Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 151 of 235
Found at i:50717407 original size:39 final size:40
Alignment explanation
Indices: 50717312--50717534 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
50717302 TTGAATGATG
*
50717312 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
50717350 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
50717391 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
50717430 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
50717469 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
50717508 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
50717535 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:50717498 original size:79 final size:81
Alignment explanation
Indices: 50717312--50717534 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
50717302 TTGAATGATG
* * *
50717312 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
50717373 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
50717391 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
50717453 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
50717469 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
50717533 TG
66 TG
50717535 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:50717556 original size:79 final size:79
Alignment explanation
Indices: 50717312--50717567 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
50717302 TTGAATGATG
* * * *
50717312 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
50717373 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
50717391 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
50717455 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
50717469 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
50717533 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
50717549 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
50717568 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:50725436 original size:79 final size:81
Alignment explanation
Indices: 50725300--50725484 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
50725290 TTGAATGATG
*
50725300 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
50725364 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
50725379 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
50725441 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
50725459 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
50725485 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:50725498 original size:40 final size:40
Alignment explanation
Indices: 50725301--50725484 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
50725291 TGAATGATGT
* * * *
50725301 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
50725341 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
50725381 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
50725419 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
50725460 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
50725485 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:50725506 original size:79 final size:79
Alignment explanation
Indices: 50725353--50725517 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
50725343 GGACTAAGAT
* **
50725353 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
50725418 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
50725432 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
50725495 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
50725511 CCGAAGG
1 CCGAAGG
50725518 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:50728703 original size:46 final size:46
Alignment explanation
Indices: 50728652--50728820 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 46
50728642 ATCTCATACT
*
50728652 CGATGCATGTCCCAGACATGTCTTACACTGGCT-TACG-ACCCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CGTA-CCAAGGC
* * * *
50728698 TGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTATCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTACCAAGGC
* ****
50728744 CGATGCCATGTCCCAGACATGATCTTACACTGGCTCTCATAATGTGGC
1 CGATG-CATGTCCCAGACATG-TCTTACACTGGCTCTCGTACCAAGGC
**
50728792 CGATGCATGTCCTTGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
50728821 AGCCACCAAT
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
46 50 0.48
47 30 0.29
48 24 0.23
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTACCAAGGC
Found at i:50728810 original size:94 final size:92
Alignment explanation
Indices: 50728604--50728823 Score: 239
Period size: 94 Copynumber: 2.3 Consensus size: 92
50728594 GGTAAGGTGT
* * * * * *
50728604 CGATGCCATGTCCCAGACATGGTCTTACACGAACTATCATCTC-ATACTCGATGCATGTCCCAGA
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTATCAATGC-CGATGCATGTCCCAGA
**
50728668 CATGTCTTACACTGGCTTACGACCCGAGGC
63 CATGTCTTACACTGGCTTACGAAACGAGGC
*
50728698 TGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTATCAATGCCGATGCCATGTCCCAGACA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTATCAATGCCGATG-CATGTCCCAGACA
* *
50728763 TGATCTTACACTGGCTCT-C-ATAATGTGGC
65 TG-TCTTACACTGGCT-TACGA-AACGAGGC
**
50728792 CGATGCATGTCCTTGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
50728824 CACCAATAAC
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
92 22 0.21
93 33 0.31
94 51 0.48
95 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTATCAATGCCGATGCATGTCCCAGACAT
GTCTTACACTGGCTTACGAAACGAGGC
Found at i:50730876 original size:28 final size:27
Alignment explanation
Indices: 50730819--50730970 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
50730809 TAAATTGTGC
*
50730819 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
50730846 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
50730874 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
50730901 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
50730929 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
50730956 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
50730971 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:50730884 original size:55 final size:55
Alignment explanation
Indices: 50730819--50730970 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
50730809 TAAATTGTGC
*
50730819 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
50730874 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
50730929 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
50730971 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:50738081 original size:16 final size:16
Alignment explanation
Indices: 50738060--50738092 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
50738050 TCTATAAAAA
50738060 AATTTAACTCATTAAT
1 AATTTAACTCATTAAT
50738076 AATTTAACTCATTAAT
1 AATTTAACTCATTAAT
50738092 A
1 A
50738093 CACTACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTTAACTCATTAAT
Found at i:50751239 original size:9 final size:9
Alignment explanation
Indices: 50751225--50751255 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
50751215 TAAACGAATT
50751225 GAGTTATTC
1 GAGTTATTC
*
50751234 GAGTTAATC
1 GAGTTATTC
50751243 GAGTTATTC
1 GAGTTATTC
50751252 GAGT
1 GAGT
50751256 CAACTCGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.39
Consensus pattern (9 bp):
GAGTTATTC
Found at i:50751584 original size:30 final size:31
Alignment explanation
Indices: 50751548--50751607 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
50751538 AGCTTTTTAT
*
50751548 TTTCCTCCCT-AAATTTTTACTTCC-TCTCAC
1 TTTCCT-CCTAAAACTTTTACTTCCTTCTCAC
50751578 TTTCCTCCTAAAACTTTTACTTCCTTCTCA
1 TTTCCTCCTAAAACTTTTACTTCCTTCTCA
50751608 TCCCACCCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 3 0.11
30 19 0.70
31 5 0.19
ACGTcount: A:0.18, C:0.35, G:0.00, T:0.47
Consensus pattern (31 bp):
TTTCCTCCTAAAACTTTTACTTCCTTCTCAC
Found at i:50753248 original size:19 final size:19
Alignment explanation
Indices: 50753208--50753249 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
50753198 ATTTTAAAAC
* *
50753208 AAAATTGAATTTAGTTTTA
1 AAAATTCAATTTAGTTTAA
50753227 AAAATTCAATTTTA-TTTAA
1 AAAATTCAA-TTTAGTTTAA
50753246 AAAA
1 AAAA
50753250 CAATTTCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (19 bp):
AAAATTCAATTTAGTTTAA
Found at i:50754204 original size:24 final size:24
Alignment explanation
Indices: 50754154--50754204 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
50754144 ATCTTTATTT
* * *
50754154 TAAAAAATATTTAATATATGTATA
1 TAAAAAATATTTAAAATATGCAAA
50754178 TAAAAAATATTTACAAATAT-CAAA
1 TAAAAAATATTTA-AAATATGCAAA
50754202 TAA
1 TAA
50754205 TAAGGTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (24 bp):
TAAAAAATATTTAAAATATGCAAA
Found at i:50754824 original size:6 final size:6
Alignment explanation
Indices: 50754815--50754839 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
50754805 ATTATATTGC
50754815 ATTTGT ATTTGT ATTTGT ATTTGT A
1 ATTTGT ATTTGT ATTTGT ATTTGT A
50754840 AACTTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (6 bp):
ATTTGT
Found at i:50758765 original size:58 final size:58
