Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 182 of 186
Found at i:60261726 original size:13 final size:13
Alignment explanation
Indices: 60261708--60261732 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60261698 GGAGTAATCG
60261708 CACACGGGCGTGT
1 CACACGGGCGTGT
60261721 CACACGGGCGTG
1 CACACGGGCGTG
60261733 CCCCTACCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.40, T:0.12
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:60263785 original size:51 final size:49
Alignment explanation
Indices: 60263618--60263799 Score: 217
Period size: 51 Copynumber: 3.7 Consensus size: 49
60263608 AAACTATCTG
* * *
60263618 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCG-
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTAT-CGA
* *
60263667 GTACACGTAGTAG-CTGCACTTAGTACTACACACGTAACCTAATTATCTGA
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATC-GA
* * *
60263717 -TACACGTAGTAGCCTGCACTTAGTACTATACACGTGATCGAAGTTATCGA
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCGA
*
60263767 GTACGCATAGTAGCCTGCACTTAGTACTACACA
1 GTACACATAGTAGCCTGCACTTAGTACTACACA
60263800 TGCGACCTAG
Statistics
Matches: 115, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
48 24 0.21
49 30 0.26
50 26 0.23
51 35 0.30
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (49 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGA
Found at i:60270950 original size:107 final size:107
Alignment explanation
Indices: 60270764--60270977 Score: 419
Period size: 107 Copynumber: 2.0 Consensus size: 107
60270754 TTTACCTGAA
*
60270764 ACTAGACTCATGTCCCCACCTATGTATTTTTTTCTAGAATTTTTGGTCGGTCCAATTAGTACAGT
1 ACTAGACTCATGTCCCCACCTATGTATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGT
60270829 TTATTAGTCAAAGTCTCCCATGTTACAGGGGTCGACTACACT
66 TTATTAGTCAAAGTCTCCCATGTTACAGGGGTCGACTACACT
60270871 ACTAGACTCATGTCCCCACCTATGTATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGT
1 ACTAGACTCATGTCCCCACCTATGTATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGT
60270936 TTATTAGTCAAAGTCTCCCATGTTACAGGGGTCGACTACACT
66 TTATTAGTCAAAGTCTCCCATGTTACAGGGGTCGACTACACT
60270978 GACCTTTTCC
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 106 1.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.36
Consensus pattern (107 bp):
ACTAGACTCATGTCCCCACCTATGTATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGT
TTATTAGTCAAAGTCTCCCATGTTACAGGGGTCGACTACACT
Found at i:60272277 original size:40 final size:40
Alignment explanation
Indices: 60272095--60272317 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
60272085 TCCTCGTTCA
* * * * *
60272095 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
60272134 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
60272174 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
60272214 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
60272254 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
60272294 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
60272318 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:60272326 original size:41 final size:41
Alignment explanation
Indices: 60272249--60272326 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
60272239 TTAGTATCTC
* * *
60272249 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
60272290 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
60272327 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:60280131 original size:40 final size:40
Alignment explanation
Indices: 60280040--60280342 Score: 362
Period size: 40 Copynumber: 7.6 Consensus size: 40
60280030 TCCTCGTTCA
* * * * *
60280040 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
60280079 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
60280119 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
60280159 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
60280199 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
60280239 AAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCACG
* * * * *
60280279 AATGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
60280319 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
60280343 CAGCATTCAA
Statistics
Matches: 235, Mismatches: 23, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
39 38 0.16
40 185 0.79
41 12 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:60282675 original size:20 final size:20
Alignment explanation
Indices: 60282650--60282716 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
