Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 86 of 770
Found at i:25101487 original size:75 final size:75
Alignment explanation
Indices: 25101358--25101508 Score: 194
Period size: 75 Copynumber: 2.0 Consensus size: 75
25101348 AATTGTAGTC
* * * * *
25101358 AAGCTGCCAGTAAGATGTGGACAAGCCACCAGTATTGCAGGCAAGCTCCCAGAAATATGTGTACA
1 AAGCTACCAGAAAGATGTGGACAAACCACCAGTATTGCAGGCAAGCTCCCAGAAATAAGTGGACA
*
25101423 AATCACCAGT
66 AACCACCAGT
* ** * *
25101433 AAGCTACCAGAAATATGTGGACAAACCACCAGTATTGCAGTTAAGCTGCTAGAAATAAGTGGACA
1 AAGCTACCAGAAAGATGTGGACAAACCACCAGTATTGCAGGCAAGCTCCCAGAAATAAGTGGACA
*
25101498 AGCCACCAGT
66 AACCACCAGT
25101508 A
1 A
25101509 TTGCAATTAA
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
75 64 1.00
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.19
Consensus pattern (75 bp):
AAGCTACCAGAAAGATGTGGACAAACCACCAGTATTGCAGGCAAGCTCCCAGAAATAAGTGGACA
AACCACCAGT
Found at i:25101572 original size:20 final size:20
Alignment explanation
Indices: 25101547--25101602 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
25101537 ACAAGTCACA
*
25101547 AGTATTGTAGATAAACTACT
1 AGTATTGTAGATAAACCACT
* * *
25101567 AGTATTGTGGACAAGCCACT
1 AGTATTGTAGATAAACCACT
*
25101587 AGTATTGCAGATAAAC
1 AGTATTGTAGATAAAC
25101603 AACCAGTACT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (20 bp):
AGTATTGTAGATAAACCACT
Found at i:25102264 original size:20 final size:21
Alignment explanation
Indices: 25102239--25102278 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
25102229 CTCTTGAAAC
25102239 AGGGC-ACACGTCCGTGTGGA
1 AGGGCAACACGTCCGTGTGGA
25102259 AGGGCAACACGTCCGTGTGG
1 AGGGCAACACGTCCGTGTGG
25102279 TCATTATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGCAACACGTCCGTGTGGA
Found at i:25103626 original size:99 final size:96
Alignment explanation
Indices: 25103447--25103628 Score: 242
Period size: 96 Copynumber: 1.9 Consensus size: 96
25103437 AGGGTGTAAT
* * * *
25103447 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAG
1 GCCGACGCCATATCCCAAACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAG
*
25103512 ACATGGTTTTACACTGACTATTGAGACCAAG
66 ACATGGTCTTACACTGACTATTGAGACCAAG
* *
25103543 GCCGACGCCATATCCCAAACATGGTCTTACACTAGCTC-TCACAT-ATCCGTCCCGATGCCATTT
1 GCCGACGCCATATCCCAAACATGGTCTTACACTAGCTCATC-CATCA--AGT--CGATGCCATGT
25103606 CCCAGACATGGTCTTACACTGAC
61 CCCAGACATGGTCTTACACTGAC
25103629 ACATCTCGTA
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
95 3 0.04
96 37 0.50
97 2 0.03
99 32 0.43
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (96 bp):
GCCGACGCCATATCCCAAACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAG
ACATGGTCTTACACTGACTATTGAGACCAAG
Found at i:25103682 original size:46 final size:44
Alignment explanation
Indices: 25103594--25103713 Score: 161
Period size: 46 Copynumber: 2.6 Consensus size: 44
25103584 CATATCCGTC
*
25103594 CCGATGCCATTTCCCAGACATGGTCTTACACTGACACATCTCGTA-G
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCG-AGG
* *
25103640 CCGATGCATGTCCCAGACATGTCTTACACTGGCTTACTTCTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCGAGG
25103686 CCGATGCATGTCCCAGACATGTCTTACA
1 CCGATGCATGTCCCAGACATGTCTTACA
25103714 TTAGCGTACA
Statistics
Matches: 68, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
44 12 0.18
45 14 0.21
46 42 0.62
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.27
Consensus pattern (44 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGACACATCTCGAGG
Found at i:25104664 original size:38 final size:35
Alignment explanation
Indices: 25104605--25104705 Score: 129
Period size: 31 Copynumber: 2.9 Consensus size: 35
25104595 TCAATCATGC
*
25104605 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
25104644 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
25104675 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
25104706 ACTGGGCTGA
Statistics
Matches: 57, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
31 27 0.47
33 3 0.05
34 1 0.02
36 1 0.02
38 14 0.25
39 11 0.19
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:25104666 original size:31 final size:31
Alignment explanation
Indices: 25104628--25104722 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
25104618 CCTTTTCATA
*
25104628 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
25104659 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
*
25104690 TTTCATATTTCATATTACTGGGCTGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
25104721 TT
1 TT
25104723 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:25104965 original size:24 final size:24
Alignment explanation
Indices: 25104928--25105056 Score: 206
Period size: 24 Copynumber: 5.4 Consensus size: 24
25104918 CTAGAGGCCT
*
25104928 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
25104953 AGCCCTTTCAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
25104977 AGCCCTTTT-ATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
25105000 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
25105024 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
25105048 AGCCCTTTT
1 AGCCCTTTT
25105057 TAACTTCCTC
Statistics
Matches: 100, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
23 23 0.23
24 73 0.73
25 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:25104991 original size:47 final size:48
Alignment explanation
Indices: 25104928--25105055 Score: 204
Period size: 47 Copynumber: 2.7 Consensus size: 48
25104918 CTAGAGGCCT
*
25104928 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
**
25104977 AGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
*
25105024 AGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTT
25105056 TTAACTTCCT
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
47 44 0.59
48 27 0.36
49 4 0.05
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
Found at i:25105017 original size:71 final size:71
Alignment explanation
Indices: 25104928--25105061 Score: 216
Period size: 71 Copynumber: 1.9 Consensus size: 71
25104918 CTAGAGGCCT
25104928 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTTATAACTG
1 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTT-TAACTG
25104993 GGGCATA
65 GGGCATA
* * **
25105000 AGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTTAACT
1 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTTTAACT
25105062 TCCTCCATCC
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
70 5 0.09
71 49 0.84
72 4 0.07
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (71 bp):
AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTTTAACTGG
GGCATA
Found at i:25105135 original size:20 final size:20
Alignment explanation
Indices: 25105107--25105166 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
25105097 TATGATTACC
*
25105107 TCATATGCATATCATACATA
1 TCATGTGCATATCATACATA
*
25105127 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
25105147 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
25105167 CCATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:25109258 original size:45 final size:44
Alignment explanation
Indices: 25109150--25109350 Score: 149
Period size: 45 Copynumber: 4.5 Consensus size: 44
25109140 CGAAATTAGA
* * *
25109150 AAGACCATAGTTGAAAGATACTGTGGCACTAAACTAGAATGAAT
1 AAGACCATAGTTGAAAGATACTATGGCACTAAACAAAAATGAAT
* ** * * **
25109194 AAGACCATAATTGGGAGATACAATGGTACTAAACCAAAAATGTGT
1 AAGACCATAGTTGAAAGATACTATGGCACTAAA-CAAAAATGAAT
* * * *
25109239 AAGACTATAGTTGAAAGATACTATGGCATTAAATCTAATA-GAAAT
1 AAGACCATAGTTGAAAGATACTATGGCACTAAA-CAAAAATG-AAT
* * * **
25109284 AAGACC--AGTTGAAAGATATTATGGCATTACATCAGTAAT-AAT
1 AAGACCATAGTTGAAAGATACTATGGCACTA-AACAAAAATGAAT
*
25109326 CAAGACTATAGTTGAAAGATACTAT
1 -AAGACCATAGTTGAAAGATACTAT
25109351 AACACTACCT
Statistics
Matches: 119, Mismatches: 31, Indels: 13
0.73 0.19 0.08
Matches are distributed among these distances:
42 3 0.03
43 29 0.24
44 29 0.24
45 58 0.49
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (44 bp):
AAGACCATAGTTGAAAGATACTATGGCACTAAACAAAAATGAAT
Found at i:25109331 original size:43 final size:44
Alignment explanation
Indices: 25109238--25109350 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 44
25109228 CAAAAATGTG
*
25109238 TAAGACTATAGTTGAAAGATACTATGGCATTAAATCTAATAGAAA
1 TAAGAC-ACAGTTGAAAGATACTATGGCATTAAATCTAATAGAAA
* * *
25109283 TAAGAC-CAGTTGAAAGATATTATGGCATTACATC-AGTA-ATAA
1 TAAGACACAGTTGAAAGATACTATGGCATTAAATCTAATAGA-AA
*
25109325 TCAAGACTATAGTTGAAAGATACTAT
1 T-AAGAC-ACAGTTGAAAGATACTAT
25109351 AACACTACCT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.02
42 6 0.10
43 30 0.52
45 21 0.36
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (44 bp):
TAAGACACAGTTGAAAGATACTATGGCATTAAATCTAATAGAAA
Found at i:25115850 original size:32 final size:32
Alignment explanation
Indices: 25115800--25115864 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
25115790 TTCTTATTAT
*
25115800 ATGTAGGAAGCATCGATCACACTATCATTCGA
1 ATGTAGGAAGCATCGATCACACTATCATCCGA
* *
25115832 ATGTTGGAGGCATCGATCACACTATCATCCGA
1 ATGTAGGAAGCATCGATCACACTATCATCCGA
25115864 A
1 A
25115865 GCACTTGGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (32 bp):
ATGTAGGAAGCATCGATCACACTATCATCCGA
Found at i:25119555 original size:25 final size:25
Alignment explanation
Indices: 25119526--25119577 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
25119516 GAGAGTGAGC
25119526 ACGCAAAGCATTTGAGAACGGTTTT
1 ACGCAAAGCATTTGAGAACGGTTTT
25119551 ACGCAAAGCATTTGAGAACGGTTTT
1 ACGCAAAGCATTTGAGAACGGTTTT
25119576 AC
1 AC
25119578 AAACCTTGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (25 bp):
ACGCAAAGCATTTGAGAACGGTTTT
Found at i:25123085 original size:46 final size:49
Alignment explanation
Indices: 25122982--25123301 Score: 251
Period size: 46 Copynumber: 6.8 Consensus size: 49
25122972 CCACATTATA
* * ** * *
25122982 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTATTGAGACG-
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGT
25123030 AGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGT
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGT
*
25123077 A-AGCTAGTGTAAGA-CATGTCTGGGACCT-GCAT-GG-CTACGAGATGT
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGT
* * * * *
25123122 -G-TC-AGTGTAAAACCATGTTTGGGACATGGCATCGGCAC-GGATATGT
