Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 108 of 297
Found at i:38868111 original size:31 final size:30
Alignment explanation
Indices: 38868072--38868135 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
38868062 CATTTACAGT
* *
38868072 AAAAGCTTCGGCCCAGTAATATGAAATTTG
1 AAAAGCTTCGACCCAGTAATATGAAATATG
**
38868102 AAAAGGCTTCGACCCAGTGTTATGAAATATG
1 AAAA-GCTTCGACCCAGTAATATGAAATATG
38868133 AAA
1 AAA
38868136 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 4 0.14
31 25 0.86
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (30 bp):
AAAAGCTTCGACCCAGTAATATGAAATATG
Found at i:38875688 original size:20 final size:20
Alignment explanation
Indices: 38875665--38875703 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
38875655 TAAACATGGT
38875665 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
38875685 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
38875704 TGTATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:38875787 original size:23 final size:23
Alignment explanation
Indices: 38875757--38875992 Score: 312
Period size: 23 Copynumber: 10.1 Consensus size: 23
38875747 AGGAAGTGAA
* *
38875757 AAAGGGCTTACGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
38875780 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
38875803 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
**
38875827 AAAGGGCTTACACCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
38875850 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
38875873 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
* * *
38875897 AAAGAGCTTACG-CCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
38875920 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
38875943 GAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
38875967 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
38875990 AAA
1 AAA
38875993 AGAGGCTAGG
Statistics
Matches: 190, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
23 131 0.69
24 59 0.31
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:38875848 original size:47 final size:46
Alignment explanation
Indices: 38875757--38876014 Score: 322
Period size: 47 Copynumber: 5.5 Consensus size: 46
38875747 AGGAAGTGAA
* * * *
38875757 AAAGGGCTTACGCCCTAGTTATTAAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
**
38875803 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACACCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
* *
38875850 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT-T
* *
38875897 AAAGAGCTTACG-CCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
* *
38875943 GAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
*
38875990 AAAAGAGGC-TAGGCCTCCAGTTATA
1 -AAAG-GGCTTATGCC-CCAGTTATA
38876015 TGATAAAGCA
Statistics
Matches: 184, Mismatches: 21, Indels: 12
0.85 0.10 0.06
Matches are distributed among these distances:
46 58 0.32
47 106 0.58
48 9 0.05
49 11 0.06
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
Found at i:38875870 original size:70 final size:70
Alignment explanation
Indices: 38875756--38875992 Score: 377
Period size: 70 Copynumber: 3.4 Consensus size: 70
38875746 GAGGAAGTGA
* *
38875756 AAAAGGGCTTACGCCCTAGTTATTAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAG
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAG
38875821 TTATC
66 TTATC
*
38875826 AAAAGGGCTTACACCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAG
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAG
38875891 TTATC
66 TTATC
* * *
38875896 AAAAGAGCTTACG-CCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTGAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
*
38875960 GTTATA
65 GTTATC
**
38875966 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTACGCCCCAGTTATTAAA
38875993 AGAGGCTAGG
Statistics
Matches: 153, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
69 9 0.06
70 135 0.88
71 9 0.06
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (70 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAG
TTATC
Found at i:38876242 original size:31 final size:31
Alignment explanation
Indices: 38876207--38876270 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
38876197 CGTTTACAGT
*
38876207 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
38876238 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
38876269 AA
1 AA
38876271 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:38877404 original size:20 final size:19
Alignment explanation
Indices: 38877381--38877427 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
38877371 TATTTCTTAA
38877381 AATTAAAACTCAATTCTACC
1 AATTAAAACTCAATTC-ACC
* *
38877401 AATTCAAAACTCCATTCAGC
1 AATT-AAAACTCAATTCACC
38877421 AATTAAA
1 AATTAAA
38877428 CATGAATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (19 bp):
AATTAAAACTCAATTCACC
Found at i:38878540 original size:28 final size:28
Alignment explanation
Indices: 38878497--38878597 Score: 89
Period size: 28 Copynumber: 3.6 Consensus size: 28
38878487 ATGAAACAAA
38878497 ATCT-GCACACACAGTGCCCACTGACCG
1 ATCTCGCACACACAGTGCCCACTGACCG
* * * ** * **
38878524 ATCTCGCGCACATAGTGCTCGGTTAAAG
1 ATCTCGCACACACAGTGCCCACTGACCG
*
38878552 AAT-TCACACACACAGTGCCCACTGACCG
1 -ATCTCGCACACACAGTGCCCACTGACCG
*
38878580 ATCTCGCACACATAGTGC
1 ATCTCGCACACACAGTGC
38878598 TCGGTTAAAG
Statistics
Matches: 52, Mismatches: 19, Indels: 5
0.68 0.25 0.07
Matches are distributed among these distances:
27 6 0.12
28 44 0.85
29 2 0.04
ACGTcount: A:0.28, C:0.35, G:0.19, T:0.19
Consensus pattern (28 bp):
ATCTCGCACACACAGTGCCCACTGACCG
Found at i:38878586 original size:56 final size:56
Alignment explanation
Indices: 38878502--38878626 Score: 241
Period size: 56 Copynumber: 2.2 Consensus size: 56
38878492 ACAAAATCTG
*
38878502 CACACACAGTGCCCACTGACCGATCTCGCGCACATAGTGCTCGGTTAAAGAATTCA
1 CACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTCA
38878558 CACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTCA
1 CACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTCA
38878614 CACACACAGTGCC
1 CACACACAGTGCC
38878627 TCAATTCATT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 68 1.00
ACGTcount: A:0.30, C:0.34, G:0.18, T:0.18
Consensus pattern (56 bp):
CACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTCA
Found at i:38878617 original size:28 final size:28
Alignment explanation
Indices: 38878532--38878625 Score: 91
Period size: 28 Copynumber: 3.4 Consensus size: 28
38878522 CGATCTCGCG
*
38878532 CACATAGTGCTCGGTTAAAGAATTCACA
1 CACACAGTGCTCGGTTAAAGAATTCACA
* ** * ** *
38878560 CACACAGTGCCCACTGACCG-ATCTCGCA
1 CACACAGTGCTCGGTTAAAGAAT-TCACA
*
38878588 CACATAGTGCTCGGTTAAAGAATTCACA
1 CACACAGTGCTCGGTTAAAGAATTCACA
38878616 CACACAGTGC
1 CACACAGTGC
38878626 CTCAATTCAT
Statistics
Matches: 47, Mismatches: 17, Indels: 4
0.69 0.25 0.06
Matches are distributed among these distances:
27 2 0.04
28 43 0.91
29 2 0.04
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (28 bp):
CACACAGTGCTCGGTTAAAGAATTCACA
Found at i:38878643 original size:25 final size:25
Alignment explanation
Indices: 38878609--38878661 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
38878599 CGGTTAAAGA
38878609 ATTCACACACACAGTGCCTCA-ATTC
1 ATTCACACACACAGTGCCT-ATATTC
* *
38878634 ATTCGCACACATAGTGCCTATATTC
1 ATTCACACACACAGTGCCTATATTC
38878659 ATT
1 ATT
38878662 TGTTATTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.30
Consensus pattern (25 bp):
ATTCACACACACAGTGCCTATATTC
Found at i:38878843 original size:43 final size:43
Alignment explanation
Indices: 38878794--38878918 Score: 169
Period size: 43 Copynumber: 2.9 Consensus size: 43
38878784 CACCGATATT
* * * *
38878794 AAGCCTGCTAGGCACGAAGACCCAAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACA
* *
38878837 AAGCCTGTTAGGAACGAAGGCCCGAATACACATCACCAGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACA
* * *
38878880 AAGCCTGCTAGGCATGAAGGCCTGATTACACATCACCAG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAG
38878919 TACGAATGCC
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.34, C:0.31, G:0.22, T:0.13
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACA
Found at i:38878978 original size:40 final size:40
Alignment explanation
Indices: 38878913--38879050 Score: 222
Period size: 40 Copynumber: 3.5 Consensus size: 40
38878903 GATTACACAT
* * * * *
38878913 CACCAGTACGAATGCCCTTCAGGACTTAGCTCGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
38878953 CACCAGCACGAATTCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
38878993 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
38879033 CACCAGCACGAATGCTCT
1 CACCAGCACGAATGCTCT
38879051 CCGGATGTTC
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 91 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:38882885 original size:20 final size:19
Alignment explanation
Indices: 38882862--38882908 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
38882852 TATTTCTTAA
38882862 AATTAAAACTCAATTCTACC
1 AATTAAAACTCAATTC-ACC
* *
38882882 AATTCAAAACTCCATTCAGC
1 AATT-AAAACTCAATTCACC
38882902 AATTAAA
1 AATTAAA
38882909 CATGAATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (19 bp):
AATTAAAACTCAATTCACC
Found at i:38887968 original size:26 final size:26
Alignment explanation
Indices: 38887929--38887981 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
38887919 CGATAAAAGC
*
38887929 TGAAATACCGAAACGTTGGTATTTTG
1 TGAAATACCAAAACGTTGGTATTTTG
38887955 TGAAATACCAAAACGTTGGTATTTTG
1 TGAAATACCAAAACGTTGGTATTTTG
38887981 T
1 T
38887982 TACACCCTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (26 bp):
TGAAATACCAAAACGTTGGTATTTTG
Found at i:38902211 original size:70 final size:70
Alignment explanation
Indices: 38902098--38902236 Score: 260
Period size: 70 Copynumber: 2.0 Consensus size: 70
38902088 ACCAAAGTTT
*
38902098 CTCCATCTTTGCTCCTCATTGCCGTAACTAGAAGAGAAAAAGCTTTGAGAAATTTAGCTATGGTG
1 CTCCATCTTTGCTCCTCATTGCCGTAACTAGAAGAGAAAAAGCTTTGAGAAATTCAGCTATGGTG
38902163 GTTAC
66 GTTAC
*
38902168 CTCCATCTTTGCTCCTCATTGCCGTAACTAGAAGAGAAAAAGCTTTGAGAAATTCGGCTATGGTG
1 CTCCATCTTTGCTCCTCATTGCCGTAACTAGAAGAGAAAAAGCTTTGAGAAATTCAGCTATGGTG
38902233 GTTA
66 GTTA
38902237 GCTAAATGAA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (70 bp):
CTCCATCTTTGCTCCTCATTGCCGTAACTAGAAGAGAAAAAGCTTTGAGAAATTCAGCTATGGTG
GTTAC
Found at i:38903535 original size:40 final size:40