60282640 GGCTTATGCC
60282650 AAGTAAATGGAATGGAAAGT
1 AAGTAAATGGAATGGAAAGT
** *
60282670 AAGTAAATAAAATGAAAAGT
1 AAGTAAATGGAATGGAAAGT
60282690 AAGTAAATGGAAT-GATAAGT
1 AAGTAAATGGAATGGA-AAGT
60282710 AAG-AAAT
1 AAGTAAAT
60282717 AGAGTAGTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 5 0.12
20 35 0.88
ACGTcount: A:0.57, C:0.00, G:0.22, T:0.21
Consensus pattern (20 bp):
AAGTAAATGGAATGGAAAGT
Found at i:60287056 original size:49 final size:48
Alignment explanation
Indices: 60286912--60287056 Score: 130
Period size: 49 Copynumber: 3.0 Consensus size: 48
60286902 CCAACATATC
* * * * * * *
60286912 CGCCATTCTGGTTAGTAGCTAACATGCCCTATTAGTGGCCTATCTTAT
1 CGCCATTCTGGTTAGCAACTAACATCCCCTACTAATGGCCCATCTCAT
* * * * * *
60286960 CAGCCAATCTAG-TATGCAACTAATATTCCCTACTAATGGCTCGTCTCATT
1 C-GCCATTCTGGTTA-GCAACTAACATCCCCTACTAATGGCCCATCTCA-T
*
60287010 CGCCATTCTGGTTAGCAACTAACATCCCCTACCAATGGCCCATCTCA
1 CGCCATTCTGGTTAGCAACTAACATCCCCTACTAATGGCCCATCTCA
60287057 CTTTTCCAGA
Statistics
Matches: 74, Mismatches: 19, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
48 3 0.04
49 67 0.91
50 4 0.05
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.30
Consensus pattern (48 bp):
CGCCATTCTGGTTAGCAACTAACATCCCCTACTAATGGCCCATCTCAT
Found at i:60287243 original size:17 final size:17
Alignment explanation
Indices: 60287210--60287249 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
60287200 GGCTCACAAA
60287210 AGACTCATACAAGTTGG
1 AGACTCATACAAGTTGG
*
60287227 ATACTCATAC-AGATTGG
1 AGACTCATACAAG-TTGG
60287244 AGACTC
1 AGACTC
60287250 GTAGAAGGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (17 bp):
AGACTCATACAAGTTGG
Found at i:60288986 original size:21 final size:21
Alignment explanation
Indices: 60288928--60288987 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
60288918 AGTTGAATAT
*
60288928 GTTTAAATG-TTGAATAGTTG
1 GTTTAAATGATTGAATGGTTG
* * *
60288948 GATGGTAAATTATGGAATGGTTG
1 G-T-TTAAATGATTGAATGGTTG
60288971 GTTTAAATGATTGAATG
1 GTTTAAATGATTGAATG
60288988 CTTGAATTGG
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
20 1 0.03
21 13 0.43
22 6 0.20
23 10 0.33
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (21 bp):
GTTTAAATGATTGAATGGTTG
Found at i:60293395 original size:50 final size:49
Alignment explanation
Indices: 60293271--60293397 Score: 155
Period size: 50 Copynumber: 2.6 Consensus size: 49
60293261 GTATGCATAG
*** ** * *
60293271 TAGCCTGCACTTAGTACTACACATACGACCAATTATCCGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACGTAC
* *
60293320 TAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACATGTAC
1 TAGCCTGCACTTAGTACTACACACGTGACC-AACCATCCGATACACGTAC
*
60293370 TAGCCTGCACTTAGCACTACACACGTGA
1 TAGCCTGCACTTAGTACTACACACGTGA
60293398 TTGAAGTTAT
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
49 27 0.40
50 40 0.60
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (49 bp):
TAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACGTAC
Found at i:60293727 original size:27 final size:27
Alignment explanation
Indices: 60293697--60293750 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
60293687 TCATACAACC
* *
60293697 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
60293724 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
60293751 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:60322434 original size:38 final size:38
Alignment explanation
Indices: 60322392--60322468 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
60322382 AGGGTTGTGG
60322392 ATTAAAACTTGGTTTTAAAGTGTTATTCAACTTGTTTT
1 ATTAAAACTTGGTTTTAAAGTGTTATTCAACTTGTTTT
60322430 ATTAAAACTTGGTTTTAAAGTGTTATTCAACTTGTTTT
1 ATTAAAACTTGGTTTTAAAGTGTTATTCAACTTGTTTT
60322468 A
1 A
60322469 ACATAATTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.30, C:0.08, G:0.13, T:0.49
Consensus pattern (38 bp):
ATTAAAACTTGGTTTTAAAGTGTTATTCAACTTGTTTT
Found at i:60333010 original size:28 final size:28
Alignment explanation
Indices: 60332947--60333044 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
60332937 ATTTTAAGTC
*
60332947 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
60332974 CGCACACTTAGTGCTATGTAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
60333002 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
60333031 CGCACACTTAGTGC
1 CGCACACTTAGTGC
60333045 CAATCTCATG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 21 0.34
28 22 0.35
29 19 0.31