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATGT
* * * * * *
25123168 GAGAGCTAGTGTAAGACCATGTTTAGGACATGGCTTTGGCCTCG-GTTTT
1 -AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGT
* * * *
25123217 GATAG-TCAGTGTAAGACCATGTCTGGGACATGGCATC-GACT--TGATGG
1 -AGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGT
* *
25123264 ATGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
1 A-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
25123302 ACATTATACC
Statistics
Matches: 220, Mismatches: 34, Indels: 36
0.76 0.12 0.12
Matches are distributed among these distances:
43 8 0.04
44 15 0.07
45 14 0.06
46 51 0.23
47 48 0.22
48 20 0.09
49 34 0.15
50 30 0.14
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (49 bp):
AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGT
Found at i:25123244 original size:99 final size:96
Alignment explanation
Indices: 25123122--25123297 Score: 248
Period size: 96 Copynumber: 1.8 Consensus size: 96
25123112 TACGAGATGT
* *
25123122 GTCAGTGTAAAACCATGTTTGGGACATGGCATCGGCACGGAT-ATGTGA-GAGCTAGTGTAAGAC
1 GTCAGTGTAAAACCATGTCTGGGACATGGCATC-G-AC--ATGATG-GATGAGCCAGTGTAAGAC
*
25123185 CATGTTTAGGACATGGCTTTGGCCTCGGTTTTGATA
61 CATGTCTAGGACATGGCTTTGGCCTCGGTTTTGATA
* *
25123221 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAGCCAGTGTAAGACCATGT
1 GTCAGTGTAAAACCATGTCTGGGACATGGCATCGACATGATGGATGAGCCAGTGTAAGACCATGT
25123286 CTAGGACATGGC
66 CTAGGACATGGC
25123298 ATCGACATTA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
95 3 0.04
96 33 0.47
97 2 0.03
98 1 0.01
99 31 0.44
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.27
Consensus pattern (96 bp):
GTCAGTGTAAAACCATGTCTGGGACATGGCATCGACATGATGGATGAGCCAGTGTAAGACCATGT
CTAGGACATGGCTTTGGCCTCGGTTTTGATA
Found at i:25123287 original size:47 final size:48
Alignment explanation
Indices: 25122939--25123303 Score: 199
Period size: 47 Copynumber: 7.8 Consensus size: 48
25122929 TTATTTGTGT
* * *** * * *
25122939 GCCAGTGTAAGA-TATGTATGGGACAT-GCATCGACCACATTATAAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGAGATGA
25122985 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTA-TTGA-GACGA-GA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTGATGA-GATGA
* * * *
25123033 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGA-GATG-TAA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATGA-GATGA
* * * * *
25123079 GCTAGTGTAAGA-CATGTCTGGGACCT-GCAT-GGC-T-ACGAGATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGAGATGA
* * * * *
25123122 GTCAGTGTAAAACCATGTTTGGGACATGGCATCGGCAC-GGATATGTGA-GA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTG--ATGAGATGA
* * * * * * * * **
25123172 GCTAGTGTAAGACCATGTTTAGGACATGGCTTTGGCCTCGGTTTTGAT-A
1 GCCAGTGTAAGACCATGTCTGGGACATGGC-ATCGACT-TGATGAGATGA
*
25123221 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATG-GATGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGAGATGA
*
25123268 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGAC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
25123304 ATTATACCCT
Statistics
Matches: 248, Mismatches: 49, Indels: 43
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.01
43 12 0.05
44 14 0.06
45 4 0.02
46 57 0.23
47 64 0.26
48 24 0.10
49 35 0.14
50 29 0.12
51 7 0.03
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGAGATGA
Found at i:25126558 original size:45 final size:45
Alignment explanation
Indices: 25126507--25126594 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
25126497 ATGTTAATTA
*
25126507 GTTGTGAGGGGGAAATATGGAATGCTGCATAAATCAAAGTGTTGG
1 GTTGTGAGGGAGAAATATGGAATGCTGCATAAATCAAAGTGTTGG
25126552 GTTGTGAGGGAGAAATATGGAATGCTGCATAAATCAAAGTGTT
1 GTTGTGAGGGAGAAATATGGAATGCTGCATAAATCAAAGTGTT
25126595 AGGTAGTTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.27
Consensus pattern (45 bp):
GTTGTGAGGGAGAAATATGGAATGCTGCATAAATCAAAGTGTTGG
Found at i:25127801 original size:20 final size:21
Alignment explanation
Indices: 25127762--25127801 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25127752 GTTATAATAA
*
25127762 CCACACGGGCGTCTTGCCCTT
1 CCACACGGGCGTCGTGCCCTT
25127783 CCACACGGGCGT-GTGCCCT
1 CCACACGGGCGTCGTGCCCT
25127802 GTTTCAAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.42, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACGGGCGTCGTGCCCTT
Found at i:25130603 original size:38 final size:38
Alignment explanation
Indices: 25130544--25130650 Score: 187
Period size: 38 Copynumber: 2.8 Consensus size: 38
25130534 TCAATCATGC
*
25130544 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
25130583 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
25130621 ACTGGGCCGAAGCCTTTTCATATTTCATAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATAT
25130651 CACTGGGCCG
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
38 54 0.83
39 11 0.17
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.39
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:25130609 original size:31 final size:31
Alignment explanation
Indices: 25130567--25130668 Score: 125
Period size: 31 Copynumber: 3.1 Consensus size: 31
25130557 CCTTTTCATA
25130567 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
25130604 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
25130636 TTTCATATTTCAT-ATCACTGGGCCGAAGCCT
1 TTTCATATTTCATAAT-ACTGGGCCGAAGCCT
25130667 TT
1 TT
25130669 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 0, Indels: 9
0.88 0.00 0.12
Matches are distributed among these distances:
30 2 0.03
31 30 0.48
32 1 0.02
33 1 0.02
37 1 0.02
38 28 0.44
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:25130906 original size:24 final size:24
Alignment explanation
Indices: 25130860--25130931 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
25130850 GCTTTATCAT
*
25130860 ATAACTGGAGGCC-TAGCCTCTTTTA
1 ATAACTGG-GGCCAAAGCC-CTTTTA
*
25130885 ATAACTGGGGCCAAAGCCCTTTCA
1 ATAACTGGGGCCAAAGCCCTTTTA
25130909 ATAACTGGGG-CATAAGCCCTTTT
1 ATAACTGGGGCCA-AAGCCCTTTT
25130932 TCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 2 0.05
24 28 0.67
25 12 0.29
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCCAAAGCCCTTTTA
Found at i:25131007 original size:20 final size:20
Alignment explanation
Indices: 25130982--25131041 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
25130972 TATGATTACC
25130982 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
25131002 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
25131022 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
25131042 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:25131116 original size:25 final size:25
Alignment explanation
Indices: 25131084--25131131 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
25131074 ATACATAAAC
* * *
25131084 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
25131109 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
25131132 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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:25135217 original size:40 final size:40
Alignment explanation
Indices: 25135168--25135372 Score: 216
Period size: 40 Copynumber: 5.2 Consensus size: 40
25135158 TCTTCGGAAT
* *
25135168 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* **** *
25135207 TTAACCCGGAT-TTGGTATCTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCA-CTAGCACAAATGCCTTCGGGTC
* * * *
25135247 TTAGCCCGGATATGACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
25135287 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
** * *
25135327 TTAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
25135367 TTAGCC
1 TTAGCC
25135373 GGGTATCATT
Statistics
Matches: 140, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 5 0.04
40 133 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:25138929 original size:12 final size:12
Alignment explanation
Indices: 25138912--25138950 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
25138902 ATGTTTTGTT
25138912 ACACGGCCTGCC
1 ACACGGCCTGCC
* *
25138924 ACACGGGCGGCC
1 ACACGGCCTGCC
*
25138936 ACACAGCCTGCC
1 ACACGGCCTGCC
25138948 ACA
1 ACA
25138951 TGCCCGTGTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.23, C:0.46, G:0.26, T:0.05
Consensus pattern (12 bp):
ACACGGCCTGCC
Found at i:25143281 original size:30 final size:31
Alignment explanation
Indices: 25143228--25143286 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
25143218 ATTTACGAGC
*
25143228 CTAAGGGCAAAATCGTAATTTTTG-TAAAGT
1 CTAAAGGCAAAATCGTAATTTTTGCTAAAGT
*
25143258 CTAAAGGCAAAATGGTCAA-TTTTGCTAAA
1 CTAAAGGCAAAATCGT-AATTTTTGCTAAA
25143287 CCATATATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.31
Consensus pattern (31 bp):
CTAAAGGCAAAATCGTAATTTTTGCTAAAGT
Found at i:25145119 original size:46 final size:46
Alignment explanation
Indices: 25145018--25145105 Score: 113
Period size: 46 Copynumber: 1.9 Consensus size: 46
25145008 TGTAACCCGC
* * * *
25145018 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* * *
25145064 CCATAAGTGAACTCGGATTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
25145106 AACCATCCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:25146545 original size:49 final size:48
Alignment explanation
Indices: 25146389--25146654 Score: 175
Period size: 49 Copynumber: 5.6 Consensus size: 48
25146379 CAGGATATTA
* * *
25146389 CAGTGTAAGA-CATGTCTGGGACAT-GTATCGGCCTCGAGATGT-A-AGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATC-G-CACGATATGTGAGAGC
* *
25146435 CAGTGTAAGA-CATGTCTGAGACAT-GCATCGGCTACGAGT-TGT----GT
1 CAGTGTAAGACCATGTCTGGGACATGGCATC-GC-ACGA-TATGTGAGAGC
* *
25146479 CAGTGTAAGACCGTGTCTAGGACATGGCATCGGCACGGATATGTGAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATC-GCAC-GATATGTGAGAGC
* ** * * *
25146529 CAGT-TAAGACCATGTCTGGGACATGGCGTCAGCTTTGAT-TTTGATAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATC-GC-ACGATATGTGAGAGC
* * * * *
25146577 CAGTATATGACCATGTCTGGGACATGGCATC-AACTAGATG-GATGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGCACGATATGTGA-GAGC
25146624 CAGTGTAAGACCATGTCTGGGACATGGCATC
1 CAGTGTAAGACCATGTCTGGGACATGGCATC
25146655 AACATCACAC
Statistics
Matches: 176, Mismatches: 30, Indels: 27
0.76 0.13 0.12
Matches are distributed among these distances:
44 11 0.06