Alignment explanation
Indices: 38903487--38904412 Score: 1671
Period size: 40 Copynumber: 23.2 Consensus size: 40
38903477 GGACTAAGAT
*
38903487 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
*
38903527 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
38903567 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
38903607 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
38903647 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
38903687 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
38903727 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
38903767 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
38903807 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
38903847 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
38903887 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
38903927 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
38903967 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
38904007 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
38904047 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
38904087 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
38904127 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
* * *
38904167 CCGAAGGCATTTGTGCTAGTGA-TGATAACCGGACTAAGAT-
1 CCGAAGGCATTTGTGCTAGTGACT-ATATCTGGGCTAAG-TC
*
38904207 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
* *
38904247 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
38904287 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
* *
38904327 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
* * *
38904367 CCGAAGGCATTTGTGCGAGTTG-CTATAT-TCGGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCTGGGCTAAGTC
*
38904406 TCGAAGG
1 CCGAAGG
38904413 TACTTGGGTT
Statistics
Matches: 864, Mismatches: 17, Indels: 11
0.97 0.02 0.01
Matches are distributed among these distances:
39 16 0.02
40 844 0.98
41 4 0.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
Found at i:38910941 original size:13 final size:13
Alignment explanation
Indices: 38910923--38910948 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38910913 ATATTATAAT
38910923 TATTTTATGTTAA
1 TATTTTATGTTAA
38910936 TATTTTATGTTAA
1 TATTTTATGTTAA
38910949 AAAAATAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:38912451 original size:39 final size:40
Alignment explanation
Indices: 38912326--38912451 Score: 193
Period size: 40 Copynumber: 3.2 Consensus size: 40
38912316 GGACTAAGAT
38912326 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
38912366 CCAAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
38912406 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
38912445 CCGAAGG
1 CCGAAGG
38912452 TACTTGGGTT
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 15 0.19
40 62 0.78
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:38917789 original size:27 final size:27
Alignment explanation
Indices: 38917759--38917820 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
38917749 ATTTACTAAA
38917759 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATTACCATT
* *
38917786 ATA-CCCTTAGGTGCAAAATTACCATT
1 ATACCCCTAAGATGCAAAATTACCATT
38917812 ATACCCCTA
1 ATACCCCTA
38917821 GGGTTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 2 0.07
26 21 0.70
27 7 0.23
ACGTcount: A:0.37, C:0.26, G:0.08, T:0.29
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATT
Found at i:38917968 original size:27 final size:28
Alignment explanation
Indices: 38917926--38918038 Score: 153
Period size: 27 Copynumber: 4.2 Consensus size: 28
38917916 GTGGAAGCGT
38917926 TCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* *
38917953 TCTGGTGGCTCCGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
38917981 TCTGGTGGCTCTGCCA-TAATATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* *
38918008 TCTGGTGACTCTGTCAC-AATATCTGT-
1 TCTGGTGGCTCTGCCACAAATATCTGTA
38918034 TCTGG
1 TCTGG
38918039 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
26 5 0.06
27 57 0.74
28 15 0.19
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:38918032 original size:54 final size:54
Alignment explanation
Indices: 38917924--38918038 Score: 162
Period size: 55 Copynumber: 2.1 Consensus size: 54
38917914 TGGTGGAAGC
*
38917924 GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCCGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCCGCCACAAATATCT
* * *
38917978 GTTTCTGGTGGCTCTGCCA-TAATATCTGTATCTGGTGACTCTGTCAC-AATATCT
1 G-TTCTGGTGGCTCTGCCACAAATATCTG-ATCTGGTGACTCCGCCACAAATATCT
38918032 GTTCTGG
1 GTTCTGG
38918039 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
53 6 0.11
54 17 0.31
55 32 0.58
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCCGCCACAAATATCT
Found at i:38927226 original size:34 final size:34
Alignment explanation
Indices: 38927188--38927260 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
38927178 AGTGACAGTC
*
38927188 CAGTATCAGT-TAGGGCATTAGCCCAATACAGTAT
1 CAGTATCAGTGT-GGGCATTAGCCCAATACAGTAA
* * *
38927222 CAGTATCTGTGTGGGCCTTAGCCCAATTCAGTAA
1 CAGTATCAGTGTGGGCATTAGCCCAATACAGTAA
38927256 CAGTA
1 CAGTA
38927261 ACAGAAATGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 33 0.97
35 1 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (34 bp):
CAGTATCAGTGTGGGCATTAGCCCAATACAGTAA
Found at i:38929741 original size:85 final size:85
Alignment explanation
Indices: 38929644--38929805 Score: 279
Period size: 85 Copynumber: 1.9 Consensus size: 85
38929634 AGTGTGTCGC
* * * * *
38929644 ACACGGCTGAGACGCGCGCCCGTATCTCTGCCTGTGTGGACAAAAATAGGCTACTTTTAAAGCTA
1 ACACGGCTGAGACACACGCCCGTATCTCTGCCTGTGTAGACAAAAATAGGCTACTTGTAAAGCCA
38929709 TTTTGCCACCCTTGTGTCAT
66 TTTTGCCACCCTTGTGTCAT
38929729 ACACGGCTGAGACACACGCCCGTATCTCTGCCTGTGTAGACAAAAATAGGCTACTTGTAAAGCCA
1 ACACGGCTGAGACACACGCCCGTATCTCTGCCTGTGTAGACAAAAATAGGCTACTTGTAAAGCCA
38929794 TTTTGCCACCCT
66 TTTTGCCACCCT
38929806 ACAATCACAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 72 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (85 bp):
ACACGGCTGAGACACACGCCCGTATCTCTGCCTGTGTAGACAAAAATAGGCTACTTGTAAAGCCA
TTTTGCCACCCTTGTGTCAT
Found at i:38934404 original size:29 final size:29
Alignment explanation
Indices: 38934363--38934479 Score: 137
Period size: 29 Copynumber: 4.1 Consensus size: 29
38934353 GTTAGCATGA
* **
38934363 ATAT-AAGGTGATTTGGGCCTAGCAGGCC
1 ATATGAAGGTGAATTGGGCCTAATAGGCC
*
38934391 ATATGAAGGTGATTTGGGCCTAATAGGCC
1 ATATGAAGGTGAATTGGGCCTAATAGGCC
** *
38934420 ATATGAATATGAATTGGGCCTAATTGGCC
1 ATATGAAGGTGAATTGGGCCTAATAGGCC
* * *
38934449 ATATGAATGTGAATTGGGCCTGATGGGCC
1 ATATGAAGGTGAATTGGGCCTAATAGGCC
38934478 AT
1 AT
38934480 GTGACAGCCC
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 4 0.05
29 75 0.95
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (29 bp):
ATATGAAGGTGAATTGGGCCTAATAGGCC
Found at i:38935838 original size:40 final size:39
Alignment explanation
Indices: 38935649--38935831 Score: 192
Period size: 40 Copynumber: 4.6 Consensus size: 39
38935639 GAAGGATGTC
* * * *
38935649 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAT
* * *
38935688 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTT
1 -CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-AT
* *
38935729 CGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTAAAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
38935767 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAT
*
38935808 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
38935832 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
38 1 0.01
39 31 0.26
40 75 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:38935853 original size:79 final size:79
Alignment explanation
Indices: 38935700--38935854 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
38935690 GGACTAAGAT
* * **
38935700 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCTGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATATCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
38935765 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
38935779 CCGAAGGCATTTGTGCGAGTTACT-ATAATCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ATCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
38935842 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
38935855 ATTTCGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.62
80 23 0.35
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATATCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:38935966 original size:14 final size:14
Alignment explanation
Indices: 38935947--38935976 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
38935937 GTATGTTTCG
38935947 TATGTGCTTTGAAT
1 TATGTGCTTTGAAT
*
38935961 TATGTGTTTTGAAT
1 TATGTGCTTTGAAT
38935975 TA
1 TA
38935977 GTTGAGCCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.03, G:0.20, T:0.53
Consensus pattern (14 bp):
TATGTGCTTTGAAT
Found at i:38942398 original size:56 final size:56
Alignment explanation
Indices: 38942312--38942431 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
38942302 ACAAGGGATG
38942312 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
38942368 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
38942424 ATGGGCAA
1 ATGGGCAA
38942432 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:38943798 original size:40 final size:41
Alignment explanation
Indices: 38943560--38943784 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 41
38943550 TCGAAGGATG
* * *
38943560 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
38943600 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
* * * *
38943640 TTCGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTA-CA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
38943679 TCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
38943719 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
38943760 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38943785 AACGAGTAGC
Statistics
Matches: 156, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 30 0.19
40 116 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:38946992 original size:112 final size:112
Alignment explanation
Indices: 38946791--38947014 Score: 430
Period size: 112 Copynumber: 2.0 Consensus size: 112
38946781 GGCATCAGGC
*
38946791 CATATGCCCAATGTTGGAGTAGAAGAGGCTCCGGCCTCACCTGTGGCTGGAAATGGACCGTATGA
