Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 125 of 163
Found at i:34523369 original size:9 final size:9
Alignment explanation
Indices: 34523349--34523396 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
34523339 CGACCACTCA
34523349 TTTTTCTTT
1 TTTTTCTTT
34523358 TTCTTT-TTT
1 TT-TTTCTTT
*
34523367 TTCTTTCTTC
1 TT-TTTCTTT
*
34523377 TTTCTCTTT
1 TTTTTCTTT
34523386 TTTTTCTTT
1 TTTTTCTTT
34523395 TT
1 TT
34523397 CTTTTTCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 26 0.79
10 7 0.21
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:34523379 original size:22 final size:21
Alignment explanation
Indices: 34523349--34523408 Score: 102
Period size: 22 Copynumber: 2.8 Consensus size: 21
34523339 CGACCACTCA
34523349 TTTTTCTTTTTCTTTTTTTTC
1 TTTTTCTTTTTCTTTTTTTTC
*
34523370 TTTCTTCTTTCTCTTTTTTTTC
1 TTT-TTCTTTTTCTTTTTTTTC
34523392 TTTTTCTTTTTCTTTTT
1 TTTTTCTTTTTCTTTTT
34523409 ATGGGTGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 16 0.44
22 20 0.56
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTTCTTTTTCTTTTTTTTC
Found at i:34524326 original size:17 final size:18
Alignment explanation
Indices: 34524304--34524345 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
34524294 TCATCTTGAC
*
34524304 TTTTTCTTC-TTTTTTCT
1 TTTTTCTTCTTTTTTTCG
34524321 TTTTTC-TCTTTTTTTCG
1 TTTTTCTTCTTTTTTTCG
34524338 TTTTTCTT
1 TTTTTCTT
34524346 TAGGTTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 19 0.86
18 1 0.05
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTTCTTCTTTTTTTCG
Found at i:34524403 original size:11 final size:10
Alignment explanation
Indices: 34524388--34524422 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
34524378 ATCTCGACCC
34524388 TTTTTCTTTT
1 TTTTTCTTTT
34524398 CTTTTTCTTTT
1 -TTTTTCTTTT
*
34524409 TTCTTCTTTT
1 TTTTTCTTTT
34524419 TTTT
1 TTTT
34524423 GACCTCCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:34525889 original size:43 final size:43
Alignment explanation
Indices: 34525799--34525934 Score: 121
Period size: 43 Copynumber: 3.2 Consensus size: 43
34525789 GAGTCTATGG
* * * **
34525799 TCTTTAACAG-CGCTTTTCCCACAAACGTCGCTAAAGACCATGT
1 TCTTTAA-AGACGCTTTTCCCACAAACGCCGCTAAAAAACATAA
** * *
34525842 TCTTTAGCGACGCTTTCCCCACAAACGCCGCTAAAAAACGTAA
1 TCTTTAAAGACGCTTTTCCCACAAACGCCGCTAAAAAACATAA
* * * * * *
34525885 TCTTTAAAGGCACTTTTCTCACAAACGCCGCTAAAAGATATGA
1 TCTTTAAAGACGCTTTTCCCACAAACGCCGCTAAAAAACATAA
34525928 TCTTTAA
1 TCTTTAA
34525935 CGGTTTAGCG
Statistics
Matches: 73, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
42 1 0.01
43 72 0.99
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (43 bp):
TCTTTAAAGACGCTTTTCCCACAAACGCCGCTAAAAAACATAA
Found at i:34531180 original size:17 final size:19
Alignment explanation
Indices: 34531149--34531188 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
34531139 CATAAATAGC
34531149 AATATGATTTCTTTAA-AA
1 AATATGATTTCTTTAATAA
*
34531167 AATAT-ATTTTTTTAATAA
1 AATATGATTTCTTTAATAA
34531185 AATA
1 AATA
34531189 AAATTCACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (19 bp):
AATATGATTTCTTTAATAA
Found at i:34532644 original size:41 final size:41
Alignment explanation
Indices: 34532587--34532685 Score: 171
Period size: 41 Copynumber: 2.4 Consensus size: 41
34532577 AAATAAATTA
* *
34532587 GACCTTTAGCGGCGCTTGGCCATAAGCGCCGCTATTGCTCT
1 GACCTTTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCC
*
34532628 GACCTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCTCC
1 GACCTTTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCC
34532669 GACCTTTAGCGGCGCTT
1 GACCTTTAGCGGCGCTT
34532686 ATGTGGTCGA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.14, C:0.33, G:0.25, T:0.27
Consensus pattern (41 bp):
GACCTTTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCC
Found at i:34534650 original size:109 final size:110
Alignment explanation
Indices: 34534436--34534652 Score: 364
Period size: 109 Copynumber: 2.0 Consensus size: 110
34534426 GAAAATAAAG
* *
34534436 AACATTTATTGATTTAAAATAGGATACTCGATTATTTAGGTTCAAAGAAAAAAATCATACCCAGT
1 AACATTTATTAATTTAAAATAGGATACTCGATTATCTAGGTTCAAAGAAAAAAATCATACCCAGT
* *
34534501 ATGTTTAAGCACAATTTTTCGAATTCCCTAAATAAAAGAACATCA
66 ACGTTTAAGCACAATTTCTCGAATTCCCTAAATAAAAGAACATCA
* *
34534546 AACATTTATTAATTTTAAATAGGATACTCGATTATCTAGGTTCAAAG-AAAAAATCATACCTAGT
1 AACATTTATTAATTTAAAATAGGATACTCGATTATCTAGGTTCAAAGAAAAAAATCATACCCAGT
*
34534610 ACGTTTGAGCACAATTTCTCGAATTCCCTAAATAAAAGAACAT
66 ACGTTTAAGCACAATTTCTCGAATTCCCTAAATAAAAGAACAT
34534653 TGCCCCTTTT
Statistics
Matches: 100, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
109 56 0.56
110 44 0.44
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (110 bp):
AACATTTATTAATTTAAAATAGGATACTCGATTATCTAGGTTCAAAGAAAAAAATCATACCCAGT
ACGTTTAAGCACAATTTCTCGAATTCCCTAAATAAAAGAACATCA
Found at i:34538530 original size:35 final size:35
Alignment explanation
Indices: 34538485--34538552 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 35
34538475 GATATGATAT
34538485 TTTAAATAAATATTTATTTAT-TTAATTTGTTTTG
1 TTTAAATAAATATTTATTTATATTAATTTGTTTTG
*
34538519 TTTAACATAAATATTTATTTATATTATTTTGTTT
1 TTTAA-ATAAATATTTATTTATATTAATTTGTTT
34538553 AAATCTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 5 0.16
35 16 0.52
36 10 0.32
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (35 bp):
TTTAAATAAATATTTATTTATATTAATTTGTTTTG
Found at i:34538564 original size:31 final size:30
Alignment explanation
Indices: 34538491--34538565 Score: 73
Period size: 31 Copynumber: 2.4 Consensus size: 30
34538481 ATATTTTAAA
*
34538491 TAAATATT-TATTTATTTAATTTGTTTTGTT
1 TAAAT-TTATATTTATTTAATTTATTTTGTT
**
34538521 TAACATAAATATTTATTT-ATATTATTTTGTT
1 TAA-ATTTATATTTATTTAAT-TTATTTTGTT
34538552 TAAATCTTATATTT
1 TAAAT-TTATATTT
34538566 TATATAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
30 7 0.19
31 29 0.81
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (30 bp):
TAAATTTATATTTATTTAATTTATTTTGTT
Found at i:34538589 original size:13 final size:13
Alignment explanation
Indices: 34538558--34538591 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
34538548 TGTTTAAATC
34538558 TTATATTTTATAT
1 TTATATTTTATAT
**
34538571 AAATATTTTATAT
1 TTATATTTTATAT
34538584 TTATATTT
1 TTATATTT
34538592 GTTCGTTAAC
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTATATTTTATAT
Found at i:34539895 original size:17 final size:17
Alignment explanation
Indices: 34539872--34539928 Score: 89
Period size: 17 Copynumber: 3.4 Consensus size: 17
34539862 ACTAAACCTT
34539872 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
34539890 -TTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
34539906 TTTAAATTTGTTTTAAA
1 TTTAAATTTATTTTAAA
34539923 TTTAAA
1 TTTAAA
34539929 ATTAATAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
16 1 0.03
17 36 0.97
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:34540589 original size:22 final size:22
Alignment explanation
Indices: 34540564--34540605 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
34540554 ATTAAATAAG
*
34540564 TTTAATAATAATAATAATAATT
1 TTTAATAATAAAAATAATAATT
34540586 TTTAATAATAAAAATAATAA
1 TTTAATAATAAAAATAATAA
34540606 AAAGTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAATAATAAAAATAATAATT
Found at i:34541676 original size:30 final size:29
Alignment explanation
Indices: 34541642--34541873 Score: 242
Period size: 30 Copynumber: 7.9 Consensus size: 29
34541632 CGAACATCAT
34541642 ATTTTGACCCTCAAACTTTCCAAAAATTAC
1 ATTTTGACCCTCAAAC-TTCCAAAAATTAC
*
34541672 ATTTTGACCC-CAAACATTCTAAAAATTAC
1 ATTTTGACCCTCAAAC-TTCCAAAAATTAC
*
34541701 ATTTTGACCAC-CAAACTTGTCAAAAATTAC
1 ATTTTGACC-CTCAAACTT-CCAAAAATTAC
***
34541731 ATTTTGACCAAAAAACTTCTCAAAAATTAC
1 ATTTTGACCCTCAAACTTC-CAAAAATTAC
34541761 ATTTTGATCCCT-AAACTTCTCAAAAATTAC
1 ATTTTGA-CCCTCAAACTTC-CAAAAATTAC
* * *
34541791 ATTTTAACCCTCGAACTTCTCAAAAATTCC
1 ATTTTGACCCTCAAACTTC-CAAAAATTAC
* *
34541821 ATTTTTG-CCCTCAAACTTTCAAAAATTCC
1 A-TTTTGACCCTCAAACTTCCAAAAATTAC
*
34541850 ATTTT--CCCTCAAACTTCTAAAAAT
1 ATTTTGACCCTCAAACTTCCAAAAAT
34541874 CGTATTTTTA
Statistics
Matches: 178, Mismatches: 17, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
27 17 0.10
28 4 0.02
29 43 0.24
30 108 0.61
31 6 0.03
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (29 bp):
ATTTTGACCCTCAAACTTCCAAAAATTAC
Found at i:34541734 original size:59 final size:59
Alignment explanation
Indices: 34541642--34541873 Score: 282
Period size: 60 Copynumber: 3.9 Consensus size: 59
34541632 CGAACATCAT
34541642 ATTTTGACCCTCAAACTTTCCAAAAATTACATTTTGACCC-CAAACATTCT-AAAAATTAC
1 ATTTTGACCCTCAAACTTT-CAAAAATTACATTTTGACCCTCAAAC-TTCTCAAAAATTAC
***
34541701 ATTTTGACCAC-CAAACTTGTCAAAAATTACATTTTGACCAAAAAACTTCTCAAAAATTAC
1 ATTTTGACC-CTCAAACTT-TCAAAAATTACATTTTGACCCTCAAACTTCTCAAAAATTAC
* * *
34541761 ATTTTGATCCCT-AAACTTCTCAAAAATTACATTTTAACCCTCGAACTTCTCAAAAATTCC
1 ATTTTGA-CCCTCAAACTT-TCAAAAATTACATTTTGACCCTCAAACTTCTCAAAAATTAC
*
34541821 ATTTTTG-CCCTCAAACTTTCAAAAATTCCATTTT--CCCTCAAACTTCT-AAAAAT
1 A-TTTTGACCCTCAAACTTTCAAAAATTACATTTTGACCCTCAAACTTCTCAAAAAT
34541874 CGTATTTTTA
Statistics
Matches: 154, Mismatches: 11, Indels: 19
0.84 0.06 0.10
Matches are distributed among these distances:
56 6 0.04
57 12 0.08
59 58 0.38
60 71 0.46
61 7 0.05
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (59 bp):
ATTTTGACCCTCAAACTTTCAAAAATTACATTTTGACCCTCAAACTTCTCAAAAATTAC
Found at i:34542389 original size:97 final size:97
Alignment explanation
Indices: 34542216--34542509 Score: 473
Period size: 97 Copynumber: 3.0 Consensus size: 97
34542206 TCCAAAATAT
* * *
34542216 TTAAAATCGAGGCAATATTCCTTTATTTCGGGTTTTAAAAATTTGTGCCTTAACTTACTAGGCGC
1 TTAAAA-CGAGGCAATATTTCTTTATTTTGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGC
*
34542281 GATTTTTCTTCAAATCGGGATAATTGAATACCC
65 GATTTTTCTTCAAATCGGGATAATCGAATACCC
* * *
34542314 TTAAAACGAGGAAATGTTTCTTTATTTTGGGTTTTGAAAATTTGTGCCTTAACTTACTAGACGCG
1 TTAAAACGAGGCAATATTTCTTTATTTTGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCG
*
34542379 ATTTTTCTTCAAACCGGGATAATCGAATACCC
66 ATTTTTCTTCAAATCGGGATAATCGAATACCC
*
34542411 TTAAAACGAGGCACTATTTCTTTATCTTT-GGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGC
1 TTAAAACGAGGCAATATTTCTTTAT-TTTGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGC
*
34542475 GACTTTTCTTCAAATCGGGATAATCGAATACCC
65 GATTTTTCTTCAAATCGGGATAATCGAATACCC
34542508 TT
1 TT
34542510 TTCCAAGGTT
Statistics
Matches: 181, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
97 172 0.95
98 9 0.05
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.38
Consensus pattern (97 bp):
TTAAAACGAGGCAATATTTCTTTATTTTGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCG
ATTTTTCTTCAAATCGGGATAATCGAATACCC
Found at i:34551815 original size:3 final size:3
Alignment explanation
Indices: 34551802--34551834 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
34551792 TTATGATATC
*
34551802 GAA GTA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
34551835 AAAAGGGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:34553298 original size:13 final size:13
Alignment explanation
Indices: 34553280--34553305 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34553270 AGAAACTTCA
34553280 CAACTTGAAACAT
1 CAACTTGAAACAT
34553293 CAACTTGAAACAT
1 CAACTTGAAACAT
34553306 TCAGAATGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
CAACTTGAAACAT
Found at i:34553822 original size:15 final size:15
Alignment explanation
Indices: 34553802--34553833 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
34553792 AAATATATTA
34553802 AATAATTTTAATAAT
1 AATAATTTTAATAAT
34553817 AATAATTTTAATAAT
1 AATAATTTTAATAAT
34553832 AA
1 AA
34553834 AAATAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATAATTTTAATAAT
Found at i:34554937 original size:30 final size:29
Alignment explanation
Indices: 34554873--34555164 Score: 238
Period size: 30 Copynumber: 10.0 Consensus size: 29
34554863 CCCTAAATTA
* * *
34554873 TCCAAAAATCATATTTTGACCCTCAAACT
1 TCCAAAAATTACATTTTAACCCTCAAACT
*
34554902 TCCAAAAATTACATTTTAACCCTTAAACTT
1 TCCAAAAATTACATTTTAACCCTCAAAC-T
34554932 TCCAAAAATTACATTTTAACCC-CTAAACT
1 TCCAAAAATTACATTTTAACCCTC-AAACT
34554961 CTCCAAAAATTACATTTTAACCCTCAAACT
1 -TCCAAAAATTACATTTTAACCCTCAAACT
* *
34554991 TCTTAAAAATTACATTTTGACCCTCAAACT
1 TC-CAAAAATTACATTTTAACCCTCAAACT
** * *
34555021 TCTCAAAAATT-CTATTTTTGCCCCCGAACT
1 TC-CAAAAATTAC-ATTTTAACCCTCAAACT
* ** *
34555051 TCTAAAAATT-CTATTTTTGCCCTCGAACT
1 TCCAAAAATTAC-ATTTTAACCCTCAAACT
* * * *
34555080 TCCAAAAATCATATTTTTACCC-CGAA-T
1 TCCAAAAATTACATTTTAACCCTCAAACT
* * * *
34555107 TCCCAAAATGACATTTTTACCCTTAAAACTT
1 TCCAAAAATTACATTTTAACCC-TCAAAC-T
**
34555138 TCC-AAAATTGTATTTTAACCC-CAAACT
1 TCCAAAAATTACATTTTAACCCTCAAACT
34555165 CTTCGAAACT
Statistics
Matches: 224, Mismatches: 28, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
27 21 0.09
28 8 0.04
29 72 0.32
30 118 0.53
31 5 0.02
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (29 bp):
TCCAAAAATTACATTTTAACCCTCAAACT
Found at i:34555301 original size:15 final size:16
Alignment explanation
Indices: 34555275--34555304 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
34555265 GATTCATAAT
34555275 TCATATTTTATTTTTC
1 TCATATTTTATTTTTC
34555291 TCATA-TTTATTTTT
1 TCATATTTTATTTTT
34555305 GTACATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (16 bp):
TCATATTTTATTTTTC
Found at i:34555552 original size:97 final size:97
Alignment explanation
Indices: 34555431--34555724 Score: 453
Period size: 97 Copynumber: 3.0 Consensus size: 97
34555421 TCCAAAATAT
* * * *
34555431 TTAAAATCGAGGCAATATTCCTTTATTTCGGGTTTTGAAAATTTATGCCTTAACTTACTAGGCGC
1 TTAAAA-CGAGGCAATGTTTCTTTATTTCAGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGC
* *
34555496 GATTTTTCTTCAAATCGAGATAATTGAATACCC
65 GATTTTTCTTCAAATCGGGATAATCGAATACCC