Alignment explanation
Indices: 50758675--50758791 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
50758665 TGATATGATT
50758675 TCATGATTATGTGAAAATTTCGTGACGAAATTCTATGCATAAAGTGCTTAAGTTGAGA
1 TCATGATTATGTGAAAATTTCGTGACGAAATTCTATGCATAAAGTGCTTAAGTTGAGA
*
50758733 TCATGATTGTGTGAAAATTTCGTGACGAAATTCTATGCATAAAGTGCTTAAGTTGAGA
1 TCATGATTATGTGAAAATTTCGTGACGAAATTCTATGCATAAAGTGCTTAAGTTGAGA
50758791 T
1 T
50758792 TAGGGACTAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.35
Consensus pattern (58 bp):
TCATGATTATGTGAAAATTTCGTGACGAAATTCTATGCATAAAGTGCTTAAGTTGAGA
Found at i:50768766 original size:30 final size:30
Alignment explanation
Indices: 50768730--50768790 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
50768720 ATTTTATTGT
*
50768730 TAATTTTTTTATTATTTTAAAGACATTTGC
1 TAATTTTGTTATTATTTTAAAGACATTTGC
* *
50768760 TAATTTTGTTATTATTTTAGAGGCATTTGC
1 TAATTTTGTTATTATTTTAAAGACATTTGC
50768790 T
1 T
50768791 TATTAAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.56
Consensus pattern (30 bp):
TAATTTTGTTATTATTTTAAAGACATTTGC
Found at i:50770919 original size:41 final size:41
Alignment explanation
Indices: 50770860--50770978 Score: 120
Period size: 41 Copynumber: 2.9 Consensus size: 41
50770850 CTTGCTATCA
* * *
50770860 ATGAGCTTTAAC-CATTCACCCAAAATATGATGCTTCTACGT
1 ATGAGCTTAAACTGATTCA-CCAAAATATGATGCTTCTACGC
* ** *
50770901 ATGAGCTTAAATTG-TTCACCAAAATATGGCGC-TCTTAGGC
1 ATGAGCTTAAACTGATTCACCAAAATATGATGCTTC-TACGC
50770941 ATGAGCTTAAACTGATT-ATCCAAAATATGATGCTTCTA
1 ATGAGCTTAAACTGATTCA-CCAAAATATGATGCTTCTA
50770979 AGCACAAGAT
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
39 2 0.03
40 29 0.46
41 30 0.48
42 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (41 bp):
ATGAGCTTAAACTGATTCACCAAAATATGATGCTTCTACGC
Found at i:50772304 original size:13 final size:14
Alignment explanation
Indices: 50772288--50772316 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
50772278 AAATTAAACT
50772288 AAAAAG-AAAAGAA
1 AAAAAGAAAAAGAA
50772301 AAAAAGAAAAAGAA
1 AAAAAGAAAAAGAA
50772315 AA
1 AA
50772317 GAGAAACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAGAA
Found at i:50773897 original size:3 final size:3
Alignment explanation
Indices: 50773889--50773923 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
50773879 GCTAACTGTT
50773889 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
50773924 TTTTCCTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:50777897 original size:15 final size:15
Alignment explanation
Indices: 50777879--50777908 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50777869 TTCCTGTTCT
*
50777879 TTCTTTTTCTTTTTG
1 TTCTTTTCCTTTTTG
50777894 TTCTTTTCCTTTTTG
1 TTCTTTTCCTTTTTG
50777909 CCTCCTATCA
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:0.00, C:0.17, G:0.07, T:0.77
Consensus pattern (15 bp):
TTCTTTTCCTTTTTG
Found at i:50779848 original size:21 final size:20
Alignment explanation
Indices: 50779820--50779869 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
50779810 GGAGACTCTA
50779820 AAAATTTTTCGCGAAATTTC
1 AAAATTTTTCGCGAAATTTC
50779840 AAAATTTTTCGCGAAATTTC
1 AAAATTTTTCGCGAAATTTC
50779860 AAAATTTTTC
1 AAAATTTTTC
50779870 CAAAGTGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (20 bp):
AAAATTTTTCGCGAAATTTC
Found at i:50784206 original size:2 final size:2
Alignment explanation
Indices: 50784199--50784248 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
50784189 ATTTCAATGT
50784199 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
50784241 CA CA CA CA
1 CA CA CA CA
50784249 ATATGATGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:50785277 original size:74 final size:74
Alignment explanation
Indices: 50785112--50785278 Score: 203
Period size: 75 Copynumber: 2.2 Consensus size: 74
50785102 AATTATTTTG
* * * * ** *
50785112 ATGGTCACAATTATTTAATTTTTTTATGACTAAATTATTGACACTAAAATTGTAAATAATTACGG
1 ATGGTCACAATTATTCAATTTTCTTAGGACCAAATTATTGACACTAAAATCATAAACAATTA-GG
50785177 ATGAAATTAA
65 ATGAAATTAA
* * *
50785187 ATGGTCACAATTATTCAATTTTCTTGGGACCAAATTATTGACACTAAAATCATAAGCACTT-GTG
1 ATGGTCACAATTATTCAATTTTCTTAGGACCAAATTATTGACACTAAAATCATAAACAATTAG-G
50785251 -TCGAAATTAA
65 AT-GAAATTAA
50785261 ATGGTCACAATTATTCAA
1 ATGGTCACAATTATTCAA
50785279 AGAAATTGGT
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
73 2 0.03
74 27 0.34
75 51 0.64
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.37
Consensus pattern (74 bp):
ATGGTCACAATTATTCAATTTTCTTAGGACCAAATTATTGACACTAAAATCATAAACAATTAGGA
TGAAATTAA
Found at i:50787592 original size:31 final size:31
Alignment explanation
Indices: 50787552--50787637 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
50787542 TCAATCTCAG
**
50787552 CATAT-ACTGGGCTGAAGCCTTTACATTATT
1 CATATCACTGGGCCAAAGCCTTTACATTATT
*
50787582 CATATCACTGGGCCAAAGCCTTTTCATTATT
1 CATATCACTGGGCCAAAGCCTTTACATTATT
*
50787613 CATATCACTGTGCCAAAGCCTTTAC
1 CATATCACTGGGCCAAAGCCTTTAC
50787638 TGTAACAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.34
Consensus pattern (31 bp):
CATATCACTGGGCCAAAGCCTTTACATTATT
Found at i:50787888 original size:26 final size:25
Alignment explanation
Indices: 50787855--50787926 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 25
50787845 CTCTTTTAAT
* *
50787855 AACTGGGGTAAAGGCCCTTTTTGATA
1 AACTGGGGCAAA-GCCCTTTTCGATA
50787881 AACTGGGGCAAAAGCCCTTTTCGATA
1 AACTGGGGC-AAAGCCCTTTTCGATA
*
50787907 AATTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
50787927 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
25 11 0.26
26 28 0.67
27 3 0.07
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:50788090 original size:25 final size:25
Alignment explanation
Indices: 50788062--50788109 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
50788052 ATAATTAAAC
* **
50788062 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
50788087 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
50788110 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:50795259 original size:31 final size:31
Alignment explanation
Indices: 50795219--50795304 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
50795209 TCAATCTCAG
*
50795219 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCAAAGCCTTTACATTATT
*
50795249 CATATCACTGGGCCAAAGCCTTTTCATTATT
1 CATATCACTGGGCCAAAGCCTTTACATTATT
*
50795280 CATATCACTGTGCCAAAGCCTTTAC
1 CATATCACTGGGCCAAAGCCTTTAC
50795305 TGTAACAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCCAAAGCCTTTACATTATT
Found at i:50795555 original size:26 final size:25
Alignment explanation
Indices: 50795522--50795593 Score: 108
Period size: 26 Copynumber: 2.8 Consensus size: 25
50795512 CTCTTTTAAT
*
50795522 AACTGGGGCAAAGGCCCTTTTTGATA
1 AACTGGGGCAAA-GCCCTTTTCGATA
50795548 AACTGGGGCAAAAGCCCTTTTCGATA
1 AACTGGGGC-AAAGCCCTTTTCGATA
*
50795574 AATTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
50795594 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
25 11 0.26
26 29 0.67
27 3 0.07
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:50795763 original size:25 final size:25
Alignment explanation
Indices: 50795735--50795782 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
50795725 ATAATTAAAC
* **
50795735 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
50795760 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
50795783 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:50808709 original size:24 final size:25
Alignment explanation
Indices: 50808666--50808717 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
50808656 AAACAAATTG
50808666 TATTCCATTTTCATAGTTTAT-TCA
1 TATTCCATTTTCATAGTTTATATCA
*
50808690 TATTCC-TTTTCTATATTTTATATCA
1 TATTCCATTTTC-ATAGTTTATATCA
50808715 TAT
1 TAT
50808718 CATAGTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 5 0.20
24 14 0.56
25 6 0.24
ACGTcount: A:0.25, C:0.15, G:0.02, T:0.58
Consensus pattern (25 bp):
TATTCCATTTTCATAGTTTATATCA
Found at i:50810906 original size:20 final size:20
Alignment explanation
Indices: 50810878--50810921 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
50810868 TACCAACTTG
*
50810878 CAACTTACCATAATCTTTCA
1 CAACATACCATAATCTTTCA
*
50810898 CAACATACCATAGTCTTTCA
1 CAACATACCATAATCTTTCA
50810918 CAAC
1 CAAC
50810922 TTAAACATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.02, T:0.30
Consensus pattern (20 bp):
CAACATACCATAATCTTTCA
Found at i:50811043 original size:32 final size:33
Alignment explanation
Indices: 50811000--50811062 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
50810990 CACATAGTAC
*
50811000 CATATCAATGCC-ATATCCCAGATATGGTCTAT
1 CATATCAATGCCAATAGCCCAGATATGGTCTAT
* * *
50811032 CATATCGATGCCAATAGCCTAGCTATGGTCT
1 CATATCAATGCCAATAGCCCAGATATGGTCT
50811063 TAGAAGAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 11 0.42
33 15 0.58
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (33 bp):
CATATCAATGCCAATAGCCCAGATATGGTCTAT
Found at i:50820235 original size:50 final size:50
Alignment explanation
Indices: 50820166--50820460 Score: 155
Period size: 50 Copynumber: 5.9 Consensus size: 50
50820156 ACAACTTCAA
* * * *