45 15 0.09
46 51 0.29
47 32 0.18
48 10 0.06
49 52 0.30
50 5 0.03
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGCACGATATGTGAGAGC
Found at i:25150902 original size:42 final size:42
Alignment explanation
Indices: 25150856--25151009 Score: 202
Period size: 42 Copynumber: 3.6 Consensus size: 42
25150846 TGAGATTACT
* * * *
25150856 TGTAAGACCATATCTGGGGTATGACATCTATATGAGACTTTG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCG
*
25150898 TGTAAGACCATATCTAGGATATGGCATCGATATGAGACTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCG
* * * *
25150940 TGTAAGACCATAGCTGGGTTATTGGCATCGATACGCGA-TTACG
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGACTT-CG
25150983 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
25151010 TGGTACGATA
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
42 63 0.64
43 35 0.36
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCG
Found at i:25152701 original size:24 final size:24
Alignment explanation
Indices: 25152674--25152836 Score: 281
Period size: 24 Copynumber: 6.8 Consensus size: 24
25152664 GCTGGAAATA
25152674 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
25152698 TATGGCACTATGTGTGCGATCCAC
1 TATGGCACTATGTGTGCGATTTAC
25152722 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
25152746 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
25152770 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
* **
25152794 TATGGAACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
25152818 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
25152837 ACATAATAAG
Statistics
Matches: 131, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 131 1.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:25177078 original size:39 final size:39
Alignment explanation
Indices: 25177008--25177225 Score: 287
Period size: 39 Copynumber: 5.5 Consensus size: 39
25176998 ACAAAGCATG
* * * *
25177008 CGGGACTTTAAGCCCGAATATAATACCAGCAC-AAAGCCTA
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
* *
25177048 CGGAACTTTAGCCTGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
25177088 CGAGG-CTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CG-GGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
25177127 TGGGGCTTGGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
25177166 CGGGACTTAGCCCGGATATAACACCAGAACGAATGCGTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
25177205 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
25177226 TTCTCCATTA
Statistics
Matches: 160, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
38 2 0.01
39 140 0.88
40 17 0.11
41 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:25177251 original size:2 final size:2
Alignment explanation
Indices: 25177244--25177269 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25177234 TATCATGCAC
25177244 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
25177270 CATAACACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25183010 original size:39 final size:39
Alignment explanation
Indices: 25182914--25183206 Score: 450
Period size: 39 Copynumber: 7.5 Consensus size: 39
25182904 ACAAAGCATG
* * * *
25182914 CGGGACTTTAAGCCCGAATATAATACCAGCAC-AAAGCCTA
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
25182954 C--GACTTTAGCCAGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
25182992 TGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
25183031 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
25183070 -GGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
25183108 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
25183147 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
25183186 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
25183207 TTCTCCATTA
Statistics
Matches: 239, Mismatches: 10, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
37 19 0.08
38 50 0.21
39 167 0.70
40 3 0.01
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:25183101 original size:116 final size:117
Alignment explanation
Indices: 25182914--25183206 Score: 450
Period size: 116 Copynumber: 2.5 Consensus size: 117
25182904 ACAAAGCATG
* * * * *
25182914 CGGGACTTTAAGCCCGAATATAATACCAGCAC-AAAGCCTAC--GACTTTAGCCAGGATATAACA
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC-TTAGCCCGGATATAACA
* *
25182976 CCAGCACGAATGCCTTTGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
63 CCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
25183031 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT-GGGGCTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCA
25183095 GCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
66 GCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
25183147 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
25183207 TTCTCCATTA
Statistics
Matches: 161, Mismatches: 11, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
115 20 0.12
116 115 0.71
117 26 0.16
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (117 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCA
GCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:25185383 original size:46 final size:48
Alignment explanation
Indices: 25185257--25185394 Score: 153
Period size: 46 Copynumber: 2.9 Consensus size: 48
25185247 TTACATGAGT
*
25185257 GTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTA
1 GTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CC-A
* * * * *
25185308 GTT-ACAT-C-TCA-CGAACTCAGACTCAACTCAATGAGTTCGGA-C-
1 GTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCA
25185350 GTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 GTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
25185395 TGCCCAAATA
Statistics
Matches: 72, Mismatches: 11, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
42 3 0.04
43 3 0.04
44 2 0.03
45 2 0.03
46 27 0.38
47 26 0.36
48 2 0.03
49 1 0.01
50 3 0.04
51 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (48 bp):
GTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCA
Found at i:25187815 original size:53 final size:53
Alignment explanation
Indices: 25187734--25187884 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
25187724 CTTACACGGT
* *
25187734 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
25187789 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
25187842 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
25187885 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:25191259 original size:51 final size:51
Alignment explanation
Indices: 25191172--25191283 Score: 143
Period size: 51 Copynumber: 2.2 Consensus size: 51
25191162 CTACCTTATA
* * * *
25191172 ACATGTAACACATCCATGATGAACTCAGACCTCTCAACGAGCTCGGATGTT
1 ACATGTATCACATCCATGATGAACTCAGACCACTCAACAAGCTCGGATGCT
* * **
25191223 ACATGTATCGCATCCATTATGAACTTGGACCACTCAACAAGCTCGGATGCT
1 ACATGTATCACATCCATGATGAACTCAGACCACTCAACAAGCTCGGATGCT
*
25191274 ACATATATCA
1 ACATGTATCA
25191284 TGAACTTGGA
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (51 bp):
ACATGTATCACATCCATGATGAACTCAGACCACTCAACAAGCTCGGATGCT
Found at i:25191339 original size:43 final size:42
Alignment explanation
Indices: 25191241--25191357 Score: 180
Period size: 43 Copynumber: 2.8 Consensus size: 42
25191231 CGCATCCATT
* **
25191241 ATGAACTTGGACCACTCAACAAGCTCGGATGCTACATATATC
1 ATGAACTTGGACCACTCAACAAGCTCAGATTTTACATATATC
*
25191283 ATGAACTTGGACCACTCAACAAGTTCAGATTTTCACATATATC
1 ATGAACTTGGACCACTCAACAAGCTCAGATTTT-ACATATATC
*
25191326 ATGAACTTAGACCACTCAACAAGCTCAGATTT
1 ATGAACTTGGACCACTCAACAAGCTCAGATTT
25191358 CTTAATTCCT
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
42 29 0.43
43 39 0.57
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (42 bp):
ATGAACTTGGACCACTCAACAAGCTCAGATTTTACATATATC
Found at i:25196455 original size:24 final size:24
Alignment explanation
Indices: 25196423--25196534 Score: 104
Period size: 24 Copynumber: 4.7 Consensus size: 24
25196413 GGCTATCTCA
*
25196423 AATGCACTATGTGTGCAATTTATT
1 AATGCACTATGTGTGCAATTTACT
* *
25196447 AATGCACTATGTGTGCGATTTGCT
1 AATGCACTATGTGTGCAATTTACT
* *
25196471 -ATGGCACTATGTGTGCGATTTGCT
1 AAT-GCACTATGTGTGCAATTTACT
** *
25196495 -ATGGCACTATGTGTGCGAACATAAT
1 AAT-GCACTATGTGTGC-AATTTACT
25196520 AA-GCACTATGTGTGC
1 AATGCACTATGTGTGC
25196535 CACATTCGGT
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
23 2 0.03
24 71 0.92
25 3 0.04
26 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (24 bp):
AATGCACTATGTGTGCAATTTACT
Found at i:25210912 original size:172 final size:172
Alignment explanation
Indices: 25210623--25210966 Score: 442
Period size: 172 Copynumber: 2.0 Consensus size: 172
25210613 AATTAACCCT
*
25210623 CGTGGTAATGAGTTCAACCATTGTTTAGCTTTGTTCCTCAACGAAAAGGGAAACAACCGAAAGCA
1 CGTGGTAATGAGTTCAACCACTGTTTAGCTTTGTTCCTCAACGAAAAGGGAAACAACCGAAAGCA
* * * *
25210688 AATGGGATCATCAGAAACGCCATTGATCATAAAAGTGTCGCAAAACTCTAAGAAATTCACCAAAT
66 AATGGCATCATCAGAAACACCATTAATCATAAAAGTATCGCAAAACTCTAAGAAATTCACCAAAT
* * * *
25210753 GAGCATTTGTG-TCCTCGTCCTGCAAACCATCAAACTGAACAA
131 GAGC-GTTGGGATCCTCATCCTACAAACCATCAAACTGAACAA
* *
25210795 CGTGGTAATGAGTTCAACCACTGTTTAGCTTTGTTCCTCAATGAAAAAGGG-AATAACCG-AAGA
1 CGTGGTAATGAGTTCAACCACTGTTTAGCTTTGTTCCTCAACG-AAAAGGGAAACAACCGAAAG-
* ** * * ** * ** *
25210858 CGAATGGCATCATCAGAAACACCATTAATTTTAAATGTATCGCATAGTTCTAAGAAGTTGGCTAA
64 CAAATGGCATCATCAGAAACACCATTAATCATAAAAGTATCGCAAAACTCTAAGAAATTCACCAA
25210923 ATGAGCGTTGGGATCCTCATCCTACAAACCATCAAACTGAACAA
129 ATGAGCGTTGGGATCCTCATCCTACAAACCATCAAACTGAACAA
25210967 ATTGTTGTAT
Statistics
Matches: 147, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
171 7 0.05
172 133 0.90
173 7 0.05
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (172 bp):
CGTGGTAATGAGTTCAACCACTGTTTAGCTTTGTTCCTCAACGAAAAGGGAAACAACCGAAAGCA
AATGGCATCATCAGAAACACCATTAATCATAAAAGTATCGCAAAACTCTAAGAAATTCACCAAAT
GAGCGTTGGGATCCTCATCCTACAAACCATCAAACTGAACAA
Found at i:25215022 original size:46 final size:45
Alignment explanation
Indices: 25214921--25215055 Score: 182
Period size: 46 Copynumber: 3.0 Consensus size: 45
25214911 TATATTTAGT
25214921 AATTTTGTTTTAGGGTTCATATGAAATTGGG-TTTTTTAGTTTGC
1 AATTTTGTTTTAGGGTTCATATGAAATTGGGATTTTTTAGTTTGC
* * * *
25214965 AATATTATTTTAGGGTTTATACGAAATTGAGGATTTTTTAGTTTGC
1 AATTTTGTTTTAGGGTTCATATGAAATTG-GGATTTTTTAGTTTGC