*
34555529 TTAAAACGAGGCAATGTTTCTTTATTTCAGGTTTTGAAAATTTGTGCCTTAACTTACTAGACGCG
1 TTAAAACGAGGCAATGTTTCTTTATTTCAGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCG
*
34555594 ATTTTTCTTCAAACCGGGATAATCGAATACCC
66 ATTTTTCTTCAAATCGGGATAATCGAATACCC
* * **
34555626 TTAAAACGAGGCAATGTTTCTTTATCTCTGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGTA
1 TTAAAACGAGGCAATGTTTCTTTATTTCAGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCG
* *
34555691 ACTTTTCTTCAAATCGGGATAGTCGAATACCC
66 ATTTTTCTTCAAATCGGGATAATCGAATACCC
34555723 TT
1 TT
34555725 TTCCAAGGTT
Statistics
Matches: 180, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
97 174 0.97
98 6 0.03
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.37
Consensus pattern (97 bp):
TTAAAACGAGGCAATGTTTCTTTATTTCAGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCG
ATTTTTCTTCAAATCGGGATAATCGAATACCC
Found at i:34558889 original size:31 final size:31
Alignment explanation
Indices: 34558851--34558912 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
34558841 GTCTTATTAA
34558851 TGACTTAAATAAAAACTTTCAAATAGTTTAG
1 TGACTTAAATAAAAACTTTCAAATAGTTTAG
* *
34558882 TGACTTAAATGAAAACTTTCTAATAGTTTAG
1 TGACTTAAATAAAAACTTTCAAATAGTTTAG
34558913 ACCATTTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCAAATAGTTTAG
Found at i:34560173 original size:109 final size:109
Alignment explanation
Indices: 34560043--34560259 Score: 364
Period size: 109 Copynumber: 2.0 Consensus size: 109
34560033 CGAAAATAAA
*
34560043 GAACATTTATTTATTTAAAATAGGATACTCGATTATTTAGGTTCAAAGAAAAAATCATACCCA-A
1 GAACATTTATTAATTTAAAATAGGATACTCGATTATTTAGGTTCAAAGAAAAAATCATACCCAGA
** *
34560107 TATGTTTGAGCACAATTTCTCGAATTCTCTAAATAAAAGAACATC
66 -ACATTTGAGCACAATTTCTCGAATTCCCTAAATAAAAGAACATC
*
34560152 GAACATTTATTAATTTTAAATAGGATACTCGATTATTTAGGTTCAAAGAAAAAATCATACCCAGA
1 GAACATTTATTAATTTAAAATAGGATACTCGATTATTTAGGTTCAAAGAAAAAATCATACCCAGA
*
34560217 ACATTTGAGCACAATTTCTTGAATTCCCTAAATAAAAGAACAT
66 ACATTTGAGCACAATTTCTCGAATTCCCTAAATAAAAGAACAT
34560260 TGCTCCTTTT
Statistics
Matches: 101, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
109 100 0.99
110 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (109 bp):
GAACATTTATTAATTTAAAATAGGATACTCGATTATTTAGGTTCAAAGAAAAAATCATACCCAGA
ACATTTGAGCACAATTTCTCGAATTCCCTAAATAAAAGAACATC
Found at i:34561360 original size:371 final size:372
Alignment explanation
Indices: 34560676--34561424 Score: 1250
Period size: 371 Copynumber: 2.0 Consensus size: 372
34560666 AAACCAAAAT
* *
34560676 TAAGTTTAGAGTATGAATTAAAAAAAAGGGAACATTTAGGGTTAAATCTGGGTATTTTAAAAATA
1 TAAGTTTAGAGCACGAATTAAAAAAAAGGGAACATTTAGGGTTAAATCTGGGTATTTTAAAAATA
*
34560741 TAGGGACTAAATGAGAAATTTTTCCACATCTAGACACATGGCACTTTCAAATTTATCAACAACCA
66 TAGGGACTAAATGAGAAATTTTTCCACATCTAGACACATGGCACTTTCAAATTAATCAACAACCA
*
34560806 GAGGACTAAAATGTAGAAACAATAAAATCATTGAGCATAATTGAAAAAAAAAAAAACATAAATTA
131 GAGGACTAAAATGTAGAAACAATAAAATCATTGAGCATAATTGAAAAAAAAAAAAACAGAAATTA
* * *
34560871 AAACTTGATTGAAGAGACAATCAAAAGTGGAAGGGCTGAAAGAGCAATTAGCCCTTCTATAGAAA
196 AAACCTGATTGAAGAGACAATCAAAAGTGGAAGGGCTGAAAGAACAATTAGCCCTTCCATAGAAA
* * * * * *
34560936 ACACGCGGATCCTTCTTCGGGTCTGGATAGGGTCATGGGTCGGACACCAAAACGATGCCGTTTTG
261 ACAAGCGGATCCCTCTTCGGGTCTAGATAGGGTCATGGGTCGGACACCAAAACGACGCCATTTTA
* * *
34561001 GGGTTCCATAAGCCAGGCCAAAATGACGTCGTTTTGGTACTCCTATA
326 GAGTTCCAGAAGCCAGGCCAAAACGACGTCGTTTTGGTACTCCTATA
*
34561048 TAAGTTTAGAGCACGAATTAAAAAAAAGGGAACATTTAGGGTTAAATCTGGGTATTTTGAAAATA
1 TAAGTTTAGAGCACGAATTAAAAAAAAGGGAACATTTAGGGTTAAATCTGGGTATTTTAAAAATA
* *
34561113 TAGGGACTAAATGAGAAATTTTTCCACATCTAGACACGTGGCACTTTCAAATTAATCAGCAACCA
66 TAGGGACTAAATGAGAAATTTTTCCACATCTAGACACATGGCACTTTCAAATTAATCAACAACCA
* *
34561178 GAGGACTAAAATGTAG-AACAATAAAATCATTGGGCATAATTGAATAAAAAAAAAACAGAAATTA
131 GAGGACTAAAATGTAGAAACAATAAAATCATTGAGCATAATTGAAAAAAAAAAAAACAGAAATTA
*
34561242 AAACCTGATTGAAGAGAGAATCAAAAGTGGAAGGGCT-AAAGGAACAATTAGCCCTTCCATAGAA
196 AAACCTGATTGAAGAGACAATCAAAAGTGGAAGGGCTGAAA-GAACAATTAGCCCTTCCATAGAA
* *
34561306 AACAAGCGGATCCCTCTTCGGGTCTAGATCGGGTCATGGGTTGGACACCAAAACGACGCCATTTT
260 AACAAGCGGATCCCTCTTCGGGTCTAGATAGGGTCATGGGTCGGACACCAAAACGACGCCATTTT
*
34561371 AGAGTTCCAGAAGTCAGGCCAAAACGACGTCGTTTTGGTACTCCTATA
325 AGAGTTCCAGAAGCCAGGCCAAAACGACGTCGTTTTGGTACTCCTATA
34561419 TAAGTT
1 TAAGTT
34561425 AAAATTTGAT
Statistics
Matches: 351, Mismatches: 25, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
370 3 0.01
371 208 0.59
372 140 0.40
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (372 bp):
TAAGTTTAGAGCACGAATTAAAAAAAAGGGAACATTTAGGGTTAAATCTGGGTATTTTAAAAATA
TAGGGACTAAATGAGAAATTTTTCCACATCTAGACACATGGCACTTTCAAATTAATCAACAACCA
GAGGACTAAAATGTAGAAACAATAAAATCATTGAGCATAATTGAAAAAAAAAAAAACAGAAATTA
AAACCTGATTGAAGAGACAATCAAAAGTGGAAGGGCTGAAAGAACAATTAGCCCTTCCATAGAAA
ACAAGCGGATCCCTCTTCGGGTCTAGATAGGGTCATGGGTCGGACACCAAAACGACGCCATTTTA
GAGTTCCAGAAGCCAGGCCAAAACGACGTCGTTTTGGTACTCCTATA
Found at i:34562770 original size:42 final size:45
Alignment explanation
Indices: 34562632--34562770 Score: 169
Period size: 46 Copynumber: 3.1 Consensus size: 45
34562622 GCTTCTGTGA
* * *
34562632 GATGGTAGCTTCAATCTGCCCCTCTTGATTTAGCGGTAAAAGATTG
1 GATGGTAGCTTCAATATGTCCCTCTTGACTTAG-GGTAAAAGATTG
* *
34562678 GATAGTAGCTTCAATCTGTCCCTCTTGACTTAGGGGTAAAAGATTG
1 GATGGTAGCTTCAATATGTCCCTCTTGACTTA-GGGTAAAAGATTG
*
34562724 GATGGT-GTCTTCAATATG-CCCTC-T-AGTTAGGGTAAAAGATTG
1 GATGGTAG-CTTCAATATGTCCCTCTTGACTTAGGGTAAAAGATTG
34562766 GATGG
1 GATGG
34562771 CTTTAATCTA
Statistics
Matches: 85, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
42 18 0.21
43 4 0.05
44 1 0.01
45 6 0.07
46 55 0.65
47 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (45 bp):
GATGGTAGCTTCAATATGTCCCTCTTGACTTAGGGTAAAAGATTG
Found at i:34562836 original size:42 final size:42
Alignment explanation
Indices: 34562666--34563052 Score: 295
Period size: 39 Copynumber: 9.4 Consensus size: 42
34562656 TTGATTTAGC
* * * *
34562666 GGTAAAAGATTGGATAGTAG-CTTCAATCTGTCCCTCTTGACTTAGG
1 GGTAAGAGATTGGATGGT-GTCTTCAATCTG--CCTCATGA--TCGG
* * **
34562712 GGTAAAAGATTGGATGGTGTCTTCAATATGCCCTC-T-AGTTAG
1 GGTAAGAGATTGGATGGTGTCTTCAATCTG-CCTCATGA-TCGG
* * * *
34562754 GGTAAAAGATTGGAT-G-G-CTTTAATCTATCC-CATGGTCGG
1 GGTAAGAGATTGGATGGTGTCTTCAATCT-GCCTCATGATCGG
34562793 GGTAAGAGATTGGATGGTGTCTTCAATCTGCCTCATGATCGG
1 GGTAAGAGATTGGATGGTGTCTTCAATCTGCCTCATGATCGG
* * *
34562835 GGTAAGAGATTGGAT-G-G-CTTCAGTCTGCCCCATGGTCGG
1 GGTAAGAGATTGGATGGTGTCTTCAATCTGCCTCATGATCGG
* * *
34562874 GATAAGAGATTGGATGATGTCTTCAATCTGCAC-CATGATCGA
1 GGTAAGAGATTGGATGGTGTCTTCAATCTGC-CTCATGATCGG
* **
34562916 GGTAAGAGATTGGAT-G-G-CTTCAATCTGCCTCATGGTTAG
1 GGTAAGAGATTGGATGGTGTCTTCAATCTGCCTCATGATCGG
* * * * *
34562955 GGTAAGAGATTGAAATGATGTCTTTAATCTACCCCATGATCGG
1 GGTAAGAGATTG-GATGGTGTCTTCAATCTGCCTCATGATCGG
* * *
34562998 GGTAAGAGATTGGAT-G-GT-TTCAATCTGCCCCATGGTCGA
1 GGTAAGAGATTGGATGGTGTCTTCAATCTGCCTCATGATCGG
*
34563037 GGTAAGAGATTAGATG
1 GGTAAGAGATTGGATG
34563053 ATGATGTAAC
Statistics
Matches: 279, Mismatches: 44, Indels: 42
0.76 0.12 0.12
Matches are distributed among these distances:
38 2 0.01
39 118 0.42
40 8 0.03
41 6 0.02
42 82 0.29
43 30 0.11
44 1 0.00
45 6 0.02
46 26 0.09
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (42 bp):
GGTAAGAGATTGGATGGTGTCTTCAATCTGCCTCATGATCGG
Found at i:34562845 original size:81 final size:81
Alignment explanation
Indices: 34562710--34563055 Score: 428
Period size: 81 Copynumber: 4.3 Consensus size: 81
34562700 TCTTGACTTA
* * * ** *
34562710 GGGGTAAAAGATTGGATGGTGTCTTCAATATGCCCTC-T-AGTTAGGGTAAAAGATTGGATGGCT
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTG-CCTCATGA-TCGGGGTAAGAGATTGGATGGCT
* **
34562773 TTAATCTATCCCATGGTC
64 TCAATCTGCCCCATGGTC
*
34562791 GGGGTAAGAGATTGGATGGTGTCTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGATGGCTTC
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGATGGCTTC
*
34562856 AGTCTGCCCCATGGTC
66 AATCTGCCCCATGGTC
* *
34562872 GGGATAAGAGATTGGATGATGTCTTCAATCTGCAC-CATGATCGAGGTAAGAGATTGGATGGCTT
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGC-CTCATGATCGGGGTAAGAGATTGGATGGCTT
* *
34562936 CAATCTGCCTCATGGTT
65 CAATCTGCCCCATGGTC
* * * * * *
34562953 AGGGTAAGAGATTGAAATGATGTCTTTAATCTACCCCATGATCGGGGTAAGAGATTGGATGGTTT
1 GGGGTAAGAGATTG-GATGATGTCTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGATGGCTT
34563018 CAATCTGCCCCATGGTC
65 CAATCTGCCCCATGGTC
* *
34563035 GAGGTAAGAGATTAGATGATG
1 GGGGTAAGAGATTGGATGATG
34563056 ATGTAACTTC
Statistics
Matches: 232, Mismatches: 28, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
80 4 0.02
81 157 0.68
82 71 0.31
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (81 bp):
GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGATGGCTTC
AATCTGCCCCATGGTC
Found at i:34563045 original size:163 final size:162
Alignment explanation
Indices: 34562754--34563055 Score: 446
Period size: 163 Copynumber: 1.9 Consensus size: 162
34562744 CTCTAGTTAG
* * * * *
34562754 GGTAAAAGATTGGATGGCTTTAATCTATCCCATGGTCGGGGTAAGAGATTGGATGGTGTCTTCAA
1 GGTAAAAGATTGGATGGCTTCAATCTAGCCCATGGTCAGGGTAAGAGATTGAATGATGTCTTCAA
* * *
34562819 TCTGCCTCATGATCGGGGTAAGAGATTGGATGGCTTCAGTCTGCCCCATGGTCGGGATAAGAGAT
66 TCTACCCCATGATCGGGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGGGATAAGAGAT
*
34562884 TGGATGATGTCTTCAATCTGCACCATGATCGA
131 TAGATGATGTCTTCAATCTGCACCATGATCGA
* * *
34562916 GGTAAGAGATTGGATGGCTTCAATCT-GCCTCATGGTTAGGGTAAGAGATTGAAATGATGTCTTT
1 GGTAAAAGATTGGATGGCTTCAATCTAGCC-CATGGTCAGGGTAAGAGATTG-AATGATGTCTTC
*
34562980 AATCTACCCCATGATCGGGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGGTCGAGG-TAAGA
64 AATCTACCCCATGATCGGGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCG-GGATAAGA
34563044 GATTAGATGATG
128 GATTAGATGATG
34563056 ATGTAACTTC
Statistics
Matches: 124, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
161 2 0.02
162 43 0.35
163 77 0.62
164 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (162 bp):
GGTAAAAGATTGGATGGCTTCAATCTAGCCCATGGTCAGGGTAAGAGATTGAATGATGTCTTCAA
TCTACCCCATGATCGGGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGGGATAAGAGAT
TAGATGATGTCTTCAATCTGCACCATGATCGA
Found at i:34563456 original size:49 final size:49
Alignment explanation
Indices: 34563412--34564083 Score: 544
Period size: 49 Copynumber: 13.7 Consensus size: 49
34563402 TCATCTTCAA
** * *
34563412 GGTATAAGGCTCGCCGTTGTGGCTTCAATCTTTCCCTTCACATCTCTAG
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAG
* * * * * *
34563461 GGTATAAGGTTC-ACTGTTGTGGCTTCAACCTTTCCCTCCACATCTTTAG
1 GGTATAAGATTCGTC-GTTGCGGCTTCAATCTTTCCCTTCACATCTCTAG
* * * * * *
34563510 GGCATAAGATTCGTCATTGCAGCCTCAATCTTTCCCTTCACATTTCTAT
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAG
* * * * * *
34563559 GGCATGAGACTT-ATTGTTACGACTTCAATCTTTCCCTTCACATCTCTAG
1 GGTATAAGA-TTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAG
* * * * ** * *
34563608 GGTATAAGGTTCGTTGTTGCGACTTTACCCTTTCCCTCCACGTCTCTAG
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAG
* * * *
34563657 GGTATAAGATTTGTCGTTACGGCTTCAATCTTTCCC-TCTGCATCTTTAG
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTC-ACATCTCTAG
* * * * * * *
34563706 GGTATAAGATTCATCATTGAGACTTCAATC-TTCCCCTCTATATCTCTAA
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTC-ACATCTCTAG
* *
34563755 GGTATAAGATTCGTCATTGCAGCTTCAATCTTTCCCTTCACATCTCTAG
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAG
* * * * * * * * *
34563804 GGCATTAGGTACTTCGTTGCGGTTTCAACCTTTCCCTCCACGTCTCTAG
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAG
* * * * * * *
34563853 GGTATAAGGTTCGCCGTTGTGGCTTTAACCTTTCCCTCCACGTCTCTAG
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAG
* * * * * * * * **
34563902 GGTATAAGGTTCGCCATTACTGCTTCTACCTTTCCCTCCATGTCTCTAG
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAG
* *
34563951 GGTATAAGATTCGTCGTTGCGGATTCAATCTTTCCCTCCACATCTCTAG
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAG
* * * * * * *
34564000 TGTACAAGATTCGCCATTGTGAGCTTCAATCTTTCCC-TCTATATCTCTAA
1 GGTATAAGATTCGTCGTTGCG-GCTTCAATCTTTCCCTTC-ACATCTCTAG
*
34564050 GGTATAAGATTCGTCGTTGTGGCTTCAATCTTTC
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTC
34564084 TCATCACGTT
Statistics
Matches: 499, Mismatches: 115, Indels: 18
0.79 0.18 0.03
Matches are distributed among these distances:
48 9 0.02
49 441 0.88
50 49 0.10
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.37
Consensus pattern (49 bp):
GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAG
Found at i:34565067 original size:7 final size:7
Alignment explanation
Indices: 34565055--34565111 Score: 64
Period size: 7 Copynumber: 8.1 Consensus size: 7
34565045 CCTCGACCAC
34565055 TCTTTTT
1 TCTTTTT
34565062 TCTTTTT
1 TCTTTTT
*
34565069 CTTTTTTT
1 -TCTTTTT
*
34565077 TCTTTCT
1 TCTTTTT
34565084 TCTTTCTT
1 TCTTT-TT
34565092 T-TTTTT
1 TCTTTTT
34565098 TC-TTTT
1 TCTTTTT
34565104 TCTTTTT
1 TCTTTTT
34565111 T
1 T
34565112 TGGGTGAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
6 9 0.21
7 25 0.60
8 8 0.19
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TCTTTTT
Found at i:34565069 original size:6 final size:6
Alignment explanation
Indices: 34565058--34565110 Score: 65
Period size: 6 Copynumber: 8.8 Consensus size: 6
34565048 CGACCACTCT
*
34565058 TTTTTC TTTTTC TTTTTT TTCTTTC TTCTTTC -TTTT- TTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TT-TTTC TT-TTTC TTTTTC TTTTTC TTTTTC
34565106 TTTTT
1 TTTTT
34565111 TTGGGTGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
5 7 0.17
6 25 0.60
7 10 0.24
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:34565091 original size:20 final size:20
Alignment explanation
Indices: 34565060--34565112 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 20
34565050 ACCACTCTTT
34565060 TTTCTT-TTTCTTTTTTTTC
1 TTTCTTCTTTCTTTTTTTTC
34565079 TTTCTTCTTTCTTTTTTTTTC
