Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 96 of 144
Found at i:29353244 original size:37 final size:37
Alignment explanation
Indices: 29353194--29353269 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
29353184 TGTTTTCCTG
*
29353194 AGCAGTAGTTACTAAATTATTTATAACTGGAGCTACT
1 AGCAGTAGTTACTAAATTACTTATAACTGGAGCTACT
29353231 AGCAGTAGTTACTAAATTACTTATAACTGGAGCTACT
1 AGCAGTAGTTACTAAATTACTTATAACTGGAGCTACT
29353268 AG
1 AG
29353270 ACTCCAAATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (37 bp):
AGCAGTAGTTACTAAATTACTTATAACTGGAGCTACT
Found at i:29362754 original size:46 final size:46
Alignment explanation
Indices: 29362687--29363595 Score: 1621
Period size: 46 Copynumber: 19.7 Consensus size: 46
29362677 AACCCGCCCC
* * *
29362687 TAAGTGAACTCAGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCA
* * *
29362733 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
29362781 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*** *
29362826 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
29362872 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
29362918 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
29362964 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
29363010 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
29363056 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
29363102 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
29363148 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
29363194 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
29363240 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
29363286 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
29363332 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
29363378 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
29363424 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
29363470 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
29363516 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
29363562 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
29363596 TGCTCAACCA
Statistics
Matches: 834, Mismatches: 19, Indels: 20
0.96 0.02 0.02
Matches are distributed among these distances:
42 2 0.00
43 4 0.00
44 1 0.00
45 4 0.00
46 787 0.94
47 28 0.03
48 2 0.00
49 1 0.00
50 3 0.00
51 2 0.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:29364052 original size:30 final size:30
Alignment explanation
Indices: 29364018--29364077 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
29364008 ATTTAATACG
29364018 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
29364048 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
29364078 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:29373218 original size:21 final size:19
Alignment explanation
Indices: 29373186--29373259 Score: 82
Period size: 21 Copynumber: 3.8 Consensus size: 19
29373176 ACACTATTGT
29373186 TGAGAAG-GAAGTTGTTGC
1 TGAGAAGAGAAGTTGTTGC
29373204 TGTAGAAGATGAAGTTGTTGC
1 TG-AGAAGA-GAAGTTGTTGC
29373225 --AGAAGAGGAAGTTGTTGC
1 TGAGAAGA-GAAGTTGTTGC
29373243 TGAAGAAGGAGAAGTTG
1 TG-AGAA-GAGAAGTTG
29373260 CTAAAAATGA
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
18 19 0.40
19 5 0.10
21 22 0.46
22 2 0.04
ACGTcount: A:0.32, C:0.04, G:0.38, T:0.26
Consensus pattern (19 bp):
TGAGAAGAGAAGTTGTTGC
Found at i:29373228 original size:18 final size:17
Alignment explanation
Indices: 29373182--29373248 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 17
29373172 GAGGACACTA
29373182 TTGTTG-AGAAG-GAAG
1 TTGTTGCAGAAGAGAAG
29373197 TTGTTGCTGTAGAAGATGAAG
1 TTGTTGC---AGAAGA-GAAG
29373218 TTGTTGCAGAAGAGGAAG
1 TTGTTGCAGAAGA-GAAG
*
29373236 TTGTTGCTGAAGA
1 TTGTTGCAGAAGA
29373249 AGGAGAAGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
15 6 0.14
18 22 0.50
19 5 0.11
21 11 0.25
ACGTcount: A:0.30, C:0.04, G:0.36, T:0.30
Consensus pattern (17 bp):
TTGTTGCAGAAGAGAAG
Found at i:29381787 original size:15 final size:16
Alignment explanation
Indices: 29381762--29381794 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
29381752 GTTAAGAAAA
29381762 AAGGAACAGAGAAAGC
1 AAGGAACAGAGAAAGC
*
29381778 AAGGAA-AGAGAGAGC
1 AAGGAACAGAGAAAGC
29381793 AA
1 AA
29381795 AACTAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.58, C:0.09, G:0.33, T:0.00
Consensus pattern (16 bp):
AAGGAACAGAGAAAGC
Found at i:29384163 original size:21 final size:21
Alignment explanation
Indices: 29384129--29384180 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
29384119 TCAACAAGCA
*
29384129 AAAGAAAAGAAAAAGAAAAAG
1 AAAGAAAAGAAAAACAAAAAG
* * *
29384150 AAAGAAACGTAAAACAAAGAG
1 AAAGAAAAGAAAAACAAAAAG
*
29384171 -AAGTAAAGAA
1 AAAGAAAAGAA
29384181 CATGGCAAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.73, C:0.04, G:0.19, T:0.04
Consensus pattern (21 bp):
AAAGAAAAGAAAAACAAAAAG
Found at i:29397833 original size:28 final size:27
Alignment explanation
Indices: 29397777--29397901 Score: 71
Period size: 28 Copynumber: 4.5 Consensus size: 27
29397767 TTGATATGAT
29397777 AATTTCTATAATTTTTATAATTCTTTTAC
1 AATTT-TAT-ATTTTTATAATTCTTTTAC
*
29397806 GAATTTTATATTTTTATCATT-TTCTTAC
1 -AATTTTATATTTTTATAATTCTT-TTAC
* * *
29397834 AACTTTATAAATTTTTTTATATT-TTGTA-
1 AA-TTT-TATATTTTTATA-ATTCTTTTAC
* **
29397862 ATTTTTTATGATTTTTATAA-AATTTTAC
1 A-ATTTTAT-ATTTTTATAATTCTTTTAC
29397890 AATTTT-TATTTT
1 AATTTTATATTTT
29397902 CTTTTATGAT
Statistics
Matches: 76, Mismatches: 11, Indels: 21
0.70 0.10 0.19
Matches are distributed among these distances:
25 5 0.07
26 1 0.01
27 15 0.20
28 31 0.41
29 14 0.18
30 10 0.13
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (27 bp):
AATTTTATATTTTTATAATTCTTTTAC
Found at i:29397877 original size:19 final size:19
Alignment explanation
Indices: 29397837--29397926 Score: 69
Period size: 19 Copynumber: 4.7 Consensus size: 19
29397827 TTCTTACAAC
29397837 TTTATAAATTTTTT-T-ATAT
1 TTTAT-AATTTTTTATGAT-T
*
29397856 TTTGTAATTTTTTATGATT
1 TTTATAATTTTTTATGATT
** **
29397875 TTTATAAAATTTTACAATT
1 TTTATAATTTTTTATGATT
*
29397894 TTTAT-TTTCTTTTATGATT
1 TTTATAATT-TTTTATGATT
29397913 TTTATAATTCTTTT
1 TTTATAATT-TTTT
29397927 TACTAATTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
18 8 0.15
19 38 0.69
20 9 0.16
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTATAATTTTTTATGATT
Found at i:29397879 original size:38 final size:38
Alignment explanation
Indices: 29397837--29397938 Score: 100
Period size: 38 Copynumber: 2.6 Consensus size: 38
29397827 TTCTTACAAC
29397837 TTTATAAATTTTTTTATATTTTGTA-ATT-TTTTATGATT
1 TTTATAAATTTTTTTA-ATTTT-TATATTCTTTTATGATT
* ** *
29397875 TTTATAAAATTTTACAATTTTTATTTTCTTTTATGATT
1 TTTATAAATTTTTTTAATTTTTATATTCTTTTATGATT
*
29397913 TTTATAATTCTTTTTACTAATTTTTA
1 TTTATAAAT-TTTTT--TAATTTTTA
29397939 ATAAAAATTT
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
36 2 0.04
37 7 0.14
38 30 0.59
39 4 0.08
41 8 0.16
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (38 bp):
TTTATAAATTTTTTTAATTTTTATATTCTTTTATGATT
Found at i:29397887 original size:20 final size:20
Alignment explanation
Indices: 29397864--29397979 Score: 53
Period size: 19 Copynumber: 5.8 Consensus size: 20
29397854 ATTTTGTAAT
29397864 TTTTTATGATTTTTATAAAA
1 TTTTTATGATTTTTATAAAA
** **
29397884 -TTTTACAATTTTTAT--TT
1 TTTTTATGATTTTTATAAAA
**
29397901 TCTTTTATGATTTTTATAATTC
1 T-TTTTATGATTTTTATAA-AA
*
29397923 TTTTTACTAATTTTTAATAAAA
1 TTTTTA-TGATTTTT-ATAAAA
* * *
29397945 ATTTAAT-ATTTTT-TATAA
1 TTTTTATGATTTTTATAAAA
*
29397963 CTTTTATTGATTTTTAT
1 TTTTTA-TGATTTTTAT
29397980 TTTTTTTATC
Statistics
Matches: 71, Mismatches: 15, Indels: 19
0.68 0.14 0.18
Matches are distributed among these distances:
18 8 0.11
19 27 0.38
20 12 0.17
21 7 0.10
22 13 0.18
23 4 0.06
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTTATGATTTTTATAAAA
Found at i:29400704 original size:17 final size:17
Alignment explanation
Indices: 29400682--29400718 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
29400672 CATGACTTAC
29400682 AAGCACAATCGCATCAT
1 AAGCACAATCGCATCAT
29400699 AAGCACAATCGCATCAT
1 AAGCACAATCGCATCAT
29400716 AAG
1 AAG
29400719 TGTTTCTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.14, T:0.16
Consensus pattern (17 bp):
AAGCACAATCGCATCAT
Found at i:29401662 original size:45 final size:45
Alignment explanation
Indices: 29401611--29401698 Score: 176
Period size: 45 Copynumber: 2.0 Consensus size: 45
29401601 AAACTTGTTT
29401611 ATCCTTTTTCATCCTCTTTTGACCGAAAATTCTAAGGAAGGAGTC
1 ATCCTTTTTCATCCTCTTTTGACCGAAAATTCTAAGGAAGGAGTC
29401656 ATCCTTTTTCATCCTCTTTTGACCGAAAATTCTAAGGAAGGAG
1 ATCCTTTTTCATCCTCTTTTGACCGAAAATTCTAAGGAAGGAG
29401699 GAAGGAGTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (45 bp):
ATCCTTTTTCATCCTCTTTTGACCGAAAATTCTAAGGAAGGAGTC
Found at i:29402956 original size:40 final size:40
Alignment explanation
Indices: 29402763--29402988 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
29402753 TTGAATGATG
* * * *
29402763 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* * *
29402803 TCCGGACTAAGAT-CCGAAGACATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29402843 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29402883 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
29402923 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
29402964 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29402989 AACGAGGAGC
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 158 0.93
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:29403006 original size:120 final size:120
Alignment explanation
Indices: 29402763--29403021 Score: 278
Period size: 120 Copynumber: 2.2 Consensus size: 120
29402753 TTGAATGATG
* * *
29402763 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGGTGACCATATCCGGACTAAGATCCGAAGACATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGACATTT
** *
29402828 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTGACTAAA
* * ** *
29402883 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAGGTGACCAAATCCGGACTAAGAT-CCGAAGACAT
* * * *
29402946 TTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTACGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTGA-CTAAA
* *
29403003 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
29403022 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
119 17 0.15
120 90 0.77
121 10 0.09
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGACATTT
GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTGACTAAA
Found at i:29403593 original size:30 final size:30
Alignment explanation
Indices: 29403557--29403615 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