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:60349394 original size:46 final size:44
Alignment explanation
Indices: 60349319--60349439 Score: 134
Period size: 46 Copynumber: 2.7 Consensus size: 44
60349309 AGGTTATTTG
* * * * * *
60349319 TGTGCCAATGTAAGGCATGGCTCGGACATGTATCGGCCTCGAGA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGA
* *
60349363 TGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGACTTTGAGA
1 TGT--GCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGA
*
60349409 TGTGTCAGTGTAAGACCATGTCTGGGACATG
1 TGTGCCAGTGTAAGA-CATGTCTGGGACATG
60349440 GCATTGGTAC
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
44 14 0.22
45 15 0.23
46 36 0.55
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.26
Consensus pattern (44 bp):
TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGA
Found at i:60349536 original size:49 final size:50
Alignment explanation
Indices: 60349412--60349592 Score: 155
Period size: 49 Copynumber: 3.7 Consensus size: 50
60349402 TTTGAGATGT
*
60349412 GTCAGTGTAAGACCATGTCTGGGACATGGCATTGGTACGGATATGTGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGTACGGATATGTGAGA
* * * * *
60349462 G-CTAGTGCAAGACCATGTCTAGGACATGGCGTCGGCCT-C-GAT-TTTGATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATCGG--TACGGATATGTGAGA
* *
60349511 GTCAGTGTAAGACCATGACTGGGACATGGCATC-G-AC--TTGATG-GATGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGTACGGAT-ATGTGA-GA
* * *
60349558 GTCAATATAAGACCATGTTTGGGACATGGCATCGG
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGG
60349593 CATTATACCC
Statistics
Matches: 105, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
45 1 0.01
46 3 0.03
47 31 0.30
48 2 0.02
49 33 0.31
50 33 0.31
51 1 0.01
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (50 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGTACGGATATGTGAGA
Found at i:60350315 original size:26 final size:26
Alignment explanation
Indices: 60350286--60350336 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
60350276 TTAATAAGTC
*
60350286 TATTTTCGAGAGAAATAGACAGGAAT
1 TATTTTCAAGAGAAATAGACAGGAAT
60350312 TATTTTCAAGAGAAATAGACAGGAA
1 TATTTTCAAGAGAAATAGACAGGAA
60350337 CATCATCCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.25
Consensus pattern (26 bp):
TATTTTCAAGAGAAATAGACAGGAAT
Found at i:60355609 original size:14 final size:14
Alignment explanation
Indices: 60355592--60355621 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
60355582 AATGTACTAA
60355592 TTTAAGAAAATAAT
1 TTTAAGAAAATAAT
60355606 TTTAAGAAAATAAT
1 TTTAAGAAAATAAT
60355620 TT
1 TT
60355622 CTAAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (14 bp):
TTTAAGAAAATAAT
Found at i:60383615 original size:40 final size:40
Alignment explanation
Indices: 60383483--60383668 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
60383473 GCTACTCGTT
* *
60383483 CAAATGCCTTCGAGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
60383523 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
60383563 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
60383603 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
60383644 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
60383669 CATCATTCAA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 114 0.88
41 13 0.10
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:60389677 original size:27 final size:27
Alignment explanation
Indices: 60389647--60389824 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
60389637 ATATTGAGCC
* * *
60389647 CGCACACTCAATGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
60389674 CGCACACTTAGCGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
60389701 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
60389729 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
60389756 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
60389783 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
60389810 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
60389825 GTACAATTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:60389796 original size:54 final size:55
Alignment explanation
Indices: 60389647--60389824 Score: 191
Period size: 54 Copynumber: 3.3 Consensus size: 55
60389637 ATATTGAGCC
* * * * * * * *
60389647 CGCACACTCAATGCTATATAATC-AACTCGCACACTTAGCGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
** * *
60389701 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
* **
60389756 CGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