1 TTTCTTCTTTC-TTTTTTTTC
34565100 TTT-TTCTTT-TTTT
1 TTTCTTCTTTCTTTT
34565113 GGGTGAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.12
19 6 0.19
20 10 0.31
21 12 0.38
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTCTTCTTTCTTTTTTTTC
Found at i:34565111 original size:16 final size:16
Alignment explanation
Indices: 34565057--34565112 Score: 76
Period size: 16 Copynumber: 3.2 Consensus size: 16
34565047 TCGACCACTC
34565057 TTTTTTCTTTTTCTTTTT
1 TTTTTTCTTTTTC--TTT
34565075 TTTCTTTCTTCTTTCTTT
1 TTT-TTTCTT-TTTCTTT
34565093 TTTTTTCTTTTTCTTT
1 TTTTTTCTTTTTCTTT
34565109 TTTT
1 TTTT
34565113 GGGTGAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
16 11 0.31
17 6 0.17
18 9 0.25
19 6 0.17
20 4 0.11
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTTCTTTTTCTTT
Found at i:34566032 original size:17 final size:18
Alignment explanation
Indices: 34566010--34566051 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
34566000 TCATCTTGAC
*
34566010 TTTTTCTTC-TTTTTTCT
1 TTTTTCTTCTTTTTTTCG
34566027 TTTTTC-TCTTTTTTTCG
1 TTTTTCTTCTTTTTTTCG
34566044 TTTTTCTT
1 TTTTTCTT
34566052 TAGGTTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 19 0.86
18 1 0.05
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTTCTTCTTTTTTTCG
Found at i:34566118 original size:13 final size:14
Alignment explanation
Indices: 34566094--34566123 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
34566084 ATCTCGACCC
34566094 TTTCTCTTTTTCTT
1 TTTCTCTTTTTCTT
34566108 TTTCT-TTTTTCTT
1 TTTCTCTTTTTCTT
34566121 TTT
1 TTT
34566124 TTGACCTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTCTCTTTTTCTT
Found at i:34569211 original size:109 final size:109
Alignment explanation
Indices: 34569080--34569297 Score: 330
Period size: 109 Copynumber: 2.0 Consensus size: 109
34569070 CGAAAATAAA
* *
34569080 GAACATTTATTGATTTAAAATAGGATACTCGATTAATTAGGTTCAAAGAAAAAATCATACCTAGT
1 GAACATTTATTAATTTAAAATAGGATACTCGATTAATTAGGTTCAAAGAAAAAATCATACCCAGT
* *
34569145 A-TGTTTAAGCACAATTTTTCGAATTCCCTAAATAAAAGAACATT
66 ACT-TTTAAGCACAATTTCTCGAATCCCCTAAATAAAAGAACATT
* * * *
34569189 GAACATTTATTAATTTTAAATAGGATACTCGATTATTTAGGTTCAAATAACAAATCATACCCAGT
1 GAACATTTATTAATTTAAAATAGGATACTCGATTAATTAGGTTCAAAGAAAAAATCATACCCAGT
* *
34569254 ACTTTTGAGCACAATTTCTCTAATCCCCTAAATAAAAGAACATT
66 ACTTTTAAGCACAATTTCTCGAATCCCCTAAATAAAAGAACATT
34569298 ACCCCTTTTT
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
109 97 0.99
110 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (109 bp):
GAACATTTATTAATTTAAAATAGGATACTCGATTAATTAGGTTCAAAGAAAAAATCATACCCAGT
ACTTTTAAGCACAATTTCTCGAATCCCCTAAATAAAAGAACATT
Found at i:34573685 original size:10 final size:10
Alignment explanation
Indices: 34573670--34573727 Score: 64
Period size: 10 Copynumber: 5.9 Consensus size: 10
34573660 TTTTGCTCTA
*
34573670 TTTATTTTAT
1 TTTATTTTGT
34573680 TTTA-TTTGT
1 TTTATTTTGT
**
34573689 TTGGTTTTGT
1 TTTATTTTGT
**
34573699 TTGGTTTTGT
1 TTTATTTTGT
34573709 TTTATTTTGT
1 TTTATTTTGT
34573719 TTTATTTTG
1 TTTATTTTG
34573728 GGCCCGGACA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
9 6 0.14
10 36 0.86
ACGTcount: A:0.09, C:0.00, G:0.16, T:0.76
Consensus pattern (10 bp):
TTTATTTTGT
Found at i:34573707 original size:6 final size:5
Alignment explanation
Indices: 34573684--34573727 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
34573674 TTTTATTTTA
* * * *
34573684 TTTGT TTGGT TTTGT TTGGT TTTGT TTTAT TTTGT TTTAT TTTG
1 TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTG
34573728 GGCCCGGACA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.05, C:0.00, G:0.20, T:0.75
Consensus pattern (5 bp):
TTTGT
Found at i:34574232 original size:46 final size:43
Alignment explanation
Indices: 34574154--34574341 Score: 165
Period size: 46 Copynumber: 4.3 Consensus size: 43
34574144 TGACATGGTG
* *
34574154 GCTTCAATCTGCCCCTCTTGATTTAGCTGTAAAAGATTGGATAGT
1 GCTTCAATCTGCCCCTCTTGATTAAG-GGTAAAAGATTGGAT-GT
34574199 AGCTTCAATCTGCCCCTCTTGACTTAAGGGTAAAAGATTGGATGGT
1 -GCTTCAATCTGCCCCTCTTGA-TTAAGGGTAAAAGATTGGAT-GT
* * *
34574245 GTCTTCAATATG-CCCTCTAG-TTAA-GGTAAAAGATTTGATG-
1 G-CTTCAATCTGCCCCTCTTGATTAAGGGTAAAAGATTGGATGT
* * ** *
34574285 GCTTCAATCTG--CCTCATG-GTCGGGGTAAGAGATTGGATGGT
1 GCTTCAATCTGCCCCTCTTGATTAAGGGTAAAAGATTGGAT-GT
34574326 GTCTTCAATCTGCCCC
1 G-CTTCAATCTGCCCC
34574342 ATGATCGGGG
Statistics
Matches: 120, Mismatches: 14, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
38 6 0.05
39 22 0.18
40 2 0.02
41 2 0.02
42 24 0.20
43 4 0.03
44 2 0.02
45 8 0.07
46 46 0.38
47 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (43 bp):
GCTTCAATCTGCCCCTCTTGATTAAGGGTAAAAGATTGGATGT
Found at i:34574312 original size:39 final size:39
Alignment explanation
Indices: 34574269--34574485 Score: 220
Period size: 39 Copynumber: 5.4 Consensus size: 39
34574259 CTCTAGTTAA
* * *
34574269 GGTAAAAGATTTGATGGCTTCAATCTGCCTCATGGTCGG
1 GGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGG
*
34574308 GGTAAGAGATTGGATGGTGTCTTCAATCTGCCCCATGATCGG
1 GGTAAGAGATTGGAT-G-G-CTTCAATCTGCCCCATGGTCGG
* * * **
34574350 GGTAAGAGATTGGATGGGTTCAGTCTGCCTCATGGTTAG
1 GGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGG
* * * *
34574389 GGTAAGAGATTGAAATGATGTCTTTAATTTGCCCCATGATC-G
1 GGTAAGAGATTG----GATGGCTTCAATCTGCCCCATGGTCGG
* *
34574431 GGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTTGA
1 GGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGG
*
34574470 GGTAAGAGATTAGATG
1 GGTAAGAGATTGGATG
34574486 ATGATGTAAC
Statistics
Matches: 145, Mismatches: 25, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
38 20 0.14
39 56 0.39
40 2 0.01
41 2 0.01
42 48 0.33
43 17 0.12
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.30
Consensus pattern (39 bp):
GGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGG
Found at i:34574340 original size:81 final size:80
Alignment explanation
Indices: 34574226--34574485 Score: 297
Period size: 81 Copynumber: 3.2 Consensus size: 80
34574216 CTTGACTTAA
* * * *
34574226 GGGTAAAAGATTGGATGGTGTCTTCAATATGCCCTC-TAGTTAAGGTAAAAGATTTGATGGCTTC
1 GGGTAAGAGATTGGATGGTGTCTTCAATATGCCC-CAT-GTTAGGGTAAGAGATTGGATGGCTTC
*
34574290 AATCTGCCTCATGGTCG
64 AATCTGCCTCATGGTTG
* ** *
34574307 GGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGGGTTCA
1 GGGTAAGAGATTGGATGGTGTCTTCAATATGCCCCATG-TTAGGGTAAGAGATTGGATGGCTTCA
* *
34574372 GTCTGCCTCATGGTTA
65 ATCTGCCTCATGGTTG
* * * * * *
34574388 GGGTAAGAGATTGAAATGATGTCTTTAATTTGCCCCATGATCGGGTAAGAGATTGGATGGCTTCA
1 GGGTAAGAGATTG-GATGGTGTCTTCAATATGCCCCATGTTAGGGTAAGAGATTGGATGGCTTCA
*
34574453 ATCTGCCCCATGGTTG
65 ATCTGCCTCATGGTTG
* *
34574469 AGGTAAGAGATTAGATG
1 GGGTAAGAGATTGGATG
34574486 ATGATGTAAC
Statistics
Matches: 151, Mismatches: 25, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
80 5 0.03
81 125 0.83
82 21 0.14
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (80 bp):
GGGTAAGAGATTGGATGGTGTCTTCAATATGCCCCATGTTAGGGTAAGAGATTGGATGGCTTCAA
TCTGCCTCATGGTTG
Found at i:34575174 original size:98 final size:98
Alignment explanation
Indices: 34574888--34575518 Score: 437
Period size: 98 Copynumber: 6.4 Consensus size: 98
34574878 CCCTTTTCCT
* * ** * * * * *
34574888 CATCTTTAGGGTATAAGGTTC-ACTGTTGTGGCTTCAATGTTTCCCTCCACATCTTTAAGGCATG
1 CATCTTTAGGGTATAAGATTCGTC-GTTGCAGCTTCAATCTTTCCCTCCACATCTCTAGGGTATA
* * ** * *
34574952 AGATTCATCGTTGCAGCTTCAATCTTTCCCTTCA
65 AGATTCACCATTGTGGCTTCAACCTTTCCCTCCA
* * * * * * * *
34574986 CATCTCTAGAG-ATGAGATTTGTTGTTGC-GACTTCAATCTTTCCGTTCACATCTCTAGAGTATA
1 CATCTTTAGGGTATAAGATTCGTCGTTGCAG-CTTCAATCTTTCCCTCCACATCTCTAGGGTATA
* **** * **
34575049 AGGTTTGTTATTGCGGCTTTGACCTTTCCCTCCA
65 AGATTCACCATTGTGGCTTCAACCTTTCCCTCCA
* * * * * * * *
34575083 CGTCTTTAGGGTATAAGATTTGTTGTTACAGCTTCAATCTTTCCCTCCGCATATTTAGGGTACAA
1 CATCTTTAGGGTATAAGATTCGTCGTTGCAGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAA
** ** * **
34575148 GATTCGTCATTGTGGCTTCAGTCTTTCCTTCTG
66 GATTCACCATTGTGGCTTCAACCTTTCCCTCCA
* * * * * ** *
34575181 TATCTCTAAGTTATAAGATTCATAATTGCAGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAA
1 CATCTTTAGGGTATAAGATTCGTCGTTGCAGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAA
* * **
34575246 GGTTCACCGTTGTGATTTCAACCTTTCCCTCCA
66 GATTCACCATTGTGGCTTCAACCTTTCCCTCCA
* * * ** ** *
34575279 CGT-TTCTAGGGTATAAGGTTCGCCGTTGTGGCTTCAA-CATTTCCCTCCATGTCACTAGGGTAT
1 CATCTT-TAGGGTATAAGATTCGTCGTTGCAGCTTCAATC-TTTCCCTCCACATCTCTAGGGTAT
* * ** *
34575342 AAGGTTCGCTGTTGCGGCTTCAACCTTTCCCTCCA
64 AAGATTCACCATTGTGGCTTCAACCTTTCCCTCCA
**
34575377 TC-TCTTTAGGGTATAAGATTCCCCGTTGCAGCTTCAATCTTTCCCTCCACATCTCTAGGGTATA
1 -CATCTTTAGGGTATAAGATTCGTCGTTGCAGCTTCAATCTTTCCCTCCACATCTCTAGGGTATA
* * *
34575441 AGAGTCACCATTGTGAGCTTCAATCTTTCCCTCTA
65 AGATTCACCATTGTG-GCTTCAACCTTTCCCTCCA
* * * * *
34575476 TATCTCTAAGGTATAAGATTCGTCGTTGCGGCTTTAATCTTTC
1 CATCTTTAGGGTATAAGATTCGTCGTTGCAGCTTCAATCTTTC
34575519 TCATCACGTT
Statistics
Matches: 404, Mismatches: 118, Indels: 21
0.74 0.22 0.04
Matches are distributed among these distances:
96 1 0.00
97 69 0.17
98 277 0.69
99 57 0.14
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.38
Consensus pattern (98 bp):
CATCTTTAGGGTATAAGATTCGTCGTTGCAGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAA
GATTCACCATTGTGGCTTCAACCTTTCCCTCCA
Found at i:34575223 original size:147 final size:143
Alignment explanation
Indices: 34574918--34575497 Score: 407
Period size: 147 Copynumber: 3.9 Consensus size: 143
34574908 CACTGTTGTG
** * * * * *
34574918 GCTTCAATGTTTCCCTCCACATCTTTAAGGCATGAGATTCATCGTTGCAGCTTCAATCTTTCCCT
1 GCTTCAACCTTTCCCTCCAC-TCTTTAGGGTATAAGATTCGTTGTT-CAGCTTCAATCTTTCCCT
* * * * * *** * * * *
34574983 TCACATCTCTAGAG-ATGAGATTTGTTGTTGCGACTTCAATCTTTCCGT-TCACATCTCT-AGAG
64 CCACAT-TTTAGGGTATAAGATTCGCCATTGTGGCTTC-ATCTTTCCCTCT-ATATCTCTAAG-G
* * * *
34575045 TATAAGGTTTGTTATTGCG
125 TATAAGATTCGATATTGCA
** *
34575064 GCTTTGACCTTTCCCTCCACGTCTTTAGGGTATAAGATTTGTTGTTACAGCTTCAATCTTTCCCT
1 GCTTCAACCTTTCCCTCCAC-TCTTTAGGGTATAAGATTCGTTGTT-CAGCTTCAATCTTTCCCT
* * * * * *
34575129 CCGCATATTTAGGGTACAAGATTCGTCATTGTGGCTTCAGTCTTTCCTTCTGTATCTCTAAGTTA
64 CCACAT-TTTAGGGTATAAGATTCGCCATTGTGGCTTCA-TCTTTCCCTCTATATCTCTAAGGTA
34575194 TAAGATTC-ATAATTGCA
127 TAAGATTCGAT-ATTGCA
* * * * * * *
34575211 GCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGGTTCACCGTTG-TGA-TTTCAACCTTTCC
1 GCTTCAACCTTTCCCTCCAC-TCTTTAGGGTATAAGATT---CGTTGTTCAGCTTCAATCTTTCC
* * * * * * * *
34575274 CTCCACGTTTCTAGGGTATAAGGTTCGCCGTTGTGGCTTCAACATTTCCCTCCATGTCACTAGGG
62 CTCCACATTT-TAGGGTATAAGATTCGCCATTGTGGCTTCATC-TTTCCCTCTATATCTCTAAGG
* * * *
34575339 TATAAGGTTCGCTGTTGCG
125 TATAAGATTCGATATTGCA
***
34575358 GCTTCAACCTTTCCCTCCATCTCTTTAGGGTATAAGATTCCCCGTTGCAGCTTCAATCTTTCCCT
1 GCTTCAACCTTTCCCTCCA-CTCTTTAGGGTATAAGATTCGTTGTT-CAGCTTCAATCTTTCCCT
* * *
34575423 CCACATCTCTAGGGTATAAGAGTCACCATTGTGAGCTTCAATCTTTCCCTCTATATCTCTAAGGT
64 CCACAT-TTTAGGGTATAAGATTCGCCATTGTG-GCTTC-ATCTTTCCCTCTATATCTCTAAGGT
34575488 ATAAGATTCG
126 ATAAGATTCG
34575498 TCGTTGCGGC
Statistics
Matches: 333, Mismatches: 83, Indels: 34
0.74 0.18 0.08
Matches are distributed among these distances:
144 2 0.01
145 1 0.00
146 68 0.20
147 216 0.65
148 39 0.12
149 3 0.01
150 4 0.01
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (143 bp):
GCTTCAACCTTTCCCTCCACTCTTTAGGGTATAAGATTCGTTGTTCAGCTTCAATCTTTCCCTCC
ACATTTTAGGGTATAAGATTCGCCATTGTGGCTTCATCTTTCCCTCTATATCTCTAAGGTATAAG
ATTCGATATTGCA
Found at i:34575266 original size:49 final size:49
Alignment explanation
Indices: 34574836--34575492 Score: 317
Period size: 49 Copynumber: 13.3 Consensus size: 49
34574826 TGCTTCTCTT
* * *** * * *
34574836 CATCTTTAGGGTATAAGATTCGTTGTTGCGACTTTAATCTTTCCCTTTTCCT
1 CATCTCTAGGGTATAAGGTTCACCGTTGTGACTTCAATCTTTCCC---TCCA
* * * *
34574888 CATCTTTAGGGTATAAGGTTCACTGTTGTGGCTTCAATGTTTCCCTCCA
1 CATCTCTAGGGTATAAGGTTCACCGTTGTGACTTCAATCTTTCCCTCCA
* * * * * * * *
34574937 CATCTTTAAGGCATGAGATTCATCGTTG-CAGCTTCAATCTTTCCCTTCA
1 CATCTCTAGGGTATAAGGTTCACCGTTGTGA-CTTCAATCTTTCCCTCCA
* * * **** * * *
34574986 CATCTCTAGAG-ATGAGATTTGTTGTTGCGACTTCAATCTTTCCGTTCA
1 CATCTCTAGGGTATAAGGTTCACCGTTGTGACTTCAATCTTTCCCTCCA
* ***** * * ** *
34575034 CATCTCTAGAGTATAAGGTTTGTTATTGCGGCTTTGACCTTTCCCTCCA
1 CATCTCTAGGGTATAAGGTTCACCGTTGTGACTTCAATCTTTCCCTCCA
* * * * * *
34575083 CGTCTTTAGGGTATAAGATT---TGTTGTTACAGCTTCAATCTTTCCCTCCG
1 CATCTCTAGGGTATAAGGTTCACCGTTG-T-GA-CTTCAATCTTTCCCTCCA
* * * * ** * * * * **
34575132 CATATTTAGGGTACAAGATTCGTCATTGTGGCTTCAGTCTTTCCTTCTG
1 CATCTCTAGGGTATAAGGTTCACCGTTGTGACTTCAATCTTTCCCTCCA
* * * * *** * *
34575181 TATCTCTAAGTTATAAGATTCATAATTG-CAGCTTCAATCTTTCCCTTCA
1 CATCTCTAGGGTATAAGGTTCACCGTTGTGA-CTTCAATCTTTCCCTCCA
* *
34575230 CATCTCTAGGGTATAAGGTTCACCGTTGTGATTTCAACCTTTCCCTCCA
1 CATCTCTAGGGTATAAGGTTCACCGTTGTGACTTCAATCTTTCCCTCCA
* * * *
34575279 CGTTTCTAGGGTATAAGGTTCGCCGTTGTGGCTTCAA-CATTTCCCTCCA
1 CATCTCTAGGGTATAAGGTTCACCGTTGTGACTTCAATC-TTTCCCTCCA
** * * * * * *
34575328 TGTCACTAGGGTATAAGGTTCGCTGTTGCGGCTTCAACCTTTCCCTCCA
1 CATCTCTAGGGTATAAGGTTCACCGTTGTGACTTCAATCTTTCCCTCCA
* * * *
34575377 TC-TCTTTAGGGTATAAGATTCCCCGTTG-CAGCTTCAATCTTTCCCTCCA
1 -CATCTCTAGGGTATAAGGTTCACCGTTGTGA-CTTCAATCTTTCCCTCCA
* *
34575426 CATCTCTAGGGTATAAGAG-TCACCATTGTGAGCTTCAATCTTTCCCTCTA
1 CATCTCTAGGGTATAAG-GTTCACCGTTGTGA-CTTCAATCTTTCCCTCCA
* *
34575476 TATCTCTAAGGTATAAG
1 CATCTCTAGGGTATAAG
34575493 ATTCGTCGTT
Statistics
Matches: 477, Mismatches: 110, Indels: 38
0.76 0.18 0.06
Matches are distributed among these distances:
46 4 0.01
48 43 0.09
49 352 0.74
50 36 0.08
51 1 0.00
52 41 0.09
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.38
Consensus pattern (49 bp):
CATCTCTAGGGTATAAGGTTCACCGTTGTGACTTCAATCTTTCCCTCCA
Found at i:34575544 original size:147 final size:145
Alignment explanation
Indices: 34575111--34575545 Score: 380
Period size: 147 Copynumber: 3.0 Consensus size: 145
34575101 TTTGTTGTTA