1 CATATGCCCAATGTTGGAGTAGAAGAGGCTCCGGCCTCACCTGTGGCTGGAAATAGACCGTATGA
*
38946856 TCGGGCCGCAGGAGAAGATTCATTGTCGCAGGCAATGCTGAGGATTT
66 TCGGGCCGCAGGAGAAGATGCATTGTCGCAGGCAATGCTGAGGATTT
38946903 CATATGCCCAATGTTGGAGTAGAAGAGGCTCCGGCCTCACCTGTGGCTGGAAATAGACCGTATGA
1 CATATGCCCAATGTTGGAGTAGAAGAGGCTCCGGCCTCACCTGTGGCTGGAAATAGACCGTATGA
38946968 TCGGGCCGCAGGAGAAGATGCATTGTCGCAGGCAATGCTGAGGATTT
66 TCGGGCCGCAGGAGAAGATGCATTGTCGCAGGCAATGCTGAGGATTT
38947015 TGGAAAGGGT
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 110 1.00
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.22
Consensus pattern (112 bp):
CATATGCCCAATGTTGGAGTAGAAGAGGCTCCGGCCTCACCTGTGGCTGGAAATAGACCGTATGA
TCGGGCCGCAGGAGAAGATGCATTGTCGCAGGCAATGCTGAGGATTT
Found at i:38949711 original size:29 final size:28
Alignment explanation
Indices: 38949669--38949729 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
38949659 GTAAGCATGA
* *
38949669 ATATAAGGTTATTTGGGCATAACGGGCC
1 ATATAAGGTGATTTGGGCATAACAGGCC
* *
38949697 ATATAAAGGTGATTTGGGCCTAATAGGCC
1 ATAT-AAGGTGATTTGGGCATAACAGGCC
38949726 ATAT
1 ATAT
38949730 GAATATGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (28 bp):
ATATAAGGTGATTTGGGCATAACAGGCC
Found at i:38951490 original size:24 final size:24
Alignment explanation
Indices: 38951436--38951528 Score: 102
Period size: 24 Copynumber: 3.9 Consensus size: 24
38951426 AGTCATGGTC
*
38951436 GGTAAGCTCTTACTGAGCTGATAAAT
1 GGTAAGCTC-TATTGAGCTGA-AAAT
*
38951462 AGTAAGCTCTATTGAGCTGAAAAT
1 GGTAAGCTCTATTGAGCTGAAAAT
* *
38951486 GGTAAGCTCTAATGAGCTGAACA-
1 GGTAAGCTCTATTGAGCTGAAAAT
38951509 -GTAAGCTCT-TTCGAGCTGAA
1 GGTAAGCTCTATT-GAGCTGAA
38951529 TCGGTAAGAT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.02
22 17 0.28
24 24 0.40
25 10 0.17
26 8 0.13
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (24 bp):
GGTAAGCTCTATTGAGCTGAAAAT
Found at i:38951515 original size:22 final size:22
Alignment explanation
Indices: 38951462--38951548 Score: 77
Period size: 24 Copynumber: 3.8 Consensus size: 22
38951452 GCTGATAAAT
* *
38951462 AGTAAGCTCTATTGAGCTGAAA
1 AGTAAGCTCTAATGAGCTGAAC
38951484 ATGGTAAGCTCTAATGAGCTGAAC
1 A--GTAAGCTCTAATGAGCTGAAC
*
38951508 AGTAAGCTCT-TTCGAGCTGAATC
1 AGTAAGCTCTAAT-GAGCTGAA-C
* * *
38951531 GGTAAGATCCAATGAGCT
1 AGTAAGCTCTAATGAGCT
38951549 AAAACCGTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
21 1 0.02
22 18 0.34
23 13 0.25
24 21 0.40
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (22 bp):
AGTAAGCTCTAATGAGCTGAAC
Found at i:38960232 original size:14 final size:13
Alignment explanation
Indices: 38960212--38960243 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
38960202 AATATTTGAC
38960212 TTGTTCTTAATTA
1 TTGTTCTTAATTA
38960225 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
38960239 TTGTT
1 TTGTT
38960244 TTGATATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:38960873 original size:30 final size:30
Alignment explanation
Indices: 38960839--38960900 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
38960829 TTTCAAGAAT
38960839 GATTCATTATAAATATTTAAAACCTGTCAC
1 GATTCATTATAAATATTTAAAACCTGTCAC
38960869 GATTCATTATAAATATTTAAAACCTGTCAC
1 GATTCATTATAAATATTTAAAACCTGTCAC
38960899 GA
1 GA
38960901 ATATCACGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.35
Consensus pattern (30 bp):
GATTCATTATAAATATTTAAAACCTGTCAC
Found at i:38961060 original size:22 final size:22
Alignment explanation
Indices: 38961030--38961071 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
38961020 TCTGGCAACG
*
38961030 GATACAGGTTAGGGGTGTTATA
1 GATACAGGTTAAGGGTGTTATA
* *
38961052 GATATAGGTTAAGTGTGTTA
1 GATACAGGTTAAGGGTGTTA
38961072 CAGGATTACC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.02, G:0.33, T:0.36
Consensus pattern (22 bp):
GATACAGGTTAAGGGTGTTATA
Found at i:38978813 original size:13 final size:13
Alignment explanation
Indices: 38978795--38978821 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38978785 GTACCCGAGA
38978795 CCGTTGCCGGAGT
1 CCGTTGCCGGAGT
38978808 CCGTTGCCGGAGT
1 CCGTTGCCGGAGT
38978821 C
1 C
38978822 GGACACGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.33, G:0.37, T:0.22
Consensus pattern (13 bp):
CCGTTGCCGGAGT
Found at i:38981462 original size:38 final size:38
Alignment explanation
Indices: 38981411--38981486 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
38981401 TTCATCCTTT
*
38981411 TTCATTTCTTTTGGCCGACAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
38981449 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
38981487 GGAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:38982769 original size:40 final size:40
Alignment explanation
Indices: 38982675--38982819 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
38982665 TACTCGAATG
*
38982675 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
38982716 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
38982756 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
38982796 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
38982820 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:38985848 original size:12 final size:13
Alignment explanation
Indices: 38985831--38985859 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
38985821 AAGTATATTA
38985831 TAAAATTTTA-GT
1 TAAAATTTTATGT
38985843 TAAAATTTTATGT
1 TAAAATTTTATGT
38985856 TAAA
1 TAAA
38985860 TAATAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
TAAAATTTTATGT
Found at i:38987026 original size:13 final size:12
Alignment explanation
Indices: 38987004--38987034 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
38986994 GTTAACTGGG
38987004 GAAAATGAAATT
1 GAAAATGAAATT
38987016 GAAAGATGAAATT
1 GAAA-ATGAAATT
38987029 GAAAAT
1 GAAAAT
38987035 CATAATAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (12 bp):
GAAAATGAAATT
Found at i:38992532 original size:48 final size:47
Alignment explanation
Indices: 38992476--38992570 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 47
38992466 AATGACTTTA
38992476 CATATTCAAACAAGGACTTTGAAAATGGTAGCTTATGTTCTTTCCCT
1 CATATTCAAACAAGGACTTTGAAAATGGTAGCTTATGTTCTTTCCCT
*
38992523 NCATATTCAAACAAGGACTTTGAAAATGGTAGCTTATGTTTTTTCCCT
1 -CATATTCAAACAAGGACTTTGAAAATGGTAGCTTATGTTCTTTCCCT
38992571 AAGTGACAAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.37
Consensus pattern (47 bp):
CATATTCAAACAAGGACTTTGAAAATGGTAGCTTATGTTCTTTCCCT
Found at i:38994578 original size:27 final size:27
Alignment explanation
Indices: 38994547--38994608 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
38994537 TATGTTAGTC
38994547 ATTTTACACGACAACGGTATTTCGATA
1 ATTTTACACGACAACGGTATTTCGATA
* * *
38994574 GTTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACGACAACGGTATTTCGATA
38994601 ATTTTACA
1 ATTTTACA
38994609 AATTGGGGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (27 bp):
ATTTTACACGACAACGGTATTTCGATA
Found at i:38994629 original size:27 final size:26
Alignment explanation
Indices: 38994588--38995057 Score: 272
Period size: 27 Copynumber: 17.7 Consensus size: 26
38994578 TACACTACAA
*
38994588 GGGTATTTCGATAATTTTACAAATTG
1 GGGTATTTCGGTAATTTTACAAATTG
* * * *
38994614 GGGATGTTTTGGTAATTTTATAAATTAA
1 GGG-TATTTCGGTAATTTTACAAATT-G
* * * * * *
38994642 AGGTGTTTTGATAATTTCACAAATCG
1 GGGTATTTCGGTAATTTTACAAATTG
*
38994668 GGGATATTTCAGTAATTTTACAAATTG
1 GGG-TATTTCGGTAATTTTACAAATTG
* * *
38994695 AGGGTATTTCGGTAATTTTA-GACTCG
1 -GGGTATTTCGGTAATTTTACAAATTG
* * *
38994721 AGCGTATTTCAGTAATTTTACAAATCG
1 -GGGTATTTCGGTAATTTTACAAATTG
** ** * *
38994748 ATTGTATTTTAGTAATTTCAC-AATCG
1 -GGGTATTTCGGTAATTTTACAAATTG
* * *
38994774 AGGGTATTTTGATAATTTTACAAATCG
1 -GGGTATTTCGGTAATTTTACAAATTG
* * *
38994801 AGGGTATTTCAGTAATTTCAC-AATCG
1 -GGGTATTTCGGTAATTTTACAAATTG
** *
38994827 AGGGTATTTTAGTAATTTTAAAAATTG
1 -GGGTATTTCGGTAATTTTACAAATTG
* *
38994854 AGGGTACTTCGGTAA-TTT-CATAATCG
1 -GGGTATTTCGGTAATTTTACA-AATTG
*
38994880 AGGGTATTTTGGTAATTTTACAAATTG
1 -GGGTATTTCGGTAATTTTACAAATTG
**
38994907 AGGGTATTTTAGTAATTTTAC-AATTG
1 -GGGTATTTCGGTAATTTTACAAATTG
** *
38994933 AGGGTATTTCGACAATTTTACAAATCG
1 -GGGTATTTCGGTAATTTTACAAATTG
* * *
38994960 AGGGTATTTCAGTAATTTCAC-AATCG
1 -GGGTATTTCGGTAATTTTACAAATTG
* *
38994986 AGGGTATTTCGATAATTTTACAAATCG
1 -GGGTATTTCGGTAATTTTACAAATTG
**
38995013 AGGGTATTTCAATAATTTTAC-AATTCG
1 -GGGTATTTCGGTAATTTTACAAATT-G
*
38995040 AGGGTATTTCAGTAATTT
1 -GGGTATTTCGGTAATTT
38995058 CTCTTTATTA
Statistics
Matches: 364, Mismatches: 67, Indels: 25
0.80 0.15 0.05
Matches are distributed among these distances:
25 1 0.00
26 138 0.38
27 218 0.60
28 7 0.02
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (26 bp):
GGGTATTTCGGTAATTTTACAAATTG
Found at i:38994633 original size:54 final size:53
Alignment explanation
Indices: 38994575--38994686 Score: 118
Period size: 54 Copynumber: 2.1 Consensus size: 53
38994565 ATTTCGATAG
* * * **
38994575 TTTTACACTACAAGG-GTATTTCGATAATTTTACAAATTGGGGATGTTTTGGTAAT
1 TTTTACACTA-AAGGTGT-TTT-GATAATTTCACAAATCGGGGATATTTCAGTAAT
* *
38994630 TTTATAAATTAAAGGTGTTTTGATAATTTCACAAATCGGGGATATTTCAGTAAT
1 TTT-TACACTAAAGGTGTTTTGATAATTTCACAAATCGGGGATATTTCAGTAAT
38994684 TTT
1 TTT
38994687 ACAAATTGAG
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
54 31 0.65
55 10 0.21
56 7 0.15
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (53 bp):
TTTTACACTAAAGGTGTTTTGATAATTTCACAAATCGGGGATATTTCAGTAAT
Found at i:38994741 original size:53 final size:53
Alignment explanation
Indices: 38994653--38995057 Score: 503
Period size: 53 Copynumber: 7.6 Consensus size: 53
38994643 GGTGTTTTGA
* *
38994653 TAATTTCACAAATCG-GGGATATTTCAGTAATTTTACAAATTGAGGGTATTTCGG
1 TAATTTCAC-AATCGAGGG-TATTTCAGTAATTTTACAAATCGAGGGTATTTCAG
* * * * ** *
38994707 TAATTTTAGACTCGAGCGTATTTCAGTAATTTTACAAATCGATTGTATTTTAG
1 TAATTTCACAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAG
*
38994760 TAATTTCACAATCGAGGGTATTT-TGATAATTTTACAAATCGAGGGTATTTCAG
1 TAATTTCACAATCGAGGGTATTTCAG-TAATTTTACAAATCGAGGGTATTTCAG
* * * * *
38994813 TAATTTCACAATCGAGGGTATTTTAGTAATTTTAAAAATTGAGGGTACTTCGG
1 TAATTTCACAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAG
* ** * *
38994866 TAATTTCATAATCGAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAG
1 TAATTTCACAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAG
* * *
38994919 TAATTTTACAATTGAGGGTATTTC-GACAATTTTACAAATCGAGGGTATTTCAG
1 TAATTTCACAATCGAGGGTATTTCAG-TAATTTTACAAATCGAGGGTATTTCAG