29403547 ATGTTTGAGC
*
29403557 ATAATGTTATAATCATTTGGTATGGATATT
1 ATAATGTTATAATCATTCGGTATGGATATT
*
29403587 ATAATGTTATAATCATTCGGTGTGGATAT
1 ATAATGTTATAATCATTCGGTATGGATAT
29403616 GCTTGACAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (30 bp):
ATAATGTTATAATCATTCGGTATGGATATT
Found at i:29404927 original size:28 final size:28
Alignment explanation
Indices: 29404887--29404942 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
29404877 GCATTCGTGC
*
29404887 TAGTGATGTATCCGGGCTAAGTCCCGAA
1 TAGTGATATATCCGGGCTAAGTCCCGAA
29404915 TAGTGATATATCCGGGCTAAGTCCCGAA
1 TAGTGATATATCCGGGCTAAGTCCCGAA
29404943 GAGCATTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (28 bp):
TAGTGATATATCCGGGCTAAGTCCCGAA
Found at i:29404966 original size:68 final size:68
Alignment explanation
Indices: 29404857--29405186 Score: 633
Period size: 68 Copynumber: 4.9 Consensus size: 68
29404847 TCGAATGATG
*
29404857 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAATAGTGAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAATAGTGAT
29404922 ATA
66 ATA
*
29404925 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAATAGTGAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAATAGTGAT
29404990 ATA
66 ATA
29404993 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAATAGTGAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAATAGTGAT
29405058 ATA
66 ATA
29405061 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAATAGTGAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAATAGTGAT
29405126 ATA
66 ATA
*
29405129 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAA
29405187 GAGCATTCGT
Statistics
Matches: 258, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 258 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (68 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAATAGTGAT
ATA
Found at i:29404970 original size:40 final size:40
Alignment explanation
Indices: 29404915--29405284 Score: 362
Period size: 40 Copynumber: 10.2 Consensus size: 40
29404905 AAGTCCCGAA
29404915 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGC
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGC
* *
29404955 TAGTGATGTATCCGGGCTAAGTTCC-----G-A---A---
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGC
29404983 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGC
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGC
*
29405023 TAGTGATGTATCCGGGCTAAGTCCC-----G-A---A---
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGC
29405051 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGC
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGC
*
29405091 TAGTGATGTATCCGGGCTAAGTCCC-----G-A---A---
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGC
29405119 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGC
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGC
* * *
29405159 TAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGC
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGC
* * *
29405199 TAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGC
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGC
* * *
29405239 TAGTGATATATCCGTGCTAAATCCCGAAGAGCAATCATGC
1 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGC
*
29405279 TGGTGA
1 TAGTGA
29405285 CGTGTATTCG
Statistics
Matches: 276, Mismatches: 18, Indels: 72
0.75 0.05 0.20
Matches are distributed among these distances:
28 71 0.26
31 3 0.01
33 3 0.01
34 6 0.02
35 3 0.01
37 3 0.01
40 187 0.68
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGC
Found at i:29404995 original size:28 final size:28
Alignment explanation
Indices: 29404955--29405010 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
29404945 GCATTCATGC
* *
29404955 TAGTGATGTATCCGGGCTAAGTTCCGAA
1 TAGTGATATATCCGGGCTAAGTCCCGAA
29404983 TAGTGATATATCCGGGCTAAGTCCCGAA
1 TAGTGATATATCCGGGCTAAGTCCCGAA
29405011 GAGCATTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (28 bp):
TAGTGATATATCCGGGCTAAGTCCCGAA
Found at i:29405063 original size:28 final size:28
Alignment explanation
Indices: 29405023--29405078 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
29405013 GCATTCATGC
*
29405023 TAGTGATGTATCCGGGCTAAGTCCCGAA
1 TAGTGATATATCCGGGCTAAGTCCCGAA
29405051 TAGTGATATATCCGGGCTAAGTCCCGAA
1 TAGTGATATATCCGGGCTAAGTCCCGAA
29405079 GAGCATTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (28 bp):
TAGTGATATATCCGGGCTAAGTCCCGAA
Found at i:29405107 original size:108 final size:108
Alignment explanation
Indices: 29404983--29405266 Score: 288
Period size: 108 Copynumber: 2.6 Consensus size: 108
29404973 AAGTTCCGAA
* * *
29404983 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCC
1 TAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGAGCTAAATCCC
29405048 GAATAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGC
66 GAATAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGC
* * * ** * * *** *
29405091 TAGTGATGTATCCGGGCTAAGTCCCGAATAGTGATAT-ATCCGGGCT-AAGT-CCCGAAGAGCAT
1 TAGTGATGTATCCGGGCTAAGTCCCGAAGAG-CAT-TCATGCTAG-TGATGTATCCG-AGCTAAA
** * * * *
29405153 TCATG-CTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGC
62 TCCCGAATAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGC
* * * *
29405199 TAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAATCCC
1 TAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGAGCTAAATCCC
29405264 GAA
66 GAA
29405267 GAGCAATCAT
Statistics
Matches: 131, Mismatches: 37, Indels: 16
0.71 0.20 0.09
Matches are distributed among these distances:
106 2 0.02
107 12 0.09
108 101 0.77
109 14 0.11
110 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (108 bp):
TAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGAGCTAAATCCC
GAATAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGC
Found at i:29405131 original size:28 final size:28
Alignment explanation
Indices: 29405091--29405146 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
29405081 GCATTCATGC
*
29405091 TAGTGATGTATCCGGGCTAAGTCCCGAA
1 TAGTGATATATCCGGGCTAAGTCCCGAA
29405119 TAGTGATATATCCGGGCTAAGTCCCGAA
1 TAGTGATATATCCGGGCTAAGTCCCGAA
29405147 GAGCATTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (28 bp):
TAGTGATATATCCGGGCTAAGTCCCGAA
Found at i:29409154 original size:22 final size:22
Alignment explanation
Indices: 29409129--29409203 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
29409119 AGTGTATATG
29409129 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ** *
29409151 TGTGATGAATG-TGAATAGGTGTATG
1 TGTGAT-AAGGCCGAAT-GG-CCA-A
29409176 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
29409198 TGTGAT
1 TGTGAT
29409204 GAAAGTGAAC
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 16 0.42
23 6 0.16
24 6 0.16
25 10 0.26
ACGTcount: A:0.29, C:0.11, G:0.33, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:29409178 original size:47 final size:47
Alignment explanation
Indices: 29409121--29409701 Score: 930
Period size: 47 Copynumber: 12.4 Consensus size: 47
29409111 AATGTGAAAG
* *
29409121 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
29409168 GGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
29409215 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACG
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
29409262 TGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
29409309 TGTATATGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
29409356 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
29409403 TGTATATGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
29409450 TGTATATGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
29409497 TGTATATGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
29409544 TGTATATGTGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * *
29409591 TGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * * *
29409638 TGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-A
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
**
29409684 GTGTATAAATGTGATAAG
1 -TGTATATGTGTGATAAG
29409702 TCCCGAAGGG
Statistics
Matches: 504, Mismatches: 29, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
46 1 0.00
47 503 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
Found at i:29409875 original size:37 final size:37
Alignment explanation
Indices: 29409819--29409898 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
29409809 CCGGGCTCTA
* * *
29409819 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
29409856 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
29409893 AAGACT
1 AAGACT
29409899 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:29413051 original size:11 final size:11
Alignment explanation
Indices: 29413035--29413092 Score: 62
Period size: 11 Copynumber: 4.9 Consensus size: 11
29413025 TAGGTACGTA
*
29413035 AAAAAAAAATC
1 AAAAAAAAATG
*
29413046 AAAAAAAATTG
1 AAAAAAAAATG
29413057 AAAAAAAAATTG
1 AAAAAAAAA-TG
29413069 AAAAAAAAAATTTG
1 -AAAAAAAAA--TG
29413083 AAAAAAAAAT
1 AAAAAAAAAT
29413093 TGCATACGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
11 18 0.44
12 2 0.05
13 18 0.44
14 3 0.07
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.16
Consensus pattern (11 bp):
AAAAAAAAATG
Found at i:29413051 original size:12 final size:12
Alignment explanation
Indices: 29413034--29413091 Score: 64
Period size: 12 Copynumber: 4.8 Consensus size: 12
29413024 TTAGGTACGT
29413034 AAAAAAAAAAT-
1 AAAAAAAAAATG
* *
29413045 CAAAAAAAATTG
1 AAAAAAAAAATG
*
29413057 AAAAAAAAATTG
1 AAAAAAAAAATG
29413069 AAAAAAAAAATTTG
1 AAAAAAAAAA--TG
29413083 AAAAAAAAA
1 AAAAAAAAA
29413092 TTGCATACGG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
11 9 0.22
12 20 0.50
14 11 0.28
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (12 bp):
AAAAAAAAAATG
Found at i:29413062 original size:13 final size:13
Alignment explanation
Indices: 29413046--29413091 Score: 76
Period size: 14 Copynumber: 3.5 Consensus size: 13
29413036 AAAAAAAATC
29413046 AAAAAAAATTG-A
1 AAAAAAAATTGAA
29413058 AAAAAAAATTGAA
1 AAAAAAAATTGAA
29413071 AAAAAAAATTTGAA
1 AAAAAAAA-TTGAA
29413085 AAAAAAA
1 AAAAAAA
29413092 TTGCATACGG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.34
13 9 0.28
14 12 0.38
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (13 bp):
AAAAAAAATTGAA
Found at i:29413092 original size:13 final size:12
Alignment explanation
Indices: 29413046--29413094 Score: 80
Period size: 13 Copynumber: 3.9 Consensus size: 12
29413036 AAAAAAAATC
29413046 AAAAAAAATTGA
1 AAAAAAAATTGA
29413058 AAAAAAAATTGAA
1 AAAAAAAATTG-A
29413071 AAAAAAAATTTGA
1 AAAAAAAA-TTGA
29413084 AAAAAAAATTG
1 AAAAAAAATTG