* * * * * *
34575111 CAGCTTCAATCTTTCCCTCCGCATATTTAGGGTACAAGATTCGTCATTGTGGCTTCAGTCTTTCC
1 CAGCTTCAATCTTTCCCTCCACATATCTAGGGTATAAGAGTCGCCATTGTGGCTTCAATCTTTCC
* * * * ** * * * *
34575176 TTCTGTATCTCTAAGTTATAAGATTCATAATTGCAGCTTCAATCTTTCCCTTCACATCTCTAGGG
66 CTCTATATCTCTAAGGTATAAGATTCGTCGTTGCGGCTTCAATCTTT-CCATCACTTTTC-AGGG
34575241 TATAAGG-TTCACCGTTG
129 TAT-AGGATTCACCGTTG
* * * * * *
34575258 -TGATTTCAACCTTTCCCTCCACGTTTCTAGGGTATAAG-GTTCGCCGTTGTGGCTTCAA-CATT
1 CAG-CTTCAATCTTTCCCTCCACATATCTAGGGTATAAGAG-TCGCCATTGTGGCTTCAATC-TT
* * * * * * *
34575320 TCCCTCCATGTCACTAGGGTATAAGGTTCG-CTGTTGCGGCTTCAACCTTTCCCTCCATCTCTTT
63 TCCCTCTATATCTCTAAGGTATAAGATTCGTC-GTTGCGGCTTCAATCTTTCCAT-CA-CT-TTT
* *
34575384 -AGGGTATAAGATTCCCCGTTG
124 CAGGGTATAGGATTCACCGTTG
* *
34575405 CAGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAGAGTCACCATTGTGAGCTTCAATCTTTC
1 CAGCTTCAATCTTTCCCTCCACATATCTAGGGTATAAGAGTCGCCATTGTG-GCTTCAATCTTTC
* *
34575470 CCTCTATATCTCTAAGGTATAAGATTCGTCGTTGCGGCTTTAATCTTTCTCATCACGTTTTCAAG
65 CCTCTATATCTCTAAGGTATAAGATTCGTCGTTGCGGCTTCAATCTTTC-CATCAC-TTTTCAGG
*
34575535 GTGT-GGATTCA
128 GTATAGGATTCA
34575546 ATGTTTCTTC
Statistics
Matches: 223, Mismatches: 49, Indels: 32
0.73 0.16 0.11
Matches are distributed among these distances:
146 7 0.03
147 148 0.66
148 62 0.28
149 6 0.03
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (145 bp):
CAGCTTCAATCTTTCCCTCCACATATCTAGGGTATAAGAGTCGCCATTGTGGCTTCAATCTTTCC
CTCTATATCTCTAAGGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCATCACTTTTCAGGGTA
TAGGATTCACCGTTG
Found at i:34576551 original size:7 final size:7
Alignment explanation
Indices: 34576493--34576552 Score: 54
Period size: 7 Copynumber: 8.7 Consensus size: 7
34576483 TGACCACCCC
34576493 TTTTTCT
1 TTTTTCT
34576500 TTTTT-T
1 TTTTTCT
*
34576506 TCTTTCT
1 TTTTTCT
**
34576513 TCTTCCACT
1 T-TT-TTCT
34576522 TTTTTC-
1 TTTTTCT
34576528 TTTTTCT
1 TTTTTCT
34576535 TTTTTC-
1 TTTTTCT
34576541 TTTTTCT
1 TTTTTCT
34576548 TTTTT
1 TTTTT
34576553 TGGGTGAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
6 17 0.40
7 19 0.45
8 3 0.07
9 3 0.07
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTCT
Found at i:34577478 original size:16 final size:17
Alignment explanation
Indices: 34577452--34577483 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
34577442 CATCTTGACT
34577452 TTTTCTTCTTTTTTCTC
1 TTTTCTTCTTTTTTCTC
34577469 TTTT-TTCTTTTTTCT
1 TTTTCTTCTTTTTTCT
34577484 TTAGGTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTCTTCTTTTTTCTC
Found at i:34577534 original size:72 final size:71
Alignment explanation
Indices: 34577417--34577552 Score: 161
Period size: 72 Copynumber: 1.9 Consensus size: 71
34577407 ATAAATAGAT
* * *
34577417 TTTCAAGATACCCTTTGCGGATTTTCATCTTGACTTTTTCTTCTTTT-TTCTCTTTTTTCTTTTT
1 TTTCAAGATACCCTTTGCGGATTTTCATCTCGACTCTTTCTTCTTTTCTT-T-TTTCTTCTTTTT
34577481 TCTTTAGG
64 TCTTTAGG
* * *
34577489 TTTCAAGATGCCCTTTGCAGGTTTTTTTATCTCGAC-CTTT-TTCTTTTCTTTTTTCTTCTTTTT
1 TTTCAAGATACCCTTTGC-GG-ATTTTCATCTCGACTCTTTCTTCTTTTCTTTTTTCTTCTTTTT
34577552 T
64 T
34577553 TTAACCTCCT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
71 12 0.22
72 25 0.45
73 7 0.13
74 11 0.20
ACGTcount: A:0.10, C:0.20, G:0.10, T:0.60
Consensus pattern (71 bp):
TTTCAAGATACCCTTTGCGGATTTTCATCTCGACTCTTTCTTCTTTTCTTTTTTCTTCTTTTTTC
TTTAGG
Found at i:34580152 original size:103 final size:108
Alignment explanation
Indices: 34580032--34580300 Score: 313
Period size: 109 Copynumber: 2.5 Consensus size: 108
34580022 AATGAATCAA
* * * ** *
34580032 AAAAAATCATGTCCAGTAAGTTAGGGCACAATATTTTCGAA-T-C-T-TCGAAAATAA-A-GAAC
1 AAAAAATCATATCCAGTAAGTTAGAGCACAAT-TTCTCGAATTCCATAAAGAAAAGAACACGAAC
34580091 ATTTATTAATTTAAAATAGGATA-CTCGATTATTTAGGTTCAAAG
65 ATTTATTAATTTAAAATAGGATATCT-GATTATTTAGGTTCAAAG
* * *
34580135 AAAAAATCATATCCAGTATGTTTGAGCACAATTTCTCGAATTCCATAAATAAAAGAACATCGAAC
1 AAAAAATCATATCCAGTAAGTTAGAGCACAATTTCTCGAATTCCATAAAGAAAAGAACA-CGAAC
*
34580200 ATTTATTAATTTTAAATAGGATATCTGATTATTTAGGTTCAAAG
65 ATTTATTAATTTAAAATAGGATATCTGATTATTTAGGTTCAAAG
* * *
34580244 AAAAAATCATA-CCTAGTACGTTTA-AGCACAATTTCTCGAATTCCCTAAATAAAAGAA
1 AAAAAATCATATCC-AGTAAG-TTAGAGCACAATTTCTCGAATTCCATAAAGAAAAGAA
34580301 TATTGCCCCT
Statistics
Matches: 143, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
102 7 0.05
103 29 0.20
104 1 0.01
105 1 0.01
106 6 0.04
107 1 0.01
108 2 0.01
109 92 0.64
110 4 0.03
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (108 bp):
AAAAAATCATATCCAGTAAGTTAGAGCACAATTTCTCGAATTCCATAAAGAAAAGAACACGAACA
TTTATTAATTTAAAATAGGATATCTGATTATTTAGGTTCAAAG
Found at i:34580217 original size:109 final size:109
Alignment explanation
Indices: 34580087--34580300 Score: 360
Period size: 109 Copynumber: 2.0 Consensus size: 109
34580077 CGAAAATAAA
34580087 GAACATTTATTAATTTAAAATAGGATA-CTCGATTATTTAGGTTCAAAGAAAAAATCATATCC-A
1 GAACATTTATTAATTTAAAATAGGATATCT-GATTATTTAGGTTCAAAGAAAAAATCATA-CCTA
* *
34580150 GTATGTTTGAGCACAATTTCTCGAATTCCATAAATAAAAGAACATC
64 GTACGTTTAAGCACAATTTCTCGAATTCCATAAATAAAAGAACATC
*
34580196 GAACATTTATTAATTTTAAATAGGATATCTGATTATTTAGGTTCAAAGAAAAAATCATACCTAGT
1 GAACATTTATTAATTTAAAATAGGATATCTGATTATTTAGGTTCAAAGAAAAAATCATACCTAGT
*
34580261 ACGTTTAAGCACAATTTCTCGAATTCCCTAAATAAAAGAA
66 ACGTTTAAGCACAATTTCTCGAATTCCATAAATAAAAGAA
34580301 TATTGCCCCT
Statistics
Matches: 99, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
108 2 0.02
109 95 0.96
110 2 0.02
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.33
Consensus pattern (109 bp):
GAACATTTATTAATTTAAAATAGGATATCTGATTATTTAGGTTCAAAGAAAAAATCATACCTAGT
ACGTTTAAGCACAATTTCTCGAATTCCATAAATAAAAGAACATC
Found at i:34582712 original size:50 final size:50
Alignment explanation
Indices: 34582598--34582718 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 50
34582588 AATTATTTTC
* * * * *
34582598 AGATTTGATATTTTAAATAAATATTAGTATTTATTTAATTTGTTTTGTTT
1 AGATATGATATTTTAAATAAACATAAATATTTATTTAATTTATTTTGTTT
* * *
34582648 AGATATGGTGTTTTACATAAACATAAATATTTATTT-ATATTATTTTGTTT
1 AGATATGATATTTTAAATAAACATAAATATTTATTTAAT-TTATTTTGTTT
* * *
34582698 AGATCTTATATTTTATATAAA
1 AGATATGATATTTTAAATAAA
34582719 TATTTTATAT
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
49 2 0.04
50 55 0.96
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (50 bp):
AGATATGATATTTTAAATAAACATAAATATTTATTTAATTTATTTTGTTT
Found at i:34582734 original size:13 final size:13
Alignment explanation
Indices: 34582703--34582736 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
34582693 TGTTTAGATC
34582703 TTATATTTTATAT
1 TTATATTTTATAT
**
34582716 AAATATTTTATAT
1 TTATATTTTATAT
34582729 TTATATTT
1 TTATATTT
34582737 GTTCGTTAAC
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTATATTTTATAT
Found at i:34584042 original size:17 final size:17
Alignment explanation
Indices: 34584019--34584075 Score: 89
Period size: 17 Copynumber: 3.4 Consensus size: 17
34584009 ACTAAACCTT
34584019 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
34584037 -TTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
34584053 TTTAAATTTGTTTTAAA
1 TTTAAATTTATTTTAAA
34584070 TTTAAA
1 TTTAAA
34584076 ATTAATAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
16 1 0.03
17 36 0.97
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:34584707 original size:21 final size:21
Alignment explanation
Indices: 34584683--34584729 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
34584673 AAATATATTA
* *
34584683 AATAATTTTATTAATAATAAT
1 AATAATTTTAATAATAAAAAT
34584704 AATAATTTTAATAATAAAAAT
1 AATAATTTTAATAATAAAAAT
34584725 AATAA
1 AATAA
34584730 AAAGTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATAATTTTAATAATAAAAAT
Found at i:34585844 original size:29 final size:30
Alignment explanation
Indices: 34585762--34586134 Score: 222
Period size: 30 Copynumber: 12.7 Consensus size: 30
34585752 AAGGTCCCTG
* * * *
34585762 AACTATCCAAAAATCATATTTTGAC-CCTCA
1 AACTTTCCAAAAATTACATTTTAACACC-CA
* * *
34585792 AACTTTCTAAAAATTACATTTTAATACTCA
1 AACTTTCCAAAAATTACATTTTAACACCCA
*
34585822 AACTTTCCAAAAATTACA-TTTAACCCCCA
1 AACTTTCCAAAAATTACATTTTAACACCCA
*
34585851 AACTTTCCAAAAATTACATTTTGACACCCA
1 AACTTTCCAAAAATTACATTTTAACACCCA
*
34585881 AAC-TTCTCAAAAATTACATTTTGACACCCA
1 AACTTTC-CAAAAATTACATTTTAACACCCA
** * ** *
34585911 AACTTT-TGAAAATTACATTTTGATTCCTA
1 AACTTTCCAAAAATTACATTTTAACACCCA
*
34585940 AAC-TTCTCAAAAATTACATTTTAAC-CCTCG
1 AACTTTC-CAAAAATTACATTTTAACACC-CA
* ** * * *
34585970 AAC-TTCTCAAAAATTCCATTTTTGCTCTCG
1 AACTTTC-CAAAAATTACATTTTAACACCCA
* * *
34586000 AACTTT-CAAAAATTCCATTTTTAC-CCTA
1 AACTTTCCAAAAATTACATTTTAACACCCA
* * * *
34586028 GAAC-TTCCAAAAATCATATTTTTA-ACCCG
1 -AACTTTCCAAAAATTACATTTTAACACCCA
* * * *
34586057 AA--TTCCCAAAATGACATTTTTAC-CCTTAA
1 AACTTTCCAAAAATTACATTTTAACACC--CA
34586086 AACTTTCC-AAAATTACATTTTAAC-CCCA
1 AACTTTCCAAAAATTACATTTTAACACCCA
* * *
34586114 AACTCTCCGAAACTT-CATTTT
1 AACTTTCCAAAAATTACATTTT
34586135 TGACCCCGGT
Statistics
Matches: 278, Mismatches: 47, Indels: 38
0.77 0.13 0.10
Matches are distributed among these distances:
27 19 0.07
28 21 0.08
29 95 0.34
30 133 0.48
31 10 0.04
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (30 bp):
AACTTTCCAAAAATTACATTTTAACACCCA
Found at i:34585863 original size:59 final size:59
Alignment explanation
Indices: 34585769--34586106 Score: 241
Period size: 59 Copynumber: 5.8 Consensus size: 59
34585759 CTGAACTATC
* * * * * *
34585769 CAAAAATCATATTTTGACCCTCAAACTTTCTAAAAATTACATTTTAATACTCAAACTT-T
1 CAAAAATTACATTTTAACCCCCAAACTTTCCAAAAATTACATTTTGATAC-CAAACTTCT
*
34585828 CCAAAAATTACA-TTTAACCCCCAAACTTTCCAAAAATTACATTTTGACACCCAAACTTCT
1 -CAAAAATTACATTTTAACCCCCAAACTTTCCAAAAATTACATTTTGATA-CCAAACTTCT
* * ** *
34585888 CAAAAATTACATTTTGACACCCAAACTTT-TGAAAATTACATTTTGATTCCTAAACTTCT
1 CAAAAATTACATTTTAACCCCCAAACTTTCCAAAAATTACATTTTGATACC-AAACTTCT
* * * * *
34585947 CAAAAATTACATTTTAACCCTCGAAC-TTCTCAAAAATTCCATTTTTGCT-CTCGAACTT-T
1 CAAAAATTACATTTTAACCCCCAAACTTTC-CAAAAATTACA-TTTTGATAC-CAAACTTCT
* * * * * * *
34586006 CAAAAATTCCATTTTTA-CCCTAGAAC-TTCCAAAAATCATATTTTTA-ACCCGAA-TTC-
1 CAAAAATTACATTTTAACCCCCA-AACTTTCCAAAAATTACATTTTGATA-CCAAACTTCT
* * * **
34586062 CCAAAATGACATTTTTACCCTTAAAACTTTCC-AAAATTACATTTT
1 CAAAAATTACATTTTAACCC-CCAAACTTTCCAAAAATTACATTTT
34586107 AACCCCAAAC
Statistics
Matches: 224, Mismatches: 39, Indels: 33
0.76 0.13 0.11
Matches are distributed among these distances:
56 16 0.07
57 24 0.11
58 20 0.09
59 117 0.52
60 40 0.18
61 7 0.03
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.35
Consensus pattern (59 bp):
CAAAAATTACATTTTAACCCCCAAACTTTCCAAAAATTACATTTTGATACCAAACTTCT
Found at i:34585943 original size:89 final size:89
Alignment explanation
Indices: 34585762--34585991 Score: 261
Period size: 89 Copynumber: 2.6 Consensus size: 89
34585752 AAGGTCCCTG
* * * * *
34585762 AACTATCCAAAAATCATATTTTGACCCTCAAACTT-TCTAAAAATTACATTTTAATACTCAAACT
1 AACTTTCCAAAAATTACATTTTGACCCTCAAACTTCTC-AAAAATTACATTTTAACACCCAAACT
34585826 TTCCAAAAATTACATTTAACCCCCA
65 TTCCAAAAATTACATTTAACCCCCA
*
34585851 AACTTTCCAAAAATTACATTTTGACACC-CAAACTTCTCAAAAATTACATTTTGACACCCAAACT
1 AACTTTCCAAAAATTACATTTTGAC-CCTCAAACTTCTCAAAAATTACATTTTAACACCCAAACT
** * ** *
34585915 TT-TGAAAATTACATTTTGATTCCTA
65 TTCCAAAAATTACA-TTTAACCCCCA
* * *
34585940 AAC-TTCTCAAAAATTACATTTTAACCCTCGAACTTCTCAAAAATTCCATTTT
1 AACTTTC-CAAAAATTACATTTTGACCCTCAAACTTCTCAAAAATTACATTTT
34585992 TGCTCTCGAA
Statistics
Matches: 121, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
88 14 0.12
89 103 0.85
90 4 0.03
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (89 bp):
AACTTTCCAAAAATTACATTTTGACCCTCAAACTTCTCAAAAATTACATTTTAACACCCAAACTT
TCCAAAAATTACATTTAACCCCCA
Found at i:34586562 original size:97 final size:97
Alignment explanation
Indices: 34586385--34586678 Score: 462
Period size: 97 Copynumber: 3.0 Consensus size: 97
34586375 TCCAAAATAT
* *
34586385 TTAAAATCGAGGCAATATTCCTTTATTTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGTGC
1 TTAAAA-CGAGGCAATGTTTCTTTATTTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGTGC
*
34586450 GATTTTTCTTTAAACCGAGATAATCGAATACCC
65 GATTTTTCTTCAAACCGAGATAATCGAATACCC
* *
34586483 TTAAAACAAGGCAATGTTTCTTTATTTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGTGCA
1 TTAAAACGAGGCAATGTTTCTTTATTTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGTGCG
*
34586548 ATTTTTCTTCAAACCGGGATAATCGAATACCC
66 ATTTTTCTTCAAACCGAGATAATCGAATACCC
* ** **
34586580 TTAAAACGAGGCAATGTTTCTTTATCTCTAGTTTTGAAAATTTGTGCCTTAACTTACTAGGCACG
1 TTAAAACGAGGCAATGTTTCTTTATTTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGTGCG
* *
34586645 ACTTTTCTTCAAATCGAGATAATCGAATACCC
66 ATTTTTCTTCAAACCGAGATAATCGAATACCC
34586677 TT
1 TT
34586679 TTCCAAGGTT
Statistics
Matches: 180, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
97 174 0.97
98 6 0.03
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (97 bp):
TTAAAACGAGGCAATGTTTCTTTATTTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGTGCG
ATTTTTCTTCAAACCGAGATAATCGAATACCC
Found at i:34589945 original size:8 final size:8
Alignment explanation
Indices: 34589932--34589956 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
34589922 ATCTTTCTTT
34589932 TGCATTCA
1 TGCATTCA
34589940 TGCATTCA
1 TGCATTCA
34589948 TGCATTCA
1 TGCATTCA
34589956 T
1 T
34589957 CTGCATTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (8 bp):
TGCATTCA
Found at i:34594624 original size:44 final size:44
Alignment explanation
Indices: 34594565--34594652 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
34594555 GGGCTATGGT
34594565 GACTTTGTTTCATGACATGATGCATAAGGAGATTGAAGTTTATG
1 GACTTTGTTTCATGACATGATGCATAAGGAGATTGAAGTTTATG
34594609 GACTTTGTTTCATGACATGATGCATAAGGAGATTGAAGTTTATG
1 GACTTTGTTTCATGACATGATGCATAAGGAGATTGAAGTTTATG
34594653 TCGACGACAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36
Consensus pattern (44 bp):