*
38994972 TAATTTCACAATCGAGGGTATTTC-GATAATTTTACAAATCGAGGGTATTTCAA
1 TAATTTCACAATCGAGGGTATTTCAG-TAATTTTACAAATCGAGGGTATTTCAG
*
38995025 TAATTTTACAATTCGAGGGTATTTCAGTAATTT
1 TAATTTCACAA-TCGAGGGTATTTCAGTAATTT
38995058 CTCTTTATTA
Statistics
Matches: 305, Mismatches: 40, Indels: 12
0.85 0.11 0.03
Matches are distributed among these distances:
52 2 0.01
53 273 0.90
54 29 0.10
55 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (53 bp):
TAATTTCACAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAG
Found at i:38995411 original size:28 final size:28
Alignment explanation
Indices: 38995374--38995437 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
38995364 TGGCCCCTTT
* *
38995374 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
*
38995402 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
38995430 AGGCCCAA
1 AGGCCCAA
38995438 CTACTTCCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.27, C:0.38, G:0.17, T:0.19
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATGGCCCATC
Found at i:38998825 original size:40 final size:40
Alignment explanation
Indices: 38998781--38998971 Score: 158
Period size: 40 Copynumber: 4.6 Consensus size: 40
38998771 GCTCCTCATT
* *
38998781 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
38998821 CAAATGCCTTCGGGACTTAACCCTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGG-----A--CTTAGCCCGG-TTATAGTAACTCGCA
* *
38998868 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
38998907 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
38998948 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
38998972 ACATCATTCA
Statistics
Matches: 123, Mismatches: 13, Indels: 30
0.74 0.08 0.18
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 43 0.35
41 12 0.10
45 1 0.01
47 32 0.26
48 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:38998972 original size:40 final size:40
Alignment explanation
Indices: 38998843--38998972 Score: 133
Period size: 39 Copynumber: 3.3 Consensus size: 40
38998833 GGACTTAACC
* * * *
38998843 CTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-
1 CTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGA
*
38998882 CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGA
1 CTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGA
* * *
38998921 TCTTAGTCCGG-ATATGGTCACTTAGCACAAA-GCCTTCGGGA
1 -CTTAGCCCGGAAT-TAGTAAC-TAGCACAAATGCCTTCGGGA
38998962 CTTAGCCCGGA
1 CTTAGCCCGGA
38998973 CATCATTCAA
Statistics
Matches: 77, Mismatches: 8, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
38 2 0.03
39 35 0.45
40 29 0.38
41 11 0.14
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGA
Found at i:39011145 original size:28 final size:28
Alignment explanation
Indices: 39011079--39011206 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
39011069 CATGAGATTG
* * **
39011079 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
39011108 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
39011136 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
39011165 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
39011193 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
39011207 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:39011168 original size:57 final size:57
Alignment explanation
Indices: 39011079--39011206 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
39011069 CATGAGATTG
*
39011079 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
39011136 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
39011193 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
39011207 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:39019201 original size:28 final size:28
Alignment explanation
Indices: 39019135--39019262 Score: 166
Period size: 28 Copynumber: 4.5 Consensus size: 28
39019125 CATGAGATTG
* * **
39019135 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
39019164 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
39019192 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
*
39019221 GCACTCAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
39019249 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
39019263 GACTTAGTAT
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
28 44 0.51
29 43 0.49
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:39019224 original size:57 final size:57
Alignment explanation
Indices: 39019135--39019262 Score: 177
Period size: 57 Copynumber: 2.2 Consensus size: 57
39019125 CATGAGATTG
*
39019135 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * * *
39019192 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTCAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
39019249 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
39019263 GACTTAGTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 60 0.95
58 3 0.05
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:39030076 original size:47 final size:47
Alignment explanation
Indices: 39029999--39030261 Score: 445
Period size: 47 Copynumber: 5.6 Consensus size: 47
39029989 TTAAACCCAT
39029999 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
39030048 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
39030095 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
39030142 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
39030189 ATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39030236 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
39030262 TCCCGAAGGG
Statistics
Matches: 206, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
47 195 0.95
49 11 0.05
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:39033221 original size:15 final size:15
Alignment explanation
Indices: 39033201--39033230 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
39033191 ACCATTACTT
*
39033201 GACCATTTCAACATC
1 GACCATTTAAACATC
39033216 GACCATTTAAACATC
1 GACCATTTAAACATC
39033231 AAAATACAAA
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:0.37, C:0.30, G:0.07, T:0.27
Consensus pattern (15 bp):
GACCATTTAAACATC
Found at i:39034346 original size:15 final size:16
Alignment explanation
Indices: 39034318--39034347 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
39034308 CAATTCAATC
39034318 CAAAATTCATACTTTA
1 CAAAATTCATACTTTA
39034334 CAAAATT-ATACTTT
1 CAAAATTCATACTTT
39034348 TTCCCCTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (16 bp):
CAAAATTCATACTTTA
Found at i:39044630 original size:21 final size:22
Alignment explanation
Indices: 39044604--39044644 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
39044594 CTTTTAACAC
*
39044604 AGGGGC-ACACGCCTGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
39044625 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
39044645 ACATTTCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.27, G:0.44, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:39046696 original size:40 final size:39
Alignment explanation
Indices: 39046665--39046874 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
39046655 GGACTAAGAT
* *
39046665 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
39046705 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
39046745 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
39046785 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
39046825 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
39046864 CCGAAGGCATT
1 CCGAAGGCATT
39046875 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:39046828 original size:120 final size:120
Alignment explanation
Indices: 39046612--39046874 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
39046602 TTGAATGCTG
* *
39046612 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
39046676 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
39046732 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
39046795 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
39046851 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
39046875 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:39046894 original size:79 final size:80
Alignment explanation
Indices: 39046613--39046909 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
39046603 TGAATGCTGT
* ** * * * **
39046613 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
39046676 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
39046693 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
39046757 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
39046773 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
39046837 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
39046852 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
39046910 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:39050487 original size:27 final size:27
Alignment explanation
Indices: 39050457--39050562 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
39050447 GACTACCCTA
*
39050457 TGTTTAACATCCCGTCGGACTATACC-G
1 TGTTTAACGTCCCGTCGGACTAT-CCGG
* *
39050484 TGTTTAACGTTCCTTCGGACTATCCGG
1 TGTTTAACGTCCCGTCGGACTATCCGG
* * * *
39050511 TGTTTAATGTCCCATTGGACTATCCTG
1 TGTTTAACGTCCCGTCGGACTATCCGG
* *
39050538 TGATTAACGTCTCGTCGGACTATCC
1 TGTTTAACGTCCCGTCGGACTATCC
39050563 TATGGTTATC
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
26 2 0.03
27 63 0.97
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (27 bp):
TGTTTAACGTCCCGTCGGACTATCCGG
Found at i:39050563 original size:27 final size:27
Alignment explanation
Indices: 39050447--39050581 Score: 103
Period size: 27 Copynumber: 5.0 Consensus size: 27
39050437 CGTCTTGGCA
* * * *
39050447 GACTACCCTATGTTTAACATCCCGTCG
1 GACTATCCTGTGTTTAACGTCTCGTCG
*
39050474 GACTATACC-GTGTTTAACGT-TCCTTCG
1 GACTAT-CCTGTGTTTAACGTCT-CGTCG
* * * * *
39050501 GACTATCCGGTGTTTAATGTCCCATTG
1 GACTATCCTGTGTTTAACGTCTCGTCG
*
39050528 GACTATCCTGTGATTAACGTCTCGTCG
1 GACTATCCTGTGTTTAACGTCTCGTCG
* * * *
39050555 GACTATCCTATGGTTATCTTCTCGTCG
1 GACTATCCTGTGTTTAACGTCTCGTCG
39050582 AATTATCTAT
Statistics
Matches: 85, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
26 2 0.02
27 81 0.95
28 2 0.02
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.36
Consensus pattern (27 bp):
GACTATCCTGTGTTTAACGTCTCGTCG
Found at i:39050594 original size:20 final size:20
Alignment explanation
Indices: 39050569--39050611 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