* * *
25215011 AATTTTGTTTTAAGGTTCATATGAATTTGGGGAGTTTTTAGTTTG
1 AATTTTGTTTTAGGGTTCATATGAAATT-GGGATTTTTTAGTTTG
25215056 TTTGATTTTT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
44 25 0.32
45 2 0.03
46 49 0.64
47 1 0.01
ACGTcount: A:0.24, C:0.04, G:0.22, T:0.50
Consensus pattern (45 bp):
AATTTTGTTTTAGGGTTCATATGAAATTGGGATTTTTTAGTTTGC
Found at i:25217907 original size:16 final size:17
Alignment explanation
Indices: 25217886--25217927 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
25217876 ATATATTTTA
25217886 AAAAAATTATTAGTAT-
1 AAAAAATTATTAGTATG
25217902 AAAAAATTATTAGTATG
1 AAAAAATTATTAGTATG
*
25217919 ATAAAATTA
1 AAAAAATTA
25217928 AATACGAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (17 bp):
AAAAAATTATTAGTATG
Found at i:25232522 original size:27 final size:28
Alignment explanation
Indices: 25232465--25232534 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
25232455 AAATTTGTAC
**
25232465 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
25232493 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
25232520 AGCATTAAGTGTGCG
1 AGCACTAAGTGTGCG
25232535 GACTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:25232545 original size:27 final size:27
Alignment explanation
Indices: 25232465--25232546 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 27
25232455 AAATTTGTAC
** * *
25232465 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCG-AGCTCACTATAT
* * *
25232493 AGCACTATGTGTGCGAGCTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
25232520 AGCATTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
25232547 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
26 1 0.02
27 31 0.67
28 14 0.30
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:25239380 original size:40 final size:40
Alignment explanation
Indices: 25239295--25239444 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
25239285 AATTGAATGA
* * *
25239295 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGATA-TAC
* * *
25239335 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAT--ATAC
*
25239376 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGATATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGATATAC
25239415 TATCCGGGCTAAGACCCGAAGGCAATTGTG
1 TATCCGGGCTAAGACCCGAAGGCAATTGTG
25239445 AACGTGATTA
Statistics
Matches: 91, Mismatches: 10, Indels: 18
0.76 0.08 0.15
Matches are distributed among these distances:
39 5 0.05
40 81 0.89
41 5 0.05
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGATATAC
Found at i:25239459 original size:40 final size:39
Alignment explanation
Indices: 25239331--25239461 Score: 133
Period size: 40 Copynumber: 3.3 Consensus size: 39
25239321 TATGCTGGAA
*
25239331 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTG-CTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCAATTGTGAC--GTG
** * *
25239371 GCTACATCCGGGCTAAGACCCGAAGGC-ATTCGTG-CGAG
1 ATTATATCCGGGCTAAGACCCGAAGGCAATT-GTGACGTG
*
25239409 ATATTCTATCCGGGCTAAGACCCGAAGGCAATTGTGAACGTG
1 --ATTATATCCGGGCTAAGACCCGAAGGCAATTGTG-ACGTG
25239451 ATTATATCCGG
1 ATTATATCCGG
25239462 TTATATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
38 2 0.03
39 3 0.04
40 63 0.85
41 3 0.04
42 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
ATTATATCCGGGCTAAGACCCGAAGGCAATTGTGACGTG
Found at i:25250756 original size:36 final size:36
Alignment explanation
Indices: 25250709--25250780 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
25250699 TGACCATAAC
*
25250709 ACCACAGGCATTGGCACGTATACATAAATAAATGGG
1 ACCACAGGCATTGGCACATATACATAAATAAATGGG
25250745 ACCACAGGCATTGGCACATATACATAAATAAATGGG
1 ACCACAGGCATTGGCACATATACATAAATAAATGGG
25250781 CTTACAACCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (36 bp):
ACCACAGGCATTGGCACATATACATAAATAAATGGG
Found at i:25258926 original size:49 final size:50
Alignment explanation
Indices: 25258853--25259098 Score: 291
Period size: 49 Copynumber: 4.9 Consensus size: 50
25258843 ATCTATTGTG
* *
25258853 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTAAGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAATT
* * * *
25258903 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAA-TT
* * * * **
25258953 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAATT
* *
25259003 AGGTCACGTGTGTAGTACTAACTGCATGCTACTACA-TGTACCAGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA-AGTGTACCAGATAATT
* * * *
25259053 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATA
25259099 GCCTTGTCTA
Statistics
Matches: 165, Mismatches: 27, Indels: 9
0.82 0.13 0.04
Matches are distributed among these distances:
49 81 0.49
50 45 0.27
51 39 0.24
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAATT
Found at i:25259050 original size:101 final size:98
Alignment explanation
Indices: 25258856--25259098 Score: 297
Period size: 100 Copynumber: 2.4 Consensus size: 98
25258846 TATTGTGAGG
* *
25258856 TCACGTGTGTAGTACTAAGTGCAAGCTACTAAGTGTACCGGATAATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAATTGGTCACATGTGTAGTACT
* ** *
25258921 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AACTGCAGGCTACTACACGTACCAGATAA-TT-GA
* * ** *
25258956 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAATT-GGTCACATGTGTAGTAC
* * *
25259021 TAACTGCATGCTACTACATGTACCAGATAATTGG
65 TAACTGCAGGCTACTACACGTACCAGATAATTGA
* * * *
25259055 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATA
25259099 GCCTTGTCTA
Statistics
Matches: 122, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
99 39 0.32
100 43 0.35
101 40 0.33
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAATTGGTCACATGTGTAGTACT
AACTGCAGGCTACTACACGTACCAGATAATTGA
Found at i:25270063 original size:50 final size:50
Alignment explanation
Indices: 25269947--25270175 Score: 217
Period size: 50 Copynumber: 4.6 Consensus size: 50
25269937 TATTTGGTAT
* * ** **
25269947 ACGTAGTAGCTTGCACTTAATACTACACATGCGACC-AAAAATCCAATAC
1 ACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGATAC
* * *
25269996 ACGTAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGATAC
1 ACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGATAC
* * * * * * * * * *
25270046 ATGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCGGGTAT
1 ACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CTATCTGATAC
*** *
25270097 GTATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTAC
1 ACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGATAC
* *
25270147 ACGTAGTAGCCTGCACTGAGTTCTACACA
1 ACGTAGTAGCCTGCACTTAGTACTACACA
25270176 CATGGCCTAA
Statistics
Matches: 144, Mismatches: 34, Indels: 3
0.80 0.19 0.02
Matches are distributed among these distances:
49 32 0.22
50 74 0.51
51 38 0.26
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (50 bp):
ACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGATAC
Found at i:25270807 original size:157 final size:157
Alignment explanation
Indices: 25270521--25270834 Score: 522
Period size: 157 Copynumber: 2.0 Consensus size: 157
25270511 CTTGATCTAT
* * * *
25270521 AATAACACATTTGACTTATTAATGGCTCACATTATTCAAATTAGCCCAAAAACATCCTATGCTAA
1 AATAAAACATTTGACTTATTAATGGATCACATTATTAAAATTAGCCCAAAAACATCCTATGCAAA
* *
25270586 AATTTACGATTTTACACCTAAAGTTTCACAAAATTATGATTTTACCCCTAGGCTTGGAAAATAAT
66 AATTTACGATTTTACACCTAAAGTTTCACAAAATTATGATTTTACCACTAGGCTCGGAAAATAAT
25270651 TTTTATTCAATTTCCTTGTATTTTAGG
131 TTTTATTCAATTTCCTTGTATTTTAGG
* *
25270678 AATAAAACATTTGATTTATTAATGGATCACATTATTAAAATTAGCCCAAAAACATCCTATGGAAA
1 AATAAAACATTTGACTTATTAATGGATCACATTATTAAAATTAGCCCAAAAACATCCTATGCAAA
* *
25270743 AATTTACGATTTTACCCCTAAAGTTTCA-ATAAATTATGATTTTGCCACTAGGCTCGGAAAATAA
66 AATTTACGATTTTACACCTAAAGTTTCACA-AAATTATGATTTTACCACTAGGCTCGGAAAATAA
25270807 TTTTTATTCAATTTCCTTGTATTTTAGG
130 TTTTTATTCAATTTCCTTGTATTTTAGG
25270835 CCTAGCCAAA
Statistics
Matches: 146, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
156 1 0.01
157 145 0.99
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (157 bp):
AATAAAACATTTGACTTATTAATGGATCACATTATTAAAATTAGCCCAAAAACATCCTATGCAAA
AATTTACGATTTTACACCTAAAGTTTCACAAAATTATGATTTTACCACTAGGCTCGGAAAATAAT
TTTTATTCAATTTCCTTGTATTTTAGG
Found at i:25277783 original size:50 final size:50
Alignment explanation
Indices: 25277658--25277907 Score: 268
Period size: 50 Copynumber: 5.0 Consensus size: 50
25277648 GTAACCGAAG
* * * *
25277658 CTATTTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * *
25277707 CAATCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * * * * *
25277757 CCATCTGATACACGTAGTAACCTGCACTTAGTACTACACACGTGATCGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * * * * * * *
25277807 GTTGTCGGGTACGCATAATAGCTTGCACTTAGTACTACACTTGTGACCTAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * *
25277858 CTGTCTGGTACAAGTAGTAGCCTACACTTAGTACTACACATGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
25277908 AACCTTCTTA
Statistics
Matches: 163, Mismatches: 36, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
49 40 0.25
50 87 0.53
51 36 0.22
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (50 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
Found at i:25287110 original size:46 final size:45
Alignment explanation
Indices: 25287035--25287140 Score: 117
Period size: 46 Copynumber: 2.3 Consensus size: 45
25287025 AGTGTCAGAC
* *
25287035 CATGTCTGGGACATGCATCGGCCTTGAGATGTAAGCCAATGTAA-AA
1 CATGTCTGGGACATGCATCGGACTCGAGATGT--GCCAATGTAAGAA
* * * *
25287081 CATGTCTGGGACATGTATC-GACTACGAGATGTGTCAGTGTAAGAT
1 CATGTCTGGGACATGCATCGGACT-CGAGATGTGCCAATGTAAGAA
25287126 CATGTCTGGGACATG
1 CATGTCTGGGACATG
25287141 GCATTGGCAC
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
44 8 0.15
45 19 0.37
46 25 0.48
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (45 bp):
CATGTCTGGGACATGCATCGGACTCGAGATGTGCCAATGTAAGAA
Found at i:25293283 original size:40 final size:40
Alignment explanation
Indices: 25293214--25293417 Score: 329
Period size: 40 Copynumber: 5.1 Consensus size: 40
25293204 AACCCAAGTA
* **
25293214 CCTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
25293253 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
25293293 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
25293333 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
