Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 121 of 144
Found at i:37509055 original size:33 final size:33
Alignment explanation
Indices: 37509016--37509125 Score: 159
Period size: 33 Copynumber: 3.3 Consensus size: 33
37509006 ATTATAAAGC
37509016 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
37509049 ATGTATAATTGACCTAAAATTAATTCTTGGTTT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* * *
37509082 AT-TTTTATTTACCCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGA-CCTAAAATTAATTGTTGGTGT
37509115 ATGTATAATTG
1 ATGTATAATTG
37509126 TTGGTGTATG
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
32 6 0.09
33 54 0.83
34 5 0.08
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTGT
Found at i:37509125 original size:18 final size:18
Alignment explanation
Indices: 37509102--37509143 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
37509092 ACCCTAAAAT
37509102 TAATTGTTGGTGTATGTA
1 TAATTGTTGGTGTATGTA
37509120 TAATTGTTGGTGTATGTA
1 TAATTGTTGGTGTATGTA
37509138 TAATTG
1 TAATTG
37509144 ACCTAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (18 bp):
TAATTGTTGGTGTATGTA
Found at i:37510527 original size:28 final size:28
Alignment explanation
Indices: 37510494--37510606 Score: 75
Period size: 28 Copynumber: 3.6 Consensus size: 28
37510484 TTTTTATTAT
37510494 AATATTTTATTATTTCAGTTTATTTCAC
1 AATATTTTATTATTTCAGTTTATTTCAC
* * *
37510522 AATATTTATTTTAAGTATT-AGATATATTATACATT
1 AATATTT-TATT-A-T-TTCAG-TTTATT-T-CA-C
*
37510557 AATATTTATTTTATTATTTCAGTTCATTTCAC
1 AATA--T--TTTATTATTTCAGTTTATTTCAC
37510589 AATATTTTATTATTTCAG
1 AATATTTTATTATTTCAG
37510607 CTTTTATTAT
Statistics
Matches: 65, Mismatches: 7, Indels: 26
0.66 0.07 0.27
Matches are distributed among these distances:
28 20 0.31
29 3 0.05
30 2 0.03
31 3 0.05
32 11 0.17
33 3 0.05
34 3 0.05
35 10 0.15
36 3 0.05
37 2 0.03
38 3 0.05
39 2 0.03
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (28 bp):
AATATTTTATTATTTCAGTTTATTTCAC
Found at i:37510532 original size:32 final size:32
Alignment explanation
Indices: 37510496--37510595 Score: 105
Period size: 32 Copynumber: 3.0 Consensus size: 32
37510486 TTTATTATAA
37510496 TATTTTATTATTTCAGTTTATTTCACAATATT
1 TATTTTATTATTTCAGTTTATTTCACAATATT
* * *
37510528 TATTTTAAGTA-TT-AGATATATTATACATTAATATT
1 TATTTT-ATTATTTCAG-TTTATT-T-CA-CAATATT
*
37510563 TATTTTATTATTTCAGTTCATTTCACAATATT
1 TATTTTATTATTTCAGTTTATTTCACAATATT
37510595 T
1 T
37510596 TATTATTTCA
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
31 2 0.04
32 20 0.37
33 6 0.11
34 6 0.11
35 18 0.33
36 2 0.04
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (32 bp):
TATTTTATTATTTCAGTTTATTTCACAATATT
Found at i:37510613 original size:15 final size:15
Alignment explanation
Indices: 37510593--37510621 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37510583 TTTCACAATA
37510593 TTTTATTATTTCAGC
1 TTTTATTATTTCAGC
37510608 TTTTATTATTTCAG
1 TTTTATTATTTCAG
37510622 TTTATTTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.10, G:0.07, T:0.62
Consensus pattern (15 bp):
TTTTATTATTTCAGC
Found at i:37514777 original size:35 final size:35
Alignment explanation
Indices: 37514753--37514882 Score: 138
Period size: 35 Copynumber: 3.7 Consensus size: 35
37514743 TCATGGTGTC
37514753 ACTCCGTAGAGCCAGTAGATCATTTCCATAATGCT
1 ACTCCGTAGAGCCAGTAGATCATTTCCATAATGCT
* * * *
37514788 GCTCCGTAGAGCTAGTAGACCATTTCCATGGTAT-C-
1 ACTCCGTAGAGCCAGTAGATCATTTCCAT--AATGCT
* * * *
37514823 ACTCCATAGAACTACTAGATCATTTCCATAATGCT
1 ACTCCGTAGAGCCAGTAGATCATTTCCATAATGCT
* *
37514858 GCTCTGTAGAGCCAGTAGATCATTT
1 ACTCCGTAGAGCCAGTAGATCATTT
37514883 TCCAACCAAA
Statistics
Matches: 75, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
33 2 0.03
34 1 0.01
35 69 0.92
36 1 0.01
37 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (35 bp):
ACTCCGTAGAGCCAGTAGATCATTTCCATAATGCT
Found at i:37514849 original size:70 final size:70
Alignment explanation
Indices: 37514736--37514882 Score: 213
Period size: 70 Copynumber: 2.1 Consensus size: 70
37514726 GAGTTAGGAA
* * * * * *
37514736 ACCATTTTCATGGTGTCACTCCGTAGAGCCAGTAGATCATTTCCATAATGCTGCTCCGTAGAGCT
1 ACCATTTCCATGGTATCACTCCATAGAACCACTAGATCATTTCCATAATGCTGCTCCGTAGAGCC
37514801 AGTAG
66 AGTAG
* *
37514806 ACCATTTCCATGGTATCACTCCATAGAACTACTAGATCATTTCCATAATGCTGCTCTGTAGAGCC
1 ACCATTTCCATGGTATCACTCCATAGAACCACTAGATCATTTCCATAATGCTGCTCCGTAGAGCC
37514871 AGTAG
66 AGTAG
*
37514876 ATCATTT
1 ACCATTT
37514883 TCCAACCAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (70 bp):
ACCATTTCCATGGTATCACTCCATAGAACCACTAGATCATTTCCATAATGCTGCTCCGTAGAGCC
AGTAG
Found at i:37516370 original size:30 final size:30
Alignment explanation
Indices: 37516327--37516395 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
37516317 CAACAGATGA
* *
37516327 CACACGACTGTGTCGTCAAGCCGTGTATCT
1 CACACGACCGTGTCATCAAGCCGTGTATCT
* *
37516357 CACACGGCCGTGTCATCAAGCCGTGTGTCT
1 CACACGACCGTGTCATCAAGCCGTGTATCT
37516387 CACACGACC
1 CACACGACC
37516396 AAGTCACACG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.20, C:0.35, G:0.23, T:0.22
Consensus pattern (30 bp):
CACACGACCGTGTCATCAAGCCGTGTATCT
Found at i:37516752 original size:19 final size:19
Alignment explanation
Indices: 37516728--37516809 Score: 68
Period size: 19 Copynumber: 4.5 Consensus size: 19
37516718 TATATTTTCT
37516728 ATTTTAATCCCTTTAATTA
1 ATTTTAATCCCTTTAATTA
*
37516747 ATTTTAAT--CTATAATTTA
1 ATTTTAATCCCTTTAA-TTA
**
37516765 ATTTTTAA--CCTTTACA-CG
1 A-TTTTAATCCCTTTA-ATTA
37516783 A-TTTAATCCCTTTAATTA
1 ATTTTAATCCCTTTAATTA
37516801 ATTTTAATC
1 ATTTTAATC
37516810 TATAATTTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 16
0.69 0.08 0.23
Matches are distributed among these distances:
16 5 0.10
17 6 0.12
18 12 0.24
19 25 0.51
20 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.01, T:0.51
Consensus pattern (19 bp):
ATTTTAATCCCTTTAATTA
Found at i:37516789 original size:54 final size:54
Alignment explanation
Indices: 37516730--37516834 Score: 201
Period size: 54 Copynumber: 1.9 Consensus size: 54
37516720 TATTTTCTAT
*
37516730 TTTAATCCCTTTAATTAATTTTAATCTATAATTTAATTTTTAACCTTTACACGA
1 TTTAATCCCTTTAATTAATTTTAATCTATAATTTAACTTTTAACCTTTACACGA
37516784 TTTAATCCCTTTAATTAATTTTAATCTATAATTTAACTTTTAACCTTTACA
1 TTTAATCCCTTTAATTAATTTTAATCTATAATTTAACTTTTAACCTTTACA
37516835 AAATTCACTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.33, C:0.15, G:0.01, T:0.50
Consensus pattern (54 bp):
TTTAATCCCTTTAATTAATTTTAATCTATAATTTAACTTTTAACCTTTACACGA
Found at i:37540631 original size:20 final size:20
Alignment explanation
Indices: 37540606--37540645 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
37540596 TGTTTGATTT
37540606 GTTAAAAGAC-TTTTAACTTG
1 GTTAAAA-ACATTTTAACTTG
37540626 GTTAAAAACATTTTAACTTG
1 GTTAAAAACATTTTAACTTG
37540646 ATTTTAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (20 bp):
GTTAAAAACATTTTAACTTG
Found at i:37542391 original size:18 final size:20
Alignment explanation
Indices: 37542357--37542396 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
37542347 TTGTCCCTAA
*
37542357 AAAAATGGTGGACGAT-GTG
1 AAAAATGGTGGAAGATGGTG
37542376 AAAAATGG-GGAAGATGGTG
1 AAAAATGGTGGAAGATGGTG
37542395 AA
1 AA
37542397 TTCTCCACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.42, C:0.03, G:0.38, T:0.17
Consensus pattern (20 bp):
AAAAATGGTGGAAGATGGTG
Found at i:37544179 original size:30 final size:30
Alignment explanation
Indices: 37544114--37544357 Score: 179
Period size: 30 Copynumber: 8.4 Consensus size: 30
37544104 GCTATCAAAT
* *
37544114 TATGAAAA-TGATGGTGACGACCATC-AGC
1 TATGAAAAGGGATGGTGACGACCATCGAAC
*
37544142 AATGAAAAGGGATGGTGACGACCATCGAAC
1 TATGAAAAGGGATGGTGACGACCATCGAAC
** * *
37544172 TATGAAAAGGGATGGCT-TTGACTATCGACC
1 TATGAAAAGGGATGG-TGACGACCATCGAAC
*
37544202 T-T------TGATGGTGACGACCATCGAAC
1 TATGAAAAGGGATGGTGACGACCATCGAAC
** * *
37544225 TATGAAAAGGGATGGCT-TTGGCTATC-AATC
1 TATGAAAAGGGATGG-TGACGACCATCGAA-C
* ** * * * *
37544255 TATGAAAAGGGATAGTTTCGGCTATCAAAT
1 TATGAAAAGGGATGGTGACGACCATCGAAC
37544285 TATGAAAAGGGATGGTGACGACCATCGAAC
1 TATGAAAAGGGATGGTGACGACCATCGAAC
* * *
37544315 AATGAAAAGGGATGGTGACGACCATCAAAT
1 TATGAAAAGGGATGGTGACGACCATCGAAC
37544345 TATGAAAAGGGAT
1 TATGAAAAGGGAT
37544358 AACTTCGGTT
Statistics
Matches: 169, Mismatches: 32, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
22 1 0.01
23 15 0.09
24 1 0.01
28 7 0.04
29 20 0.12
30 121 0.72
31 4 0.02
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.23
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGACGACCATCGAAC
Found at i:37544280 original size:83 final size:82
Alignment explanation
Indices: 37544122--37544358 Score: 221
Period size: 90 Copynumber: 2.8 Consensus size: 82
37544112 ATTATGAAAA
* *
37544122 TGATGGTGACGACCATCAGCAATGAAAAGGGATGGTGACGACCATCGAACTATGAAAAGGGATGG
1 TGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACGACCATCGAACTATGAAAAGGGATAG