29413095 CATACGGTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.40
13 18 0.51
14 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.18
Consensus pattern (12 bp):
AAAAAAAATTGA
Found at i:29413181 original size:1 final size:1
Alignment explanation
Indices: 29413137--29413162 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
29413127 AAAGATCCGT
29413137 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
29413163 GCCGGGACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:29413256 original size:76 final size:71
Alignment explanation
Indices: 29413129--29413271 Score: 196
Period size: 71 Copynumber: 1.9 Consensus size: 71
29413119 AGAACGTGAA
*
29413129 AGATCCGTAAAAAAAAAAAAAAAAAAAAAAAAAAGCCGGGACTTCAACAAAAATTTTTCCAAAAT
1 AGATCCCTAAAAAAAAAAAAAAAAAAAAAAAAAAGCCGGGACTTCAACAAAAATTTTTCCAAAAT
29413194 CATATT
66 CATATT
* * * *
29413200 AGATCCCTAAAAAAAAAAAAAAAAAAAAAAAGAGAGTCTGGAGACACTTCAACAAAATTTTTTCT
1 AGATCCCTAAAAAAAAAAAAAAAAAAAAAAA-AAAG-CCGG-G--ACTTCAACAAAAATTTTTCC
29413265 AAAATCA
61 AAAATCA
29413272 CATTCTACAC
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
71 30 0.48
72 3 0.05
73 3 0.05
74 1 0.02
76 25 0.40
ACGTcount: A:0.58, C:0.14, G:0.09, T:0.19
Consensus pattern (71 bp):
AGATCCCTAAAAAAAAAAAAAAAAAAAAAAAAAAGCCGGGACTTCAACAAAAATTTTTCCAAAAT
CATATT
Found at i:29422764 original size:58 final size:58
Alignment explanation
Indices: 29422674--29422788 Score: 221
Period size: 58 Copynumber: 2.0 Consensus size: 58
29422664 CATTCAAGCC
*
29422674 CTAACCATGGCTTCTTCCTTACTAAATTCGATGGTGATGAAGAGAAAATGGTGATATG
1 CTAACCATGGCTTCTTCCTTACTAAATTCGATGGTGATGAAGAGAAAATGATGATATG
29422732 CTAACCATGGCTTCTTCCTTACTAAATTCGATGGTGATGAAGAGAAAATGATGATAT
1 CTAACCATGGCTTCTTCCTTACTAAATTCGATGGTGATGAAGAGAAAATGATGATAT
29422789 TTTTATGTTA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (58 bp):
CTAACCATGGCTTCTTCCTTACTAAATTCGATGGTGATGAAGAGAAAATGATGATATG
Found at i:29425048 original size:50 final size:50
Alignment explanation
Indices: 29424807--29425048 Score: 292
Period size: 50 Copynumber: 4.9 Consensus size: 50
29424797 GATAATAACA
* * * *
29424807 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA--TGTTTTCT-GTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCG--G
* * * ** * *
29424856 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
* * *
29424906 TGCCTATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
*
29424956 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
* *
29425006 TGCCAATGCTATGTCCCAGAAATGGTCTTACATGGGACCTCTT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
29425049 TACCCAAATG
Statistics
Matches: 166, Mismatches: 24, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
49 33 0.20
50 128 0.77
51 4 0.02
52 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
Found at i:29427696 original size:32 final size:32
Alignment explanation
Indices: 29427655--29427717 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
29427645 TGAGGTCAAG
29427655 AAATTTATTTTATTATTATTTTATTACCTAAA
1 AAATTTATTTTATTATTATTTTATTACCTAAA
*
29427687 AAATTTATTTTATTATTATTTTATTGCCTAA
1 AAATTTATTTTATTATTATTTTATTACCTAA
29427718 GTATGATAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (32 bp):
AAATTTATTTTATTATTATTTTATTACCTAAA
Found at i:29436700 original size:25 final size:25
Alignment explanation
Indices: 29436672--29436721 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
29436662 ATTCTCATTT
* *
29436672 GAGCTGTAGATTGGTATGCTCTCAC
1 GAGCTATAAATTGGTATGCTCTCAC
29436697 GAGCTATAAATTGGTATGCTCTCAC
1 GAGCTATAAATTGGTATGCTCTCAC
29436722 TAGTTGTGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (25 bp):
GAGCTATAAATTGGTATGCTCTCAC
Found at i:29438805 original size:27 final size:27
Alignment explanation
Indices: 29438775--29439039 Score: 322
Period size: 27 Copynumber: 9.8 Consensus size: 27
29438765 GTACCATCGA
* *
29438775 AGGGTAAAATGATCGAAATGCCCTTAT
1 AGGGTAAAATGATCGTAATGCCCTTGT
* *
29438802 AGGGTAAAATGA-CTGTGATGCCCCTGT
1 AGGGTAAAATGATC-GTAATGCCCTTGT
* * * *
29438829 TGGGTAAAATAACCGTAATGCCCCTGT
1 AGGGTAAAATGATCGTAATGCCCTTGT
* *
29438856 AAGGTAAAATGATCGTAATGCCCGTGT
1 AGGGTAAAATGATCGTAATGCCCTTGT
* * *
29438883 AGGGTAAAATGACCATAATGCCCCTGT
1 AGGGTAAAATGATCGTAATGCCCTTGT
29438910 AGGGTAAAATGATCGTAATGCCCTTGT
1 AGGGTAAAATGATCGTAATGCCCTTGT
* *
29438937 AGGGTAAAATGACCGTAATTCCCTTGT
1 AGGGTAAAATGATCGTAATGCCCTTGT
29438964 AGGGTAAAATG-TCCGTAATGCCCTTGT
1 AGGGTAAAATGAT-CGTAATGCCCTTGT
*
29438991 AGGGTAAAATGA-CTTTAATGCTCC-TGT
1 AGGGTAAAATGATC-GTAATGC-CCTTGT
29439018 AGGGTAAAATGATCGTAATGCC
1 AGGGTAAAATGATCGTAATGCC
29439040 TGTAACACCC
Statistics
Matches: 206, Mismatches: 25, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
26 3 0.01
27 199 0.97
28 4 0.02
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (27 bp):
AGGGTAAAATGATCGTAATGCCCTTGT
Found at i:29438886 original size:81 final size:81
Alignment explanation
Indices: 29438775--29439039 Score: 368
Period size: 81 Copynumber: 3.3 Consensus size: 81
29438765 GTACCATCGA
* * * * * *
29438775 AGGGTAAAATGATCGAAATGCCCTTATAGGGTAAAATGACTGTGATGCCCCTGTTGGGTAAAATA
1 AGGGTAAAATGATCGTAATGCCCTTGTAGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATG
29438840 ACCGTAATGCCCCTGT
66 ACCGTAATGCCCCTGT
* * *
29438856 AAGGTAAAATGATCGTAATGCCCGTGTAGGGTAAAATGACCATAATGCCCCTGTAGGGTAAAATG
1 AGGGTAAAATGATCGTAATGCCCTTGTAGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATG
* *
29438921 ATCGTAATGCCCTTGT
66 ACCGTAATGCCCCTGT
* * * *
29438937 AGGGTAAAATGACCGTAATTCCCTTGTAGGGTAAAATGTCCGTAATGCCCTTGTAGGGTAAAATG
1 AGGGTAAAATGATCGTAATGCCCTTGTAGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATG
** *
29439002 ACTTTAATGCTCCTGT
66 ACCGTAATGCCCCTGT
29439018 AGGGTAAAATGATCGTAATGCC
1 AGGGTAAAATGATCGTAATGCC
29439040 TGTAACACCC
Statistics
Matches: 159, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 159 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (81 bp):
AGGGTAAAATGATCGTAATGCCCTTGTAGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATG
ACCGTAATGCCCCTGT
Found at i:29440522 original size:40 final size:40
Alignment explanation
Indices: 29440424--29440766 Score: 415
Period size: 40 Copynumber: 8.6 Consensus size: 40
29440414 TCCTCGTTCA
* * * * *
29440424 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
29440463 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
29440503 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
29440543 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
29440583 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
29440623 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
29440663 AAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCACG
** * * * *
29440703 AATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
29440743 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
29440767 CAGCATTCAA
Statistics
Matches: 273, Mismatches: 25, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
39 39 0.14
40 222 0.81
41 12 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:29440775 original size:41 final size:41
Alignment explanation
Indices: 29440698--29440775 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
29440688 TTTGTATCTC
* * *
29440698 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
29440739 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
29440776 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:29448550 original size:40 final size:40
Alignment explanation
Indices: 29448450--29448714 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
29448440 GCTCCTCGTT
* * * *
29448450 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
29448490 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
29448529 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
29448569 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
29448609 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
29448649 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
29448690 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
29448715 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:29448674 original size:80 final size:80
Alignment explanation
Indices: 29448417--29448714 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
29448407 AAATCACGTA
* ** * * *
29448417 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
29448479 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
29448495 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
29448558 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
29448575 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
29448639 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
29448655 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
29448715 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:29448723 original size:41 final size:41
Alignment explanation
Indices: 29448646--29448723 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
29448636 TTTGTATCTC
* * *
29448646 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
29448687 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
29448724 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:29450254 original size:27 final size:27
Alignment explanation
Indices: 29450223--29450359 Score: 184
Period size: 27 Copynumber: 5.1 Consensus size: 27
29450213 GGGCTGTCAC
* *
29450223 AATGCCCCTGTAGGGTAAAATCACCGT
1 AATGCCCCTGTAGGGTAAAATAATCGT
* * * *
29450250 AATGCCCATCTAGGGTTAAATGATCGT
1 AATGCCCCTGTAGGGTAAAATAATCGT
*
29450277 AATGCCCCTGTAGGGTAAAATAATTGT
1 AATGCCCCTGTAGGGTAAAATAATCGT
* *
29450304 AATGCCCTTGTAGGGTAAAATGATCGT
1 AATGCCCCTGTAGGGTAAAATAATCGT
*
29450331 AATGCCCCTGTAGGGTAAAATAACCGT
1 AATGCCCCTGTAGGGTAAAATAATCGT
29450358 AA
1 AA
29450360 GTAGGGTAAA
Statistics
Matches: 94, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (27 bp):
AATGCCCCTGTAGGGTAAAATAATCGT
Found at i:29450306 original size:54 final size:54
Alignment explanation
Indices: 29450223--29450359 Score: 220
Period size: 54 Copynumber: 2.5 Consensus size: 54
29450213 GGGCTGTCAC
* *
29450223 AATGCCCCTGTAGGGTAAAATCACCGTAATGCCCATCTAGGGTTAAATGATCGT
1 AATGCCCCTGTAGGGTAAAATAACCGTAATGCCCATCTAGGGTAAAATGATCGT
** * *
29450277 AATGCCCCTGTAGGGTAAAATAATTGTAATGCCCTTGTAGGGTAAAATGATCGT
1 AATGCCCCTGTAGGGTAAAATAACCGTAATGCCCATCTAGGGTAAAATGATCGT
29450331 AATGCCCCTGTAGGGTAAAATAACCGTAA
1 AATGCCCCTGTAGGGTAAAATAACCGTAA
29450360 GTAGGGTAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 75 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (54 bp):
AATGCCCCTGTAGGGTAAAATAACCGTAATGCCCATCTAGGGTAAAATGATCGT
Found at i:29450365 original size:20 final size:20