GACTTTGTTTCATGACATGATGCATAAGGAGATTGAAGTTTATG
Found at i:34598732 original size:210 final size:210
Alignment explanation
Indices: 34598183--34599060 Score: 1176
Period size: 210 Copynumber: 4.2 Consensus size: 210
34598173 AACGAGGCGA
* * ** *
34598183 TCATCTTCCTGATGAGATACAGAGAAGTATACCAGCTCAATGAAA-CCAGGCTCAAAGTGAGCAA
1 TCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAAGCAAGGCTCAAAGTGAGCAA
* *
34598247 ATCTTCGAACCCCAGC-TCCTGATGAGATACTAAGAAGCAGGTCGAGGCAATAAAGCGGTTACCT
66 ATCTTCGAACCCCAGCTTCCTGATAAGATACTAAGAAGCAGGTCGAAGCAATAAAGCGGTTACCT
*
34598311 TCCTGATGAGATACAGAGAAGTGAAGCAGATCCGTCTTCCTGATGAGACACAGAGAAGTGGATCA
131 TCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGACACAGAGAAGTGGATCA
34598376 AAACAAGTGATGCGG
196 AAACAAGTGATGCGG
* *
34598391 TCATCTTCCTAATGAG--ACTGAGAAGTAGACCAAATCAATGAAACCAAGGCTCAAAGTGAGCAA
1 TCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAAGCAAGGCTCAAAGTGAGCAA
* * * * *
34598454 ATCTTTGAACCCCAGCTTTCTGATAAGATACTTAGAAGCAGGTTGAAGCTATAAAGCGGTTACCT
66 ATCTTCGAACCCCAGCTTCCTGATAAGATACTAAGAAGCAGGTCGAAGCAATAAAGCGGTTACCT
* *
34598519 TCCTGACGAGATATAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGACACAGAGAAGTGGATCA
131 TCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGACACAGAGAAGTGGATCA
34598584 AAACAAGTGATGCGG
196 AAACAAGTGATGCGG
* * *
34598599 TAATCTTCCTGATGAGATACTGAGAAGTAGACCAATTCAATGAAAGTAAGGCTCAAAGTGAGCAA
1 TCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAAGCAAGGCTCAAAGTGAGCAA
* * * *
34598664 ATCTTCGAACCCTAGCTTCTTGATAAGATACTGAGAAGCAGGTCGAAGCAATAAAGCAGTTACCT
66 ATCTTCGAACCCCAGCTTCCTGATAAGATACTAAGAAGCAGGTCGAAGCAATAAAGCGGTTACCT
* * * *
34598729 TCCTGATGAGATACAAAGAAGTGAACCAGATCCGGCTTCCTGATGAGACATAAAGAAGTGGATCA
131 TCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGACACAGAGAAGTGGATCA
*
34598794 AAACAAGCGATGCGG
196 AAACAAGTGATGCGG
* * * * * *
34598809 TCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAATG-AAGTTAAAGATCAATGTGAGCA
1 TCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAAG-CAAGGCTCAAAGTGAGCA
* * ** * * * * * * ***
34598873 AAACTTTGAACCTTAGCTTCCTGATGAGATACTCAGAAGTAGGTTGAAGCAATAAAACGATCGTC
65 AATCTTCGAACCCCAGCTTCCTGATAAGATACTAAGAAGCAGGTCGAAGCAATAAAGCGGTTACC
* * * *
34598938 TTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTTATGAGATACAGAGAA-CGGATC
130 TTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGACACAGAGAAGTGGATC
*
34599002 AAAACAAG-GAATGCGA
195 AAAACAAGTG-ATGCGG
* * * *
34599018 TCATCTTTCTGATCAGGTATTGAGAAGTAGACCAAATCAATGA
1 TCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGA
34599061 CACCAAACCA
Statistics
Matches: 591, Mismatches: 72, Indels: 12
0.88 0.11 0.02
Matches are distributed among these distances:
206 23 0.04
207 33 0.06
208 149 0.25
209 57 0.10
210 329 0.56
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (210 bp):
TCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAAGCAAGGCTCAAAGTGAGCAA
ATCTTCGAACCCCAGCTTCCTGATAAGATACTAAGAAGCAGGTCGAAGCAATAAAGCGGTTACCT
TCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATGAGACACAGAGAAGTGGATCA
AAACAAGTGATGCGG
Found at i:34599384 original size:17 final size:17
Alignment explanation
Indices: 34599361--34599415 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
34599351 ACTAAACCTT
34599361 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
*
34599379 -TTAAATTTGTTTTAAA
1 TTTAAATTTATTTTAAA
* *
34599395 TTTAAATTAAGTTTAAA
1 TTTAAATTTATTTTAAA
34599412 TTTA
1 TTTA
34599416 CTTTTAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 1 0.03
17 31 0.97
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:34599392 original size:28 final size:29
Alignment explanation
Indices: 34599360--34599434 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 29
34599350 AACTAAACCT
** *
34599360 TTTTAAATTTATTTTAAGATTAAATTT-G
1 TTTTAAATTTAAATTAAGATTAAATTTAC
*
34599388 TTTTAAATTTAAATTAAGTTTAAATTTAC
1 TTTTAAATTTAAATTAAGATTAAATTTAC
34599417 TTTTAAATTTAAAATTAA
1 TTTTAAATTT-AAATTAA
34599435 TAAAAGTACA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 24 0.59
29 10 0.24
30 7 0.17
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (29 bp):
TTTTAAATTTAAATTAAGATTAAATTTAC
Found at i:34600075 original size:21 final size:21
Alignment explanation
Indices: 34600051--34600097 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
34600041 AAATATATTA
* *
34600051 AATAATTTTATTAATAATAAT
1 AATAATTTTAATAATAAAAAT
34600072 AATAATTTTAATAATAAAAAT
1 AATAATTTTAATAATAAAAAT
34600093 AATAA
1 AATAA
34600098 AAAGTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATAATTTTAATAATAAAAAT
Found at i:34601142 original size:30 final size:29
Alignment explanation
Indices: 34601108--34601320 Score: 152
Period size: 30 Copynumber: 7.3 Consensus size: 29
34601098 CCCAGAAGGT
*
34601108 CCCTAAACTATCCAAAAATTACATTTTAAC
1 CCCTAAACT-TCCAAAAATTACATTTTTAC
*
34601138 CCCTAAACTTTCCAAAAATTACATTTTGA-
1 CCCTAAAC-TTCCAAAAATTACATTTTTAC
34601167 CCCTCAAACTTCTCAAAAATT-CTATTTTTA-
1 CCCT-AAACTTC-CAAAAATTAC-ATTTTTAC
* * * *
34601197 CCCTCGAACTTCTAAAAATTCCATTTTTGC
1 CCCT-AAACTTCCAAAAATTACATTTTTAC
* * ** *
34601227 CCCTGAACTTCCAGAAACCATATTTTTAC
1 CCCTAAACTTCCAAAAATTACATTTTTAC
* *
34601256 CCC-AAA-TTCCTAAAATGACATTTTTAC
1 CCCTAAACTTCCAAAAATTACATTTTTAC
* * * *
34601283 GCTTAAAACTTTCC-AAAATTGCATTTTAAC
1 CCCT-AAAC-TTCCAAAAATTACATTTTTAC
34601313 CCC-AAACT
1 CCCTAAACT
34601321 CTTTAAAACT
Statistics
Matches: 148, Mismatches: 25, Indels: 23
0.76 0.13 0.12
Matches are distributed among these distances:
27 18 0.12
28 6 0.04
29 45 0.30
30 74 0.50
31 5 0.03
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (29 bp):
CCCTAAACTTCCAAAAATTACATTTTTAC
Found at i:34603056 original size:14 final size:13
Alignment explanation
Indices: 34603023--34603085 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 13
34603013 TTTTAATGGA
34603023 TATTTGTTTTTTTCT
1 TATTTG-TTTTTT-T
*
34603038 CTATTTATTTTATTT
1 -TATTTGTTTT-TTT
34603053 TATTTGTTTTGTTT
1 TATTTGTTTT-TTT
*
34603067 TGTTTGGTTTTTTT
1 TATTT-GTTTTTTT
34603081 TATTT
1 TATTT
34603086 TGTTGTTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
14 23 0.57
15 10 0.25
16 7 0.17
ACGTcount: A:0.10, C:0.03, G:0.10, T:0.78
Consensus pattern (13 bp):
TATTTGTTTTTTT
Found at i:34603094 original size:14 final size:14
Alignment explanation
Indices: 34603025--34603094 Score: 52
Period size: 14 Copynumber: 4.7 Consensus size: 14
34603015 TTAATGGATA
*
34603025 TTTGTTTTTTTCTCT
1 TTTGTTTTTTT-TAT
*
34603040 ATTTATTTTATTTTA-
1 -TTTGTTTT-TTTTAT
*
34603055 TTTGTTTTGTTTTGT
1 TTTGTTTT-TTTTAT
*
34603070 TTGGTTTTTTTTAT
1 TTTGTTTTTTTTAT
34603084 TTTGTTGTTTT
1 TTTGTT-TTTT
34603095 AAGCCTAGAC
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
14 21 0.49
15 11 0.26
16 8 0.19
17 3 0.07
ACGTcount: A:0.07, C:0.03, G:0.11, T:0.79
Consensus pattern (14 bp):
TTTGTTTTTTTTAT
Found at i:34603570 original size:46 final size:43
Alignment explanation
Indices: 34603520--34603746 Score: 152
Period size: 46 Copynumber: 5.3 Consensus size: 43
34603510 TGAGATGGTA
* *
34603520 GCTTCAATCTGCCCCTCTTGATTTACCGGTAAAAGATTGGATAGT
1 GCTTCAATCTGCCCCTCTTGACTTA-GGGTAAAAGATTGGAT-GT
* *
34603565 AGCTTCAATCTGTCCCTCTTGACTTAAGGGTAAAAGATTAGATGGT
1 -GCTTCAATCTGCCCCTCTTGACTT-AGGGTAAAAGATTGGAT-GT
* *
34603611 GTCTTCAATATG-CCCTC-T-AGTTAGGGTAAAAGATTGGATG-
1 G-CTTCAATCTGCCCCTCTTGACTTAGGGTAAAAGATTGGATGT
* * * * * *
34603651 GCTTCAATCTG-CCTTATGGTC-GA-GGTAAGAGATTGGATGGT
1 GCTTCAATCTGCCCCTCTTGACTTAGGGTAAAAGATTGGAT-GT
* ** *
34603692 GTCTTCAATCTG-CCC-CATGA-TCGGGGTAAGAGATTGGATG-
1 G-CTTCAATCTGCCCCTCTTGACTTAGGGTAAAAGATTGGATGT
*
34603732 GCTTCAGTCTGCCCC
1 GCTTCAATCTGCCCC
34603747 ATGGTCAGGA
Statistics
Matches: 147, Mismatches: 24, Indels: 26
0.75 0.12 0.13
Matches are distributed among these distances:
39 35 0.24
40 7 0.05
41 4 0.03
42 43 0.29
43 3 0.02
44 1 0.01
45 6 0.04
46 47 0.32
47 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (43 bp):
GCTTCAATCTGCCCCTCTTGACTTAGGGTAAAAGATTGGATGT
Found at i:34603651 original size:42 final size:41
Alignment explanation
Indices: 34603513--34603706 Score: 153
Period size: 46 Copynumber: 4.5 Consensus size: 41
34603503 GCTTCTGTGA
* *
34603513 GATGGTAGCTTCAATCTGCCCCTCTTGATTTACCGGTAAAAGATTG
1 GATGGT-GCTTCAATCTG-CCCTC-T-AGTTA-GGGTAAAAGATTG
* * *
34603559 GATAGTAGCTTCAATCTGTCCCTCTTGACTTAAGGGTAAAAGATTA
1 GATGGT-GCTTCAATCTG-CCCTC-T-AGTT-AGGGTAAAAGATTG
*
34603605 GATGGTGTCTTCAATATGCCCTCTAGTTAGGGTAAAAGATTG
1 GATGGTG-CTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTG
* * *
34603647 GAT-G-GCTTCAATCTG-CCT-TATGGTCGAGGTAAGAGATTG
1 GATGGTGCTTCAATCTGCCCTCTA-GTTAG-GGTAAAAGATTG
34603686 GATGGTGTCTTCAATCTGCCC
1 GATGGTG-CTTCAATCTGCCC
34603707 CATGATCGGG
Statistics
Matches: 127, Mismatches: 13, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
37 2 0.02
38 6 0.05
39 23 0.18
40 2 0.02
41 2 0.02
42 26 0.20
43 5 0.04
44 1 0.01
45 6 0.05
46 53 0.42
47 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (41 bp):
GATGGTGCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTG
Found at i:34603678 original size:39 final size:39
Alignment explanation
Indices: 34603635--34603933 Score: 296
Period size: 39 Copynumber: 7.4 Consensus size: 39
34603625 CTCTAGTTAG
* **
34603635 GGTAAAAGATTGGATGGCTTCAATCTGCCTTATGGTCGA
1 GGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGA
* *
34603674 GGTAAGAGATTGGATGGTGTCTTCAATCTGCCCCATGATCGG
1 GGTAAGAGATTGGAT-G-G-CTTCAATCTGCCCCATGGTCGA
*
34603716 GGTAAGAGATTGGATGGCTTCAGTCTGCCCCATGGTC-A
1 GGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGA
* ** *
34603754 GGATAAGAGATTGGATAATGTCTTCAATCTGTACCATGATCGA
1 GG-TAAGAGATTGG---ATGGCTTCAATCTGCCCCATGGTCGA
* * *
34603797 GGTAAGAGATTGGATGACTTCAATCTACCCCATGGT-TA
1 GGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGA
* * * * *
34603835 GGGTAAGAGATTGAAATGATGTCTTTAATCTACCCCATGATCGG
1 -GGTAAGAGATTG----GATGGCTTCAATCTGCCCCATGGTCGA
*
34603879 GGTAAGAGATTGGATGGTTTCAATCTGCCCCATGGTCGA
1 GGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGA
*
34603918 GGTAAGAGATTAGATG
1 GGTAAGAGATTGGATG
34603934 ATGATGTAAC
Statistics
Matches: 215, Mismatches: 31, Indels: 28
0.78 0.11 0.10
Matches are distributed among these distances:
38 3 0.01
39 109 0.51
40 2 0.01
41 2 0.01
42 63 0.29
43 36 0.17
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (39 bp):
GGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGA
Found at i:34603706 original size:81 final size:81
Alignment explanation
Indices: 34603634--34603936 Score: 412
Period size: 81 Copynumber: 3.7 Consensus size: 81
34603624 CCTCTAGTTA
* ** *
34603634 GGGTAAAAGATTGGATGGCTTCAATCTGCCTTATGGTCGAGGTAAGAGATTGGATGGTGTCTTCA
1 GGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGAGGTAAGAGATTGGATGATGTCTTCA
34603699 ATCTGCCCCATGATCG
66 ATCTGCCCCATGATCG
* *
34603715 GGGTAAGAGATTGGATGGCTTCAGTCTGCCCCATGGTC-AGGATAAGAGATTGGATAATGTCTTC
1 GGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGAGG-TAAGAGATTGGATGATGTCTTC
**
34603779 AATCTGTACCATGATCG
65 AATCTGCCCCATGATCG
* * * * *
34603796 AGGTAAGAGATTGGATGACTTCAATCTACCCCATGGT-TAGGGTAAGAGATTGAAATGATGTCTT
1 GGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGA-GGTAAGAGATTG-GATGATGTCTT
* *
34603860 TAATCTACCCCATGATCG
64 CAATCTGCCCCATGATCG
* *
34603878 GGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGGTCGAGGTAAGAGATTAGATGATG
1 GGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGAGGTAAGAGATTGGATGATG
34603937 ATGTAACTTC
Statistics
Matches: 192, Mismatches: 25, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
80 3 0.02
81 119 0.62
82 69 0.36
83 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGAGGTAAGAGATTGGATGATGTCTTCA
ATCTGCCCCATGATCG
Found at i:34603913 original size:163 final size:162
Alignment explanation
Indices: 34603635--34603928 Score: 439
Period size: 163 Copynumber: 1.8 Consensus size: 162
34603625 CTCTAGTTAG
* * ** * * *
34603635 GGTAAAAGATTGGATGGCTTCAATCTGCCTTATGGTCGAGGTAAGAGATTGGATGGTGTCTTCAA
1 GGTAAAAGATTGGATGACTTCAATCTACCCCATGGTAGAGGTAAGAGATTGAATGATGTCTTCAA
* *
34603700 TCTGCCCCATGATCGGGGTAAGAGATTGGATGGCTTCAGTCTGCCCCATGGTC-AGGATAAGAGA
66 TCTACCCCATGATCGGGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGAGG-TAAGAGA
34603764 TTGGATAATGTCTTCAATCTGTACCATGATCGA
130 TTGGATAATGTCTTCAATCTGTACCATGATCGA
* *
34603797 GGTAAGAGATTGGATGACTTCAATCTACCCCATGGTTAG-GGTAAGAGATTGAAATGATGTCTTT
1 GGTAAAAGATTGGATGACTTCAATCTACCCCATGG-TAGAGGTAAGAGATTG-AATGATGTCTTC
*
34603861 AATCTACCCCATGATCGGGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGGTCGAGGTAAGAG
64 AATCTACCCCATGATCGGGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGAGGTAAGAG
34603926 ATT
129 ATT
34603929 AGATGATGAT
Statistics
Matches: 117, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
162 42 0.36
163 72 0.62
164 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (162 bp):
GGTAAAAGATTGGATGACTTCAATCTACCCCATGGTAGAGGTAAGAGATTGAATGATGTCTTCAA
TCTACCCCATGATCGGGGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTCGAGGTAAGAGAT
TGGATAATGTCTTCAATCTGTACCATGATCGA
Found at i:34604337 original size:49 final size:49
Alignment explanation
Indices: 34604293--34604973 Score: 560
Period size: 49 Copynumber: 13.9 Consensus size: 49
34604283 TCATCTTCAA
** *
34604293 GGTATAAGATTCACCGTTGTGGCTTCAATCTTTCCCTTCACATCTCTAG
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAG
* * * * * * *
34604342 TGTATAAGGTTTGCCGTTGTGGCTTCAACCTTTCCC-TCAACATCTTTAG
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTC-ACATCTCTAG
* * * * *
34604391 GGCATAAGATTCATCGTTGCAGCCTCAATCTTTCCCTTCACATTTCTAG
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAG
* * ** * *
34604440 GGCATGAGATTTATTGTTGCGACTTCAATCTTTCCCTTCACATCTCTAG
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAG
* * * ** **
34604489 GGTATAAGGTTCGTTGTTGCGGCTTTACCCTTTCCCTTCATGTCTCTAG