37544187 CTTTGACTATCGACCTT
66 CTTTGACTATCGACCTT
* ** * *
37544204 TGATGGTGACGACCATCGAACTATGAAAAGGGATGGCT-TTGGCTATC-AATCTATGAAAAGGGA
1 TGATGGTGACGACCATC-AACAATGAAAAGGGATGG-TGACGACCATCGAA-CTATGAAAAGGGA
* **
37544267 TAG-TTTCGGCTATC-AAATT
63 TAGCTTT-GACTATCGACCTT
* *
37544286 ATGAAAAGGGATGGTGACGACCATCGAACAATGAAAAGGGATGGTGACGACCATCAAATTATGAA
1 -T-------GATGGTGACGACCATC-AACAATGAAAAGGGATGGTGACGACCATCGAACTATGAA
37544351 AAGGGATA
57 AAGGGATA
37544359 ACTTCGGTTG
Statistics
Matches: 125, Mismatches: 16, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
82 25 0.20
83 43 0.34
84 1 0.01
89 1 0.01
90 53 0.42
91 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.22
Consensus pattern (82 bp):
TGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACGACCATCGAACTATGAAAAGGGATAG
CTTTGACTATCGACCTT
Found at i:37544298 original size:60 final size:60
Alignment explanation
Indices: 37544225--37544418 Score: 176
Period size: 60 Copynumber: 3.2 Consensus size: 60
37544215 ACCATCGAAC
*
37544225 TATGAAAAGGGATGGCTTTGGCTATC-AATCTATGAAAAGGGATAGTTTCGGCTATCAAAT
1 TATGAAAAGGGATGGCTTCGGCTATCGAA-CTATGAAAAGGGATAGTTTCGGCTATCAAAT
* * * * * ** * *
37544285 TATGAAAAGGGATGG-TGACGACCATCGAACAATGAAAAGGGATGGTGACGACCATCAAAT
1 TATGAAAAGGGATGGCT-TCGGCTATCGAACTATGAAAAGGGATAGTTTCGGCTATCAAAT
** * * ** * **
37544345 TATGAAAAGGGATAACTTCGGTTGTCGAACTATGAAAAGGGATAACTTCGGTTATTGAAT
1 TATGAAAAGGGATGGCTTCGGCTATCGAACTATGAAAAGGGATAGTTTCGGCTATCAAAT
*
37544405 TACGAAAAGGGATG
1 TATGAAAAGGGATG
37544419 CATCAATCAT
Statistics
Matches: 101, Mismatches: 30, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
59 1 0.01
60 97 0.96
61 3 0.03
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.25
Consensus pattern (60 bp):
TATGAAAAGGGATGGCTTCGGCTATCGAACTATGAAAAGGGATAGTTTCGGCTATCAAAT
Found at i:37544358 original size:90 final size:90
Alignment explanation
Indices: 37544205--37544387 Score: 235
Period size: 90 Copynumber: 2.0 Consensus size: 90
37544195 ATCGACCTTT
* ** * * *
37544205 GATGGTGACGACCATCGAACTATGAAAAGGGATGGCTTTGGCTATCAATCTATGAAAAGGGATAG
1 GATGGTGACGACCATCGAACAATGAAAAGGGATGGCTACGACCATCAATCTATGAAAAGGGATAA
* *
37544270 TTTCGGCTATCAAATTATGAAAAGG
66 CTTCGGCTATCAAACTATGAAAAGG
37544295 GATGGTGACGACCATCGAACAATGAAAAGGGATGG-TGACGACCATCAAAT-TATGAAAAGGGAT
1 GATGGTGACGACCATCGAACAATGAAAAGGGATGGCT-ACGACCATC-AATCTATGAAAAGGGAT
* * *
37544358 AACTTCGGTTGTCGAACTATGAAAAGG
64 AACTTCGGCTATCAAACTATGAAAAGG
37544385 GAT
1 GAT
37544388 AACTTCGGTT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
89 1 0.01
90 76 0.95
91 3 0.04
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (90 bp):
GATGGTGACGACCATCGAACAATGAAAAGGGATGGCTACGACCATCAATCTATGAAAAGGGATAA
CTTCGGCTATCAAACTATGAAAAGG
Found at i:37544379 original size:30 final size:30
Alignment explanation
Indices: 37544345--37544417 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
37544335 ACCATCAAAT
*
37544345 TATGAAAAGGGATAACTTCGGTTGTCGAAC
1 TATGAAAAGGGATAACTTCGGTTATCGAAC
* *
37544375 TATGAAAAGGGATAACTTCGGTTATTGAAT
1 TATGAAAAGGGATAACTTCGGTTATCGAAC
*
37544405 TACGAAAAGGGAT
1 TATGAAAAGGGAT
37544418 GCATCAATCA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.27
Consensus pattern (30 bp):
TATGAAAAGGGATAACTTCGGTTATCGAAC
Found at i:37554284 original size:5 final size:5
Alignment explanation
Indices: 37554276--37554315 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
37554266 AAATTAAAAC
* * *
37554276 CTAAA CTAAA CTAAA CTAAA CTAAA TTAAC CTAAC CTAAA
1 CTAAA CTAAA CTAAA CTAAA CTAAA CTAAA CTAAA CTAAA
37554316 TCTACTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (5 bp):
CTAAA
Found at i:37554316 original size:15 final size:15
Alignment explanation
Indices: 37554273--37554316 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
37554263 AATAAATTAA
*
37554273 AACCTAAACTAAACT
1 AACCTAAACTAAATT
*
37554288 AAACTAAACTAAATT
1 AACCTAAACTAAATT
*
37554303 AACCTAACCTAAAT
1 AACCTAAACTAAAT
37554317 CTACTAAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (15 bp):
AACCTAAACTAAATT
Found at i:37557784 original size:19 final size:19
Alignment explanation
Indices: 37557760--37557807 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
37557750 TGAGAGTTTC
*
37557760 TTTTATATTTCTTCTTCTG
1 TTTTATATTTCCTCTTCTG
*
37557779 TTTTATTAGTTCCTCTTCTG
1 TTTTA-TATTTCCTCTTCTG
*
37557799 TTTAATATT
1 TTTTATATT
37557808 ATGAAGCTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.15, C:0.15, G:0.06, T:0.65
Consensus pattern (19 bp):
TTTTATATTTCCTCTTCTG
Found at i:37557829 original size:11 final size:11
Alignment explanation
Indices: 37557813--37557838 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
37557803 ATATTATGAA
37557813 GCTGTTGATTT
1 GCTGTTGATTT
37557824 GCTGTTGATTT
1 GCTGTTGATTT
37557835 GCTG
1 GCTG
37557839 GTATTTCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.12, G:0.31, T:0.50
Consensus pattern (11 bp):
GCTGTTGATTT
Found at i:37560688 original size:18 final size:18
Alignment explanation
Indices: 37560666--37560731 Score: 105
Period size: 18 Copynumber: 3.7 Consensus size: 18
37560656 AGTATATGAG
* *
37560666 AAATGATGTTCATATTTT
1 AAATGATGTTCACATTTC
*
37560684 GAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
37560702 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
37560720 AAATGATGTTCA
1 AAATGATGTTCA
37560732 AATTGATGGG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:37561255 original size:72 final size:72
Alignment explanation
Indices: 37561155--37561325 Score: 258
Period size: 72 Copynumber: 2.4 Consensus size: 72
37561145 AACAACAACG
* * *
37561155 CTAAA-CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTATTT
1 CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTT
37561219 ATTTAT-
66 ATTTATA
* * *
37561225 GTGTAATCTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACT
1 CT-AAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACT
37561290 TATTTATA
65 TATTTATA
37561298 CTAAAT-TAGTTTTATCAATAGTTGTTTA
1 CTAAATCTAGTTTTATCAATAGTTGTTTA
37561326 AATATGATTT
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
70 1 0.01
71 23 0.26
72 64 0.72
73 1 0.01
ACGTcount: A:0.26, C:0.06, G:0.14, T:0.54
Consensus pattern (72 bp):
CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTT
ATTTATA
Found at i:37567512 original size:43 final size:43
Alignment explanation
Indices: 37567421--37567586 Score: 226
Period size: 43 Copynumber: 3.9 Consensus size: 43
37567411 CGTTTTTGCG
* * * * * *
37567421 AGAAGCGTCGCTAAAGGT-TTGTTTTTTAGTGGCATTTATGAT
1 AGAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAT
* *
37567463 AAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAT
1 AGAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAT
37567506 AGAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAT
1 AGAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAT
** *
37567549 AGAAGCGCCGCTAAAGGTCATGGCCTTTAGTGGCGTTT
1 AGAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTT
37567587 CTTCACATAA
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 17 0.15
43 95 0.85
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (43 bp):
AGAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAT
Found at i:37568374 original size:17 final size:19
Alignment explanation
Indices: 37568352--37568395 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
37568342 GTTTAATACA
37568352 ATATAATTTTA-ATTAA-T
1 ATATAATTTTATATTAAGT
*
37568369 ATATAAGTTTATATTAAGT
1 ATATAATTTTATATTAAGT
*
37568388 TTATAATT
1 ATATAATT
37568396 ACAGTCATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 10 0.45
18 5 0.23
19 7 0.32
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (19 bp):
ATATAATTTTATATTAAGT
Found at i:37568914 original size:28 final size:29
Alignment explanation
Indices: 37568867--37568936 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 29
37568857 AAAGAAATAA
37568867 AATATCTTTAAT-TTT-AT-AAATTTT-AT
1 AATA-CTTTAATATTTAATAAAATTTTCAT
37568893 AATACTTTAATATTTAACTAAAATTTTCAT
1 AATACTTTAATATTTAA-TAAAATTTTCAT
37568923 --TACTTT-ATATTTAA
1 AATACTTTAATATTTAA
37568937 AAATCTAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
25 7 0.18
26 7 0.18
27 9 0.23
28 7 0.18
29 7 0.18
30 2 0.05
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (29 bp):
AATACTTTAATATTTAATAAAATTTTCAT
Found at i:37577290 original size:7 final size:8
Alignment explanation
Indices: 37577270--37577311 Score: 57
Period size: 8 Copynumber: 4.9 Consensus size: 8
37577260 AATAAATTAC
37577270 TAAAAATA
1 TAAAAATA
37577278 TAAAAATA
1 TAAAAATA
37577286 TAAAAATA
1 TAAAAATA
37577294 TTTAAAAAATA
1 --T-AAAAATA
37577305 TAAAAAT
1 TAAAAAT
37577312 CGGTTCAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 22 0.71
9 1 0.03
10 1 0.03
11 7 0.23
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (8 bp):
TAAAAATA