Alignment explanation
Indices: 29450340--29450379 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
29450330 TAATGCCCCT
29450340 GTAGGGTAAAATAACCGTAA
1 GTAGGGTAAAATAACCGTAA
29450360 GTAGGGTAAAATAACCGTAA
1 GTAGGGTAAAATAACCGTAA
29450380 TGCTCTAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.25, T:0.20
Consensus pattern (20 bp):
GTAGGGTAAAATAACCGTAA
Found at i:29450447 original size:23 final size:23
Alignment explanation
Indices: 29450420--29450505 Score: 154
Period size: 23 Copynumber: 3.7 Consensus size: 23
29450410 TCTCGAGGTC
* *
29450420 AAATGATTGTTTTGTCTATGGTT
1 AAATGACTGATTTGTCTATGGTT
29450443 AAATGACTGATTTGTCTATGGTT
1 AAATGACTGATTTGTCTATGGTT
29450466 AAATGACTGATTTGTCTATGGTT
1 AAATGACTGATTTGTCTATGGTT
29450489 AAATGACTGATTTGTCT
1 AAATGACTGATTTGTCT
29450506 CTGTTTGGTA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (23 bp):
AAATGACTGATTTGTCTATGGTT
Found at i:29450770 original size:32 final size:32
Alignment explanation
Indices: 29450723--29450808 Score: 129
Period size: 32 Copynumber: 2.7 Consensus size: 32
29450713 GCAATGCTAA
* *
29450723 TGATGCCTTTGTGCCGCTCATAGTACCGTTAC
1 TGATGACTTTGTGCCGATCATAGTACCGTTAC
29450755 TGATTG-CTTTGTGCCGATCATAGTACCGTTAC
1 TGA-TGACTTTGTGCCGATCATAGTACCGTTAC
*
29450787 TGATGATTTTGTGCCGATCATA
1 TGATGACTTTGTGCCGATCATA
29450809 TTACTATTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
31 2 0.04
32 46 0.92
33 2 0.04
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (32 bp):
TGATGACTTTGTGCCGATCATAGTACCGTTAC
Found at i:29450939 original size:22 final size:21
Alignment explanation
Indices: 29450914--29450977 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
29450904 ATTACTGTAC
29450914 TTATGGCTTGTAGCCATTCTAT
1 TTATGGCTT-TAGCCATTCTAT
* * * *
29450936 TTATAGCTTATAGCTATCCTGT
1 TTATGGCTT-TAGCCATTCTAT
29450958 TTATGGCTCTTAGCCATTCT
1 TTATGGCT-TTAGCCATTCT
29450978 GACTACTGGC
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
22 32 0.97
23 1 0.03
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.45
Consensus pattern (21 bp):
TTATGGCTTTAGCCATTCTAT
Found at i:29451001 original size:26 final size:26
Alignment explanation
Indices: 29450972--29451022 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
29450962 GGCTCTTAGC
* *
29450972 CATTCTGACTACTGGCAGCTCTCCTG
1 CATTATGACTACTGGCAGCTATCCTG
* *
29450998 CATTATTACTACTGGTAGCTATCCT
1 CATTATGACTACTGGCAGCTATCCT
29451023 ACGATATTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (26 bp):
CATTATGACTACTGGCAGCTATCCTG
Found at i:29451114 original size:22 final size:23
Alignment explanation
Indices: 29451066--29451114 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
29451056 TTGTCCTCAC
*
29451066 ATGGTGTGTTGGGTTGGTATGGG
1 ATGGTGTGTTGGGCTGGTATGGG
29451089 -TGGTGTGTT-GGCTGG-ATTGGG
1 ATGGTGTGTTGGGCTGGTA-TGGG
29451110 ATGGT
1 ATGGT
29451115 TTTGCATACT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 9 0.39
22 13 0.57
ACGTcount: A:0.08, C:0.02, G:0.51, T:0.39
Consensus pattern (23 bp):
ATGGTGTGTTGGGCTGGTATGGG
Found at i:29451570 original size:30 final size:31
Alignment explanation
Indices: 29451536--29451593 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
29451526 TTCAAACGCT
29451536 ACGTTTTCGC-AACACATTT-TTTTAAATATC
1 ACGTTTTCGCAAAC-CATTTGTTTTAAATATC
*
29451566 ACGTTTTCGTAAACCATTTGTTTTAAAT
1 ACGTTTTCGCAAACCATTTGTTTTAAAT
29451594 TAAGCTTCCG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.29, C:0.17, G:0.09, T:0.45
Consensus pattern (31 bp):
ACGTTTTCGCAAACCATTTGTTTTAAATATC
Found at i:29455725 original size:29 final size:28
Alignment explanation
Indices: 29455693--29455748 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
29455683 ATTTAGATAT
*
29455693 GTTATTTTATGTTAATTAAATTTCATTAA
1 GTTATTTTAGGTTAATT-AATTTCATTAA
*
29455722 GTTATTTTAGGTTAATTAATTTTATTA
1 GTTATTTTAGGTTAATTAATTTCATTA
29455749 TTTTAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (28 bp):
GTTATTTTAGGTTAATTAATTTCATTAA
Found at i:29455769 original size:18 final size:18
Alignment explanation
Indices: 29455733--29455770 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
29455723 TTATTTTAGG
*
29455733 TTAATTAATTTTATTATT
1 TTAATTAATTTTATAATT
29455751 TTAATTAATATTT-TAATT
1 TTAATTAAT-TTTATAATT
29455769 TT
1 TT
29455771 GCATCAACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTAATTAATTTTATAATT
Found at i:29457580 original size:21 final size:21
Alignment explanation
Indices: 29457531--29457580 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
29457521 TGTTACTACT
*
29457531 TAGGTAATTTGAAGTTTGGTC
1 TAGGTAATTTCAAGTTTGGTC
**
29457552 T-GAAAATTTCAATGTTTGG-C
1 TAGGTAATTTCAA-GTTTGGTC
29457572 TAGGTAATT
1 TAGGTAATT
29457581 AAGGAAAAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 4
0.71 0.16 0.13
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.42
Consensus pattern (21 bp):
TAGGTAATTTCAAGTTTGGTC
Found at i:29463208 original size:25 final size:25
Alignment explanation
Indices: 29463174--29463245 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
29463164 TCCTGTACAT
* *
29463174 GTATGCTCACACGAGTTGTGAATCG
1 GTATGCTCACATGAGCTGTGAATCG
*
29463199 GTATGCTCACATGAGCTGTAAATCG
1 GTATGCTCACATGAGCTGTGAATCG
29463224 GTATGCTCACATGAGCTGTGAA
1 GTATGCTCACATGAGCTGTGAA
29463246 AATGGGCCTG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (25 bp):
GTATGCTCACATGAGCTGTGAATCG
Found at i:29463257 original size:27 final size:26
Alignment explanation
Indices: 29463176--29463270 Score: 104
Period size: 25 Copynumber: 3.7 Consensus size: 26
29463166 CTGTACATGT
* * *
29463176 ATGCTCACACGAGTTGTG-AATCGGT
1 ATGCTCACATGAGCTGTGAAATCGGC
*
29463201 ATGCTCACATGAGCTGT-AAATCGGT
1 ATGCTCACATGAGCTGTGAAATCGGC
*
29463226 ATGCTCACATGAGCTGTGAAAATGGGC
1 ATGCTCACATGAGCTGTG-AAATCGGC
* *
29463253 CTGCTCACATGAGATGTG
1 ATGCTCACATGAGCTGTG
29463271 GGTCGGAACA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
25 39 0.64
27 22 0.36
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (26 bp):
ATGCTCACATGAGCTGTGAAATCGGC
Found at i:29469918 original size:40 final size:41
Alignment explanation
Indices: 29469843--29469923 Score: 94
Period size: 40 Copynumber: 2.0 Consensus size: 41
29469833 TGATATTGCT
* *
29469843 ATAGTAATAATAAGTATATAAATAAATAAGGTAATATAATA
1 ATAGCAATAATAAGTATATAAATAAATAAGGTAATAAAATA
* **
29469884 ATAGCAATAAT-AGT-TTTAAATTAAATAATTTAATAAAATA
1 ATAGCAATAATAAGTATATAAA-TAAATAAGGTAATAAAATA
29469924 GCCAAAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
39 5 0.15
40 19 0.56
41 10 0.29
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.35
Consensus pattern (41 bp):
ATAGCAATAATAAGTATATAAATAAATAAGGTAATAAAATA
Found at i:29471629 original size:46 final size:46
Alignment explanation
Indices: 29471555--29471739 Score: 145
Period size: 46 Copynumber: 3.9 Consensus size: 46
29471545 TGCTCCGCTA
* * * * *
29471555 CAATGCCAAGGAAATAAGATTTGATGCCTTGAACTTTAATCTATTG
1 CAATGCCAAGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTATTG
* * * *
29471601 CAATGCCAGGGAAACAAGATTCGTTGCCTTCAGCTTTAATTTGTTCGACTG
1 CAATGCCAAGGAAACAAGATTCGCTGCCTTCAGCTTTAA-----TCTATTG
* *** * * *
29471652 CAACGCCAAGGAAATGGGATTCGCTGCCTTTACCTTAAATCTATTG
1 CAATGCCAAGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTATTG
* * * *
29471698 CAATTCTAGGGAAACAAGATTCGCCGCCTTCAGCTTTAATCT
1 CAATGCCAAGGAAACAAGATTCGCTGCCTTCAGCTTTAATCT
29471740 GATCCACTAC
Statistics
Matches: 104, Mismatches: 30, Indels: 10
0.72 0.21 0.07
Matches are distributed among these distances:
46 69 0.66
51 35 0.34
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (46 bp):
CAATGCCAAGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTATTG
Found at i:29471680 original size:97 final size:97
Alignment explanation
Indices: 29471508--29471752 Score: 294
Period size: 97 Copynumber: 2.5 Consensus size: 97
29471498 TAACTTTAAC
* * * *
29471508 GCCAGGGAGATAAGATTCGCTGCCTACAGCTTTAATTTGCTCCGCTACAATGCCAAGGAAATAAG
1 GCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATTTGCTCCGCTACAACGCCAAGGAAATAAG
* *
29471573 ATTTGATGCCTTGAACTTTAATCTATTGCAAT
66 ATTCGATGCCTTGAACTTAAATCTATTGCAAT
* * * **
29471605 GCCAGGGAAACAAGATTCGTTGCCTTCAGCTTTAATTTG-TTCGACTGCAACGCCAAGGAAATGG
1 GCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATTTGCTCCG-CTACAACGCCAAGGAAATAA
* * *
29471669 GATTCGCTGCCTTTACCTTAAATCTATTGCAAT
65 GATTCGATGCCTTGAACTTAAATCTATTGCAAT
* * * * * *
29471702 TCTAGGGAAACAAGATTCGCCGCCTTCAGCTTTAATCTGATCCACTACAAC
1 GCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATTTGCTCCGCTACAAC
29471753 TTTAGCGGTA
Statistics
Matches: 124, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
96 3 0.02
97 119 0.96
98 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (97 bp):
GCCAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATTTGCTCCGCTACAACGCCAAGGAAATAAG
ATTCGATGCCTTGAACTTAAATCTATTGCAAT
Found at i:29483040 original size:28 final size:28
Alignment explanation
Indices: 29483009--29483097 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 28
29482999 TCAATTAAAT
29483009 TCATTGTTTTATTATTTTAGATTTATTA
1 TCATTGTTTTATTATTTTAGATTTATTA
* *
29483037 TCATATGTATTT-TTATTTGT-GAATTA-AA
1 TCAT-TGT-TTTATTATTT-TAGATTTATTA
*
29483065 TTCATTGTTTTAATATTTTAGATTTATTA
1 -TCATTGTTTTATTATTTTAGATTTATTA
29483094 TCAT
1 TCAT
29483098 ATATTTGTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
27 4 0.08
28 22 0.45
29 19 0.39
30 4 0.08
ACGTcount: A:0.28, C:0.04, G:0.08, T:0.60
Consensus pattern (28 bp):
TCATTGTTTTATTATTTTAGATTTATTA
Found at i:29483045 original size:57 final size:57
Alignment explanation
Indices: 29482983--29483099 Score: 207
Period size: 57 Copynumber: 2.1 Consensus size: 57
29482973 CAATTTTGCT
* *
29482983 TATGTATTTTTATTTTTCAATTAAATTCATTGTTTTATTATTTTAGATTTATTATCA
1 TATGTATTTTTATTTGTCAATTAAATTCATTGTTTTAATATTTTAGATTTATTATCA
*
29483040 TATGTATTTTTATTTGTGAATTAAATTCATTGTTTTAATATTTTAGATTTATTATCA
1 TATGTATTTTTATTTGTCAATTAAATTCATTGTTTTAATATTTTAGATTTATTATCA
29483097 TAT
1 TAT
29483100 ATTTGTTTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.60
Consensus pattern (57 bp):
TATGTATTTTTATTTGTCAATTAAATTCATTGTTTTAATATTTTAGATTTATTATCA
Found at i:29483069 original size:29 final size:27
Alignment explanation
Indices: 29482983--29483069 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 27
29482973 CAATTTTGCT
29482983 TATGTATTTTTATTTTTCAATTAAATTCA
1 TATGTATTTTTA-TTTT-AATTAAATTCA
* *
29483012 T-TGT-TTTATTATTTTAGATTTATTATCA
1 TATGTATTT-TTATTTTA-ATTAAAT-TCA
29483040 TATGTATTTTTATTTGTGAATTAAATTCA
1 TATGTATTTTTATTT-T-AATTAAATTCA
29483069 T
1 T
29483070 TGTTTTAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
26 1 0.02
27 12 0.26