50820166 TCACGTGTGTAGTACTAAGTGTAAGCTACTACGTATATCAGATGGTTAGG
1 TCACGTGTATAGTACTAAGTGCAAGCTACTACGTATACCAGATAGTTAGG
* * *
50820216 TCACGTGTATGGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGG
1 TCACGTGTATAGTACTAAGTGCAAGCTACTACGTATACCAGATAGTTAGG
* * * * * * * ** * * *
50820266 TCGCATGTGTAGTACTAGGCGCAGGCTACTATGCT-TACCCTACCACTTCA-A
1 TCACGTGTATAGTACTAAGTGCAAGCTACTACG-TATACCAGA-TAGTT-AGG
* * * ** * *
50820317 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGGGTATCAGATGGTTAGG
1 TCACGTGTATAGTACTAAGTGCAAGCTACTACGTATACCAGATAGTTAGG
* * * * * * * * *
50820367 CCACATGTGTAGTACAAAGTGCAAGCTAATACGTGTACCGGATGGTT-GA
1 TCACGTGTATAGTACTAAGTGCAAGCTACTACGTATACCAGATAGTTAGG
** * * * * * *
50820416 TTGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGATAG
1 TCACGTGTATAGTACTAAGTGCAAGCTACTACGTATACCAGATAG
50820461 CTTCGGTTGC
Statistics
Matches: 187, Mismatches: 53, Indels: 11
0.75 0.21 0.04
Matches are distributed among these distances:
49 37 0.20
50 114 0.61
51 35 0.19
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
TCACGTGTATAGTACTAAGTGCAAGCTACTACGTATACCAGATAGTTAGG
Found at i:50820400 original size:151 final size:150
Alignment explanation
Indices: 50820121--50820453 Score: 450
Period size: 151 Copynumber: 2.2 Consensus size: 150
50820111 GTGAGAACAC
* * *
50820121 GTGTAGTACTAAGTGTAGGCTGCTATACGTACCCGACAACTTCAATCACGTGTGTAGTACTAAGT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTTCAATCACGTGTGTAGTACTAAGT
* * * * * * *
50820186 GTAAGCTACTACGTATATCAGATGGTTAGGTCACGTGTATGGTACTAAGTGCAGGCTACTACGTG
66 GTAAGCTACTACGGATATCAGATGGTTAGGCCACATGTATAGTACAAAGTGCAAGCTAATACGTG
*
50820251 TACCAGATAGTTAGGTCGCAT
131 TACCAGATAGTT-GATCGCAT
* * * * *
50820272 GTGTAGTACTAGGCGCAGGCTACTATGCTTACCCTACCACTTCAATCACGTGTGTAGTACTAAGT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTTCAATCACGTGTGTAGTACTAAGT
* * *
50820337 GTAGGCTACTACGGGTATCAGATGGTTAGGCCACATGTGTAGTACAAAGTGCAAGCTAATACGTG
66 GTAAGCTACTACGGATATCAGATGGTTAGGCCACATGTATAGTACAAAGTGCAAGCTAATACGTG
* * *
50820402 TACCGGATGGTTGATTGCAT
131 TACCAGATAGTTGATCGCAT
*
50820422 GTGTAGTACTAAGTGCAGGCTACTATGTGTAC
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTAC
50820454 TAGATAGCTT
Statistics
Matches: 156, Mismatches: 26, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
150 34 0.22
151 122 0.78
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (150 bp):
GTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTTCAATCACGTGTGTAGTACTAAGT
GTAAGCTACTACGGATATCAGATGGTTAGGCCACATGTATAGTACAAAGTGCAAGCTAATACGTG
TACCAGATAGTTGATCGCAT
Found at i:50824650 original size:18 final size:20
Alignment explanation
Indices: 50824618--50824655 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
50824608 GTAGATTATG
*
50824618 ATGTTATAGTCATATGTGAT
1 ATGTTATAGTCATATATGAT
50824638 ATGTTAT-GT-ATATATGAT
1 ATGTTATAGTCATATATGAT
50824656 CAAATGACGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (20 bp):
ATGTTATAGTCATATATGAT
Found at i:50839424 original size:14 final size:14
Alignment explanation
Indices: 50839405--50839448 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
50839395 AATTTAAAGA
50839405 TAAAGTTAATGATT
1 TAAAGTTAATGATT
*
50839419 TAAAG-T-AT--TA
1 TAAAGTTAATGATT
50839429 TAAAGTTAATGATT
1 TAAAGTTAATGATT
50839443 TAAAGT
1 TAAAGT
50839449 ATTAGAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
10 6 0.25
11 1 0.04
12 4 0.17
13 1 0.04
14 12 0.50
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (14 bp):
TAAAGTTAATGATT
Found at i:50839436 original size:24 final size:24
Alignment explanation
Indices: 50839404--50839460 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
50839394 CAATTTAAAG
50839404 ATAAAGTTAATGATTTAAAGTATT
1 ATAAAGTTAATGATTTAAAGTATT
50839428 ATAAAGTTAATGATTTAAAGTATT
1 ATAAAGTTAATGATTTAAAGTATT
*
50839452 AGAAA-TTAA
1 ATAAAGTTAA
50839461 AAATAAAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 4 0.12
24 28 0.88
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (24 bp):
ATAAAGTTAATGATTTAAAGTATT
Found at i:50856049 original size:34 final size:34
Alignment explanation
Indices: 50856011--50856119 Score: 146
Period size: 34 Copynumber: 3.2 Consensus size: 34
50856001 ACGCTAGTTA
*
50856011 GATAAACCGACGAATGTGTGCCCAGCACTAGTCG
1 GATAAACTGACGAATGTGTGCCCAGCACTAGTCG
* *
50856045 GATAAACTGATGAATGTGTGCCCAGCACTAGTCA
1 GATAAACTGACGAATGTGTGCCCAGCACTAGTCG
* * * *
50856079 GCTAAATTGACGAAAGTTGTGCCCAGCGCTAGTCG
1 GATAAACTGACGAATG-TGTGCCCAGCACTAGTCG
50856114 GATAAA
1 GATAAA
50856120 TCAACGAAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
34 43 0.67
35 21 0.33
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (34 bp):
GATAAACTGACGAATGTGTGCCCAGCACTAGTCG
Found at i:50871055 original size:27 final size:27
Alignment explanation
Indices: 50871025--50871076 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
50871015 ATATACTTGT
*
50871025 TCTGGTGGCCTAGCCACAATATCTGTA
1 TCTGGTGACCTAGCCACAATATCTGTA
* * *
50871052 TCTGGTGACTTTGTCACAATATCTG
1 TCTGGTGACCTAGCCACAATATCTG
50871077 GCAGCCTCGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (27 bp):
TCTGGTGACCTAGCCACAATATCTGTA
Found at i:50885527 original size:27 final size:26
Alignment explanation
Indices: 50885489--50885548 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
50885479 ACATATATAT
* *
50885489 ATATATGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
50885515 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
50885542 ATATCTG
1 ATATCTG
50885549 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:50893136 original size:49 final size:49
Alignment explanation
Indices: 50893082--50893376 Score: 374
Period size: 49 Copynumber: 5.9 Consensus size: 49
50893072 TCTATTGTGA
* *
50893082 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
50893131 GGTCACATGTGTAGTACTAAGTGCATGCTACTATGAGTACCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * *
50893181 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
50893231 GGTCACATGTGTAGTACTAAGTGCATGCTACTATGAGTACCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * **
50893281 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
50893331 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
50893377 GCTTTGGCTA
Statistics
Matches: 208, Mismatches: 34, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
49 120 0.58
50 8 0.04
51 80 0.38
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:50893409 original size:100 final size:100
Alignment explanation
Indices: 50893084--50893376 Score: 523
Period size: 100 Copynumber: 2.9 Consensus size: 100
50893074 TATTGTGAGG
50893084 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCACATGTGTAGTACT
50893149 AAGTGCATGCTACTATGAGTACCCGATAACTTCGA
66 AAGTGCATGCTACTATGAGTACCCGATAACTTCGA
50893184 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCACATGTGTAGTACT
50893249 AAGTGCATGCTACTATGAGTACCCGATAACTTCGA
66 AAGTGCATGCTACTATGAGTACCCGATAACTTCGA
** * *
50893284 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCACATGTGTAGTACT
* * *
50893349 AAGTGCAGGCTACTATGCGTACCAGATA
66 AAGTGCATGCTACTATGAGTACCCGATA
50893377 GCTTTGGCTA
Statistics
Matches: 186, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 186 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCACATGTGTAGTACT
AAGTGCATGCTACTATGAGTACCCGATAACTTCGA
Found at i:50907403 original size:27 final size:27
Alignment explanation
Indices: 50907276--50907402 Score: 148
Period size: 27 Copynumber: 4.7 Consensus size: 27
50907266 TGGGCTAAAA
50907276 GTAAAATTACCAAAATACCCCTAGTTT
1 GTAAAATTACCAAAATACCCCTAGTTT
50907303 GTAAAATTACCAAAATACCCCTAGTTT
1 GTAAAATTACCAAAATACCCCTAGTTT
* * * * *
50907330 ATAAAATTACCGAAACACCACTGGTTT
1 GTAAAATTACCAAAATACCCCTAGTTT
* * * * *
50907357 GTGAAATTATCGAAATA-CCTTCAATTT
1 GTAAAATTACCAAAATACCCCT-AGTTT
50907384 GTAAAATTACCAAAATACC
1 GTAAAATTACCAAAATACC
50907403 TCTGATTTAC
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
26 2 0.02
27 79 0.96
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCCTAGTTT
Found at i:50907410 original size:27 final size:26
Alignment explanation
Indices: 50907276--50907430 Score: 132
Period size: 27 Copynumber: 5.8 Consensus size: 26
50907266 TGGGCTAAAA
50907276 GTAAAATTACCAAAATACCCCTAGTTT
1 GTAAAATTACCAAAATACCCCTA-TTT
50907303 GTAAAATTACCAAAATACCCCTAGTTT
1 GTAAAATTACCAAAATACCCCTA-TTT
* * * * *
50907330 ATAAAATTACCGAAACACCACTGGTTT
1 GTAAAATTACCAAAATACCCCT-ATTT
* * * * *
50907357 GTGAAATTATCGAAATACCTTCAATTT
1 GTAAAATTACCAAAATACC-CCTATTT
*
50907384 GTAAAATTACCAAAATACCTCTGATTT
1 GTAAAATTACCAAAATACCCCT-ATTT
**
50907411 ACAAAATTA-CAGAAATACCC
1 GTAAAATTACCA-AAATACCC
50907431 TTGACTCTCT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.04
27 100 0.95
28 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (26 bp):
GTAAAATTACCAAAATACCCCTATTT
Found at i:50907577 original size:27 final size:27
Alignment explanation
Indices: 50907534--50907607 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
50907524 AAATGACTAA
*
50907534 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
50907561 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