Found at i:37577613 original size:17 final size:18
Alignment explanation
Indices: 37577591--37577628 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
37577581 AAATAAGAAC
37577591 AAAAAAACT-AATA-TTTT
1 AAAAAAA-TAAATACTTTT
37577608 AAAAAAATAAATACTTTT
1 AAAAAAATAAATACTTTT
37577626 AAA
1 AAA
37577629 GGATACAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.05
17 11 0.58
18 7 0.37
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAAAATAAATACTTTT
Found at i:37586916 original size:20 final size:20
Alignment explanation
Indices: 37586893--37586930 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
37586883 ATTATAGACA
37586893 AAAAATATTAATTTAATTAT
1 AAAAATATTAATTTAATTAT
37586913 AAAAATATTAATTTAATT
1 AAAAATATTAATTTAATT
37586931 TATCCAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAAATATTAATTTAATTAT
Found at i:37594262 original size:17 final size:18
Alignment explanation
Indices: 37594230--37594264 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
37594220 ATCAGGGTTT
37594230 ATAACAAAGAAGGACAAA
1 ATAACAAAGAAGGACAAA
*
37594248 ATAACGAAG-AGGACAAA
1 ATAACAAAGAAGGACAAA
37594265 TAGGGGTCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.63, C:0.11, G:0.20, T:0.06
Consensus pattern (18 bp):
ATAACAAAGAAGGACAAA
Found at i:37599339 original size:27 final size:27
Alignment explanation
Indices: 37599308--37599383 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
37599298 CAAATCTCAT
* * *
37599308 TGTTTACTGTCCTGACAAACTACCCTG
1 TGTTTATTGTCCTGACAGACTACCCCG
* *
37599335 TGTTTATTGTCCCGACGGACTACCCCG
1 TGTTTATTGTCCTGACAGACTACCCCG
37599362 TGTTTATTGTCCTGACAGACTA
1 TGTTTATTGTCCTGACAGACTA
37599384 TGTAACACCC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (27 bp):
TGTTTATTGTCCTGACAGACTACCCCG
Found at i:37604452 original size:15 final size:15
Alignment explanation
Indices: 37604432--37604461 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37604422 TATATCAAAG
*
37604432 CTAAAGGATATTAAA
1 CTAAAGGATAGTAAA
37604447 CTAAAGGATAGTAAA
1 CTAAAGGATAGTAAA
37604462 TAAGTCCTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.07, G:0.17, T:0.23
Consensus pattern (15 bp):
CTAAAGGATAGTAAA
Found at i:37608640 original size:79 final size:79
Alignment explanation
Indices: 37608509--37608666 Score: 280
Period size: 79 Copynumber: 2.0 Consensus size: 79
37608499 TATAATCCAA
* *
37608509 ACAGAAAAGAAAAACATAATACATTTAAAATGCTCAAGTTAAAATTAGATGATGTTATTCAAGTA
1 ACAGAAAAGAAAAACATAATACATTTAAAATGCTCAAGTTAAAATTAGATGATGCTATGCAAGTA
37608574 ACATGTCAAATGTG
66 ACATGTCAAATGTG
* *
37608588 ACAGAAAAGCAAAACATAATACATTTAAAATGCTCAAGTTAAAATTAGATGATGCTATGCAATTA
1 ACAGAAAAGAAAAACATAATACATTTAAAATGCTCAAGTTAAAATTAGATGATGCTATGCAAGTA
37608653 ACATGTCAAATGTG
66 ACATGTCAAATGTG
37608667 CAAGTTCATG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.27
Consensus pattern (79 bp):
ACAGAAAAGAAAAACATAATACATTTAAAATGCTCAAGTTAAAATTAGATGATGCTATGCAAGTA
ACATGTCAAATGTG
Found at i:37611794 original size:18 final size:18
Alignment explanation
Indices: 37611773--37611807 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37611763 TCATTTTTTC
*
37611773 ACTCACAATGCTTTTAAT
1 ACTCACAATGCTCTTAAT
*
37611791 ACTCACCATGCTCTTAA
1 ACTCACAATGCTCTTAA
37611808 CTCTTACAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (18 bp):
ACTCACAATGCTCTTAAT
Found at i:37619159 original size:320 final size:320
Alignment explanation
Indices: 37618577--37619164 Score: 1007
Period size: 320 Copynumber: 1.8 Consensus size: 320
37618567 ACACGGAAGT
*
37618577 GTTATTGCAGTTACTGACACTAGAAAGTGCAGTGACAGTTTGAGCCAACAAGCATTACAATGAAA
1 GTTATTGCAGTCACTGACACTAGAAAGTGCAGTGACAGTTTGAGCCAACAAGCATTACAATGAAA
* *
37618642 GTTGAGTAAGGATTAGAGAAATTTAGTCAATTTGTTCTTAATAGTGCTATATTGCCATCTTCGGA
66 GTTGAGTAAGGATTAGAGAAATTTAGTCAACTTGTTCTTAATAGTGCTATATTGCCATCATCGGA
*
37618707 AGGTGAGGTTAGTAAGCATGTTTAAGTCTCAGATTGAATAGAGGAGTGACATTTGGTAAGATATA
131 AGGTGAGGTTAGTAAGCATGTTTAAGTCTCAGATTGAATAGAGGAGTGACACTTGGTAAGATATA
*
37618772 CATTGAATTTTATTACCTCGACAATCACCTATCCTTTTATACCTTGTGAGCACTTAGTATTTTAC
196 AATTGAATTTTATTACCTCGACAATCACCTATCCTTTTATACCTTGTGAGCACTTAGTATTTTAC
37618837 TGAAGATTCATCTTAGGGATCCCGGTTTATCATTATCATATTTTATTTTATTGTTTTCAA
261 TGAAGATTCATCTTAGGGATCCCGGTTTATCATTATCATATTTTATTTTATTGTTTTCAA
* *
37618897 GTTATTGCAGTCACTGACACTGGAAAGTGCAGTGACAGTTTGAGCCAACAAGCATTACAATGGAA
1 GTTATTGCAGTCACTGACACTAGAAAGTGCAGTGACAGTTTGAGCCAACAAGCATTACAATGAAA
* * * *
37618962 GTTGAGTGAGGATTAGAGGAATTTAGTCCACTTGTTCTTAATAGT-TTCATATTGCCATCATCGG
66 GTTGAGTAAGGATTAGAGAAATTTAGTCAACTTGTTCTTAATAGTGCT-ATATTGCCATCATCGG
* * *
37619026 AAGGTGAGGTTAGTATGCATGTTTAAGTCTTAGATTGAATAGAGGAGTGACGCTTGGTAAGATAT
130 AAGGTGAGGTTAGTAAGCATGTTTAAGTCTCAGATTGAATAGAGGAGTGACACTTGGTAAGATAT
* * *
37619091 AAATTGAATTTTATTGCCTTGACAATCACCTATCCTTTTATACCTTGTGAGCAGTTAGTATTTTA
195 AAATTGAATTTTATTACCTCGACAATCACCTATCCTTTTATACCTTGTGAGCACTTAGTATTTTA
37619156 CTGAAGATT
260 CTGAAGATT
37619165 ATCATTATCA
Statistics
Matches: 250, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
319 1 0.00
320 249 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (320 bp):
GTTATTGCAGTCACTGACACTAGAAAGTGCAGTGACAGTTTGAGCCAACAAGCATTACAATGAAA
GTTGAGTAAGGATTAGAGAAATTTAGTCAACTTGTTCTTAATAGTGCTATATTGCCATCATCGGA
AGGTGAGGTTAGTAAGCATGTTTAAGTCTCAGATTGAATAGAGGAGTGACACTTGGTAAGATATA
AATTGAATTTTATTACCTCGACAATCACCTATCCTTTTATACCTTGTGAGCACTTAGTATTTTAC
TGAAGATTCATCTTAGGGATCCCGGTTTATCATTATCATATTTTATTTTATTGTTTTCAA
Found at i:37625528 original size:21 final size:21
Alignment explanation
Indices: 37625503--37625556 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
37625493 GAGGAAAAGA
*
37625503 AGGAAGTTGCTGCTGCAGAAG
1 AGGAAGTTGCTGCTGAAGAAG
*
37625524 AGGAAGTTGTTGCTGAAGAAG
1 AGGAAGTTGCTGCTGAAGAAG
**
37625545 AACAAGTTGCTG
1 AGGAAGTTGCTG
37625557 AAAATGAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.11, G:0.35, T:0.22
Consensus pattern (21 bp):
AGGAAGTTGCTGCTGAAGAAG
Found at i:37630518 original size:3 final size:3
Alignment explanation
Indices: 37630510--37630542 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
37630500 CATTGGATTG
37630510 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
37630543 AATTGATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:37630826 original size:16 final size:16
Alignment explanation
Indices: 37630804--37630872 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
37630794 TTTGGTTCGC
37630804 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
37630820 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
37630836 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
37630853 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
37630869 TGTA
1 TGTA
37630873 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:37630850 original size:33 final size:32
Alignment explanation
Indices: 37630804--37630872 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
37630794 TTTGGTTCGC
37630804 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
37630836 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
37630869 TGTA
1 TGTA
37630873 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:37630937 original size:44 final size:45
Alignment explanation
Indices: 37630853--37630943 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
37630843 GGATTAGAGG
* * *
37630853 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
37630898 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
37630942 TG
1 TG
37630944 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:37631129 original size:18 final size:17
Alignment explanation
Indices: 37631108--37631142 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37631098 TTATTATTAA
*
37631108 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
37631126 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
37631143 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:37631249 original size:18 final size:17
Alignment explanation
Indices: 37631228--37631262 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37631218 TTATTATTAA
*
37631228 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
37631246 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
37631263 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:37631369 original size:18 final size:17
Alignment explanation
Indices: 37631348--37631382 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37631338 TTATTATTAA
*
37631348 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
37631366 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
37631383 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:37631634 original size:120 final size:120
Alignment explanation
Indices: 37631091--37631616 Score: 955
Period size: 120 Copynumber: 4.4 Consensus size: 120
37631081 ATCATATTTA
37631091 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
