATTTTGAAA
4120124 CAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
4120187 TTG-AAACAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
4120250 TTGAATTTTGAAA
131 TTGAATTTTGAAA
4120263 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT-TC-C-A-AT-A--TGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
4120321 TTG-AAA-A-AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
4120383 TTGAATTTTGAAA
131 TTGAATTTTGAAA
4120396 CAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
4120460 TTGAAAACAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
4120523 TTGAATTTTGAAA
131 TTGAATTTTGAAA
4120536 CAGAAATTGAAATTACCTC-ACGTGTC-TGAGGCTCAACTCA-TTCTCGCAATATGAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
4120592 NNNNNNNNNN
Statistics
Matches: 868, Mismatches: 12, Indels: 46
0.94 0.01 0.05
Matches are distributed among these distances:
132 38 0.04
133 79 0.09
134 8 0.01
135 2 0.00
136 4 0.00
137 2 0.00
138 17 0.02
139 97 0.11
140 94 0.11
141 42 0.05
142 57 0.07
143 83 0.10
144 172 0.20
145 173 0.20
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (143 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
TTGAATTTTGAAA
Found at i:4119945 original size:216 final size:215
Alignment explanation
Indices: 4119544--4120591 Score: 1829
Period size: 216 Copynumber: 5.0 Consensus size: 215
4119534 GTAAATTAGT
* * *
4119544 AAAGCAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
* *
4119608 AAGTTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCA-TTCTCGCAA
66 AA-TTTTGAAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
4119672 TATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
129 TATGAGTTGAATTTTG-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
4119737 CTCGCAATATGAGTTGAATTTTG
193 CTCGCAATATGAGTTGAATTTTG
4119760 AGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 A-AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
4119825 GAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
65 GAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
4119890 ATGAGTTGAA-TTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
130 ATGAGTTGAATTTTG-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
4119954 TCGCAATATGAGTTGAATTTTG
194 TCGCAATATGAGTTGAATTTTG
4119976 AGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 A-AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
4120041 GAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
65 GAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
4120106 ATGAGTTGAATTTTGAAACAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
130 ATGAGTTGAATTTTGAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
4120170 CGCAATATGAGTTGAA-TTTG
195 CGCAATATGAGTTGAATTTTG
4120190 AAA-CAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
4120253 AATTTTG-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT-TC-C-A-A
66 AATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
4120313 T-A--TGAATTTTGAAA-A-AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
131 TGAGTTGAATTTTGAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
4120373 GCAATATGAGTTGAATTTTG
196 GCAATATGAGTTGAATTTTG
4120393 AAA-CAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
4120456 AATTTTGAAAACAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCA-TTCTCGCAATA
66 AATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
4120519 TGAGTTGAATTTTGAAACAGAAATTGAAATTACCTC-ACGTGTC-TGAGGCTCAACTCA-TTCTC
131 TGAGTTGAATTTTGAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
4120581 GCAATATGAGT
196 GCAATATGAGT
4120592 NNNNNNNNNN
Statistics
Matches: 811, Mismatches: 5, Indels: 40
0.95 0.01 0.05
Matches are distributed among these distances:
201 9 0.01
202 53 0.07
203 117 0.14
204 16 0.02
205 2 0.00
206 4 0.00
207 2 0.00
208 17 0.02
209 28 0.03
210 56 0.07
211 74 0.09
212 9 0.01
213 2 0.00
214 5 0.01
215 50 0.06
216 272 0.34
217 93 0.11
218 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (215 bp):
AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
AATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
TGAGTTGAATTTTGAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
GCAATATGAGTTGAATTTTG
Found at i:4137285 original size:30 final size:30
Alignment explanation
Indices: 4137153--4137278 Score: 130
Period size: 30 Copynumber: 4.2 Consensus size: 30
4137143 ATAAAAATAA
* * *
4137153 AAAATTGCATTTTGACCCCTAAATTTTCCT
1 AAAATTACATTTTGACCCCTAAAATTTCTT
* * * *
4137183 AAAATTATATTTTAAGCCCTAAAATTTTTT
1 AAAATTACATTTTGACCCCTAAAATTTCTT
* *
4137213 AAAATTACATTTTGACCCATCAAATTT-TT
1 AAAATTACATTTTGACCCCTAAAATTTCTT
*
4137242 GAAATTACATTTTGACCCCT-AAATGTTCTT
1 AAAATTACATTTTGACCCCTAAAAT-TTCTT
*
4137272 GAAATTA
1 AAAATTA
4137279 TGTTTTGGCC
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
28 4 0.05
29 22 0.28
30 54 0.68
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.41
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCTAAAATTTCTT
Found at i:4137633 original size:3 final size:3
Alignment explanation
Indices: 4137625--4137664 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
4137615 ACTAGGGTTT
*
4137625 GAA GAA GAA GAA GAA GAA GAA GAA GAA GGA GAAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA
4137665 AAAAAAAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 32 0.94
4 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:4137680 original size:17 final size:18
Alignment explanation
Indices: 4137654--4137687 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4137644 AAGAAGAAGG
*
4137654 AGAAAGAAGA-AAAAAAA
1 AGAAAAAAGAGAAAAAAA
4137671 AGAAAAAAGAGAAAAAA
1 AGAAAAAAGAGAAAAAA
4137688 TAAAATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (18 bp):
AGAAAAAAGAGAAAAAAA
Found at i:4137822 original size:24 final size:19
Alignment explanation
Indices: 4137760--4137810 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
4137750 AGCCCAATCA
4137760 AAAAAAAAAAG-AAATTAAGC
1 AAAAAAAAAAGCAAA--AAGC
4137780 AAAAAAAAAAGCAAAAAGC
1 AAAAAAAAAAGCAAAAAGC
4137799 AGAAAAAAAAAG
1 A-AAAAAAAAAG
4137811 GCCACAACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.17
20 21 0.72
21 3 0.10
ACGTcount: A:0.78, C:0.06, G:0.12, T:0.04
Consensus pattern (19 bp):
AAAAAAAAAAGCAAAAAGC
Found at i:4137958 original size:5 final size:5
Alignment explanation
Indices: 4137944--4137995 Score: 52
Period size: 5 Copynumber: 10.2 Consensus size: 5
4137934 AGCCCAGTCC
* * *
4137944 AGAAA A-AAA AGAAAA AAAAA AGAAA AGAGA AGAAA AGAAA AAAAA AGGAAA
1 AGAAA AGAAA AG-AAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA A-GAAA
4137995 A
1 A
4137996 AGAAGGGAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
4 4 0.11
5 26 0.68
6 8 0.21
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:4137959 original size:10 final size:10
Alignment explanation
Indices: 4137946--4138036 Score: 55
Period size: 10 Copynumber: 9.5 Consensus size: 10
4137936 CCCAGTCCAG
*
4137946 AAAAAA-AAG
1 AAAAAAGAAA
4137955 AAAAAA-AAA
1 AAAAAAGAAA
* *
4137964 AGAAAAGAGA
1 AAAAAAGAAA
*
4137974 AGAAAAGAAA
1 AAAAAAGAAA
*
4137984 AAAAAAGGAA
1 AAAAAAGAAA
* **
4137994 AAAGAAGGGA
1 AAAAAAGAAA
**
4138004 AAAAAAGGGA
1 AAAAAAGAAA
*
4138014 AAAAAAG--G
1 AAAAAAGAAA
4138022 AAAAAAGAAA
1 AAAAAAGAAA
4138032 AAAAA
1 AAAAA
4138037 GGGGGCCCAA
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
8 7 0.10
9 13 0.19
10 48 0.71