60389810 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
60389825 GTACAATTTA
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
54 59 0.57
55 44 0.43
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:60394544 original size:40 final size:40
Alignment explanation
Indices: 60394386--60394547 Score: 177
Period size: 40 Copynumber: 4.0 Consensus size: 40
60394376 CGGAATTTAA
** *
60394386 CCAGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCAGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
60394426 CCAGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
60394466 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCAGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
60394506 CCAGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCAGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
60394546 CC
1 CC
60394548 GGACATCATT
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
39 4 0.04
40 87 0.85
41 11 0.11
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:60394700 original size:100 final size:100
Alignment explanation
Indices: 60394577--60394775 Score: 389
Period size: 100 Copynumber: 2.0 Consensus size: 100
60394567 ATGCACATTT
60394577 AACAATAAATCATGGCACATTCGTATTTCGTTTTCGTTAGCAAAACTCAAACACAAGACACTTAT
1 AACAATAAATCATGGCACATTCGTATTTCGTTTTCGTTAGCAAAACTCAAACACAAGACACTTAT
60394642 CATTCTTGCAATTTCGGCTCAATAGCCACACACAC
66 CATTCTTGCAATTTCGGCTCAATAGCCACACACAC
*
60394677 AACAATAAATCATGGCACATTCGTATTTCGTTTTTGTTAGCAAAACTCAAACACAAGACACTTAT
1 AACAATAAATCATGGCACATTCGTATTTCGTTTTCGTTAGCAAAACTCAAACACAAGACACTTAT
60394742 CATTCTTGCAATTTCGGCTCAATAGCCACACACA
66 CATTCTTGCAATTTCGGCTCAATAGCCACACACA
60394776 AAGAGCATGA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.29
Consensus pattern (100 bp):
AACAATAAATCATGGCACATTCGTATTTCGTTTTCGTTAGCAAAACTCAAACACAAGACACTTAT
CATTCTTGCAATTTCGGCTCAATAGCCACACACAC
Found at i:60402558 original size:40 final size:40
Alignment explanation
Indices: 60402514--60402699 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
60402504 GCTACTCGTT
* *
60402514 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
60402554 CAAATGCCTTCGGGACTTAACTCGGATTTACTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
60402594 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * * *
60402634 CAAATGCCTTC-TGATCTTAGTCCGCATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
60402675 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
60402700 CATCATTCAA
Statistics
Matches: 122, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 109 0.89
41 11 0.09
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:60412154 original size:42 final size:43
Alignment explanation
Indices: 60412091--60412180 Score: 164
Period size: 42 Copynumber: 2.1 Consensus size: 43
60412081 CAGAAGCCCC
60412091 CCTCTGACTACCACCCCTGCCTCCTAAAATTCTCGGTGGTCT-
1 CCTCTGACTACCACCCCTGCCTCCTAAAATTCTCGGTGGTCTA
*
60412133 CCTCTGACTACCACCCTTGCCTCCTAAAATTCTCGGTGGTCTA
1 CCTCTGACTACCACCCCTGCCTCCTAAAATTCTCGGTGGTCTA
60412176 CCTCT
1 CCTCT
60412181 AGATGTCACT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 41 0.89
43 5 0.11
ACGTcount: A:0.17, C:0.40, G:0.13, T:0.30
Consensus pattern (43 bp):
CCTCTGACTACCACCCCTGCCTCCTAAAATTCTCGGTGGTCTA
Found at i:60412748 original size:58 final size:58
Alignment explanation
Indices: 60412675--60412790 Score: 205
Period size: 58 Copynumber: 2.0 Consensus size: 58
60412665 GCAACCTCAT
60412675 CAGCTACACACTCCCGGGCATACCTACTAAGTCTTACGAATTCATGTTCGTATTCAGA
1 CAGCTACACACTCCCGGGCATACCTACTAAGTCTTACGAATTCATGTTCGTATTCAGA
* * *
60412733 CAGCTACCCCCTCCCGGGCATACCTACTGAGTCTTACGAATTCATGTTCGTATTCAGA
1 CAGCTACACACTCCCGGGCATACCTACTAAGTCTTACGAATTCATGTTCGTATTCAGA
60412791 TACAGTCATA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (58 bp):
CAGCTACACACTCCCGGGCATACCTACTAAGTCTTACGAATTCATGTTCGTATTCAGA
Found at i:60414880 original size:27 final size:27
Alignment explanation
Indices: 60414850--60415027 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
60414840 ATATTGAGTC
* *
60414850 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
60414877 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
60414904 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
60414932 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
60414959 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
60414986 CGCACACTTAGTG-TAACATAGTCAAAT
1 CGCACACTTAGTGCT-ACATAATCAACT
60415013 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