37631156 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
37631211 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
37631276 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
37631331 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
37631396 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* *
37631451 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * * *
37631516 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
* * *
37631571 GAA-ATAATTAATATTAAATATATTTTAATTATAATATATGATTTAA
1 -AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAA
37631617 AATAATTTAA
Statistics
Matches: 394, Mismatches: 11, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
120 392 0.99
121 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:37631716 original size:92 final size:91
Alignment explanation
Indices: 37631639--37631847 Score: 226
Period size: 92 Copynumber: 2.3 Consensus size: 91
37631629 TAATTATAAC
* * *
37631639 TAATAAATTATATTTTATGAATTTGTATAATCTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATATAATCTAAAATAATTAA-TATTAAATATAATTTAATAA
* *
37631703 TTAATATTAAATTTCATAAAATACTTGA
65 TTAATATTAAATTTCAAAAAATAC-TAA
* * * *
37631731 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAAT-AG
1 TAATAAATTATATTATATGAATTTATATAATCTAAAATAATTAATATTAAATATAATTTAATAAT
* * *
37631795 TGATA-TATAATTTCATAAAATTCTCAA
66 TAATATTA-AATTTCAAAAAATACT-AA
* *
37631822 TAATAAATTGTTCTTATATGAATTTA
1 TAATAAATT-ATATTATATGAATTTA
37631848 CTAAAATAGT
Statistics
Matches: 103, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
90 3 0.03
91 29 0.28
92 68 0.66
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATATAATCTAAAATAATTAATATTAAATATAATTTAATAAT
TAATATTAAATTTCAAAAAATACTAA
Found at i:37648118 original size:16 final size:16
Alignment explanation
Indices: 37648087--37648119 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
37648077 CCACTTATAT
37648087 ATAATATTTATAAATA
1 ATAATATTTATAAATA
37648103 ATAA-ATTTATATAATA
1 ATAATATTTATA-AATA
37648119 A
1 A
37648120 AATCTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAATATTTATAAATA
Found at i:37665591 original size:23 final size:23
Alignment explanation
Indices: 37665565--37665640 Score: 111
Period size: 23 Copynumber: 3.3 Consensus size: 23
37665555 ATAAGTGCCA
37665565 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
37665588 CACTGATATGTAGCC-ATAGCTAC
1 CACTGATATGTAGCCGA-AGCTAC
*
37665611 CACTGA-ATTGTAGTCGAAGCTAC
1 CACTGATA-TGTAGCCGAAGCTAC
37665634 CACTGAT
1 CACTGAT
37665641 CAATAACACT
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
22 2 0.04
23 45 0.94
24 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:37672106 original size:21 final size:21
Alignment explanation
Indices: 37672071--37672111 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
37672061 CCTACGTTCA
*
37672071 TGCTATGACTCAACATAGGGT
1 TGCTATGACTCAACACAGGGT
* *
37672092 TGCTATGGCTTAACACAGGG
1 TGCTATGACTCAACACAGGG
37672112 CGCGTCTTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (21 bp):
TGCTATGACTCAACACAGGGT
Found at i:37673213 original size:2 final size:2
Alignment explanation
Indices: 37673206--37673250 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
37673196 CAAGCACAAA
*
37673206 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC TC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
37673248 AC A
1 AC A
37673251 GAAAAAATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.49, G:0.00, T:0.02
Consensus pattern (2 bp):
AC
Found at i:37686274 original size:18 final size:17
Alignment explanation
Indices: 37686241--37686275 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
37686231 TACTCACCTC
*
37686241 AATATCATATTATGCAA
1 AATATCATAATATGCAA
37686258 AATATCATAAATATGCAA
1 AATATCAT-AATATGCAA
37686276 TAACTAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.31
Consensus pattern (17 bp):
AATATCATAATATGCAA
Found at i:37691650 original size:30 final size:32
Alignment explanation
Indices: 37691589--37691663 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 32
37691579 TGTATATTCA
* *
37691589 ACCCTGTAATCA--TTCATATTTATATACCAT
1 ACCCTGTAATCATTTTCATATTTACATAACAT
37691619 ACCCTGTAATCATTTTCA-A-TTACATAACAT
1 ACCCTGTAATCATTTTCATATTTACATAACAT
* *
37691649 ACCCTATAACCATTT
1 ACCCTGTAATCATTT
37691664 ACATTTACCT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 34 0.87
31 1 0.03
32 4 0.10
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (32 bp):
ACCCTGTAATCATTTTCATATTTACATAACAT
Found at i:37695963 original size:27 final size:26
Alignment explanation
Indices: 37695903--37695964 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
37695893 TATTTTCTTG
* * *
37695903 GTGGATTACCTCATGTTTATTATCCC
1 GTGGACTACCCCATGTTTACTATCCC
*
37695929 GATAGACTACCCCATGTTTACTATCCC
1 G-TGGACTACCCCATGTTTACTATCCC
37695956 AGTGGACTA
1 -GTGGACTA
37695965 TACTGGTTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 1 0.03
27 27 0.93
28 1 0.03
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (26 bp):
GTGGACTACCCCATGTTTACTATCCC
Found at i:37702972 original size:15 final size:15
Alignment explanation
Indices: 37702948--37702977 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37702938 TATGCATACA
*
37702948 AAATATAAAAGACAT
1 AAATACAAAAGACAT
37702963 AAATACAAAAGACAT
1 AAATACAAAAGACAT
37702978 TATAGTGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.10, G:0.07, T:0.17
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:37704633 original size:17 final size:17
Alignment explanation
Indices: 37704613--37704652 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
37704603 TTGATTAAAG
37704613 AATTTTCTTGAAAAATT
1 AATTTTCTTGAAAAATT
37704630 AATTTTCTTGAAAAATT
1 AATTTTCTTGAAAAATT
37704647 AATTTT
1 AATTTT
37704653 GATAAAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (17 bp):
AATTTTCTTGAAAAATT
Found at i:37709864 original size:3 final size:3
Alignment explanation
Indices: 37709856--37709885 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
37709846 TTAATACCCA
37709856 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
37709886 TTGCAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:37716295 original size:9 final size:9
Alignment explanation
Indices: 37716282--37716348 Score: 75
Period size: 9 Copynumber: 7.4 Consensus size: 9
37716272 TTTGGTTAAA
*
37716282 AATTAACCA
1 AATTAACCG
*
37716291 AATTACCCG
1 AATTAACCG
37716300 AATTAACCG
1 AATTAACCG
37716309 AATT-ACCTG
1 AATTAACC-G
37716318 AATT-ACTCG
1 AATTAAC-CG
37716327 AATTAACCG
1 AATTAACCG
*
37716336 AATTAACCA
1 AATTAACCG
37716345 AATT
1 AATT
37716349 GAATCACTAC
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
8 3 0.06
9 45 0.88
10 3 0.06
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:37716348 original size:27 final size:27
Alignment explanation
Indices: 37716282--37716348 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
37716272 TTTGGTTAAA
37716282 AATTAACCAAATTACCCGAATTAACCG
1 AATTAACCAAATTACCCGAATTAACCG
* *
37716309 AATT-ACCTGAATTACTCGAATTAACCG
1 AATTAACC-AAATTACCCGAATTAACCG
37716336 AATTAACCAAATT
1 AATTAACCAAATT
37716349 GAATCACTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 3 0.09
27 29 0.83
28 3 0.09
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.27
Consensus pattern (27 bp):
AATTAACCAAATTACCCGAATTAACCG
Found at i:37718986 original size:56 final size:56
Alignment explanation
Indices: 37718907--37719137 Score: 211
Period size: 56 Copynumber: 4.1 Consensus size: 56
37718897 CAAATTTTCA
* * * * *
37718907 ATAGCATAATAATGCTTACTTTGAGACACTGAAGCAACA-CTTTAATTTAATTTAAG
1 ATAGCATAATAATGCTCAATTTGAAACACTAAAACAACAGC-TTAATTTAATTTAAG
* *
37718963 ATAGCATAATAATACTCAATTTGAAACA-TTAAACAGA-AGCTTAATTTAATTTAAG
1 ATAGCATAATAATGCTCAATTTGAAACACTAAAACA-ACAGCTTAATTTAATTTAAG
* * *
37719018 ACAGCATGAA-AATGCTCAATTTGAAACACTAAAACAACAGCTTGATTCAATTTAAG
1 ATAGCAT-AATAATGCTCAATTTGAAACACTAAAACAACAGCTTAATTTAATTTAAG
* * * * * * * *
37719074 ACAGTATGGA-AATGCTCAATTTGAAACATTCAAACAACAGGTTTAATTCAATTTATG
1 ATAGCAT-AATAATGCTCAATTTGAAACACTAAAACAACA-GCTTAATTTAATTTAAG
*
37719131 ACAGCAT
1 ATAGCAT
37719138 GCAAACAGTA
Statistics
Matches: 150, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
55 45 0.30
56 85 0.57
57 20 0.13
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (56 bp):
ATAGCATAATAATGCTCAATTTGAAACACTAAAACAACAGCTTAATTTAATTTAAG
Found at i:37719024 original size:55 final size:55
Alignment explanation
Indices: 37718948--37719138 Score: 233
Period size: 56 Copynumber: 3.4 Consensus size: 55
37718938 AAGCAACACT
* * *
37718948 TTAATTTAATTTAAGATAGCAT-AATAATACTCAATTTGAAACATTAAACAGA-AGC
1 TTAATTCAATTTAAGACAGCATGAA-AATGCTCAATTTGAAACATTAAACA-ACAGC
* *
37719003 TTAATTTAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAACAGC
1 TTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACA-TTAAACAACAGC
* * * *
