Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 171 of 410
Found at i:52300734 original size:19 final size:22
Alignment explanation
Indices: 52300692--52300734 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
52300682 TTTAATTATG
*
52300692 TTATAATATATTATATATATTA
1 TTATAATATATTATATATACTA
52300714 TTAT-ATATATTAT-T-TACTA
1 TTATAATATATTATATATACTA
52300733 TT
1 TT
52300735 TTACATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 6 0.30
20 1 0.05
21 9 0.45
22 4 0.20
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATAATATATTATATATACTA
Found at i:52300742 original size:21 final size:21
Alignment explanation
Indices: 52300697--52300742 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
52300687 TTATGTTATA
*
52300697 ATATATTATATATATTATTAT
1 ATATATTATATATATTATTAC
*
52300718 ATATATTATTTACTATT-TTAC
1 ATATATTATATA-TATTATTAC
52300739 ATAT
1 ATAT
52300743 TTAACCTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATATTATATATATTATTAC
Found at i:52301862 original size:30 final size:30
Alignment explanation
Indices: 52301828--52301888 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52301818 TTCCCGAGCC
52301828 TAGGGGAAAAAGTGTAAATATGAAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGAAAAAGTT
* * * * *
52301858 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGAAAAAGTT
52301888 T
1 T
52301889 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.43, C:0.03, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGAAAAAGTT
Found at i:52302474 original size:68 final size:64
Alignment explanation
Indices: 52302386--52302666 Score: 217
Period size: 64 Copynumber: 4.3 Consensus size: 64
52302376 CGGGATGCAT
*
52302386 ACCATGT-GTACAAGAGAGCTACAAGACATTACGAGGTAGCTAGGTCGCATGGGTGATACTAAGT
1 ACCATGTAG-ACAAGAGAGCTAC--GACA-TA-GAGGTAGCTAGGCCGCATGGGTGATACTAAGT
52302450 GTAC
61 GTAC
* ** * * *
52302454 ACTATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGCCGCATGGGTGATACTATGTGTAC
1 ACCATGTAGACAAGAGAGCTACGACATAGAGGTAGCTAGGCCGCATGGGTGATACTAAGTGTAC
* * * ** * * * * * *
52302518 ACCATGTAGACAAGAGAGCTACGAGATAAATGTAGCTAGGTTGCATGTGTGGTTCCAGGTGAAGG
1 ACCATGTAGACAAGAGAGCTACGACATAGAGGTAGCTAGGCCGCATGGGTGATACTAAGT---GT
52302583 AC
63 AC
* * * * * * * * *
52302585 ACCATGTAAACAAAAGAGCTACGAGATA-AAGTGGCTAGGTCACATGGGTGGTACTAAGTGTTC
1 ACCATGTAGACAAGAGAGCTACGACATAGAGGTAGCTAGGCCGCATGGGTGATACTAAGTGTAC
52302648 ACCATGT-GTACAAGAGAGC
1 ACCATGTAG-ACAAGAGAGC
52302667 CAAAATTTTG
Statistics
Matches: 176, Mismatches: 32, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
63 18 0.10
64 82 0.47
65 2 0.01
66 25 0.14
67 29 0.16
68 19 0.11
69 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.22
Consensus pattern (64 bp):
ACCATGTAGACAAGAGAGCTACGACATAGAGGTAGCTAGGCCGCATGGGTGATACTAAGTGTAC
Found at i:52302500 original size:64 final size:64
Alignment explanation
Indices: 52302421--52302666 Score: 262
Period size: 64 Copynumber: 3.8 Consensus size: 64
52302411 ACATTACGAG
* * * *
52302421 GTAGCTAGGTCGCATGGGTGATACTAAGTGTACACTATGTAGACAAGAGAGCTACGGGATATAT
1 GTAGCTAGGCCGCATGGGTGATACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATAAAT
*
52302485 GTAGCTAGGCCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAAAT
1 GTAGCTAGGCCGCATGGGTGATACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATAAAT
** * * * * * * * *
52302549 GTAGCTAGGTTGCATGTGTGGTTCCAGGTGAAGGACACCATGTAAACAAAAGAGCTACGAGATAA
1 GTAGCTAGGCCGCATGGGTGATACTAAGT---GTACACCATGTAGACAAGAGAGCTACGAGATAA
52302614 A-
63 AT
* * * * *
52302615 GTGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 GTAGCTAGGCCGCATGGGTGATACTAAGTGTACACCATGTAG-ACAAGAGAGC
52302667 CAAAATTTTG
Statistics
Matches: 152, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
63 18 0.12
64 81 0.53
66 22 0.14
67 31 0.20
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (64 bp):
GTAGCTAGGCCGCATGGGTGATACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATAAAT
Found at i:52306334 original size:40 final size:40
Alignment explanation
Indices: 52306279--52306512 Score: 371
Period size: 40 Copynumber: 5.8 Consensus size: 40
52306269 GTATTAATAG
*
52306279 CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAA
1 CAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAA
* *
52306319 CAACTCGTACAAATGCCTTCGGGTCTTAACCCGGATATAG
1 CAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAA
*
52306359 CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAA
1 CAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAA
*
52306399 CAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAG
1 CAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAA
52306439 CAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAA
1 CAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAA
* * * *
52306479 TC-ACTAGCATAAATGCCTTCGGGGCTTAGCCCGG
1 -CAACTCGCACAAATGCCTTCGGGTCTTAACCCGG
52306513 GTATCATTCA
Statistics
Matches: 180, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 179 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAA
Found at i:52309988 original size:131 final size:131
Alignment explanation
Indices: 52309751--52310141 Score: 561
Period size: 131 Copynumber: 3.0 Consensus size: 131
52309741 CTATTCATTT
* * * ** * *
52309751 AAAAATTCTTAAAAACGAAGGAAATGTTCGATGTTTGGCAATTCAGGAAATCGTCGTTCCCTATT
1 AAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCAGGGAATCGT-G--CCCTATC
* * *
52309816 GTGCTGGGTTGCGATTTCCCGTTCGTTCAAAACAATCAAATATTCCTTTGGAATATCACTCATGT
63 GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAATCAAATATTCCTTTGGAATTTCACTCATGT
52309881 CTTC
128 CTTC
52309885 AAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCAGGGAATCGTGCCCTATCGTG
1 AAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCAGGGAATCGTGCCCTATCGTG
*
52309950 CTGGGTTGCAATTTCCTGTTTGTTCAAAACAATCAAATATTCCTTTGGAATTTCACTCATGTCTT
66 CTGGGTTGCGATTTCCTGTTTGTTCAAAACAATCAAATATTCCTTTGGAATTTCACTCATGTCTT
*
52310015 T
131 C
*
52310016 AAAAACTCTTCAAAACGATA-GTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC-T
1 AAAAACTCTTCAAAACGA-AGGTAATACTCGATGTTTGGCAATTCAGGGAATCGTGCCCTATCGT
* * * * * *
52310079 GCTGGGTTGCGATCTCCTGTTTGTTCGAAATAACCGAATATTCCTTTAGAATTTCACTCATGT
65 GCTGGGTTGCGATTTCCTGTTTGTTCAAAACAATCAAATATTCCTTTGGAATTTCACTCATGT
52310142 TCTCTAAATT
Statistics
Matches: 236, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
130 57 0.24
131 129 0.55
132 1 0.00
133 1 0.00
134 48 0.20
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (131 bp):
AAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCAGGGAATCGTGCCCTATCGTG
CTGGGTTGCGATTTCCTGTTTGTTCAAAACAATCAAATATTCCTTTGGAATTTCACTCATGTCTT
C
Found at i:52310675 original size:30 final size:30
Alignment explanation
Indices: 52310641--52310759 Score: 202
Period size: 30 Copynumber: 4.0 Consensus size: 30
52310631 TAAATCTTAG
52310641 CCTTTTCCACCACCAACTCCACTAGCCACT
1 CCTTTTCCACCACCAACTCCACTAGCCACT
*
52310671 CCTTTTCCCCCACCAACTCCACTAGCCACT
1 CCTTTTCCACCACCAACTCCACTAGCCACT
*
52310701 CCTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACT
* *
52310731 CATTTTCCACCACCAAATCCACTAGCCAC
1 CCTTTTCCACCACCAACTCCACTAGCCAC
52310760 ACTTACTCCA
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 84 1.00
ACGTcount: A:0.25, C:0.50, G:0.03, T:0.22
Consensus pattern (30 bp):
CCTTTTCCACCACCAACTCCACTAGCCACT
Found at i:52310760 original size:30 final size:30
Alignment explanation
Indices: 52310641--52310805 Score: 199
Period size: 30 Copynumber: 5.5 Consensus size: 30
52310631 TAAATCTTAG
*
52310641 CCTTTTCCACCACCAACTCCACTAGCCACT
1 CCTTTTCCACCACCAACTCCACTAGCCACA
* *
52310671 CCTTTTCCCCCACCAACTCCACTAGCCACT
1 CCTTTTCCACCACCAACTCCACTAGCCACA
52310701 CCTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
* *
52310731 CATTTTCCACCACCAAATCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
* ** * *
52310761 -CTTACTCCATTACCTACTCCACTAACCACA
1 CCTT-TTCCACCACCAACTCCACTAGCCACA
*
52310791 -CTTGCTCCACCACCA
1 CCTT-TTCCACCACCA
52310806 CTTGTACCTA
Statistics
Matches: 118, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
29 2 0.02
30 116 0.98
ACGTcount: A:0.26, C:0.48, G:0.03, T:0.22
Consensus pattern (30 bp):
CCTTTTCCACCACCAACTCCACTAGCCACA
Found at i:52311505 original size:25 final size:25
Alignment explanation
Indices: 52311475--52311522 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
52311465 TATATCTTAA
**
52311475 CTATATTATGTATGTATTTTTAACG
1 CTATATTATGTACATATTTTTAACG
52311500 CTATATTATGTACATATTTTTAA
1 CTATATTATGTACATATTTTTAA
52311523 TATTATCACG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.52
Consensus pattern (25 bp):
CTATATTATGTACATATTTTTAACG
Found at i:52311712 original size:16 final size:15
Alignment explanation
Indices: 52311688--52311735 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
52311678 TAATTATTAT
*
52311688 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
52311704 TATTTTAATATTTTA
1 TATTTTAATATTTTA
52311719 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
52311735 T
1 T
52311736 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:52311723 original size:7 final size:8
Alignment explanation
Indices: 52311688--52311739 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
52311678 TAATTATTAT
*
52311688 TATTCTAA
1 TATTTTAA
*
52311696 TATTTTGA
1 TATTTTAA
52311704 TATTTTAA
1 TATTTTAA
52311712 TATTTT-A
1 TATTTTAA
52311719 TATTTTATA
1 TATTTTA-A
*
52311728 TATTTTAT
1 TATTTTAA
52311736 TATT
1 TATT
52311740 CACATCGTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:52325406 original size:40 final size:39
Alignment explanation
Indices: 52325291--52325424 Score: 133
Period size: 40 Copynumber: 3.4 Consensus size: 39
52325281 ATAACCGAGT
* * * *
52325291 TAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGC
1 TAAGACCCGAAGGCATTTGTGCAAGTCG-TATATCCGGGC
* * * *
52325331 TAAGACCCGAAGGCATTCGTGCGAGTCATTCTATCCGGGC
1 TAAGACCCGAAGGCATTTGTGCAAGTC-GTATATCCGGGC
* *
52325371 TAAGACCCGAAGGCATTTGTGCAAATCGTGATATCCGGGT
1 TAAGACCCGAAGGCATTTGTGCAAGTCGT-ATATCCGGGC
* *
52325411 TAAGTCCCGTAGGC
1 TAAGACCCGAAGGC
52325425 CTTGGTGCGG
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 1 0.01
40 76 0.99
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (39 bp):
TAAGACCCGAAGGCATTTGTGCAAGTCGTATATCCGGGC
Found at i:52333484 original size:39 final size:39
Alignment explanation
