Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr6
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: 26303135
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 1968672 characters in sequence are not A, C, G, or T
File 33 of 66
Found at i:11333594 original size:35 final size:35
Alignment explanation
Indices: 11333483--11333596 Score: 119
Period size: 35 Copynumber: 3.3 Consensus size: 35
11333473 GTTTGTTTTG
*
11333483 GGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAA
1 GGTTGTGGTTGATCCCGTGAAAAACCATTGTTAAA
* ** * * *
11333518 GGTTGTGGTTGAGCCTTTGAAAAGCCACT-TT--G
1 GGTTGTGGTTGATCCCGTGAAAAACCATTGTTAAA
*
11333550 GGTTTTGGTTGATCCCAGT-AAAAACCATTGTTAAA
1 GGTTGTGGTTGATCCC-GTGAAAAACCATTGTTAAA
11333585 GGTTGTGGTTGA
1 GGTTGTGGTTGA
11333597 GCTTACGAAA
Statistics
Matches: 60, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
32 21 0.35
33 3 0.05
34 2 0.03
35 34 0.57
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (35 bp):
GGTTGTGGTTGATCCCGTGAAAAACCATTGTTAAA
Found at i:11333613 original size:35 final size:34
Alignment explanation
Indices: 11333501--11333620 Score: 102
Period size: 35 Copynumber: 3.5 Consensus size: 34
11333491 TTGATCCCGT
*
11333501 GAAAAACCATTGTTAAAGGTTGTGGTTGAGCCTTT
1 GAAAAACCATTGTTAAAGGTTGTGGTTGAG-CTTA
* * * * * **
11333536 GAAAAGCCACT-TT--GGGTTTTGGTTGATCCCA
1 GAAAAACCATTGTTAAAGGTTGTGGTTGAGCTTA
11333567 GTAAAAACCATTGTTAAAGGTTGTGGTTGAGCTTA
1 G-AAAAACCATTGTTAAAGGTTGTGGTTGAGCTTA
* *
11333602 CGAAAAGCCATTGTAAAAG
1 -GAAAAACCATTGTTAAAG
11333621 CTTGGTGGGA
Statistics
Matches: 63, Mismatches: 17, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
31 2 0.03
32 19 0.30
33 2 0.03
34 2 0.03
35 37 0.59
36 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (34 bp):
GAAAAACCATTGTTAAAGGTTGTGGTTGAGCTTA
Found at i:11340493 original size:23 final size:23
Alignment explanation
Indices: 11340463--11340548 Score: 154
Period size: 23 Copynumber: 3.7 Consensus size: 23
11340453 AAATATCATC
11340463 TTTCAGCAGCTTCTTCTCACATT
1 TTTCAGCAGCTTCTTCTCACATT
11340486 TTTCAGCAGCTTCTTCTCACATT
1 TTTCAGCAGCTTCTTCTCACATT
*
11340509 TTTTAGCAGCTTCTTCTCACATT
1 TTTCAGCAGCTTCTTCTCACATT
*
11340532 TTTTAGCAGCTTCTTCT
1 TTTCAGCAGCTTCTTCT
11340549 TCTTCTTCCT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.16, C:0.28, G:0.09, T:0.47
Consensus pattern (23 bp):
TTTCAGCAGCTTCTTCTCACATT
Found at i:11341314 original size:37 final size:38
Alignment explanation
Indices: 11341261--11341381 Score: 160
Period size: 37 Copynumber: 3.3 Consensus size: 38
11341251 TAATGTTGTG
* *
11341261 TGATGATG-TTGAAGTGTGCAAGTAGGGAGTGCACACA
1 TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
*
11341298 TGATGATGATAG-AGTGTACGAGTAGGGAGTGCACACA
1 TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
* * *
11341335 TGATGATG-TTGAAGTGTGTGAGGAGGGAGTGCACACA
1 TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
11341372 TGA-GATGATA
1 TGATGATGATA
11341382 TTGCATTGAG
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
36 6 0.08
37 65 0.89
38 2 0.03
ACGTcount: A:0.31, C:0.09, G:0.36, T:0.24
Consensus pattern (38 bp):
TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
Found at i:11341624 original size:21 final size:21
Alignment explanation
Indices: 11341600--11341655 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
11341590 GCTCTGTTTC
*
11341600 TCGCTATAGCGAGATTCATTT
1 TCGCTACAGCGAGATTCATTT
*
11341621 TCGCTGCAGCGAGATTCATTT
1 TCGCTACAGCGAGATTCATTT
* *
11341642 TCGCTGCAACGAGA
1 TCGCTACAGCGAGA
11341656 AACTCTTAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (21 bp):
TCGCTACAGCGAGATTCATTT
Found at i:11353292 original size:28 final size:28
Alignment explanation
Indices: 11353260--11353324 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
11353250 TAACTTACTA
* *
11353260 TTGGGTCTTTTTCATTTCTTTATGACCT
1 TTGGGCCTTTTTCATTCCTTTATGACCT
11353288 TTGGGCCTTTTTCATTCCTTTATGACCT
1 TTGGGCCTTTTTCATTCCTTTATGACCT
11353316 TTGGGCCTT
1 TTGGGCCTT
11353325 CTCCATGGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.09, C:0.22, G:0.17, T:0.52
Consensus pattern (28 bp):
TTGGGCCTTTTTCATTCCTTTATGACCT
Found at i:11353410 original size:25 final size:25
Alignment explanation
Indices: 11353373--11353435 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
11353363 CCATTTATTT
*
11353373 TTTATTTCATATTGGGCCATGCCCA
1 TTTATTTTATATTGGGCCATGCCCA
* *
11353398 TTTATTTTTTATTGGGTCATGCCCA
1 TTTATTTTATATTGGGCCATGCCCA
*
11353423 TTTATTTTCTATT
1 TTTATTTTATATT
11353436 TCTTTTTCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.17, C:0.17, G:0.13, T:0.52
Consensus pattern (25 bp):
TTTATTTTATATTGGGCCATGCCCA
Found at i:11353535 original size:22 final size:22
Alignment explanation
Indices: 11353507--11353554 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
11353497 CCGTCACTCC
11353507 CTTCACCA-CTGTGGCTTCCTCT
1 CTTCACCATC-GTGGCTTCCTCT
11353529 CTTCACCATCGTGGCTTCCTCT
1 CTTCACCATCGTGGCTTCCTCT
11353551 CTTC
1 CTTC
11353555 CTTTCCTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.08, C:0.42, G:0.12, T:0.38
Consensus pattern (22 bp):
CTTCACCATCGTGGCTTCCTCT
Found at i:11353737 original size:34 final size:34
Alignment explanation
Indices: 11353713--11353799 Score: 156
Period size: 34 Copynumber: 2.6 Consensus size: 34
11353703 ACAAACTACC
*
11353713 AGCAAATAGCTCTAATTTTTCTGCACAAATTGGT
1 AGCAAATAGCTCAAATTTTTCTGCACAAATTGGT
*
11353747 AGCAAACAGCTCAAATTTTTCTGCACAAATTGGT
1 AGCAAATAGCTCAAATTTTTCTGCACAAATTGGT
11353781 AGCAAATAGCTCAAATTTT
1 AGCAAATAGCTCAAATTTT
11353800 CAACAACCAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (34 bp):
AGCAAATAGCTCAAATTTTTCTGCACAAATTGGT
Found at i:11355636 original size:37 final size:38
Alignment explanation
Indices: 11355583--11355704 Score: 187
Period size: 37 Copynumber: 3.3 Consensus size: 38
11355573 TAATGTTGTG
*
11355583 TGATGATG-TTGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
11355620 TGATGATGATAG-AGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
* * *
11355657 TGATGATG-TTGAAGTATGCAAGTAGGGAGTGCACACA
1 TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
11355694 TGATGATGATA
1 TGATGATGATA
11355705 TTGCATTGAG
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
36 2 0.03
37 72 0.94
38 3 0.04
ACGTcount: A:0.30, C:0.10, G:0.35, T:0.25
Consensus pattern (38 bp):
TGATGATGATAGAAGTGTGCGAGTAGGGAGTGCACACA
Found at i:11355865 original size:65 final size:64
Alignment explanation
Indices: 11355761--11355889 Score: 249
Period size: 65 Copynumber: 2.0 Consensus size: 64
11355751 TATATACAAA
11355761 TATATATATATATATATATATATGTGTTATAGAAAGTCTATGAAAATTATTATGATTGTGTTGT
1 TATATATATATATATATATATATGTGTTATAGAAAGTCTATGAAAATTATTATGATTGTGTTGT
11355825 NTATATATATATATATATATATATGTGTTATAGAAAGTCTATGAAAATTATTATGATTGTGTTGT
1 -TATATATATATATATATATATATGTGTTATAGAAAGTCTATGAAAATTATTATGATTGTGTTGT
11355890 GTGTTGGCAT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (64 bp):
TATATATATATATATATATATATGTGTTATAGAAAGTCTATGAAAATTATTATGATTGTGTTGT
Found at i:11357178 original size:12 final size:11
Alignment explanation
Indices: 11357169--11357205 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
11357159 TTTCTCTCTT
11357169 TTTCTTTCTCC
1 TTTCTTTCTCC
11357180 TTTCTTTCT--
1 TTTCTTTCTCC
*
11357189 TTCCTTTCTCC
1 TTTCTTTCTCC
11357200 TTTCTT
1 TTTCTT
11357206 CCAACTGATC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTCTTTCTCC
Found at i:11367488 original size:42 final size:42
Alignment explanation
Indices: 11367376--11367489 Score: 149
Period size: 41 Copynumber: 2.7 Consensus size: 42
11367366 TTGACTCGGT
* * *
11367376 TATGTGCGAGTAAGAGTGTGCATAAGCCGATGCTGACCCGGC
1 TATGTGCGAGTAAGAGTGCGCATAAGCCGATACTAACCCGGC
* * * *
11367418 TATGAGCGCG-AGGAGTGCTCATAAGCCGATACTAACCCGGC
1 TATGTGCGAGTAAGAGTGCGCATAAGCCGATACTAACCCGGC
*
11367459 TATGTGTGAGTAAGAGTGCGCATAAGCCGAT
1 TATGTGCGAGTAAGAGTGCGCATAAGCCGAT
11367490 GCTGACCCAA
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 33 0.56
42 26 0.44
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (42 bp):
TATGTGCGAGTAAGAGTGCGCATAAGCCGATACTAACCCGGC
Found at i:11367506 original size:42 final size:42
Alignment explanation
Indices: 11367367--11367497 Score: 165
Period size: 42 Copynumber: 3.1 Consensus size: 42
11367357 GTAATGATAT
* * *
11367367 TGACTCGGTTATGTGCGAGTAAGAGTGTGCATAAGCCGATGC
1 TGACCCGGCTATGTGCGAGTAAGAGTGCGCATAAGCCGATGC
* * * * *
11367409 TGACCCGGCTATGAGCGCG-AGGAGTGCTCATAAGCCGATAC
1 TGACCCGGCTATGTGCGAGTAAGAGTGCGCATAAGCCGATGC
* *
11367450 TAACCCGGCTATGTGTGAGTAAGAGTGCGCATAAGCCGATGC
1 TGACCCGGCTATGTGCGAGTAAGAGTGCGCATAAGCCGATGC
11367492 TGACCC
1 TGACCC
11367498 AACCATGTGC
Statistics
Matches: 72, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
41 33 0.46
42 39 0.54
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.21
Consensus pattern (42 bp):
TGACCCGGCTATGTGCGAGTAAGAGTGCGCATAAGCCGATGC
Found at i:11386583 original size:21 final size:22
Alignment explanation
Indices: 11386557--11386597 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
11386547 ACCTGAGAGT
*
11386557 TTCTCGCTGTAGCGA-AAATGA
1 TTCTCGCTGCAGCGAGAAATGA
11386578 TTCTCGCTGCAGCGAGAAAT
1 TTCTCGCTGCAGCGAGAAAT
11386598 AAGGCACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (22 bp):
TTCTCGCTGCAGCGAGAAATGA
Found at i:11386829 original size:43 final size:43
Alignment explanation
Indices: 11386781--11386912 Score: 149
Period size: 43 Copynumber: 3.1 Consensus size: 43
11386771 ATCATCATTA
* * ** *
11386781 TCATCACCAGCTCATGCGCACTCCCTACTCGCACATGGCTGAG
1 TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAACCGAG
* * * *
11386824 TCATCATCGGGTTATGCGCACTCCCTACTTGCACATAACCGGG
1 TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAACCGAG
* *
11386867 TCATC-CTCGGCTTATGCGCACTCCCTACTCGCATATAGCCGAG
1 TCATCAC-CGGCTTATGCGCACTCCCTACTCGCACATAACCGAG
11386910 TCA
1 TCA
11386913 ATGTCATTAC
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.20, C:0.36, G:0.19, T:0.24
Consensus pattern (43 bp):
TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAACCGAG
Found at i:11397813 original size:40 final size:39
Alignment explanation
Indices: 11397769--11397909 Score: 133
Period size: 39 Copynumber: 3.6 Consensus size: 39
11397759 TGCCCGGCTT
* * *
11397769 CTCGCTGTAGCGAGAAACATTCTATTTTTGCTACCTGCT-A
1 CTCGCTGCAGCGAGAAACTTTCT-TTTTTACTACCTG-TAA
* * *
11397809 CTCGCTGCAGTGAGAAACTTTCTGTTTTACTGCCTGTAA
1 CTCGCTGCAGCGAGAAACTTTCTTTTTTACTACCTGTAA
* * * * *
11397848 CTTGCTGCAGCGAGAAACTTTCTGTTTTGCTGCTTG-AA
1 CTCGCTGCAGCGAGAAACTTTCTTTTTTACTACCTGTAA
*
11397886 TCTTGCTGCAGCGAGAAACTTTCT
1 -CTCGCTGCAGCGAGAAACTTTCT
11397910 ATCCTGCATG
Statistics
Matches: 89, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
38 3 0.03
39 66 0.74
40 20 0.22
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (39 bp):
CTCGCTGCAGCGAGAAACTTTCTTTTTTACTACCTGTAA
Found at i:11397857 original size:39 final size:39
Alignment explanation
Indices: 11397812--11397909 Score: 153
Period size: 39 Copynumber: 2.5 Consensus size: 39
11397802 CCTGCTACTC
*
11397812 GCTGCAGTGAGAAACTTTCTGTTTTACTGCCTGTAA-CTT
1 GCTGCAGCGAGAAACTTTCTGTTTTACTGCCTG-AATCTT
* *
11397851 GCTGCAGCGAGAAACTTTCTGTTTTGCTGCTTGAATCTT
1 GCTGCAGCGAGAAACTTTCTGTTTTACTGCCTGAATCTT
11397890 GCTGCAGCGAGAAACTTTCT
1 GCTGCAGCGAGAAACTTTCT
11397910 ATCCTGCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
38 2 0.04
39 53 0.96
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.36
Consensus pattern (39 bp):
GCTGCAGCGAGAAACTTTCTGTTTTACTGCCTGAATCTT
Found at i:11402809 original size:38 final size:39
Alignment explanation
Indices: 11402758--11402860 Score: 120
Period size: 38 Copynumber: 2.6 Consensus size: 39
11402748 ATAATGCCCG
* * * *
11402758 TGTGCACAATGTGGGGGGATGTACACAATGGCAT-TGAT-
1 TGTGCACGATGTGGGGGGATGCACACAATGAC-TCAGATA
* *
11402796 TGTGCACGATGTGGGGGGATGCACACGATGACTCCAGCTA
1 TGTGCACGATGTGGGGGGATGCACACAATGACT-CAGATA
11402836 TGTGCACGATGTGGGGGGATGCACA
1 TGTGCACGATGTGGGGGGATGCACA
11402861 TGAATTGGGT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
37 1 0.02
38 28 0.50
39 2 0.04
40 25 0.45
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.22
Consensus pattern (39 bp):
TGTGCACGATGTGGGGGGATGCACACAATGACTCAGATA
Found at i:11404410 original size:14 final size:14
Alignment explanation
Indices: 11404391--11404425 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
11404381 ATCCTGTTTT
11404391 GGCACCCTTGATTA
1 GGCACCCTTGATTA
11404405 GGCACCCTTGATTA
1 GGCACCCTTGATTA
11404419 GGCACCC
1 GGCACCC
11404426 ATAAGGATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.20, C:0.34, G:0.23, T:0.23
Consensus pattern (14 bp):
GGCACCCTTGATTA
Found at i:11406005 original size:17 final size:17
Alignment explanation
Indices: 11405979--11406024 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
11405969 ATTTATAAAA
11405979 AATTCAATTTATTTTAT
1 AATTCAATTTATTTTAT
*
11405996 AATTCCATTTATTTTAT
1 AATTCAATTTATTTTAT
11406013 AAATTCATATTT
1 -AATTCA-ATTT
11406025 TTCTCATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 16 0.64
18 5 0.20
19 4 0.16
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.57
Consensus pattern (17 bp):
AATTCAATTTATTTTAT
Found at i:11419561 original size:23 final size:24
Alignment explanation
Indices: 11419521--11419570 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
11419511 TAAGTAGGCC
*
11419521 TAAGGCATAAATGAATGATGAAAA
1 TAAGGCATAAATGAATGAAGAAAA
*
11419545 TAAGG-ATAAAATG-ATGAAGGAAA
1 TAAGGCAT-AAATGAATGAAGAAAA
11419568 TAA
1 TAA
11419571 AAATAATGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.56, C:0.02, G:0.22, T:0.20
Consensus pattern (24 bp):
TAAGGCATAAATGAATGAAGAAAA
Found at i:11420598 original size:2 final size:2
Alignment explanation
Indices: 11420591--11420653 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
11420581 TGTTGGTATG
11420591 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11420633 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
11420654 GTGTNNNNNN
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11420881 original size:37 final size:37
Alignment explanation
Indices: 11420839--11420957 Score: 195
Period size: 37 Copynumber: 3.2 Consensus size: 37
11420829 TGATGTTGTG
11420839 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
11420876 TGATGATGTT-AGAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGA-AGTGTGCGAGTAGGGAGTGCACACA
* * *
11420913 TGGTGATGTTGAGGTGTGCGAGTATGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
11420950 TGATGATG
1 TGATGATG
11420958 ATATTGCATT
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
36 1 0.01
37 74 0.97
38 1 0.01
ACGTcount: A:0.25, C:0.10, G:0.39, T:0.26
Consensus pattern (37 bp):
TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
Found at i:11423774 original size:2 final size:2
Alignment explanation
Indices: 11423769--11423801 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11423759 TCTATGTATG
11423769 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11423802 CCATCATCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11423957 original size:42 final size:42
Alignment explanation
Indices: 11423868--11423957 Score: 144
Period size: 42 Copynumber: 2.1 Consensus size: 42
11423858 GCACATGATA
* *
11423868 GGGTTAGCATCGGCTTATGCACACTCCCACTCGCACATAGTC
1 GGGTCAGCATCGGCTTATGCACACTCCCACTCGCACATAGCC
* *
11423910 AGGTCAGCATCGGCTTATGCTCACTCCCACTCGCACATAGCC
1 GGGTCAGCATCGGCTTATGCACACTCCCACTCGCACATAGCC
11423952 GGGTCA
1 GGGTCA
11423958 ATATCATTAC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.21, C:0.34, G:0.22, T:0.22
Consensus pattern (42 bp):
GGGTCAGCATCGGCTTATGCACACTCCCACTCGCACATAGCC
Found at i:11428773 original size:43 final size:43
Alignment explanation
Indices: 11428725--11428937 Score: 309
Period size: 43 Copynumber: 5.0 Consensus size: 43
11428715 CAACTCTCTC
* *
11428725 TCAGCTAATGTGCACTCCCACACCGCACATAGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCTACACCGCACATAGCTGGGTCATCA
*
11428768 TCAGCTCATGTGCACTCCTACACCGCACATGGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCTACACCGCACATAGCTGGGTCATCA
* * *
11428811 TTAGTTCATGTGCACTCCTACACCGCACATGGCTGGGTCATCA
1 TCAGCTCATGTGCACTCCTACACCGCACATAGCTGGGTCATCA
* * * *
11428854 TCAGCTCATGTTCACTCCTACACTGCACATAGATAGGTCATCA
1 TCAGCTCATGTGCACTCCTACACCGCACATAGCTGGGTCATCA
* * *
11428897 TCAGCTCATGTGCACTCTTACATCGCACATAACTGGGTCAT
1 TCAGCTCATGTGCACTCCTACACCGCACATAGCTGGGTCAT
11428938 AATTATCACA
Statistics
Matches: 151, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 151 1.00
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (43 bp):
TCAGCTCATGTGCACTCCTACACCGCACATAGCTGGGTCATCA
Found at i:11429524 original size:20 final size:20
Alignment explanation
Indices: 11429501--11429538 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11429491 AAGAAGAAGA
*
11429501 AGAAGAAGTTGCTGGAAATT
1 AGAAGAAGTTGCTAGAAATT
*
11429521 AGAAGTAGTTGCTAGAAA
1 AGAAGAAGTTGCTAGAAA
11429539 CTTAAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.05, G:0.29, T:0.24
Consensus pattern (20 bp):
AGAAGAAGTTGCTAGAAATT
Found at i:11434604 original size:43 final size:43
Alignment explanation
Indices: 11434517--11434635 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 43
11434507 GTAATGATAT
**
11434517 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGATGA
1 TGACTCGGCTATGCACGAGTAGGGAGTGCGCATAAGCCGATGA
* *
11434560 TGACTCGGTTATGCACGAGTAGGGAGTGCGCATAA-CTCGGTGA
1 TGACTCGGCTATGCACGAGTAGGGAGTGCGCATAAGC-CGATGA
* * **
11434603 TGAC-CTAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACTC-GGCTATGCACGAGTAGGGAGTGCGCAT
11434636 GAGCTGGGGA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 2 0.03
43 63 0.97
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.22
Consensus pattern (43 bp):
TGACTCGGCTATGCACGAGTAGGGAGTGCGCATAAGCCGATGA
Found at i:11434676 original size:23 final size:23
Alignment explanation
Indices: 11434650--11434694 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
11434640 TGGGGATAAT
11434650 GGGATGGTGTGCATGATGATGAC
1 GGGATGGTGTGCATGATGATGAC
11434673 GGGATGGTGTGCATGATGATGA
1 GGGATGGTGTGCATGATGATGA
11434695 TGGGTATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.07, G:0.44, T:0.27
Consensus pattern (23 bp):
GGGATGGTGTGCATGATGATGAC
Found at i:11436997 original size:38 final size:40
Alignment explanation
Indices: 11436903--11437008 Score: 126
Period size: 38 Copynumber: 2.7 Consensus size: 40
11436893 CACACCCGAC
* *
11436903 TCATGTACATCCCCCCACATCGTGCATATAGTCGGCGCCA
1 TCATGTACATCCCCCCACATCGTGCACATAGTCAGCGCCA
* * * * **
11436943 TCGTGTGCATCTCCCCACATCATGCACA-A-TCAGTTCCA
1 TCATGTACATCCCCCCACATCGTGCACATAGTCAGCGCCA
11436981 TCATGTACATCCCCCCACATCGTGCACA
1 TCATGTACATCCCCCCACATCGTGCACA
11437009 CGGGCACTAC
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
38 30 0.56
39 1 0.02
40 23 0.43
ACGTcount: A:0.24, C:0.39, G:0.14, T:0.24
Consensus pattern (40 bp):
TCATGTACATCCCCCCACATCGTGCACATAGTCAGCGCCA
Found at i:11440587 original size:30 final size:30
Alignment explanation
Indices: 11440551--11440610 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
11440541 GCGTAAGGGC
11440551 CCAATAAGCTTAACCCACTAGGCCCTAGCA