37719059 TTGATTCAATTTAAGACAGTATGGAAATGCTCAATTTGAAACATTCAAACAACAGGT
1 TTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACATT-AAACAACA-GC
*
37719116 TTAATTCAATTTATGACAGCATG
1 TTAATTCAATTTAAGACAGCATG
37719139 CAAACAGTAA
Statistics
Matches: 119, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
55 40 0.34
56 58 0.49
57 21 0.18
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (55 bp):
TTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACATTAAACAACAGC
Found at i:37719960 original size:18 final size:18
Alignment explanation
Indices: 37719937--37719980 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
37719927 AATTTTTATG
37719937 ATTGGGTTGGGTTAGG-TA
1 ATTGGGTTGGGTT-GGATA
37719955 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGATA
*
37719973 CTTGGGTT
1 ATTGGGTT
37719981 TGGATTGGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGATA
Found at i:37730590 original size:5 final size:5
Alignment explanation
Indices: 37730580--37730604 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
37730570 TTGGAGGGTT
37730580 GGGAG GGGAG GGGAG GGGAG GGGAG
1 GGGAG GGGAG GGGAG GGGAG GGGAG
37730605 TAAAAGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.80, T:0.00
Consensus pattern (5 bp):
GGGAG
Found at i:37731486 original size:15 final size:14
Alignment explanation
Indices: 37731449--37731491 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
37731439 TTTTAAAATA
37731449 TAAAAATATATAATT
1 TAAAAAT-TATAATT
*
37731464 TAAGAAATTATAGTT
1 TAA-AAATTATAATT
37731479 CTAAAAATTATAA
1 -TAAAAATTATAA
37731492 AATGTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 17 0.71
16 7 0.29
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (14 bp):
TAAAAATTATAATT
Found at i:37736265 original size:25 final size:25
Alignment explanation
Indices: 37736231--37736298 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
37736221 CTATACATGT
*
37736231 ATGCTCACACGAGTTGTGAATCGGC
1 ATGCTCACACGAGCTGTGAATCGGC
* * * *
37736256 ATGCTCACACCAGCTGTAAATTGGT
1 ATGCTCACACGAGCTGTGAATCGGC
37736281 ATGCTCACACGAGCTGTG
1 ATGCTCACACGAGCTGTG
37736299 GGTCAGAACG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (25 bp):
ATGCTCACACGAGCTGTGAATCGGC
Found at i:37766224 original size:22 final size:22
Alignment explanation
Indices: 37766177--37766225 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
37766167 TTGAAGTATT
* *
37766177 TCAATTTATTTTCTCTTTGCAT
1 TCAATTTATTTTCTCTTTCCAA
*
37766199 TCAATTTA-TTTCTTTATTCCAA
1 TCAATTTATTTTCTCT-TTCCAA
37766221 TCAAT
1 TCAAT
37766226 CAATTTGGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.24, C:0.18, G:0.02, T:0.55
Consensus pattern (22 bp):
TCAATTTATTTTCTCTTTCCAA
Found at i:37766766 original size:18 final size:18
Alignment explanation
Indices: 37766745--37766779 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
37766735 TTATTTATTT
37766745 TCATTAAT-TAATTTTATC
1 TCATTAATCT-ATTTTATC
37766763 TCATTAATCTATTTTAT
1 TCATTAATCTATTTTAT
37766780 GGTTTATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (18 bp):
TCATTAATCTATTTTATC
Found at i:37775143 original size:18 final size:18
Alignment explanation
Indices: 37775109--37775146 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
37775099 AGATTTATTT
*
37775109 TCCTACTATATTATTCAA
1 TCCTAATATATTATTCAA
37775127 TCCTAATATGATT-TTCAA
1 TCCTAATAT-ATTATTCAA
37775145 TC
1 TC
37775147 ATTTCCCAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.32, C:0.21, G:0.03, T:0.45
Consensus pattern (18 bp):
TCCTAATATATTATTCAA
Found at i:37775468 original size:13 final size:13
Alignment explanation
Indices: 37775452--37775476 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37775442 TTTATTTTAT
37775452 TTGATTATGTAAA
1 TTGATTATGTAAA
37775465 TTGATTATGTAA
1 TTGATTATGTAA
37775477 TCATGTAAAT
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:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Found at i:37781343 original size:26 final size:26
Alignment explanation
Indices: 37781314--37781364 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
37781304 AAATATTCCT
*
37781314 AAATATTCT-ATATTTTTCTTATTTTA
1 AAAT-TTCTGATATTTTTCTAATTTTA
*
37781340 AAATTTTTGATATTTTTCTAATTTT
1 AAATTTCTGATATTTTTCTAATTTT
37781365 CTTCTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (26 bp):
AAATTTCTGATATTTTTCTAATTTTA
Found at i:37784333 original size:40 final size:40
Alignment explanation
Indices: 37784278--37784358 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
37784268 CAAAAAAAGA
37784278 AACTTAAAAGCTTTATAGCAATATGCATTACACACTATGT
1 AACTTAAAAGCTTTATAGCAATATGCATTACACACTATGT
37784318 AACTTAAAAGCTTTATAGCAATATGCATTACACACTATGT
1 AACTTAAAAGCTTTATAGCAATATGCATTACACACTATGT
37784358 A
1 A
37784359 TTATTTTGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (40 bp):
AACTTAAAAGCTTTATAGCAATATGCATTACACACTATGT
Found at i:37784773 original size:14 final size:15
Alignment explanation
Indices: 37784756--37784786 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
37784746 GATCAAGATC
37784756 TAAAAATTAAA-TTG
1 TAAAAATTAAACTTG
37784770 TAAAAATTAAACTTG
1 TAAAAATTAAACTTG
37784785 TA
1 TA
37784787 CTCAAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (15 bp):
TAAAAATTAAACTTG
Found at i:37787109 original size:22 final size:21
Alignment explanation
Indices: 37787081--37787123 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
37787071 TTTAGATGCT
37787081 CTTCCGAAGGAACTTTTTCCA
1 CTTCCGAAGGAACTTTTTCCA
*
37787102 NCTTCCGAAGGATCTTTTTCCA
1 -CTTCCGAAGGAACTTTTTCCA
37787124 AAACTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.35
Consensus pattern (21 bp):
CTTCCGAAGGAACTTTTTCCA
Found at i:37792325 original size:77 final size:77
Alignment explanation
Indices: 37792198--37792352 Score: 256
Period size: 77 Copynumber: 2.0 Consensus size: 77
37792188 TATGTTACTT
* *
37792198 TTATAACTTGTCAAATATCCCCACACTTAAGCATTTGCTTATCCTCAAGCAACATGCTCAACTCA
1 TTATAACTTATCAAATATCCCCACACTTAAGCATTTGCCTATCCTCAAGCAACATGCTCAACTCA
37792263 CATTAAAATTAA
66 CATTAAAATTAA
* * * *
37792275 TTATAGCTTATCAAATATCCCGACACTTAAGCGTTTGCCTGTCCTCAAGCAACATGCTCAACTCA
1 TTATAACTTATCAAATATCCCCACACTTAAGCATTTGCCTATCCTCAAGCAACATGCTCAACTCA
37792340 CATTAAAATTAA
66 CATTAAAATTAA
37792352 T
1 T
37792353 CTTTCACAAC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.31
Consensus pattern (77 bp):
TTATAACTTATCAAATATCCCCACACTTAAGCATTTGCCTATCCTCAAGCAACATGCTCAACTCA
CATTAAAATTAA
Found at i:37793977 original size:6 final size:6
Alignment explanation
Indices: 37793968--37793994 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
37793958 ACATAAACAT
37793968 AAAAGA AAAAGA AAAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAA
37793995 TTTAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:37795450 original size:14 final size:15
Alignment explanation
Indices: 37795396--37795450 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 15
37795386 AAATAAGCAG
37795396 TAAGAAAAT-AATAA
1 TAAGAAAATAAATAA
*
37795410 TAAGACTAATCAAATAA
1 TAAGA-AAAT-AAATAA
*
37795427 TAATAAAATAAATAA
1 TAAGAAAATAAATAA
37795442 T-AGAAAATA
1 TAAGAAAATA
37795451 GAACTTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 12 0.35
15 10 0.29
16 3 0.09
17 9 0.26
ACGTcount: A:0.67, C:0.04, G:0.05, T:0.24
Consensus pattern (15 bp):
TAAGAAAATAAATAA
Found at i:37795548 original size:18 final size:21
Alignment explanation
Indices: 37795505--37795548 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 21
37795495 GTAGACTAGG
37795505 TAATAATAATAAAATGTAAAA
1 TAATAATAATAAAATGTAAAA
*
37795526 AAATAA-AAT-AAATG-AAAA
1 TAATAATAATAAAATGTAAAA
37795544 TAATA
1 TAATA
37795549 GCATAACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 8 0.38
19 5 0.24
20 3 0.14
21 5 0.24
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (21 bp):
TAATAATAATAAAATGTAAAA
Found at i:37797762 original size:39 final size:40
Alignment explanation
Indices: 37797667--37797928 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
37797657 TTGAATGATG
*
37797667 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
37797705 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
37797746 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
37797785 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
37797824 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
37797863 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
37797902 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
37797929 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:37800286 original size:42 final size:42
Alignment explanation
Indices: 37800239--37800342 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
37800229 TATCGGGATG
* * *
37800239 TGAGATTCATGTAAGACCATGACTGGGACATTTGCATCGATA
1 TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
*
37800281 TGAGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