39050559 ATCCTATGGT
* *
39050569 TATCTTCTCGTCGAATTATC
1 TATCTTCTAGTCGAACTATC
39050589 TATCTTCTAGTCGAACTATC
1 TATCTTCTAGTCGAACTATC
39050609 TAT
1 TAT
39050612 GATGTCATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.44
Consensus pattern (20 bp):
TATCTTCTAGTCGAACTATC
Found at i:39052425 original size:40 final size:40
Alignment explanation
Indices: 39052381--39052479 Score: 171
Period size: 40 Copynumber: 2.5 Consensus size: 40
39052371 AATCACAGGC
* *
39052381 CTGCTCACACAAGCTGTCAGTCAAGACGTAGCTACATGGG
1 CTGCTCACACAAGCTGTCAGTCAAAACATAGCTACATGGG
39052421 CTGCTCACACAAGCTGTCAGTCAAAACATAGCTACATGGG
1 CTGCTCACACAAGCTGTCAGTCAAAACATAGCTACATGGG
*
39052461 CTGCTCACACAACCTGTCA
1 CTGCTCACACAAGCTGTCA
39052480 AGTATCCGCA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (40 bp):
CTGCTCACACAAGCTGTCAGTCAAAACATAGCTACATGGG
Found at i:39055482 original size:6 final size:6
Alignment explanation
Indices: 39055462--39055502 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
39055452 ACGCTTTTTC
* *
39055462 TCCCCTT TCCCCT TCCTCT TCCTCT TCCCCT TCCCCT TCCC
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCC
39055503 TTTAGGTTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (6 bp):
TCCCCT
Found at i:39055608 original size:25 final size:25
Alignment explanation
Indices: 39055580--39055629 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
39055570 CAGGTAAGGC
*
39055580 TCCTTCACCTTCTTTCGTTCTTCAT
1 TCCTTCACCTGCTTTCGTTCTTCAT
** *
39055605 TCCTTTTCCTGCTTTTGTTCTTCAT
1 TCCTTCACCTGCTTTCGTTCTTCAT
39055630 CTTCACTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.06, C:0.32, G:0.06, T:0.56
Consensus pattern (25 bp):
TCCTTCACCTGCTTTCGTTCTTCAT
Found at i:39058422 original size:41 final size:40
Alignment explanation
Indices: 39058251--39058406 Score: 154
Period size: 41 Copynumber: 3.9 Consensus size: 40
39058241 GGGTCTAAAT
39058251 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTG-TAATAA
* ** * * ** *
39058292 CCAAAATTAGTTTCGAAGGGCTTTAAAGCCAGTGTCATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTAATAA
* * * *
39058332 CCG-GACTTAGT-TCCGAAGGGCCTTTGAGCCAGTGGACTAA
1 CCGAG-CTTGGTCT-CGAAGGGCTTTTGAGCCAGTGTAATAA
39058372 TCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTG
1 -CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTG
39058407 CTAAGAATCG
Statistics
Matches: 91, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
39 1 0.01
40 33 0.36
41 55 0.60
42 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTAATAA
Found at i:39064854 original size:41 final size:41
Alignment explanation
Indices: 39064683--39064842 Score: 168
Period size: 41 Copynumber: 3.9 Consensus size: 41
39064673 GGGTCTAAAT
*
39064683 CCGAGCTTGGTCTCGAAGGGATTTTGAGCCAGTGCTAATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
* * * * *
39064724 CCGAACTTAGTTTCGAAGGGCTTTAGAGCCAGTG-TCATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
* * *
39064764 CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGTGGTCTAAT--
1 CCGAG-CTTGGTCT-CGAAGGGCTTTTGAGCCAGT-G-CTAATAA
39064805 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAA
39064843 GAATCGGGCT
Statistics
Matches: 99, Mismatches: 13, Indels: 16
0.77 0.10 0.12
Matches are distributed among these distances:
39 5 0.05
40 33 0.33
41 56 0.57
42 2 0.02
43 3 0.03
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (41 bp):
CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
Found at i:39067090 original size:18 final size:18
Alignment explanation
Indices: 39067067--39067102 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
39067057 CGATTAAACC
39067067 ATTTGATTGATATATTTA
1 ATTTGATTGATATATTTA
*
39067085 ATTTGATTTATATATTTA
1 ATTTGATTGATATATTTA
39067103 TAAATAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (18 bp):
ATTTGATTGATATATTTA
Found at i:39067162 original size:18 final size:18
Alignment explanation
Indices: 39067141--39067183 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
39067131 ACAATTTAAA
39067141 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
39067159 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
39067177 ATGTAAA
1 ATATAAA
39067184 AACAGCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:39068312 original size:26 final size:26
Alignment explanation
Indices: 39068276--39068385 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
39068266 TGATACAAAT
39068276 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
39068302 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
39068328 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
39068354 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
39068380 TGATAA
1 TGATAA
39068386 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:39070045 original size:27 final size:27
Alignment explanation
Indices: 39070004--39070116 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
39069994 GAGGAAGCGT
*
39070004 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
39070031 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
39070058 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
39070086 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
39070112 TCTGG
1 TCTGG
39070117 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:39070109 original size:54 final size:54
Alignment explanation
Indices: 39070002--39070116 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
39069992 TGGAGGAAGC
*
39070002 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
39070056 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
39070110 GTTCTGG
1 GTTCTGG
39070117 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:39071591 original size:18 final size:18
Alignment explanation
Indices: 39071570--39071635 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 18
39071560 TTGATTGACA
39071570 TATTTAATTTGATTTATT
1 TATTTAATTTGATTTATT
*
39071588 TATTTATAATTGAGTATTATTAT
1 TATTTA-ATTTGA-T-TTA-T-T
*
39071611 ATATTTAATTTGAATTATT
1 -TATTTAATTTGATTTATT
39071630 TATTTA
1 TATTTA
39071636 TAAATAAATC
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
18 12 0.31
19 6 0.15
20 2 0.05
21 6 0.15
22 1 0.03
23 6 0.15
24 6 0.15
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (18 bp):
TATTTAATTTGATTTATT
Found at i:39074504 original size:6 final size:6
Alignment explanation
Indices: 39074486--39074526 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
39074476 AAGAAACATT
*
39074486 ATCAGA A-CTAGA ATCAGA ATTAGA ATCAGA ATCAGA ATCAG
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
39074527 GTGACAGAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 1 0.03
6 29 0.94
7 1 0.03
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:39074864 original size:27 final size:27
Alignment explanation
Indices: 39074834--39074922 Score: 142
Period size: 27 Copynumber: 3.3 Consensus size: 27
39074824 AACACCCTAG
39074834 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
*
39074861 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* * *
39074888 GGGTAAAATAGTAATTTTTTAAATTGA
1 GGGTAAAATGGTAATTTTATAAATCGA
39074915 GGGTAAAA
1 GGGTAAAA
39074923 CAGTAATGTA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.40, C:0.02, G:0.24, T:0.34
Consensus pattern (27 bp):
GGGTAAAATGGTAATTTTATAAATCGA
Found at i:39075718 original size:27 final size:27
Alignment explanation
Indices: 39075661--39075726 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
39075651 CTCATATCTG
* * * *
39075661 TAGGCTAGCATTACTGAAATACCCTTG
1 TAGGGTAGAATTACTGAAATACCCCTA
*
39075688 TAGGGTAGAATTACTGAAATGCCCCTA
1 TAGGGTAGAATTACTGAAATACCCCTA
39075715 TAGGGTAGAATT
1 TAGGGTAGAATT
39075727 TCCAAAATAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (27 bp):
TAGGGTAGAATTACTGAAATACCCCTA
Found at i:39075753 original size:27 final size:27
Alignment explanation
Indices: 39075723--39075808 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 27
39075713 TATAGGGTAG
* * **
39075723 AATTTCCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTAATTTATAA
*
39075750 AATTACCAAAATACCCCTAATTTGTAA
1 AATTACCAAAATACCCCTAATTTATAA
* *
39075777 AATTACCAAAATACCTC-AATTTACAA
1 AATTACCAAAATACCCCTAATTTATAA
39075803 AATTAC
1 AATTAC
39075809 TATTTTACCC
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 13 0.25
27 38 0.75
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTATAA
Found at i:39075828 original size:27 final size:27
Alignment explanation
Indices: 39075790--39076034 Score: 303
Period size: 27 Copynumber: 9.1 Consensus size: 27
39075780 TACCAAAATA
*
39075790 CCTCAATTTACAAAATTACTATTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
* *
39075817 CCTCGATTTACAGAATTACTGTTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
*
39075844 CCTCGATTTACAAAATTACTGTTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
* * *
39075871 CCTCAATTTACAGAATTA-TCGTTTTAC
1 CCTCGATTTACAAAATTACT-ATTTTAC
* *
39075898 CCTCGATTAATAAAATTACTATTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
39075925 CCTCGATTTACAAAATTACTATTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
* * * *
39075952 CCTTGATTTAAAAAATTATTGTTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
* * * *
39075979 CCTCAATTTACAGAATTACCATTTCAC
1 CCTCGATTTACAAAATTACTATTTTAC
* *
39076006 CCTCGATTTATAAAATTACCATTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
39076033 CC
1 CC
39076035 CTAGGGTGTT
Statistics
Matches: 187, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 185 0.99
28 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.40
Consensus pattern (27 bp):
CCTCGATTTACAAAATTACTATTTTAC
Found at i:39076549 original size:6 final size:6
Alignment explanation
Indices: 39076518--39076599 Score: 53
Period size: 6 Copynumber: 13.3 Consensus size: 6
39076508 TTGCATTCAT
* * *
39076518 ATTCTG ATTTTG ATTCTG -TTACCTG ATTCTG ATTCTG ATTTTG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
39076567 -TCACCTG ATTCTG ATTCTA ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
39076600 AATGTTTCTT
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
5 4 0.07
6 48 0.79
7 6 0.10
8 3 0.05
ACGTcount: A:0.18, C:0.16, G:0.15, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:39076556 original size:31 final size:31
Alignment explanation
Indices: 39076518--39076584 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
39076508 TTGCATTCAT