28 10 0.21
29 14 0.30
30 9 0.19
31 1 0.02
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.60
Consensus pattern (27 bp):
TATGTATTTTTATTTTAATTAAATTCA
Found at i:29484139 original size:51 final size:51
Alignment explanation
Indices: 29484063--29484168 Score: 203
Period size: 51 Copynumber: 2.1 Consensus size: 51
29484053 ATTTAAAAAG
29484063 ACGAATCTAACTTCGAAGATTGAATCGTTGCACCCTAACTCATTGAGTGTA
1 ACGAATCTAACTTCGAAGATTGAATCGTTGCACCCTAACTCATTGAGTGTA
*
29484114 ACGAATCTAACTTCGAAGATTGAATCGTTGCACCCTAACTCATTGAGTGTG
1 ACGAATCTAACTTCGAAGATTGAATCGTTGCACCCTAACTCATTGAGTGTA
29484165 ACGA
1 ACGA
29484169 TTTATTTCTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (51 bp):
ACGAATCTAACTTCGAAGATTGAATCGTTGCACCCTAACTCATTGAGTGTA
Found at i:29484151 original size:28 final size:28
Alignment explanation
Indices: 29484069--29484153 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
29484059 AAAGACGAAT
29484069 CTAACTTCGAAGATTGAATCGTTGCACC
1 CTAACTTCGAAGATTGAATCGTTGCACC
* ** **
29484097 CTAAC-TC----ATTGAGT-GTAACGAAT
1 CTAACTTCGAAGATTGAATCGTTGC-ACC
29484120 CTAACTTCGAAGATTGAATCGTTGCACC
1 CTAACTTCGAAGATTGAATCGTTGCACC
29484148 CTAACT
1 CTAACT
29484154 CATTGAGTGT
Statistics
Matches: 40, Mismatches: 10, Indels: 14
0.62 0.16 0.22
Matches are distributed among these distances:
22 3 0.08
23 12 0.30
24 2 0.05
27 2 0.05
28 18 0.45
29 3 0.08
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (28 bp):
CTAACTTCGAAGATTGAATCGTTGCACC
Found at i:29488096 original size:26 final size:26
Alignment explanation
Indices: 29488077--29488127 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
29488067 AAAAAGGAAA
29488077 AGAAA-AAATCAAAGTCAAAAAAAAG
1 AGAAATAAATCAAAGTCAAAAAAAAG
*
29488102 AGAAATCAATCAAAGTCAAAATAAAA
1 AGAAATAAATCAAAGTCAAAA-AAAA
29488128 TATGAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.22
26 14 0.61
27 4 0.17
ACGTcount: A:0.69, C:0.10, G:0.10, T:0.12
Consensus pattern (26 bp):
AGAAATAAATCAAAGTCAAAAAAAAG
Found at i:29488525 original size:14 final size:13
Alignment explanation
Indices: 29488504--29488561 Score: 80
Period size: 13 Copynumber: 4.3 Consensus size: 13
29488494 AGTTCCAAAA
29488504 AAAATGAAAAAATG
1 AAAATG-AAAAATG
*
29488518 AGAATGAAAAATG
1 AAAATGAAAAATG
29488531 AAAAATGAAAAATG
1 -AAAATGAAAAATG
*
29488545 AAAATGGAAAATG
1 AAAATGAAAAATG
29488558 AAAA
1 AAAA
29488562 ATGGAGAGGC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
13 23 0.57
14 17 0.43
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:29488530 original size:7 final size:7
Alignment explanation
Indices: 29488503--29488564 Score: 83
Period size: 7 Copynumber: 9.0 Consensus size: 7
29488493 AAGTTCCAAA
29488503 AAAAATG
1 AAAAATG
29488510 AAAAAATG
1 -AAAAATG
*
29488518 -AGAATG
1 AAAAATG
29488524 AAAAATG
1 AAAAATG
29488531 AAAAATG
1 AAAAATG
29488538 AAAAATG
1 AAAAATG
29488545 -AAAATG
1 AAAAATG
*
29488551 GAAAATG
1 AAAAATG
29488558 AAAAATG
1 AAAAATG
29488565 GAGAGGCTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
6 11 0.22
7 31 0.63
8 7 0.14
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:29488559 original size:20 final size:21
Alignment explanation
Indices: 29488503--29488564 Score: 83
Period size: 20 Copynumber: 3.0 Consensus size: 21
29488493 AAGTTCCAAA
*
29488503 AAAAATGAAAAAATG-AGAATG
1 AAAAATG-AAAAATGAAAAATG
29488524 AAAAATGAAAAATGAAAAATG
1 AAAAATGAAAAATGAAAAATG
*
29488545 -AAAATGGAAAATGAAAAATG
1 AAAAATGAAAAATGAAAAATG
29488565 GAGAGGCTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 26 0.68
21 12 0.32
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (21 bp):
AAAAATGAAAAATGAAAAATG
Found at i:29489928 original size:87 final size:87
Alignment explanation
Indices: 29489789--29490743 Score: 1505
Period size: 87 Copynumber: 11.0 Consensus size: 87
29489779 TGAAGATCCC
29489789 AAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
1 AAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
* *
29489854 CATTAATAGCGAAGCAGATCAA
66 CATTAACAGCGAAGCAGATCGA
*
29489876 AAACAAAGCCTTGCCTCCATCGGTTGTAATGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
1 AAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
* *
29489941 CATTAATAGCGAAGCAGATCAA
66 CATTAACAGCGAAGCAGATCGA
*
29489963 AAACAAAGCCTTGCCTCCATCGGTTGTAATGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
1 AAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
* *
29490028 CATTAATAGCGAAGCAGATCAA
66 CATTAACAGCGAAGCAGATCGA
*
29490050 AAACAAAGCCTTGCCTCCATCGGTTGTAATGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
1 AAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
* *
29490115 CATTAATAGCGAAGCAGATCAA
66 CATTAACAGCGAAGCAGATCGA
*
29490137 AAACAAAGCCTTGCCTCCATCGGTTGTAATGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
1 AAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
29490202 CATTAACAGCGAAGCAGATCGA
66 CATTAACAGCGAAGCAGATCGA
* *
29490224 AAACAAAGCCTTGCCTCCATCAGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTA
1 AAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
*
29490289 CGTTAACAGCGAAGCAGATCGA
66 CATTAACAGCGAAGCAGATCGA
* * * *
29490311 AAACAAAGCCTTGCAATCCATCGGTAGCAGTGGAGCTGGTTGAAGATAGCAAATCTTGCCTTCCT
1 AAACAAAGCCTTGC-CTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
* * *
29490376 GCGTTAATAGCGAAGTAGATCGA
65 GCATTAACAGCGAAGCAGATCGA
* *
29490399 AAACAAAGCCTTGCCTCCATCGGGTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
1 AAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
29490464 CATTAACAGCGAAGCAGATCGA
66 CATTAACAGCGAAGCAGATCGA
* * * * *
29490486 AAACAAACCCTTGCCTCCATCGGGTGCAGTGGAGCTGGTTAAAGATAGCAGGTCTTGCCTTCCTG
1 AAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
* *
29490551 CGTTAACAGCGAAGTAGATCGA
66 CATTAACAGCGAAGCAGATCGA
* * *
29490573 AAACAAAGCCTTGCCTCCATTGGGTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
1 AAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
**
29490638 TGTTAACAGCGAAGCAGATCGA
66 CATTAACAGCGAAGCAGATCGA
* * * * *
29490660 AAACAAACCCTTGCCTCCATCGGGTGCAGTGGAGCTGGTTAAAGATAGCAGGTCTTGCCTTCCTG
1 AAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
** *
29490725 CATTGGCAGTGAAGCAGAT
66 CATTAACAGCGAAGCAGAT
29490744 TGAAGCTAAT
Statistics
Matches: 825, Mismatches: 42, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
87 746 0.90
88 79 0.10
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (87 bp):
AAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
CATTAACAGCGAAGCAGATCGA
Found at i:29491294 original size:30 final size:30
Alignment explanation
Indices: 29491260--29491319 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
29491250 TGCACTTGGA
*
29491260 ACGTTTAGTTCAATTGCTGCTCACGAAATT
1 ACGTTTAGTTCAATTACTGCTCACGAAATT
29491290 ACGTTTAGTTCAATTACTGCTCACGAAATT
1 ACGTTTAGTTCAATTACTGCTCACGAAATT
29491320 GTTACATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (30 bp):
ACGTTTAGTTCAATTACTGCTCACGAAATT
Found at i:29497110 original size:18 final size:19
Alignment explanation
Indices: 29497072--29497110 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
29497062 TTTTGGGCTA
29497072 GGGTTTGCAATGGGTTATT
1 GGGTTTGCAATGGGTTATT
29497091 GGGTTTG-AATTGGG-TATT
1 GGGTTTGCAA-TGGGTTATT
29497109 GG
1 GG
29497111 ACTAATGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.15, C:0.03, G:0.41, T:0.41
Consensus pattern (19 bp):
GGGTTTGCAATGGGTTATT
Found at i:29505800 original size:17 final size:17
Alignment explanation
Indices: 29505778--29505811 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
29505768 GCACCGGTGT
29505778 CCATCTCTCCCTACCGC
1 CCATCTCTCCCTACCGC
29505795 CCATCTCTCCCTACCGC
1 CCATCTCTCCCTACCGC
29505812 ATGGCACCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.59, G:0.06, T:0.24
Consensus pattern (17 bp):
CCATCTCTCCCTACCGC
Found at i:29512208 original size:38 final size:37
Alignment explanation
Indices: 29512157--29512231 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 37
29512147 GGATTCAATG
29512157 TATCATTTAGACCAAGATCATTTCTTTCCCTAGCCAT
1 TATCATTTAGACCAAGATCATTTCTTTCCCTAGCCAT
29512194 NTATCATTTAGACCAAGATCATTTCTTTCCCTAGCCAT
1 -TATCATTTAGACCAAGATCATTTCTTTCCCTAGCCAT
29512232 ATAACGTAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.37
Consensus pattern (37 bp):
TATCATTTAGACCAAGATCATTTCTTTCCCTAGCCAT
Found at i:29512569 original size:13 final size:13
Alignment explanation
Indices: 29512551--29512575 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29512541 AAAATATGCA
29512551 AAACAAAACAAGT
1 AAACAAAACAAGT
29512564 AAACAAAACAAG
1 AAACAAAACAAG
29512576 AATGCCACGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.16, G:0.08, T:0.04
Consensus pattern (13 bp):
AAACAAAACAAGT
Found at i:29521859 original size:25 final size:25
Alignment explanation
Indices: 29521831--29521880 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
29521821 TAAAGGGGGC
29521831 TAAGGCATTTCGCATGAATTTTTAA
1 TAAGGCATTTCGCATGAATTTTTAA
*
29521856 TAAGGCATTTTGCATGAATTTTTAA
1 TAAGGCATTTCGCATGAATTTTTAA
29521881 AGTATGTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (25 bp):
TAAGGCATTTCGCATGAATTTTTAA
Found at i:29522959 original size:15 final size:16
Alignment explanation
Indices: 29522939--29522969 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29522929 TAAAAAAGTA
29522939 TTTTTGA-GCATGATT
1 TTTTTGATGCATGATT
29522954 TTTTTGATGCATGATT
1 TTTTTGATGCATGATT
29522970 ATGTGCGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.19, C:0.06, G:0.19, T:0.55
Consensus pattern (16 bp):
TTTTTGATGCATGATT
Found at i:29527801 original size:39 final size:39
Alignment explanation
Indices: 29527749--29527839 Score: 137
Period size: 39 Copynumber: 2.3 Consensus size: 39
29527739 ATATATCACA
* *
29527749 CACATTACACATATAATCACATAACATTAAAGCATATAG
1 CACAATACTCATATAATCACATAACATTAAAGCATATAG
* * *
29527788 CACAATACTCATATAATCACATAAGATTTAAGCATATAT
1 CACAATACTCATATAATCACATAACATTAAAGCATATAG
29527827 CACAATACTCATA
1 CACAATACTCATA
29527840 AATATGTTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.27
Consensus pattern (39 bp):
CACAATACTCATATAATCACATAACATTAAAGCATATAG
Found at i:29531692 original size:49 final size:50
Alignment explanation
Indices: 29531572--29531707 Score: 141
Period size: 49 Copynumber: 2.7 Consensus size: 50
29531562 TTATGAGAGG
* * *
29531572 TCCCATGTAAAACCATGTCTGGGACATGGCATGGGCACCAATATGAGAAC
1 TCCCATGTAAAACCATGTCTGGGACATGGCATTGGCACCAACAGGAGAAC
* * * * * **
29531622 TCCCATGTAAGACCGTATCTGGGATATGGCATTGGTA-GTACAGGA-AAC
1 TCCCATGTAAAACCATGTCTGGGACATGGCATTGGCACCAACAGGAGAAC
* *
29531670 ATCCCATGTAACACCATGTCTGGGACATGGCTTTGGCA
1 -TCCCATGTAAAACCATGTCTGGGACATGGCATTGGCA