1 TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
37800323 TGAGATTCGTGTAAGACCAT
1 TGAGATTCGTGTAAGACCAT
37800343 AGCTAAGCTA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
Found at i:37800356 original size:42 final size:42
Alignment explanation
Indices: 37800239--37800364 Score: 159
Period size: 42 Copynumber: 3.0 Consensus size: 42
37800229 TATCGGGATG
* * ** *
37800239 TGAGATTCATGTAAGACCATGACTGGGACATTTGCATCGATA
1 TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
*
37800281 TGAGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
1 TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
37800323 TGAGATTCGTGTAAGACCATAG-CTAAG-CTATTGG-ATCGATA
1 TGAGATTCGTGTAAGACCAT-GTCTAAGAC-ATTGGCATCGATA
37800364 T
1 T
37800365 ACTATAACAT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
41 9 0.12
42 67 0.87
43 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
Found at i:37801277 original size:21 final size:21
Alignment explanation
Indices: 37801251--37801307 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
37801241 ATGGTATAAG
37801251 GTTGATGAATTGGTACATTTT
1 GTTGATGAATTGGTACATTTT
*
37801272 GTTGATGATGAATTGGTATATTTT
1 G-T--TGATGAATTGGTACATTTT
*
37801296 GTGGCATGAATT
1 GTTG-ATGAATT
37801308 ATATGATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 2 0.07
22 8 0.27
23 1 0.03
24 19 0.63
ACGTcount: A:0.25, C:0.04, G:0.26, T:0.46
Consensus pattern (21 bp):
GTTGATGAATTGGTACATTTT
Found at i:37807597 original size:29 final size:28
Alignment explanation
Indices: 37807561--37807638 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
37807551 TCATGAGATT
37807561 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
37807591 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
37807618 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
37807639 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:37807856 original size:174 final size:174
Alignment explanation
Indices: 37807591--37807918 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
37807581 AAATTGTACA
*
37807591 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
37807656 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
37807721 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
37807765 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
37807830 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
37807895 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
37807919 ACCTTGAGTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:37819180 original size:49 final size:46
Alignment explanation
Indices: 37819123--37819253 Score: 143
Period size: 39 Copynumber: 2.9 Consensus size: 46
37819113 TAGGTGAAAG
*
37819123 TAATAGTGCCTGGTTACCCGTTTGGGTTAAAACCTACACGAATGATGAA
1 TAATAGTGCCTGGTTACCC--TTGGGTT-AAACCTACACGAATAATGAA
*
37819172 TAATAGTGCCTGGTTA--C-----TTAAACCTACATGAATAATGAA
1 TAATAGTGCCTGGTTACCCTTGGGTTAAACCTACACGAATAATGAA
37819211 TAATAGTGCCTGGTTACCCATTAGGGTTAAACCTACAC-AATAA
1 TAATAGTGCCTGGTTACCC-TT-GGGTTAAACCTACACGAATAA
37819254 ATAGCATGAT
Statistics
Matches: 70, Mismatches: 3, Indels: 20
0.75 0.03 0.22
Matches are distributed among these distances:
39 34 0.49
40 2 0.03
41 1 0.01
47 6 0.09
48 11 0.16
49 16 0.23
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (46 bp):
TAATAGTGCCTGGTTACCCTTGGGTTAAACCTACACGAATAATGAA
Found at i:37829272 original size:50 final size:50
Alignment explanation
Indices: 37829166--37829358 Score: 179
Period size: 50 Copynumber: 3.7 Consensus size: 50
37829156 GGGAATGAGA
* * **
37829166 TCCCATGTAAGACCATGTCTGGGACATGCCATTGGCATTATTGAGGTTATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGA-G--ATGAGAGG
* * *
37829222 TCTCACATAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * * **
37829272 TCCCCCGTAAGACCATGCCTGGGACATGGCATGGGCATCGATATGAGAAA
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * *
37829322 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
37829359 GTACAGGAAA
Statistics
Matches: 114, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
50 79 0.69
52 1 0.01
53 3 0.03
56 31 0.27
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:37829387 original size:49 final size:49
Alignment explanation
Indices: 37829323--37829554 Score: 401
Period size: 49 Copynumber: 4.7 Consensus size: 49
37829313 TATGAGAAAT
37829323 CCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAGGAAACAA
1 CCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAGGAAACAA
37829372 CCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAGGAAACAA
1 CCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAGGAAACAA
37829421 CCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAGGAAACAA
1 CCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAGGAAACAA
* *
37829470 CCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACCGGAAACAT
1 CCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAGGAAACAA
* * * * *
37829519 CTCATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 CCCATGTAAGACCATATCTGGGATATGGCATTGGCA
37829555 TGTTATTATC
Statistics
Matches: 176, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 176 1.00
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (49 bp):
CCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAGGAAACAA
Found at i:37829781 original size:20 final size:20
Alignment explanation
Indices: 37829756--37829805 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
37829746 ATGAGTTATT
37829756 TAAGTAAGCAAGTAAGTAAA
1 TAAGTAAGCAAGTAAGTAAA
37829776 TAAGTAAG-AGAGTAAGTAAA
1 TAAGTAAGCA-AGTAAGTAAA
*
37829796 GAAG-AAGCAA
1 TAAGTAAGCAA
37829806 AGACTATGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.56, C:0.04, G:0.24, T:0.16
Consensus pattern (20 bp):
TAAGTAAGCAAGTAAGTAAA
Found at i:37839935 original size:30 final size:30
Alignment explanation
Indices: 37839879--37839935 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
37839869 CAAATGCACG
* * *
37839879 ATCAGATACAAAATCACATATGTTTTCTTA
1 ATCAAATACAAAATAACATAGGTTTTCTTA
37839909 ATCAAATACAAAATAACAT-GGATTTTC
1 ATCAAATACAAAATAACATAGG-TTTTC
37839936 AGAATCAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 1 0.04
30 22 0.96
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (30 bp):
ATCAAATACAAAATAACATAGGTTTTCTTA
Found at i:37842817 original size:25 final size:25
Alignment explanation
Indices: 37842789--37842859 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
37842779 TTTTTGATAG
*
37842789 TATATCCTGAAACTGCTATAGGTAC
1 TATATACTGAAACTGCTATAGGTAC
*
37842814 TATATACTGAAACTGCTATAGGTAG
1 TATATACTGAAACTGCTATAGGTAC
* *
37842839 TATATACTGAGACTACTATAG
1 TATATACTGAAACTGCTATAG
37842860 ATAGACTGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (25 bp):
TATATACTGAAACTGCTATAGGTAC
Found at i:37860605 original size:27 final size:27
Alignment explanation
Indices: 37860566--37860733 Score: 205
Period size: 27 Copynumber: 6.2 Consensus size: 27
37860556 TGAGGTCAAT
*
37860566 AAATGACCAAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
37860593 AAATGACCGAAATACCC-CTGAAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* * *
37860620 AAATAACTGAAATACCCTTGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
**
37860647 AAATGACTAAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
** *
37860674 AAATGATTGAAATACCCCCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
37860701 AAATAACCGAAATACCC-CCATAGGGTA
1 AAATGACCGAAATACCCTCGA-AGGGTA
37860728 AAATGA
1 AAATGA
37860734 TTTTTATATG
Statistics
Matches: 123, Mismatches: 15, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
26 3 0.02
27 120 0.98
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.17
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:37860701 original size:81 final size:81
Alignment explanation
Indices: 37860566--37860717 Score: 259
Period size: 81 Copynumber: 1.9 Consensus size: 81
37860556 TGAGGTCAAT
* *
37860566 AAATGACCAAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCTGAAGGGTAAAATAACTGAA
1 AAATGACCAAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATAACCGAA
37860631 ATACCCTTGAAGGGTA
66 ATACCCTTGAAGGGTA
* **
37860647 AAATGACTAAAATACCCTCGAAGGGTAAAATGATTGAAATACCCCCGAAGGGTAAAATAACCGAA
1 AAATGACCAAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATAACCGAA
37860712 ATACCC
66 ATACCC
37860718 CCATAGGGTA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.17
Consensus pattern (81 bp):
AAATGACCAAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATAACCGAA
ATACCCTTGAAGGGTA
Found at i:37861146 original size:28 final size:28
Alignment explanation
Indices: 37861106--37861182 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 28
37861096 AGTGTAATGT
*
37861106 TACTGTATTGGGCTAAGGCCCACACTGA
1 TACTATATTGGGCTAAGGCCCACACTGA
* *
37861134 TACTATATTGGGCCAAGGCCCACACTGC
1 TACTATATTGGGCTAAGGCCCACACTGA
*
37861162 TAATGA-ATTGGGCTAAGGCCC