1 CCAATAAGCTTAACCCACTAGGCCCTAGCA
11440581 CCAATAAGCTTAACCCACTAGGCCCTAGCA
1 CCAATAAGCTTAACCCACTAGGCCCTAGCA
11440611 AGCTTTCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.37, G:0.13, T:0.17
Consensus pattern (30 bp):
CCAATAAGCTTAACCCACTAGGCCCTAGCA
Found at i:11443168 original size:43 final size:43
Alignment explanation
Indices: 11443050--11443171 Score: 167
Period size: 43 Copynumber: 2.8 Consensus size: 43
11443040 TGACTCGACT
**
11443050 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCAGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCAGGCC
*
11443093 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCA-GCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA-CCAGGCC
* *
11443136 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
11443172 TGATGATGAG
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.01
43 67 0.94
44 3 0.04
ACGTcount: A:0.24, C:0.18, G:0.39, T:0.19
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCAGGCC
Found at i:11443182 original size:20 final size:20
Alignment explanation
Indices: 11443157--11443219 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
11443147 GGGAGTGCGC
11443157 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
11443177 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
* *
11443197 ATGGGTTGGTGA-GATGATG
1 ATGAGCTGGTGATGATGATG
11443216 ATGA
1 ATGA
11443220 TGGGTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.25, C:0.03, G:0.41, T:0.30
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:11451474 original size:43 final size:43
Alignment explanation
Indices: 11451426--11451547 Score: 172
Period size: 43 Copynumber: 2.8 Consensus size: 43
11451416 CAACTCTCTC
* * *
11451426 TTAGCTTATGTGCACTCCCACACCGCACATTGCTGGGTCATCA
1 TTAGCTCATGTGCACTCCTACACCACACATTGCTGGGTCATCA
* * *
11451469 TTAGCTCATGTGCACTCCTACACCATACATGGCTAGGTCATCA
1 TTAGCTCATGTGCACTCCTACACCACACATTGCTGGGTCATCA
* *
11451512 TCAGCTCATGTGCACTCCTACACCTCACATTGCTGG
1 TTAGCTCATGTGCACTCCTACACCACACATTGCTGG
11451548 TGTAGCATCC
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.22, C:0.33, G:0.17, T:0.28
Consensus pattern (43 bp):
TTAGCTCATGTGCACTCCTACACCACACATTGCTGGGTCATCA
Found at i:11453033 original size:86 final size:86
Alignment explanation
Indices: 11452888--11453100 Score: 302
Period size: 86 Copynumber: 2.5 Consensus size: 86
11452878 TTGTGTGATA
** * * *
11452888 ATGATGACTCGGTTATGTGTGAGTAGGGAGTGCACATGAGCCGATGATGACCTAGCTATGTACGG
1 ATGATGACTCGACTATGTGCGAGTAGGGAGTGCACATGAGCCGATGATGACCCAACTATGTACGG
*
11452953 TGTGAGAGTGCACATGAGCTG
66 AGTGAGAGTGCACATGAGCTG
*
11452974 ATGATGACTCGACTATGTGCGAGTAGGGAGTGCACATGAGCCGATGATGACCCAACTATGTGCGG
1 ATGATGACTCGACTATGTGCGAGTAGGGAGTGCACATGAGCCGATGATGACCCAACTATGTACGG
*
11453039 AGTGGGAGTGCACATGAGCTG
66 AGTGAGAGTGCACATGAGCTG
* * **
11453060 ATGATGAC-CCAGCCATGTGCGAGTAGGGTTTGCACATGAGC
1 ATGATGACTCGA-CTATGTGCGAGTAGGGAGTGCACATGAGC
11453101 TGAGTGTGGA
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
85 2 0.02
86 112 0.98
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.23
Consensus pattern (86 bp):
ATGATGACTCGACTATGTGCGAGTAGGGAGTGCACATGAGCCGATGATGACCCAACTATGTACGG
AGTGAGAGTGCACATGAGCTG
Found at i:11453101 original size:43 final size:43
Alignment explanation
Indices: 11452901--11453103 Score: 252
Period size: 43 Copynumber: 4.7 Consensus size: 43
11452891 ATGACTCGGT
* * *
11452901 TATGTGTGAGTAGGGAGTGCACATGAGCCGATGATGACCTAGC
1 TATGTGCGAGTAGGGAGTGCACATGAGCTGATGATGACCCAGC
* *
11452944 TATGTACG-GT-GTGAGAGTGCACATGAGCTGATGATGACTC-GAC
1 TATGTGCGAGTAG-G-GAGTGCACATGAGCTGATGATGACCCAG-C
* *
11452987 TATGTGCGAGTAGGGAGTGCACATGAGCCGATGATGACCCAAC
1 TATGTGCGAGTAGGGAGTGCACATGAGCTGATGATGACCCAGC
11453030 TATGTGCGGAGT-GGGAGTGCACATGAGCTGATGATGACCCAGC
1 TATGTGC-GAGTAGGGAGTGCACATGAGCTGATGATGACCCAGC
* **
11453073 CATGTGCGAGTAGGGTTTGCACATGAGCTGA
1 TATGTGCGAGTAGGGAGTGCACATGAGCTGA
11453104 GTGTGGAGGG
Statistics
Matches: 138, Mismatches: 14, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
41 1 0.01
42 8 0.06
43 121 0.88
44 7 0.05
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.23
Consensus pattern (43 bp):
TATGTGCGAGTAGGGAGTGCACATGAGCTGATGATGACCCAGC
Found at i:11460516 original size:20 final size:20
Alignment explanation
Indices: 11460490--11460535 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
11460480 ATCTTACATT
* *
11460490 TTTTTCACTTATTTCCTTGAA
1 TTTTACACTT-TTCCCTTGAA
11460511 TTTTCACACTTTTCCCTTGAA
1 TTTT-ACACTTTTCCCTTGAA
11460532 TTTT
1 TTTT
11460536 TCCACCTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.17, C:0.22, G:0.04, T:0.57
Consensus pattern (20 bp):
TTTTACACTTTTCCCTTGAA
Found at i:11460537 original size:22 final size:22
Alignment explanation
Indices: 11460495--11460535 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
11460485 ACATTTTTTT
*
11460495 CACTTATTTCCTTGAATTTTCA
1 CACTTATTCCCTTGAATTTTCA
11460517 CACTT-TTCCCTTGAATTTT
1 CACTTATTCCCTTGAATTTT
11460536 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.20, C:0.24, G:0.05, T:0.51
Consensus pattern (22 bp):
CACTTATTCCCTTGAATTTTCA
Found at i:11462124 original size:38 final size:39
Alignment explanation
Indices: 11462038--11462133 Score: 108
Period size: 38 Copynumber: 2.5 Consensus size: 39
11462028 ACTCGACTCA
* *
11462038 TGTACATCCCCCCACATCGTGCACATAGCTGGCACCATCG
1 TGTACATCCCCCCACATCATACACATAGCTGG-ACCATCG
*
11462078 TGTGCATCCCCCCACATCATACACAATCAG-T-G-CCATCG
1 TGTACATCCCCCCACATCATACAC-AT-AGCTGGACCATCG
*
11462116 TGTACATCCCCCCGCATC
1 TGTACATCCCCCCACATC
11462134 GTGCACACGG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
38 22 0.45
40 22 0.45
41 3 0.06
42 2 0.04
ACGTcount: A:0.23, C:0.42, G:0.15, T:0.21
Consensus pattern (39 bp):
TGTACATCCCCCCACATCATACACATAGCTGGACCATCG
Found at i:11464754 original size:132 final size:131
Alignment explanation
Indices: 11464595--11464857 Score: 508
Period size: 132 Copynumber: 2.0 Consensus size: 131
11464585 TTCATGGTGA
11464595 ATTCATGGCTGGTCAAAATGGGTATGGAGAGAGAATGATCTTGGATTGGTTTGATTTTTAGGTAT
1 ATTCATGGCTGGTCAAAATGGGTATGGAGAGAGAATGATCTTGGATTGGTTTGATTTTTAGGTAT
11464660 GTTAGTGTTTTTAGGTGATTAATGATGTGTAGCATGAAAACAAGTGAAGAAAACCACCAAAGGTT
66 GTTAGTGTTTTTAGGTGATTAATGATGTGTAGCATGAAAACAAGTGAAGAAAACCACCAAAGGTT
11464725 T
131 T
11464726 NATTCATGGCTGGTCAAAATGGGTATGGAGAGAGAATGATCTTGGATTGGTTTGATTTTTAGGTA
1 -ATTCATGGCTGGTCAAAATGGGTATGGAGAGAGAATGATCTTGGATTGGTTTGATTTTTAGGTA
*
11464791 TGTTAGTGTTTTTAGGTGATTAATGATGTGTAGCATGAAAACAAGTTAAGAAAACCACCAAAGGT
65 TGTTAGTGTTTTTAGGTGATTAATGATGTGTAGCATGAAAACAAGTGAAGAAAACCACCAAAGGT
11464856 TT
130 TT
11464858 GGTGCCCATC
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
132 130 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (131 bp):
ATTCATGGCTGGTCAAAATGGGTATGGAGAGAGAATGATCTTGGATTGGTTTGATTTTTAGGTAT
GTTAGTGTTTTTAGGTGATTAATGATGTGTAGCATGAAAACAAGTGAAGAAAACCACCAAAGGTT
T
Found at i:11466816 original size:20 final size:20
Alignment explanation
Indices: 11466793--11466831 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11466783 CAAATCTCAT
*
11466793 TTCATTTCATATAAATCAAA
1 TTCATTTCATAAAAATCAAA
11466813 TTCATTTCATAAAAATCAA
1 TTCATTTCATAAAAATCAA
11466832 CAAGGCTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (20 bp):
TTCATTTCATAAAAATCAAA
Found at i:11471376 original size:43 final size:42
Alignment explanation
Indices: 11471316--11471657 Score: 391
Period size: 43 Copynumber: 8.0 Consensus size: 42
11471306 TTGTGTGATA
*
11471316 ATGATGACCCGGCTATGTGCGAGTAGGGAGTGCACATGAGCCG
1 ATGATGACCCAGCTATGTGCGAGT-GGGAGTGCACATGAGCCG
* ** *
11471359 ATGATGACCCAGCTATGTGTGATGTGACAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGA-GTGGGAGTGCACATGAGCCG
* * * *
11471402 ATGATGACCTAGCTATGTGCTAGTAAGGAGTGCACATGAGTCG
1 ATGATGACCCAGCTATGTGCGAGT-GGGAGTGCACATGAGCCG
* * *
11471445 ATGATGACCCAACTATGTGCGGAGTGCGAGTGCACATGAGCCA
1 ATGATGACCCAGCTATGTGC-GAGTGGGAGTGCACATGAGCCG
* *
11471488 ATGATGACCCAGCTATGTGCG-GTGTGAGAATGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGAGTG-G-GAGTGCACATGAGCCG
*
11471531 ATGATGA-CCAGGCTATGTGCGAGTAAGGAGTGCACATGAGCCG
1 ATGATGACCCA-GCTATGTGCGAGT-GGGAGTGCACATGAGCCG
* * *
11471574 ATGATGACCCAGCTATGTGCGGAGTGGAAGTGAACATGAGCTG
1 ATGATGACCCAGCTATGTGC-GAGTGGGAGTGCACATGAGCCG
* * *
11471617 ATGATGACCCGGCCATGTGCGAGTAGGGATTGCACATGAGC
1 ATGATGACCCAGCTATGTGCGAGT-GGGAGTGCACATGAGC
11471658 TGAGTGTGGA
Statistics
Matches: 251, Mismatches: 37, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
41 3 0.01
42 10 0.04
43 223 0.89
44 15 0.06
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.21
Consensus pattern (42 bp):
ATGATGACCCAGCTATGTGCGAGTGGGAGTGCACATGAGCCG
Found at i:11471546 original size:129 final size:128
Alignment explanation
Indices: 11471316--11471660 Score: 473
Period size: 129 Copynumber: 2.7 Consensus size: 128
11471306 TTGTGTGATA
* *
11471316 ATGATGACCCGGCTATGTGC-GAGTAGGGAGTGCACATGAGCCGATGATGACCCAGCTATGTGTG
1 ATGATGACCCAGCTATGTGCGGAGT--GGAGTGCACATGAGCCGATGATGACCCAGCTATGTGCG
* * * * *
11471380 ATGTGACAGTGCACATGAGCTGATGATGACCTAGCTATGTGCTAGTAAGGAGTGCACATGAGTCG
64 GTGTGAGAATGCACATGAGCTGATGATGACCTAGCTATGTGCGAGTAAGGAGTGCACATGAGCCG
* *
11471445 ATGATGACCCAACTATGTGCGGAGTGCGAGTGCACATGAGCCAATGATGACCCAGCTATGTGCGG
1 ATGATGACCCAGCTATGTGCGGAGTG-GAGTGCACATGAGCCGATGATGACCCAGCTATGTGCGG
11471510 TGTGAGAATGCACATGAGCTGATGATGACC-AGGCTATGTGCGAGTAAGGAGTGCACATGAGCCG
65 TGTGAGAATGCACATGAGCTGATGATGACCTA-GCTATGTGCGAGTAAGGAGTGCACATGAGCCG
* * * *
11471574 ATGATGACCCAGCTATGTGCGGAGTGGAAGTGAACATGAGCTGATGATGACCCGGCCATGTGCGA
1 ATGATGACCCAGCTATGTGCGGAGTGG-AGTGCACATGAGCCGATGATGACCCAGCTATGTGCG-