Indices: 52333404--52333489 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 39
52333394 GGAAATTATA
* * *
52333404 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAGCTAAT
*
52333443 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATCT-AT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCGAGT-AGCTAAT
52333482 CCGGGCTA
1 CCGGGCTA
52333490 TCCGGGCTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
38 3 0.07
39 36 0.88
40 2 0.05
ACGTcount: A:0.23, C:0.26, G:0.30, T:0.21
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAGCTAAT
Found at i:52338123 original size:28 final size:27
Alignment explanation
Indices: 52338060--52338129 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
52338050 ATAGTGAGTC
52338060 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
52338087 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
52338115 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52338130 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:52343488 original size:40 final size:40
Alignment explanation
Indices: 52343433--52343642 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
52343423 AACATTGGAA
52343433 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
52343473 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
52343513 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
52343553 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
52343592 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
52343633 CTATATCCGG
1 ATATATCCGG
52343643 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:52347822 original size:27 final size:27
Alignment explanation
Indices: 52347766--52347853 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
52347756 CCTCGGTTTA
* * *
52347766 TAAAATCACCGAAATA-CCCT-TAGTG
1 TAAAATGACCGTAATACCCCTGTAGGG
* * *
52347791 CAAAATGACTGTAATGCCCCTGTAGGG
1 TAAAATGACCGTAATACCCCTGTAGGG
*
52347818 TAAAATGACCGTAATACCCCTGTATGG
1 TAAAATGACCGTAATACCCCTGTAGGG
*
52347845 TAGAATGAC
1 TAAAATGAC
52347854 AATTATGCAC
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
25 11 0.22
26 4 0.08
27 35 0.70
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (27 bp):
TAAAATGACCGTAATACCCCTGTAGGG
Found at i:52351450 original size:22 final size:21
Alignment explanation
Indices: 52351406--52351482 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 21
52351396 TACGGCCTTT
52351406 AGCCGTCCTGTCTACGATGTTG
1 AGCCGTCCTGTCTACGA-GTTG
*
52351428 AGTCGTCCTGTCTAC-AGCATTG
1 AGCCGTCCTGTCTACGAG--TTG
* * *
52351450 AGCCGTCTTGTCTATGCCGTTG
1 AGCCGTCCTGTCTACG-AGTTG
*
52351472 AGCTGTCCTGT
1 AGCCGTCCTGT
52351483 TGACTTAGTG
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 41 0.93
24 1 0.02
ACGTcount: A:0.13, C:0.27, G:0.26, T:0.34
Consensus pattern (21 bp):
AGCCGTCCTGTCTACGAGTTG
Found at i:52355575 original size:27 final size:26
Alignment explanation
Indices: 52355534--52355616 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
52355524 GGAAGTATTT
*
52355534 TGGTGGCTCTGCCACAAATATCTGTTC
1 TGGTGACTCTGCCAC-AATATCTGTTC
* * *
52355561 TGGTGCCTCTACCACAGTATCTGTATC
1 TGGTGACTCTGCCACAATATCTGT-TC
* *
52355588 TGGTGACGCTGTCACAATATCTGTTC
1 TGGTGACTCTGCCACAATATCTGTTC
52355614 TGG
1 TGG
52355617 CAGCCATGCT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
26 13 0.28
27 34 0.72
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (26 bp):
TGGTGACTCTGCCACAATATCTGTTC
Found at i:52360346 original size:46 final size:46
Alignment explanation
Indices: 52360279--52360453 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
52360269 TGTAACCCGC
52360279 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
52360325 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** * *
52360375 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
52360418 CCATAAGTGAACTCGGACTCAACTCGACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
52360454 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 2 0.02
45 2 0.02
46 62 0.58
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:52360399 original size:93 final size:93
Alignment explanation
Indices: 52360287--52360457 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
52360277 GCCCATAAGT
** *
52360287 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52360352 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* * *
52360380 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGTATCCATAAGTGAACTCGGACTCAACTCGA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
52360445 CGAGTTCGGATGC
66 CGAGCTCGGATGC
52360458 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:52363438 original size:46 final size:44
Alignment explanation
Indices: 52363364--52363568 Score: 184
Period size: 46 Copynumber: 4.5 Consensus size: 44
52363354 GTTGATGCCG
* * *
52363364 TGTCCCAGACAGGTCTTACACT-GACACATGTAACCGT-GCTGATGCA
1 TGTCCCAGACATGTCTTACACTAG-CACATCT---CGTAGCCGATGCA
*
52363410 TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGACGCA
1 TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCA
* *
52363454 TGTCCCAGACATGTCTGACACTGGCTAACATCTCG-AGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTAGC--ACATCTCGTA-GCCGATGCA
* * * * *
52363500 TGTCCCAGACATGTCTTACAGTGGCTC-TCATACTGTGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTAGCACATC-T-C-GTAGCCGATGCA
*
52363546 TGTCCCAGACATGACTTACACTA
1 TGTCCCAGACATGTCTTACACTA
52363569 ACCCTCGTCT
Statistics
Matches: 135, Mismatches: 15, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
43 5 0.04
44 32 0.24
45 2 0.01
46 95 0.70
47 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCA
Found at i:52366204 original size:46 final size:46
Alignment explanation
Indices: 52366137--52366311 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
52366127 TGTAACCCGC
52366137 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
52366183 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
52366233 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
52366276 CCATAAGTGAACTCGGACTCAACTCGACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
52366312 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 62 0.57
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:52366257 original size:93 final size:93
Alignment explanation
Indices: 52366145--52366315 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
52366135 GCCCATAAGT
** *
52366145 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52366210 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
52366238 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCGA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
52366303 CGAGTTCGGATGC
66 CGAGCTCGGATGC
52366316 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:52371336 original size:8 final size:8
Alignment explanation
Indices: 52371323--52371352 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
52371313 CTAGATCGGT
52371323 AAAAGCCG
1 AAAAGCCG
52371331 AAAAGCCG
1 AAAAGCCG
*
52371339 AAATGCCG
1 AAAAGCCG
52371347 AAAAGC
1 AAAAGC
52371353 TGATATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.23, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:52371803 original size:27 final size:26
Alignment explanation
Indices: 52371765--52371850 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 26
52371755 GGAGGAAGTA
52371765 TTCTGGTGGCTCTGCCACAAATATCTG
1 TTCTGGTGGCTCTGCCAC-AATATCTG
52371792 TTCTGGTGGCTCTGCCACAATATCTG
1 TTCTGGTGGCTCTGCCACAATATCTG
* * * *
52371818 TATCTGGTGACGCTGTCACAATGTCTG
1 T-TCTGGTGGCTCTGCCACAATATCTG
52371845 TTCTGG
1 TTCTGG
52371851 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
26 14 0.26
27 40 0.74
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.35
Consensus pattern (26 bp):
TTCTGGTGGCTCTGCCACAATATCTG
Found at i:52381446 original size:20 final size:20
Alignment explanation
Indices: 52381421--52381460 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
52381411 TTCAGCTTGG
52381421 AAGAAATCCCAGGTAATTCT
1 AAGAAATCCCAGGTAATTCT
52381441 AAGAAATCCCAGGTAATTCT
1 AAGAAATCCCAGGTAATTCT
52381461 TCTCTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (20 bp):
AAGAAATCCCAGGTAATTCT
Found at i:52382165 original size:20 final size:20
Alignment explanation
Indices: 52382142--52382179 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52382132 GTTTATTCGC
*
52382142 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
52382162 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
52382180 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:52387964 original size:20 final size:20
Alignment explanation
Indices: 52387939--52387976 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52387929 GTTTATTCGT
*
52387939 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
52387959 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
52387977 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:52391925 original size:20 final size:20
Alignment explanation
Indices: 52391902--52391939 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52391892 CACATCCAAA
*
52391902 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
52391922 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
52391940 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:52395090 original size:43 final size:41
Alignment explanation
Indices: 52395019--52395188 Score: 137
Period size: 43 Copynumber: 4.0 Consensus size: 41
52395009 TGGAAAGCTC
** * * *
52395019 ATACAATGCCAATGTTCCAGATGTGGTCTTACATGTAATTAA
1 ATACAATGCC-ATGTTCCAGACATGGTCTTACACGAAATCAA
* *
52395061 ATATCGATGCCACTGTTCCAGACAAGGTCTTACACGAAATCAA
1 ATA-CAATGCCA-TGTTCCAGACATGGTCTTACACGAAATCAA
* *
52395104 ATACAATGCCGATGTCCCAGACATGGTCTTACACATAAATCATA
1 ATACAATGCC-ATGTTCCAGACATGGTCTTACAC-GAAATCA-A
* * *
52395148 AGT-CGATGCCAATG-TCCTAGACGTGGTCTTACATGAAATCA
1 A-TACAATGCC-ATGTTCC-AGACATGGTCTTACACGAAATCA
52395189 TATATCAGAA
Statistics
Matches: 104, Mismatches: 17, Indels: 13
0.78 0.13 0.10
Matches are distributed among these distances:
42 30 0.29
43 48 0.46
44 25 0.24
45 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (41 bp):
ATACAATGCCATGTTCCAGACATGGTCTTACACGAAATCAA
Found at i:52396403 original size:27 final size:27
Alignment explanation
Indices: 52396371--52396661 Score: 431
Period size: 27 Copynumber: 10.8 Consensus size: 27
52396361 CCCGAAACCA
*
52396371 CTGTAGGGTAGAATTATCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* * *
52396398 TTGTAGGATAGAATTACCAAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
52396425 CTATAGGGTAGAATTATCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
*
52396452 CTGTAGGGTAGAATTACCGGAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
*
52396479 CTGTAGGGTAGAATTATCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
*
52396506 CTGTAGGGTAGAATTACCGAAATACCA
1 CTGTAGGGTAGAATTACCGAAATACCC
* *
52396533 CTATAGGGTAGAATTACCGGAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
* * *
52396560 CTGTAGGGTAGAATTATCGCAATTCCC
1 CTGTAGGGTAGAATTACCGAAATACCC
52396587 CTGTAGGGTAGAATTACCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
*
52396614 CTGTAGGGTAGAATTATCGAAATACCC
1 CTGTAGGGTAGAATTACCGAAATACCC
*
52396641 TTGTA-GGTAGAATTACCGAAA
1 CTGTAGGGTAGAATTACCGAAA
52396662 CAACCATTCA
Statistics
Matches: 235, Mismatches: 29, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
26 15 0.06
27 220 0.94
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACCGAAATACCC
Found at i:52398382 original size:2 final size:2
Alignment explanation
Indices: 52398375--52398402 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
52398365 GTATTAGCAT
52398375 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
52398403 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:52401306 original size:39 final size:40
Alignment explanation
Indices: 52401253--52401359 Score: 107
Period size: 39 Copynumber: 2.8 Consensus size: 40
52401243 GAATTCAATC
* * *
52401253 ACCAACACAAAGCCTAGGGATTC-TAAGCTCAG-ATATAGT
1 ACCAGCACGAAGCCTAGGGATCCTTAAG-TCAGAATATAGT
* *
52401292 ACCAGTACGAAGCCT-GCGGA-CCTTAAGTCCGAATATAGT
1 ACCAGCACGAAGCCTAG-GGATCCTTAAGTCAGAATATAGT
*
52401331 ACCAGCACGAAGCCTACGGAT-CTTAAGTC
1 ACCAGCACGAAGCCTAGGGATCCTTAAGTC
52401360 TGGATACAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
38 5 0.09
39 51 0.91
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.20
Consensus pattern (40 bp):
ACCAGCACGAAGCCTAGGGATCCTTAAGTCAGAATATAGT
Found at i:52401408 original size:40 final size:40
Alignment explanation
Indices: 52401332--52401784 Score: 456
Period size: 40 Copynumber: 11.4 Consensus size: 40
52401322 GAATATAGTA
* * * *
52401332 CCAGCACGAAGCCTACGGATC-TTAAGTCTGGATACAATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
* *
52401371 CTAGCACGAAGCCTGCGGGTCTTTAAGCCCAGATACAATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
* * *
52401411 CTAGCACGAAGCCTGTGGGTCTTTAAGCCTGGATACAATTT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAA-TT
** * * *
52401452 CCA-CACGAAGCCT-ATGGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
* *
52401490 CCAGCACAAAGCCTGCGGGTCTTTAAGCCCGGATATAATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
*
52401530 CCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGA-AGCCTGCGGGTCTTTAAGCCCGGATACAATT
* * * * * *
52401570 CTAGCAAGAAGCTTGC-GGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
* * * *
52401609 CCAGCACGAAGCCTGC-GGACCTTAAGTTCC-AATACAATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAG-CCCGGATACAATT
* * * * *
52401648 CCAGCACAAAGCCTGCAGGTCTTTAAGCCCGAATATAGTT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
* * *
52401688 CCAGCA-TATAGCCTGCAGGTCTTTAAGCCCGAATACAATT
1 CCAGCACGA-AGCCTGCGGGTCTTTAAGCCCGGATACAATT
* * * *
52401728 CCAGCACGAAGCTTGC-GGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
52401767 CCAGCACGAAGCCTGCGG
1 CCAGCACGAAGCCTGCGG
52401785 ACCTTAAGTC
Statistics
Matches: 351, Mismatches: 51, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
38 5 0.01
39 148 0.42
40 192 0.55
41 6 0.02
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
Found at i:52401486 original size:119 final size:118
Alignment explanation
Indices: 52401332--52401784 Score: 509
Period size: 119 Copynumber: 3.8 Consensus size: 118
52401322 GAATATAGTA
* * * * *
52401332 CCAGCACGAAGCCTACGGATCTTAAGTCTGGATACAATTCTAGCACGAAGCCTGCGGGTCTTTAA
1 CCAGCACGAAGCCTACGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGC-GGACCTTAA
* * *
52401397 GCCCAGATACAATTCTAGCACGAAGCCTGTGGGTCTTTAAGCCTGGATACAATTT
65 GCCCAGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAA-TT
* * * *
52401452 CCA-CACGAAGCCTATGGACCTTAAGTCCGGATACAATTCCAGCACAAAGCCTGCGGGTCTTTAA
1 CCAGCACGAAGCCTACGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGC-GGACCTTAA
* * *
52401516 GCCCGGATATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATACAATT
65 GCCCAGATACAATTCCAGCACGA-AGCCTGCGGGTCTTTAAGCCCGGATACAATT
* * * *
52401570 CTAGCAAGAAGCTTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAG
1 CCAGCACGAAGCCTACGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAG
* * * * * *
52401635 TTCCA-ATACAATTCCAGCACAAAGCCTGCAGGTCTTTAAGCCCGAATATAGTT
66 -CCCAGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
* * * * * * *
52401688 CCAGCA-TATAGCCTGCAGGTCTTTAAGCCCGAATACAATTCCAGCACGAAGCTTGCGGACCTTA
1 CCAGCACGA-AGCCTAC-GGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTA
* *
52401752 AGTCCGGATACAATTCCAGCACGAAGCCTGCGG
64 AGCCCAGATACAATTCCAGCACGAAGCCTGCGG
52401785 ACCTTAAGTC
Statistics
Matches: 288, Mismatches: 38, Indels: 15
0.84 0.11 0.04
Matches are distributed among these distances:
117 1 0.00
118 67 0.23
119 217 0.75
120 3 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (118 bp):
CCAGCACGAAGCCTACGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAG
CCCAGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
Found at i:52401617 original size:158 final size:158
Alignment explanation
Indices: 52401293--52401803 Score: 692
Period size: 158 Copynumber: 3.2 Consensus size: 158
52401283 AGATATAGTA
* * * * * * *
52401293 CCAGTACGAAGCCTGCGGACCTTAAGTCCGAATATAGTACCAGCACGAAGCCTACGGATC-TTAA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGAATACAATTCCAGCACAAAGCCTGCGGGTCTTTAA
* * * * * *
52401357 GTCTGGATACAATTCTAGCACGA-AGCCTGCGGGTCTTTAAGCCCAGATACAATTCTAGCACGAA
66 GCCCGGATATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATACAATTCTAGCACGAA
* *
52401421 GCCTGTG-GGTCTTTAAG-CCTGGATACAATTT
130 G-CT-TGCGGACCTTAAGTCC-GGATACAA-TT
** *
52401452 CCA-CACGAAGCCTATGGACCTTAAGTCCGGATACAATTCCAGCACAAAGCCTGCGGGTCTTTAA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGAATACAATTCCAGCACAAAGCCTGCGGGTCTTTAA
*
52401516 GCCCGGATATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATACAATTCTAGCAAGAAG
66 GCCCGGATATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATACAATTCTAGCACGAAG
52401581 CTTGCGGACCTTAAGTCCGGATACAATT
131 CTTGCGGACCTTAAGTCCGGATACAATT
*
52401609 CCAGCACGAAGCCTGCGGACCTTAAGTTCC-AATACAATTCCAGCACAAAGCCTGCAGGTCTTTA
1 CCAGCACGAAGCCTGCGGACCTTAAG-TCCGAATACAATTCCAGCACAAAGCCTGCGGGTCTTTA
* * * * *
52401673 AGCCCGAATATAGTTCCAGCATATAGCCTGCAGGTCTTTAAGCCCGAATACAATTCCAGCACGAA
65 AGCCCGGATATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATACAATTCTAGCACGAA
52401738 GCTTGCGGACCTTAAGTCCGGATACAATT
130 GCTTGCGGACCTTAAGTCCGGATACAATT
52401767 CCAGCACGAAGCCTGCGGACCTTAAGTCCGATATACA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGA-ATACA
52401804 TCAAATATCA
Statistics
Matches: 315, Mismatches: 29, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
157 10 0.03
158 232 0.74
159 73 0.23
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (158 bp):
CCAGCACGAAGCCTGCGGACCTTAAGTCCGAATACAATTCCAGCACAAAGCCTGCGGGTCTTTAA
GCCCGGATATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATACAATTCTAGCACGAAG
CTTGCGGACCTTAAGTCCGGATACAATT
Found at i:52413941 original size:23 final size:24
Alignment explanation
Indices: 52413912--52413978 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
52413902 GATCTTTGTA
52413912 AGCTTCCTGATA-GGCTCTACGTG
1 AGCTTCCTGATATGGCTCTACGTG
* * **
52413935 AGCTTCCCGATATGGTTCTTTGTG
1 AGCTTCCTGATATGGCTCTACGTG
*
52413959 AACTTCCTGATTATGGCTCT
1 AGCTTCCTGA-TATGGCTCT
52413979 TATGAGCTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
23 11 0.31
24 16 0.46
25 8 0.23
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.37
Consensus pattern (24 bp):
AGCTTCCTGATATGGCTCTACGTG
Found at i:52413988 original size:24 final size:23
Alignment explanation
Indices: 52413912--52414059 Score: 70
Period size: 24 Copynumber: 6.2 Consensus size: 23
52413902 GATCTTTGTA
52413912 AGCTTCCTGATA-GGCTC-TACGTG
1 AGCTTCCTGATATGGCTCTTA--TG
* * *
52413935 AGCTTCCCGATATGGTTCTTTGTG
1 AGCTTCCTGATATGGCTC-TTATG
*
52413959 AACTTCCTGATTATGGCTCTTATG
1 AGCTTCCTGA-TATGGCTCTTATG
* * * *
52413983 AGCTTCCCGTCATATAGC-CTGGATA
1 AGCTT-CC-TGATATGGCTCT-TATG
*
52414008 AGCTTCCTGA-AAGGCTCTTTATG
1 AGCTTCCTGATATGGCTC-TTATG
* * * *
52414031 AGTTTCCTGAAATTGCTCTGTGTG
1 AGCTTCCTGATATGGCTCT-TATG
52414055 AGCTT
1 AGCTT
52414060 TCCATTACAA
Statistics
Matches: 92, Mismatches: 22, Indels: 21
0.68 0.16 0.16
Matches are distributed among these distances:
22 3 0.03
23 26 0.28
24 39 0.42
25 21 0.23
26 3 0.03
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (23 bp):
AGCTTCCTGATATGGCTCTTATG
Found at i:52414896 original size:19 final size:19
Alignment explanation
Indices: 52414859--52414898 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
52414849 AAATATTGGC
* *
52414859 TTGATTTAAATGTCTTTAT
1 TTGATTTAAATGGCCTTAT
52414878 TTGATTTAAATGGCCTTAT
1 TTGATTTAAATGGCCTTAT
52414897 TT
1 TT
52414899 TGTCCATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.25, C:0.07, G:0.12, T:0.55
Consensus pattern (19 bp):
TTGATTTAAATGGCCTTAT
Found at i:52419394 original size:20 final size:20
Alignment explanation
Indices: 52419356--52419397 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
52419346 CCACAAGACC
52419356 AATGAAGCAACCTAGGAAACA
1 AATGAAGCAA-CTAGGAAACA
52419377 AATGAAGCAA-TGAGGAAACA
1 AATGAAGCAACT-AGGAAACA
52419397 A
1 A
52419398 TATCTTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.55, C:0.14, G:0.21, T:0.10
Consensus pattern (20 bp):
AATGAAGCAACTAGGAAACA
Found at i:52423493 original size:43 final size:43
Alignment explanation
Indices: 52423413--52423572 Score: 148
Period size: 43 Copynumber: 3.7 Consensus size: 43
52423403 ATCTCATACA
* * * *
52423413 ATGCCAACATCCCAGACGTGGTCTTACATGTACTCAAATATTG
1 ATGCCAACATCCCAGACGTGGTCTTACACGAAATCAAATATCG
52423456 ATGCC-ACTATCCCAGACAG-GGTCTTACACGAAATCAAATA-CG
1 ATGCCAAC-ATCCCAGAC-GTGGTCTTACACGAAATCAAATATCG
* * * * * *
52423498 ATTCCAACGTCTCAGACATGGTCTTACATGTAAATCATAA-GTCG