1 TACT-ATATTGGGCTAAGGCCC
37861183 TCATTGTACT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 42 0.98
29 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (28 bp):
TACTATATTGGGCTAAGGCCCACACTGA
Found at i:37867585 original size:23 final size:23
Alignment explanation
Indices: 37867559--37867603 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
37867549 TCCTACCACT
37867559 TAACAAAAAAAATTTAAAAACTA
1 TAACAAAAAAAATTTAAAAACTA
** * *
37867582 TAACTGAAAAATTTTCAAAACT
1 TAACAAAAAAAATTTAAAAACT
37867604 TTAATATTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.60, C:0.11, G:0.02, T:0.27
Consensus pattern (23 bp):
TAACAAAAAAAATTTAAAAACTA
Found at i:37880672 original size:24 final size:23
Alignment explanation
Indices: 37880607--37880671 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
37880597 AGTATTTGTA
***
37880607 TATTTTTTTATAAATTTAGAATTT
1 TATTTTTTTATTTTTTTA-AATTT
37880631 TATTTTTTTATTTTTTTAAATTT
1 TATTTTTTTATTTTTTTAAATTT
37880654 TATCCTTTTTTATTTTTT
1 TAT--TTTTTTATTTTTT
37880672 AGATTTCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
23 8 0.22
24 15 0.42
25 13 0.36
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (23 bp):
TATTTTTTTATTTTTTTAAATTT
Found at i:37881130 original size:17 final size:16
Alignment explanation
Indices: 37881102--37881144 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
37881092 AACAAATAAT
*
37881102 TTAAAAATTAAAAATA
1 TTAAAAAATAAAAATA
37881118 TTGAAAAAAT-AAAATA
1 TT-AAAAAATAAAAATA
37881134 TTAAGAAAATA
1 TTAA-AAAATA
37881145 GCATAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 2 0.09
16 15 0.65
17 6 0.26
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (16 bp):
TTAAAAAATAAAAATA
Found at i:37883016 original size:21 final size:21
Alignment explanation
Indices: 37882992--37883032 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
37882982 AAAGAGGAAA
*
37882992 AATAGAAAAGAAAAACTAAAT
1 AATAGAAAAGAAAAAATAAAT
*
37883013 AATATAAAAGAAAAAATAAA
1 AATAGAAAAGAAAAAATAAA
37883033 AGAATTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (21 bp):
AATAGAAAAGAAAAAATAAAT
Found at i:37883043 original size:22 final size:21
Alignment explanation
Indices: 37882992--37883042 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
37882982 AAAGAGGAAA
* * *
37882992 AATAGAAAAGAAAAACTAAAT
1 AATATAAAAGAAAAAATAAAG
37883013 AATATAAAAGAAAAAATAAAAG
1 AATATAAAAGAAAAAAT-AAAG
37883035 AAT-TAAAA
1 AATATAAAA
37883043 AATATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.16
Consensus pattern (21 bp):
AATATAAAAGAAAAAATAAAG
Found at i:37885786 original size:19 final size:18
Alignment explanation
Indices: 37885762--37885806 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
37885752 ATGAGTTTGT
37885762 TTTTTAGTTC-TTTTATACG
1 TTTTTAGTTCATTTT-T-CG
*
37885781 TTTTTATTTCATTTTTCG
1 TTTTTAGTTCATTTTTCG
37885799 TTTTTAGT
1 TTTTTAGT
37885807 AGTTTAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 9 0.39
19 10 0.43
20 4 0.17
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.69
Consensus pattern (18 bp):
TTTTTAGTTCATTTTTCG
Found at i:37886284 original size:6 final size:6
Alignment explanation
Indices: 37886273--37886311 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
37886263 TTCTTTTTTA
37886273 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT
37886312 GCTTAATTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:37891130 original size:45 final size:45
Alignment explanation
Indices: 37891061--37891242 Score: 235
Period size: 45 Copynumber: 4.1 Consensus size: 45
37891051 ACGTGTACCA
* *
37891061 GGTACCATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCACCG
1 GGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCACCG
*
37891106 GGTATCATTGATTATAAAGGTGGTTGCT-TGTGTTGATTCCACCG
1 GGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCACCG
* * * * *
37891150 GGTACCATTGATTATGAAGATGGTTGCTATGTGCTGATTCCACCT
1 GGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCACCG
* * *
37891195 AGTATCATTGACTATAAGGGTGG-TGCTGTGTGCTGA-TCCACCG
1 GGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCACCG
*
37891238 TGTAT
1 GGTAT
37891243 TTGTTATTAT
Statistics
Matches: 119, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
43 10 0.08
44 52 0.44
45 57 0.48
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.36
Consensus pattern (45 bp):
GGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCACCG
Found at i:37891217 original size:89 final size:88
Alignment explanation
Indices: 37891061--37891237 Score: 248
Period size: 89 Copynumber: 2.0 Consensus size: 88
37891051 ACGTGTACCA
* * * * *
37891061 GGTACCATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCACCGGGTATCATTGATTATAAAGG
1 GGTACCATTGATTATAAAGATGGTTGCTATGTGCTGATTCCACCGAGTATCATTGACTATAAAGG
*
37891126 TGGTTGCT-TGTGTTGATTCCACCG
66 TGG-TGCTGTGTGCTGA-TCCACCG
* * *
37891150 GGTACCATTGATTATGAAGATGGTTGCTATGTGCTGATTCCACCTAGTATCATTGACTATAAGGG
1 GGTACCATTGATTATAAAGATGGTTGCTATGTGCTGATTCCACCGAGTATCATTGACTATAAAGG
37891215 TGGTGCTGTGTGCTGATCCACCG
66 TGGTGCTGTGTGCTGATCCACCG
37891238 TGTATTTGTT
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
88 11 0.14
89 67 0.86
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.35
Consensus pattern (88 bp):
GGTACCATTGATTATAAAGATGGTTGCTATGTGCTGATTCCACCGAGTATCATTGACTATAAAGG
TGGTGCTGTGTGCTGATCCACCG
Found at i:37893256 original size:21 final size:23
Alignment explanation
Indices: 37893232--37893282 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 23
37893222 AATTTAAATG
37893232 TAATTTAA-AAA-TGATTTGT-TT
1 TAATTTAATAAATTG-TTTGTATT
37893253 TAA-TTAATAAATTGTTTGTATT
1 TAATTTAATAAATTGTTTGTATT
*
37893275 GAATTTAA
1 TAATTTAA
37893283 GAAAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 4 0.16
21 11 0.44
22 6 0.24
23 4 0.16
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (23 bp):
TAATTTAATAAATTGTTTGTATT
Found at i:37908874 original size:30 final size:30
Alignment explanation
Indices: 37908813--37908902 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 30
37908803 CAAGTTTCAA
* * * **
37908813 GAGCTACACAGGCTGGACACACAGCTGTGT
1 GAGCCACACGGGCTGGACACACAACCATGT
*
37908843 GAGCCACACGGGCTGGACACACAATCATGT
1 GAGCCACACGGGCTGGACACACAACCATGT
* * * *
37908873 GAGGCACAGGGGAT-GCCACACAACCATGT
1 GAGCCACACGGGCTGGACACACAACCATGT
37908902 G
1 G
37908903 CCAGAACGTG
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
29 14 0.29
30 35 0.71
ACGTcount: A:0.29, C:0.28, G:0.30, T:0.13
Consensus pattern (30 bp):
GAGCCACACGGGCTGGACACACAACCATGT
Found at i:37909742 original size:20 final size:20
Alignment explanation
Indices: 37909703--37909744 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
37909693 CAATTTTTTT
*
37909703 TAATCTTGCCAAATTATTGA
1 TAATCTTGCCAAAATATTGA
* *
37909723 TAATCTTTCCAAAATCTTGA
1 TAATCTTGCCAAAATATTGA
37909743 TA
1 TA
37909745 CCAACCATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.40
Consensus pattern (20 bp):
TAATCTTGCCAAAATATTGA
Found at i:37918824 original size:25 final size:25
Alignment explanation
Indices: 37918790--37918841 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
37918780 AGTGTTGATG
37918790 TTAGAACCATTCACAACAAGGTATA
1 TTAGAACCATTCACAACAAGGTATA
37918815 TTAGAACCATTCACAACAAGGTATA
1 TTAGAACCATTCACAACAAGGTATA
37918840 TT
1 TT
37918842 CGAGTACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (25 bp):
TTAGAACCATTCACAACAAGGTATA
Found at i:37919807 original size:21 final size:21
Alignment explanation
Indices: 37919781--37919838 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
37919771 GATTCGACTC
*
37919781 GGTGTCGTGATACTGAGTATG
1 GGTGTCGTGACACTGAGTATG
*
37919802 GGTGTCGTGGCACTGAGTATG
1 GGTGTCGTGACACTGAGTATG
* *
37919823 GGTGTTGTGGCACTGA
1 GGTGTCGTGACACTGA
37919839 ACTTTGAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.16, C:0.12, G:0.41, T:0.31
Consensus pattern (21 bp):
GGTGTCGTGACACTGAGTATG
Found at i:37920277 original size:3 final size:3
Alignment explanation
Indices: 37920271--37920311 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
37920261 ACATGTTTTT
37920271 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
37920312 TGGATGTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:37924651 original size:3 final size:3
Alignment explanation
Indices: 37924643--37924683 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
37924633 ATCACATGTT
37924643 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
37924684 TGGATGTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:37930223 original size:11 final size:11
Alignment explanation
Indices: 37930207--37930232 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
37930197 TAGAAGAGAC
37930207 GAAACAGGGGA
1 GAAACAGGGGA
37930218 GAAACAGGGGA
1 GAAACAGGGGA
37930229 GAAA
1 GAAA
37930233 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:37934627 original size:11 final size:11