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAG
* * * * *
34604538 GGTATAAGATTTGTCGTTACGGTTTCAATCTTTCCC-TCTGCATCTTTAG
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTC-ACATCTCTAG
* * * * * *
34604587 GGTACAAGATTCGTCATTGAGACTTCAATCTTTCCC-TCTATATCTCTAA
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTC-ACATCTCTAG
* * *
34604636 GGTATAAGATTCGTCATTGCAGCTTCAATCTTTCCCTTCAGATCTCTAG
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAG
* * * * * **
34604685 GGTATAAGGTTCTTCGTTGCGGTTTCAACCTTTCCCTCCATGTCTCTAG
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAG
* * * * * *
34604734 GGTATAAGGTTCGCCGTTGTGGCTTCAACCTTTCCCTCCACGTCTCTAG
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAG
* ** * * * * * * ** *
34604783 GGTATAAGGTTCACCATTACTGCTTCTACCTTTCCCTCCATGTCTCCAG
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAG
* * *
34604832 GGTATAAGATTCGCCGTTGCGACTTCAATCTTTCCCTCCACATCTCTAG
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAG
* * * * * * *
34604881 TGTACAAGATTCGCCATTGTGAGCTTCAATCTTTCCC-TCTAAATCTCTAA
1 GGTATAAGATTCGTCGTTGCG-GCTTCAATCTTTCCCTTC-ACATCTCTAG
* * * *
34604931 GGTATAAGATTCGTCATTGTGGCTTCAATCTTTCTCATCACAT
1 GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACAT
34604974 TTTCAAGGTA
Statistics
Matches: 514, Mismatches: 111, Indels: 14
0.80 0.17 0.02
Matches are distributed among these distances:
48 4 0.01
49 464 0.90
50 46 0.09
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (49 bp):
GGTATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAG
Found at i:34605609 original size:108 final size:108
Alignment explanation
Indices: 34605417--34605613 Score: 304
Period size: 108 Copynumber: 1.8 Consensus size: 108
34605407 TATTGTTAGA
* * * *
34605417 CCACTAATCGCTATTTCGATGCAAAAATTCTTGAATAAGGTCGCAAGGTGGATAAAATTAAATTT
1 CCACTAACCGCTATTTCGATGCAAAAATGCTTGAATAAGGTCGCAAGGCGGATAAAAGTAAATTT
34605482 TATTGGAGGCAAAGCTCGTATGAAAAGATTAAAAATCATTGGT
66 TATTGGAGGCAAAGCTCGTATGAAAAGATTAAAAATCATTGGT
* * * * *
34605525 CCACTAACCGTTATTTTGATGTAAAAATGCTTGAATAGGGTCGCAAGGCGGATAAAAGTGAATTT
1 CCACTAACCGCTATTTCGATGCAAAAATGCTTGAATAAGGTCGCAAGGCGGATAAAAGTAAATTT
*
34605590 TATTGGAGGCAAAGTTCGTATGAA
66 TATTGGAGGCAAAGCTCGTATGAA
34605614 TAAAAAGATT
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
108 79 1.00
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (108 bp):
CCACTAACCGCTATTTCGATGCAAAAATGCTTGAATAAGGTCGCAAGGCGGATAAAAGTAAATTT
TATTGGAGGCAAAGCTCGTATGAAAAGATTAAAAATCATTGGT
Found at i:34605946 original size:7 final size:7
Alignment explanation
Indices: 34605934--34605968 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
34605924 CCTCGACCAC
34605934 TCTTTTT
1 TCTTTTT
34605941 TCTTTTT
1 TCTTTTT
*
34605948 TTTTTTT
1 TCTTTTT
34605955 TC-TTTT
1 TCTTTTT
34605961 TCTTTTT
1 TCTTTTT
34605968 T
1 T
34605969 TGGGTGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TCTTTTT
Found at i:34605955 original size:14 final size:15
Alignment explanation
Indices: 34605936--34605969 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
34605926 TCGACCACTC
34605936 TTTTTTCTTTTT-TT
1 TTTTTTCTTTTTCTT
34605950 TTTTTTCTTTTTCTT
1 TTTTTTCTTTTTCTT
34605965 TTTTT
1 TTTTT
34605970 GGGTGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (15 bp):
TTTTTTCTTTTTCTT
Found at i:34606965 original size:13 final size:14
Alignment explanation
Indices: 34606942--34606978 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
34606932 TATCTCGACC
*
34606942 CTTTCTCTTTTCTT
1 CTTTCTTTTTTCTT
34606956 -TTTCTTTTTTCTT
1 CTTTCTTTTTTCTT
34606969 CTTT-TTTTTT
1 CTTTCTTTTTT
34606979 TTGACCTCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 18 0.86
14 3 0.14
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
CTTTCTTTTTTCTT
Found at i:34606972 original size:16 final size:15
Alignment explanation
Indices: 34606951--34606980 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
34606941 CCTTTCTCTT
34606951 TTCTTTTTCTTTTTTC
1 TTCTTTTT-TTTTTTC
34606967 TTCTTTTTTTTTTT
1 TTCTTTTTTTTTTT
34606981 GACCTCCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (15 bp):
TTCTTTTTTTTTTTC
Found at i:34610045 original size:109 final size:109
Alignment explanation
Indices: 34609915--34610130 Score: 371
Period size: 109 Copynumber: 2.0 Consensus size: 109
34609905 GAAAATAAAC
34609915 AACATTTATTGATTTAAAATAGGATACTCAATTATTTAGGTTCAAAGAAAAAATCATACCCAGTA
1 AACATTTATTGATTTAAAATAGGATACTCAATTATTTAGGTTCAAAGAAAAAATCATACCCAGTA
* * *
34609980 TGTTTGAGCACAATTTTTCGAATTCCCTAAATAAAAGAACATCG
66 CGTTTGAGCACAATTTCTCCAATTCCCTAAATAAAAGAACATCG
* *
34610024 AACATTTATT-ACTTTTAAATAGGATACTCGATTATTTAGGTTCAAAGAAAAAATCATACCCAGT
1 AACATTTATTGA-TTTAAAATAGGATACTCAATTATTTAGGTTCAAAGAAAAAATCATACCCAGT
34610088 ACGTTTGAGCACAATTTCTCCAATTCCCTAAATAAAAGAACAT
65 ACGTTTGAGCACAATTTCTCCAATTCCCTAAATAAAAGAACAT
34610131 TACCCCTTTT
Statistics
Matches: 101, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
108 1 0.01
109 100 0.99
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (109 bp):
AACATTTATTGATTTAAAATAGGATACTCAATTATTTAGGTTCAAAGAAAAAATCATACCCAGTA
CGTTTGAGCACAATTTCTCCAATTCCCTAAATAAAAGAACATCG
Found at i:34610451 original size:25 final size:25
Alignment explanation
Indices: 34610389--34610453 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 25
34610379 GTTTTAAAAG
* * *
34610389 AAACAAAAATAAAAGGGGTAATTTC
1 AAACAAAAAAAAAAGAGGTAATTAC
* **
34610414 AAAAAAAATAAAAAAGATTTAATTAC
1 AAACAAAA-AAAAAAGAGGTAATTAC
34610440 AAACAAAAAAAAAA
1 AAACAAAAAAAAAA
34610454 CAAAGTAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
25 13 0.41
26 19 0.59
ACGTcount: A:0.69, C:0.06, G:0.08, T:0.17
Consensus pattern (25 bp):
AAACAAAAAAAAAAGAGGTAATTAC
Found at i:34613751 original size:109 final size:109
Alignment explanation
Indices: 34613621--34613836 Score: 371
Period size: 109 Copynumber: 2.0 Consensus size: 109
34613611 GAAAATAAAC
34613621 AACATTTATTGATTTAAAATAGGATACTCAATTATTTAGGTTCAAAGAAAAAATCATACCCAGTA
1 AACATTTATTGATTTAAAATAGGATACTCAATTATTTAGGTTCAAAGAAAAAATCATACCCAGTA
* * *
34613686 TGTTTGAGCACAATTTTTCGAATTCCCTAAATAAAAGAACATCG
66 CGTTTGAGCACAATTTCTCCAATTCCCTAAATAAAAGAACATCG
* *
34613730 AACATTTATT-ACTTTTAAATAGGATACTCGATTATTTAGGTTCAAAGAAAAAATCATACCCAGT
1 AACATTTATTGA-TTTAAAATAGGATACTCAATTATTTAGGTTCAAAGAAAAAATCATACCCAGT
34613794 ACGTTTGAGCACAATTTCTCCAATTCCCTAAATAAAAGAACAT
65 ACGTTTGAGCACAATTTCTCCAATTCCCTAAATAAAAGAACAT
34613837 TACCCCTTTT
Statistics
Matches: 101, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
108 1 0.01
109 100 0.99
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (109 bp):
AACATTTATTGATTTAAAATAGGATACTCAATTATTTAGGTTCAAAGAAAAAATCATACCCAGTA
CGTTTGAGCACAATTTCTCCAATTCCCTAAATAAAAGAACATCG
Found at i:34614157 original size:25 final size:25
Alignment explanation
Indices: 34614095--34614159 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 25
34614085 GTTTTAAAAG
* * *
34614095 AAACAAAAATAAAAGGGGTAATTTC
1 AAACAAAAAAAAAAGAGGTAATTAC
* **
34614120 AAAAAAAATAAAAAAGATTTAATTAC
1 AAACAAAA-AAAAAAGAGGTAATTAC
34614146 AAACAAAAAAAAAA
1 AAACAAAAAAAAAA
34614160 CAAAGTAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
25 13 0.41
26 19 0.59
ACGTcount: A:0.69, C:0.06, G:0.08, T:0.17
Consensus pattern (25 bp):
AAACAAAAAAAAAAGAGGTAATTAC
Found at i:34618511 original size:5 final size:5
Alignment explanation
Indices: 34618501--34618557 Score: 53
Period size: 5 Copynumber: 11.6 Consensus size: 5
34618491 TTTTGCTCTA
* * ** * *
34618501 TTTAT TTTAT TTTAT TTTA- TTTGT TTTGT TTGGT TTTGT TTTAT TTTGT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
34618550 TTTAT TTT
1 TTTAT TTT
34618558 GAGCCCGGAC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
4 3 0.07
5 42 0.93
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:34618516 original size:10 final size:10
Alignment explanation
Indices: 34618501--34618558 Score: 64
Period size: 10 Copynumber: 5.9 Consensus size: 10
34618491 TTTTGCTCTA
*
34618501 TTTATTTTAT
1 TTTATTTTGT
*
34618511 TTTATTTT-A
1 TTTATTTTGT
*
34618520 TTTGTTTTGT
1 TTTATTTTGT
**
34618530 TTGGTTTTGT
1 TTTATTTTGT
34618540 TTTATTTTGT
1 TTTATTTTGT
34618550 TTTATTTTG
1 TTTATTTTG
34618559 AGCCCGGACA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
9 7 0.17
10 34 0.83
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.78
Consensus pattern (10 bp):
TTTATTTTGT
Found at i:34619063 original size:46 final size:44
Alignment explanation
Indices: 34618985--34619093 Score: 121
Period size: 46 Copynumber: 2.4 Consensus size: 44
34618975 TGAGATGGTG
* * *
34618985 GCTTCAATCTGCCCCTCTTGATTTAGCTGTAAAAGATTGGATAGT
1 GCTTCAATCTG-CCCTCTTGATTGAGCGGTAAAAGATTAGATAGT
*
34619030 AGCTTCAATCTGTCCCTCTTGACTTGAG-GGTAAAAGATTAGATGGT
1 -GCTTCAATCTG-CCCTCTTGA-TTGAGCGGTAAAAGATTAGATAGT
*
34619076 GTCTTCAATATGCCCTCT
1 G-CTTCAATCTGCCCTCT
34619094 AGTTAAGGTA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
45 7 0.13
46 44 0.80
47 4 0.07
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (44 bp):
GCTTCAATCTGCCCTCTTGATTGAGCGGTAAAAGATTAGATAGT
Found at i:34619222 original size:39 final size:39
Alignment explanation
Indices: 34619100--34619316 Score: 159
Period size: 39 Copynumber: 5.4 Consensus size: 39
34619090 CTCTAGTTAA
* * *
34619100 GGTAA-AGATTGGATGGCTTCAATCTGCCTCATAGTCGG
1 GGTAAGAGATTGGATGGGTTCAATCTGCCTCATGGTCAG
* * *
34619138 GGTAAGAGATTGGATGGTGTCTTCAATCTGCCCCATGATCGG
1 GGTAAGAGATTGGATGG-G--TTCAATCTGCCTCATGGTCAG
* *
34619180 GGTAAGAGATTGGATGGGTTCATTCTGCCTCATGGTTAG
1 GGTAAGAGATTGGATGGGTTCAATCTGCCTCATGGTCAG
** * * * * ** *
34619219 GGTAAGAGATTGAAATGATGTCTTTAATTTACCCCATAATCGG
1 GGTAAGAGATTG----GATGGGTTCAATCTGCCTCATGGTCAG
* * *
34619262 GGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGT-TG
1 GGTAAGAGATTGGATGGGTTCAATCTGCCTCATGGTCAG
*
34619300 AGGTAAGAGATTAGATG
1 -GGTAAGAGATTGGATG
34619317 ATGATGTAAC
Statistics
Matches: 142, Mismatches: 28, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
38 6 0.04
39 72 0.51
41 1 0.01
42 35 0.25
43 28 0.20
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.30
Consensus pattern (39 bp):
GGTAAGAGATTGGATGGGTTCAATCTGCCTCATGGTCAG
Found at i:34619277 original size:82 final size:81
Alignment explanation
Indices: 34619100--34619319 Score: 293
Period size: 82 Copynumber: 2.7 Consensus size: 81
34619090 CTCTAGTTAA
* * *
34619100 GGTAA-AGATTGGATGGCTTCAATCTGCCTCATAGTCGGGGTAAGAGATTG-GATGGTGTCTTCA
1 GGTAAGAGATTGGATGGCTTCAATCTGCCTCATGGT-TGGGTAAGAGATTGAGATGATGTCTTCA
* *
34619163 ATCTGCCCCATGATCGG
65 ATCTACCCCATAATCGG
* * * *
34619180 GGTAAGAGATTGGATGGGTTCATTCTGCCTCATGGTTAGGGTAAGAGATTGAAATGATGTCTTTA
1 GGTAAGAGATTGGATGGCTTCAATCTGCCTCATGGTT-GGGTAAGAGATTGAGATGATGTCTTCA
*
34619245 ATTTACCCCATAATCGG
65 ATCTACCCCATAATCGG
*
34619262 GGTAAGAGATTGGATGGCTTCAATCTGCCCCATGGTTGAGGTAAGAGATT-AGATGATG
1 GGTAAGAGATTGGATGGCTTCAATCTGCCTCATGGTTG-GGTAAGAGATTGAGATGATG
34619320 ATGTAACTTC
Statistics
Matches: 122, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
80 5 0.04
81 48 0.39
82 69 0.57
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (81 bp):
GGTAAGAGATTGGATGGCTTCAATCTGCCTCATGGTTGGGTAAGAGATTGAGATGATGTCTTCAA
TCTACCCCATAATCGG
Found at i:34619699 original size:49 final size:47
Alignment explanation
Indices: 34619667--34620346 Score: 376
Period size: 49 Copynumber: 13.9 Consensus size: 47
34619657 TGCTTCTCCT
* *
34619667 CATCTTTAGGGTATAAGATTCGTTGTTGCGGCTTCAATATTTCCCTTC
1 CATCTTTAAGGTATAAGATTCGTTGTTGCGGCTTCAATCTTTCCC-TC
* * * *
34619715 ACATCTCTAAGGTATAAGGTTCGCTGTTGCGGCTTCAATGTTTCCCTCC
1 -CATCTTTAAGGTATAAGATTCGTTGTTGCGGCTTCAATCTTTCCCT-C
* * * *
34619764 ACATCTTTAAGGCATGAGATTCGTTGTTGCAGCTTCAATCTTTCTCTTC
1 -CATCTTTAAGGTATAAGATTCGTTGTTGCGGCTTCAATCTTTC-CCTC
* * * *
34619813 ACATCTTT-AGGGATGAGATTTGTTGTTGCGACTTCAATCTTTCCCTTC
1 -CATCTTTAAGGTATAAGATTCGTTGTTGCGGCTTCAATCTTTCCC-TC
* * * ** *
34619861 ACATCTCTAATGTATAAGGTTCGTTGTTGCGGCTTTGACCTTTCCCTC
1 -CATCTTTAAGGTATAAGATTCGTTGTTGCGGCTTCAATCTTTCCCTC
* * * *
34619909 CACGTCTTTAGGGTATAAGATTTGTTGTTACAGCTTCAATCTTTCCCTC
1 CA--TCTTTAAGGTATAAGATTCGTTGTTGCGGCTTCAATCTTTCCCTC
* * * ** *
34619958 AGCATATTTAGGGTACAAGATTCGTCATTGCGACTTCAATCTTTCCCTC
1 --CATCTTTAAGGTATAAGATTCGTTGTTGCGGCTTCAATCTTTCCCTC
* * * ** **
34620007 TGTATCTCTAAGTTATAAGATTCGTCATTGTAGCTTCAATCTTTCCCTTC
1 --CATCTTTAAGGTATAAGATTCGTTGTTGCGGCTTCAATCTTTCCC-TC
* * ** *** *
34620057 ACATCTCTAGGGTATAACG-TTCGCCGTTGCAATTTCAACCTTTCCCTC
1 -CATCTTTAAGGTATAA-GATTCGTTGTTGCGGCTTCAATCTTTCCCTC
* * * * ** * *
34620105 CACGTCTCTAGGGTATAAGGTTTGCCGTTGTGGCTTCAACCTTTCCCTC
1 CA--TCTTTAAGGTATAAGATTCGTTGTTGCGGCTTCAATCTTTCCCTC
* * * *
34620154 CATGTCTCTAGGGTATAA-AGTTCGCTGTTGCGGCTTCAACCTTTCCCTC
1 CA--TCTTTAAGGTATAAGA-TTCGTTGTTGCGGCTTCAATCTTTCCCTC
* * **** *
34620203 TATCTCTCTAGGGTATAAGATTCACCATTGCAGCTTCAATCTTTCCCTCC
1 CATCT-T-TAAGGTATAAGATTCGTTGTTGCGGCTTCAATCTTTCCCT-C
* * * * **** *
34620253 ACATCTCTAGGGTACAAGAGTCACCATTGTGAGCTTCAATCTTTCCCTC
1 -CATCTTTAAGGTATAAGATTCGTTGTTGCG-GCTTCAATCTTTCCCTC
* * * * *
34620302 TATATCTCTAAGGTATAAGATTCGTCGTTGCGGTTTTAATCTTTC
1 --CATCTTTAAGGTATAAGATTCGTTGTTGCGGCTTCAATCTTTC
34620347 TCATCATGTT
Statistics
Matches: 511, Mismatches: 99, Indels: 42
0.78 0.15 0.06
Matches are distributed among these distances:
47 8 0.02
48 46 0.09
49 405 0.79
50 46 0.09
51 6 0.01
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (47 bp):
CATCTTTAAGGTATAAGATTCGTTGTTGCGGCTTCAATCTTTCCCTC
Found at i:34619815 original size:98 final size:98
Alignment explanation
Indices: 34619662--34620325 Score: 493
Period size: 98 Copynumber: 6.8 Consensus size: 98
34619652 TAATCTGCTT
* * **
34619662 CTCCTCATCTTTAGGGTATAAGATTCGTTGTTGCGGCTTCAATATTTCCCTTCACATCTCTAAGG
1 CTCCACATCTCTAGGGTATAAGATTCGTTGTTGCGGCTTCAACCTTTCCCTTCACATCTCTAAGG
* * *
34619727 TATAAGGTTCGCTGTTGCGGCTTCAATGTTTCC
66 TATAAGATTCGCTGTTGCAGCTTCAATCTTTCC
* * * * * * * *