1 ATGCCAACATCCCAGACGTGGTCTTACACG-AAATCA-AATATCG
**
52423542 ATGCCAATGTCCCAGACGTGGTCTTACACGA
1 ATGCCAACATCCCAGACGTGGTCTTACACGA
52423573 TGACACATAT
Statistics
Matches: 95, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
42 24 0.25
43 41 0.43
44 30 0.32
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACATCCCAGACGTGGTCTTACACGAAATCAAATATCG
Found at i:52423569 original size:86 final size:85
Alignment explanation
Indices: 52423416--52423572 Score: 201
Period size: 86 Copynumber: 1.8 Consensus size: 85
52423406 TCATACAATG
* * * *
52423416 CCAACATCCCAGACGTGGTCTTACATGTACTCAAATATTGATGCCACTATCCCAGACAGGGTCTT
1 CCAACATCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCAATATCCCAGACAGGGTCTT
52423481 ACACGAAATCAAATACGATT
66 ACACGAAATCAAATACGATT
* * * *
52423501 CCAACGTCTCAGACATGGTCTTACATGTAAATCATAA-GTCGATGCCAATGTCCCAGAC-GTGGT
1 CCAACATCCCAGACATGGTCTTACATGT-AATCA-AATATCGATGCCAATATCCCAGACAG-GGT
52423564 CTTACACGA
63 CTTACACGA
52423573 TGACACATAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
85 26 0.43
86 33 0.54
87 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (85 bp):
CCAACATCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCAATATCCCAGACAGGGTCTT
ACACGAAATCAAATACGATT
Found at i:52435966 original size:6 final size:6
Alignment explanation
Indices: 52435950--52435998 Score: 55
Period size: 6 Copynumber: 8.0 Consensus size: 6
52435940 TATAAACACC
* *
52435950 TATTATT TATTTT TATTATT TA-TTT TATTTT TATCTT TATTTA TATTTT
1 TATT-TT TATTTT TATT-TT TATTTT TATTTT TATTTT TATTTT TATTTT
52435999 GAAATTACTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
5 4 0.11
6 24 0.67
7 8 0.22
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (6 bp):
TATTTT
Found at i:52435972 original size:17 final size:16
Alignment explanation
Indices: 52435952--52435998 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
52435942 TAAACACCTA
52435952 TTATTTATTTTTATTAT
1 TTATTTATTTTTA-TAT
*
52435969 TTATTTTATTTTTATCT
1 TTA-TTTATTTTTATAT
52435986 TTATTTATATTTT
1 TTATTTAT-TTTT
52435999 GAAATTACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 5 0.19
17 12 0.44
18 10 0.37
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (16 bp):
TTATTTATTTTTATAT
Found at i:52435978 original size:18 final size:17
Alignment explanation
Indices: 52435955--52435998 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
52435945 ACACCTATTA
52435955 TTTATTTTTATTATTTAT
1 TTTATTTTTA-TATTTAT
*
52435973 TTTATTTTTATCTTTAT
1 TTTATTTTTATATTTAT
52435990 TTATATTTT
1 TT-TATTTT
52435999 GAAATTACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTATTTTTATATTTAT
Found at i:52439693 original size:40 final size:40
Alignment explanation
Indices: 52439472--52439689 Score: 341
Period size: 40 Copynumber: 5.5 Consensus size: 40
52439462 AAACCAAGTA
* * *
52439472 CCTTCGGGAATTAG-CCGGATATAGCT-ACTCACTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
52439511 CCTTCGGGATTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
52439551 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
52439591 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
52439631 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
52439671 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
52439690 TTATCATCCG
Statistics
Matches: 167, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
39 14 0.08
40 153 0.92
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:52442946 original size:40 final size:40
Alignment explanation
Indices: 52442884--52443101 Score: 300
Period size: 40 Copynumber: 5.5 Consensus size: 40
52442874 AAACCAAGTA
* * * *
52442884 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
52442923 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
52442963 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
52443003 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCAAAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
52443043 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
52443083 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
52443102 TTATCATCCG
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 14 0.09
40 150 0.91
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:52444244 original size:20 final size:20
Alignment explanation
Indices: 52444219--52444256 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52444209 GTTTATTCGC
*
52444219 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
52444239 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
52444257 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:52452162 original size:20 final size:20
Alignment explanation
Indices: 52452137--52452174 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52452127 GTTTATTCGC
*
52452137 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
52452157 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
52452175 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:52454188 original size:29 final size:29
Alignment explanation
Indices: 52454126--52454228 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
52454116 GTGACGAGAT
* * *
52454126 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
52454155 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
52454184 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
52454213 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
52454229 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:52461942 original size:57 final size:57
Alignment explanation
Indices: 52461854--52461993 Score: 190
Period size: 57 Copynumber: 2.5 Consensus size: 57
52461844 CGTATTACAA
* * *
52461854 GATTACCAGTCCAGGCTAAATCTTTTATGTAACATATGCTCAGAAGGGCCCAATTAG
1 GATTACCAGTCCAGGCTAAATCCTTTATGTAACATATGCTCAAAAGAGCCCAATTAG
* * *
52461911 GATTACCAGTCCATGCTAAATCCTTTATGTAACGTATGCTCAAAAGAGCTCAATTAG
1 GATTACCAGTCCAGGCTAAATCCTTTATGTAACATATGCTCAAAAGAGCCCAATTAG
* * * *
52461968 GATTTCCCGTTCGGGCTAAATCCTTT
1 GATTACCAGTCCAGGCTAAATCCTTT
52461994 CTATAATAAG
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 72 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (57 bp):
GATTACCAGTCCAGGCTAAATCCTTTATGTAACATATGCTCAAAAGAGCCCAATTAG
Found at i:52482806 original size:13 final size:13
Alignment explanation
Indices: 52482788--52482812 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52482778 ATAAATTGAG
52482788 AAATTTAACATGC
1 AAATTTAACATGC
52482801 AAATTTAACATG
1 AAATTTAACATG
52482813 GAAAAACCAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (13 bp):
AAATTTAACATGC
Found at i:52496468 original size:41 final size:41
Alignment explanation
Indices: 52496423--52496540 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
52496413 TGAAAGATAA
52496423 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
52496464 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
52496494 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
52496535 ATGTAG
1 ATGTAG
52496541 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:52496479 original size:71 final size:71
Alignment explanation
Indices: 52496391--52496554 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
52496381 GAGATGTATC
52496391 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
52496456 AGGACA
66 AGGACA
52496462 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
52496527 AGGACA
66 AGGACA
52496533 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
52496555 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:52501999 original size:40 final size:40
Alignment explanation
Indices: 52501954--52502121 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
52501944 CGGAATATAA
52501954 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
52501994 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
52502034 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
52502074 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
52502114 CCGGATAT
1 CCGGATAT
52502122 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:52511171 original size:49 final size:50
Alignment explanation
Indices: 52511091--52511191 Score: 186
Period size: 49 Copynumber: 2.0 Consensus size: 50
52511081 TGGGCTTAGA
52511091 AAGTTCGAACATAAAAAAAATTGTTAATAAATAAAATAATTATCTGAAGT
1 AAGTTCGAACATAAAAAAAATTGTTAATAAATAAAATAATTATCTGAAGT
*
52511141 AAGTTCGAACAT-AAAAAATTTGTTAATAAATAAAATAATTATCTGAAGT
1 AAGTTCGAACATAAAAAAAATTGTTAATAAATAAAATAATTATCTGAAGT
52511190 AA
1 AA
52511192 ATTATTAACA
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 38 0.76
50 12 0.24
ACGTcount: A:0.53, C:0.06, G:0.10, T:0.31
Consensus pattern (50 bp):
AAGTTCGAACATAAAAAAAATTGTTAATAAATAAAATAATTATCTGAAGT
Found at i:52518612 original size:40 final size:40
Alignment explanation
Indices: 52518566--52518733 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
52518556 CGGGATATAA
52518566 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
52518606 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
52518646 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * * * *
52518686 CCGAATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
52518726 CCGGATAT
1 CCGGATAT
52518734 CATTCAATTT
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 104 0.99
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:52526944 original size:29 final size:29
Alignment explanation
Indices: 52526903--52527027 Score: 180
Period size: 29 Copynumber: 4.3 Consensus size: 29
52526893 GAAAGCATGT
* *
52526903 ATATGAATGTGATTTGGGCTTAATGGGCT
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
52526932 GTATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
52526961 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
52526990 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
52527018 ATATGCATGT
1 ATATGAATGT
52527028 ATGTAGACTT
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 23 0.27
29 63 0.73
ACGTcount: A:0.24, C:0.13, G:0.32, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:52531721 original size:39 final size:40
Alignment explanation
Indices: 52531630--52531848 Score: 318
Period size: 40 Copynumber: 5.5 Consensus size: 40
52531620 AACCCAAGTA
* *
52531630 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* * *
52531669 CCTTTGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