29531708 TGTTATTATC
Statistics
Matches: 69, Mismatches: 16, Indels: 3
0.78 0.18 0.03
Matches are distributed among these distances:
48 3 0.04
49 35 0.51
50 31 0.45
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAAACCATGTCTGGGACATGGCATTGGCACCAACAGGAGAAC
Found at i:29542777 original size:46 final size:46
Alignment explanation
Indices: 29542708--29542829 Score: 145
Period size: 46 Copynumber: 2.7 Consensus size: 46
29542698 TTAATATTAT
* * *
29542708 GTATTCTCCTATCCGCAATATATGAAGGAGTTGCAAACCTAAATCC
1 GTATTCTCCAATCCGCAACATATGCAGGAGTTGCAAACCTAAATCC
* * ** *
29542754 GTATTCTCCAATCCACAACATATGCAGAAGTTGGGAACCTAAATTC
1 GTATTCTCCAATCCGCAACATATGCAGGAGTTGCAAACCTAAATCC
* **
29542800 TTATTCTCCAGCCCGCAACATATGCAGGAG
1 GTATTCTCCAATCCGCAACATATGCAGGAG
29542830 CTAGGAACCT
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 63 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (46 bp):
GTATTCTCCAATCCGCAACATATGCAGGAGTTGCAAACCTAAATCC
Found at i:29542837 original size:46 final size:46
Alignment explanation
Indices: 29542743--29542840 Score: 124
Period size: 46 Copynumber: 2.1 Consensus size: 46
29542733 AGGAGTTGCA
* * *
29542743 AACCTAAATCCGTATTCTCCAATCCACAACATATGCAGAAGTTGGG
1 AACCTAAATCCGTATTCTCCAACCCACAACATATGCAGAAGCTAGG
* * * * *
29542789 AACCTAAATTCTTATTCTCCAGCCCGCAACATATGCAGGAGCTAGG
1 AACCTAAATCCGTATTCTCCAACCCACAACATATGCAGAAGCTAGG
29542835 AACCTA
1 AACCTA
29542841 GGCAAGAACA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (46 bp):
AACCTAAATCCGTATTCTCCAACCCACAACATATGCAGAAGCTAGG
Found at i:29555681 original size:33 final size:33
Alignment explanation
Indices: 29555639--29555847 Score: 150
Period size: 33 Copynumber: 5.8 Consensus size: 33
29555629 ATATAAAGGG
29555639 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
29555672 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG--GT
* *
29555713 GAGTTGCTAAGTGCTGATTTCCCGACTCATTGGT
1 G-GTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
29555747 GGTTGCTAAGTGCTGA-TCCCAGCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCC--CG-A--TT-CAT-TG---GT
* *
29555789 GGTTGCTAAGTGTTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
29555822 GGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCC-CCGAT
29555848 AACGGATAAC
Statistics
Matches: 138, Mismatches: 17, Indels: 41
0.70 0.09 0.21
Matches are distributed among these distances:
32 3 0.02
33 54 0.39
34 11 0.08
35 2 0.01
36 4 0.03
37 7 0.05
38 6 0.04
39 4 0.03
40 2 0.01
41 7 0.05
42 34 0.25
43 4 0.03
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:29555757 original size:75 final size:75
Alignment explanation
Indices: 29555637--29555845 Score: 330
Period size: 75 Copynumber: 2.8 Consensus size: 75
29555627 GAATATAAAG
* *
29555637 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
1 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTT
29555702 AAATGTG-AA
66 AAATGTGAAA
* * * *
29555711 GGGAGTTGCTAAGTGCTGATTTCCCGACTCATTGGTGGTTGCTAAGTGCTGATCCCAGCGTATCT
1 GGG-GTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCT
29555776 TAAATGTGAAA
65 TAAATGTGAAA
* *
29555787 GGGGTTGCTAAGTGTTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGAATCCACCG
1 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCG
29555846 ATAACGGATA
Statistics
Matches: 122, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
74 3 0.02
75 114 0.93
76 5 0.04
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.33
Consensus pattern (75 bp):
GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTT
AAATGTGAAA
Found at i:29556787 original size:23 final size:23
Alignment explanation
Indices: 29556761--29556813 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
29556751 ATAAATGCCA
29556761 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
29556784 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
29556807 CACTGAT
1 CACTGAT
29556814 CAATAACACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:29557134 original size:40 final size:40
Alignment explanation
Indices: 29557089--29557167 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
29557079 TTTATAAAAA
29557089 TATATTGCTATTATTTACACATAACTTACCTCAGATGCAG
1 TATATTGCTATTATTTACACATAACTTACCTCAGATGCAG
*
29557129 TATATTGCTATTATTTACACATAACTTACCTCGGATGCA
1 TATATTGCTATTATTTACACATAACTTACCTCAGATGCA
29557168 AAACGACTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (40 bp):
TATATTGCTATTATTTACACATAACTTACCTCAGATGCAG
Found at i:29557704 original size:227 final size:227
Alignment explanation
Indices: 29557309--29557761 Score: 852
Period size: 227 Copynumber: 2.0 Consensus size: 227
29557299 CACAATATTT
29557309 TGGCAAACTTACATTTTTTTCCCATAACTTTTCAAAAATTCCACTTTTGTCCCAAAGCTCGTAAA
1 TGGCAAACTTACATTTTTTTCCCATAACTTTTCAAAAATTCCACTTTTGTCCCAAAGCTCGTAAA
*
29557374 AATAAAATTCACTAAATTCTTAAATTTCAAACTTCTCTAAATCATATTTCATAATCATAACAGCC
66 AATAAAATTCACTAAATTCTTAAATTTCAAACTTCACTAAATCATATTTCATAATCATAACAGCC
*
29557439 CTCAATTTCACAAAATCACAACTTTATGCTCACTTTACCATCTTTCACAATTTAGTCATTTTTGA
131 CTCAATTTCACAAAATCACAACTTTATGCTCACTTTACCATCTTTCACAATTTAGTCATTTTTCA
29557504 ACATTTTCATCGAAATTCATCTAGTAAAACTA
196 ACATTTTCATCGAAATTCATCTAGTAAAACTA
*
29557536 TGGCAAACTTACATTTTTTTCCCATAACTTTTTAAAAATTCCACTTTTGTCCCAAAGCTCGTAAA
1 TGGCAAACTTACATTTTTTTCCCATAACTTTTCAAAAATTCCACTTTTGTCCCAAAGCTCGTAAA
**
29557601 AATAAAATTCACTAAATTCTTAAATTTCAAACTTCACTAAATCATATTTCATGCTCATAACAGCC
66 AATAAAATTCACTAAATTCTTAAATTTCAAACTTCACTAAATCATATTTCATAATCATAACAGCC
*
29557666 CTCAATTTCACAAAATCACAACTTTATGCTCACTTTACCATCTTTCACAATTTAGTCCTTTTTCA
131 CTCAATTTCACAAAATCACAACTTTATGCTCACTTTACCATCTTTCACAATTTAGTCATTTTTCA
29557731 ACATTTTCATCGAAATTCATCTAGTAAAACT
196 ACATTTTCATCGAAATTCATCTAGTAAAACT
29557762 TGTAATTAAC
Statistics
Matches: 220, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
227 220 1.00
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (227 bp):
TGGCAAACTTACATTTTTTTCCCATAACTTTTCAAAAATTCCACTTTTGTCCCAAAGCTCGTAAA
AATAAAATTCACTAAATTCTTAAATTTCAAACTTCACTAAATCATATTTCATAATCATAACAGCC
CTCAATTTCACAAAATCACAACTTTATGCTCACTTTACCATCTTTCACAATTTAGTCATTTTTCA
ACATTTTCATCGAAATTCATCTAGTAAAACTA
Found at i:29563802 original size:46 final size:46
Alignment explanation
Indices: 29563733--29563854 Score: 145
Period size: 46 Copynumber: 2.7 Consensus size: 46
29563723 TTAATATTAT
* * *
29563733 GTATTCTCCTATCCGCAATATATGAAGGAGTTGCAAACCTAAATCC
1 GTATTCTCCAATCCGCAACATATGCAGGAGTTGCAAACCTAAATCC
* * ** *
29563779 GTATTCTCCAATCCACAACATATGCAGAAGTTGGGAACCTAAATTC
1 GTATTCTCCAATCCGCAACATATGCAGGAGTTGCAAACCTAAATCC
* **
29563825 TTATTCTCCAGCCCGCAACATATGCAGGAG
1 GTATTCTCCAATCCGCAACATATGCAGGAG
29563855 CTAGGAACCT
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 63 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (46 bp):
GTATTCTCCAATCCGCAACATATGCAGGAGTTGCAAACCTAAATCC
Found at i:29563862 original size:46 final size:46
Alignment explanation
Indices: 29563768--29563865 Score: 124
Period size: 46 Copynumber: 2.1 Consensus size: 46
29563758 AGGAGTTGCA
* * *
29563768 AACCTAAATCCGTATTCTCCAATCCACAACATATGCAGAAGTTGGG
1 AACCTAAATCCGTATTCTCCAACCCACAACATATGCAGAAGCTAGG
* * * * *
29563814 AACCTAAATTCTTATTCTCCAGCCCGCAACATATGCAGGAGCTAGG
1 AACCTAAATCCGTATTCTCCAACCCACAACATATGCAGAAGCTAGG
29563860 AACCTA
1 AACCTA
29563866 GGCAAGAACA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (46 bp):
AACCTAAATCCGTATTCTCCAACCCACAACATATGCAGAAGCTAGG
Found at i:29566133 original size:21 final size:21
Alignment explanation
Indices: 29566109--29566151 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
29566099 TGGTTTGTTA
29566109 GACAAATGAAGTTAGACAAAT
1 GACAAATGAAGTTAGACAAAT
29566130 GACAAATGAAGTTAGACAAAT
1 GACAAATGAAGTTAGACAAAT
29566151 G
1 G
29566152 TATGTATGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.09, G:0.21, T:0.19
Consensus pattern (21 bp):
GACAAATGAAGTTAGACAAAT
Found at i:29566151 original size:14 final size:14
Alignment explanation
Indices: 29566105--29566131 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29566095 GTTTTGGTTT
29566105 GTTAGACAAATGAA
1 GTTAGACAAATGAA
29566119 GTTAGACAAATGA
1 GTTAGACAAATGA
29566132 CAAATGAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.22, T:0.22
Consensus pattern (14 bp):
GTTAGACAAATGAA
Found at i:29566661 original size:31 final size:32
Alignment explanation
Indices: 29566605--29566667 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
29566595 AAATTACAAG
29566605 AGTAATTGAATCCTAATAAAAACTCTTTAAAA
1 AGTAATTGAATCCTAATAAAAACTCTTTAAAA
29566637 AGTAATTGAATCCTAAT-AAAACTCTTTAAAA
1 AGTAATTGAATCCTAATAAAAACTCTTTAAAA
29566668 TTATCTAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 14 0.45
32 17 0.55
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (32 bp):
AGTAATTGAATCCTAATAAAAACTCTTTAAAA
Found at i:29572857 original size:31 final size:32
Alignment explanation
Indices: 29572801--29572862 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
29572791 AAATTACAAT
29572801 AGTAATTGAATCCTAATAAAAACTCTTTAAAG
1 AGTAATTGAATCCTAATAAAAACTCTTTAAAG
29572833 AGTAATTGAATCCTAAT-AAAACTCTTTAAA
1 AGTAATTGAATCCTAATAAAAACTCTTTAAA
29572863 ATTATCTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (32 bp):
AGTAATTGAATCCTAATAAAAACTCTTTAAAG
Found at i:29575373 original size:64 final size:64
Alignment explanation
Indices: 29575295--29575421 Score: 209
Period size: 64 Copynumber: 2.0 Consensus size: 64
29575285 TAACTTTAAA
* *
29575295 TAAACATAAAACATTAACTCAATTTAAATCCGATTCAATTCAATTGATAAATATTTTCTTTTTC
1 TAAACATAAAACATTAACTCAATTTAAATCCGATTCAATTCAATTGACAAACATTTTCTTTTTC
* * *
29575359 TAAACATAAAACATTAATTCAATTTAAATCCGATTCTATTCAGTTGACAAACATTTTCTTTTT
1 TAAACATAAAACATTAACTCAATTTAAATCCGATTCAATTCAATTGACAAACATTTTCTTTTT
29575422 GTTAACTTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (64 bp):
TAAACATAAAACATTAACTCAATTTAAATCCGATTCAATTCAATTGACAAACATTTTCTTTTTC
Found at i:29576622 original size:125 final size:126
Alignment explanation
Indices: 29576255--29576668 Score: 659
Period size: 126 Copynumber: 3.3 Consensus size: 126
29576245 TAATTTAAAA
* * * * *
29576255 AAGCTCTCACGTGGACGCTCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTTGAGAAGACGTTT
1 AAGCTCCCACATGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTT
* *
29576320 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTTAGCAAAAGTACTGAAAG
66 CTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAG
* *
29576381 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
1 AAGCTCCCACATGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTT
*
29576446 CTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAATG
66 CTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAG
* *