25293373 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
25293413 CCTTC
1 CCTTC
25293418 AGATCTTAGT
Statistics
Matches: 156, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
39 13 0.08
40 143 0.92
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:25303022 original size:13 final size:13
Alignment explanation
Indices: 25303004--25303036 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
25302994 AGTATTACCT
25303004 GTGCCCCTGGCCG
1 GTGCCCCTGGCCG
25303017 GTGCCCCTGGCCG
1 GTGCCCCTGGCCG
25303030 GTGCCCC
1 GTGCCCC
25303037 ATGTCCTCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.00, C:0.48, G:0.36, T:0.15
Consensus pattern (13 bp):
GTGCCCCTGGCCG
Found at i:25307504 original size:40 final size:40
Alignment explanation
Indices: 25307431--25307638 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
25307421 CAATTGAATG
* * ** *
25307431 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * * **
25307471 ATACCCGGGTTAAGACCCGAAGGCCATT-GTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTAATT
* **
25307511 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
25307551 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * **
25307591 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
25307631 ATATCCGG
1 ATATCCGG
25307639 TTGTATTCCG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 4 0.03
40 131 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
Found at i:25307569 original size:80 final size:80
Alignment explanation
Indices: 25307433--25307638 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
25307423 ATTGAATGAT
* * ** * * * *
25307433 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATACCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
25307497 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
25307513 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
25307578 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
25307593 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
25307639 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 102 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:25312342 original size:40 final size:40
Alignment explanation
Indices: 25312282--25312465 Score: 239
Period size: 40 Copynumber: 4.6 Consensus size: 40
25312272 TATTCGAATG
*
25312282 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
25312322 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
25312362 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
25312402 ATATCCGGGCTAAG-TCTCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATC-CGAAGGCATTTATGCTAGTGACT
*
25312442 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
25312466 CTTGTGCGAG
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 120 0.95
41 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:25312415 original size:80 final size:80
Alignment explanation
Indices: 25312282--25312465 Score: 264
Period size: 80 Copynumber: 2.3 Consensus size: 80
25312272 TATTCGAATG
* * *
25312282 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGATC-CGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCTCGAAGGC
* *
25312346 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* *
25312362 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCTCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCTCGAAGGCA
*
25312427 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
25312442 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
25312466 CTTGTGCGAG
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
79 4 0.04
80 90 0.96
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCTCGAAGGCA
TTTATGCGAGTGACC
Found at i:25314896 original size:47 final size:44
Alignment explanation
Indices: 25314789--25314951 Score: 157
Period size: 46 Copynumber: 3.5 Consensus size: 44
25314779 TTTGTGTGCT
* * **
25314789 AGTGTAAGACATGTCTGAGACATGCATCGCCCATATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCG-GCATAGGATG-AAGCC
* * * *
25314835 CGTCTAAGACCATGTCTGGGACATGGCATCGGCATTAGGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA-TAGGATGA-AGCC
*
25314883 AGTGTAAGACATGTCTGGGACATGCATCGGGC-TCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCATAG-GATG-AAGCC
25314929 AGTGTAAGACATGTCTGGGACAT
1 AGTGTAAGACATGTCTGGGACAT
25314952 ATATCGGCTA
Statistics
Matches: 97, Mismatches: 13, Indels: 14
0.78 0.10 0.11
Matches are distributed among these distances:
45 2 0.02
46 41 0.42
47 34 0.35
48 20 0.21
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATAGGATGAAGCC
Found at i:25314934 original size:46 final size:46
Alignment explanation
Indices: 25314789--25315002 Score: 154
Period size: 46 Copynumber: 4.6 Consensus size: 46
25314779 TTTGTGTGCT
* * * ** *
25314789 AGTGTAAGACATGTCTGAGACATGCATC-GCCCATATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTC-GAGGATGTAAGCC
* * * * *
25314835 CGTCTAAGACCATGTCTGGGACATGGCATCGGCAT-TAGGACG-AGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TCGAGGATGTA-AGCC
25314883 AGTGTAAGACATGTCTGGGACATGCATCGGGCTCGA-GATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCTCGAGGATGTAAGCC
** **
25314929 AGTGTAAGACATGTCTGGGACATATATCGGCTACGA-GATGT--TTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGGATGTAAGCC
*
25314973 AGTGTAAGACCATGTCTAGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
25315003 AGCACGTATA
Statistics
Matches: 137, Mismatches: 20, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
44 10 0.07
45 17 0.12
46 56 0.41
47 33 0.24
48 19 0.14
49 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGGATGTAAGCC
Found at i:25322939 original size:21 final size:20
Alignment explanation
Indices: 25322910--25322954 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
25322900 TTATGATAAA
*
25322910 AATATATATAACATTTTTAT
1 AATAAATATAACATTTTTAT
**
25322930 GAATAAATATATTATTTTTAT
1 -AATAAATATAACATTTTTAT
25322951 AATA
1 AATA
25322955 TATACATAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (20 bp):
AATAAATATAACATTTTTAT
Found at i:25326648 original size:48 final size:47
Alignment explanation
Indices: 25326498--25326663 Score: 172
Period size: 48 Copynumber: 3.5 Consensus size: 47
25326488 CATGAGAGCC
* * * *
25326498 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATA-TAAAGCT
* * * * * ** *
25326546 AGTGTAAGATATGTTTGGGACATGCATTAGCATTGAGA-CGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATATAAAGCT
*
25326592 AGTGTAAGACATGTCTGGGACATGCATTGGCCTCGCGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATATA-AAGCT
* *
25326640 AGTGTAAGACTTGTCTGAGACATG
1 AGTGTAAGACATGTCTGGGACATG
25326664 GCGTCAGCTT
Statistics
Matches: 95, Mismatches: 21, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
46 35 0.37
47 1 0.01
48 59 0.62
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.27
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATATAAAGCT
Found at i:25326662 original size:94 final size:94
Alignment explanation
Indices: 25326491--25326663 Score: 249
Period size: 94 Copynumber: 1.8 Consensus size: 94
25326481 GCCATAGCAT
* **
25326491 GAGAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATATTTAAGCCAGTGTAAGAT
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCCAGTGTAAGAT
* *
25326556 ATGTTTGGGACATGCATTAGCATTGAGAC
66 ATGTCTGAGACATGCATTAGCATTGAGAC
* * * *
25326585 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGCGATATACAAGCTAGTGTAAGAC
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCCAGTGTAAGA-
25326650 T-TGTCTGAGACATG
65 TATGTCTGAGACATG
25326664 GCGTCAGCTT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
94 68 0.99
95 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (94 bp):
GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCCAGTGTAAGAT
ATGTCTGAGACATGCATTAGCATTGAGAC
Found at i:25326782 original size:49 final size:49
Alignment explanation
Indices: 25326683--25326807 Score: 139
Period size: 49 Copynumber: 2.6 Consensus size: 49
25326673 TGTGGTGTGT
* *
25326683 CAGTGTAAGATCTGTCTGGGACATGGCATCGACACCAATAGATAAGAGC
1 CAGTGTAAGACCTGTTTGGGACATGGCATCGACACCAATAGATAAGAGC
* * * *
25326732 CAGTGTAAAACCTGTTTGGGACATGGCATCGGC-CTCACTATATGAA-AGC
1 CAGTGTAAGACCTGTTTGGGACATGGCATCGACAC-CAATAGAT-AAGAGC
*
25326781 CAGTGTAAGACTATGTTT-GGACATGGC
1 CAGTGTAAGAC-CTGTTTGGGACATGGC
25326808 GTCAACATCT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
48 1 0.02
49 57 0.88
50 7 0.11
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTTTGGGACATGGCATCGACACCAATAGATAAGAGC
Found at i:25329660 original size:46 final size:46
Alignment explanation
Indices: 25329608--25329821 Score: 274
Period size: 46 Copynumber: 4.6 Consensus size: 46
25329598 TATTTGGGCA
25329608 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
25329654 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * * *
25329700 TCTGAACTTGTTGAGTTGAGTCCAAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
*
25329745 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
25329793 TCCGAACTCATTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
25329822 GTGAGATGTA
Statistics
Matches: 143, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
45 3 0.02
46 99 0.69
47 26 0.18
48 3 0.02
50 4 0.03
51 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:25329768 original size:47 final size:47
Alignment explanation
Indices: 25329703--25329869 Score: 200
Period size: 47 Copynumber: 3.6 Consensus size: 47
25329693 GCGAATGTCT
* *
25329703 GAACTTGTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCC
* * *
25329750 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
*
25329796 GAACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCC
*
25329843 GAGCTCGTTGAGTTGAGTCCGAGTTCG
1 GAACTCGTTGAGTTGAGTCCGAGTTCG
25329870 CTTATGGGCG
Statistics
Matches: 100, Mismatches: 11, Indels: 18
0.78 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 28 0.28
47 52 0.52
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (47 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCC
Found at i:25329770 original size:93 final size:93
Alignment explanation
Indices: 25329654--25329876 Score: 392
Period size: 93 Copynumber: 2.4 Consensus size: 93
25329644 GATGCGAACG
* **
25329654 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTTGTTGAGTTGA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGTTGA
25329719 GTCCAAGTTCGTGAGATGTAACTAGGCA
66 GTCCAAGTTCGTGAGATGTAACTAGGCA
25329747 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGTTGA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGTTGA
*
25329812 GTCCGAGTTCGTGAGATGTAACTAGGCA
66 GTCCAAGTTCGTGAGATGTAACTAGGCA
* *
25329840 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25329877 GCGGGTTACA
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 124 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGTTGA
GTCCAAGTTCGTGAGATGTAACTAGGCA
Found at i:25331819 original size:18 final size:18
Alignment explanation
Indices: 25331771--25331826 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
25331761 AATATGGAAT
25331771 GAAATTGAGAAAAGAAAAAAA
1 GAAATTGA-AAAAG--AAAAA
25331792 GAAA-TG--AAAGAAAAA
1 GAAATTGAAAAAGAAAAA
25331807 GAAATTGAAAAAGAAAAA
1 GAAATTGAAAAAGAAAAA
25331825 GA
1 GA
25331827 GAGTGAGAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
15 9 0.28
16 2 0.06
17 4 0.12
18 11 0.34
20 2 0.06
21 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (18 bp):
GAAATTGAAAAAGAAAAA
Found at i:25336839 original size:31 final size:31
Alignment explanation
Indices: 25336804--25336867 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
25336794 ACTACTTAGT
*
25336804 ACGAAAGAGGACCAAATTGTAAAATAGGTAA
1 ACGAAAAAGGACCAAATTGTAAAATAGGTAA
* *
25336835 ACGAAAAAGGACCAAGTTGTAAAATAGTTAA
1 ACGAAAAAGGACCAAATTGTAAAATAGGTAA
25336866 AC
1 AC
25336868 TTACAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.52, C:0.11, G:0.20, T:0.17
Consensus pattern (31 bp):
ACGAAAAAGGACCAAATTGTAAAATAGGTAA
Found at i:25338369 original size:22 final size:23
Alignment explanation
Indices: 25338344--25338388 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
25338334 TAAATAATTC
25338344 AAATA-TTTTTAAAAACATAAAA
1 AAATATTTTTTAAAAACATAAAA
*
25338366 AAATATTTTTTAAAAATATAAAA
1 AAATATTTTTTAAAAACATAAAA
25338389 TATATAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATATTTTTTAAAAACATAAAA
Found at i:25338400 original size:23 final size:25
Alignment explanation
Indices: 25338374--25338421 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
25338364 AAAAATATTT
25338374 TTTAAAAA-T-ATAAAATATATAAA
1 TTTAAAAAGTCATAAAATATATAAA
*
25338397 TTTAAAAAGTCGTAAAATATATAAA
1 TTTAAAAAGTCATAAAATATATAAA
25338422 AATTGAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.36
24 1 0.05
25 13 0.59
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (25 bp):
TTTAAAAAGTCATAAAATATATAAA
Found at i:25345023 original size:58 final size:58
Alignment explanation
Indices: 25344905--25345023 Score: 150
Period size: 58 Copynumber: 2.1 Consensus size: 58
25344895 TCAGATGGAA
* * * **
25344905 ACAGAATCAGATTTTCCTGAAGCTGGAGCAACTGCTCATGTGCAATTCAATATGACTG
1 ACAGAATCAAATTTTCCTGAAGCTGGAGCAACTACTCATGTGCAACTCAATACAACTG
* * *
25344963 ACAGAATCAAATTTTTCTGAAGCTGGAGCAACTACTCATGTAG-AACTCAATCCAAGTG
1 ACAGAATCAAATTTTCCTGAAGCTGGAGCAACTACTCATGT-GCAACTCAATACAACTG
25345021 ACA
1 ACA
25345024 TTTATCCCAG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 51 0.98
59 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (58 bp):
ACAGAATCAAATTTTCCTGAAGCTGGAGCAACTACTCATGTGCAACTCAATACAACTG
Found at i:25346807 original size:25 final size:25
Alignment explanation
Indices: 25346779--25346828 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
25346769 TCGAAATGTT
25346779 TGTTTCAGTTGCTTTCATATGCACC
1 TGTTTCAGTTGCTTTCATATGCACC
25346804 TGTTTCAGTTGCTTTCATATGCACC
1 TGTTTCAGTTGCTTTCATATGCACC
25346829 CTTTTTCCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.44
Consensus pattern (25 bp):
TGTTTCAGTTGCTTTCATATGCACC
Found at i:25348723 original size:29 final size:29
Alignment explanation
Indices: 25348690--25348747 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
25348680 TTGGTTTCCT
*
25348690 TATTTTTATAATGTTATTAATTAGTTCAA
1 TATTTTTATAATATTATTAATTAGTTCAA
*
25348719 TATTTTTATAATATTCTTAATTAGTTCAA
1 TATTTTTATAATATTATTAATTAGTTCAA
25348748 ATAGTTAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (29 bp):
TATTTTTATAATATTATTAATTAGTTCAA
Found at i:25349782 original size:46 final size:46
Alignment explanation
Indices: 25349722--25349995 Score: 433
Period size: 46 Copynumber: 6.0 Consensus size: 46
25349712 TTTGACATGA
* * * * * *
25349722 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
25349768 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
25349814 TGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
25349860 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
25349906 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
25349952 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
25349996 AGAGCACACT
Statistics
Matches: 215, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 4 0.02
46 211 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:25352483 original size:30 final size:30
Alignment explanation
Indices: 25352416--25352483 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
25352406 CACCCTTAAA
* * *
25352416 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
25352446 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
25352475 AGTATTTAC
1 A-TATTTAC
25352484 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:25353056 original size:19 final size:19
Alignment explanation
Indices: 25353035--25353070 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
25353025 AATTTGAAAT
*
25353035 TTTTATAAA-TATTTTGAG
1 TTTTAAAAATTATTTTGAG
25353053 TTTTAAAAATTATTTTGA
1 TTTTAAAAATTATTTTGA
25353071 ATATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAG
Found at i:25355069 original size:12 final size:12
Alignment explanation
Indices: 25355052--25355080 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
25355042 CCAAAGTTAC
25355052 TCTTTTTTTTTT
1 TCTTTTTTTTTT
25355064 TCTTTTTTTTTT
1 TCTTTTTTTTTT
25355076 T-TTTT
1 TCTTTT
25355081 ATAAATACCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (12 bp):
TCTTTTTTTTTT
Found at i:25356018 original size:19 final size:18
Alignment explanation
Indices: 25355994--25356029 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
25355984 TTTTTTTAAA
25355994 ATTTTTATATATTCTTTAG
1 ATTTTTATATATT-TTTAG
*
25356013 ATTTTTTTATATTTTTA
1 ATTTTTATATATTTTTA
25356030 AAAAATTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (18 bp):
ATTTTTATATATTTTTAG
Found at i:25356062 original size:19 final size:18
Alignment explanation
Indices: 25356023--25356063 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
25356013 ATTTTTTTAT
* *
25356023 ATTTTTAAAAAATTTACA
1 ATTTTTAAAAAATATAAA
25356041 ATTTTTCAAAAAATATAAA
1 ATTTTT-AAAAAATATAAA
25356060 ATTT
1 ATTT
25356064 GAATTTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTTTTAAAAAATATAAA
Found at i:25357825 original size:72 final size:70
Alignment explanation
Indices: 25357697--25357828 Score: 201
Period size: 72 Copynumber: 1.9 Consensus size: 70
25357687 TTTGGGCGGA
* *
25357697 GCTTAATTTAAATAATATGTTTTTAAAATTCGGATAATATTAATCATCAAAATTAATATTATATG
1 GCTTAATTTAAATAATATATTTTTAAAATTCGGATAATATTAATCACCAAAATTAATATTATATG
25357762 GCAGT
66 GCAGT
* * *
25357767 GCTTACTTTAAATAATGTATTTTTAAAAATTCAGGATAATTTTAATCACCAAAATTAATATT
1 GCTTAATTTAAATAATATATTTTT-AAAATTC-GGATAATATTAATCACCAAAATTAATATT
25357829 TAGAAAAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 21 0.38
71 7 0.13
72 27 0.49
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (70 bp):
GCTTAATTTAAATAATATATTTTTAAAATTCGGATAATATTAATCACCAAAATTAATATTATATG
GCAGT
Found at i:25360520 original size:20 final size:20
Alignment explanation
Indices: 25360495--25360544 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
25360485 TGCCAGTCCT
* * *
25360495 ATGAATAGTGGGATTAATTC
1 ATGAATAGTGGAATCAAATC
25360515 ATGAATAGTGGAATCAAATC
1 ATGAATAGTGGAATCAAATC
*
25360535 ATGAACAGTG
1 ATGAATAGTG
25360545 ATAATATGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (20 bp):
ATGAATAGTGGAATCAAATC
Found at i:25365550 original size:95 final size:95
Alignment explanation
Indices: 25365387--25365576 Score: 362
Period size: 95 Copynumber: 2.0 Consensus size: 95
25365377 TAAAAAAAGG
25365387 ATTCTCACAACCATTATTGTGATATCTAACGCCGTCAAAGGATGAGTATGTGATGCAAGAGATTC
1 ATTCTCACAACCATTATTGTGATATCTAACGCCGTCAAAGGATGAGTATGTGATGCAAGAGATTC
25365452 ATAAAGGCATTTGTAGAGAACACTTGGGTA
66 ATAAAGGCATTTGTAGAGAACACTTGGGTA
* *
25365482 ATTCTCACAACCATTGTTGTGATATCTGACGCCGTCAAAGGATGAGTATGTGATGCAAGAGATTC
1 ATTCTCACAACCATTATTGTGATATCTAACGCCGTCAAAGGATGAGTATGTGATGCAAGAGATTC
25365547 ATAAAGGCATTTGTAGAGAACACTTGGGTA
66 ATAAAGGCATTTGTAGAGAACACTTGGGTA
25365577 GAATATTGCT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (95 bp):
ATTCTCACAACCATTATTGTGATATCTAACGCCGTCAAAGGATGAGTATGTGATGCAAGAGATTC
ATAAAGGCATTTGTAGAGAACACTTGGGTA
Found at i:25367056 original size:70 final size:67
Alignment explanation
Indices: 25366930--25367156 Score: 197
Period size: 70 Copynumber: 3.3 Consensus size: 67
25366920 ACCATGACAT
* *** * *
25366930 TAAAATAGTTAGCGAGAGTTTAAGCTTCCAATTGTAAACTTAAAGCTCATAAGTTCAATACTGCA
1 TAAAATAGTTAGCGAGAG-TTAAGCTCCCAATTGT-AACTTAAAGCTTGCAGGTTCAATACCGCA
25366995 TCCTC
64 -CCTC
* *
25367000 TAAAATAGTTAGCGAGAGTTGAGGCTCCCAATTGTATTA-TTAAGGCTTGCAGGTTCAATACCGC
1 TAAAATAGTTAGCGAGAGTT-AAGCTCCCAATTGTA--ACTTAAAGCTTGCAGGTTCAATACCGC
25367064 GACCATC
63 -ACC-TC
* * * * * *
25367071 -AAAATAGTTAACGAGAGCTTAAACTCTCAACTGTGAACTTAATGCTTGCAGGTTTAATACCGCA
1 TAAAATAGTTAGCGAGAG-TTAAGCTCCCAATTGT-AACTTAAAGCTTGCAGGTTCAATACCGCA
25367135 GCCTC
64 -CCTC
* *
25367140 TAAAACAATTAGCGAGA
1 TAAAATAGTTAGCGAGA
25367157 ACTCAAGCTA
Statistics
Matches: 129, Mismatches: 18, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
69 7 0.05
70 115 0.89
71 7 0.05
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (67 bp):
TAAAATAGTTAGCGAGAGTTAAGCTCCCAATTGTAACTTAAAGCTTGCAGGTTCAATACCGCACC
TC
Found at i:25369393 original size:23 final size:23
Alignment explanation
Indices: 25369360--25369403 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
25369350 AGGAATCTCG
25369360 ATTCCCAGTACATGTAAGACCCA
1 ATTCCCAGTACATGTAAGACCCA
*
25369383 ATTCCCCGTACATGTAAGACC
1 ATTCCCAGTACATGTAAGACC
25369404 TGATGCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.32, C:0.32, G:0.14, T:0.23
Consensus pattern (23 bp):