50907588 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
50907608 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:50907611 original size:27 final size:27
Alignment explanation
Indices: 50907547--50907611 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
50907537 ACCCCTAATA
*
50907547 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
50907574 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
50907601 GGTAAAATGAC
1 GGTAAAATGAC
50907612 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:50908458 original size:25 final size:24
Alignment explanation
Indices: 50908420--50908489 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
50908410 AGGAAGTGCT
*
50908420 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
50908444 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
50908469 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
50908490 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:50908502 original size:24 final size:24
Alignment explanation
Indices: 50908419--50908502 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
50908409 GAGGAAGTGC
* *
50908419 TAAAAGGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
50908444 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
50908468 CAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
50908492 TAAAAGAGGCT
1 TAAAAG-GGCT
50908503 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:50908846 original size:30 final size:31
Alignment explanation
Indices: 50908785--50908855 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
50908775 GGATAAAATA
*
50908785 CCAGTGATATGATTTGTGAAAAGGCTTCGGC
1 CCAGTGATATGATTTATGAAAAGGCTTCGGC
*
50908816 CCAGTGATATGATTTATGGAAAGG-TTCGGC
1 CCAGTGATATGATTTATGAAAAGGCTTCGGC
50908846 CCAGT-ATATG
1 CCAGTGATATG
50908856 TCAAGACTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 5 0.13
30 11 0.29
31 22 0.58
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (31 bp):
CCAGTGATATGATTTATGAAAAGGCTTCGGC
Found at i:50919516 original size:42 final size:43
Alignment explanation
Indices: 50919415--50919578 Score: 133
Period size: 43 Copynumber: 3.8 Consensus size: 43
50919405 CAATGGCAAC
* * *
50919415 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAAACATGGTCTTACATGAAATCAAATATCGATGCCACT
* * *
50919458 GTCCCATACA-GTGTCTTACATGAAATCCAATA-CGATGCTGA-T
1 GTCCCAAACATG-GTCTTACATGAAATCAAATATCGATGC-CACT
* * * *
50919500 GTCTCAAACATGGTCTTACACGTAAATCTCAAAT-T-GA-GTCAAT
1 GTCCCAAACATGGTCTTACATG-AAA--TCAAATATCGATGCCACT
* *
50919543 GTCCCAAACGTGGTCTTACATGAAATCACATATCGA
1 GTCCCAAACATGGTCTTACATGAAATCAAATATCGA
50919579 AAATCCTATG
Statistics
Matches: 96, Mismatches: 15, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
40 5 0.05
41 1 0.01
42 31 0.32
43 52 0.54
44 2 0.02
45 5 0.05
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
GTCCCAAACATGGTCTTACATGAAATCAAATATCGATGCCACT
Found at i:50925392 original size:68 final size:67
Alignment explanation
Indices: 50925320--50925469 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
50925310 CATCATGTGT
* * * *
50925320 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
50925382 ATGTAG
62 ATGTAG
** * *
50925388 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
50925453 AG
66 AG
50925455 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
50925470 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:50925425 original size:64 final size:64
Alignment explanation
Indices: 50925344--50925527 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
50925334 AGACATTATG
* *
50925344 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
50925408 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
50925473 AA
63 AA
* * * *
50925475 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
50925528 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:50926127 original size:13 final size:13
Alignment explanation
Indices: 50926109--50926135 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50926099 AATTAGAGAC
50926109 TCAAAATTATATT
1 TCAAAATTATATT
50926122 TCAAAATTATATT
1 TCAAAATTATATT
50926135 T
1 T
50926136 TTAAAATCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (13 bp):
TCAAAATTATATT
Found at i:50946376 original size:21 final size:21
Alignment explanation
Indices: 50946352--50946391 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
50946342 TTTCTAGGAC
*
50946352 ATGAATTGAATTAAATTGAGT
1 ATGAAATGAATTAAATTGAGT
*
50946373 ATGAAATGGATTAAATTGA
1 ATGAAATGAATTAAATTGA
50946392 TGTTAAATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.35
Consensus pattern (21 bp):
ATGAAATGAATTAAATTGAGT
Found at i:50946911 original size:25 final size:24
Alignment explanation
Indices: 50946869--50946921 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
50946859 CACAAATGCA
*
50946869 GCTCTTTATGAACGTCCTGATATAG
1 GCTCTTTATGAACGTCCTAATAT-G
* * *
50946894 GCTCTTTGTGAGCTTCCTAATATG
1 GCTCTTTATGAACGTCCTAATATG
50946918 GCTC
1 GCTC
50946922 GCATTAACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.38
Consensus pattern (24 bp):
GCTCTTTATGAACGTCCTAATATG
Found at i:50956071 original size:28 final size:27
Alignment explanation
Indices: 50956039--50956134 Score: 103
Period size: 28 Copynumber: 3.6 Consensus size: 27
50956029 AAAAATCAAA
*
50956039 TATATAATATACTAAAACTATAAAAC-
1 TATATAATATAATAAAACTATAAAACT
*
50956065 --T-TAATATAATAAAACTTTAAAACGT
1 TATATAATATAATAAAACTATAAAAC-T
*
50956090 TATGTAATATAATAAAACTATAAAACT
1 TATATAATATAATAAAACTATAAAACT
50956117 TGACT-TAATATAATAAAA
1 T-A-TATAATATAATAAAA
50956135 GTTTACGTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
23 20 0.33
24 1 0.02
27 3 0.05
28 35 0.58
29 1 0.02
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.33
Consensus pattern (27 bp):
TATATAATATAATAAAACTATAAAACT
Found at i:50956178 original size:16 final size:16
Alignment explanation
Indices: 50956157--50956191 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
50956147 TCTTAATATA
*
50956157 ATAATACTAAATTAAG
1 ATAATACTAAACTAAG
*
50956173 ATAATACTCAACTAAG
1 ATAATACTAAACTAAG
50956189 ATA
1 ATA
50956192 TTATATCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (16 bp):
ATAATACTAAACTAAG
Found at i:50956309 original size:25 final size:27
Alignment explanation
Indices: 50956276--50956332 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
50956266 ATCATGATAA
* *
50956276 TATTCATTAA-AAAAAGTTTACCCTG-
1 TATTAATTAAGAAAAAGTTTACCATGT
*
50956301 TATTAATTAAGATAAAGTTTACCATGT
1 TATTAATTAAGAAAAAGTTTACCATGT
50956328 TATTA
1 TATTA
50956333 TGTTTTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 9 0.33
26 13 0.48
27 5 0.19
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (27 bp):
TATTAATTAAGAAAAAGTTTACCATGT
Found at i:50959152 original size:29 final size:29
Alignment explanation
Indices: 50959119--50959175 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
50959109 TTTGTACGAG
50959119 GATCTTAGACATGGATAATTCATTTCAAA
1 GATCTTAGACATGGATAATTCATTTCAAA
50959148 GATCTTAGACATGGATAATTCATTTCAA
1 GATCTTAGACATGGATAATTCATTTCAA
50959176 TTACTTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (29 bp):
GATCTTAGACATGGATAATTCATTTCAAA
Found at i:50960351 original size:31 final size:31
Alignment explanation
Indices: 50960315--50960376 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
50960305 CAGGTACATA
50960315 ACCAATGAATTTTCATACATAAGATTTCTCT
1 ACCAATGAATTTTCATACATAAGATTTCTCT
* *
50960346 ACCAATGATTTTTCATACATAAGTTTTCTCT
1 ACCAATGAATTTTCATACATAAGATTTCTCT
50960377 TTTACAAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (31 bp):
ACCAATGAATTTTCATACATAAGATTTCTCT
Found at i:50960372 original size:15 final size:16
Alignment explanation
Indices: 50960324--50960372 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
50960314 AACCAATGAA
50960324 TTTTCATACATAAGAT
1 TTTTCATACATAAGAT
* *
50960340 TTCTC-TACCA-ATGAT
1 TTTTCATA-CATAAGAT
50960355 TTTTCATACATAAG-T
1 TTTTCATACATAAGAT
50960370 TTT
1 TTT
50960373 CTCTTTTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
15 16 0.62
16 10 0.38
ACGTcount: A:0.31, C:0.16, G:0.06, T:0.47
Consensus pattern (16 bp):
TTTTCATACATAAGAT
Found at i:50967205 original size:18 final size:18
Alignment explanation
Indices: 50967184--50967261 Score: 57
Period size: 18 Copynumber: 4.0 Consensus size: 18
50967174 CAGTTAAACC
50967184 ATTTGATTAATATATTTA
1 ATTTGATTAATATATTTA
* *
50967202 ATTTGATTTATTTATTTATA
1 ATTTGATTAATATA-TT-TA
*
50967222 ATTGAGTATTATTATATATTTA
1 ATT-TG-ATTA--ATATATTTA
* *
50967244 ATTTGATTTATTTATTTA
1 ATTTGATTAATATATTTA
50967262 TAAATAAATC
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
18 20 0.43
19 2 0.04
20 8 0.17
21 2 0.04
22 8 0.17
23 2 0.04
24 4 0.09
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
ATTTGATTAATATATTTA
Found at i:50967314 original size:16 final size:16
Alignment explanation
Indices: 50967295--50967337 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
50967285 TAAAAATAAT
50967295 TTAAAATATAAATTTA
1 TTAAAATATAAATTTA
*
50967311 TTAATATATATAAATTTG
1 TTAA-A-ATATAAATTTA
*
50967329 TTAATATAT