*
11471639 GTAG-G-GATTGCACATGAGCTGA
64 GT-GTGAGAATGCACATGAGCTGA
11471661 GTGTGGAGGG
Statistics
Matches: 194, Mismatches: 16, Indels: 12
0.87 0.07 0.05
Matches are distributed among these distances:
128 3 0.02
129 183 0.94
130 7 0.04
131 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.21
Consensus pattern (128 bp):
ATGATGACCCAGCTATGTGCGGAGTGGAGTGCACATGAGCCGATGATGACCCAGCTATGTGCGGT
GTGAGAATGCACATGAGCTGATGATGACCTAGCTATGTGCGAGTAAGGAGTGCACATGAGCCG
Found at i:11473488 original size:20 final size:21
Alignment explanation
Indices: 11473463--11473506 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
11473453 AAGAAAAAGA
*
11473463 AGAATAAGTTGCTAGAAA-TT
1 AGAATAAGTTGCCAGAAACTT
11473483 AGAATAAGTTGCCAGAAACTT
1 AGAATAAGTTGCCAGAAACTT
11473504 AGA
1 AGA
11473507 TATTTATGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.25
Consensus pattern (21 bp):
AGAATAAGTTGCCAGAAACTT
Found at i:11474642 original size:19 final size:19
Alignment explanation
Indices: 11474618--11474656 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
11474608 AATTAAAACT
*
11474618 AGAGTTAGTTGCGCCAATG
1 AGAGTTAGTTGCACCAATG
11474637 AGAGTTAGTTGCACCAATG
1 AGAGTTAGTTGCACCAATG
11474656 A
1 A
11474657 ATTTGATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (19 bp):
AGAGTTAGTTGCACCAATG
Found at i:11477461 original size:22 final size:20
Alignment explanation
Indices: 11477436--11477486 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
11477426 TTGGAAATTA
*
11477436 CGTGACTACTTTTTAAGCATTG
1 CGTGACTAC-TTTGAA-CATTG
*
11477458 CGTGACTGACTTTGGACATTG
1 CGTGACT-ACTTTGAACATTG
11477479 CGTGACTA
1 CGTGACTA
11477487 GTTGATAGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 12 0.46
22 11 0.42
23 2 0.08
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (20 bp):
CGTGACTACTTTGAACATTG
Found at i:11477499 original size:43 final size:44
Alignment explanation
Indices: 11477425--11477508 Score: 98
Period size: 43 Copynumber: 1.9 Consensus size: 44
11477415 TTTGGTGATT
**
11477425 TTTGGAAATTACGTGACTACTTTTTAAGCA-TTGCGTGACTGAC
1 TTTGGAAATTACGTGACTACTTGATAAGCATTTGCGTGACTGAC
* * * * *
11477468 TTTGGACATTGCGTGACTAGTTGATAGGCATTTGTGTGACT
1 TTTGGAAATTACGTGACTACTTGATAAGCATTTGCGTGACT
11477509 TGTTAGTAAG
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
43 24 0.73
44 9 0.27
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.38
Consensus pattern (44 bp):
TTTGGAAATTACGTGACTACTTGATAAGCATTTGCGTGACTGAC
Found at i:11477506 original size:23 final size:23
Alignment explanation
Indices: 11477493--11477555 Score: 117
Period size: 23 Copynumber: 2.7 Consensus size: 23
11477483 ACTAGTTGAT
11477493 AGGCATTTGTGTGACTTGTTAGTA
1 AGGCA-TTGTGTGACTTGTTAGTA
11477517 AGGCATTGTGTGACTTGTTAGTA
1 AGGCATTGTGTGACTTGTTAGTA
11477540 AGGCATTGTGTGACTT
1 AGGCATTGTGTGACTT
11477556 AGGCATTACT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
23 34 0.87
24 5 0.13
ACGTcount: A:0.21, C:0.10, G:0.30, T:0.40
Consensus pattern (23 bp):
AGGCATTGTGTGACTTGTTAGTA
Found at i:11478643 original size:33 final size:33
Alignment explanation
Indices: 11478597--11478667 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
11478587 GACGAATCTT
* *
11478597 CGTTGCAGAGGGAAGGCATTCTCGCTGAAGCTA
1 CGTTGCAGAGGGAAGGCATTCCCGCTGAAGCGA
* * * * *
11478630 CGTTGTAGCGGGAATGCCTTCCCGCTGCAGCGA
1 CGTTGCAGAGGGAAGGCATTCCCGCTGAAGCGA
11478663 CGTTG
1 CGTTG
11478668 GAATTAAGTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.18, C:0.25, G:0.34, T:0.23
Consensus pattern (33 bp):
CGTTGCAGAGGGAAGGCATTCCCGCTGAAGCGA
Found at i:11478924 original size:58 final size:58
Alignment explanation
Indices: 11478845--11478995 Score: 239
Period size: 58 Copynumber: 2.6 Consensus size: 58
11478835 AAAACAAAAG
* * *
11478845 GTTTTTCGCTGCAGCGAGATTCAATTTGCTGCAATGAAATTGTAACCTAGAATAGAAA
1 GTTTCTCGTTGCAGCGAGATTCAATTTGCTGCAATGAAATTGTAACCCAGAATAGAAA
*
11478903 GTTTCTCGTTGCAGCGAGATTCAATTTGCTGCAATGAAATTGTAACCCATAATAGAAA
1 GTTTCTCGTTGCAGCGAGATTCAATTTGCTGCAATGAAATTGTAACCCAGAATAGAAA
* *
11478961 GTTTCTCGTTGCAGCGAGAATGAATTTCGCTGCAA
1 GTTTCTCGTTGCAGCGAGATTCAATTT-GCTGCAA
11478996 CGAGAAGCTA
Statistics
Matches: 86, Mismatches: 6, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
58 79 0.92
59 7 0.08
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31
Consensus pattern (58 bp):
GTTTCTCGTTGCAGCGAGATTCAATTTGCTGCAATGAAATTGTAACCCAGAATAGAAA
Found at i:11479439 original size:42 final size:43
Alignment explanation
Indices: 11479352--11479473 Score: 120
Period size: 42 Copynumber: 2.9 Consensus size: 43
11479342 CCCATCATCA
* * * * ** **
11479352 TCATCACCAGCTCATGCGCACTCCCTACTCACACATGGCTAGG
1 TCATCACCGGCTTATGTGCACTCCCTACTCGCACATAACCGGG
* *
11479395 TCATCACCGGGTTATG-GTACTCCCTACTCGCACATAACCGGG
1 TCATCACCGGCTTATGTGCACTCCCTACTCGCACATAACCGGG
** *
11479437 TCATCTTCGGCTTATGTGCACTCCTTACTCGCACATA
1 TCATCACCGGCTTATGTGCACTCCCTACTCGCACATA
11479474 GCCAAGACAA
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 33 0.52
43 31 0.48
ACGTcount: A:0.21, C:0.35, G:0.17, T:0.26
Consensus pattern (43 bp):
TCATCACCGGCTTATGTGCACTCCCTACTCGCACATAACCGGG
Found at i:11479514 original size:2 final size:2
Alignment explanation
Indices: 11479509--11479536 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11479499 ATATATTCAC
11479509 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11479537 CAACACAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11481582 original size:2 final size:2
Alignment explanation
Indices: 11481526--11481571 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
11481516 TACATTCAGA
11481526 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11481568 AT AT
1 AT AT
11481572 GAAAATATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11491643 original size:20 final size:20
Alignment explanation
Indices: 11491604--11491643 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
11491594 CTACAAATAT
*
11491604 CTCATTTCTCCAGCATCTTC
1 CTCATTTCTCCAGCAGCTTC
* *
11491624 CTCATTTTTCCAGTAGCTTC
1 CTCATTTCTCCAGCAGCTTC
11491644 TTGTTTTTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.35, G:0.07, T:0.42
Consensus pattern (20 bp):
CTCATTTCTCCAGCAGCTTC
Found at i:11492534 original size:37 final size:36
Alignment explanation
Indices: 11492479--11492591 Score: 138
Period size: 37 Copynumber: 3.1 Consensus size: 36
11492469 GTTGTGGGAG
* *
11492479 GATGTTGAAGTGTCTGAGTAGAGAGTGCACACATGAT
1 GATGTAGAAGTGTGTGAGTAG-GAGTGCACACATGAT
*
11492516 GATGTA-AGAGTGTGTGAGTAGGGAGTTCACACATGAT
1 GATGTAGA-AGTGTGTGAGTA-GGAGTGCACACATGAT
* *
11492553 GATGTTGAAGTGTGTGAGTAGGAATTGCACACATGAT
1 GATGTAGAAGTGTGTGAGTAGG-AGTGCACACATGAT
11492590 GA
1 GA
11492592 CATTGCATTG
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
36 3 0.05
37 61 0.92
38 2 0.03
ACGTcount: A:0.30, C:0.09, G:0.34, T:0.27
Consensus pattern (36 bp):
GATGTAGAAGTGTGTGAGTAGGAGTGCACACATGAT
Found at i:11498925 original size:23 final size:22
Alignment explanation
Indices: 11498894--11498936 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
11498884 CTCATTTCGC
11498894 CAGCATCTTCTTCATTTTTCCAA
1 CAGCATCTTCTTC-TTTTTCCAA
* *
11498917 CAGCTTCTTGTTCTTTTTCC
1 CAGCATCTTCTTCTTTTTCC
11498937 TCCCATTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.14, C:0.30, G:0.07, T:0.49
Consensus pattern (22 bp):
CAGCATCTTCTTCTTTTTCCAA
Found at i:11499800 original size:37 final size:37
Alignment explanation
Indices: 11499753--11499865 Score: 192
Period size: 37 Copynumber: 3.1 Consensus size: 37
11499743 TGTGTGACGT
*
11499753 TGTTGAAGTGTGCGAGTAGGGAGTGCCCACATGATGA
1 TGTTGAAGTGTGCGAGTAGGGAGTGCACACATGATGA
11499790 TGTT-AGAGTGTGCGAGTAGGGAGTGCACACATGATGA
1 TGTTGA-AGTGTGCGAGTAGGGAGTGCACACATGATGA
*
11499827 TGTTGAAGTGTGCGAGTAGGGAGTGTACACATGATGA
1 TGTTGAAGTGTGCGAGTAGGGAGTGCACACATGATGA
11499864 TG
1 TG
11499866 ATATTGCATT
Statistics
Matches: 72, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
36 1 0.01
37 70 0.97
38 1 0.01
ACGTcount: A:0.26, C:0.11, G:0.38, T:0.26
Consensus pattern (37 bp):
TGTTGAAGTGTGCGAGTAGGGAGTGCACACATGATGA
Found at i:11512835 original size:12 final size:12
Alignment explanation
Indices: 11512813--11512853 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
11512803 ATGGTCGGCC
11512813 ATAAG-GAGAAA
1 ATAAGAGAGAAA
11512824 ATAAGAGAGAAA
1 ATAAGAGAGAAA
11512836 AT-AGAGAGGAAA
1 ATAAGAGA-GAAA
*
11512848 AGAAGA
1 ATAAGA
11512854 AAAGAGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 10 0.38
12 13 0.50
13 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.29, T:0.07
Consensus pattern (12 bp):
ATAAGAGAGAAA
Found at i:11515353 original size:19 final size:19
Alignment explanation
Indices: 11515320--11515358 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
11515310 GCTATAGGAG
11515320 AATTTTGGAATAAAATAAT
1 AATTTTGGAATAAAATAAT
11515339 AATTGTTGGAA-AAAATAAT
1 AATT-TTGGAATAAAATAAT
11515358 A
1 A
11515359 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (19 bp):
AATTTTGGAATAAAATAAT
Found at i:11517494 original size:2 final size:2
Alignment explanation
Indices: 11517487--11517570 Score: 100
Period size: 2 Copynumber: 41.5 Consensus size: 2
11517477 TTAGAAATGT
**
11517487 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A CTA TA TA TA GNG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA
*
11517530 T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA CTA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA T
11517571 GTAAAGGGTT
Statistics
Matches: 72, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
1 2 0.03
2 68 0.94