ATTCCCAGTACATGTAAGACCCA
Found at i:25373451 original size:9 final size:9
Alignment explanation
Indices: 25373437--25373471 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
25373427 ACCTATTAAA
25373437 AAATATATT
1 AAATATATT
25373446 AAATATATT
1 AAATATATT
*
25373455 AAA-ATTTT
1 AAATATATT
25373463 AAATATATT
1 AAATATATT
25373472 TTTAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
AAATATATT
Found at i:25373643 original size:29 final size:28
Alignment explanation
Indices: 25373558--25373641 Score: 152
Period size: 27 Copynumber: 3.0 Consensus size: 28
25373548 AAGTTTTTAA
25373558 AATTTTAAATATATTAAGAAATTTTTTTT
1 AATTTTAAATATATTAAG-AATTTTTTTT
25373587 AATTTTAAATATATTAAGAA-TTTTTTT
1 AATTTTAAATATATTAAGAATTTTTTTT
25373614 AATTTTAAATATATTAAGAATTTTTTTT
1 AATTTTAAATATATTAAGAATTTTTTTT
25373642 TATCTTTTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
27 27 0.50
28 9 0.17
29 18 0.33
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (28 bp):
AATTTTAAATATATTAAGAATTTTTTTT
Found at i:25378249 original size:40 final size:41
Alignment explanation
Indices: 25378177--25378270 Score: 113
Period size: 40 Copynumber: 2.3 Consensus size: 41
25378167 TATCTCGATA
*
25378177 TCGCACACTTAGTGCCTCATATAGTCGAAGCTA-TTCCAAC
1 TCGCACACTTAGTGCCTCATATAGCCGAAGCTATTTCCAAC
* * * *
25378217 TCGCACACTTAGTGCCAT-TTGTAGCCGGAGCTATTTCGAAC
1 TCGCACACTTAGTGCC-TCATATAGCCGAAGCTATTTCCAAC
25378258 T-GCACACTTAGTG
1 TCGCACACTTAGTG
25378271 TCGAACATAG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 39 0.83
41 8 0.17
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (41 bp):
TCGCACACTTAGTGCCTCATATAGCCGAAGCTATTTCCAAC
Found at i:25381681 original size:79 final size:81
Alignment explanation
Indices: 25381548--25381727 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 81
25381538 AATGATGTTT
* *
25381548 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGT
**
25381612 GCGAGTTACTA-ATTTC
66 GCGAGTTACTATA-ACC
* * **
25381628 GGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTTG
25381690 TGCGAGTTACTATAACC
65 TGCGAGTTACTATAACC
*
25381707 GGGCTATGTCCCGAAGGCATT
1 GGGCTAAGTCCCGAAGGCATT
25381728 TGAACGAGTA
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 59 0.68
80 27 0.31
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (81 bp):
GGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGT
GCGAGTTACTATAACC
Found at i:25381743 original size:40 final size:41
Alignment explanation
Indices: 25381548--25381729 Score: 225
Period size: 40 Copynumber: 4.6 Consensus size: 41
25381538 AATGATGTTT
* *
25381548 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAT-ATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAATCC
* * *
25381588 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTTC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAATCC
*
25381628 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCC
*
25381667 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCC
*
25381707 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
25381730 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (41 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCC
Found at i:25381751 original size:79 final size:79
Alignment explanation
Indices: 25381598--25381762 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
25381588 GGACTAAGAT
** **
25381598 CCGAAGGCATTTGTGCGAGTTACTAATTTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
25381663 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
25381677 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* * *
25381740 TATAT-CTGGTTAAATT
63 TAAATCCGGGTTAAATC
25381756 CCGAAGG
1 CCGAAGG
25381763 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.67
80 22 0.30
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:25389645 original size:40 final size:40
Alignment explanation
Indices: 25389561--25389745 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
25389551 TCGAATGATG
* *
25389561 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
25389600 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
25389641 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
25389680 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
25389719 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
25389746 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 36 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:25389697 original size:79 final size:81
Alignment explanation
Indices: 25389561--25389743 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
25389551 TCGAATGATG
* *
25389561 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
25389625 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
25389640 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
25389702 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
25389720 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
25389744 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:25389767 original size:79 final size:78
Alignment explanation
Indices: 25389562--25389778 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 78
25389552 CGAATGATGT
* *
25389562 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
25389625 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* *
25389642 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
25389705 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
25389721 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
25389779 TACGTGATTC
Statistics
Matches: 117, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
78 3 0.03
79 68 0.58
80 46 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:25392748 original size:6 final size:6
Alignment explanation
Indices: 25392729--25392834 Score: 160
Period size: 6 Copynumber: 17.8 Consensus size: 6
25392719 ATATAAAGAC
** *
25392729 AAAATA AAGGTA AAAATA AAAATA AAAATA AAAATA AAGATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
25392777 AAAATA AAAATA AAAATA AAAAT- AAAATA AAAATA AAAATA AACATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
25392824 AAGATA AAAAT
1 AAAATA AAAAT
25392835 GGACTCAATG
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
5 5 0.06
6 85 0.94
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:25397101 original size:72 final size:72
Alignment explanation
Indices: 25396924--25397102 Score: 234
Period size: 72 Copynumber: 2.5 Consensus size: 72
25396914 GCTCGCATTT
* * * *
25396924 GAGCTACTCATGGTTTTGTACACAAAGTCAGCACCCGGACCCCAAAGCATTATCATGTAATGCCC
1 GAGCTACTCATGGGTTTATACACAAAGTCAGTACCCGGACCCCAAAGCATTAACATGTAATGCCC
**
25396989 GCTCATT
66 GCTCAGC
** *
25396996 GAGCTACTCACAGGTTTATACACAAAGTCAGTACCCGGACCCCAAAGCATTAACATG-ATATGCT
1 GAGCTACTCATGGGTTTATACACAAAGTCAGTACCCGGACCCCAAAGCATTAACATGTA-ATGCC
25397060 CGCTCAGC
65 CGCTCAGC
* * *
25397068 GAGTTACTCATGGGTCTATACACAAAGTTAGTACC
1 GAGCTACTCATGGGTTTATACACAAAGTCAGTACC
25397103 GAACCCACAT
Statistics
Matches: 92, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
71 1 0.01
72 91 0.99
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (72 bp):
GAGCTACTCATGGGTTTATACACAAAGTCAGTACCCGGACCCCAAAGCATTAACATGTAATGCCC
GCTCAGC
Found at i:25399206 original size:16 final size:16
Alignment explanation
Indices: 25399185--25399217 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
25399175 TATGTTAAGT
*
25399185 CGCACGGCCTAGGACA
1 CGCACGACCTAGGACA
25399201 CGCACGACCTAGGACA
1 CGCACGACCTAGGACA
25399217 C
1 C
25399218 ACTTGTGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.39, G:0.27, T:0.06
Consensus pattern (16 bp):
CGCACGACCTAGGACA
Found at i:25401673 original size:25 final size:25
Alignment explanation
Indices: 25401645--25401729 Score: 73
Period size: 25 Copynumber: 3.2 Consensus size: 25
25401635 GAAAGTATGG
25401645 TATATAAAAATTGTAAGAACAATGA
1 TATATAAAAATTGTAAGAACAATGA
* * * *
25401670 TATAAATATTGAAAAATG-ATGAAAGAATGG
1 TAT--ATA---AAAATTGTAAG-AACAATGA
25401700 TATATAAAAATTGTAAGAACAATGA
1 TATATAAAAATTGTAAGAACAATGA
25401725 TATAT
1 TATAT
25401730 GACTAGTAGC
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
25 20 0.44
26 2 0.04
27 3 0.07
28 3 0.07
29 2 0.04
30 15 0.33
ACGTcount: A:0.54, C:0.02, G:0.14, T:0.29
Consensus pattern (25 bp):
TATATAAAAATTGTAAGAACAATGA
Found at i:25401685 original size:55 final size:56
Alignment explanation
Indices: 25401609--25401728 Score: 215
Period size: 55 Copynumber: 2.2 Consensus size: 56
25401599 GCATGAATGG
* *
25401609 AATGATTTAACATATTGAAAAATGATGAAAGTATGGTATATAAAAATTGTAAGAAC
1 AATGATATAACATATTGAAAAATGATGAAAGAATGGTATATAAAAATTGTAAGAAC
25401665 AATGATATAA-ATATTGAAAAATGATGAAAGAATGGTATATAAAAATTGTAAGAAC
1 AATGATATAACATATTGAAAAATGATGAAAGAATGGTATATAAAAATTGTAAGAAC
25401720 AATGATATA
1 AATGATATA
25401729 TGACTAGTAG
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
55 53 0.85
56 9 0.15
ACGTcount: A:0.53, C:0.03, G:0.16, T:0.29
Consensus pattern (56 bp):
AATGATATAACATATTGAAAAATGATGAAAGAATGGTATATAAAAATTGTAAGAAC
Found at i:25402190 original size:50 final size:50
Alignment explanation
Indices: 25402117--25402320 Score: 257
Period size: 50 Copynumber: 4.1 Consensus size: 50
25402107 TAAGACAGTT
25402117 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * * * *
25402167 TTAGGTCGCATGTGTAATACTAAGTGCAGGCTACTATGCGTGCCTGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * *
25402217 CTTCA-ATCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTATCTGATGG
1 -TT-AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
*
25402268 TTAGGTCACGTGTGTAGTACTAAGCGCAGGCTACTACGTGTACCAGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
25402318 TTA
1 TTA
25402321 CACTACACCA
Statistics
Matches: 127, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 1 0.01
50 87 0.69
51 38 0.30
52 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (50 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
Found at i:25402249 original size:101 final size:101
Alignment explanation
Indices: 25402122--25402303 Score: 292
Period size: 101 Copynumber: 1.8 Consensus size: 101
25402112 CAGTTTTAGG
* * *
25402122 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAATAC
1 TCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGTAATAC
*
25402187 TAAGTGCAGGCTACTATGCGTGCCTGATAGCTTCAA