52531709 CCTTC-GAACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
52531748 CCTTCGGGACTTAGCCCGAATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
52531788 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
52531828 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
52531849 GTCATTCGAA
Statistics
Matches: 160, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 46 0.29
40 111 0.69
41 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:52531761 original size:79 final size:80
Alignment explanation
Indices: 52531630--52531848 Score: 327
Period size: 79 Copynumber: 2.8 Consensus size: 80
52531620 AACCCAAGTA
* * * * *
52531630 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTTGGGTCTTAGCCCGGATATA
1 CCTTCGGAACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
52531693 GTCAATAGCACAAAAG
65 GTCAATAGCACAAAAG
*
52531709 CCTTC-GAACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGAATATAG
1 CCTTCGGAACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
52531773 TCAATAGCACAAATG
66 TCAATAGCACAAAAG
* *
52531788 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAT
1 CCTTCGGAACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAT
52531849 GTCATTCGAA
Statistics
Matches: 127, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
78 6 0.05
79 68 0.54
80 53 0.42
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.23
Consensus pattern (80 bp):
CCTTCGGAACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAAAG
Found at i:52535368 original size:28 final size:29
Alignment explanation
Indices: 52535285--52535380 Score: 140
Period size: 29 Copynumber: 3.3 Consensus size: 29
52535275 GAAAGCATGT
52535285 ATATGAATGTGATTTGGGTCTAATGGGCC
1 ATATGAATGTGATTTGGGTCTAATGGGCC
* *
52535314 GTATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGTCTAATGGGCC
* *
52535343 ATATGAATGAGA-TTGGGTCTAGTGGGCC
1 ATATGAATGTGATTTGGGTCTAATGGGCC
*
52535371 ATATGCATGT
1 ATATGAATGT
52535381 ATGTAGACTT
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 22 0.37
29 37 0.63
ACGTcount: A:0.24, C:0.11, G:0.32, T:0.32
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGTCTAATGGGCC
Found at i:52537453 original size:30 final size:30
Alignment explanation
Indices: 52537419--52537478 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
52537409 ATAGGCATAG
*
52537419 CTTAAATTTGAAGACATAACTTGCACATTT
1 CTTAAATTTGAAGACATAACTTACACATTT
*
52537449 CTTAATTTTGAAGACATAACTTACACATTT
1 CTTAAATTTGAAGACATAACTTACACATTT
52537479 TCAATCTTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38
Consensus pattern (30 bp):
CTTAAATTTGAAGACATAACTTACACATTT
Found at i:52548145 original size:24 final size:24
Alignment explanation
Indices: 52548113--52548171 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
52548103 TTGTAACACC
52548113 CCAAATTTGGCCTGGATGTTATGG
1 CCAAATTTGGCCTGGATGTTATGG
52548137 CCAAATTTGGCCTGGATGTTATGG
1 CCAAATTTGGCCTGGATGTTATGG
52548161 CCAAATTTGGC
1 CCAAATTTGGC
52548172 GATGTCACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (24 bp):
CCAAATTTGGCCTGGATGTTATGG
Found at i:52548872 original size:18 final size:17
Alignment explanation
Indices: 52548851--52548912 Score: 70
Period size: 18 Copynumber: 3.5 Consensus size: 17
52548841 ATATTGATCT
*
52548851 GTGCAGTAGCAGTAATCA
1 GTGCAGTAACA-TAATCA
*
52548869 GTGCAGTAACCATGATCA
1 GTGCAGTAA-CATAATCA
*
52548887 ATGCAGTAACAATAATCA
1 GTGCAGTAAC-ATAATCA
52548905 GTGCAGTA
1 GTGCAGTA
52548913 CCCATGATCA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 1 0.03
18 34 0.92
19 2 0.05
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (17 bp):
GTGCAGTAACATAATCA
Found at i:52548885 original size:36 final size:36
Alignment explanation
Indices: 52548852--52548930 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
52548842 TATTGATCTG
* *
52548852 TGCAGTAGCAGTAATCAGTGCAGTAACCATGATCAA
1 TGCAGTAACAATAATCAGTGCAGTAACCATGATCAA
*
52548888 TGCAGTAACAATAATCAGTGCAGTACCCATGATCAA
1 TGCAGTAACAATAATCAGTGCAGTAACCATGATCAA
*
52548924 TGTAGTA
1 TGCAGTA
52548931 TGCAAGCAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (36 bp):
TGCAGTAACAATAATCAGTGCAGTAACCATGATCAA
Found at i:52548922 original size:18 final size:18
Alignment explanation
Indices: 52548865--52548922 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
52548855 AGTAGCAGTA
52548865 ATCAGTGCAGTAACCATG
1 ATCAGTGCAGTAACCATG
* * *
52548883 ATCAATGCAGTAACAATA
1 ATCAGTGCAGTAACCATG
*
52548901 ATCAGTGCAGTACCCATG
1 ATCAGTGCAGTAACCATG
52548919 ATCA
1 ATCA
52548923 ATGTAGTATG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.22
Consensus pattern (18 bp):
ATCAGTGCAGTAACCATG
Found at i:52548930 original size:18 final size:18
Alignment explanation
Indices: 52548865--52548930 Score: 78
Period size: 18 Copynumber: 3.7 Consensus size: 18
52548855 AGTAGCAGTA
*
52548865 ATCAGTGCAGTAACCATG
1 ATCAATGCAGTAACCATG
* *
52548883 ATCAATGCAGTAACAATA
1 ATCAATGCAGTAACCATG
* *
52548901 ATCAGTGCAGTACCCATG
1 ATCAATGCAGTAACCATG
*
52548919 ATCAATGTAGTA
1 ATCAATGCAGTA
52548931 TGCAAGCAGA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (18 bp):
ATCAATGCAGTAACCATG
Found at i:52549318 original size:27 final size:27
Alignment explanation
Indices: 52549262--52549400 Score: 124
Period size: 27 Copynumber: 5.1 Consensus size: 27
52549252 ACCTTACCGA
* * *
52549262 GGTATTACATTCATTCTACCCTA-CAGG
1 GGTATTTCAGTCATTCTACCCTATGA-G
52549289 GGTATTTCAGTCATTCTACCCTATGAG
1 GGTATTTCAGTCATTCTACCCTATGAG
* *
52549316 GGTATTTC-GATCGTTTTACCCTATGAG
1 GGTATTTCAG-TCATTCTACCCTATGAG
*
52549343 GGTATTTCGGTCATT-TAACCCTAT-ACG
1 GGTATTTCAGTCATTCT-ACCCTATGA-G
* * * *
52549370 GCTATTTCGGTCATTTTACCCTATAAG
1 GGTATTTCAGTCATTCTACCCTATGAG
52549397 GGTA
1 GGTA
52549401 AAATAGTCAT
Statistics
Matches: 97, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
26 3 0.03
27 90 0.93
28 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTATTTCAGTCATTCTACCCTATGAG
Found at i:52549336 original size:54 final size:54
Alignment explanation
Indices: 52549272--52549400 Score: 140
Period size: 54 Copynumber: 2.4 Consensus size: 54
52549262 GGTATTACAT
* *
52549272 TCATTCTACCCTACAG-GGGTATTTCAGTCATTCT-ACCCTATGA-GGGTATTTCGA
1 TCATTTTACCCTA-AGAGGGTATTTCAGTCATT-TAACCCTAT-ACGGCTATTTCGA
* * * *
52549326 TCGTTTTACCCTATGAGGGTATTTCGGTCATTTAACCCTATACGGCTATTTCGG
1 TCATTTTACCCTAAGAGGGTATTTCAGTCATTTAACCCTATACGGCTATTTCGA
52549380 TCATTTTACCCTATA-AGGGTA
1 TCATTTTACCCTA-AGAGGGTA
52549401 AAATAGTCAT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
53 3 0.05
54 60 0.95
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (54 bp):
TCATTTTACCCTAAGAGGGTATTTCAGTCATTTAACCCTATACGGCTATTTCGA
Found at i:52552143 original size:17 final size:17
Alignment explanation
Indices: 52552106--52552145 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
52552096 TATCAAAGGT
* * *
52552106 ATTTACTTTAAAATGTT
1 ATTTATTTTAAAATCTC
52552123 ATTTATTTTAAAATCTC
1 ATTTATTTTAAAATCTC
52552140 ATTTAT
1 ATTTAT
52552146 CGTGGAAGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (17 bp):
ATTTATTTTAAAATCTC
Found at i:52557315 original size:48 final size:48
Alignment explanation
Indices: 52557130--52557312 Score: 219
Period size: 48 Copynumber: 3.8 Consensus size: 48
52557120 GAGATTTCGC
* *
52557130 GTAAGACCATGTTTGGGACATGGCATCAG-TATCCGAGATATGTGCCTA-T
1 GTAAGACCATGTCTGGGACATGGCATCAGCTAT--GATATATGTGCC-AGT
* *
52557179 GTAAGACCATGTTTGGGACATGGCATC-GATGATGATATATGTGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCAGCT-ATGATATATGTGCCAGT
* ** * * *
52557227 GTAAGACCATGTCTAGGACATGGCATTGGCGACGATATGTGTGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCAGCTATGATATATGTGCCAGT
52557275 GTAAGACCATGTCTGGGACATGGCATCAGCTATGATAT
1 GTAAGACCATGTCTGGGACATGGCATCAGCTATGATAT
52557313 GTGGATTCAT
Statistics
Matches: 117, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
47 1 0.01
48 85 0.73
49 29 0.25
50 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.27
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATCAGCTATGATATATGTGCCAGT
Found at i:52557328 original size:96 final size:96
Alignment explanation
Indices: 52557170--52557351 Score: 228
Period size: 96 Copynumber: 1.9 Consensus size: 96
52557160 ATCCGAGATA
* *
52557170 TGTGCCTATGTAAGACCATGTTTGGGACATGGCATCGATGATGATATATGTGCCAGTGTAAGACC
1 TGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGATGATGATATATGTGCCAGTCTAAGACC
* *
52557235 ATGTCTAGGACATGGCATTGGCGACGATATG
66 ATGTCGAGGACATGACATTGGCGACGATATG
* * *
52557266 TGTGCC-AGTGTAAGACCATGTCTGGGACATGGCATCAGCT-ATGATATGTG-GATTCA-TCTAA
1 TGTGCCTA-TGTAAGACCATGTCTGGGACATGGCATC-GATGATGATATATGTG--CCAGTCTAA
*
52557327 GACCATGTCGGGGACATGACATTGG
62 GACCATGTCGAGGACATGACATTGG
52557352 TACTTTATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
95 2 0.03
96 68 0.92
97 4 0.05
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (96 bp):
TGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGATGATGATATATGTGCCAGTCTAAGACC
ATGTCGAGGACATGACATTGGCGACGATATG
Found at i:52559130 original size:141 final size:142
Alignment explanation
Indices: 52558871--52559165 Score: 556
Period size: 141 Copynumber: 2.1 Consensus size: 142
52558861 TGAGTTAAAT
*
52558871 TTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
*
52558936 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTTTTGTTGTTA-TGTGTG
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTAGTGTGTG
52559000 TGTGCATGAGTA
131 TGTGCATGAGTA
52559012 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
52559077 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTA-GTGTGT
52559142 GTGTGCATGAGTA
130 GTGTGCATGAGTA
52559155 TTCGGCCATGC
1 TTCGGCCATGC
52559166 TATAGAATTT
Statistics
Matches: 150, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
141 121 0.81
143 29 0.19
ACGTcount: A:0.21, C:0.10, G:0.29, T:0.39
Consensus pattern (142 bp):
TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTAGTGTGTG
TGTGCATGAGTA
Found at i:52559842 original size:29 final size:29
Alignment explanation
Indices: 52559809--52559940 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
52559799 GTGACGAGAT
*
52559809 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
52559838 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
52559867 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
52559896 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