1 TTAAAATAT
50967338 GTAAAAACAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.35
17 1 0.04
18 14 0.61
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
TTAAAATATAAATTTA
Found at i:50967321 original size:18 final size:18
Alignment explanation
Indices: 50967300--50967342 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
50967290 ATAATTTAAA
50967300 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
50967318 ATATAAATTTGTTAATAT
1 ATATAAATTTATTAATAT
*
50967336 ATGTAAA
1 ATATAAA
50967343 AACAGCTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:50967463 original size:20 final size:19
Alignment explanation
Indices: 50967418--50967455 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
50967408 CATCCAAACA
50967418 CCAGAAAAGTAAATTATTT
1 CCAGAAAAGTAAATTATTT
50967437 CCAGAAAAGTAAATTATTT
1 CCAGAAAAGTAAATTATTT
50967456 TCTAGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (19 bp):
CCAGAAAAGTAAATTATTT
Found at i:50973786 original size:24 final size:25
Alignment explanation
Indices: 50973739--50973786 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
50973729 TTAGGTCTCA
* * *
50973739 TGAGCTTCCTGCTTAATGGTTCTTG
1 TGAGCTTCCCGCTTAATAGCTCTTG
50973764 TGAGCTTCCCG-TTAATAGCTCTT
1 TGAGCTTCCCGCTTAATAGCTCTT
50973787 CCAAGCACCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.42
Consensus pattern (25 bp):
TGAGCTTCCCGCTTAATAGCTCTTG
Found at i:50976943 original size:20 final size:20
Alignment explanation
Indices: 50976918--50976962 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
50976908 AGGGACTAAA
*
50976918 ATGAAAAGTTGT-AAATTTT
1 ATGAAAAATTGTGAAATTTT
*
50976937 GATGAAAAATTTTGAAATTTT
1 -ATGAAAAATTGTGAAATTTT
50976958 ATGAA
1 ATGAA
50976963 TACATGTGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (20 bp):
ATGAAAAATTGTGAAATTTT
Found at i:50979928 original size:46 final size:45
Alignment explanation
Indices: 50979869--50979993 Score: 130
Period size: 48 Copynumber: 2.7 Consensus size: 45
50979859 ATCTCATAGC
* *
50979869 CGATGTATGTCCCA-ACATGTCTTACACTAGCTCTCGTCTTAA-T-GT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCT--T-ATAAGTGGT
* *
50979914 CGATGCCATGTCCCATACATGGTCTTACACTGGCTCTTATAATGTGGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTTATAA-GTGGT
*
50979962 CGATGCATGTCCTAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
50979994 ACACAAATAA
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
45 8 0.12
46 21 0.31
47 17 0.25
48 22 0.32
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.33
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTTATAAGTGGT
Found at i:50985636 original size:27 final size:27
Alignment explanation
Indices: 50985599--50985798 Score: 233
Period size: 27 Copynumber: 7.4 Consensus size: 27
50985589 TGGATAAGTT
*
50985599 GTAGAATTACCGAAATACCCCTGTAAT
1 GTAGAATTACCGAAATACCCCTGTAAG
*
50985626 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
** *
50985653 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
50985680 GTAGAATTACCGAAATACCCCTGT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
50985706 GATAGAATTACCGAAATACCCTTGT-AG
1 G-TAGAATTACCGAAATACCCCTGTAAG
* * * *
50985733 AGTAGAAATACTGAAATACCCCTGCAGG
1 -GTAGAATTACCGAAATACCCCTGTAAG
* * **
50985761 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
50985788 GTAAAATTACC
1 GTAGAATTACC
50985799 ATTTTGCCCT
Statistics
Matches: 150, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
26 2 0.01
27 146 0.97
28 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAAG
Found at i:50985732 original size:81 final size:80
Alignment explanation
Indices: 50985599--50985798 Score: 283
Period size: 81 Copynumber: 2.5 Consensus size: 80
50985589 TGGATAAGTT
* * * *
50985599 GTAGAATTACCGAAATACCCCTGTAATGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATT
1 GTAGAATTACCGAAATACCCCTGT-AGGTAGAATTACCGAAATACCCCTGTAGAGTAGAAATACT
*
50985664 GAAATACCCCTGTAGG
65 GAAATACCCCTGCAGG
*
50985680 GTAGAATTACCGAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAGAGTAGAAATACT
1 GTAGAATTACCGAAATACCCCTGTAGG-TAGAATTACCGAAATACCCCTGTAGAGTAGAAATACT
50985745 GAAATACCCCTGCAGG
65 GAAATACCCCTGCAGG
* * * *
50985761 GTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 GTAGAATTACCGAAATACCCCTGT-AGGTAGAATTACC
50985799 ATTTTGCCCT
Statistics
Matches: 107, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
80 2 0.02
81 103 0.96
82 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (80 bp):
GTAGAATTACCGAAATACCCCTGTAGGTAGAATTACCGAAATACCCCTGTAGAGTAGAAATACTG
AAATACCCCTGCAGG
Found at i:50985781 original size:54 final size:54
Alignment explanation
Indices: 50985599--50985798 Score: 267
Period size: 54 Copynumber: 3.7 Consensus size: 54
50985589 TGGATAAGTT
50985599 GTAGAATTACCGAAATACCCCTGTA-ATGTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGA-GTAGAATTACCGAAATACCCCTGTAGG
** *
50985653 GTAGAATTATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGAGTAGAATTACCGAAATACCCCTGTAGG
* * * * *
50985707 ATAGAATTACCGAAATACCCTTGTAGAGTAGAAATACTGAAATACCCCTGCAGG
1 GTAGAATTACCGAAATACCCCTGTAGAGTAGAATTACCGAAATACCCCTGTAGG
* * * * *
50985761 GTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 GTAGAATTACCGAAATACCCCTGTAGAGTAGAATTACC
50985799 ATTTTGCCCT
Statistics
Matches: 127, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
54 127 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (54 bp):
GTAGAATTACCGAAATACCCCTGTAGAGTAGAATTACCGAAATACCCCTGTAGG
Found at i:50986601 original size:33 final size:32
Alignment explanation
Indices: 50986552--50986615 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
50986542 CTCGCTGCAA
* *
50986552 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
50986585 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
50986616 GTGATTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:50992620 original size:27 final size:27
Alignment explanation
Indices: 50992578--50992750 Score: 211
Period size: 27 Copynumber: 6.4 Consensus size: 27
50992568 TGGATAAGTT
*
50992578 GTAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
***
50992605 GTAGAATTATTAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
50992632 TTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
50992659 ATAGAATTACCAAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
50992686 GTAGAAATACCGAAATACCCATGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
50992713 GTAGAATTACCGAGATACCCTTGTTGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
50992740 GTATAATTACC
1 GTAGAATTACC
50992751 ATTTTTCCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 126 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:50996982 original size:57 final size:57
Alignment explanation
Indices: 50996887--50997244 Score: 518
Period size: 57 Copynumber: 6.2 Consensus size: 57
50996877 GATCTCATTT
* * * *
50996887 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACAGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* * *
50996946 CACACACAGTGCCTCAACAACTGATCTCGCATACACAGTGCTTGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* * *
50997003 CACACATAGTGCCTCAACAACCAATCTCGCACACACAGTGCTTGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* * *
50997060 CACACACAGTGCCTCAATAACCGATCTCGCACAGACATTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
**
50997117 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTATAGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* * * **
50997174 CACACACAGTGCCTCAACAACCAATCTCACACACACAGTGCTCGATTACGGAACTTA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
50997231 CACACACAGTGCCT
1 CACACACAGTGCCT
50997245 ATGTTTTCTT
Statistics
Matches: 272, Mismatches: 27, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
57 265 0.97
59 7 0.03
ACGTcount: A:0.30, C:0.34, G:0.17, T:0.19
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
Found at i:50997235 original size:28 final size:28
Alignment explanation
Indices: 50996917--50997242 Score: 215
Period size: 28 Copynumber: 11.5 Consensus size: 28
50996907 AACCGATCTT
* * *
50996917 GCACACACAGTGCTTGGTTACAGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
* ** * *
50996945 GCACACACAGTGCCTCAACAACTGATCTC
1 GCACACACAGTG-CTCGATTACGGAACTC
* * *
50996974 GCATACACAGTGCTTGGTTACGGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
* * ** *
50997002 GCACACATAGTGCCTCAACAAC-CAATCTC
1 GCACACACAGTG-CTCGATTACGGAA-CTC
* *
50997031 GCACACACAGTGCTTGGTTACGGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
* * * *
50997059 GCACACACAGTGCCTCAATAACCGATCTC
1 GCACACACAGTG-CTCGATTACGGAACTC
* * *
50997088 GCACAGACATTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
* ** * *
50997116 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGATTACGGAACTC
* **
50997145 GCACACACAGTGCTCGGTTATAGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
* ** *
50997173 GCACACACAGTGCCTCAACAAC-CAATCTC
1 GCACACACAGTG-CTCGATTACGGAA-CTC
* *
50997202 ACACACACAGTGCTCGATTACGGAACTT
1 GCACACACAGTGCTCGATTACGGAACTC
*
50997230 ACACACACAGTGC
1 GCACACACAGTGC
50997243 CTATGTTTTC
Statistics
Matches: 219, Mismatches: 70, Indels: 18