3 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:11518008 original size:25 final size:25
Alignment explanation
Indices: 11517958--11518012 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
11517948 TTTGTGATAT
* *
11517958 ATATATGTGGCAAGGCCACGGCTTG
1 ATATATATGGCAAGGCCACAGCTTG
*
11517983 ATATATATGGCTAGGCCACAAG-TTG
1 ATATATATGGCAAGGCCAC-AGCTTG
11518008 ATATA
1 ATATA
11518013 CGTGGTTGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.27
Consensus pattern (25 bp):
ATATATATGGCAAGGCCACAGCTTG
Found at i:11530041 original size:33 final size:33
Alignment explanation
Indices: 11529999--11530068 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
11529989 TCAACTCAGC
* *
11529999 TCATGTGCACTCCCACACTGCACATGGAAAATA
1 TCATGTGCACTACCACACCGCACATGGAAAATA
* *
11530032 TCATGTGCACTACCACACCGCACATGGCATATA
1 TCATGTGCACTACCACACCGCACATGGAAAATA
11530065 TCAT
1 TCAT
11530069 CATGTGTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.23
Consensus pattern (33 bp):
TCATGTGCACTACCACACCGCACATGGAAAATA
Found at i:11535989 original size:20 final size:20
Alignment explanation
Indices: 11535932--11535994 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
11535922 TATATACCCA
*
11535932 TCATCATCATC-TCACCAAC
1 TCATCATCATCATCACCAGC
*
11535951 CCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
11535971 TCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
11535991 TCAT
1 TCAT
11535995 GTGCACTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.30, C:0.41, G:0.03, T:0.25
Consensus pattern (20 bp):
TCATCATCATCATCACCAGC
Found at i:11536044 original size:43 final size:43
Alignment explanation
Indices: 11535997--11536102 Score: 160
Period size: 43 Copynumber: 2.5 Consensus size: 43
11535987 CAGCTCATGT
** * *
11535997 GCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTTATGC
1 GCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTTATGC
11536040 GCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTTATGC
1 GCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTTATGC
11536083 GCACTCCCTACTCGCACATA
1 GCACTCCCTACTCGCACATA
11536103 GTCGAGTCAA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
42 1 0.02
43 57 0.98
ACGTcount: A:0.19, C:0.39, G:0.20, T:0.23
Consensus pattern (43 bp):
GCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTTATGC
Found at i:11542023 original size:340 final size:339
Alignment explanation
Indices: 11541403--11542077 Score: 1188
Period size: 340 Copynumber: 2.0 Consensus size: 339
11541393 GAGCTTCTTG
*
11541403 CTGTGTTAAAGCAAACACCCTCGCCTGGCCTTTACCAACAGAACTTTGATGTCCAAACCCAAATG
1 CTGTGTTAAAGCAAACACCCTCGCCTGGCCTCTACCAACAGAACTTTGATGTCCAAACCCAAATG
*
11541468 GTCTGCCCTGAGAGGAAGTACCAGCACCTCTACCTCTCGATCCACTAACCTCCAGGCCCGATGAG
66 GTCTGCCCTGAGAGGAAGTACCAGCACCTCTACCTCTCGATCCACTAACCTCCAGGCCAGATGAG
*
11541533 ACAACAACTGACGGAGCAGATGAAGCTGGCTGGGTGGAACCACGAGCAGAATCTGGTGATTGATG
131 ACAACAACTGACGAAGCAGATGAAGCTGGCTGGGTGGAACCACGAGCAGAATCTGGTGATTGATG
11541598 TGCCATCGGACAATCCCTCCTAATATGCCCAGGTTGACCGCACCCGTAACAAGTTCTTGTAGTAA
196 TGCCATCGGACAATCCCTCCTAATATGCCCAGGTTGACCGCACCCGTAACAAGTTCTTGTAGTAA
* *
11541663 GGAAGCACCGTCCACTATGTCGTCTCCCACAAGTATCACAAGAGCGAGTGACTTGACTACTCTGT
261 GGAAGCACCGTCCACTATGTCGTCTCCCACAAGTATCACAAGAGCGAATGACCTGACTACTCTGT
11541728 CTAGAATCTNTCCTA
326 CTAGAATCT-TCCTA
* * ** *
11541743 CTGTGTTAAAGCAAACACCCTCGCTTGGCCTCTACCAATAGAACTTTGATGTCCGGACCCAGATG
1 CTGTGTTAAAGCAAACACCCTCGCCTGGCCTCTACCAACAGAACTTTGATGTCCAAACCCAAATG
* * *
11541808 GTCTGCCTTGAGAGGAAGTACCCGCACCTCTACCTCTCGATCCACTAACCTCCCGGCCAGATGAG
66 GTCTGCCCTGAGAGGAAGTACCAGCACCTCTACCTCTCGATCCACTAACCTCCAGGCCAGATGAG
* *
11541873 ACAGCAACTGACGAAGCAGATGAAGCTGGCTGGGTGGAACCACGAGCTGAATCTGGTGATTGATG
131 ACAACAACTGACGAAGCAGATGAAGCTGGCTGGGTGGAACCACGAGCAGAATCTGGTGATTGATG
* *
11541938 TGCCATTGGACAATCCCTCCTAATATGCCCGGGTTGACCGCACCCGTAACAAGTTCTTGTAGTAA
196 TGCCATCGGACAATCCCTCCTAATATGCCCAGGTTGACCGCACCCGTAACAAGTTCTTGTAGTAA
11542003 GGAAGCACCGTCCACTATGTCGTCTCCCACAAGTATCACAAGAGCGAATGACCTGACTACTCTGT
261 GGAAGCACCGTCCACTATGTCGTCTCCCACAAGTATCACAAGAGCGAATGACCTGACTACTCTGT
11542068 CTAGAATCTT
326 CTAGAATCTT
11542078 ACTGCCTCCT
Statistics
Matches: 318, Mismatches: 17, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
339 1 0.00
340 317 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (339 bp):
CTGTGTTAAAGCAAACACCCTCGCCTGGCCTCTACCAACAGAACTTTGATGTCCAAACCCAAATG
GTCTGCCCTGAGAGGAAGTACCAGCACCTCTACCTCTCGATCCACTAACCTCCAGGCCAGATGAG
ACAACAACTGACGAAGCAGATGAAGCTGGCTGGGTGGAACCACGAGCAGAATCTGGTGATTGATG
TGCCATCGGACAATCCCTCCTAATATGCCCAGGTTGACCGCACCCGTAACAAGTTCTTGTAGTAA
GGAAGCACCGTCCACTATGTCGTCTCCCACAAGTATCACAAGAGCGAATGACCTGACTACTCTGT
CTAGAATCTTCCTA
Found at i:11544122 original size:2 final size:2
Alignment explanation
Indices: 11544112--11544146 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
11544102 ACATATTTAC
* *
11544112 AT AT GT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11544147 CCCATCATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11544198 original size:20 final size:20
Alignment explanation
Indices: 11544149--11544213 Score: 76
Period size: 20 Copynumber: 3.1 Consensus size: 20
11544139 TGTATATACC
*
11544149 CATCATCATCATCTCACCAACC
1 CATCATCATCAT-T-ACCAACT
* *
11544171 CATTATCATCATTACCAGCT
1 CATCATCATCATTACCAACT
*
11544191 CATCATCATCATCACCAACT
1 CATCATCATCATTACCAACT
11544211 CAT
1 CAT
11544214 GTGCACTCCC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 25 0.68
21 1 0.03
22 11 0.30
ACGTcount: A:0.32, C:0.38, G:0.02, T:0.28
Consensus pattern (20 bp):
CATCATCATCATTACCAACT
Found at i:11544263 original size:43 final size:43
Alignment explanation
Indices: 11544216--11544319 Score: 156
Period size: 43 Copynumber: 2.4 Consensus size: 43
11544206 CAACTCATGT
** *
11544216 GCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTTATGC
1 GCACTCCCTACTCGCACATAACTGGGTCATC-CTCGGCTTATGC
*
11544259 GCACTCCCTACTCGCACATAACTGGGTCATCCTCGGCTTATGT
1 GCACTCCCTACTCGCACATAACTGGGTCATCCTCGGCTTATGC
11544302 GCACTCCCTACTCGCACA
1 GCACTCCCTACTCGCACA
11544320 GAGTCGAGTC
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
42 1 0.02
43 55 0.98
ACGTcount: A:0.18, C:0.38, G:0.20, T:0.24
Consensus pattern (43 bp):
GCACTCCCTACTCGCACATAACTGGGTCATCCTCGGCTTATGC
Found at i:11554516 original size:22 final size:24
Alignment explanation
Indices: 11554491--11554537 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
11554481 TACCTTTTGT
11554491 CACTTGTTTC-CTTG-AATT-TTCA
1 CACTT-TTTCTCTTGAAATTCTTCA
11554513 CACTTTTTCTCTTGAAATTCTTCA
1 CACTTTTTCTCTTGAAATTCTTCA
11554537 C
1 C
11554538 CTAGGGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.18
22 9 0.41
23 4 0.18
24 5 0.23
ACGTcount: A:0.19, C:0.26, G:0.06, T:0.49
Consensus pattern (24 bp):
CACTTTTTCTCTTGAAATTCTTCA
Found at i:11555857 original size:42 final size:42
Alignment explanation
Indices: 11555722--11555855 Score: 171
Period size: 42 Copynumber: 3.2 Consensus size: 42
11555712 TACCATCCCA
* * * *
11555722 TCATCATCAGCTCATGTGCATTCCCTACTCGCACTTAGCTAGG
1 TCATCATCAGCTCATGTGCACTCCC-ACACGCACATAGCTGGG
* *
11555765 TCATCATCAACTTA-GTGCACTCCCACACCGCACATAGCTGGG
1 TCATCATCAGCTCATGTGCACTCCCACA-CGCACATAGCTGGG
* *
11555807 TCATCATTAGCTCATGTGCACTCCCACACGCACATAGTTGGG
1 TCATCATCAGCTCATGTGCACTCCCACACGCACATAGCTGGG
11555849 TCATCAT
1 TCATCAT
11555856 TATCACACAA
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
41 2 0.03
42 52 0.66
43 25 0.32
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (42 bp):
TCATCATCAGCTCATGTGCACTCCCACACGCACATAGCTGGG
Found at i:11558535 original size:2 final size:2
Alignment explanation
Indices: 11558523--11558555 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
11558513 CATAATGCAC
*
11558523 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11558556 ATAANNNNNN
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:11559586 original size:19 final size:18
Alignment explanation
Indices: 11559558--11559595 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
11559548 GGAAGAAGAA
11559558 AGAAGAAGAAACTGCTGG
1 AGAAGAAGAAACTGCTGG
*
11559576 AGAATGAAGAAGCTGCTGG
1 AGAA-GAAGAAACTGCTGG
11559595 A
1 A
11559596 ATAAAAGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.42, C:0.11, G:0.34, T:0.13
Consensus pattern (18 bp):
AGAAGAAGAAACTGCTGG
Found at i:11560188 original size:5 final size:5
Alignment explanation
Indices: 11560178--11560205 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
11560168 ATGTCATATA
11560178 CAAAT CAAAT CAAAT CAAAT CAAAT CAA
1 CAAAT CAAAT CAAAT CAAAT CAAAT CAA
11560206 CGAGTGATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.21, G:0.00, T:0.18
Consensus pattern (5 bp):
CAAAT
Found at i:11564067 original size:60 final size:60
Alignment explanation
Indices: 11563974--11564138 Score: 240
Period size: 60 Copynumber: 2.8 Consensus size: 60
11563964 ATAAGAGACA
* * ** * *
11563974 AAACAGAAAGTTTTTCGGTGCAGCGAGATTGAATCTCGCTACAGGGAAATTGTAACCTAG
1 AAACAGAAAGTTTCTCGCTGCAGCGAGATTGAATCTCGCTACAGCAAAATTATAACCCAG
11564034 AAACAGAAAGTTTCTCGCTGCAGCGAGATTGAATCTCGCTACAGCAAAATTATAACCCAG
1 AAACAGAAAGTTTCTCGCTGCAGCGAGATTGAATCTCGCTACAGCAAAATTATAACCCAG
* * * *
11564094 AAACAGAAAGTTTCTAGCTGCAGCGAGAATGAATTTCGCTGCAGC
1 AAACAGAAAGTTTCTCGCTGCAGCGAGATTGAATCTCGCTACAGC
11564139 GACAAGCTAC
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 95 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (60 bp):
AAACAGAAAGTTTCTCGCTGCAGCGAGATTGAATCTCGCTACAGCAAAATTATAACCCAG
Found at i:11564557 original size:43 final size:44
Alignment explanation
Indices: 11564493--11564615 Score: 171