52559925 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
52559941 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:52567036 original size:143 final size:143
Alignment explanation
Indices: 52566828--52567124 Score: 585
Period size: 143 Copynumber: 2.1 Consensus size: 143
52566818 TGAGTTAAAT
*
52566828 TTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
52566893 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
52566958 GTGTGCATGAGTA
131 GTGTGCATGAGTA
52566971 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
52567036 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
52567101 GTGTGCATGAGTA
131 GTGTGCATGAGTA
52567114 TTCGGCCATGC
1 TTCGGCCATGC
52567125 TATAGAATTT
Statistics
Matches: 153, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 153 1.00
ACGTcount: A:0.21, C:0.10, G:0.29, T:0.39
Consensus pattern (143 bp):
TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
GTGTGCATGAGTA
Found at i:52567801 original size:29 final size:29
Alignment explanation
Indices: 52567768--52567899 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
52567758 GTGACGAGAT
*
52567768 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
52567797 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
52567826 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
52567855 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
52567884 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
52567900 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:52576726 original size:142 final size:141
Alignment explanation
Indices: 52576520--52576813 Score: 554
Period size: 142 Copynumber: 2.1 Consensus size: 141
52576510 TGAGTTAAAT
*
52576520 TTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
52576585 GAGTGAGTTCGAATGTTTAAC-AAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTA--TGTGT
52576649 GTGTGCATGAGTA
129 GTGTGCATGAGTA
52576662 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
52576727 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
52576792 GTGCATGAGTA
131 GTGCATGAGTA
52576803 TTCGGCCATGC
1 TTCGGCCATGC
52576814 TATAGAATTT
Statistics
Matches: 150, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
141 29 0.19
142 85 0.57
143 36 0.24
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (141 bp):
TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
GTGCATGAGTA
Found at i:52577490 original size:29 final size:29
Alignment explanation
Indices: 52577457--52577588 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
52577447 GTGACGAGAT
*
52577457 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
52577486 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
52577515 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
52577544 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
52577573 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
52577589 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:52585194 original size:39 final size:40
Alignment explanation
Indices: 52585080--52585238 Score: 227
Period size: 39 Copynumber: 4.0 Consensus size: 40
52585070 ATGACTAGCT
*
52585080 CAAATGCCTTCGGGAC-AAACCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAA-CCCGGATT-TAGTAACTCGCA
* *
52585120 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
52585160 CAAATGCCTTCGGG-CTTAACCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
52585199 CAAATGCCTTCGGG-CTTAACCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
52585238 C
1 C
52585239 GAACACCTTC
Statistics
Matches: 112, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
39 63 0.56
40 45 0.40
41 4 0.04
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:52585194 original size:79 final size:79
Alignment explanation
Indices: 52585080--52585238 Score: 225
Period size: 79 Copynumber: 2.0 Consensus size: 79
52585070 ATGACTAGCT
*
52585080 CAAATGCCTTCGGGACAAACCCCGGTTATAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACAAACCCCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAACCCGG
*
52585145 GTTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* *
52585160 CAAATGCCTTCGGG-CTTAA-CCCGGATT-TATTAACTCGCACAAATGCCTTCGGGCTTAACCCG
1 CAAATGCCTTCGGGAC-AAACCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGCTTAACCCG
*
52585222 GATTTATTAACTCGCA
64 GATTTAGTAACTCGCA
52585238 C
1 C
52585239 GAACACCTTC
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
78 24 0.33
79 30 0.42
80 18 0.25
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACAAACCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGA
TTTAGTAACTCGCA
Found at i:52596972 original size:40 final size:40
Alignment explanation
Indices: 52596917--52597086 Score: 216
Period size: 40 Copynumber: 4.2 Consensus size: 40
52596907 AACATTGAAA
52596917 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
52596957 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
52596997 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * * *
52597036 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAATCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
52597077 CTATATCCGG
1 ATATATCCGG
52597087 TTAAATCCCG
Statistics
Matches: 110, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 2 0.02
40 108 0.98
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:52606776 original size:48 final size:48
Alignment explanation
Indices: 52606705--52606828 Score: 194
Period size: 48 Copynumber: 2.6 Consensus size: 48
52606695 ATGAGATTCC
* *
52606705 GTGTAAGCCCATGTCTGGGACATGGCATCAGCGATGATATATGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCGATAATATATGTGCCA
*
52606753 GTGTAAGACCATGTCTGGGACATGGCATCAGCGATAATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCGATAATATATGTGCCA
* * *
52606801 CTGTAAAACCATGTCTAGGACATGGCAT
1 GTGTAAGACCATGTCTGGGACATGGCAT
52606829 TGGCTATGAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCAGCGATAATATATGTGCCA
Found at i:52606841 original size:48 final size:48
Alignment explanation
Indices: 52606713--52606842 Score: 188
Period size: 48 Copynumber: 2.7 Consensus size: 48
52606703 CCGTGTAAGC
* * *
52606713 CCATGTCTGGGACATGGCATCAGCGATGATATATGTGCCAGTGTAAGA
1 CCATGTCTGGGACATGGCATCAGCGATGATATGTGTGCCACTGTAAAA
*
52606761 CCATGTCTGGGACATGGCATCAGCGATAATATGTGTGCCACTGTAAAA
1 CCATGTCTGGGACATGGCATCAGCGATGATATGTGTGCCACTGTAAAA
* ** *
52606809 CCATGTCTAGGACATGGCATTGGCTATGATATGT
1 CCATGTCTGGGACATGGCATCAGCGATGATATGT
52606843 TGTAACATCC
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (48 bp):
CCATGTCTGGGACATGGCATCAGCGATGATATGTGTGCCACTGTAAAA
Found at i:52607624 original size:15 final size:16
Alignment explanation
Indices: 52607588--52607624 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
52607578 ACATATCATT
52607588 TATTTCATTATATCAA
1 TATTTCATTATATCAA
52607604 TATTTCA-TATA-CAA
1 TATTTCATTATATCAA
52607618 TAGTTTC
1 TA-TTTC
52607625 CATGTATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 8 0.40
16 7 0.35
ACGTcount: A:0.35, C:0.14, G:0.03, T:0.49
Consensus pattern (16 bp):
TATTTCATTATATCAA
Found at i:52613024 original size:30 final size:30
Alignment explanation
Indices: 52612990--52613050 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52612980 TCCTTAACTC
52612990 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
52613020 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
52613050 A
1 A
52613051 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:52625167 original size:43 final size:43
Alignment explanation
Indices: 52625037--52625193 Score: 137
Period size: 43 Copynumber: 3.7 Consensus size: 43
52625027 TTCCGATATG
* * * *
52625037 TGATTTCGTGTAAG-ACAACGTCTGGGACGTTGGCATCG-ATT
1 TGATTTCGTGTAAGAACCATGTCTGGGACATCGGCATCGTATT
52625078 TGAGATTTACGTGTAAG-ACCATGTCTGGGACATCGGCATCGTATT
1 T--GATTT-CGTGTAAGAACCATGTCTGGGACATCGGCATCGTATT
* * *
52625123 TGATTTCGTGTAAGAACC-TGTTTGGGATAGT-GGCATTGATATT
1 TGATTTCGTGTAAGAACCATGTCTGGGACA-TCGGCATCG-TATT
* * *
52625166 TGATTACATGTAAG-ACCACGTCTGGGAC
1 TGATTTCGTGTAAGAACCATGTCTGGGAC
52625194 GTTGGCTTTG
Statistics
Matches: 96, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.27
43 37 0.39
44 28 0.29
45 4 0.04
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (43 bp):
TGATTTCGTGTAAGAACCATGTCTGGGACATCGGCATCGTATT
Found at i:52627557 original size:43 final size:43
Alignment explanation
Indices: 52627432--52627557 Score: 216
Period size: 43 Copynumber: 2.9 Consensus size: 43
52627422 CACATGTATC
* *
52627432 GCATCCATTATGAACTCGGACCACTCAACGAGCTTGGATATTT
1 GCATCCATAATGAACTCGGACCACTCAACGAGCTTGGATGTTT
* *
52627475 GCATCCATAATGAAGTCGGACCACTCAACGAGCTCGGATGTTT
1 GCATCCATAATGAACTCGGACCACTCAACGAGCTTGGATGTTT
52627518 GCATCCATAATGAACTCGGACCACTCAACGAGCTTGGATG
1 GCATCCATAATGAACTCGGACCACTCAACGAGCTTGGATG
52627558 CCACGAATAT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 77 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (43 bp):
GCATCCATAATGAACTCGGACCACTCAACGAGCTTGGATGTTT
Found at i:52630897 original size:29 final size:29
Alignment explanation
Indices: 52630832--52630889 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
52630822 GTTAGAGTTA
52630832 TGCATATCATCTAAATGCACTATATATAT
1 TGCATATCATCTAAATGCACTATATATAT
*
52630861 TGCATATCATCTAAATGCACGATATATAT
1 TGCATATCATCTAAATGCACTATATATAT
52630890 ATTCTATCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (29 bp):
TGCATATCATCTAAATGCACTATATATAT
Found at i:52634392 original size:6 final size:6
Alignment explanation
Indices: 52634381--52634416 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
52634371 TAAAAGGAGC
* *
52634381 TTTTAT TTTTAT TTTTAT TTTCAA TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
52634417 GTTCAATAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:52634410 original size:18 final size:18
Alignment explanation
Indices: 52634387--52634423 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
52634377 GAGCTTTTAT
*
52634387 TTTTATTTTTATTTTCAA
1 TTTTATTTTTATGTTCAA
52634405 TTTTATTTTTATGTTCAA
1 TTTTATTTTTATGTTCAA
52634423 T
1 T
52634424 AAGAGGGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTTATTTTTATGTTCAA
Found at i:52636524 original size:60 final size:61
Alignment explanation
Indices: 52636346--52636498 Score: 247
Period size: 60 Copynumber: 2.5 Consensus size: 61
52636336 TCAAAGTAAA
* *
52636346 GGCTCACATATAATAGAGAACAACCAC-AAGGCTTCCACATATAACATATTCCACCACTAG