0.71 0.23 0.06
Matches are distributed among these distances:
28 117 0.53
29 102 0.47
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.19
Consensus pattern (28 bp):
GCACACACAGTGCTCGATTACGGAACTC
Found at i:50997819 original size:57 final size:57
Alignment explanation
Indices: 50997731--50997842 Score: 206
Period size: 57 Copynumber: 2.0 Consensus size: 57
50997721 ACTTTTCATA
*
50997731 CACACGTATATTATCCTTTAATCGGGCTTACAAGGCCCAAAATATTCATGAGGCAGG
1 CACACGTATATTATCCTTTAATCAGGCTTACAAGGCCCAAAATATTCATGAGGCAGG
*
50997788 CACACGTATATTATCCTTTAATCAGGCTTACAAGGCCTAAAATATTCATGAGGCA
1 CACACGTATATTATCCTTTAATCAGGCTTACAAGGCCCAAAATATTCATGAGGCA
50997843 TTATTAAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (57 bp):
CACACGTATATTATCCTTTAATCAGGCTTACAAGGCCCAAAATATTCATGAGGCAGG
Found at i:50999296 original size:26 final size:26
Alignment explanation
Indices: 50999267--50999326 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
50999257 TCCCTTTGAA
* * *
50999267 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
50999293 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
50999321 CCATTC
1 TCATTC
50999327 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:50999312 original size:28 final size:28
Alignment explanation
Indices: 50999281--50999352 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
50999271 TCGATATTTT
*
50999281 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
50999309 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
50999337 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
50999353 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:51006265 original size:20 final size:20
Alignment explanation
Indices: 51006240--51006284 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
51006230 ATGAACTAAA
* *
51006240 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTATAAAATTTG
*
51006260 ATGAAAAATTATAAAATTTT
1 ATGAAAAATTATAAAATTTG
51006280 ATGAA
1 ATGAA
51006285 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTATAAAATTTG
Found at i:51013397 original size:23 final size:23
Alignment explanation
Indices: 51013367--51013413 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
51013357 CAAAGATCAC
51013367 TACTAATAATATGTATACATACA
1 TACTAATAATATGTATACATACA
51013390 TACTAATAATATGTATACATACA
1 TACTAATAATATGTATACATACA
51013413 T
1 T
51013414 TTCCTGCGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (23 bp):
TACTAATAATATGTATACATACA
Found at i:51015039 original size:38 final size:38
Alignment explanation
Indices: 51014979--51015081 Score: 125
Period size: 38 Copynumber: 2.7 Consensus size: 38
51014969 GAAGGCCCGA
** * * *
51014979 ATATAATACCAGTGCTAGGCCTGCGGGATTTATCCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
* *
51015017 ATATAATACCAGCACGAAGCCTGCGCGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
**
51015055 ATATTTTACCAGCACGAAGCCTGCGGG
1 ATATAATACCAGCACGAAGCCTGCGGG
51015082 TCTTTAAGCC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 55 1.00
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.22
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
Found at i:51018545 original size:116 final size:116
Alignment explanation
Indices: 51018396--51018632 Score: 467
Period size: 116 Copynumber: 2.1 Consensus size: 116
51018386 TACAAAGATA
51018396 GATA-TACAAAAAAGAATATAAAAATAAGTTAGGGAGAGAAATGAAACTTCCTGAATGATGGATG
1 GATACTACAAAAAAGAATATAAAAATAAGTTAGGGAGAGAAATGAAACTTCCTGAATGATGGATG
51018460 AATTTCCTTGAACTGGAGTTTTGGAGAATAATCGACGTGAGGGTGGAGGAG
66 AATTTCCTTGAACTGGAGTTTTGGAGAATAATCGACGTGAGGGTGGAGGAG
51018511 GATACTACAAAAAAGAATATAAAAATAAGTTAGGGAGAGAAATGAAACTTCCTGAATGATGGATG
1 GATACTACAAAAAAGAATATAAAAATAAGTTAGGGAGAGAAATGAAACTTCCTGAATGATGGATG
51018576 AATTTCCTTGAACTGGAGTTTTGGAGAATAATCGACGTGAGGGTGGAGGAG
66 AATTTCCTTGAACTGGAGTTTTGGAGAATAATCGACGTGAGGGTGGAGGAG
51018627 GATACT
1 GATACT
51018633 CTGGCGGTGG
Statistics
Matches: 121, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
115 4 0.03
116 117 0.97
ACGTcount: A:0.40, C:0.08, G:0.27, T:0.24
Consensus pattern (116 bp):
GATACTACAAAAAAGAATATAAAAATAAGTTAGGGAGAGAAATGAAACTTCCTGAATGATGGATG
AATTTCCTTGAACTGGAGTTTTGGAGAATAATCGACGTGAGGGTGGAGGAG
Found at i:51018966 original size:7 final size:7
Alignment explanation
Indices: 51018942--51018982 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
51018932 TAGTCTTAAA
51018942 ATAAAAT
1 ATAAAAT
*
51018949 A-AAAGT
1 ATAAAAT
*
51018955 A-AAAAC
1 ATAAAAT
51018961 ATAAAAT
1 ATAAAAT
51018968 ATAAAAT
1 ATAAAAT
51018975 ATAAAAT
1 ATAAAAT
51018982 A
1 A
51018983 AAAGTTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 9 0.31
7 20 0.69
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (7 bp):
ATAAAAT
Found at i:51039273 original size:55 final size:55
Alignment explanation
Indices: 51039214--51039349 Score: 139
Period size: 55 Copynumber: 2.5 Consensus size: 55
51039204 TGCGACATGG
* * * * ***
51039214 CCGTGGGTGAACCTGCCAAAACAACATGGGCGTGCGACATGCCCGTGCTTGGAAA
1 CCGTGGGTGAACCTGCCAAAACAACACGGGCGTGAGACACGCCCATGCCAAGAAA
* * ** *
51039269 CCGTGGCTGAACCTGTCAAATTAACACGGGCGTGAGACACGCCCATGCCAAGCAA
1 CCGTGGGTGAACCTGCCAAAACAACACGGGCGTGAGACACGCCCATGCCAAGAAA
**
51039324 CCGT-GGCAAACCTGCCAAAACAACAC
1 CCGTGGGTGAACCTGCCAAAACAACAC
51039350 CGACGTGGAC
Statistics
Matches: 63, Mismatches: 18, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
54 16 0.25
55 47 0.75
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.14
Consensus pattern (55 bp):
CCGTGGGTGAACCTGCCAAAACAACACGGGCGTGAGACACGCCCATGCCAAGAAA
Found at i:51042881 original size:16 final size:16
Alignment explanation
Indices: 51042860--51042890 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
51042850 TAAAATGCTC
51042860 AACTTGGAATGTGTGA
1 AACTTGGAATGTGTGA
51042876 AACTTGGAATGTGTG
1 AACTTGGAATGTGTG
51042891 GGGGTATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.32, T:0.32
Consensus pattern (16 bp):
AACTTGGAATGTGTGA
Found at i:51056512 original size:49 final size:49
Alignment explanation
Indices: 51056440--51056814 Score: 426
Period size: 49 Copynumber: 7.5 Consensus size: 49
51056430 TGAGGTCACG
* *
51056440 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGGTAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAATTGGTCGCA
* * * * * * *
51056489 TGTGTAGTATTAAGTGTAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAA-TT-GGTCGCA
* *
51056540 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGGTAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAATTGGTCGCA
* * * * * * *
51056589 TGTGTAGTATTAAGTGTAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAA-TT-GGTCGCA
* *
51056640 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGGTAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAATTGGTCGCA
* * * * * * *
51056689 TGTGTAGTATTAAGTGTAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAA-TT-GGTCGCA
* *
51056740 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGCCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAATTGGTCGCA
*
51056789 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
51056815 TGCATACCAG
Statistics
Matches: 265, Mismatches: 55, Indels: 12
0.80 0.17 0.04
Matches are distributed among these distances:
49 138 0.52
50 12 0.05
51 115 0.43
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAATTGGTCGCA
Found at i:51056608 original size:100 final size:100
Alignment explanation
Indices: 51056435--51056827 Score: 714
Period size: 100 Copynumber: 3.9 Consensus size: 100
51056425 TATTGTGAGG
51056435 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGGTAATTGGTCGCATGTGTAGTATT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGGTAATTGGTCGCATGTGTAGTATT
51056500 AAGTGTAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGTAGGCTACTATGCGTACCCGATAACTTCGA
51056535 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGGTAATTGGTCGCATGTGTAGTATT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGGTAATTGGTCGCATGTGTAGTATT
51056600 AAGTGTAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGTAGGCTACTATGCGTACCCGATAACTTCGA
51056635 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGGTAATTGGTCGCATGTGTAGTATT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGGTAATTGGTCGCATGTGTAGTATT
51056700 AAGTGTAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGTAGGCTACTATGCGTACCCGATAACTTCGA
* * * *
51056735 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGCCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGGTAATTGGTCGCATGTGTAGTATT
* * * *
51056800 ATGTGCAGGCTACTATGCATACCAGATA
66 AAGTGTAGGCTACTATGCGTACCCGATA
51056828 GCTTTGGATA
Statistics
Matches: 285, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 285 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGGTAATTGGTCGCATGTGTAGTATT
AAGTGTAGGCTACTATGCGTACCCGATAACTTCGA
Found at i:51059438 original size:24 final size:24
Alignment explanation
Indices: 51059368--51059438 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
51059358 TAGCTCAAAA
* * * *
51059368 GAGCATCCCGATATTAGCTCTCAT
1 GAGCTTCCCGTTAATAGCTCTTAT
* * *
51059392 GAGCTTCCTGTTTAATGGTTCTTAT