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:4137962 original size:11 final size:11
Alignment explanation
Indices: 4137946--4138036 Score: 58
Period size: 11 Copynumber: 7.5 Consensus size: 11
4137936 CCCAGTCCAG
4137946 AAAAAAAAGAA
1 AAAAAAAAGAA
4137957 AAAAAAAAGAAA
1 AAAAAAAAG-AA
4137969 AGAGAAGAAAAGAA
1 A-A-AA-AAAAGAA
*
4137983 AAAAAAAGGAA
1 AAAAAAAAGAA
* **
4137994 AAAGAAGGGAA
1 AAAAAAAAGAA
4138005 AAAAAGGGAAA-AA
1 AAAAA---AAAGAA
4138018 AAGGAAAAAAGAA
1 AA--AAAAAAGAA
4138031 AAAAAA
1 AAAAAA
4138037 GGGGGCCCAA
Statistics
Matches: 64, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
11 32 0.50
12 8 0.12
13 10 0.16
14 6 0.09
15 8 0.12
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:4137978 original size:30 final size:29
Alignment explanation
Indices: 4137944--4138037 Score: 99
Period size: 26 Copynumber: 3.4 Consensus size: 29
4137934 AGCCCAGTCC
*
4137944 AGAAAAAAAAGAAAAAAAAAAG-AAAAG-
1 AGAAAAAAAAGAAAAAAAAAGGAAAAAGA
*
4137971 AG-AAGAAAAGAAAAAAAAAGGAAAAAGA
1 AGAAAAAAAAGAAAAAAAAAGGAAAAAGA
* **
4137999 AGGGAAAAAAAGGGAAAAAAAGG-AAAA-A
1 A-GAAAAAAAAGAAAAAAAAAGGAAAAAGA
4138027 AGAAAAAAAAG
1 AGAAAAAAAAG
4138038 GGGGCCCAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
26 17 0.30
27 16 0.28
28 3 0.05
29 5 0.09
30 16 0.28
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (29 bp):
AGAAAAAAAAGAAAAAAAAAGGAAAAAGA
Found at i:4138009 original size:25 final size:24
Alignment explanation
Indices: 4137955--4138009 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
4137945 GAAAAAAAAG
4137955 AAAAAAAAAAGAAAAGAGAAGAAA
1 AAAAAAAAAAGAAAAGAGAAGAAA
**
4137979 AGAAAAAAAAAGGAAAA-AGAAGGGA
1 A-AAAAAAAAA-GAAAAGAGAAGAAA
4138004 AAAAAA
1 AAAAAA
4138010 GGGAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 6 0.22
25 16 0.59
26 5 0.19
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAAGAAAAGAGAAGAAA
Found at i:4138025 original size:17 final size:17
Alignment explanation
Indices: 4137944--4138038 Score: 67
Period size: 17 Copynumber: 5.7 Consensus size: 17
4137934 AGCCCAGTCC
4137944 AGAAAAAAAA-GAAAAA
1 AGAAAAAAAAGGAAAAA
4137960 A-AAAAGAAAAGAGAAGAAA
1 AGAAAA-AAAAG-GAA-AAA
4137979 AGAAAAAAAAAGG-AAAA
1 AG-AAAAAAAAGGAAAAA
***
4137996 AG-AAGGGAA--AAAAA
1 AGAAAAAAAAGGAAAAA
* *
4138010 GGGAAAAAAAGGAAAAA
1 AGAAAAAAAAGGAAAAA
4138027 AGAAAAAAAAGG
1 AGAAAAAAAAGG
4138039 GGGCCCAAGT
Statistics
Matches: 60, Mismatches: 9, Indels: 19
0.68 0.10 0.22
Matches are distributed among these distances:
14 5 0.08
15 12 0.20
16 5 0.08
17 20 0.33
18 4 0.07
19 5 0.08
20 5 0.08
21 4 0.07
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (17 bp):
AGAAAAAAAAGGAAAAA
Found at i:4138239 original size:21 final size:21
Alignment explanation
Indices: 4138197--4138239 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4138187 GTATTTATGT
* *
4138197 TTTTAATTTAATTTATTGTAA
1 TTTTAATTTAAATAATTGTAA
* *
4138218 TTTTATTTTAAATAATTTTAA
1 TTTTAATTTAAATAATTGTAA
4138239 T
1 T
4138240 AAATAAAGCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTAATTTAAATAATTGTAA
Found at i:4138370 original size:18 final size:18
Alignment explanation
Indices: 4138349--4138412 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
4138339 ATCGAAAATA
4138349 TTCAAAAAATTTCGTGTT
1 TTCAAAAAATTTCGTGTT
* *
4138367 TTCAAAAAAAATTCTTGTGT
1 TTC-AAAAAATTTCGTGT-T
* * *
4138387 TTC-AAAATTTTCGTATC
1 TTCAAAAAATTTCGTGTT
4138404 TTCAAAAAA
1 TTCAAAAAA
4138413 AATTTCTAGT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
17 3 0.09
18 16 0.46
19 12 0.34
20 4 0.11
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (18 bp):
TTCAAAAAATTTCGTGTT
Found at i:4138377 original size:20 final size:20
Alignment explanation