1 GGCTCACATATATTAGAGAATAACCACAAAGGCTTCCACATATAACATATTCCACCACTAG
* * *
52636406 GGCTCACATATATTAGACAGTAACCATAAAGGCTTCCACATATAACATATTCCACCACT-G
1 GGCTCACATATATTAGAGAATAACCACAAAGGCTTCCACATATAACATATTCCACCACTAG
52636466 GGCTCACATATATTAGAGAATAACCACAAAGGC
1 GGCTCACATATATTAGAGAATAACCACAAAGGC
52636499 CTCGACATGC
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
60 53 0.63
61 31 0.37
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.22
Consensus pattern (61 bp):
GGCTCACATATATTAGAGAATAACCACAAAGGCTTCCACATATAACATATTCCACCACTAG
Found at i:52639572 original size:26 final size:26
Alignment explanation
Indices: 52639539--52639589 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
52639529 TCAACACACC
** *
52639539 AATATCGCAGCAAAGCTGCTAGTAAT
1 AATATCGCAAAAAAGCTGCCAGTAAT
52639565 AATATCGCAAAAAAGCTGCCAGTAA
1 AATATCGCAAAAAAGCTGCCAGTAA
52639590 CAGTAACACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.20
Consensus pattern (26 bp):
AATATCGCAAAAAAGCTGCCAGTAAT
Found at i:52639668 original size:35 final size:35
Alignment explanation
Indices: 52639629--52639701 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
52639619 TATATGTGGC
*
52639629 AAAGCCACCAGTAATAGTACACTTCCTCCTTAACA
1 AAAGCCACCAGTAACAGTACACTTCCTCCTTAACA
*
52639664 AAAGCCACCAGTAACAGTACACTTCCTTCTTAACA
1 AAAGCCACCAGTAACAGTACACTTCCTCCTTAACA
52639699 AAA
1 AAA
52639702 TTCTAACCCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.40, C:0.30, G:0.08, T:0.22
Consensus pattern (35 bp):
AAAGCCACCAGTAACAGTACACTTCCTCCTTAACA
Found at i:52647940 original size:25 final size:25
Alignment explanation
Indices: 52647907--52647957 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
52647897 GCTATTACAC
52647907 ATATATACACTAGCAATCAAATACT
1 ATATATACACTAGCAATCAAATACT
52647932 ATATATACACTAGCAATCAAATACT
1 ATATATACACTAGCAATCAAATACT
52647957 A
1 A
52647958 ACATTTGCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.20, G:0.04, T:0.27
Consensus pattern (25 bp):
ATATATACACTAGCAATCAAATACT
Found at i:52652749 original size:27 final size:26
Alignment explanation
Indices: 52652707--52652794 Score: 106
Period size: 27 Copynumber: 3.2 Consensus size: 26
52652697 AGGAAGTGTC
*
52652707 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
52652734 CTGGTGGCTCTACCACATATATCT-ATT
1 CTGGTGGCTCTGCCACAT-TATCTGA-T
52652761 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
52652789 CTGGTG
1 CTGGTG
52652795 ATTCTATTAC
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
26 3 0.06
27 40 0.75
28 9 0.17
29 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:52652811 original size:54 final size:54
Alignment explanation
Indices: 52652707--52652818 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
52652697 AGGAAGTGTC
*
52652707 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTATT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTATT
* * * ** *
52652761 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGATTCTATTAC-TTTATCTATT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTACCACATATATCTATT
52652815 CTGG
1 CTGG
52652819 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 36 0.72
55 14 0.28
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTATT
Found at i:52666140 original size:29 final size:29
Alignment explanation
Indices: 52666107--52666267 Score: 259
Period size: 29 Copynumber: 5.6 Consensus size: 29
52666097 CCTCCGAACT
** * * *
52666107 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
52666136 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
52666165 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
52666194 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
52666223 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
52666252 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
52666268 ATCTCGTCAC
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 123 1.00
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:52666169 original size:87 final size:87
Alignment explanation
Indices: 52666049--52666267 Score: 244
Period size: 87 Copynumber: 2.5 Consensus size: 87
52666039 ACCTCGATTT
** * * ** * *
52666049 CGCACACTTAGTGCCACGTAATTT-AAGCTCGCACACACAGTGCCATA-CCCTCCGAACTCGCAC
1 CGCACACTTAGTGCCAAAT-ATTTCCAGCACGCACACTTAGTGCCATATACCTCC-AACACGCAC
* * *
52666112 ACCCAGTGCCGTATTTTTCCAGCT
64 ACCCAGTGCCATATATTTCCAGCA
* ** *
52666136 TGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCATATACCTCCAACACGCACAC
**
52666201 TTAGTGCCATATATTTCCAGCA
66 CCAGTGCCATATATTTCCAGCA
*
52666223 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCA
52666268 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
86 4 0.04
87 104 0.94
88 3 0.03
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.25
Consensus pattern (87 bp):
CGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCATATACCTCCAACACGCACAC
CCAGTGCCATATATTTCCAGCA
Found at i:52674147 original size:28 final size:28
Alignment explanation
Indices: 52674082--52674182 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
52674072 ATAGTGAATC
*
52674082 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
52674111 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
52674139 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
52674169 CGCACACTTAGTGC
1 CGCACACTTAGTGC
52674183 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:52678415 original size:41 final size:41
Alignment explanation
Indices: 52678370--52678487 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
52678360 TGAAAGATAA
52678370 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
52678411 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
52678441 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
52678482 ATGTAG
1 ATGTAG
52678488 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:52678426 original size:71 final size:71
Alignment explanation
Indices: 52678338--52678501 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
52678328 GAGATGTATC
52678338 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
52678403 AGGACA
66 AGGACA
52678409 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
52678474 AGGACA
66 AGGACA
52678480 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
52678502 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:52682359 original size:137 final size:138
Alignment explanation
Indices: 52682113--52682393 Score: 447
Period size: 137 Copynumber: 2.0 Consensus size: 138
52682103 GAAAAATGAC
* * *
52682113 TTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATATTGACCGAAATTAATTATTA
1 TTATATTCCTTCCAAAAGAATATTAATTTCCATGTCTTTTATATATTGACCAAAATTAATTAATA
* *** *
52682178 TAATTGTTTATATTAATACATTTGGTAAAATATATACAATTAATA-TTTGTATGAATGAAATTCA
66 TAATTGTTTATATTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
52682242 TAAATTAA
131 TAAATTAA
*
52682250 TTATATTCCTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAATA
1 TTATATTCCTTCCAAAAGAATATTAATTTCCATGTCTTTTATATATTGACCAAAATTAATTAATA
*
52682315 TAATTGTTTATATTGATAAATTCAATAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
66 TAATTGTTTATATTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
*
52682380 TATATTAA
131 TAAATTAA
*
52682388 CTATAT
1 TTATAT
52682394 GTATGTTCTT
Statistics
Matches: 131, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
137 101 0.77
138 30 0.23
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (138 bp):
TTATATTCCTTCCAAAAGAATATTAATTTCCATGTCTTTTATATATTGACCAAAATTAATTAATA
TAATTGTTTATATTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
TAAATTAA
Found at i:52689250 original size:47 final size:46
Alignment explanation
Indices: 52689091--52689402 Score: 176
Period size: 47 Copynumber: 6.6 Consensus size: 46
52689081 ATATATTGCC
* * *
52689091 GATGCCATGTCCCAGACATCGTCTTACACTGGCTCTCATATATACGTGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCT-T-CGAGCT
* * * * * *
52689141 GATGCATGTCGCAGACATGTCTTACACTAGC-A-CAACTCCTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTTCGAGCT
* * *
52689185 GATGCGTGCCCCAGACATGTCTTACATTGGCTATC-TCTGTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCT-TCGA-GCT
* * *
52689232 GATGCATGTCCCAGACATGTCTTACTCTGGC-ACTCATC-TCTGTGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTA-TCATCTTC-GAGCT
* * *
52689278 GATGCCATGTCCCAAACATGGTCTTACA-TAGGCTCTCATAATAT-G-GCT
1 GATG-CATGTCCCAGACAT-GTCTTACACT-GGCTATCAT-CT-TCGAGCT
* * ** * *
52689326 GATACAT-TCCCCAGACATGTCTTACACTAGCCCTCGTC-TGGATGCT
1 GATGCATGT-CCCAGACATGTCTTACACTGGCTATCATCTTCGA-GCT
*
52689372 GATGCCATGTCCAAGACATGGTCTTACACTG
1 GATG-CATGTCCCAGACAT-GTCTTACACTG
52689403 ACTCGCATAA
Statistics
Matches: 202, Mismatches: 38, Indels: 46
0.71 0.13 0.16
Matches are distributed among these distances:
43 1 0.00
44 30 0.15
45 3 0.01
46 36 0.18
47 69 0.34
48 44 0.22
49 14 0.07
50 4 0.02
51 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTTCGAGCT
Found at i:52689339 original size:94 final size:92
Alignment explanation
Indices: 52689087--52689450 Score: 307
Period size: 94 Copynumber: 3.9 Consensus size: 92
52689077 TGGGATATAT
* * *
52689087 TGCCGATGCCATGTCCCAGACATCGTCTTACACTGGCTCTCATATATACGTGCTGATGCATGTCG
1 TGCCGATGCCATGTCCCAAACATGGTCTTACA-TGGCTCTCATA-ATA-G-GCTGATGCATGTCC
*
52689152 CAGACATGTCTTACACTAGCA--CAACTCCT-
62 CAGACATGTCTTACACTAGCACTCATCT-CTG
* * * * *
52689181 AGCCGATG-CGTGCCCCAGACAT-GTCTTACATTGGCTATCTC-T-GTCGAGGCTGATGCATGTC
1 TGCCGATGCCATGTCCCAAACATGGTCTTACA-TGGC--TCTCATAAT--AGGCTGATGCATGTC
* *
52689242 CCAGACATGTCTTACTCTGGCACTCATCTCTG
61 CCAGACATGTCTTACACTAGCACTCATCTCTG
*
52689274 TGCCGATGCCATGTCCCAAACATGGTCTTACATAGGCTCTCATAATATGGCTGATACAT-TCCCC
1 TGCCGATGCCATGTCCCAAACATGGTCTTACAT-GGCTCTCATAATA-GGCTGATGCATGT-CCC
* * *
52689338 AGACATGTCTTACACTAGCCCTCGTCT-GG
63 AGACATGTCTTACACTAGCACTCATCTCTG
* * * * ** *
52689367 ATGCTGATGCCATGT-CCAAGACATGGTCTTACACTGACTCGCATAATGTGGCCAAAGCATGTCC
1 -TGCCGATGCCATGTCCCAA-ACATGGTCTTACA-TGGCTCTCATAAT-AGGCTGATGCATGTCC
52689431 CAGACATGTCTTACACTAGC
62 CAGACATGTCTTACACTAGC
52689451 GCACAAATCA
Statistics
Matches: 223, Mismatches: 28, Indels: 38
0.77 0.10 0.13
Matches are distributed among these distances:
91 33 0.15
92 15 0.07
93 36 0.16
94 125 0.56
95 14 0.06
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (92 bp):
TGCCGATGCCATGTCCCAAACATGGTCTTACATGGCTCTCATAATAGGCTGATGCATGTCCCAGA