Period size: 43 Copynumber: 2.9 Consensus size: 44
11564483 CCCATCATCA
* ** *
11564493 TCATCACC-AGCTCATGCGCACTCCCTACTCGCACATGGCTGGG
1 TCATCACCGAGCTTATGCGCACTCCCTACTCGCACATAACCGGG
*
11564536 TCATCACCGAG-TTATGTGCACTCCCTACTCGCACATAACCGGG
1 TCATCACCGAGCTTATGCGCACTCCCTACTCGCACATAACCGGG
*
11564579 TCATCATCG-GCTTATGCGCACTCCCTACTCGCACATA
1 TCATCACCGAGCTTATGCGCACTCCCTACTCGCACATA
11564616 GCCAAATCAA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
42 1 0.01
43 68 0.96
44 2 0.03
ACGTcount: A:0.21, C:0.37, G:0.18, T:0.24
Consensus pattern (44 bp):
TCATCACCGAGCTTATGCGCACTCCCTACTCGCACATAACCGGG
Found at i:11566958 original size:35 final size:35
Alignment explanation
Indices: 11566919--11567065 Score: 183
Period size: 35 Copynumber: 4.2 Consensus size: 35
11566909 CCCGATTAAC
* *
11566919 TTAATTGATTAGGCCAAATAACTTAATTAAACAAT
1 TTAATTAATTAGGCCCAATAACTTAATTAAACAAT
* * *
11566954 TTAATTAATTACGCCCAATGATTTAATTAAACAAAT
1 TTAATTAATTAGGCCCAATAACTTAATTAAAC-AAT
* *
11566990 TTAATCAATTAGGCCCAATGACTTAATTAAACAAT
1 TTAATTAATTAGGCCCAATAACTTAATTAAACAAT
*
11567025 TTAATTAATTAGG--C-ACAACTTAATTAAACAATT
1 TTAATTAATTAGGCCCAATAACTTAATTAAACAA-T
11567058 TTAATTAA
1 TTAATTAA
11567066 GTGCTTGAGA
Statistics
Matches: 99, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
32 15 0.15
33 10 0.10
35 42 0.42
36 32 0.32
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (35 bp):
TTAATTAATTAGGCCCAATAACTTAATTAAACAAT
Found at i:11569094 original size:14 final size:14
Alignment explanation
Indices: 11569054--11569098 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
11569044 GAAAAAGTAG
11569054 AAAACTAATTAGACTA
1 AAAACTAATTA-AC-A
* *
11569070 GAAATTAATTAACA
1 AAAACTAATTAACA
11569084 AAAACTAATTAACA
1 AAAACTAATTAACA
11569098 A
1 A
11569099 TAATTAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 14 0.56
15 2 0.08
16 9 0.36
ACGTcount: A:0.60, C:0.11, G:0.04, T:0.24
Consensus pattern (14 bp):
AAAACTAATTAACA
Found at i:11570670 original size:42 final size:42
Alignment explanation
Indices: 11570600--11570724 Score: 187
Period size: 42 Copynumber: 3.0 Consensus size: 42
11570590 TGTTGATGTG
* * *
11570600 GACCCGGCTATGTGTGAGTAGGAATGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCATTGCT
* *
11570642 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCATTGTT
1 GACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCATTGCT
* *
11570684 GACCTGGCTATGTGTGAGTGGGAGTGCGCATAAGCCATTGC
1 GACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCATTGC
11570725 ATATGAGATG
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.34, T:0.24
Consensus pattern (42 bp):
GACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCATTGCT
Found at i:11573571 original size:2 final size:2
Alignment explanation
Indices: 11573559--11573593 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
11573549 ATCACTTTAC
*
11573559 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11573594 NNNNNNNNNN
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11575262 original size:23 final size:24
Alignment explanation
Indices: 11575222--11575271 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
11575212 TCAGTAGGCG
*
11575222 TAAGGCATAAATGAATGATGAAAA
1 TAAGGCATAAATGAATGAAGAAAA
*
11575246 TAAGG-ATAAAATG-ATGAAGGAAA
1 TAAGGCAT-AAATGAATGAAGAAAA
11575269 TAA
1 TAA
11575272 AAATATTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.56, C:0.02, G:0.22, T:0.20
Consensus pattern (24 bp):
TAAGGCATAAATGAATGAAGAAAA
Found at i:11576413 original size:43 final size:43
Alignment explanation
Indices: 11576326--11576451 Score: 166
Period size: 43 Copynumber: 3.0 Consensus size: 43
11576316 TTGTGTGATA
* * *
11576326 ATGATGACCTAGCTATGTGC-ATGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGGTATGGGAGTGCACATGAGCTG
* *
11576368 ATGATGACCCAGCTATGTGCGGTATGAGAGTGCACATGAGTTG
1 ATGATGACCCAGCTATGTGCGGTATGGGAGTGCACATGAGCTG
* *
11576411 ATGATGGCACAGCTATGTGCGAGTA-GGGAGTGCACATGAGC
1 ATGATGACCCAGCTATGTGCG-GTATGGGAGTGCACATGAGC
11576452 CGAGTGTGGC
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
42 19 0.26
43 51 0.70
44 3 0.04
ACGTcount: A:0.25, C:0.17, G:0.34, T:0.24
Consensus pattern (43 bp):
ATGATGACCCAGCTATGTGCGGTATGGGAGTGCACATGAGCTG
Found at i:11576930 original size:19 final size:19
Alignment explanation
Indices: 11576893--11576932 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
11576883 GGGTTTTAAA
* *
11576893 GAGAAATCCTCAGCTAGTT
1 GAGAAACCCTCAGCCAGTT
*
11576912 GAGAAACCCTCATCCAGTT
1 GAGAAACCCTCAGCCAGTT
11576931 GA
1 GA
11576933 TAATTTAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (19 bp):
GAGAAACCCTCAGCCAGTT
Found at i:11594277 original size:67 final size:69
Alignment explanation
Indices: 11594196--11594327 Score: 155
Period size: 67 Copynumber: 1.9 Consensus size: 69
11594186 GGCCCTATCA
* * * *
11594196 TATTTTTACCCCCACATTGGGATTCATA-AAGAGAAA-AGAT-G-ACACTTCACCAATCTTGACT
1 TATTCTTACACCCACATCGGGATT-ATAGAAGAAAAAGAGATGGTACA-TTCACCAATCTTGACT
11594257 TTGTGG
64 TTGTGG
* * *
11594263 TATTCTTACACCCACATCGGGCTTTTAGAAGAAAAAGAGATGGTACATTCATCAATCTTGACTTT
1 TATTCTTACACCCACATCGGGATTATAGAAGAAAAAGAGATGGTACATTCACCAATCTTGACTTT
11594328 TTCATATTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
66 2 0.04
67 27 0.50
68 4 0.07
69 18 0.33
70 3 0.06
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (69 bp):
TATTCTTACACCCACATCGGGATTATAGAAGAAAAAGAGATGGTACATTCACCAATCTTGACTTT
GTGG
Found at i:11600921 original size:31 final size:30
Alignment explanation
Indices: 11600883--11601025 Score: 89
Period size: 31 Copynumber: 4.8 Consensus size: 30
11600873 AGGTAGAAAA
*
11600883 GTTATACCTTCTTTGGAAAAGGTAGTGAGTG
1 GTTATACCTCCTTTGGAAAAGGTAGTGA-TG
*
11600914 GTTATACCTCCATTT--AAAAGGTACT-ATG
1 GTTATACCTCC-TTTGGAAAAGGTAGTGATG
* ** * *
11600942 GTTATACCTCCCTTAAAAAAGGTAATGAATA
1 GTTATACCTCCTTTGGAAAAGGTAGTG-ATG
* * * * * *
11600973 GTTATACATTCATTGGAAAAAGTAG-AAAG
1 GTTATACCTCCTTTGGAAAAGGTAGTGATG
* *
11601002 GTTATACCTCC-ATAGAAAAGGTAG
1 GTTATACCTCCTTTGGAAAAGGTAG
11601026 AAAGGTTATG
Statistics
Matches: 87, Mismatches: 20, Indels: 13
0.73 0.17 0.11
Matches are distributed among these distances:
27 2 0.02
28 23 0.26
29 20 0.23
30 9 0.10
31 30 0.34
32 3 0.03
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (30 bp):
GTTATACCTCCTTTGGAAAAGGTAGTGATG
Found at i:11601025 original size:28 final size:28
Alignment explanation
Indices: 11600855--11601034 Score: 119
Period size: 28 Copynumber: 6.2 Consensus size: 28
11600845 CTGTTATAAA
* *
11600855 GTTATACCTCCATAGCAAAGGTAGAAAA
1 GTTATACCTCCATAGAAAAGGTAGAAAG
** * **
11600883 GTTATACCTTCTTTGGAAAAGGTAGTGAGTG
1 GTTATACC-TCCATAGAAAAGGTA--GAAAG
** ** *
11600914 GTTATACCTCCATTTAAAAGGTACTATG
1 GTTATACCTCCATAGAAAAGGTAGAAAG
* *
11600942 GTTATACCTCCCTTAAAAAAGGTAATGAATA-
1 GTTATACCT-CCATAGAAAAGGT-A-GAA-AG
* * * *
11600973 GTTATACATTCATTGGAAAAAGTAGAAAG
1 GTTATACCTCCA-TAGAAAAGGTAGAAAG
11601002 GTTATACCTCCATAGAAAAGGTAGAAAG
1 GTTATACCTCCATAGAAAAGGTAGAAAG
11601030 GTTAT
1 GTTAT
11601035 GCTTGATCCA
Statistics
Matches: 113, Mismatches: 30, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
28 39 0.35
29 34 0.30
30 14 0.12
31 26 0.23
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (28 bp):
GTTATACCTCCATAGAAAAGGTAGAAAG
Found at i:11601076 original size:37 final size:37
Alignment explanation
Indices: 11601026--11601114 Score: 117
Period size: 37 Copynumber: 2.4 Consensus size: 37
11601016 GAAAAGGTAG
*
11601026 AAAGGTTATGCTTGATCCA-TAAGAGGCAATGATTTGT
1 AAAGGTTATGCTTGAT-CATTAAAAGGCAATGATTTGT
* *
11601063 AAAGGTTATGCTTGATCATTAAAAGGTAATTATTTGT
1 AAAGGTTATGCTTGATCATTAAAAGGCAATGATTTGT
* *
11601100 AAAAGTCATGCTTGA
1 AAAGGTTATGCTTGA
11601115 ACCTAATTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 2 0.04
37 44 0.96
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (37 bp):
AAAGGTTATGCTTGATCATTAAAAGGCAATGATTTGT
Found at i:11602823 original size:18 final size:18
Alignment explanation
Indices: 11602802--11602847 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
11602792 TGTCACGTAT
*
11602802 ACACGTTTAAACACGATA
1 ACACGATTAAACACGATA
*
11602820 ACACGATTAAACATGATA
1 ACACGATTAAACACGATA
11602838 ACACGATTAA
1 ACACGATTAA
11602848 GTAAACGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.22
Consensus pattern (18 bp):
ACACGATTAAACACGATA
Found at i:11605999 original size:59 final size:54
Alignment explanation
Indices: 11605934--11606114 Score: 142
Period size: 59 Copynumber: 3.2 Consensus size: 54
11605924 TTTTTTTCTT
11605934 TTCTTTCTTCTTCCTCTTCTCCTTCCGTCTGCCTTCTTTCTCTTCTTTCCTTTCCTTTC
1 TTCTTTC-TC-TCC-CTTCTCC-TCCGTC-GCCTTCTTTCTCTTCTTTCCTTTCCTTTC
* *
11605993 TTCTTTCTCT-CC-TC-CCAT-CGAC-CTTTC-TTCTCTCTCATTTCCTTTCCTTTCC
1 TTCTTTCTCTCCCTTCTCC-TCCGTCGCCTTCTTTCTCT-TC-TTTCCTTTCCTTT-C
* * *
11606045 TT-TCTTCTTTCCCTTCTCCTCTCGTCGGCCTTCCGTCTCTCTCCTTTCCTTTCCTTTC
1 TTCT-TTCTCTCCCTTCTCCTC-CGTC-GCCTT-C-TTTCTCTTCTTTCCTTTCCTTTC
11606103 TTCTTTCTCTCC
1 TTCTTTCTCTCC
11606115 TCTTGTCAGC
Statistics
Matches: 98, Mismatches: 9, Indels: 31
0.71 0.07 0.22
Matches are distributed among these distances:
49 6 0.06
50 6 0.06
51 14 0.14
52 11 0.11
53 5 0.05
54 5 0.05
55 3 0.03
56 4 0.04
57 1 0.01
58 15 0.15
59 22 0.22
60 1 0.01
61 5 0.05
ACGTcount: A:0.02, C:0.41, G:0.04, T:0.53
Consensus pattern (54 bp):
TTCTTTCTCTCCCTTCTCCTCCGTCGCCTTCTTTCTCTTCTTTCCTTTCCTTTC
Found at i:11606223 original size:3 final size:3
Alignment explanation
Indices: 11606211--11606273 Score: 58
Period size: 3 Copynumber: 20.7 Consensus size: 3
11606201 CACCCTCATT
* * *