34619760 CTCCACATCTTTAAGGCATGAGATTCGTTGTTGCAGCTTCAATCTTTCTCTTCACATCT-TTAGG
1 CTCCACATCTCTAGGGTATAAGATTCGTTGTTGCGGCTTCAACCTTTCCCTTCACATCTCTAAGG
* * * *
34619824 GATGAGATTTGTTGTTGC-GACTTCAATCTTTCC
66 TATAAGATTCGCTGTTGCAG-CTTCAATCTTTCC
* ** * ** * * * *
34619857 CTTCACATCTCTAATGTATAAGGTTCGTTGTTGCGGCTTTGACCTTTCCCTCCACGTCTTTAGGG
1 CTCCACATCTCTAGGGTATAAGATTCGTTGTTGCGGCTTCAACCTTTCCCTTCACATCTCTAAGG
* * *
34619922 TATAAGATTTGTTGTTACAGCTTCAATCTTTCC
66 TATAAGATTCGCTGTTGCAGCTTCAATCTTTCC
* * * ** * * **
34619955 CT-CAGCATATTTAGGGTACAAGATTCGTCATTGCGACTTCAATCTTTCCC-TCTGTATCTCTAA
1 CTCCA-CATCTCTAGGGTATAAGATTCGTTGTTGCGGCTTCAACCTTTCCCTTC-ACATCTCTAA
* * *
34620018 GTTATAAGATTCG-TCATTGTAGCTTCAATCTTTCC
64 GGTATAAGATTCGCT-GTTGCAGCTTCAATCTTTCC
* ** *** * * *
34620053 CTTCACATCTCTAGGGTATAACG-TTCGCCGTTGCAATTTCAACCTTTCCCTCCACGTCTCTAGG
1 CTCCACATCTCTAGGGTATAA-GATTCGTTGTTGCGGCTTCAACCTTTCCCTTCACATCTCTAAG
* * * ** *
34620117 GTATAAGGTTTGCCGTTGTGGCTTCAACCTTTCC
65 GTATAAGATTCGCTGTTGCAGCTTCAATCTTTCC
** *
34620151 CTCCATGTCTCTAGGGTATAA-AGTTCGCTGTTGCGGCTTCAACCTTTCCC-TCTATC-TCTCTA
1 CTCCACATCTCTAGGGTATAAGA-TTCGTTGTTGCGGCTTCAACCTTTCCCTTC-A-CATCTCTA
* * **
34620213 GGGTATAAGATTCACCATTGCAGCTTCAATCTTTCC
63 AGGTATAAGATTCGCTGTTGCAGCTTCAATCTTTCC
* * **** * * *
34620249 CTCCACATCTCTAGGGTACAAGAGTCACCATTGTGAGCTTCAATCTTTCCC-TCTATATCTCTAA
1 CTCCACATCTCTAGGGTATAAGATTCGTTGTTGCG-GCTTCAACCTTTCCCTTC-ACATCTCTAA
34620313 GGTATAAGATTCG
64 GGTATAAGATTCG
34620326 TCGTTGCGGT
Statistics
Matches: 447, Mismatches: 102, Indels: 33
0.77 0.18 0.06
Matches are distributed among these distances:
96 1 0.00
97 80 0.18
98 323 0.72
99 43 0.10
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (98 bp):
CTCCACATCTCTAGGGTATAAGATTCGTTGTTGCGGCTTCAACCTTTCCCTTCACATCTCTAAGG
TATAAGATTCGCTGTTGCAGCTTCAATCTTTCC
Found at i:34620051 original size:147 final size:148
Alignment explanation
Indices: 34619662--34620334 Score: 623
Period size: 147 Copynumber: 4.6 Consensus size: 148
34619652 TAATCTGCTT
* * * * *
34619662 CTCCTCATCTTTAGGGTATAAGATTCGTTGTTGCGGCTTCAATATTTCCCT-TCACATCTCTAAG
1 CTCCACATCTTTAGGGTATAAGATTCGTCGTTGCGACTTCAATCTTTCCCTCT-ATATCTCTAAG
* ** * * * * **
34619726 GTATAAGGTTCG-CTGTTGCGGCTTCAATGTTTCCCTCCACATCTTTAAGGCATGAGATTCGTTG
65 GTATAAGATTCGTCTGTTGCGGCTTCAACCTTTCCCTCCACATCTCTAGGGTATAAGATTCGCCG
*
34619790 TTGCAGCTTCAATCTTTCT
130 TTGCAGCTTCAATCTTTCC
* * * * * *
34619809 CTTCACATCTTTAGGG-ATGAGATTTGTTGTTGCGACTTCAATCTTTCCCT-TCACATCTCTAAT
1 CTCCACATCTTTAGGGTATAAGATTCGTCGTTGCGACTTCAATCTTTCCCTCT-ATATCTCTAAG
* ** * * * **
34619872 GTATAAGGTTCGT-TGTTGCGGCTTTGACCTTTCCCTCCACGTCTTTAGGGTATAAGATTTGTTG
65 GTATAAGATTCGTCTGTTGCGGCTTCAACCTTTCCCTCCACATCTCTAGGGTATAAGATTCGCCG
*
34619936 TTACAGCTTCAATCTTTCC
130 TTGCAGCTTCAATCTTTCC
* * * *
34619955 CT-CAGCATATTTAGGGTACAAGATTCGTCATTGCGACTTCAATCTTTCCCTCTGTATCTCTAAG
1 CTCCA-CATCTTTAGGGTATAAGATTCGTCGTTGCGACTTCAATCTTTCCCTCTATATCTCTAAG
* * ** * *
34620019 TTATAAGATTCGTC-ATTGTAGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAACG-TTCGCC
65 GTATAAGATTCGTCTGTTGCGGCTTCAACCTTTCCCTCCACATCTCTAGGGTATAA-GATTCGCC
** *
34620082 GTTGCAATTTCAACCTTTCC
129 GTTGCAGCTTCAATCTTTCC
* * * * * * * * * * *
34620102 CTCCACGTCTCTAGGGTATAAGGTTTGCCGTTGTGGCTTCAACCTTTCCCTCCATGTCTCTAGGG
1 CTCCACATCTTTAGGGTATAAGATTCGTCGTTGCGACTTCAATCTTTCCCTCTATATCTCTAAGG
* *
34620167 TATAA-AGTTCG-CTGTTGCGGCTTCAACCTTTCCCTCTATC-TCTCTAGGGTATAAGATTCACC
66 TATAAGA-TTCGTCTGTTGCGGCTTCAACCTTTCCCTCCA-CATCTCTAGGGTATAAGATTCGCC
*
34620229 ATTGCAGCTTCAATCTTTCC
129 GTTGCAGCTTCAATCTTTCC
* * * ** * *
34620249 CTCCACATCTCTAGGGTACAAGAGTCACCATTGTGAGCTTCAATCTTTCCCTCTATATCTCTAAG
1 CTCCACATCTTTAGGGTATAAGATTCGTCGTTGCGA-CTTCAATCTTTCCCTCTATATCTCTAAG
34620314 GTATAAGATTCGTC-GTTGCGG
65 GTATAAGATTCGTCTGTTGCGG
34620335 TTTTAATCTT
Statistics
Matches: 428, Mismatches: 84, Indels: 27
0.79 0.16 0.05
Matches are distributed among these distances:
145 2 0.00
146 128 0.30
147 250 0.58
148 46 0.11
149 2 0.00
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.37
Consensus pattern (148 bp):
CTCCACATCTTTAGGGTATAAGATTCGTCGTTGCGACTTCAATCTTTCCCTCTATATCTCTAAGG
TATAAGATTCGTCTGTTGCGGCTTCAACCTTTCCCTCCACATCTCTAGGGTATAAGATTCGCCGT
TGCAGCTTCAATCTTTCC
Found at i:34622288 original size:17 final size:18
Alignment explanation
Indices: 34622266--34622307 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
34622256 TCATCTTGAC
34622266 TTTTTCTTC-TTTTTTCT
1 TTTTTCTTCTTTTTTTCT
34622283 TTTTTC-TCTTTTTTTCT
1 TTTTTCTTCTTTTTTTCT
34622300 TTTTTCTT
1 TTTTTCTT
34622308 TAGGTTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.09
17 20 0.87
18 1 0.04
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTCTTCTTTTTTTCT
Found at i:34622365 original size:11 final size:10
Alignment explanation
Indices: 34622348--34622383 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
34622338 TATCTCGACC
34622348 TTTTTTCTTT
1 TTTTTTCTTT
34622358 TCTTTTTCTTT
1 T-TTTTTCTTT
*
34622369 TTTCTTCTTT
1 TTTTTTCTTT
34622379 TTTTT
1 TTTTT
34622384 AACCTCCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:34622369 original size:16 final size:16
Alignment explanation
Indices: 34622347--34622380 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
34622337 TTATCTCGAC
34622347 CTTTTTTCTTTTCTTTTT
1 CTTTTTTC--TTCTTTTT
34622365 CTTTTTTCTTCTTTTT
1 CTTTTTTCTTCTTTTT
34622381 TTTAACCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
CTTTTTTCTTCTTTTT
Found at i:34625051 original size:109 final size:109
Alignment explanation
Indices: 34624921--34625134 Score: 349
Period size: 109 Copynumber: 2.0 Consensus size: 109
34624911 CGAAAATAAA
* * *
34624921 GAACATTTATTTATTTAAAATAGGATACTCGATTATTTAGGTTCGAAGAAAAAATCATACCCAGT
1 GAACATTTATTAATTTAAAATAGGATACTCGATTATTTAGGTTCAAAGAAAAAACCATACCCAGT
*
34624986 ATGTTTGAGCACAATTTCTCGAA-TTCCATAAATAAAAGAAAATC
66 ACGTTTGAGCACAATTTCTCGAATTTCC-TAAATAAAAGAAAATC
* * *
34625030 GAACATTTATTAATTTTAAATAGGATTCTCGATTATTTAGGTTCAAAGAAAAAACCATACCCATT
1 GAACATTTATTAATTTAAAATAGGATACTCGATTATTTAGGTTCAAAGAAAAAACCATACCCAGT
34625095 ACGTTTGAGCACAATTTCTCGAATTTCCTAAATAAAAGAA
66 ACGTTTGAGCACAATTTCTCGAATTTCCTAAATAAAAGAA
34625135 CATTGCCCCT
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
109 93 0.96
110 4 0.04
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (109 bp):
GAACATTTATTAATTTAAAATAGGATACTCGATTATTTAGGTTCAAAGAAAAAACCATACCCAGT
ACGTTTGAGCACAATTTCTCGAATTTCCTAAATAAAAGAAAATC
Found at i:34629191 original size:50 final size:50
Alignment explanation
Indices: 34629088--34629197 Score: 132
Period size: 50 Copynumber: 2.2 Consensus size: 50
34629078 GATCTGATAC
* * * *
34629088 TTTAAATAAATATAAGTATTTATTTAATTTGTTTTGTTTAGATATGGTGT
1 TTTAAATAAACATAAATATTTATTTAATTTATTTTGTTTAGATATGGTAT
* * *
34629138 TTTACATAAACATAAATATTTATTT-ATATTATTTTGTTTAGATCTTGTAT
1 TTTAAATAAACATAAATATTTATTTAAT-TTATTTTGTTTAGATATGGTAT
*
34629188 TTTATATAAA
1 TTTAAATAAA
34629198 TATTTTATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
49 2 0.04
50 49 0.96
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.54
Consensus pattern (50 bp):
TTTAAATAAACATAAATATTTATTTAATTTATTTTGTTTAGATATGGTAT
Found at i:34630576 original size:17 final size:17
Alignment explanation
Indices: 34630499--34630572 Score: 105
Period size: 17 Copynumber: 4.4 Consensus size: 17
34630489 ACTAAACCTT
*
34630499 TTTAAATTTATTTGAAGA
1 TTTAAATTTATTTTAA-A
34630517 -TTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
34630533 TTTAAATTTGTTTTAAA
1 TTTAAATTTATTTTAAA
*
34630550 TTTAAAATTATTTTAAA
1 TTTAAATTTATTTTAAA
34630567 TTTAAA
1 TTTAAA
34630573 ATTAATAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
16 1 0.02
17 50 0.98
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:34631225 original size:18 final size:18
Alignment explanation
Indices: 34631201--34631243 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
34631191 TAAATATATT
*
34631201 AAATAATTTTATTAATAA
1 AAATAATTTTAATAATAA
*
34631219 TAATAATTTTAATAATAA
1 AAATAATTTTAATAATAA
34631237 AAATAAT
1 AAATAAT
34631244 AAAAAGTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATAATTTTAATAATAA
Found at i:34632292 original size:30 final size:29
Alignment explanation
Indices: 34632249--34632433 Score: 178
Period size: 30 Copynumber: 6.2 Consensus size: 29
34632239 TGAACTATCC
* *
34632249 AAAAATCATATTTTGACCCTCAAACTTTCT
1 AAAAATTACATTTTGACCCTCAAAC-TTCT
* * *
34632279 AAAAATTACATTTTAACCCTAAAACTTTCC
1 AAAAATTACATTTTGACCCTCAAAC-TTCT
34632309 AAAAATTACATTTTGATCCCT-AAACTTCT
1 AAAAATTACATTTTGA-CCCTCAAACTTCT
*
34632338 CAAAAATTACATTTTAACCCTCAAACTTCTT
1 -AAAAATTACATTTTGACCCTCAAACTTC-T
* *
34632369 AAAAATTCCATTTTTTG-CCCTCGAACTT-T
1 AAAAATTACA--TTTTGACCCTCAAACTTCT
* * *
34632398 CAAAAATTCCATTTTTACCCTCAAACTTCC
1 -AAAAATTACATTTTGACCCTCAAACTTCT
34632428 AAAAAT
1 AAAAAT
34632434 CATATTTTTA
Statistics
Matches: 132, Mismatches: 14, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
28 4 0.03
29 24 0.18
30 85 0.64
31 15 0.11
32 4 0.03
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.36
Consensus pattern (29 bp):
AAAAATTACATTTTGACCCTCAAACTTCT
Found at i:34632343 original size:60 final size:59
Alignment explanation
Indices: 34632241--34632433 Score: 230
Period size: 60 Copynumber: 3.2 Consensus size: 59
34632231 AAGGTCCCTG
* * *
34632241 AACTATCCAAAAATCATATTTTGA-CCCTCAAACTTTCTAAAAATTACATTTTAACCCTAA
1 AACT-TCCAAAAATTACATTTTGATCCCTCAAACTTTC-AAAAATTACATTTTAACCCTCA
34632301 AACTTTCCAAAAATTACATTTTGATCCCT-AAACTTCTCAAAAATTACATTTTAACCCTCA
1 AAC-TTCCAAAAATTACATTTTGATCCCTCAAACTT-TCAAAAATTACATTTTAACCCTCA
* * * * * *
34632361 AACTTCTTAAAAATTCCATTTT-TTGCCCTCGAACTTTCAAAAATTCCATTTTTACCCTCA
1 AACTTC-CAAAAATTACATTTTGAT-CCCTCAAACTTTCAAAAATTACATTTTAACCCTCA
34632421 AACTTCCAAAAAT
1 AACTTCCAAAAAT
34632434 CATATTTTTA
Statistics
Matches: 117, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
59 10 0.09
60 95 0.81
61 12 0.10
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.35
Consensus pattern (59 bp):
AACTTCCAAAAATTACATTTTGATCCCTCAAACTTTCAAAAATTACATTTTAACCCTCA
Found at i:34632402 original size:90 final size:89
Alignment explanation
Indices: 34632235--34632447 Score: 252
Period size: 90 Copynumber: 2.4 Consensus size: 89
34632225 GCCCAGAAGG
* *
34632235 TCCCTGAACTATCCAAAAATCATATTTTGACCCTCAAACTTTCTAAAAATTACATTTTAACCCTA
1 TCCCTAAACT-TCCAAAAATCATATTTTAACCCTCAAACTTTCTAAAAATTACATTTTAACCCTA
34632300 AAACTTTCCAAAAATTACATTTTGA
65 AAACTTTCCAAAAATTACATTTTGA
* * * **
34632325 TCCCTAAACTTCTCAAAAATTACATTTTAACCCTCAAAC-TTCTTAAAAATTCCATTTTTTGCCC
1 TCCCTAAACTTC-CAAAAATCATATTTTAACCCTCAAACTTTC-TAAAAATTACA-TTTTAACCC
** * *
34632389 TCGAACTTT-CAAAAATTCCATTTTTA
63 TAAAACTTTCCAAAAATTACATTTTGA
34632415 -CCCTCAAACTTCCAAAAATCATATTTTTAACCC
1 TCCCT-AAACTTCCAAAAATCATA-TTTTAACCC
34632448 GAATTCCCAA
Statistics
Matches: 105, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
89 18 0.17
90 73 0.70
91 14 0.13
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.36
Consensus pattern (89 bp):
TCCCTAAACTTCCAAAAATCATATTTTAACCCTCAAACTTTCTAAAAATTACATTTTAACCCTAA
AACTTTCCAAAAATTACATTTTGA
Found at i:34632942 original size:97 final size:96
Alignment explanation
Indices: 34632774--34633066 Score: 424
Period size: 97 Copynumber: 3.0 Consensus size: 96
34632764 TCCAAAATAT
* * *
34632774 TTAAAATCGAGGCAATATTCCTTTATTTCGGTTTTGAAAATTTGAGCCTTAACTTACTACACGCG
1 TTAAAA-CGAGGCAATGTTTCTTTATTTCGGTTTTGAAAATTTGAGCCTTAACTTACTAGACGCG
*
34632839 ACTTTTCTTCAAACCGAGATAATCGACTACCC
65 ACTTTTCTTCAAACCGAGATAATCGAATACCC
* * *
34632871 TTAAAACGAGGCAATGTTTATTTATTTCGGGTTTTGAAAATTTGGGCCTTAACTTACTAGATGCG
1 TTAAAACGAGGCAATGTTTCTTTATTTC-GGTTTTGAAAATTTGAGCCTTAACTTACTAGACGCG
* * *
34632936 ATTTTTCTTCAAACTGGGATAATCGAATACCC
65 ACTTTTCTTCAAACCGAGATAATCGAATACCC
* * *
34632968 TTAAAACGAGGCAATGTTTCTTTATCTCTGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCG
1 TTAAAACGAGGCAATGTTTCTTTATTTC-GGTTTTGAAAATTTGAGCCTTAACTTACTAGACGCG
* *
34633033 ACTTTTCTTCAAATCGAGATAATCGAATATCC
65 ACTTTTCTTCAAACCGAGATAATCGAATACCC
34633065 TT
1 TT
34633067 TTCCAAGGTT
Statistics
Matches: 174, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
96 19 0.11
97 155 0.89
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.37
Consensus pattern (96 bp):
TTAAAACGAGGCAATGTTTCTTTATTTCGGTTTTGAAAATTTGAGCCTTAACTTACTAGACGCGA
CTTTTCTTCAAACCGAGATAATCGAATACCC
Found at i:34641271 original size:3 final size:3
Alignment explanation
Indices: 34641258--34641293 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
34641248 TTATGATATC
*
34641258 GAA GCA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
34641294 AGGGATGACC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.03, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:34643816 original size:210 final size:210
Alignment explanation
Indices: 34643455--34644229 Score: 1043
Period size: 210 Copynumber: 3.7 Consensus size: 210
34643445 TTGCGATTAC
* * **
34643455 CTTCCTGATGAGATACAAAGAAGTATACCAGCTCAATGAAACC-AGGCTCAAAGTGAGCAAATCT
1 CTTCCTGATGAGATACTAAGAAGTAGACCAAATCAATGAAACCAAGGCTCAAAGTGAGCAAATCT
* * * * * *
34643519 TCAAACCCCAGCTTCCTAATGAGATACTGAGAAGCAGGTTGAAGCAATAAAGCTGTTACCTTTCT
66 TCGAACCCCAGCTTCCTGATGAGATACTGAAAAGCAGGTCGAAGCAATAAAGCGGTTACCTTCCT
*
34643584 GATGAGATACAGAGAAGTGAACCAGATACGTCTTCCTGATAAGACACAGAGAAGTGGATCAAAAC
131 GATGAGATACAGAGAAGTGAACCAGATACGTCTTCCTGATGAGACACAGAGAAGTGGATCAAAAC
*
34643649 AAGTGATACGGTCAT
196 AAGTGATACGGTAAT
*
34643664 CTTCCTGATGAGATACTAAGAAGTAGACCAAATCAATGAAACCAAGGCTTAAAGTGAGCAAATCT
1 CTTCCTGATGAGATACTAAGAAGTAGACCAAATCAATGAAACCAAGGCTCAAAGTGAGCAAATCT
* * *
34643729 TCGAACCCCAGCTTTCTGATGAGATACTTAAAAGCAGGTCGAAGCTATAAAGCGGTTACCTTCCT
66 TCGAACCCCAGCTTCCTGATGAGATACTGAAAAGCAGGTCGAAGCAATAAAGCGGTTACCTTCCT
* * * *
34643794 GACGAGATACAGAGAAGTGAACCAAATTCGTCTTCCTGATGAGACACAGAGAAGTGGATCAAAAT
131 GATGAGATACAGAGAAGTGAACCAGATACGTCTTCCTGATGAGACACAGAGAAGTGGATCAAAAC
34643859 AAGTGA-AGCGGTAAT