*
39076518 ATTCTGATTTTGATTCTGTTACCTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTGATTCTG
*
39076549 ATTCTGATTTTGATTTTGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTGATTCTG
39076580 ATTCT
1 ATTCT
39076585 AATTCTAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.16, C:0.16, G:0.15, T:0.52
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTCACCTGATTCTG
Found at i:39078510 original size:27 final size:26
Alignment explanation
Indices: 39078451--39078532 Score: 92
Period size: 27 Copynumber: 3.1 Consensus size: 26
39078441 AATCTCATAT
* * *
39078451 CTGTAGGCTAGCATTATTGAAATACC
1 CTGTAGGGTAGAATTACTGAAATACC
*
39078477 CTCGTAGGGTAGAATTACTGAAATGCCC
1 CT-GTAGGGTAGAATTACTGAAAT-ACC
**
39078505 CTGTAGGGTAGAATTACCAAAATACC
1 CTGTAGGGTAGAATTACTGAAATACC
39078531 CT
1 CT
39078533 TGGTTTATAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 6 0.13
27 37 0.79
28 4 0.09
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (26 bp):
CTGTAGGGTAGAATTACTGAAATACC
Found at i:39078546 original size:27 final size:27
Alignment explanation
Indices: 39078516--39078610 Score: 147
Period size: 27 Copynumber: 3.6 Consensus size: 27
39078506 TGTAGGGTAG
*
39078516 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTAGTTTATAA
*
39078543 AATTACCAAAATACCC-TAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTATAA
* *
39078569 AATTACCAAAATACCCCTAGTTTTTAA
1 AATTACCAAAATACCCTTAGTTTATAA
39078596 AATTACCAAAATACC
1 AATTACCAAAATACC
39078611 TCGATTTACA
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
26 24 0.38
27 40 0.62
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTAGTTTATAA
Found at i:39078571 original size:26 final size:26
Alignment explanation
Indices: 39078516--39078627 Score: 145
Period size: 27 Copynumber: 4.2 Consensus size: 26
39078506 TGTAGGGTAG
*
39078516 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCC-TAGTTTATAA
*
39078543 AATTACCAAAATACCCTAGTTTGTAA
1 AATTACCAAAATACCCTAGTTTATAA
*
39078569 AATTACCAAAATACCCCTAGTTTTTAA
1 AATTACCAAAATA-CCCTAGTTTATAA
* *
39078596 AATTACCAAAATA-CCTCGATTTACAA
1 AATTACCAAAATACCCTAG-TTTATAA
39078622 AATTAC
1 AATTAC
39078628 TATTTTACCC
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
25 4 0.05
26 32 0.42
27 41 0.53
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (26 bp):
AATTACCAAAATACCCTAGTTTATAA
Found at i:39078624 original size:53 final size:53
Alignment explanation
Indices: 39078516--39078627 Score: 154
Period size: 53 Copynumber: 2.1 Consensus size: 53
39078506 TGTAGGGTAG
* * * **
39078516 AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCGAGTTTACAA
*
39078569 AATTACCAAAATACCCCTAGTTTTTAAAATTACCAAAATACCTCGA-TTTACAA
1 AATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACC-CGAGTTTACAA
39078622 AATTAC
1 AATTAC
39078628 TATTTTACCC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 50 0.96
54 2 0.04
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (53 bp):
AATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCGAGTTTACAA
Found at i:39078637 original size:53 final size:53
Alignment explanation
Indices: 39078535--39078689 Score: 127
Period size: 53 Copynumber: 2.9 Consensus size: 53
39078525 AATACCCTTG
* * * * ***
39078535 GTTTATAAAATTACCAAAATACC-CTAGTTTGTAAAATTACCAAAATACCCCTA
1 GTTTTTAAAATTACCAAAATACCTCGA-TTTGCAAAATTACTATTTTACCCCTA
* *
39078588 GTTTTTAAAATTACCAAAATACCTCGATTTACAAAATTACTATTTTA-CCCTC
1 GTTTTTAAAATTACCAAAATACCTCGATTTGCAAAATTACTATTTTACCCCTA
* ****
39078640 G-ATTTACAGAATTACCGTTTTACCCTCGATTTGCAAAATTACTATTTTAC
1 GTTTTTA-A-AATTACCAAAATA-CCTCGATTTGCAAAATTACTATTTTAC
39078690 TCTTAATTTA
Statistics
Matches: 82, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
51 4 0.05
52 6 0.07
53 45 0.55
54 27 0.33
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.36
Consensus pattern (53 bp):
GTTTTTAAAATTACCAAAATACCTCGATTTGCAAAATTACTATTTTACCCCTA
Found at i:39078647 original size:27 final size:27
Alignment explanation
Indices: 39078609--39078763 Score: 204
Period size: 27 Copynumber: 5.7 Consensus size: 27
39078599 TACCAAAATA
39078609 CCTCGATTTACAAAATTACTATTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
* **
39078636 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
*
39078663 CCTCGATTTGCAAAATTACTATTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
* ** * *
39078690 TCTTAATTTACAGAATTA-TCGTTTTAC
1 CCTCGATTTACAAAATTACT-ATTTTAC
*
39078717 CCTCGATTGACAAAATTACTATTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
39078744 CCTCGATTTACAAAATTACT
1 CCTCGATTTACAAAATTACT
39078764 TGTAACACCC
Statistics
Matches: 106, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 1 0.01
27 104 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (27 bp):
CCTCGATTTACAAAATTACTATTTTAC
Found at i:39078680 original size:54 final size:54
Alignment explanation
Indices: 39078609--39078762 Score: 238
Period size: 54 Copynumber: 2.9 Consensus size: 54
39078599 TACCAAAATA
*
39078609 CCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTAC
1 CCTCGATTTGCAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTAC
* ** *
39078663 CCTCGATTTGCAAAATTACTATTTTACTCTTAATTTACAGAATTATCGTTTTAC
1 CCTCGATTTGCAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTAC
*
39078717 CCTCGA-TTGACAAAATTACTATTTTACCCTCGATTTACAAAATTAC
1 CCTCGATTTG-CAAAATTACTATTTTACCCTCGATTTACAGAATTAC
39078763 TTGTAACACC
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 3 0.03
54 86 0.97
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (54 bp):
CCTCGATTTGCAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTAC
Found at i:39079422 original size:6 final size:6
Alignment explanation
Indices: 39079404--39079438 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
39079394 AAGAAACATT
39079404 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAG
39079439 GTGACGGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 1 0.04
6 25 0.93
7 1 0.04
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:39079456 original size:31 final size:31
Alignment explanation
Indices: 39079413--39079491 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
39079403 TATCAGAACT
* *
39079413 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
* * * *
39079444 GGAATTAAAATCAGAATTAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
39079475 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
39079492 GTGAATGCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGAATCAGGTAAC
Found at i:39079658 original size:27 final size:26
Alignment explanation
Indices: 39079611--39079717 Score: 106
Period size: 27 Copynumber: 4.0 Consensus size: 26
39079601 CATGGCTTCC
* ** *
39079611 AGAACAGATATTGTGATAGAGTCACT
1 AGAACAGATATTTTGGCAGAGCCACT
39079637 AGATACAGATATTTTGGCAGAGCCACT
1 AGA-ACAGATATTTTGGCAGAGCCACT
* *
39079664 AGAACAGATATTTGTGGCATAGCCACC
1 AGAACAGATATTT-TGGCAGAGCCACT
* * *
39079691 AGAATCAGATAATGTGGCAAAGCCACT
1 AGAA-CAGATATTTTGGCAGAGCCACT
39079718 TAACAGAATA
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 13 0.19
27 48 0.71
28 7 0.10
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.23
Consensus pattern (26 bp):
AGAACAGATATTTTGGCAGAGCCACT
Found at i:39079878 original size:27 final size:27
Alignment explanation
Indices: 39079838--39079889 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
39079828 GAGTCATCAA
*
39079838 AAATATGTTAGGCAC-ATAGCCATAGGT
1 AAATACGTTAGGCACGA-AGCCATAGGT
*
39079865 AAATACGTTTGGCACGAAGCCATAG
1 AAATACGTTAGGCACGAAGCCATAG
39079890 TCAAGATGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (27 bp):
AAATACGTTAGGCACGAAGCCATAGGT
Found at i:39080444 original size:81 final size:81
Alignment explanation
Indices: 39080279--39080532 Score: 377
Period size: 81 Copynumber: 3.1 Consensus size: 81
39080269 GGAGCAAAAT
* * *
39080279 AGTAATTTTACCCCA-AGAGGGTATCTCGATAATTCTACCCTAGA-GGGTATTTCGATAATTCTA
1 AGTAATTCTACCCTAGAG-GGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTA
* *
39080342 CCTTACAGGGGTATTTT
65 CCTTACAGAGGTATTTC
39080359 AGTAATTCTACCCTAGAGGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTAC
1 AGTAATTCTACCCTAGAGGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTAC
39080424 CTTACAGAGGTATTTC
66 CTTACAGAGGTATTTC
* * *
39080440 AGTAATTCTACCCTAGAGGGGTATTTCGATAATTCTACCCTACAGAGGTATTTCAATAATTCTAC
1 AGTAATTCTACCCTAGAGGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTAC
* **
39080505 CATACAGTTGTATTTC
66 CTTACAGAGGTATTTC
*
39080521 GGTAATTCTACC
1 AGTAATTCTACC
39080533 TTACAGGGTT
Statistics
Matches: 160, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
80 38 0.24
81 122 0.76
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (81 bp):
AGTAATTCTACCCTAGAGGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTAC
CTTACAGAGGTATTTC
Found at i:39080510 original size:27 final size:27
Alignment explanation
Indices: 39080297--39080554 Score: 306
Period size: 27 Copynumber: 9.6 Consensus size: 27
39080287 TACCCCAAGA
* *
39080297 GGGTATCTCGATAATTCTACCCTAGA-
1 GGGTATTTCGATAATTCTACCCTACAG
*
39080323 GGGTATTTCGATAATTCTACCTTACAG
1 GGGTATTTCGATAATTCTACCCTACAG
* *
39080350 GGGTATTT-TAGTAATTCTACCCTAGAG
1 GGGTATTTCGA-TAATTCTACCCTACAG
*
39080377 GGGTATCTCGATAATTCTACCCTACAG
1 GGGTATTTCGATAATTCTACCCTACAG
*
39080404 GGGTATTTCGATAATTCTACCTTACAG
1 GGGTATTTCGATAATTCTACCCTACAG
* *
39080431 AGGTATTTC-AGTAATTCTACCCTAGAG
1 GGGTATTTCGA-TAATTCTACCCTACAG
39080458 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGATAATTCTACCCTACAG
* * *
39080485 AGGTATTTCAATAATTCTACCATACAG
1 GGGTATTTCGATAATTCTACCCTACAG
** * *
39080512 TTGTATTTCGGTAATTCTACCTTACAG
1 GGGTATTTCGATAATTCTACCCTACAG
* * *
39080539 GGTTGTTTTGATAATT
1 GGGTATTTCGATAATT
39080555 TTGTAAATCG
Statistics
Matches: 197, Mismatches: 30, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
26 25 0.13
27 170 0.86
28 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGGTATTTCGATAATTCTACCCTACAG
Found at i:39080604 original size:27 final size:27
Alignment explanation
Indices: 39080545--39080610 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
39080535 ACAGGGTTGT
*
39080545 TTTGATAATTTTGTAAATCGAGGGAAA
1 TTTGGTAATTTTGTAAATCGAGGGAAA
** * * *
39080572 AATGGTAATTTTGTAAATCGATGGTAC
1 TTTGGTAATTTTGTAAATCGAGGGAAA
39080599 TTTGGTAATTTT
1 TTTGGTAATTTT
39080611 ACAAGTCAAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (27 bp):
TTTGGTAATTTTGTAAATCGAGGGAAA