Alignment explanation
Indices: 37934611--37934636 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
37934601 TAGAAGAGAC
37934611 GAAACAGGGGA
1 GAAACAGGGGA
37934622 GAAACAGGGGA
1 GAAACAGGGGA
37934633 GAAA
1 GAAA
37934637 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:37935346 original size:6 final size:6
Alignment explanation
Indices: 37935297--37935345 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
37935287 ATGTGAGGTA
* * *
37935297 AGTATT AATATT AGTATT AGTATT AGTATT AGTATT ATTATT ATTATT
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT
37935345 A
1 A
37935346 TGAGTGGGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (6 bp):
AGTATT
Found at i:37939960 original size:27 final size:27
Alignment explanation
Indices: 37939930--37940049 Score: 127
Period size: 27 Copynumber: 4.4 Consensus size: 27
37939920 GTTCCAAAGA
* *
37939930 GCCACTGTCACTGAATTGCACTGAAGT
1 GCCACTATCACTGAGTTGCACTGAAGT
* * *
37939957 GCCACTATAACTTAGTTGCAC-CATAGT
1 GCCACTATCACTGAGTTGCACTGA-AGT
* * *
37939984 GTCATTATCACT-ATGTTGCACAGAAGT
1 GCCACTATCACTGA-GTTGCACTGAAGT
*
37940011 GTCACTATCACTGAGTTGCACTGAAGT
1 GCCACTATCACTGAGTTGCACTGAAGT
37940038 GCCACTATCACT
1 GCCACTATCACT
37940050 ATGCTCACTG
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
26 2 0.03
27 73 0.95
28 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (27 bp):
GCCACTATCACTGAGTTGCACTGAAGT
Found at i:37940064 original size:27 final size:27
Alignment explanation
Indices: 37939945--37940061 Score: 116
Period size: 27 Copynumber: 4.4 Consensus size: 27
37939935 TGTCACTGAA
*
37939945 TTGCACTGAAGTGCCACTATAACT-TAG
1 TTGCACTGAAGTGCCACTATCACTAT-G
* * *
37939972 TTGCAC-CATAGTGTCATTATCACTATG
1 TTGCACTGA-AGTGCCACTATCACTATG
* *
37939999 TTGCACAGAAGTGTCACTATCACTGA-G
1 TTGCACTGAAGTGCCACTATCACT-ATG
37940026 TTGCACTGAAGTGCCACTATCACTATG
1 TTGCACTGAAGTGCCACTATCACTATG
*
37940053 CT-CACTGAA
1 TTGCACTGAA
37940062 AGTTTCTTAA
Statistics
Matches: 76, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
26 9 0.12
27 64 0.84
28 3 0.04
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (27 bp):
TTGCACTGAAGTGCCACTATCACTATG
Found at i:37942079 original size:27 final size:27
Alignment explanation
Indices: 37942048--37942225 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
37942038 TAAATTGTAC
37942048 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
37942075 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37942101 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
37942129 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
37942157 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37942184 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
37942211 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37942226 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:37942162 original size:82 final size:81
Alignment explanation
Indices: 37942049--37942204 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37942039 AAATTGTACA
* *
37942049 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
37942113 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
37942130 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
37942195 TGCGAGTTGA
65 TGCGAATTGA
37942205 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:37942216 original size:82 final size:81
Alignment explanation
Indices: 37942045--37942225 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
37942035 GATTAAATTG
* *
37942045 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
37942110 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
37942126 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
37942190 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
37942208 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
37942226 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:37953690 original size:42 final size:43
Alignment explanation
Indices: 37953535--37953782 Score: 300
Period size: 43 Copynumber: 5.8 Consensus size: 43
37953525 GCGTCGCTAA
*
37953535 CTTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* *
37953578 CTTTAGCGGCGCTTTTCTCACAAATGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* * *
37953621 CTTTAACGGCGCTTTTCCCTCAAACGCCGCTAAAGACCACGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* *
37953664 TTTTAGCGGCAC-TTTCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* * ** * * * *
37953706 ATTTAGCGACGCTTTTATCATAAACGTCGCTATAGACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* * ** *
37953749 CTTTAGCAGCGCTTCTAGCAAAAACGCCGCTAAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
37953783 AACATAAACT
Statistics
Matches: 174, Mismatches: 30, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
42 37 0.21
43 137 0.79
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
Found at i:37953731 original size:85 final size:85
Alignment explanation
Indices: 37953544--37953782 Score: 275
Period size: 85 Copynumber: 2.8 Consensus size: 85
37953534 ACTTTAGCGG
* *
37953544 CGCTTTTCC-TACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCTCACAAATGCCGC
1 CGCTTTTCCAT-CAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGC-TTTCCCACAAACGCCGC
* *
37953608 TAAAGACCAAGACCTTTAACGG
64 TAAAGACCAAGACATTTAACGA
* * * *
37953630 CGCTTTTCCCTCAAACGCCGCTAAAGACCACGACTTTTAGCGGCACTTTCCCACAAACGCCGCTA
1 CGCTTTTCCATCAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCACAAACGCCGCTA
*
37953695 AAGACCAAGACATTTAGCGA
66 AAGACCAAGACATTTAACGA
* * * * * ** *
37953715 CGCTTTTATCAT-AAACGTCGCTATAGACCATGACCTTTAGCAGCGCTTCTAGCAAAAACGCCGC
1 CGCTTTT-CCATCAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTT-TCCCACAAACGCCGC
37953779 TAAA
64 TAAA
37953783 AACATAAACT
Statistics
Matches: 131, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
85 71 0.54
86 59 0.45
87 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (85 bp):
CGCTTTTCCATCAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCACAAACGCCGCTA
AAGACCAAGACATTTAACGA
Found at i:37953774 original size:128 final size:129
Alignment explanation
Indices: 37953536--37953782 Score: 334
Period size: 128 Copynumber: 1.9 Consensus size: 129
37953526 CGTCGCTAAC
* * * * *
37953536 TTTAGCGGCGCTTTTCCTACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCTCACAA
1 TTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGACCAAGACATTTAGCGACGCTTTTATCACAA
* * * * **
37953601 ATGCCGCTAAAGACCAAGACCTTTAACGGCGCTTTTCCCTCAAACGCCGCTAAAGACCACGACT
66 ACGCCGCTAAAGACCAAGACCTTTAACAGCGCTTCTACCAAAAACGCCGCTAAAGACCACGACT
*
37953665 TTTAGCGGCAC-TTTCCCACAAACGCCGCTAAAGACCAAGACATTTAGCGACGCTTTTATCATAA
1 TTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGACCAAGACATTTAGCGACGCTTTTATCACAA
* * * * *
37953729 ACGTCGCTATAGACCATGACCTTTAGCAGCGCTTCTAGCAAAAACGCCGCTAAA
66 ACGCCGCTAAAGACCAAGACCTTTAACAGCGCTTCTACCAAAAACGCCGCTAAA
37953783 AACATAAACT
Statistics
Matches: 101, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
128 91 0.90
129 10 0.10
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (129 bp):
TTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGACCAAGACATTTAGCGACGCTTTTATCACAA
ACGCCGCTAAAGACCAAGACCTTTAACAGCGCTTCTACCAAAAACGCCGCTAAAGACCACGACT
Found at i:37954175 original size:17 final size:17
Alignment explanation
Indices: 37954153--37954185 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
37954143 ATACAAAATA
37954153 AAAACTTAATGCTACAG
1 AAAACTTAATGCTACAG
37954170 AAAACTTAATGCTACA
1 AAAACTTAATGCTACA
37954186 AAATAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.18, G:0.09, T:0.24
Consensus pattern (17 bp):
AAAACTTAATGCTACAG
Found at i:37955870 original size:15 final size:15
Alignment explanation
Indices: 37955846--37955882 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
37955836 AACACTCACA
*
37955846 AAAATTCCAAGAATG
1 AAAATCCCAAGAATG
37955861 AAAATCCCAAGAATG
1 AAAATCCCAAGAATG
37955876 AAAATCC
1 AAAATCC
37955883 AAGTTCATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.54, C:0.19, G:0.11, T:0.16
Consensus pattern (15 bp):
AAAATCCCAAGAATG
Found at i:37956442 original size:41 final size:41
Alignment explanation
Indices: 37956398--37956542 Score: 175
Period size: 41 Copynumber: 3.5 Consensus size: 41
37956388 TTTTATTATT
* *
37956398 ATTAGCGGCGCTTTTCAAAAAATGCTGCTAAAGGCACGAGT
1 ATTAGCGGCGCTTTTCAAAAAATGCTGCTAAAGGCCCGAGC
* *
37956439 ATTAGCGGCGCTTTTCAAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTCAAAAAATGCTGCTAAAGGCCCGAGC
* * ** *
37956480 ATTGGCGGCACTTTTTTAAAAATG-TCGCTAAAGGCCCAAGC
1 ATTAGCGGCGCTTTTCAAAAAATGCT-GCTAAAGGCCCGAGC
*
37956521 ATTAGCGGCGATTTTTCAAAAA
1 ATTAGCGGCG-CTTTTCAAAAA
37956543 TGCCGTTAAA
Statistics
Matches: 86, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
41 78 0.91
42 8 0.09
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTCAAAAAATGCTGCTAAAGGCCCGAGC
Done.