Indices: 4138352--4138418 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
4138342 GAAAATATTC
4138352 AAAAAATTTCGTGTTTTCAA
1 AAAAAATTTCGTGTTTTCAA
*
4138372 AAAAAA-TTCTTGTGTTTC--
1 AAAAAATTTCGTGT-TTTCAA
* * *
4138390 -AAAATTTTCGTATCTTCAA
1 AAAAAATTTCGTGTTTTCAA
4138409 AAAAAATTTC
1 AAAAAATTTC
4138419 TAGTGCCTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
17 7 0.19
18 5 0.14
19 6 0.17
20 18 0.50
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (20 bp):
AAAAAATTTCGTGTTTTCAA
Found at i:4138622 original size:17 final size:17
Alignment explanation
Indices: 4138588--4138893 Score: 172
Period size: 18 Copynumber: 17.2 Consensus size: 17
4138578 ATCCTCGTAT
*
4138588 TTTCAAAAA-TTCCAGTG
1 TTTCAAAAATTTTC-GTG
4138605 TTTCAAAAATTTTCGTG
1 TTTCAAAAATTTTCGTG
** * *
4138622 TTTTTAGAA-TTCCAGTG
1 TTTCAAAAATTTTC-GTG
* *
4138639 ATTCAAACATTTTTCGTG
1 TTTCAAA-AATTTTCGTG
4138657 TTTTCTAAAAA-TTTC-TG
1 -TTTC-AAAAATTTTCGTG
*
4138674 CATTTCAAAAAAATTTTTGTG
1 --TTTC--AAAAATTTTCGTG
* *
4138695 TTTACAAAAATTTTCATAT
1 TTT-CAAAAATTTTCGT-G
4138714 TTTCAAAAATTTTCGTG
1 TTTCAAAAATTTTCGTG
* *
4138731 TTTTCAACAATTCTCGTG
1 -TTTCAAAAATTTTCGTG
*
4138749 TTTCACAAATTTTCGTG
1 TTTCAAAAATTTTCGTG
* **
4138766 TTTTAAAAAAAATT-GTG
1 -TTTCAAAAATTTTCGTG
*
4138783 TTTTAAAAAAATTTTCTTGTG
1 -TTT-CAAAAATTTTC--GTG
* * *
4138804 TTTTAAAAATTGTCGCG
1 TTTCAAAAATTTTCGTG
*
4138821 TTTCAAAAATCTTCGTG
1 TTTCAAAAATTTTCGTG
*
4138838 TTTTCAAAAATTTTCGGG
1 -TTTCAAAAATTTTCGTG
* *
4138856 TTTTGAAAAATTCTCGTG
1 -TTTCAAAAATTTTCGTG
* *
4138874 ATTCAAAAACTTTCGTG
1 TTTCAAAAATTTTCGTG
4138891 TTT
1 TTT
4138894 TTTTTTTAAA
Statistics
Matches: 221, Mismatches: 49, Indels: 38
0.72 0.16 0.12
Matches are distributed among these distances:
16 3 0.01
17 77 0.35
18 99 0.45
19 27 0.12
20 10 0.05
21 5 0.02
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.45
Consensus pattern (17 bp):
TTTCAAAAATTTTCGTG
Found at i:4138634 original size:34 final size:35
Alignment explanation
Indices: 4138595--4138660 Score: 107
Period size: 34 Copynumber: 1.9 Consensus size: 35
4138585 TATTTTCAAA
*
4138595 AATTCCAGTGTTTCAAA-AATTTTCGTGTTTTTAG
1 AATTCCAGTGATTCAAACAATTTTCGTGTTTTTAG
*
4138629 AATTCCAGTGATTCAAACATTTTTCGTGTTTT
1 AATTCCAGTGATTCAAACAATTTTCGTGTTTT
4138661 CTAAAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.47
Consensus pattern (35 bp):
AATTCCAGTGATTCAAACAATTTTCGTGTTTTTAG
Found at i:4138865 original size:36 final size:36
Alignment explanation
Indices: 4138582--4138894 Score: 209
Period size: 35 Copynumber: 8.8 Consensus size: 36
4138572 TAAAAAATCC
* *
4138582 TCGTATTTTCAAAAA-TTCCAGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTTTC-GTGTTTTCAAAAATTT
* * * * *
4138617 TCGTGTTTT-TAGAA-TTCCAGTG-ATTCAAACATTTT
1 TCGTGTTTTCAAAAATTTTC-GTGTTTTCAAA-AATTT
*
4138652 TCGTGTTTTCTAAAAA-TTTC-TGCATTTCAAAAAAATTT
1 TCGTGTTTTC-AAAAATTTTCGTG-TTTTC--AAAAATTT
* * * *
4138690 TTGTGTTTACAAAAATTTTCATATTTTCAAAAATTT
1 TCGTGTTTTCAAAAATTTTCGTGTTTTCAAAAATTT
* * *
4138726 TCGTGTTTTCAACAATTCTCGTG-TTTCACAAATTT
1 TCGTGTTTTCAAAAATTTTCGTGTTTTCAAAAATTT
* ** *
4138761 TCGTGTTTTAAAAAAAATT-GTGTTTTAAAAAAATTT
1 TCGTGTTTTCAAAAATTTTCGTGTTTT-CAAAAATTT
* * *
4138797 TCTTGTGTTTT-AAAAATTGTCGCG-TTTCAAAAATCT
1 TC--GTGTTTTCAAAAATTTTCGTGTTTTCAAAAATTT
* * *
4138833 TCGTGTTTTCAAAAATTTTCGGGTTTTGAAAAATTC
1 TCGTGTTTTCAAAAATTTTCGTGTTTTCAAAAATTT
* *
4138869 TCGTG-ATTCAAAAACTTTCGTGTTTT
1 TCGTGTTTTCAAAAATTTTCGTGTTTT
4138895 TTTTTTAAAT
Statistics
Matches: 220, Mismatches: 42, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
34 27 0.12
35 80 0.36
36 57 0.26
37 23 0.10
38 29 0.13
39 4 0.02
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (36 bp):
TCGTGTTTTCAAAAATTTTCGTGTTTTCAAAAATTT
Done.