11606211 TTC TTC -TC TTC TT- TTT TTT TTC TTTC TTTC TTC TTC TTT TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC -TTC -TTC TTC TTC TTC TTC TTC
11606256 TTC TCTC TTC TTC TTC TT
1 TTC T-TC TTC TTC TTC TT
11606274 TCTTTTTTTC
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
2 4 0.08
3 39 0.74
4 10 0.19
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (3 bp):
TTC
Found at i:11606487 original size:16 final size:15
Alignment explanation
Indices: 11606435--11606488 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
11606425 TATATATATA
11606435 TATTTTA-TATTCATT
1 TATTTTATTATT-ATT
*
11606450 TACTATTATTATTATT
1 TA-TTTTATTATTATT
*
11606466 TCTTTTATTAATTATT
1 TATTTTATT-ATTATT
11606482 TATTTTA
1 TATTTTA
11606489 CTTCCTCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
15 8 0.25
16 20 0.62
17 4 0.12
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTTATTATTATT
Found at i:11606869 original size:19 final size:18
Alignment explanation
Indices: 11606847--11606889 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
11606837 TTAATATTTT
11606847 AATATTATTTTATTCATAA
1 AATATTATTTTATT-ATAA
* *
11606866 AATAATATTTTATTTTAA
1 AATATTATTTTATTATAA
11606884 AATATT
1 AATATT
11606890 TTTCTCACCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
AATATTATTTTATTATAA
Found at i:11609145 original size:23 final size:22
Alignment explanation
Indices: 11609091--11609147 Score: 96
Period size: 22 Copynumber: 2.5 Consensus size: 22
11609081 ATGGCGGGTC
*
11609091 CTCGCTGTAGCGGAAAAGCATT
1 CTCGCTGCAGCGGAAAAGCATT
11609113 CTCGCTGCAGCGGAAAAGCATT
1 CTCGCTGCAGCGGAAAAGCATT
11609135 CTACGCTGCAGCG
1 CT-CGCTGCAGCG
11609148 AGAATGAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 23 0.70
23 10 0.30
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.19
Consensus pattern (22 bp):
CTCGCTGCAGCGGAAAAGCATT
Found at i:11610719 original size:51 final size:51
Alignment explanation
Indices: 11610652--11610759 Score: 198
Period size: 51 Copynumber: 2.1 Consensus size: 51
11610642 AAGAAGAAGA
* *
11610652 CAAGGTGCTGGAACTTCAAGAAGCTGCTGGAAGGAGAAGATATTTATAACC
1 CAAGCTGCTGGAACTTCAAGAAGCTGCTGAAAGGAGAAGATATTTATAACC
11610703 CAAGCTGCTGGAACTTCAAGAAGCTGCTGAAAGGAGAAGATATTTATAACC
1 CAAGCTGCTGGAACTTCAAGAAGCTGCTGAAAGGAGAAGATATTTATAACC
11610754 CAAGCT
1 CAAGCT
11610760 TATCTATTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (51 bp):
CAAGCTGCTGGAACTTCAAGAAGCTGCTGAAAGGAGAAGATATTTATAACC
Found at i:11627842 original size:42 final size:42
Alignment explanation
Indices: 11627782--11627906 Score: 187
Period size: 42 Copynumber: 3.0 Consensus size: 42
11627772 CATCTCATAT
*
11627782 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCTGGGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCAGGGTCA
* * *
11627824 GCAACGGCTTATGCGCACTCTCACTCACACATAGCAGGGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCAGGGTCA
* * *
11627866 GCAACGACTTATGTGCACTCCTACTCGCACATAGCCGGGTC
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCAGGGTC
11627907 CACATCAACA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (42 bp):
GCAACGGCTTATGTGCACTCCCACTCGCACATAGCAGGGTCA
Found at i:11629795 original size:16 final size:16
Alignment explanation
Indices: 11629774--11629806 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11629764 TGTGGTGCTT
*
11629774 TTACAATGTAATGACA
1 TTACAATCTAATGACA
11629790 TTACAATCTAATGACA
1 TTACAATCTAATGACA
11629806 T
1 T
11629807 CGCAAGACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.33
Consensus pattern (16 bp):
TTACAATCTAATGACA
Found at i:11631591 original size:21 final size:20
Alignment explanation
Indices: 11631544--11631598 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
11631534 TTCTGTTTCA
*
11631544 AATGTATCAATACATATGGT
1 AATGTATCAATACATATGAT
* *
11631564 CATGTATCAATACATGTTGAT
1 AATGTATCAATACAT-ATGAT
*
11631585 AATGTATCGATACA
1 AATGTATCAATACA
11631599 ATTTTTCTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.35
Consensus pattern (20 bp):
AATGTATCAATACATATGAT
Found at i:11632713 original size:68 final size:68
Alignment explanation
Indices: 11632641--11632814 Score: 154
Period size: 68 Copynumber: 2.6 Consensus size: 68
11632631 TGATTGTTTT
* * *
11632641 TATGATGTAATTTTCATATACCATATGAGGTGATTAAGTATGCACGATAAATGCCATGAGATAAT
1 TATGATGTAATTTTCATATACCATATGAGGTGATTAAGAAAGCACGATAAATGCCATAAGATAAT
11632706 ATA
66 ATA
* ** * * * *
11632709 TATGATGT-ATATTCCATATAATACATG-GGATGATTGAGAAAGCACGATGAATGCCATAAGATT
1 TATGATGTAAT-TTTCATATACCATATGAGG-TGATTAAGAAAGCACGATAAATGCCATAAGATA
* *
11632772 ATGTG
64 ATATA
* * * * * *
11632777 TATGGTGCATTTTTCATATACCTTATGAGATGAGTAAG
1 TATGATGTAATTTTCATATACCATATGAGGTGATTAAG
11632815 CTTGTATGTG
Statistics
Matches: 79, Mismatches: 23, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
67 4 0.05
68 73 0.92
69 2 0.03
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (68 bp):
TATGATGTAATTTTCATATACCATATGAGGTGATTAAGAAAGCACGATAAATGCCATAAGATAAT
ATA
Found at i:11633336 original size:20 final size:20
Alignment explanation
Indices: 11633308--11633359 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 20
11633298 TTTTACTAAT
* **
11633308 GTATTGATAGATGCTTGAAA
1 GTATCGATAGATGCAAGAAA
* * *
11633328 GTATCGATACATTCAAGAAT
1 GTATCGATAGATGCAAGAAA
11633348 GTATCGATAGAT
1 GTATCGATAGAT
11633360 TTGGTGCAGA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.33
Consensus pattern (20 bp):
GTATCGATAGATGCAAGAAA
Found at i:11639378 original size:21 final size:22
Alignment explanation
Indices: 11639349--11639389 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
11639339 TTAGTGCCCT
11639349 ATTTCTCGCTGCAGCGAGAATC
1 ATTTCTCGCTGCAGCGAGAATC
*
11639371 ATTT-TCGCTGCAGTGAGAA
1 ATTTCTCGCTGCAGCGAGAA
11639390 ACTCTCGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (22 bp):
ATTTCTCGCTGCAGCGAGAATC
Found at i:11642623 original size:2 final size:2
Alignment explanation
Indices: 11642613--11642646 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
11642603 TATAGCACAC
* *
11642613 AT AT TT AT AT AT GT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11642647 CCATCACCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
AT
Found at i:11642725 original size:42 final size:41
Alignment explanation
Indices: 11642687--11642819 Score: 142
Period size: 42 Copynumber: 3.2 Consensus size: 41
11642677 CAGCTTATAT
*
11642687 ACACTCCCACTAGCACATGGCTGAGTCGGCATCGGCTTATGC
1 ACACTCCCACTAGCACATGGCTG-GTCAGCATCGGCTTATGC
* * * * *
11642729 GCACTCCTACTCGCACATAGCCTGGTCAGCATCGTCTTATGC
1 ACACTCCCACTAGCACAT-GGCTGGTCAGCATCGGCTTATGC
* * *
11642771 GCACTCCCCCTTA-CACATAGCTGGGTCAGCATCGGCTTATGC
1 ACACTCCCAC-TAGCACATGGCT-GGTCAGCATCGGCTTATGC
11642813 ACACTCC
1 ACACTCC
11642820 TACTCACATA
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
41 2 0.03
42 68 0.91
43 5 0.07
ACGTcount: A:0.20, C:0.36, G:0.20, T:0.23
Consensus pattern (41 bp):
ACACTCCCACTAGCACATGGCTGGTCAGCATCGGCTTATGC
Found at i:11642839 original size:42 final size:41
Alignment explanation
Indices: 11642715--11642840 Score: 153
Period size: 42 Copynumber: 3.0 Consensus size: 41
11642705 GGCTGAGTCG
* *
11642715 GCATCGGCTTATGCGCACTCCTACTCGCACATAGCCTGGTCA
1 GCATCGGCTTATGCGCACTCCTACTCACACATAG-CGGGTCA
* ** *
11642757 GCATCGTCTTATGCGCACTCCCCCTTACACATAGCTGGGTCA
1 GCATCGGCTTATGCGCACTCCTACTCACACATAGC-GGGTCA
* *
11642799 GCATCGGCTTATGCACACTCCTACTCACATATAGACGGGTCA
1 GCATCGGCTTATGCGCACTCCTACTCACACATAG-CGGGTCA
11642841 ATATCATTAC
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.01
42 68 0.97
43 1 0.01
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.25
Consensus pattern (41 bp):
GCATCGGCTTATGCGCACTCCTACTCACACATAGCGGGTCA
Found at i:11644719 original size:42 final size:42
Alignment explanation
Indices: 11644662--11644856 Score: 246
Period size: 42 Copynumber: 4.6 Consensus size: 42
11644652 AGCTCATATG
* * * *
11644662 CACTCCCACTAGCACATGGCTGGGTTAGCATCGGCTTATGCA
1 CACTCCCACTCGCACATAGCCGGGTCAGCATCGGCTTATGCA
* *
11644704 CACTCCTACTCGCACATAGCCGGGTCAGCATCGGCTTATGCG
1 CACTCCCACTCGCACATAGCCGGGTCAGCATCGGCTTATGCA
* * *
11644746 CACTCCCCCTCGCACATAGCCAGGTCAGCATCGGCTTATGCG
1 CACTCCCACTCGCACATAGCCGGGTCAGCATCGGCTTATGCA
* * * * *
11644788 CACTCCCCCTCGCATATAGCCGAGTCAGCATTGACTTATGCA
1 CACTCCCACTCGCACATAGCCGGGTCAGCATCGGCTTATGCA
* *
11644830 CACTCCTACTCGCACATAGTCGGGTCA
1 CACTCCCACTCGCACATAGCCGGGTCA
11644857 ATATCATTAC
Statistics
Matches: 133, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 133 1.00
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.22
Consensus pattern (42 bp):
CACTCCCACTCGCACATAGCCGGGTCAGCATCGGCTTATGCA
Found at i:11650668 original size:10 final size:11
Alignment explanation
Indices: 11650641--11650675 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
11650631 TATGGCCGGC
*
11650641 CAAAGCAAGAA
1 CAAAGGAAGAA
11650652 CAAAGGAAGAA
1 CAAAGGAAGAA
11650663 -AAAGGAAGAA
1 CAAAGGAAGAA
11650673 CAA
1 CAA
11650676 GAACCCTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.66, C:0.11, G:0.23, T:0.00
Consensus pattern (11 bp):
CAAAGGAAGAA
Found at i:11653254 original size:20 final size:20
Alignment explanation
Indices: 11653229--11653272 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
11653219 AGTGTGGCCC
*
11653229 AAGTCAATTTAAGTTAAGTT
1 AAGTCAAGTTAAGTTAAGTT
11653249 AAGTCAAGTTAAGTTAAGTT
1 AAGTCAAGTTAAGTTAAGTT
11653269 AAGT
1 AAGT
11653273 TAGGTTAGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (20 bp):
AAGTCAAGTTAAGTTAAGTT
Found at i:11653281 original size:5 final size:5
Alignment explanation
Indices: 11653237--11653279 Score: 68
Period size: 5 Copynumber: 8.6 Consensus size: 5
11653227 CCAAGTCAAT