29576507 AAGCTCCCACATGGACACGCTTTTGCTACAGTAGCTCCTG-AAAAATAATTTCGAGCAGACGTTT
1 AAGCTCCCACATGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTT
* * * * *
29576571 CTAAGCAAATAGTGTCAAAAACACTTAAAGCCGGATGCTTTGACAGTAAAAGTACTGAAAG
66 CTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAG
*
29576632 AAGCTCCCACATGGACGCGCTTTTGCTACAGTGGCTC
1 AAGCTCCCACATGGACGCGCTTTTGCTACAGTAGCTC
29576669 ATGTTTGGCC
Statistics
Matches: 269, Mismatches: 19, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
125 113 0.42
126 156 0.58
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (126 bp):
AAGCTCCCACATGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTT
CTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAG
Found at i:29579851 original size:116 final size:116
Alignment explanation
Indices: 29579647--29579857 Score: 314
Period size: 116 Copynumber: 1.8 Consensus size: 116
29579637 GTATTATTTA
* * *
29579647 TATTTTTTTAAATCAAATAATATGGAAATATTCAGAATATTGACTTATTTAAAAGAAAATCTATT
1 TATTTTATTAAATCAAATAATATAGAAATATTCAAAATATTGACTTATTTAAAAGAAAATCTATT
* *
29579712 TTATTAAAAATATTAAAGTAAATTACAATTACTTTATTCAAAAAAATGTTT
66 ATATTAAAAATATAAAAGTAAATTACAATTACTTTATTCAAAAAAATGTTT
* ** **
29579763 TATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTGTGTTATTTAAAAGAATTTCTATT
1 TATTTTATTAAATCAAATAATATAGAAATATTCAAAATATTGACTTATTTAAAAGAAAATCTATT
* *
29579828 ATATTAAAAATGTAAAAGTAAATTTCAATT
66 ATATTAAAAATATAAAAGTAAATTACAATT
29579858 TTATTACATG
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
116 83 1.00
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (116 bp):
TATTTTATTAAATCAAATAATATAGAAATATTCAAAATATTGACTTATTTAAAAGAAAATCTATT
ATATTAAAAATATAAAAGTAAATTACAATTACTTTATTCAAAAAAATGTTT
Found at i:29580089 original size:21 final size:21
Alignment explanation
Indices: 29580046--29580092 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
29580036 GCGGGGGTTG
* ** *
29580046 TGGTTGCTCCGATGGGGATTC
1 TGGTTCCTCCGATAAGGAATC
29580067 TGGTTCCTCCGATAAGGAATC
1 TGGTTCCTCCGATAAGGAATC
29580088 TGGTT
1 TGGTT
29580093 GTCGGTGTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.19, G:0.32, T:0.34
Consensus pattern (21 bp):
TGGTTCCTCCGATAAGGAATC
Found at i:29581006 original size:7 final size:7
Alignment explanation
Indices: 29580996--29581021 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
29580986 CATAATACAT
29580996 AATACTA
1 AATACTA
29581003 AATACTA
1 AATACTA
29581010 AATACTA
1 AATACTA
29581017 AATAC
1 AATAC
29581022 CAATCGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:29586852 original size:84 final size:84
Alignment explanation
Indices: 29586711--29587163 Score: 906
Period size: 84 Copynumber: 5.4 Consensus size: 84
29586701 CTAGGTACGC
29586711 TTCCTAAGGCATCGATACCTCATAGAAAAATTTAAGGTTCAATGTTTTGAAAATTAAAGAAAAAT
1 TTCCTAAGGCATCGATACCTCATAGAAAAATTTAAGGTTCAATGTTTTGAAAATTAAAGAAAAAT
29586776 AATCAAAGTATCGATACCT
66 AATCAAAGTATCGATACCT
29586795 TTCCTAAGGCATCGATACCTCATAGAAAAATTTAAGGTTCAATGTTTTGAAAATTAAAGAAAAAT
1 TTCCTAAGGCATCGATACCTCATAGAAAAATTTAAGGTTCAATGTTTTGAAAATTAAAGAAAAAT
29586860 AATCAAAGTATCGATACCT
66 AATCAAAGTATCGATACCT
29586879 TTCCTAAGGCATCGATACCTCATAGAAAAATTTAAGGTTCAATGTTTTGAAAATTAAAGAAAAAT
1 TTCCTAAGGCATCGATACCTCATAGAAAAATTTAAGGTTCAATGTTTTGAAAATTAAAGAAAAAT
29586944 AATCAAAGTATCGATACCT
66 AATCAAAGTATCGATACCT
29586963 TTCCTAAGGCATCGATACCTCATAGAAAAATTTAAGGTTCAATGTTTTGAAAATTAAAGAAAAAT
1 TTCCTAAGGCATCGATACCTCATAGAAAAATTTAAGGTTCAATGTTTTGAAAATTAAAGAAAAAT
29587028 AATCAAAGTATCGATACCT
66 AATCAAAGTATCGATACCT
29587047 TTCCTAAGGCATCGATACCTCATAGAAAAATTTAAGGTTCAATGTTTTGAAAATTAAAGAAAAAT
1 TTCCTAAGGCATCGATACCTCATAGAAAAATTTAAGGTTCAATGTTTTGAAAATTAAAGAAAAAT
29587112 AATCAAAGTATCGATACCT
66 AATCAAAGTATCGATACCT
29587131 TTCCTAAGGCATCGATACCTCATAGAAAAATTT
1 TTCCTAAGGCATCGATACCTCATAGAAAAATTT
29587164 CAGAATTTGC
Statistics
Matches: 369, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 369 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (84 bp):
TTCCTAAGGCATCGATACCTCATAGAAAAATTTAAGGTTCAATGTTTTGAAAATTAAAGAAAAAT
AATCAAAGTATCGATACCT
Found at i:29592159 original size:68 final size:68
Alignment explanation
Indices: 29592085--29592259 Score: 269
Period size: 68 Copynumber: 2.6 Consensus size: 68
29592075 ATAGCCCAGT
* *
29592085 TATGGTCTTACACATTATGATGTCATGTTTACTATCTTGTCGGACTGCATATGTTGTCATAGACC
1 TATGGTCTTACACATTATGATGTCATGTTTACTATCTTGACGGACTGCATATGTTGCCATAGACC
29592150 AAC
66 AAC
* * * *
29592153 TATGGTCTTACACATTATGATGTCATGTTTACTGTCCTGACGGACTTCATATGTTGCCATAGCCC
1 TATGGTCTTACACATTATGATGTCATGTTTACTATCTTGACGGACTGCATATGTTGCCATAGACC
*
29592218 GAC
66 AAC
* *
29592221 TATAGTCTTACACATTATGATGTCATTTTTACTATCTTG
1 TATGGTCTTACACATTATGATGTCATGTTTACTATCTTG
29592260 GAGGACTTCC
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 96 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (68 bp):
TATGGTCTTACACATTATGATGTCATGTTTACTATCTTGACGGACTGCATATGTTGCCATAGACC
AAC
Found at i:29592266 original size:68 final size:67
Alignment explanation
Indices: 29592072--29592268 Score: 261
Period size: 68 Copynumber: 2.9 Consensus size: 67
29592062 TTCATATACG
* ** *
29592072 GCCATAGCCCAGTTATGGTCTTACACATTATGATGTCATGTTTACTATCTTGTCGGACTGCATAT
1 GCCATAGCCCA-CTATGGTCTTACACATTATGATGTCATGTTTACTATCTTGGAGGACTTCATAT
29592137 GTT
65 GTT
* * * *
29592140 GTCATAGACCAACTATGGTCTTACACATTATGATGTCATGTTTACTGTCCT-GACGGACTTCATA
1 GCCATAG-CCCACTATGGTCTTACACATTATGATGTCATGTTTACTATCTTGGA-GGACTTCATA
29592204 TGTT
64 TGTT
* *
29592208 GCCATAGCCCGACTATAGTCTTACACATTATGATGTCATTTTTACTATCTTGGAGGACTTC
1 GCCATAGCCC-ACTATGGTCTTACACATTATGATGTCATGTTTACTATCTTGGAGGACTTC
29592269 CAATTCTGAG
Statistics
Matches: 111, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
67 2 0.02
68 104 0.94
69 5 0.05
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (67 bp):
GCCATAGCCCACTATGGTCTTACACATTATGATGTCATGTTTACTATCTTGGAGGACTTCATATG
TT
Found at i:29593954 original size:3 final size:3
Alignment explanation
Indices: 29593948--29593980 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
29593938 GAGAGAAATG
*
29593948 AGA AGA AG- AGA AGG AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
29593981 AGAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:29594220 original size:19 final size:19
Alignment explanation
Indices: 29594172--29594229 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
29594162 TTTAAATTTT
* *
29594172 TTGTATGAATATTATAATTTT
1 TTGTATGAATATTGTAA--TG
*
29594193 TTTTATGAATATTGTAATG
1 TTGTATGAATATTGTAATG
29594212 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
29594230 TATTTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 18 0.55
21 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
TTGTATGAATATTGTAATG
Found at i:29594336 original size:49 final size:49
Alignment explanation
Indices: 29594283--29594658 Score: 478
Period size: 49 Copynumber: 7.7 Consensus size: 49
29594273 TTTTTGTATG
* * *
29594283 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
* * *
29594332 AATATTATAGTTTTGCATGAATATTGCAATTTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGTAA-TTTTTTTGTATGAATATTGT
* * * *
29594382 AATTTTGTAATTTTGTATGAATATTAT-ATTTTTTTGTATGAATGTTGT
1 AATATTATAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
*
29594430 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
* * * *
29594479 AATTTTGTAATTTTGTATGAATATTAT-ATTTTTTTGTATGAATGTTGT
1 AATATTATAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
*
29594527 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
* * *
29594576 AATTTTGTAATTTTGTATGAATATTGTAA----TGTG-ATGATATATTGT
1 AATATTATAATTTTGTATGAATATTGTAATTTTTTTGTATGA-ATATTGT
* *
29594621 AATATTATAATTTTTTGTATGAATATTGTGATTATTTT
1 AATATTATAA--TTTTGTATGAATATTGTAATTTTTTT
29594659 ATAATTAATT
Statistics
Matches: 281, Mismatches: 36, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
44 4 0.01
45 18 0.06
47 18 0.06
48 85 0.30
49 114 0.41
50 40 0.14
51 2 0.01
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.55
Consensus pattern (49 bp):
AATATTATAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
Found at i:29594351 original size:27 final size:25
Alignment explanation
Indices: 29594283--29594605 Score: 297
Period size: 27 Copynumber: 13.1 Consensus size: 25
29594273 TTTTTGTATG
*
29594283 AATATTGTAATTTTGTATGAATATTAT
1 AATATT-T-ATTTTGTATGAATATTGT
29594310 AA-A-TT-TTTTGTATGAATATTGT
1 AATATTTATTTTGTATGAATATTGT
* *
29594332 AATATTATAGTTTTGCATGAATATTGC
1 AATATT-TA-TTTTGTATGAATATTGT
29594359 AAT-TTT-TTTTGTATGAATATTGT
1 AATATTTATTTTGTATGAATATTGT
*
29594382 AATTTTGTAATTTTGTATGAATA-T-T
1 AATATT-T-ATTTTGTATGAATATTGT
*
29594407 -ATATTT-TTTTGTATGAATGTTGT
1 AATATTTATTTTGTATGAATATTGT
29594430 AATATTATAATTTTGTATGAATATTG-
1 AATATT-T-ATTTTGTATGAATATTGT
*
29594456 CA-ATTT-TTTTGTATGAATATTGT
1 AATATTTATTTTGTATGAATATTGT
*
29594479 AATTTTGTAATTTTGTATGAATA-T-T
1 AATATT-T-ATTTTGTATGAATATTGT
*
29594504 -ATATTT-TTTTGTATGAATGTTGT
1 AATATTTATTTTGTATGAATATTGT
29594527 AATATTATAATTTTGTATGAATATTG-
1 AATATT-T-ATTTTGTATGAATATTGT
*
29594553 CA-ATTT-TTTTGTATGAATATTGT
1 AATATTTATTTTGTATGAATATTGT
*
29594576 AATTTTGTAATTTTGTATGAATATTGT
1 AATATT-T-ATTTTGTATGAATATTGT
29594603 AAT
1 AAT
29594606 GTGATGATAT
Statistics
Matches: 248, Mismatches: 17, Indels: 62
0.76 0.05 0.19
Matches are distributed among these distances:
21 24 0.10
22 52 0.21
23 25 0.10
24 28 0.11
25 16 0.06
26 7 0.03
27 96 0.39
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.54
Consensus pattern (25 bp):
AATATTTATTTTGTATGAATATTGT
Found at i:29594488 original size:97 final size:97
Alignment explanation
Indices: 29594287--29594648 Score: 579
Period size: 97 Copynumber: 3.7 Consensus size: 97
29594277 TGTATGAATA
* * *
29594287 TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAGTTTTGCATGA
1 TTGTAATTTTGTATGAATATTAT-ATTTTTTTGTATGAATATTGTAATATTATAATTTTGTATGA
29594352 ATATTGCAATTTTTTTTGTATGAATATTGTAATT
65 ATATTGCAA-TTTTTTTGTATGAATATTGTAATT
*
29594386 TTGTAATTTTGTATGAATATTATATTTTTTTGTATGAATGTTGTAATATTATAATTTTGTATGAA
1 TTGTAATTTTGTATGAATATTATATTTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAA
29594451 TATTGCAATTTTTTTGTATGAATATTGTAATT
66 TATTGCAATTTTTTTGTATGAATATTGTAATT
*
29594483 TTGTAATTTTGTATGAATATTATATTTTTTTGTATGAATGTTGTAATATTATAATTTTGTATGAA
1 TTGTAATTTTGTATGAATATTATATTTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAA
29594548 TATTGCAATTTTTTTGTATGAATATTGTAATT
66 TATTGCAATTTTTTTGTATGAATATTGTAATT
* * *
29594580 TTGTAATTTTGTATGAATATTGTA---ATGTG-ATGATATATTGTAATATTATAATTTTTTGTAT
1 TTGTAATTTTGTATGAATATTATATTTTTTTGTATGA-ATATTGTAATATTATAA--TTTTGTAT
29594641 GAATATTG
63 GAATATTG
29594649 TGATTATTTT
Statistics