CATGTCTTACACTAGCACTCATCTCTG
Found at i:52700033 original size:44 final size:45
Alignment explanation
Indices: 52699982--52700067 Score: 138
Period size: 44 Copynumber: 1.9 Consensus size: 45
52699972 CCAAAACATG
*
52699982 TGTCACATATATCACGAACTC-GACCATAACTCAATGAGTTCGGA
1 TGTCACATATATCACGAACTCAGACCATAACTCAAAGAGTTCGGA
* *
52700026 TGTCACATATATCATGAACTCAGACCATGACTCAAAGAGTTC
1 TGTCACATATATCACGAACTCAGACCATAACTCAAAGAGTTC
52700068 AGATTTCATA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 20 0.53
45 18 0.47
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (45 bp):
TGTCACATATATCACGAACTCAGACCATAACTCAAAGAGTTCGGA
Found at i:52709144 original size:40 final size:40
Alignment explanation
Indices: 52709099--52709305 Score: 220
Period size: 40 Copynumber: 5.2 Consensus size: 40
52709089 CGGAATACAA
*
52709099 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
52709139 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
52709179 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
52709219 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** * ** * *
52709259 CCGGATATAATTACTAGCATAAATGTCTTC-GGACTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
52709298 CCGGATAT
1 CCGGATAT
52709306 CATTCAATTG
Statistics
Matches: 142, Mismatches: 23, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
39 17 0.12
40 123 0.87
41 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:52717281 original size:40 final size:39
Alignment explanation
Indices: 52717236--52717442 Score: 200
Period size: 40 Copynumber: 5.2 Consensus size: 39
52717226 CGGAATACAA
*
52717236 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
52717276 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTA-C
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
52717315 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
52717355 CCGGATGTAGTCGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
52717395 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
52717435 CCGGATAT
1 CCGGATAT
52717443 CATTCAATTG
Statistics
Matches: 138, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 35 0.25
40 103 0.75
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:52717354 original size:79 final size:81
Alignment explanation
Indices: 52717236--52717441 Score: 249
Period size: 79 Copynumber: 2.6 Consensus size: 81
52717226 CGGAATACAA
* * *
52717236 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAG-A-ACGACTTGCACAAA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGTAGACG-CTAGCACAAA
52717299 TGCCTTCGGGTATT-AC
65 TGCCTTCGGGTATTAAC
* * *
52717315 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGTCGCTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGTAGACGCTAGCACAAAT
*
52717379 GCCTTCGGGTCTTAAC
66 GCCTTCGGGTATTAAC
** * ** * *
52717395 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
52717442 TCATTCAATT
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 65 0.60
80 42 0.39
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGTAGACGCTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:52728192 original size:40 final size:40
Alignment explanation
Indices: 52728148--52728333 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
52728138 GCTACTCATT
* * *
52728148 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
52728188 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
52728228 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
52728268 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
52728309 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52728334 CATCATTCGA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:52740307 original size:31 final size:31
Alignment explanation
Indices: 52740258--52740343 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
52740248 TCAATCTCAG
52740258 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* * *
52740288 CATATCACTAGGCCAAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
52740319 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
52740344 TGTAACAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:52740574 original size:25 final size:25
Alignment explanation
Indices: 52740546--52740630 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
52740536 CTGGAGGCTT
52740546 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACTGGGGCAAA
* * *
52740571 AGCCCTTTTTCATAAACTAGGGTAAA
1 AGCCC-TTTTAATAAACTGGGGCAAA
**
52740597 AGCCCTTTTCGGTAAACTGGGGC-AA
1 AGCCCTTTT-AATAAACTGGGGCAAA
52740622 AGCCCTTTT
1 AGCCCTTTT
52740631 GTACTTCCTC
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
24 1 0.02
25 25 0.50
26 24 0.48
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:52740597 original size:26 final size:26
Alignment explanation
Indices: 52740559--52740630 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
52740549 CTCTTTTAAT
52740559 AACTGGGGCAAAAGCCCTTTTTC-ATA
1 AACT-GGGCAAAAGCCCTTTTTCGATA
* *
52740585 AACTAGGGTAAAAGCCC-TTTTCGGTA
1 AACT-GGGCAAAAGCCCTTTTTCGATA
52740611 AACTGGGGC-AAAGCCCTTTT
1 AACT-GGGCAAAAGCCCTTTT
52740631 GTACTTCCTC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
25 12 0.31
26 27 0.69
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (26 bp):
AACTGGGCAAAAGCCCTTTTTCGATA
Found at i:52743781 original size:25 final size:25
Alignment explanation
Indices: 52743748--52743820 Score: 65
Period size: 32 Copynumber: 2.6 Consensus size: 25
52743738 AAAAGGGCAT
52743748 TTCAGAAATTACTTAACCATTTAAAC
1 TTCA-AAATTACTTAACCATTTAAAC
52743774 TTCAAAATATTTACTTACTTAACCATTTAAAC
1 TTC--AA-A---A-TTACTTAACCATTTAAAC
*
52743806 TTCAAAATTTCTTAA
1 TTCAAAATTACTTAA
52743821 TGAAAATTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 15
0.71 0.02 0.27
Matches are distributed among these distances:
25 7 0.18
26 4 0.10
27 1 0.03
28 2 0.05
29 1 0.03
30 2 0.05
31 1 0.03
32 21 0.54
ACGTcount: A:0.41, C:0.18, G:0.01, T:0.40
Consensus pattern (25 bp):
TTCAAAATTACTTAACCATTTAAAC
Found at i:52752407 original size:28 final size:28
Alignment explanation
Indices: 52752375--52752473 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
52752365 GCAATAAGCC
*
52752375 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
52752403 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
52752431 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
52752460 CGCACACTTAGTGC
1 CGCACACTTAGTGC
52752474 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:52754317 original size:40 final size:40
Alignment explanation
Indices: 52754244--52754451 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
52754234 CAATTGAATG
* * ** *
52754244 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * * **
52754284 ATACCCGGGTTAAGACCCGAAGGCCATT-GTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTAATT
* **
52754324 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
52754364 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * **
52754404 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
52754444 ATATCCGG
1 ATATCCGG
52754452 TTGTATTCCG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 4 0.03
40 131 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
Found at i:52754382 original size:80 final size:80
Alignment explanation
Indices: 52754246--52754451 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
52754236 ATTGAATGAT
* * ** * * * *
52754246 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATACCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
52754310 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
52754326 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
52754391 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
52754406 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
52754452 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 102 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:52762464 original size:80 final size:80
Alignment explanation
Indices: 52762317--52762521 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
52762307 ATTGAATGAT
* * ** * * *
52762317 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATA-CCGGGTTAAGACCCGAAGGCCAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCCAT
*
52762381 TGTGCTAGT-GACCAC
66 TGTGCAAGTCGACC-C
* * *
52762396 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGG-CAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCCA-
** *
52762460 TTGTGCAAGTCGTTCT
65 TTGTGCAAGTCGACCC
* *
52762476 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
52762522 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 35 0.33
80 69 0.65
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCCAT
TGTGCAAGTCGACCC
Found at i:52762519 original size:40 final size:40
Alignment explanation
Indices: 52762315--52762521 Score: 188
Period size: 40 Copynumber: 5.2 Consensus size: 40
52762305 CAATTGAATG
* * ** **
52762315 ATATCCGGGCTAAGTCCCGAAGACATTTATGC-TAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAT-GTGGTT
* ***
52762355 ATA-CCGGGTTAAGACCCGAAGGCCATT-GTGC-TAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAT-GTGGTT
* * *
52762394 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
* * * * *
52762434 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
*
52762474 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
52762514 ATATCCGG
1 ATATCCGG
52762522 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
39 30 0.22
40 108 0.78
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
Found at i:52763954 original size:85 final size:85
Alignment explanation
Indices: 52763811--52763968 Score: 307
Period size: 85 Copynumber: 1.9 Consensus size: 85
52763801 AATTGGTGGG
52763811 TGAAATATGTGGATTTGGCTTGTTAACCCCTCGTGTCCGACACCGGCGATGGTCTCGGGTTCGGG
1 TGAAATATGTGGATTTGGCTTGTTAACCCCTCGTGTCCGACACCGGCGATGGTCTCGGGTTCGGG
52763876 GTGTTACAATTTTATTGGTA
66 GTGTTACAATTTTATTGGTA
*
52763896 TGAAATATGTGGATTTGGCTTGTTAACCCCTTGTGTCCGACACCGGCGATGGTCTCGGGTTCGGG
1 TGAAATATGTGGATTTGGCTTGTTAACCCCTCGTGTCCGACACCGGCGATGGTCTCGGGTTCGGG
52763961 GTGTTACA
66 GTGTTACA
52763969 TTTGTTCGCT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 72 1.00
ACGTcount: A:0.17, C:0.20, G:0.30, T:0.33
Consensus pattern (85 bp):
TGAAATATGTGGATTTGGCTTGTTAACCCCTCGTGTCCGACACCGGCGATGGTCTCGGGTTCGGG
GTGTTACAATTTTATTGGTA
Done.