* *
11653237 TTAAG TTAAG TTAAG TCAAG TTAAG TTAAG TTAAG TTAGG TTA
1 TTAAG TTAAG TTAAG TTAAG TTAAG TTAAG TTAAG TTAAG TTA
11653280 GGCTGAATAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.37, C:0.02, G:0.21, T:0.40
Consensus pattern (5 bp):
TTAAG
Found at i:11667127 original size:42 final size:42
Alignment explanation
Indices: 11667069--11667222 Score: 200
Period size: 42 Copynumber: 3.7 Consensus size: 42
11667059 CAGCTCATAT
* * * *
11667069 GCACTCCCACTAGCACATGGTTGGGTCAGCATCGGCTTATGC
1 GCACTCCTACTCGCACATAGTCGGGTCAGCATCGGCTTATGC
** * *
11667111 GCACTCCTACTCGCACATAACCGGGTCAGCATCAGCTTATAC
1 GCACTCCTACTCGCACATAGTCGGGTCAGCATCGGCTTATGC
*
11667153 GCACTCCTACTTGCACATAGTCGGGTCAGCATCGGCTTATGC
1 GCACTCCTACTCGCACATAGTCGGGTCAGCATCGGCTTATGC
* * *
11667195 ACACTCCTACTCACACATAGCCGGGTCA
1 GCACTCCTACTCGCACATAGTCGGGTCA
11667223 ATATCATTAC
Statistics
Matches: 95, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 95 1.00
ACGTcount: A:0.23, C:0.34, G:0.21, T:0.23
Consensus pattern (42 bp):
GCACTCCTACTCGCACATAGTCGGGTCAGCATCGGCTTATGC
Found at i:11667159 original size:84 final size:84
Alignment explanation
Indices: 11667056--11667222 Score: 253
Period size: 84 Copynumber: 2.0 Consensus size: 84
11667046 CTCCCATCAT
* * * *
11667056 CATCAGCTCATATGCACTCCCACTAGCACATGGTTGGGTCAGCATCGGCTTATGCGCACTCCTAC
1 CATCAGCTCATACGCACTCCCACTAGCACATAGTCGGGTCAGCATCGGCTTATGCACACTCCTAC
*
11667121 TCGCACATAACCGGGTCAG
66 TCACACATAACCGGGTCAG
* * *
11667140 CATCAGCTTATACGCACTCCTACTTGCACATAGTCGGGTCAGCATCGGCTTATGCACACTCCTAC
1 CATCAGCTCATACGCACTCCCACTAGCACATAGTCGGGTCAGCATCGGCTTATGCACACTCCTAC
*
11667205 TCACACATAGCCGGGTCA
66 TCACACATAACCGGGTCA
11667223 ATATCATTAC
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 74 1.00
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (84 bp):
CATCAGCTCATACGCACTCCCACTAGCACATAGTCGGGTCAGCATCGGCTTATGCACACTCCTAC
TCACACATAACCGGGTCAG
Found at i:11668467 original size:10 final size:10
Alignment explanation
Indices: 11668447--11668480 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
11668437 CTTTTAATTT
11668447 TTTATTATTTA
1 TTTATT-TTTA
11668458 TTTATTTTTA
1 TTTATTTTTA
11668468 TTTATTTTTA
1 TTTATTTTTA
11668478 TTT
1 TTT
11668481 TTTCTTCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 17 0.74
11 6 0.26
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:11668467 original size:17 final size:16
Alignment explanation
Indices: 11668445--11668482 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
11668435 CTCTTTTAAT
11668445 TTTTTATTATTTATTTA
1 TTTTTATT-TTTATTTA
11668462 TTTTTATTTATT-TTTA
1 TTTTTATTT-TTATTTA
11668478 TTTTT
1 TTTTT
11668483 TCTTCCTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTATTTTTATTTA
Found at i:11668754 original size:92 final size:91
Alignment explanation
Indices: 11668554--11668791 Score: 336
Period size: 92 Copynumber: 2.6 Consensus size: 91
11668544 AATTTCTGCC
* * * *
11668554 CCTTTCAACC-TCAAAAATCAGCAGCCT-AAGCTACTCATTTCACCCTCAAAATCGGTAGCCAAA
1 CCTTTCAGCCTTCAAAAATCAGCAG-CTAAAGCTGCTCATCTCACCCTCAAAATCGATAGCCAAA
* *
11668617 ACCTCAAAAATAATAGCTAAAGCTGCT
65 ACCACAAAAATAATAGCTAAAGCTACT
* * *
11668644 CTTTTCAGCCTTCAAAAAATCAGTAGCTAAAGCTGCTCATCTCACCCTTAAAATCGATAGCCAAA
1 CCTTTCAGCCTTC-AAAAATCAGCAGCTAAAGCTGCTCATCTCACCCTCAAAATCGATAGCCAAA
*
11668709 ACCACAAAAATTAGTAGCTAAAGCTACT
65 ACCACAAAAA-TAATAGCTAAAGCTACT
*
11668737 CCTTTCAGTCTTCAAAAATCAGCAGCTAAAGCTGCTCATCTCACCCTCAAAATCG
1 CCTTTCAGCCTTCAAAAATCAGCAGCTAAAGCTGCTCATCTCACCCTCAAAATCG
11668792 GTGAAAAAAT
Statistics
Matches: 130, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
90 8 0.06
91 4 0.03
92 92 0.71
93 26 0.20
ACGTcount: A:0.37, C:0.29, G:0.11, T:0.24
Consensus pattern (91 bp):
CCTTTCAGCCTTCAAAAATCAGCAGCTAAAGCTGCTCATCTCACCCTCAAAATCGATAGCCAAAA
CCACAAAAATAATAGCTAAAGCTACT
Found at i:11668895 original size:12 final size:11
Alignment explanation
Indices: 11668865--11668957 Score: 54
Period size: 11 Copynumber: 8.3 Consensus size: 11
11668855 ACCGTTCCGC
11668865 TTTTCTCTT-CT
1 TTTTCT-TTCCT
11668876 TTTTCTTTCCT
1 TTTTCTTTCCT
11668887 TTCTTCTTT-CT
1 TT-TTCTTTCCT
11668898 TTTTCTCTCCCTCGGCT
1 TTTTCT-T---TC--CT
* *
11668915 GTTTCTCTCCT
1 TTTTCTTTCCT
11668926 TTTTCTTTCC-
1 TTTTCTTTCCT
11668936 -TTTC-TT-CT
1 TTTTCTTTCCT
11668944 TTTTCTTTCCT
1 TTTTCTTTCCT
11668955 TTT
1 TTT
11668958 GCTCTCTCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 26
0.68 0.04 0.27
Matches are distributed among these distances:
7 1 0.02
8 2 0.03
9 8 0.12
10 8 0.12
11 30 0.46
12 6 0.09
13 2 0.03
14 1 0.02
17 7 0.11
ACGTcount: A:0.00, C:0.30, G:0.03, T:0.67
Consensus pattern (11 bp):
TTTTCTTTCCT
Found at i:11671508 original size:19 final size:19
Alignment explanation
Indices: 11671484--11671523 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
11671474 GCTCAAATTA
*
11671484 TCAACTGGACGAGGGCTTC
1 TCAACTAGACGAGGGCTTC
* *
11671503 TCAACTAGTCGAGGGTTTC
1 TCAACTAGACGAGGGCTTC
11671522 TC
1 TC
11671524 TTTAAACCCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.28
Consensus pattern (19 bp):
TCAACTAGACGAGGGCTTC
Found at i:11671747 original size:61 final size:61
Alignment explanation
Indices: 11671663--11671792 Score: 163
Period size: 61 Copynumber: 2.1 Consensus size: 61
11671653 CTCACTACAG
* * *
11671663 CGAGAATCCATTCTCGCTACAGCGAGATTCAAGAGGCAAAAC-TGAAAGTTTCCCGCTGCAA
1 CGAGAATCCATTCTCACTACAGCGAAATTCAAGAGGCAAAACAT-AAACTTTCCCGCTGCAA
** * * * *
11671724 CGAGAATGGATTCTCACTGCAGCGAAATTTAAGCGGCAAAACATAAACTTTCTCGCTGCAA
1 CGAGAATCCATTCTCACTACAGCGAAATTCAAGAGGCAAAACATAAACTTTCCCGCTGCAA
11671785 CGAGAATC
1 CGAGAATC
11671793 AGGCCAATGT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
61 57 0.98
62 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.21
Consensus pattern (61 bp):
CGAGAATCCATTCTCACTACAGCGAAATTCAAGAGGCAAAACATAAACTTTCCCGCTGCAA
Found at i:11672143 original size:42 final size:43
Alignment explanation
Indices: 11672056--11672147 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 43
11672046 TACCATCCCA
** *
11672056 TCATCATCAGCTCATGTAAACTCGTTACTCGCACATAGCTGGG
1 TCATCATCAGCTCATGTAAACTCGCCACACGCACATAGCTGGG
**
11672099 TCATCATCAGCTCATGTGCACTC-CCACACGCACATAGCTGGG
1 TCATCATCAGCTCATGTAAACTCGCCACACGCACATAGCTGGG
11672141 TCATCAT
1 TCATCAT
11672148 TATCACACAA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 23 0.52
43 21 0.48
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (43 bp):
TCATCATCAGCTCATGTAAACTCGCCACACGCACATAGCTGGG
Found at i:11683323 original size:22 final size:24
Alignment explanation
Indices: 11683283--11683336 Score: 85
Period size: 23 Copynumber: 2.3 Consensus size: 24
11683273 TTAAAATAAA
*
11683283 AAATTATATAACTAATTTAATA-T
1 AAATTATTTAACTAATTTAATAGT
11683306 AAATTATTTAA-TAATTTAATAGT
1 AAATTATTTAACTAATTTAATAGT
11683329 AAATTATT
1 AAATTATT
11683337 GATGTTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (24 bp):
AAATTATTTAACTAATTTAATAGT
Found at i:11683362 original size:135 final size:136
Alignment explanation
Indices: 11683197--11683488 Score: 374
Period size: 135 Copynumber: 2.1 Consensus size: 136
11683187 TTTTTCTCCC
* * *
11683197 TTATTGATATTTAATAACAATAAAAATTAAAAGATTAAAAAATGAAAAATACAAATAGAGAAATA
1 TTATTGATATTTAATAACAATAAAAATTAAAAGATGAAAAAATGAAAAATAAAAAGAGAGAAA-A
* *
11683262 A-ATTCAAATAATTAAAATAAAAAATTATATAACTAATTT-AATATAAATTATTTAATAATTTAA
65 AGATTCAAATAATTAAAATAAAAAATTATATAACTAATTTAAAAATAAATTATTCAATAATTTAA
11683325 TAGTAAA
130 TAGTAAA
* * * *
11683332 TTATTGATGTTTAATGAA-AATAGAAATTAAAAGATGAAGACATGAAAAATAAAAAGAGAGAAAA
1 TTATTGATATTTAAT-AACAATAAAAATTAAAAGATGAAAAAATGAAAAATAAAAAGAGAGAAAA
* * *
11683396 ATGATTCAAATAATTAAAATTAAAAATTGTATAACTAATTTAAAAATAAATTATTCAATCATTTA
65 A-GATTCAAATAATTAAAATAAAAAATTATATAACTAATTTAAAAATAAATTATTCAATAATTT-
11683461 ACATAGTTAAA
128 A-ATAG-TAAA
* * *
11683472 ATATTAATAATTAATAA
1 TTATTGATATTTAATAA
11683489 AAATTATTGA
Statistics
Matches: 134, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
134 2 0.01
135 53 0.40
136 38 0.28
137 19 0.14
138 1 0.01
139 6 0.04
140 15 0.11
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (136 bp):
TTATTGATATTTAATAACAATAAAAATTAAAAGATGAAAAAATGAAAAATAAAAAGAGAGAAAAA
GATTCAAATAATTAAAATAAAAAATTATATAACTAATTTAAAAATAAATTATTCAATAATTTAAT
AGTAAA
Found at i:11686507 original size:12 final size:12
Alignment explanation
Indices: 11686490--11686524 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
11686480 GTATACTGTT
*
11686490 GGGGGGGTGGGG
1 GGGGGGGAGGGG
11686502 GGGGGGGAGGGG
1 GGGGGGGAGGGG
*
11686514 GGGGGAGAGGG
1 GGGGGGGAGGG
11686525 TGGAAGATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.09, C:0.00, G:0.89, T:0.03
Consensus pattern (12 bp):
GGGGGGGAGGGG
Found at i:11692227 original size:77 final size:78
Alignment explanation
Indices: 11692133--11692297 Score: 217
Period size: 77 Copynumber: 2.1 Consensus size: 78
11692123 TGAATTTTTC
* * *
11692133 AAATTAAAATGCTATCCTTAATTTTAAGAATTTC-TTTTAAAGTAGGAAACAATTTCCT-ATTCT
1 AAATTAAAATGCGATCCTTAATTTTAAGAA-TTCACTTTAAACTAGGAAACAATTTCCTCATTCT
11692196 TTATGAATCACCCA
65 TTATGAATCACCCA
* * * *
11692210 AAATTAAAATTCGATCCTTAATTTTAAGAATTCACTTTAAACTAGGAAACAATTTCTTCCTTTTT
1 AAATTAAAATGCGATCCTTAATTTTAAGAATTCACTTTAAACTAGGAAACAATTTCCTCATTCTT
* * *
11692275 TTTGAATTATCCA
66 TATGAATCACCCA
11692288 AAATTAAAAT
1 AAATTAAAAT
11692298 AGATGGTATT
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
76 3 0.04
77 49 0.64
78 24 0.32
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.40
Consensus pattern (78 bp):
AAATTAAAATGCGATCCTTAATTTTAAGAATTCACTTTAAACTAGGAAACAATTTCCTCATTCTT
TATGAATCACCCA
Done.