196 AAGTGATA-CGGTAAT
** *
34643874 CTTCCTGATGAGATACGGAGAAGTAGACCAAATCAGTGAAACCAAGGCTCAAAGTGAGCAAATCT
1 CTTCCTGATGAGATACTAAGAAGTAGACCAAATCAATGAAACCAAGGCTCAAAGTGAGCAAATCT
* * * *
34643939 TCCAACCCCAGCTTCCTGATAAGATACT-AAGAAGCAGGTCGAAGTAATAAAGCAGTTACCTTCC
66 TCGAACCCCAGCTTCCTGATGAGATACTGAA-AAGCAGGTCGAAGCAATAAAGCGGTTACCTTCC
* * * *
34644003 TGATGAGATACAAAAAAGTGAACCAGATCCGGCTTCCTGATGAGACACAGAGAAGTGGATCAAAA
130 TGATGAGATACAGAGAAGTGAACCAGATACGTCTTCCTGATGAGACACAGAGAAGTGGATCAAAA
* *
34644068 CAAGTAATGCGGTAAT
195 CAAGTGATACGGTAAT
* * * * * ** * * * * * *
34644084 CTTCCTAATGAAATACTGAGAAGAAGACCAAATCAACGAAGTCAAAGCTTAATGTAAGAAAAACT
1 CTTCCTGATGAGATACTAAGAAGTAGACCAAATCAATGAAACCAAGGCTCAAAGTGAGCAAATCT
* * * ***
34644149 TCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAACGGTCGTCTTCCT
66 TCGAACCCCAGCTTCCTGATGAGATACTGAAAAGCAGGTCGAAGCAATAAAGCGGTTACCTTCCT
34644214 GATGAGATACAGAGAA
131 GATGAGATACAGAGAA
34644230 CGGATCAAAA
Statistics
Matches: 496, Mismatches: 65, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
209 42 0.08
210 453 0.91
211 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (210 bp):
CTTCCTGATGAGATACTAAGAAGTAGACCAAATCAATGAAACCAAGGCTCAAAGTGAGCAAATCT
TCGAACCCCAGCTTCCTGATGAGATACTGAAAAGCAGGTCGAAGCAATAAAGCGGTTACCTTCCT
GATGAGATACAGAGAAGTGAACCAGATACGTCTTCCTGATGAGACACAGAGAAGTGGATCAAAAC
AAGTGATACGGTAAT
Found at i:34644643 original size:5 final size:6
Alignment explanation
Indices: 34644594--34644688 Score: 63
Period size: 6 Copynumber: 15.8 Consensus size: 6
34644584 ACTAAACCTT
* *
34644594 TTTAAA TTT-AT TTTAAGA -TTAAA TTT-AT TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** * * *
34644640 TTAAGTAAA TTTACT TTTAAA TTTAAA ATT-AT TTTAAA TTTAAA ATTAA
1 TT---TAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
34644689 TAAAAGTCCA
Statistics
Matches: 68, Mismatches: 13, Indels: 16
0.70 0.13 0.16
Matches are distributed among these distances:
5 12 0.18
6 50 0.74
9 6 0.09
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:34644687 original size:17 final size:17
Alignment explanation
Indices: 34644594--34644683 Score: 105
Period size: 17 Copynumber: 5.4 Consensus size: 17
34644584 ACTAAACCTT
34644594 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
34644612 -TTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
**
34644628 TTTAAATTTAAATT-AA
1 TTTAAATTTATTTTAAA
*
34644644 -GTAAATTTACTTTTAAA
1 TTTAAATTTA-TTTTAAA
*
34644661 TTTAAAATTATTTTAAA
1 TTTAAATTTATTTTAAA
34644678 TTTAAA
1 TTTAAA
34644684 ATTAATAAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
15 8 0.13
16 5 0.08
17 41 0.67
18 7 0.11
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:34645323 original size:12 final size:12
Alignment explanation
Indices: 34645306--34645346 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
34645296 AAATATATTA
*
34645306 AATAATTTTATT
1 AATAATTTTAAT
**
34645318 AATAATAATAAT
1 AATAATTTTAAT
34645330 AATAATTTTAAT
1 AATAATTTTAAT
34645342 AATAA
1 AATAA
34645347 AAAAATAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AATAATTTTAAT
Found at i:34646400 original size:30 final size:30
Alignment explanation
Indices: 34646357--34646449 Score: 129
Period size: 30 Copynumber: 3.1 Consensus size: 30
34646347 TATTGCCTAG
34646357 AATTACA-TTTAACCCCTAAACTT-TCCAAA
1 AATTACATTTTAACCCCTAAACTTCT-CAAA
*
34646386 AATTACATTTTAACCCTTAAACTTCTCAAA
1 AATTACATTTTAACCCCTAAACTTCTCAAA
*
34646416 AATTACATTTTAA-CCCTGGAACTTCTCAAA
1 AATTACATTTTAACCCCT-AAACTTCTCAAA
34646446 AATT
1 AATT
34646450 CTATTTTTGC
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
29 10 0.17
30 47 0.81
31 1 0.02
ACGTcount: A:0.40, C:0.24, G:0.02, T:0.34
Consensus pattern (30 bp):
AATTACATTTTAACCCCTAAACTTCTCAAA
Found at i:34646456 original size:30 final size:30
Alignment explanation
Indices: 34646357--34646485 Score: 124
Period size: 30 Copynumber: 4.4 Consensus size: 30
34646347 TATTGCCTAG
*
34646357 AATTACA-TTTAACCC-CTAAACTT-TCCAAA
1 AATTACATTTTAACCCTC-GAACTTCT-CAAA
**
34646386 AATTACATTTTAACCCTTAAACTTCTCAAA
1 AATTACATTTTAACCCTCGAACTTCTCAAA
*
34646416 AATTACATTTTAACCCTGGAACTTCTCAAA
1 AATTACATTTTAACCCTCGAACTTCTCAAA
** *
34646446 AATT-CTATTTTTGCCCTCGAACTTAT-AAA
1 AATTAC-ATTTTAACCCTCGAACTTCTCAAA
*
34646475 AATTCCATTTT
1 AATTACATTTT
34646486 TGTCTCCGAA
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
29 20 0.23
30 67 0.76
31 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.37
Consensus pattern (30 bp):
AATTACATTTTAACCCTCGAACTTCTCAAA
Found at i:34646504 original size:29 final size:29
Alignment explanation
Indices: 34646379--34646506 Score: 105
Period size: 30 Copynumber: 4.3 Consensus size: 29
34646369 CCCCTAAACT
* ** **
34646379 TTCCAAAAATTACATTTTAACCCTTAAAC
1 TTCCAAAAATTCCATTTTTGCCCTCGAAC
* ** *
34646408 TTCTCAAAAATTACATTTTAACCCTGGAAC
1 TTC-CAAAAATTCCATTTTTGCCCTCGAAC
*
34646438 TTCTCAAAAATTCTATTTTTGCCCTCGAAC
1 TTC-CAAAAATTCCATTTTTGCCCTCGAAC
** *
34646468 TTATAAAAATTCCATTTTTG-TCTCCGAAC
1 TTCCAAAAATTCCATTTTTGCCCT-CGAAC
34646497 TTCCAAAAAT
1 TTCCAAAAAT
34646507 CATATTTTTA
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 31 0.37
30 51 0.61
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (29 bp):
TTCCAAAAATTCCATTTTTGCCCTCGAAC
Found at i:34646513 original size:29 final size:29
Alignment explanation
Indices: 34646379--34646533 Score: 97
Period size: 30 Copynumber: 5.3 Consensus size: 29
34646369 CCCCTAAACT
** **
34646379 TTCCAAAAATTAC-ATTTTAACCCTTAAAC
1 TTCCAAAAATT-CTATTTTTGCCCTCGAAC
** *
34646408 TTCTCAAAAATTAC-ATTTTAACCCTGGAAC
1 TTC-CAAAAATT-CTATTTTTGCCCTCGAAC
34646438 TTCTCAAAAATTCTATTTTTGCCCTCGAAC
1 TTC-CAAAAATTCTATTTTTGCCCTCGAAC
** * *
34646468 TTATAAAAATTCCATTTTTG-TCTCCGAAC
1 TTCCAAAAATTCTATTTTTGCCCT-CGAAC
*
34646497 TTCCAAAAA-TCATATTTTT-ACCTCGAA-
1 TTCCAAAAATTC-TATTTTTGCCCTCGAAC
*
34646524 TTCCCAAAAT
1 TTCCAAAAAT
34646534 GACAAATTTA
Statistics
Matches: 106, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
27 8 0.08
28 8 0.08
29 39 0.37
30 51 0.48
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.37
Consensus pattern (29 bp):
TTCCAAAAATTCTATTTTTGCCCTCGAAC
Found at i:34647024 original size:97 final size:97
Alignment explanation
Indices: 34646849--34647142 Score: 471
Period size: 97 Copynumber: 3.0 Consensus size: 97
34646839 TCCAAAATAT
* * *
34646849 TTAAAATCAAGGCAATATTCCTTTATTTCTGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGC
1 TTAAAA-CGAGGCAATATTTCTTTATTTCTGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCAC
34646914 GATTTTTCTTCAAATCGGGATAATCGAATACCC
65 GATTTTTCTTCAAATCGGGATAATCGAATACCC
* * * *
34646947 TTAAAACGAGGCAATGTTTCTTTATTTCGGGTTTTGAAATTTTGTGCCTTAACTTACTAGACACG
1 TTAAAACGAGGCAATATTTCTTTATTTCTGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCACG
* *
34647012 ATTTTTCTTCAAACCGGGATAATCAAATACCC
66 ATTTTTCTTCAAATCGGGATAATCGAATACCC
* *
34647044 TTAAAACGAGGCAATATTTCTTTATCTCTGGTTTTGAAAATTTGTGTCTTAACTTACTAGGCACG
1 TTAAAACGAGGCAATATTTCTTTATTTCTGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCACG
*
34647109 ATTTTTCTTCAAATCGGGATAATCGAATATCC
66 ATTTTTCTTCAAATCGGGATAATCGAATACCC
34647141 TT
1 TT
34647143 TTCCAAGGTT
Statistics
Matches: 178, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
97 172 0.97
98 6 0.03
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (97 bp):
TTAAAACGAGGCAATATTTCTTTATTTCTGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCACG
ATTTTTCTTCAAATCGGGATAATCGAATACCC
Found at i:34652019 original size:27 final size:27
Alignment explanation
Indices: 34651985--34652057 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
34651975 GACATCTTTA
* *
34651985 ACAT-AGATAACCATAAATGCGTCCATT
1 ACATAAGATAACCATAAAGGAGTCC-TT
* * *
34652012 -CATAAGATAGCTATGAAGGAGTCCTT
1 ACATAAGATAACCATAAAGGAGTCCTT
*
34652038 ACATGAGATAACCATAAAGG
1 ACATAAGATAACCATAAAGG
34652058 TCTTCCAGTA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
26 5 0.14
27 30 0.86
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (27 bp):
ACATAAGATAACCATAAAGGAGTCCTT
Found at i:34652213 original size:26 final size:26
Alignment explanation
Indices: 34652184--34652238 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
34652174 ACAGAGTTAG
34652184 CCACAAAGGCTCTTAAACAGAATCAA
1 CCACAAAGGCTCTTAAACAGAATCAA
* *
34652210 CCACAAAGGCTCTTTAATAGAATCAA
1 CCACAAAGGCTCTTAAACAGAATCAA
34652236 CCA
1 CCA
34652239 TAGATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.44, C:0.27, G:0.11, T:0.18
Consensus pattern (26 bp):
CCACAAAGGCTCTTAAACAGAATCAA
Found at i:34655821 original size:19 final size:19
Alignment explanation
Indices: 34655797--34655846 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 19
34655787 CCTTTCCAAT
34655797 AATAAGTAAATCAGATTAC
1 AATAAGTAAATCAGATTAC
* *
34655816 AATAAG---CTCAGATTAT
1 AATAAGTAAATCAGATTAC
34655832 AATAAGTAAATCAGA
1 AATAAGTAAATCAGA
34655847 AAAATGACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
16 14 0.56
19 11 0.44
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.26
Consensus pattern (19 bp):
AATAAGTAAATCAGATTAC
Found at i:34656198 original size:47 final size:47
Alignment explanation
Indices: 34656129--34656269 Score: 282
Period size: 47 Copynumber: 3.0 Consensus size: 47
34656119 CCAACCAAAG
34656129 TTAGCTTCAGTCATTATGTATTGAACAGAAGCAAAAGCCTCAGTAAC
1 TTAGCTTCAGTCATTATGTATTGAACAGAAGCAAAAGCCTCAGTAAC
34656176 TTAGCTTCAGTCATTATGTATTGAACAGAAGCAAAAGCCTCAGTAAC
1 TTAGCTTCAGTCATTATGTATTGAACAGAAGCAAAAGCCTCAGTAAC
34656223 TTAGCTTCAGTCATTATGTATTGAACAGAAGCAAAAGCCTCAGTAAC
1 TTAGCTTCAGTCATTATGTATTGAACAGAAGCAAAAGCCTCAGTAAC
34656270 GGTTGGACGA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 94 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (47 bp):
TTAGCTTCAGTCATTATGTATTGAACAGAAGCAAAAGCCTCAGTAAC
Found at i:34671997 original size:14 final size:14
Alignment explanation
Indices: 34671957--34672008 Score: 54
Period size: 15 Copynumber: 3.7 Consensus size: 14
34671947 ATAATGATAT
34671957 TATAAAAATTAAAG
1 TATAAAAATTAAAG
**
34671971 CCGTAAAACATTAAAG
1 -TATAAAA-ATTAAAG
34671987 TATAAAAATTAAA-
1 TATAAAAATTAAAG
34672000 T-TAAAAATT
1 TATAAAAATT
34672009 TGAGCATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
12 8 0.25
13 1 0.03
14 6 0.19
15 10 0.31
16 7 0.22
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.29
Consensus pattern (14 bp):
TATAAAAATTAAAG
Found at i:34680680 original size:40 final size:40
Alignment explanation
Indices: 34680624--34680900 Score: 297
Period size: 40 Copynumber: 6.9 Consensus size: 40
34680614 TATATATCGG
* * * * *
34680624 CACGAAACCTAGTAGGCACAAAGCCCGATAAATACATTGT
1 CACGAAGCCTACTAGGCACTAAGCCCGATAAATACACTGA
* * * *
34680664 CACGAAGCTTGCTAGGCACTAAGCCCGATAAATACACCGG
1 CACGAAGCCTACTAGGCACTAAGCCCGATAAATACACTGA
* * * * * * *
34680704 CATGAAGCTTGCTATGCACTAAGCCCAATAAATACATTGG
1 CACGAAGCCTACTAGGCACTAAGCCCGATAAATACACTGA
*
34680744 CACGAAGCCTACTAGGCACTAAGCCCGATAAATACAC-CA
1 CACGAAGCCTACTAGGCACTAAGCCCGATAAATACACTGA
* * *
34680783 GCATGAAGGCTACTAGGCACTAAGCCCGATAAAAACA-TCGA
1 -CACGAAGCCTACTAGGCACTAAGCCCGATAAATACACT-GA
* * *
34680824 CACGAAGCATACTAAGCACTAAGCCCGATAAACACACTGA
1 CACGAAGCCTACTAGGCACTAAGCCCGATAAATACACTGA
* *
34680864 CACGAAGCCTGCTAGGCACTAAGCCCGATAAACACAC
1 CACGAAGCCTACTAGGCACTAAGCCCGATAAATACAC
34680901 CGAGGAATTT
Statistics
Matches: 200, Mismatches: 33, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
40 198 0.99
41 2 0.01
ACGTcount: A:0.38, C:0.29, G:0.18, T:0.16
Consensus pattern (40 bp):
CACGAAGCCTACTAGGCACTAAGCCCGATAAATACACTGA
Found at i:34680735 original size:80 final size:79
Alignment explanation
Indices: 34680636--34680895 Score: 340
Period size: 80 Copynumber: 3.3 Consensus size: 79
34680626 CGAAACCTAG
* * * *
34680636 TAGGCACAAAGCCCGATAAATACATTGTCACGAAGCTTGCTAGGCACTAAGCCCGATAAATACAC
1 TAGGCACTAAGCCCGATAAATACATTGACACGAAGCATACTAGGCACTAAGCCCGATAAATACAC
34680701 CGGCATGAAGCTTGC
66 CGGCATGAAGC-TGC
* * * *
34680716 TATGCACTAAGCCCAATAAATACATTGGCACGAAGCCTACTAGGCACTAAGCCCGATAAATACAC
1 TAGGCACTAAGCCCGATAAATACATTGACACGAAGCATACTAGGCACTAAGCCCGATAAATACAC
* *
34680781 CAGCATGAAGGCTAC
66 CGGCATGAA-GCTGC
* * * *
34680796 TAGGCACTAAGCCCGATAAAAACATCGACACGAAGCATACTAAGCACTAAGCCCGATAAACACAC
1 TAGGCACTAAGCCCGATAAATACATTGACACGAAGCATACTAGGCACTAAGCCCGATAAATACAC
* * *
34680861 TGACACGAAGCCTGC
66 CGGCATGAAG-CTGC
34680876 TAGGCACTAAGCCCGATAAA
1 TAGGCACTAAGCCCGATAAA
34680896 CACACCGAGG
Statistics
Matches: 157, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
79 1 0.01
80 154 0.98
81 2 0.01
ACGTcount: A:0.37, C:0.28, G:0.19, T:0.16
Consensus pattern (79 bp):
TAGGCACTAAGCCCGATAAATACATTGACACGAAGCATACTAGGCACTAAGCCCGATAAATACAC
CGGCATGAAGCTGC
Found at i:34680843 original size:120 final size:121
Alignment explanation
Indices: 34680622--34680901 Score: 350
Period size: 120 Copynumber: 2.3 Consensus size: 121
34680612 AGTATATATC
* * * ** *
34680622 GGCACGAAACCTAGTAGGCACAAAGCCCGATAAATACA-TTGTCACGAAGCTTGCTAGGCACTAA
1 GGCACGAAGCCTACTAGGCACTAAGCCCGATAAATACACCAGTCACGAAGCTTACTAGGCACTAA
* * * * * * * *
34680686 GCCCGATAAATACACCGGCATGAAGCTTGCTATGCACTAAGCCCAATAAATACATT
66 GCCCGATAAAAACACCGACACGAAGCATACTAAGCACTAAGCCCAATAAACACACT
*
34680742 GGCACGAAGCCTACTAGGCACTAAGCCCGATAAATACACCAG-CATGAAGGC-TACTAGGCACTA
1 GGCACGAAGCCTACTAGGCACTAAGCCCGATAAATACACCAGTCACGAA-GCTTACTAGGCACTA
* *
34680805 AGCCCGATAAAAACATCGACACGAAGCATACTAAGCACTAAGCCCGATAAACACACT
65 AGCCCGATAAAAACACCGACACGAAGCATACTAAGCACTAAGCCCAATAAACACACT
* * *
34680862 GACACGAAGCCTGCTAGGCACTAAGCCCGATAAACACACC
1 GGCACGAAGCCTACTAGGCACTAAGCCCGATAAATACACC
34680902 GAGGAATTTA
Statistics
Matches: 138, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
120 135 0.98
121 3 0.02
ACGTcount: A:0.37, C:0.29, G:0.19, T:0.15
Consensus pattern (121 bp):
GGCACGAAGCCTACTAGGCACTAAGCCCGATAAATACACCAGTCACGAAGCTTACTAGGCACTAA
GCCCGATAAAAACACCGACACGAAGCATACTAAGCACTAAGCCCAATAAACACACT
Done.