1 GAGCTTCCCG-TTAATAGCTCTTAT
51059417 GAGCTTCCCGTTAATAGCTCTT
1 GAGCTTCCCGTTAATAGCTCTT
51059439 CGGAGCATCC
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
24 18 0.50
25 18 0.50
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (24 bp):
GAGCTTCCCGTTAATAGCTCTTAT
Found at i:51059550 original size:26 final size:24
Alignment explanation
Indices: 51059495--51059562 Score: 73
Period size: 26 Copynumber: 2.7 Consensus size: 24
51059485 CTTAGCTTTT
51059495 ATGAGCTTCCCGATTATGACTCTTC
1 ATGAGCTTCCC-ATTATGACTCTTC
* *
51059520 ATGAGCTTCCCATTAATTGGCTCTTT
1 ATGAGCTTCCCATT-A-TGACTCTTC
* *
51059546 GTGAGCTTCCCAATATG
1 ATGAGCTTCCCATTATG
51059563 GCTCACTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 5 0.14
25 13 0.35
26 19 0.51
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.37
Consensus pattern (24 bp):
ATGAGCTTCCCATTATGACTCTTC
Found at i:51064474 original size:49 final size:49
Alignment explanation
Indices: 51064417--51064514 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 49
51064407 AATCTCATCA
* *
51064417 AAATAAGGTTTTAAACGGGTGTTGTTTACCTTAAAAGTTCCGAACTTGG
1 AAATAAGGTTTTAAACGGGTATTGTTTACCTTAAAAGTGCCGAACTTGG
** * *
51064466 AAATAAGGTTTTAGGCGGGTATTGTTTACCTTAAAGGTGCCGAAGTTGG
1 AAATAAGGTTTTAAACGGGTATTGTTTACCTTAAAAGTGCCGAACTTGG
51064515 GCTGACTTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.34
Consensus pattern (49 bp):
AAATAAGGTTTTAAACGGGTATTGTTTACCTTAAAAGTGCCGAACTTGG
Found at i:51070409 original size:20 final size:20
Alignment explanation
Indices: 51070384--51070424 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
51070374 ATTGTTTATA
51070384 CAAAAGCCGCAGACAATGGC
1 CAAAAGCCGCAGACAATGGC
51070404 CAAAAGCCGCAGACAATGGC
1 CAAAAGCCGCAGACAATGGC
51070424 C
1 C
51070425 CATAGTAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.32, G:0.24, T:0.05
Consensus pattern (20 bp):
CAAAAGCCGCAGACAATGGC
Found at i:51073515 original size:48 final size:48
Alignment explanation
Indices: 51073361--51073508 Score: 206
Period size: 48 Copynumber: 3.1 Consensus size: 48
51073351 ATATATACAC
* * * **
51073361 ATCTCATATATATTTCACATTAGCCATTTGCCTTTACCACATATGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATATAT
** *
51073409 GGCTCATACATATTTCACATTAGCCTTTCGACTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATATAT
* *
51073457 ATCTCATACATATTTTACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATATAT
51073505 ATCT
1 ATCT
51073509 TGTACATCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATATAT
Found at i:51085098 original size:14 final size:15
Alignment explanation
Indices: 51085081--51085109 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
51085071 TCACGAAAAT
51085081 TTCACACAT-ATAAA
1 TTCACACATAATAAA
51085095 TTCACACATAATAAA
1 TTCACACATAATAAA
51085110 CATTGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:51087611 original size:37 final size:37
Alignment explanation
Indices: 51087561--51087639 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
51087551 TTATTACGAA
* * *
51087561 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
51087598 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
51087635 GTCTT
1 GTCTT
51087640 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:51087836 original size:47 final size:47
Alignment explanation
Indices: 51087758--51088168 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
51087748 CCCTTCGGGA
* * * * * *
51087758 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51087805 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51087852 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51087899 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51087946 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51087993 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51088040 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51088087 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51088134 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
51088169 AGAATCCTAA
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51096988 original size:47 final size:47
Alignment explanation
Indices: 51096922--51097264 Score: 524
Period size: 47 Copynumber: 7.1 Consensus size: 47
51096912 GAAATGATAG
51096922 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
51096969 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAA--T----GTG-A-A-A-GTGTATATATGTGA
51097026 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
51097073 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
51097120 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
51097167 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
51097214 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
51097261 TAAG
1 TAAG
51097265 TCCCGAAGGG
Statistics
Matches: 276, Mismatches: 10, Indels: 20
0.90 0.03 0.07
Matches are distributed among these distances:
47 222 0.80
48 1 0.00
49 2 0.01
50 1 0.00
51 3 0.01
53 3 0.01
54 1 0.00
55 2 0.01
56 1 0.00
57 40 0.14
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:51105818 original size:14 final size:15
Alignment explanation
Indices: 51105801--51105829 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
51105791 TCAAAAAAAC
51105801 TTCACACAT-ATAAA
1 TTCACACATAATAAA
51105815 TTCACACATAATAAA
1 TTCACACATAATAAA
51105830 CACTGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:51116345 original size:49 final size:49
Alignment explanation
Indices: 51116143--51116664 Score: 866
Period size: 49 Copynumber: 10.9 Consensus size: 49
51116133 GAAATGATAG
51116143 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
51116190 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
51116237 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
51116284 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
51116333 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
51116382 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
51116429 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
51116476 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
51116525 TAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
51116574 TAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
51116623 TAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
51116665 NNNNNNNNNN
Statistics
Matches: 454, Mismatches: 15, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
47 210 0.46
48 2 0.00
49 242 0.53
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:51116476 original size:192 final size:192
Alignment explanation
Indices: 51116143--51116662 Score: 900
Period size: 192 Copynumber: 2.7 Consensus size: 192
51116133 GAAATGATAG
51116143 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
51116206 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAG
*
51116271 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
131 TGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
51116333 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * * * * *
51116398 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAG
51116463 TGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
131 TGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
51116525 TAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
51116590 ACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAA
66 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAA
51116655 AGTGTATA
129 AGTGTATA
51116663 TANNNNNNNN
Statistics
Matches: 306, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
190 35 0.11
192 226 0.74
194 45 0.15
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (192 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAG
TGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:51121801 original size:16 final size:16
Alignment explanation
Indices: 51121759--51121793 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
51121749 TATAATAACC
51121759 TAAACTAAAAAAACTT
1 TAAACTAAAAAAACTT
51121775 TAAACTAAAAAAACTT
1 TAAACTAAAAAAACTT
51121791 TAA
1 TAA
51121794 GATAAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAACTAAAAAAACTT
Found at i:51128456 original size:19 final size:19
Alignment explanation
Indices: 51128434--51128509 Score: 82
Period size: 19 Copynumber: 3.8 Consensus size: 19
51128424 CAAGAATGTC
*
51128434 AAAAACAAAAATAAAAGAA
1 AAAAATAAAAATAAAAGAA
* *
51128453 AAAATTAAAAATAAAACAA
1 AAAAATAAAAATAAAAGAA
51128472 AAAAATAGAAAATGAAAATGAA
1 AAAAATA-AAAAT-AAAA-GAA
51128494 AAAAGAT-AAAATAAAA
1 AAAA-ATAAAAATAAAA
51128510 AATATGTTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
19 22 0.46
20 9 0.19
21 9 0.19
22 6 0.12
23 2 0.04
ACGTcount: A:0.79, C:0.03, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAAATAAAAATAAAAGAA
Found at i:51128512 original size:7 final size:7
Alignment explanation
Indices: 51128446--51128513 Score: 50
Period size: 7 Copynumber: 9.9 Consensus size: 7
51128436 AAACAAAAAT
*
51128446 AAAAGAA
1 AAAATAA
*
51128453 AAAATTA
1 AAAATAA
51128460 AAAATAA
1 AAAATAA
*
51128467 AACA-AA
1 AAAATAA
*
51128473 AAAATAG
1 AAAATAA
*
51128480 AAAAT-G