Found at i:39080634 original size:54 final size:54
Alignment explanation
Indices: 39080576--39080911 Score: 324
Period size: 54 Copynumber: 6.2 Consensus size: 54
39080566 GGGAAAAATG
* * * *
39080576 GTAATTTTGTAAATCGATGGTACTTTGGTAATTTTACAAGTCAAAGGTATTTTA
1 GTAATTTTGTAAATCGAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTA
** * ** * *
39080630 GTAATTTTACAAATTG-GGGTATTTCAGTAATTTTACAAATC-GGAGGTATTTCA
1 GTAATTTTGTAAATCGAGGGTATTTTGGTAATTTTACAAATCAAG-GGTATTTTA
* * * * * *
39080683 ATAATTTTGCAAATCGGGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTTG
1 GTAATTTTGTAAATCGAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTA
** * *
39080737 GTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTCA
1 GTAATTTTGTAAATCGA-GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTT-A
* *
39080792 -TAATTTTGCT-AATCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCA
1 GTAATTTTG-TAAATCGAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTA
* * * * *
39080845 ATAATTTTGCT-AATCGAGGGTATTTTGGTAATTTTGCTAATCGAGGGTATTTTG
1 GTAATTTTG-TAAATCGAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTA
*
39080899 GTAATTTAGTAAA
1 GTAATTTTGTAAA
39080912 CTAAAGTATT
Statistics
Matches: 236, Mismatches: 37, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
53 44 0.19
54 188 0.80
55 4 0.02
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
GTAATTTTGTAAATCGAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTA
Found at i:39080687 original size:27 final size:27
Alignment explanation
Indices: 39080603--39080905 Score: 192
Period size: 27 Copynumber: 11.3 Consensus size: 27
39080593 TGGTACTTTG
* ** *
39080603 GTAATTTTACAAGTCAAAGGTATTTTA
1 GTAATTTTACAAATCGGAGGTATTTCA
*
39080630 GTAATTTTACAAATTGG-GGTATTTCA
1 GTAATTTTACAAATCGGAGGTATTTCA
39080656 GTAATTTTACAAATCGGAGGTATTTCA
1 GTAATTTTACAAATCGGAGGTATTTCA
* * * *
39080683 ATAATTTTGCAAATCGGGGGTATTTCG
1 GTAATTTTACAAATCGGAGGTATTTCA
**
39080710 GTAATTTTACAAATCAGG-GGTATTTTG
1 GTAATTTTACAAATC-GGAGGTATTTCA
* **
39080737 GTAATTTTACAAACTAGG-GGTATTTTG
1 GTAATTTTACAAA-TCGGAGGTATTTCA
**
39080764 GTAATTTTACAAA-CCAAGGGTATTTTCA
1 GTAATTTTACAAATCGGA-GGTA-TTTCA
* * **
39080792 -TAATTTTGCTAATC-GAGGGTATTTTG
1 GTAATTTTACAAATCGGA-GGTATTTCA
**
39080818 GTAATTTTACAAA-CCAAGGGTATTTCA
1 GTAATTTTACAAATCGGA-GGTATTTCA
* * * **
39080845 ATAATTTTGCTAATC-GAGGGTATTTTG
1 GTAATTTTACAAATCGGA-GGTATTTCA
* * **
39080872 GTAATTTTGCTAATC-GAGGGTATTTTG
1 GTAATTTTACAAATCGGA-GGTATTTCA
39080899 GTAATTT
1 GTAATTT
39080906 AGTAAACTAA
Statistics
Matches: 230, Mismatches: 36, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
26 28 0.12
27 194 0.84
28 8 0.03
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAATCGGAGGTATTTCA
Found at i:39080760 original size:81 final size:81
Alignment explanation
Indices: 39080621--39080905 Score: 317
Period size: 81 Copynumber: 3.5 Consensus size: 81
39080611 ACAAGTCAAA
** * ** *
39080621 GGTATTTTAGTAATTTTACAAATTG-GGGTATTTCAGTAATTTTACAAA-TCGGAGGTATTTCAA
1 GGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACTAGG-GGTATTTCAA
*
39080684 TAATTTTGCAAATCGGG
65 TAATTTTGCAAATCGAG
***
39080701 GGTATTTCGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 GGTATTTCGGTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCAA
* * *
39080765 TAATTTTACAAACCAAG
65 TAATTTTGCAAATCGAG
* * * * *
39080782 GGTATTTTC-ATAATTTTGCTAATCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAA
1 GGTA-TTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCAA
*
39080846 TAATTTTGCTAATCGAG
65 TAATTTTGCAAATCGAG
* * *
39080863 GGTATTTTGGTAATTTTGCTAATCGAGGGTATTTTGGTAATTT
1 GGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTT
39080906 AGTAAACTAA
Statistics
Matches: 172, Mismatches: 27, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
80 24 0.14
81 140 0.81
82 8 0.05
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCAAT
AATTTTGCAAATCGAG
Found at i:39082868 original size:6 final size:6
Alignment explanation
Indices: 39082859--39082930 Score: 83
Period size: 6 Copynumber: 11.8 Consensus size: 6
39082849 AATTAGAACT
* * *
39082859 AGAATC AGAATT AGAATC AGAATC AGAATC AGAATC AGAATT AGTATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
*
39082907 AAGTAA-C AGAATC AAAATC AGAAT
1 -AG-AATC AGAATC AGAATC AGAAT
39082931 GTGAATGCAA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
5 2 0.04
6 49 0.89
7 3 0.05
8 1 0.02
ACGTcount: A:0.51, C:0.12, G:0.15, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:39082868 original size:12 final size:11
Alignment explanation
Indices: 39082853--39082899 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 11
39082843 AAACATAATT
39082853 AGAACTAGAATC
1 AGAA-TAGAATC
39082865 AGAATTAGAATC
1 AGAA-TAGAATC
39082877 AGAATCAGAATC
1 AGAAT-AGAATC
39082889 AGAATCAGAAT
1 AGAAT-AGAAT
39082900 TAGTATCAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
11 1 0.03
12 32 0.97
ACGTcount: A:0.51, C:0.13, G:0.17, T:0.19
Consensus pattern (11 bp):
AGAATAGAATC
Found at i:39082880 original size:18 final size:18
Alignment explanation
Indices: 39082835--39082899 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
39082825 AACCCATTAC
* * *
39082835 AGAATAAGAAACATAATT
1 AGAATCAGAATCAGAATT
39082853 AGAA-CTAGAATCAGAATT
1 AGAATC-AGAATCAGAATT
*
39082871 AGAATCAGAATCAGAATC
1 AGAATCAGAATCAGAATT
39082889 AGAATCAGAAT
1 AGAATCAGAAT
39082900 TAGTATCAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
18 40 0.98
19 1 0.02
ACGTcount: A:0.54, C:0.11, G:0.15, T:0.20
Consensus pattern (18 bp):
AGAATCAGAATCAGAATT
Found at i:39083085 original size:27 final size:26
Alignment explanation
Indices: 39083048--39083155 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 26
39083038 AACATGCCTG
* *
39083048 CCAGAACAGATATTGTGATAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
* *
39083074 CCAGATACAGATATTTTGCCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* *
39083101 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
* * *
39083128 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGACAGAGCCA
39083155 C
1 C
39083156 TTAACAGAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 12 0.17
27 52 0.74
28 6 0.09
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:39083154 original size:54 final size:53
Alignment explanation
Indices: 39083048--39083155 Score: 119
Period size: 54 Copynumber: 2.0 Consensus size: 53
39083038 AACATGCCTG
* * * * *
39083048 CCAGAACAGATATTGTGATAGAGTCACCAGATACAGATATTTTGCCAGAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGATACAGATAATGTGCCAAAGCCA
* * *
39083101 CCAGAACAGATATTTGTGGCATAGCCACCAGA-ATCAGATAATGTGGCAAAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCACCAGATA-CAGATAATGTGCCAAAGCCA
39083155 C
1 C
39083156 TTAACAGAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
53 13 0.29
54 32 0.71
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.20
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGATACAGATAATGTGCCAAAGCCA
Found at i:39083362 original size:22 final size:23
Alignment explanation
Indices: 39083312--39083372 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
39083302 AGGTAAATAC
39083312 GTTTGGCACGAAGCCATAGTCAA
1 GTTTGGCACGAAGCCATAGTCAA
* **
39083335 G-ATGGCACGAAGCCATA-TTTA
1 GTTTGGCACGAAGCCATAGTCAA
39083356 GTTTGGCAC-AGAGCCAT
1 GTTTGGCACGA-AGCCAT
39083373 CGATAAGGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
21 4 0.12
22 27 0.84
23 1 0.03
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (23 bp):
GTTTGGCACGAAGCCATAGTCAA
Found at i:39083768 original size:27 final size:27
Alignment explanation
Indices: 39083738--39083828 Score: 137
Period size: 27 Copynumber: 3.4 Consensus size: 27
39083728 TAACCCACGA
*
39083738 GGGTATCTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
39083765 GGGTATTTCGATAATTCTACCTTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
39083792 GGGTATTTCAGTAATTCTACCCTAGAG
1 GGGTATTTCGGTAATTCTACCCTACAG
39083819 GGGTATTTCG
1 GGGTATTTCG
39083829 AGGCACACAG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:39083990 original size:27 final size:27
Alignment explanation
Indices: 39083952--39084085 Score: 178
Period size: 27 Copynumber: 5.0 Consensus size: 27
39083942 GCCATATTTA
*
39083952 TACCCTATAGGGGTATTTCAGTAATTC
1 TACCCTATAGGGGTATTTCGGTAATTC
* * *
39083979 TACCATATAGGGGTATTTTGATAATTC
1 TACCCTATAGGGGTATTTCGGTAATTC
* *
39084006 TACCCTATAGCGGTATTTCGATAATTC
1 TACCCTATAGGGGTATTTCGGTAATTC
* *
39084033 TTCCCTACAGGGGTATTTCGGTAATTC
1 TACCCTATAGGGGTATTTCGGTAATTC
* *
39084060 TACCCTATAGGGTTGTTTCGGTAATT
1 TACCCTATAGGGGTATTTCGGTAATT
39084086 TTGTAAATCG
Statistics
Matches: 92, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (27 bp):
TACCCTATAGGGGTATTTCGGTAATTC
Found at i:39084138 original size:27 final size:27
Alignment explanation
Indices: 39084108--39084436 Score: 374
Period size: 27 Copynumber: 12.2 Consensus size: 27
39084098 GGTAAAACGA
** * *
39084108 TAATTTTGTAAATCGTGGGTACTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGG
* * * *
39084135 TAATTTTACAAGTTGAAGGTATTTTAG
1 TAATTTTACAAATCGAGGGTATTTTGG
* *
39084162 TAATTTTTCAAATCG-GGGTATTTTAG
1 TAATTTTACAAATCGAGGGTATTTTGG
* * *
39084188 TAATTTTGCAAATCGAAGGTATTTTAG
1 TAATTTTACAAATCGAGGGTATTTTGG
*
39084215 TAATTTTACAAATCGAGGGTATTTCGG
1 TAATTTTACAAATCGAGGGTATTTTGG
*
39084242 TAATTTTACAAATCAAGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGG
*
39084269 TAATTTTACAAA-CTAGGGGTATTTTGG
1 TAATTTTACAAATCGA-GGGTATTTTGG
* *
39084296 TAATTTTACAAACCAAGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGG
* *
39084323 TAATTTTGCTAATCGAGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGG
* * ***
39084350 TAATTTTACAAACCAAGGGTATTTCAA
1 TAATTTTACAAATCGAGGGTATTTTGG
* *
39084377 TAATTTTACGAATCAAGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGG
* *
39084404 TAATTTTTCTAATCGAGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGG
39084431 TAATTT
1 TAATTT
39084437 GGTAAACCAA
Statistics
Matches: 258, Mismatches: 41, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
26 26 0.10
27 230 0.89
28 2 0.01
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTATTTTGG
Found at i:39085316 original size:27 final size:27
Alignment explanation
Indices: 39085285--39085373 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
39085275 TACATTACTG
* **
39085285 TTTTACCCTCAATTTAAAAAATTACTG
1 TTTTACCCTCGATTTAAAAAATTACCA
*