66 TAAGCGCAGGCTACTATGCGTGCCTGATAGCTTCAA
* * * *
25402223 TCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTATCTGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGTAATAC
25402288 TAAGCGCAGGCTACTA
66 TAAGCGCAGGCTACTA
25402304 CGTGTACCAG
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 73 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGTAATAC
TAAGCGCAGGCTACTATGCGTGCCTGATAGCTTCAA
Found at i:25402366 original size:11 final size:12
Alignment explanation
Indices: 25402339--25402365 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25402329 CAAAACAGAC
25402339 TTTTAGCGGCGT
1 TTTTAGCGGCGT
25402351 TTTTAGCGGCGT
1 TTTTAGCGGCGT
25402363 TTT
1 TTT
25402366 AAAAGGAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:25402435 original size:40 final size:40
Alignment explanation
Indices: 25402390--25402511 Score: 131
Period size: 40 Copynumber: 3.0 Consensus size: 40
25402380 GAAAAAATCA
* *
25402390 AATAGATGGAGTTTTAGCGGCGTTTTTAAAAAAACGCCGC-
1 AATAGATCGAGCTTTAGCGGCGTTTTT-AAAAAACGCCGCT
* * *
25402430 AATAGATCGAGCTTTAGCGGTGTTTTGAAAAAGCGCCGCT
1 AATAGATCGAGCTTTAGCGGCGTTTTTAAAAAACGCCGCT
* * * *
25402470 AA-AGGTTGACCTTTAGCGGCGCTTTTTCAAAAACGCCGCT
1 AATAGATCGAGCTTTAGCGGCG-TTTTTAAAAAACGCCGCT
25402510 AA
1 AA
25402512 AAGTTTAAGC
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
39 26 0.38
40 42 0.62
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (40 bp):
AATAGATCGAGCTTTAGCGGCGTTTTTAAAAAACGCCGCT
Found at i:25402648 original size:114 final size:114
Alignment explanation
Indices: 25402487--25402694 Score: 294
Period size: 114 Copynumber: 1.8 Consensus size: 114
25402477 GACCTTTAGC
* * * *
25402487 GGCGCTTTTTCAAAAACGCCGCTAAAAGTTTAAGCAAGACGACGTCGTTTTACATGAGCTTCATT
1 GGCGCTTTTTAAAAAACGCCGCTAAAAGTTTAAACAAAACGACGTCGTTTTACATGAGCTTCAAT
* *
25402552 GGCAGTAGCGGCGTTTTCCCAAAAACGCCATAACAGATCAAACTTTTGT
66 GACAGTAGCGGCGCTTTCCCAAAAACGCCATAACAGATCAAACTTTTGT
* *
25402601 GGCG-TTTTTAAAAAAGCGCCGCTAAAA-TGTTAAACAAAACGACGTCGTTTTATATGAGCTTTA
1 GGCGCTTTTTAAAAAA-CGCCGCTAAAAGT-TTAAACAAAACGACGTCGTTTTACATGAGCTTCA
* *
25402664 ATGACATTAGCGGCGCTTTCCTAAAAACGCC
64 ATGACAGTAGCGGCGCTTTCCCAAAAACGCC
25402695 GCAATAGCTC
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
113 11 0.13
114 71 0.87
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (114 bp):
GGCGCTTTTTAAAAAACGCCGCTAAAAGTTTAAACAAAACGACGTCGTTTTACATGAGCTTCAAT
GACAGTAGCGGCGCTTTCCCAAAAACGCCATAACAGATCAAACTTTTGT
Found at i:25402723 original size:114 final size:113
Alignment explanation
Indices: 25402492--25402739 Score: 257
Period size: 114 Copynumber: 2.2 Consensus size: 113
25402482 TTAGCGGCGC
* * * * *
25402492 TTTTTCAAAAACGCCGCTAAAAGTTTAAGCAAGACGACGTCGTTTTACATGAGCTTCATTGGCAG
1 TTTTTAAAAAACGCCGCTAAAAGTTTAAACAAAACGACGTCGTTTTACATGAGCTTCAATGACAG
* * * **
25402557 TAGCGGCGTTTTCCCAAAAACGCCATAACAGATCAAACTTTTGTGGCG
66 TAGCGGCGCTTTCCCAAAAACGCCACAACAGATCAAACTTTAGTGGAA
* *
25402605 TTTTTAAAAAAGCGCCGCTAAAA-TGTTAAACAAAACGACGTCGTTTTATATGAGCTTTAATGAC
1 TTTTTAAAAAA-CGCCGCTAAAAGT-TTAAACAAAACGACGTCGTTTTACATGAGCTTCAATGAC
* * * * * **
25402669 ATTAGCGGCGCTTTCCTAAAAACGCCGCAATAGCTCGCACTTTAGAT-GAA
64 AGTAGCGGCGCTTTCCCAAAAACGCCACAACAGATCAAACTTTAG-TGGAA
*
25402719 TTTTTGTAAAAAATGCCGCTA
1 -TTTT-TAAAAAACGCCGCTA
25402740 TAGGTCGCAT
Statistics
Matches: 110, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
113 11 0.10
114 80 0.73
115 12 0.11
116 7 0.06
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (113 bp):
TTTTTAAAAAACGCCGCTAAAAGTTTAAACAAAACGACGTCGTTTTACATGAGCTTCAATGACAG
TAGCGGCGCTTTCCCAAAAACGCCACAACAGATCAAACTTTAGTGGAA
Found at i:25403517 original size:25 final size:24
Alignment explanation
Indices: 25403467--25403518 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
25403457 TAACTTATTT
**
25403467 TTTAAATGAATTTAAAATTTTCTA
1 TTTAAATGAATTTAAAATTTAATA
* *
25403491 TTTAAACTGATTTTTAAATTTAATA
1 TTTAAA-TGAATTTAAAATTTAATA
25403516 TTT
1 TTT
25403519 TTATAGGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
TTTAAATGAATTTAAAATTTAATA
Found at i:25403558 original size:14 final size:14
Alignment explanation
Indices: 25403539--25403579 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
25403529 AAGGCCGATT
25403539 ATGATTTATGGTTG
1 ATGATTTATGGTTG
* *
25403553 ATGATTTATGTTTT
1 ATGATTTATGGTTG
*
25403567 ATGATTTAGGGTT
1 ATGATTTATGGTT
25403580 TGAGGTTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.54
Consensus pattern (14 bp):
ATGATTTATGGTTG
Found at i:25403753 original size:14 final size:14
Alignment explanation
Indices: 25403736--25403768 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
25403726 GTGTTTTAAA
25403736 GTTTATTATTTAGG
1 GTTTATTATTTAGG
25403750 GTTTATTATTTAGG
1 GTTTATTATTTAGG
25403764 GTTTA
1 GTTTA
25403769 AGATATTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (14 bp):
GTTTATTATTTAGG
Found at i:25403782 original size:15 final size:15
Alignment explanation
Indices: 25403745--25403801 Score: 62
Period size: 16 Copynumber: 3.8 Consensus size: 15
25403735 AGTTTATTAT
**
25403745 TTAGGGTTTATTAT-
1 TTAGGGTTTAAGATA
25403759 TTAGGGTTTAAGATA
1 TTAGGGTTTAAGATA
* *
25403774 TTAGTGTTTAGCGATA
1 TTAGGGTTTA-AGATA
25403790 TTAGGGTTTAAG
1 TTAGGGTTTAAG
25403802 GGTTTAAGGT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
14 12 0.34
15 10 0.29
16 13 0.37
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.46
Consensus pattern (15 bp):
TTAGGGTTTAAGATA
Found at i:25403805 original size:8 final size:7
Alignment explanation
Indices: 25403744--25403832 Score: 52
Period size: 7 Copynumber: 12.0 Consensus size: 7
25403734 AAGTTTATTA
25403744 TTTAGGG
1 TTTAGGG
***
25403751 TTTATTA
1 TTTAGGG
25403758 TTTAGGG
1 TTTAGGG
* *
25403765 TTTAAGA
1 TTTAGGG
*
25403772 TATTAGTG
1 T-TTAGGG
*
25403780 TTTAGCGA
1 TTTAG-GG
25403788 TATTAGGG
1 T-TTAGGG
25403796 TTTAAGGG
1 TTT-AGGG
*
25403804 TTTAAGG
1 TTTAGGG
25403811 TTTAGGG
1 TTTAGGG
*
25403818 GTTAGGAG
1 TTTAGG-G
25403826 TTTAGGG
1 TTTAGGG
25403833 GTTAAGGGTC
Statistics
Matches: 59, Mismatches: 18, Indels: 10
0.68 0.21 0.11
Matches are distributed among these distances:
7 35 0.59
8 20 0.34
9 4 0.07
ACGTcount: A:0.24, C:0.01, G:0.33, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:25403956 original size:7 final size:7
Alignment explanation
Indices: 25403940--25404009 Score: 70
Period size: 7 Copynumber: 10.0 Consensus size: 7
25403930 GGTTAATTAA
25403940 GGTTTAG
1 GGTTTAG
*
25403947 GGTCTAG
1 GGTTTAG
*
25403954 GGTTTGG
1 GGTTTAG
25403961 GGTTTAG
1 GGTTTAG
*
25403968 GGTTTAT
1 GGTTTAG
*
25403975 AGTTTAG
1 GGTTTAG
*
25403982 GGTTTAT
1 GGTTTAG
*
25403989 GGTATAG
1 GGTTTAG
25403996 GG-TTAG
1 GGTTTAG
25404002 GGTCTTAG
1 GGT-TTAG
25404010 CACTGTTCAA
Statistics
Matches: 49, Mismatches: 12, Indels: 3
0.77 0.19 0.05
Matches are distributed among these distances:
6 5 0.10
7 40 0.82
8 4 0.08
ACGTcount: A:0.16, C:0.03, G:0.40, T:0.41
Consensus pattern (7 bp):
GGTTTAG
Found at i:25404294 original size:21 final size:21
Alignment explanation
Indices: 25404255--25404294 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25404245 CGGGGCTTAT
* *
25404255 GATTTGGGGTTTGGGGTTTGG
1 GATTTAGGGTTTAGGGTTTGG
*
25404276 GATTTAGGGTTTAGTGTTT
1 GATTTAGGGTTTAGGGTTT
25404295 AATTTTGGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.10, C:0.00, G:0.42, T:0.47
Consensus pattern (21 bp):
GATTTAGGGTTTAGGGTTTGG
Found at i:25404555 original size:42 final size:40
Alignment explanation
Indices: 25404469--25404564 Score: 104
Period size: 41 Copynumber: 2.4 Consensus size: 40
25404459 GCGTTTTTTC
* ** *
25404469 AAAAACGCCACAAAAAATGAGCTATAGTGGTGTTTATAAT
1 AAAAACGCCACAAAAAATGACCTATACCGGCGTTTATAAT
**
25404509 AAAAAACGCCACTAAAAGTTGACCTATACCGGCGTTT-TAAGT
1 -AAAAACGCCAC-AAAAAATGACCTATACCGGCGTTTATAA-T
25404551 AAAAACGCCACAAA
1 AAAAACGCCACAAA
25404565 TATTTGAGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
40 3 0.06
41 25 0.53
42 19 0.40
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.21
Consensus pattern (40 bp):
AAAAACGCCACAAAAAATGACCTATACCGGCGTTTATAAT
Found at i:25406046 original size:24 final size:24
Alignment explanation
Indices: 25405983--25406052 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 24
25405973 TTTGTGACTG
*
25405983 TGAAAATCGTATTATAATAATGTTA
1 TGAAAATTGTATTATAAT-ATGTTA
**
25406008 T-ACTATCT-TATTTATAATATGTTA
1 TGAAAAT-TGTA-TTATAATATGTTA
25406032 TGAAAATTGTATTATAATATG
1 TGAAAATTGTATTATAATATG
25406053 CTTTGGTTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
24 23 0.64
25 13 0.36
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (24 bp):
TGAAAATTGTATTATAATATGTTA
Found at i:25407510 original size:24 final size:24
Alignment explanation
Indices: 25407477--25407606 Score: 201
Period size: 24 Copynumber: 5.4 Consensus size: 24
25407467 CTAGAGGCCT
25407477 AGCCTCTTTTAATAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
25407501 AGCCCTTTTTTAATAACTGGGGCATA
1 AGCCC--TTTTAATAACTGGGGCATA
* *
25407527 AGCCC-TTCAATAACTGGGGCGTA
1 AGCCCTTTTAATAACTGGGGCATA
25407550 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
25407574 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
25407598 AGCCCTTTT
1 AGCCCTTTT
25407607 GCACTTCCTC
Statistics
Matches: 98, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
23 22 0.22
24 53 0.54
25 17 0.17
26 6 0.06
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:25407678 original size:9 final size:9
Alignment explanation
Indices: 25407664--25407720 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
25407654 ATCTCGTGTG
25407664 CATATCATA
1 CATATCATA
*
25407673 CATATCATGTG
1 CATATCA--TA
25407684 CATATCATA
1 CATATCATA
* *
25407693 CATGTCATGTG
1 CATATCA--TA
25407704 CATATCATA
1 CATATCATA
25407713 CATATCAT
1 CATATCAT
25407721 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:25407683 original size:20 final size:20
Alignment explanation
Indices: 25407660--25407722 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
25407650 GAACATCTCG
25407660 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
25407680 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
25407700 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
25407720 TGT
1 TGT
25407723 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Done.