Matches: 252, Mismatches: 8, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
93 4 0.02
94 19 0.08
96 16 0.06
97 144 0.57
98 46 0.18
99 23 0.09
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (97 bp):
TTGTAATTTTGTATGAATATTATATTTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAA
TATTGCAATTTTTTTGTATGAATATTGTAATT
Found at i:29594854 original size:38 final size:39
Alignment explanation
Indices: 29594801--29594875 Score: 134
Period size: 38 Copynumber: 1.9 Consensus size: 39
29594791 CATATAAAGT
29594801 TTATAAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
*
29594840 TTAT-AAAAAAATTAAAAATCATTTTATTAAAAGTTT
1 TTATAAAAAAAATTAAAAATCATTTCATTAAAAGTTT
29594876 GGGTTTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 31 0.89
39 4 0.11
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.39
Consensus pattern (39 bp):
TTATAAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:29595028 original size:15 final size:15
Alignment explanation
Indices: 29594987--29595028 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
29594977 GTTAACTTAT
*
29594987 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
29595002 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
29595018 TTAAATTTTAT
1 TTAAATTTTAT
29595029 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:29596663 original size:6 final size:6
Alignment explanation
Indices: 29596652--29596681 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
29596642 GCATCATGCA
*
29596652 CCAGAG CCAGAG CCAGAG CCACAG CCAGAG
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
29596682 AGAGAGGCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.33, C:0.37, G:0.30, T:0.00
Consensus pattern (6 bp):
CCAGAG
Found at i:29600050 original size:22 final size:21
Alignment explanation
Indices: 29600015--29600059 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
29600005 TACCTAATTT
*
29600015 TTTTCTTCTTTTCCTTCCTTC
1 TTTTCTTCTCTTCCTTCCTTC
29600036 TTTTCTTCTGCTTCCTTCCTTC
1 TTTTCTTCT-CTTCCTTCCTTC
29600058 TT
1 TT
29600060 CTTTCTTCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTCTTCTCTTCCTTCCTTC
Found at i:29600067 original size:18 final size:18
Alignment explanation
Indices: 29600017--29600068 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 18
29600007 CCTAATTTTT
29600017 TTCTTC-TT-TTCCTTCC
1 TTCTTCTTTCTTCCTTCC
29600033 TTCTTTTCTTCTGCTTCCTTCC
1 TTC--TTCTT-T-CTTCCTTCC
29600055 TTCTTCTTTCTTCC
1 TTCTTCTTTCTTCC
29600069 GTTTTTGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
16 3 0.10
18 8 0.27
19 2 0.07
20 6 0.20
22 11 0.37
ACGTcount: A:0.00, C:0.37, G:0.02, T:0.62
Consensus pattern (18 bp):
TTCTTCTTTCTTCCTTCC
Found at i:29600163 original size:27 final size:27
Alignment explanation
Indices: 29600125--29600227 Score: 163
Period size: 27 Copynumber: 3.8 Consensus size: 27
29600115 AAAATCACAG
*
29600125 CATTGGCGCCT-CCTAATATGGCACCAC
1 CATTGGCGCCTCCCAAATA-GGCACCAC
29600152 CATTGGCGCCTCCCAAATAGGCACCAC
1 CATTGGCGCCTCCCAAATAGGCACCAC
29600179 CATTGGCGCCTCCCAAATAGGCACCAC
1 CATTGGCGCCTCCCAAATAGGCACCAC
* *
29600206 CATTGGCGCCTTCCAGATAGGC
1 CATTGGCGCCTCCCAAATAGGC
29600228 GCCAATACTA
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
27 66 0.92
28 6 0.08
ACGTcount: A:0.23, C:0.38, G:0.20, T:0.18
Consensus pattern (27 bp):
CATTGGCGCCTCCCAAATAGGCACCAC
Found at i:29616458 original size:28 final size:28
Alignment explanation
Indices: 29616424--29616513 Score: 112
Period size: 28 Copynumber: 3.2 Consensus size: 28
29616414 AAAGCACCTT
*
29616424 TTTAACATAATTTGCCAC-AGGACATTCC
1 TTTAACAGAATTTGCCACAAGG-CATTCC
*
29616452 TTTAACAGAGA-TAGCCACAAAGGCATTCC
1 TTTAACAGA-ATTTGCCAC-AAGGCATTCC
*
29616481 TTTAACAGAATTTGCCACTAGGCATTCC
1 TTTAACAGAATTTGCCACAAGGCATTCC
29616509 TTTAA
1 TTTAA
29616514 TAGAGATAGC
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
28 29 0.54
29 22 0.41
30 3 0.06
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (28 bp):
TTTAACAGAATTTGCCACAAGGCATTCC
Found at i:29616486 original size:29 final size:29
Alignment explanation
Indices: 29616446--29616847 Score: 373
Period size: 29 Copynumber: 14.0 Consensus size: 29
29616436 TGCCACAGGA
29616446 CATTCCTTTAACAGAGATAGCCACAAAGG
1 CATTCCTTTAACAGAGATAGCCACAAAGG
* *
29616475 CATTCCTTTAACAGA-ATTTGCCAC-TAGG
1 CATTCCTTTAACAGAGA-TAGCCACAAAGG
* *
29616503 CATTCCTTTAATAGAGATAGCCAGAAA-G
1 CATTCCTTTAACAGAGATAGCCACAAAGG
* * * *
29616531 AAATCCTTTTAACTA-AGATAGCCATAAAGA
1 CATTCC-TTTAAC-AGAGATAGCCACAAAGG
29616561 CATTCCTTTAACAGAGATAGCCACAAAGG
1 CATTCCTTTAACAGAGATAGCCACAAAGG
* * **
29616590 TATTCCTTTAACAGAGATAACCACAAACA
1 CATTCCTTTAACAGAGATAGCCACAAAGG
* * *
29616619 TATTCCTTTAACAAATATAGCCACAAAGG
1 CATTCCTTTAACAGAGATAGCCACAAAGG
*
29616648 CATTCTTTTAACAGAGATAGCCACAAAGG
1 CATTCCTTTAACAGAGATAGCCACAAAGG
* * *
29616677 TA-TCCTTTTAACAAAGATA-CACACAAAGA
1 CATTCC-TTTAACAGAGATAGC-CACAAAGG
29616706 CA-TCCTTTTAACAGAGATAGCCACAAAGG
1 CATTCC-TTTAACAGAGATAGCCACAAAGG
* *
29616735 C-TTTCTTATAATAGAGATAGCCACAAAGG
1 CATTCCTT-TAACAGAGATAGCCACAAAGG
*
29616764 C-TTCCATTTAACAGAGATCGCCACAAAGG
1 CATTCC-TTTAACAGAGATAGCCACAAAGG
* **
29616793 C-TTCCATTTAACAAAGATCA-CTGCAAAGG
1 CATTCC-TTTAACAGAGAT-AGCCACAAAGG
* *
29616822 C-TTCCTTT--TAGAGATAGCCAAAAAGG
1 CATTCCTTTAACAGAGATAGCCACAAAGG
29616848 GTCACTTATA
Statistics
Matches: 309, Mismatches: 49, Indels: 33
0.79 0.13 0.08
Matches are distributed among these distances:
25 1 0.00
26 11 0.04
28 37 0.12
29 252 0.82
30 8 0.03
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (29 bp):
CATTCCTTTAACAGAGATAGCCACAAAGG
Found at i:29619743 original size:41 final size:42
Alignment explanation
Indices: 29619686--29619794 Score: 166
Period size: 41 Copynumber: 2.6 Consensus size: 42
29619676 TTTTGAATGT
29619686 AAGGGGTTGCTAAGTGCAGATTCCCCAAATCACTGATCAA-A
1 AAGGGGTTGCTAAGTGCAGATTCCCCAAATCACTGATCAAGA
* * *
29619727 AAGGGGCTGCTAAGTGCAGATTCCCCGAATCATTGATCAAGA
1 AAGGGGTTGCTAAGTGCAGATTCCCCAAATCACTGATCAAGA
* *
29619769 AAGGGGTTGCCAAGTGCTGATTCCCC
1 AAGGGGTTGCTAAGTGCAGATTCCCC
29619795 GAATTTTTGA
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 37 0.61
42 24 0.39
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (42 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCAAATCACTGATCAAGA
Found at i:29619785 original size:42 final size:42
Alignment explanation
Indices: 29619686--29619885 Score: 197
Period size: 42 Copynumber: 4.8 Consensus size: 42
29619676 TTTTGAATGT
* *
29619686 AAGGGGTTGCTAAGTGCAGATTCCCCAAATCACTGATCAA-A
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCAAGA
*
29619727 AAGGGGCTGCTAAGTGCAGATTCCCCGAATCATTGATCAAGA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCAAGA
* * ** * *
29619769 AAGGGGTTGCCAAGTGCTGATTCCCCGAATTTTTGAT-TATA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCAAGA
** * ***
29619810 AAGGTGGTTGCTAAGTGTTGATTCCACCGTATCATTGATTGTGA
1 AAGG-GGTTGCTAAGTGCAGATTCC-CCGAATCATTGATCAAGA
** * *
29619854 AAGGGGTTGCTATTTGCTGATTCCCCGTATCA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCA
29619886 CTGAATATAA
Statistics
Matches: 134, Mismatches: 21, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
41 43 0.32
42 59 0.44
43 27 0.20
44 5 0.04
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (42 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCAAGA
Found at i:29619861 original size:85 final size:85
Alignment explanation
Indices: 29619686--29619924 Score: 277
Period size: 85 Copynumber: 2.8 Consensus size: 85
29619676 TTTTGAATGT
* * * * * *
29619686 AAGGGGTTGCTAAGTGCAGATTCCCCAAATCACTGATCAAAAAGG-GGCTGCTAAGTGCAGATTC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGATTATAAAGGTGGTTGCTAAGTGCTGATTC
*
29619750 C-CCGAATCATTGATCAAGA
66 CACCGTATCATTGATCAAGA
* *** *
29619769 AAGGGGTTGCCAAGTGCTGATTCCCCGAATTTTTGATTATAAAGGTGGTTGCTAAGTGTTGATTC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGATTATAAAGGTGGTTGCTAAGTGCTGATTC
***
29619834 CACCGTATCATTGATTGTGA
66 CACCGTATCATTGATCAAGA
** * *
29619854 AAGGGGTTGCTATTTGCTGATTCCCCGTATCACTGAATAT-AAGGTTGGTTGCTAAGTGCTGATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGATTATAAAGG-TGGTTGCTAAGTGCTGATT
29619918 CCACCGT
65 CCACCGT
29619925 GTAACGGTTG
Statistics
Matches: 129, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
83 37 0.29
84 21 0.16
85 71 0.55
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (85 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGATTATAAAGGTGGTTGCTAAGTGCTGATTC
CACCGTATCATTGATCAAGA
Found at i:29622613 original size:15 final size:15
Alignment explanation
Indices: 29622593--29622622 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
29622583 ATCATTACCA
*
29622593 TTCATACCAAGATTT
1 TTCATACCAAAATTT
29622608 TTCATACCAAAATTT
1 TTCATACCAAAATTT
29622623 GCTCATACAA
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:0.20, G:0.03, T:0.40
Consensus pattern (15 bp):
TTCATACCAAAATTT
Found at i:29626459 original size:44 final size:43
Alignment explanation
Indices: 29626391--29626480 Score: 144
Period size: 44 Copynumber: 2.1 Consensus size: 43
29626381 GAAACCAATC
* *
29626391 ATAACCATGCATATTGTTCCTAATACGAGCCCTCGATGTCCAAA
1 ATAACCATGCATATTATTCCTAATACGAG-CCTCGATGCCCAAA
*
29626435 ATAATCATGCATATTATTCCTAATACGAGCCTCGATGCCCAAA
1 ATAACCATGCATATTATTCCTAATACGAGCCTCGATGCCCAAA
29626478 ATA
1 ATA
29626481 CACCTTAGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
43 16 0.37
44 27 0.63
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (43 bp):
ATAACCATGCATATTATTCCTAATACGAGCCTCGATGCCCAAA
Found at i:29637600 original size:20 final size:21
Alignment explanation
Indices: 29637561--29637602 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
29637551 TTTTATGGCT
29637561 ATTAAAATATTTATAGAAAAC
1 ATTAAAATATTTATAGAAAAC
29637582 ATTAAAA-ATTTATTA-AAAAC
1 ATTAAAATATTTA-TAGAAAAC
29637602 A
1 A
29637603 AATCAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (21 bp):
ATTAAAATATTTATAGAAAAC
Found at i:29638554 original size:50 final size:50
Alignment explanation
Indices: 29638459--29638594 Score: 155
Period size: 50 Copynumber: 2.7 Consensus size: 50
29638449 TGAGGTTATG
* *** *
29638459 AGAGGTCCCATGTAAGACCATGACTGGGACATGGCGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACGGGAACCGAGATA
** * *
29638509 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCACGGGAACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACGGGAACCGAGATA
** * *
29638559 AGAACTCCCATGTAAGACCATATCTGGGATATGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA
29638595 TTGGCAGTAC
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.18
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCACGGGAACCGAGATA
Done.