39085312 TTTTACCCTCGATTTACAAAATTACCA
1 TTTTACCCTCGATTTAAAAAATTACCA
* *
39085339 TTTTACCCTTGATTTATAAAATTACCA
1 TTTTACCCTCGATTTAAAAAATTACCA
39085366 TTTTACCC
1 TTTTACCC
39085374 CTAGGGTGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42
Consensus pattern (27 bp):
TTTTACCCTCGATTTAAAAAATTACCA
Found at i:39085895 original size:31 final size:31
Alignment explanation
Indices: 39085860--39085970 Score: 159
Period size: 31 Copynumber: 3.6 Consensus size: 31
39085850 TTGCATTCAC
* * * * *
39085860 ATTCTGATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTCTAATTCTGTCACCTGATTCTG
*
39085891 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTAATTCTGTCACCTGATTCTG
*
39085922 ATTCTGATTCTAGTTCTGTCACCTGATTCTG
1 ATTCTGATTCTAATTCTGTCACCTGATTCTG
39085953 ATTCTGATTCTAATTCTG
1 ATTCTGATTCTAATTCTG
39085971 ATTCTAGTTC
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTGTCACCTGATTCTG
Found at i:39085925 original size:6 final size:6
Alignment explanation
Indices: 39085860--39085984 Score: 71
Period size: 6 Copynumber: 20.3 Consensus size: 6
39085850 TTGCATTCAC
* * * *
39085860 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTA ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
39085909 -TCACCTA ATTCTG ATTCTG ATTCT- AGTTCTG -TCACCTG ATTCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT--TCTG ATTCTG ATTCTG
*
39085959 ATTCTA ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
39085985 AATGTTTCTT
Statistics
Matches: 90, Mismatches: 16, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
5 6 0.07
6 72 0.80
7 9 0.10
8 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:39108757 original size:500 final size:500
Alignment explanation
Indices: 39107798--39108790 Score: 1413
Period size: 500 Copynumber: 2.0 Consensus size: 500
39107788 AGACCCCTTT
* * *
39107798 TCATAATTCCATATGCAATACACTTGTTTATAAATAAAGCATCATGGGATCATACATACTGAAGT
1 TCATAATTCCATATGCAATACACTTGTTTATAAATAAACCATCATGGGATCATACATACTAAACT
* * *
39107863 AAAATGGCGAACACTTATAAACCCATGTAACCTTACAACATTCTTAGCATTTTTGGGTTTGAGAG
66 AAAATAGCGAACACTTATAAACCCATGCAACCTTACAACATTCTTAGCATTTTTGGGTTGGAGAG
* * * ** * *
39107928 TAGAAACTCCCCTGATGTTTCTTTGCCTTGTTCGCTTAGCTTTTCGAGACACTAGAGCTTCCATT
131 TAGAAACTCACCTGATGCTTCTTCGCCTTGTAAGCTTAGCTTTTCCAGACACCAGAGCTTCCATT
* * * * *
39107993 TTCTTGGAATCTATGCAAGACAACCAATTCATGGGTTAAACTCAACAATCCGAGTTTAAATATAG
196 CTCCTGGAAGCTAAGCAAGACAACCAATTCATGGGTTAAACTCAACAATCCCAGTTTAAATATAG
*
39108058 TTTTCCAAAAACATGCAGAATCCTTAAAATGGTTTATAGAAACCATTAATTTTGGTTTTTAAATC
261 TTTTCCAAAAACATGCAGAATCCTTAAAATGGTTTATAGAAACCATTAATTTTGGTTCTTAAATC
* *
39108123 TTACGTAAGCTAAAGGACTTAGAACCTTACCAGCTTACTCGATCCTCTATTTTCCTAACTCAAAA
326 TTACATAAGCTAAAGGACTTAGAACCTTACCAGCTTACTAGATCCTCTATTTTCCTAACTCAAAA
* ** * * * *
39108188 CTCATGATCACTGCTCCATGTAGAGCATCTCGTAATCATCCAGTCTTTGGATCAACGAATAAGAT
391 CTCATGATCACTACTCCATACAAAGCATCTCATAATCATCCAGTCTTTAGATCAACGAATAAAAT
*
39108253 GAATAAAGAGAAGAAAATGAAATAGAATTGAAATGAATACCCTAG
456 GAATAAAGAGAAGAAAATAAAATAGAATTGAAATGAATACCCTAG
* *
39108298 TCATAATTCCATATGCAATACATTTGTTTATAAATAAACCATCATGGGATTATACATACTAAACT
1 TCATAATTCCATATGCAATACACTTGTTTATAAATAAACCATCATGGGATCATACATACTAAACT
* * * *
39108363 AAAATAGCGGACACTTATAGACCCATGCAACTTTACAACATTCTTAGCATTTTTGGGTTGGAGTG
66 AAAATAGCGAACACTTATAAACCCATGCAACCTTACAACATTCTTAGCATTTTTGGGTTGGAGAG
*
39108428 TAGAAACTCACCTGATGCTTCTTCGCCTTGTAAGCTTAGCTTTTCCAGACACCAGAGCTTTCATT
131 TAGAAACTCACCTGATGCTTCTTCGCCTTGTAAGCTTAGCTTTTCCAGACACCAGAGCTTCCATT
* * * *
39108493 CTCCTGGCAGCTAAGCAAGATAACCAATTCATTGGTTAAACTCAACAATCCCAGTTTAAGCT-TA
196 CTCCTGGAAGCTAAGCAAGACAACCAATTCATGGGTTAAACTCAACAATCCCAGTTTAA-ATATA
* * * * * *
39108557 GTTTTTCAGAAACATGTAGAATCCTTAAAATGGTTT-TTGCAAGCCTTTAATTTTGGTTCTTAAA
260 GTTTTCCAAAAACATGCAGAATCCTTAAAATGGTTTATAG-AAACCATTAATTTTGGTTCTTAAA
* *
39108621 TGTCT-CATACA-CTAAAGGACTTAGAACCTTACCAGCTTACTAGATCCTCTATTTT-CTCGACT
324 TCT-TACATA-AGCTAAAGGACTTAGAACCTTACCAGCTTACTAGATCCTCTATTTTCCT-AACT
* * *
39108683 TAAAACTCATGATCACTACTCCATACAAAGCATCTCATAATCATCCTGTCTTTAGATCAATG-AT
386 CAAAACTCATGATCACTACTCCATACAAAGCATCTCATAATCATCCAGTCTTTAGATCAACGAAT
* *
39108747 GAAAATGAATAAAGAGAATAAAATAAAATAGAATTGAGATGAAT
451 -AAAATGAATAAAGAGAAGAAAATAAAATAGAATTGAAATGAAT
39108791 CCTTGACTTC
Statistics
Matches: 434, Mismatches: 53, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
499 6 0.01
500 425 0.98
501 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (500 bp):
TCATAATTCCATATGCAATACACTTGTTTATAAATAAACCATCATGGGATCATACATACTAAACT
AAAATAGCGAACACTTATAAACCCATGCAACCTTACAACATTCTTAGCATTTTTGGGTTGGAGAG
TAGAAACTCACCTGATGCTTCTTCGCCTTGTAAGCTTAGCTTTTCCAGACACCAGAGCTTCCATT
CTCCTGGAAGCTAAGCAAGACAACCAATTCATGGGTTAAACTCAACAATCCCAGTTTAAATATAG
TTTTCCAAAAACATGCAGAATCCTTAAAATGGTTTATAGAAACCATTAATTTTGGTTCTTAAATC
TTACATAAGCTAAAGGACTTAGAACCTTACCAGCTTACTAGATCCTCTATTTTCCTAACTCAAAA
CTCATGATCACTACTCCATACAAAGCATCTCATAATCATCCAGTCTTTAGATCAACGAATAAAAT
GAATAAAGAGAAGAAAATAAAATAGAATTGAAATGAATACCCTAG
Found at i:39113659 original size:13 final size:14
Alignment explanation
Indices: 39113631--39113663 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
39113621 GAAATGTTTT
39113631 TATGAAAATAGATA
1 TATGAAAATAGATA
*
39113645 TATGAAACT-GATA
1 TATGAAAATAGATA
39113658 TATGAA
1 TATGAA
39113664 GTGTTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.52, C:0.03, G:0.15, T:0.30
Consensus pattern (14 bp):
TATGAAAATAGATA
Found at i:39114707 original size:21 final size:21
Alignment explanation
Indices: 39114683--39114743 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
39114673 GAGCGTGTAG
39114683 AGTAGCCACACAGGCATGTGA
1 AGTAGCCACACAGGCATGTGA
* *
39114704 AGTAACCACATC-GGCATGTGT
1 AGTAGCCACA-CAGGCATGTGA
* *
39114725 GGTAGCCACACAGCCATGT
1 AGTAGCCACACAGGCATGT
39114744 TTCTGAGCCA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 1 0.03
21 31 0.94
22 1 0.03
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.18
Consensus pattern (21 bp):
AGTAGCCACACAGGCATGTGA
Found at i:39128430 original size:40 final size:40
Alignment explanation
Indices: 39128375--39128598 Score: 324
Period size: 40 Copynumber: 5.5 Consensus size: 40
39128365 TATTCGGATG
39128375 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
39128415 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
39128458 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
39128498 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
39128538 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
39128578 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
39128599 ATACTTGGGT
Statistics
Matches: 169, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 13 0.08
40 118 0.70
41 1 0.01
43 37 0.22
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:39128518 original size:83 final size:80
Alignment explanation
Indices: 39128379--39128598 Score: 320
Period size: 83 Copynumber: 2.7 Consensus size: 80
39128369 CGGATGATAT
*
39128379 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
39128444 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
39128462 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
39128527 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
39128542 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
39128599 ATACTTGGGT
Statistics
Matches: 129, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
79 16 0.12
80 45 0.35
81 2 0.02
83 66 0.51
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCTAGTGACTATAC
Found at i:39137447 original size:43 final size:41
Alignment explanation
Indices: 39137400--39137541 Score: 119
Period size: 43 Copynumber: 3.3 Consensus size: 41
39137390 ATGATACCGA
39137400 TGTCCCAGACATGGTCCTTTACATAAATCTTAATCGAGGCCTG
1 TGTCCCAGACATGGT-CTTTACATAAATC-TAATCGAGGCCTG
* ** ** *
39137443 TGTCCAAGACACAGTC-TTACGCGAAATC-AGATACGATGCC-G
1 TGTCCCAGACATGGTCTTTAC-ATAAATCTA-AT-CGAGGCCTG
* *
39137484 ATATCCCAGACATGGTCTTATACGTAAATCTCAATCGAGGCCTG
1 -TGTCCCAGACATGGTCTT-TACATAAATCT-AATCGAGGCCTG
39137528 TGTCCCAGACATGG
1 TGTCCCAGACATGG
39137542 CCTTACACGA
Statistics
Matches: 76, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
40 1 0.01
41 7 0.09
42 24 0.32
43 37 0.49
44 6 0.08
45 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (41 bp):
TGTCCCAGACATGGTCTTTACATAAATCTAATCGAGGCCTG
Found at i:39137460 original size:85 final size:85
Alignment explanation
Indices: 39137371--39137538 Score: 257
Period size: 85 Copynumber: 2.0 Consensus size: 85
39137361 CGTAGATAGG
* * *
39137371 GTCTTACACGAAATCAGATATGATACCGATGTCCCAGACATGGTCCTT-TACATAAATCTTAATC
1 GTCTTACACGAAATCAGATACGATACCGATATCCCAGACATGGT-CTTATACATAAATCTCAATC
39137435 GAGGCCTGTGTCCAAGACACA
65 GAGGCCTGTGTCCAAGACACA
* * *
39137456 GTCTTACGCGAAATCAGATACGATGCCGATATCCCAGACATGGTCTTATACGTAAATCTCAATCG
1 GTCTTACACGAAATCAGATACGATACCGATATCCCAGACATGGTCTTATACATAAATCTCAATCG
*
39137521 AGGCCTGTGTCCCAGACA
66 AGGCCTGTGTCCAAGACA
39137539 TGGCCTTACA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
84 3 0.04
85 72 0.96
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (85 bp):
GTCTTACACGAAATCAGATACGATACCGATATCCCAGACATGGTCTTATACATAAATCTCAATCG
AGGCCTGTGTCCAAGACACA
Found at i:39137502 original size:42 final size:41
Alignment explanation
Indices: 39137370--39137503 Score: 103
Period size: 42 Copynumber: 3.2 Consensus size: 41
39137360 TCGTAGATAG
* *
39137370 GGTCTTACACGAAATCAGATATGATACCGATGTCCCAGACAT
1 GGTCTTAC-CGAAATCAGATACGATGCCGATGTCCCAGACAT
** * * *
39137412 GGTCCTTTACATAAATCTTA-AT-CGAGGCCTG-TGTCCAAGACAC
1 GGT-C-TTACCGAAATC--AGATACGATGCC-GATGTCCCAGACAT
* *
39137455 AGTCTTACGCGAAATCAGATACGATGCCGATATCCCAGACAT
1 GGTCTTAC-CGAAATCAGATACGATGCCGATGTCCCAGACAT
39137497 GGTCTTA
1 GGTCTTA
39137504 TACGTAAATC
Statistics
Matches: 68, Mismatches: 15, Indels: 18
0.67 0.15 0.18
Matches are distributed among these distances:
40 1 0.01
41 7 0.10
42 30 0.44
43 22 0.32
44 7 0.10
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (41 bp):
GGTCTTACCGAAATCAGATACGATGCCGATGTCCCAGACAT
Found at i:39141155 original size:12 final size:13
Alignment explanation
Indices: 39141131--39141159 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
39141121 ACCACACGCG
39141131 CATGTGTCTAGGC
1 CATGTGTCTAGGC
39141144 CATGTG-CTAGGC
1 CATGTGTCTAGGC
39141156 CATG
1 CATG
39141160 CCAAAAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.17, C:0.24, G:0.31, T:0.28
Consensus pattern (13 bp):
CATGTGTCTAGGC
Done.