1 AAAATAA
51128486 AAAATGAA
1 AAAAT-AA
* *
51128494 AAAAGAT
1 AAAATAA
51128501 AAAATAA
1 AAAATAA
51128508 AAAATA
1 AAAATA
51128514 TGTTTGGAGT
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
6 11 0.23
7 32 0.68
8 4 0.09
ACGTcount: A:0.78, C:0.01, G:0.07, T:0.13
Consensus pattern (7 bp):
AAAATAA
Found at i:51129189 original size:22 final size:21
Alignment explanation
Indices: 51129147--51129191 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
51129137 ATTAAAATAA
* * *
51129147 AGAAAAATTACTAAAACAAAT
1 AGAAAAATAAATAAAAAAAAT
51129168 AGAAAAATAAATAAAAGAAAAT
1 AGAAAAATAAATAAAA-AAAAT
51129190 AG
1 AG
51129192 GATTACCTCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.71, C:0.04, G:0.09, T:0.16
Consensus pattern (21 bp):
AGAAAAATAAATAAAAAAAAT
Found at i:51133307 original size:16 final size:16
Alignment explanation
Indices: 51133288--51133318 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51133278 CTTCTTCACT
51133288 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
51133304 TACTTACTTACTTAA
1 TACTCACTTACTTAA
51133319 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:51133324 original size:20 final size:20
Alignment explanation
Indices: 51133285--51133324 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
51133275 AAACTTCTTC
* *
51133285 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
51133305 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
51133325 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:51133700 original size:55 final size:53
Alignment explanation
Indices: 51133510--51133765 Score: 254
Period size: 55 Copynumber: 4.8 Consensus size: 53
51133500 ACACGGGTAC
* * * * *
51133510 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA---T-CCTT-TTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG-AA
* *
51133559 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAA
* * *
51133612 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AA
* * * * * *
51133667 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAGAC
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAA
*
51133721 CTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
1 CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTG
51133766 AACCCTAATG
Statistics
Matches: 173, Mismatches: 22, Indels: 18
0.81 0.10 0.08
Matches are distributed among these distances:
49 35 0.20
52 2 0.01
53 45 0.26
54 15 0.09
55 74 0.43
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAA
Found at i:51133701 original size:108 final size:110
Alignment explanation
Indices: 51133557--51133757 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
51133547 ATCCTTTTGA
* *
51133557 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGA-A-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAGACCTCACCAA
51133620 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
51133665 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAGACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAGACCTCACCAAT
51133730 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
51133758 TATCCTTGAA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 2 0.02
108 48 0.56
109 7 0.08
110 28 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAGACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:51148504 original size:16 final size:16
Alignment explanation
Indices: 51148473--51148531 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
51148463 ATGAATCAGC
*
51148473 AAAAGCTGAAATGCCG
1 AAAAGCCGAAATGCCG
* *
51148489 AAATGCCGAAAAGCCG
1 AAAAGCCGAAATGCCG
* * *
51148505 AAAAGCCAAAATACTG
1 AAAAGCCGAAATGCCG
*
51148521 AAAAGGCGAAA
1 AAAAGCCGAAA
51148532 GTGTGGCTAC
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.51, C:0.19, G:0.22, T:0.08
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:51148507 original size:24 final size:24
Alignment explanation
Indices: 51148473--51148531 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
51148463 ATGAATCAGC
* * * *
51148473 AAAAGCTGAAATGCCGAAATGCCG
1 AAAAGCCGAAAAGCCAAAATACCG
*
51148497 AAAAGCCGAAAAGCCAAAATACTG
1 AAAAGCCGAAAAGCCAAAATACCG
*
51148521 AAAAGGCGAAA
1 AAAAGCCGAAA
51148532 GTGTGGCTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.51, C:0.19, G:0.22, T:0.08
Consensus pattern (24 bp):
AAAAGCCGAAAAGCCAAAATACCG
Found at i:51148508 original size:8 final size:8
Alignment explanation
Indices: 51148473--51148515 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
51148463 ATGAATCAGC
*
51148473 AAAAGCTG
1 AAAAGCCG
*
51148481 AAATGCCG
1 AAAAGCCG
*
51148489 AAATGCCG
1 AAAAGCCG
51148497 AAAAGCCG
1 AAAAGCCG
51148505 AAAAGCC-
1 AAAAGCCG
51148512 AAAA
1 AAAA
51148516 TACTGAAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
7 4 0.12
8 28 0.88
ACGTcount: A:0.51, C:0.21, G:0.21, T:0.07
Consensus pattern (8 bp):
AAAAGCCG
Found at i:51148796 original size:29 final size:28
Alignment explanation
Indices: 51148741--51148819 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
51148731 GTGAGCATGA
*
51148741 ATATGAATGTG-CCTGGGCCTAACGGGCC
1 ATATGAATGTGATCTGGGCCT-ACGGGCC
*
51148769 ATATGAATGTGATGTGGGCCTACTGGGCC
1 ATATGAATGTGATCTGGGCCTAC-GGGCC
* *
51148798 ATAT-ACAGGTGATTTGGGCCTA
1 ATATGA-ATGTGATCTGGGCCTA
51148820 AAGGGGCCAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
28 14 0.32
29 30 0.68
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.27
Consensus pattern (28 bp):
ATATGAATGTGATCTGGGCCTACGGGCC
Found at i:51156478 original size:40 final size:40
Alignment explanation
Indices: 51156401--51156737 Score: 556
Period size: 40 Copynumber: 8.5 Consensus size: 40
51156391 AAACCAAGTA
* * * *
51156401 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
51156440 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
51156480 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
51156520 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
51156560 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
51156600 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
51156640 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
51156680 CCTTCGGG-CTTAGCCCGG-TATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
51156719 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
51156738 TTATCATCCG
Statistics
Matches: 286, Mismatches: 8, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
38 2 0.01
39 47 0.16
40 237 0.83
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:51169597 original size:26 final size:26
Alignment explanation
Indices: 51169531--51169600 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
51169521 CGTTCCGACC
* *
51169531 CACAGCTCATGTGAACAGACCCATTT
1 CACAGCTCATGTGAGCATACCCATTT
* * *
51169557 CACAGCTCGTGTGAGCATACTCTTTT
1 CACAGCTCATGTGAGCATACCCATTT
51169583 CACAGCTCATGTGAGCAT
1 CACAGCTCATGTGAGCAT
51169601 TTATGTAAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.27
Consensus pattern (26 bp):
CACAGCTCATGTGAGCATACCCATTT
Found at i:51173402 original size:8 final size:8
Alignment explanation
Indices: 51173389--51173420 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
51173379 CTAGATCGGC
51173389 AAAAGCCG
1 AAAAGCCG
51173397 AAAAGCCG
1 AAAAGCCG
*
51173405 AAATGCCG
1 AAAAGCCG
51173413 AAAAGCCG
1 AAAAGCCG
51173421 GTATTTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:51173707 original size:28 final size:28
Alignment explanation
Indices: 51173667--51173731 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
51173657 ATGTACTAGA
*
51173667 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
51173695 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
51173723 ATACCCCTA
1 ATACCCCTA
51173732 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:51173895 original size:27 final size:27
Alignment explanation
Indices: 51173837--51173926 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
51173827 AGGAAGCGTC
51173837 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
51173865 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
51173892 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
51173921 CTGGTG
1 CTGGTG
51173927 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:51173945 original size:55 final size:56
Alignment explanation
Indices: 51173837--51173951 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
51173827 AGGAAGCGTC
* *
51173837 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
51173892 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
51173948 CTGG
1 CTGG
51173952 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:51204310 original size:20 final size:22
Alignment explanation
Indices: 51204264--51204310 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
51204254 GGAATCCAAG
51204264 AATTTTCGTTATGTTTTAGTTA
1 AATTTTCGTTATGTTTTAGTTA
*
51204286 AATTTTC-TTA-GTTTTATTTA
1 AATTTTCGTTATGTTTTAGTTA
*
51204306 CATTT
1 AATTT
51204311 AATAAAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 13 0.57
21 3 0.13
22 7 0.30
ACGTcount: A:0.23, C:0.06, G:0.09, T:0.62
Consensus pattern (22 bp):
AATTTTCGTTATGTTTTAGTTA
Done.