60415028 GTACAATTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:60414989 original size:82 final size:81
Alignment explanation
Indices: 60414871--60415026 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
60414861 TGCTATATAA
*
60414871 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCT-ACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTG-TAACATAGTCAAA-TCGC
60414935 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
60414953 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGTAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGTAACATAGTCAAATCGCA
60415017 CACTTAGTGC
65 CACTTAGTGC
60415027 TGTACAATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 17 0.25
82 50 0.75
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGTAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:60422062 original size:76 final size:74
Alignment explanation
Indices: 60421967--60422247 Score: 296
Period size: 64 Copynumber: 3.9 Consensus size: 74
60421957 GTTTTATTTC
* * * *
60421967 AAAATTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGAGGTATTGTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT-TCAATTTT
**
60422032 TCGTATGTTTC
65 T-GTATGTTAA
*
60422043 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGCGCTGAGGTA--T---TTTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATTTTT
60422103 -TA----AA
66 GTATGTTAA
* *
60422107 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTCAATTTT
*
60422172 TGT-TGTAAAA
65 TGTATGT-TAA
* * * *
60422182 AAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTA-TTTCAATT
60422247 T
63 T
60422248 CCGTTTTTCA
Statistics
Matches: 175, Mismatches: 15, Indels: 29
0.80 0.07 0.13
Matches are distributed among these distances:
64 51 0.29
65 1 0.01
67 1 0.01
68 2 0.01
70 9 0.05
71 1 0.01
73 1 0.01
75 39 0.22
76 50 0.29
77 20 0.11
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATTTTT
GTATGTTAA
Found at i:60422144 original size:140 final size:140
Alignment explanation
Indices: 60421967--60422241 Score: 367
Period size: 140 Copynumber: 2.0 Consensus size: 140
60421957 GTTTTATTTC
* * * *
60421967 AAAATTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGAGGT-ATTGTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT-TCAATTT
* *** * * *
60422031 TTCGTATGT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACGCGCTGAG
65 CT-GT-TGTAAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAG
60422094 GTATTTTTTTAAA
128 GTATTTTTTTAAA
*
60422107 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* *
60422172 TGTTGTAAAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGT
66 TGTTGTAAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGT
60422237 ATTTT
130 ATTTT
60422242 CAATTTCCGT
Statistics
Matches: 117, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
138 3 0.03
139 40 0.34
140 56 0.48
141 18 0.15
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (140 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTGTAAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTA
TTTTTTTAAA
Found at i:60422247 original size:77 final size:75
Alignment explanation
Indices: 60422104--60422248 Score: 218
Period size: 75 Copynumber: 1.9 Consensus size: 75
60422094 GTATTTTTTT
* * *
60422104 AAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAAT
60422169 TTCTGTTGTA
66 TTCTGTTGTA
* * *
60422179 AAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCA
1 AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG--ACACGCCGAGGTAATTTCA
60422244 ATTTC
64 ATTTC
60422249 CGTTTTTCAA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
75 40 0.65
77 22 0.35
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (75 bp):
AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCAAT
TTCTGTTGTA
Found at i:60422332 original size:92 final size:91
Alignment explanation
Indices: 60422162--60422339 Score: 207
Period size: 92 Copynumber: 1.9 Consensus size: 91
60422152 GCTGAGGTAA
* * *
60422162 TTTCAATTTCTGTTGTAAAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCAC
1 TTTCAATTTCTGTTGTAAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTAAGCCTCAGGTCAC
*
60422227 ACGCCGAGGTATTTTCAATTTCCGTT
66 ACGCCGAGCTATTTTCAATTTCCGTT
* ** * *
60422253 TTTCAATTTCTGCCTT-TCAAAAAAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT-TGGCT
1 TTTCAATTTCTG--TTGTAAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTAAGCCTCAGG-T
** *
60422316 CACGTGCTGAGCTATTTTCAATTT
63 CACACGCCGAGCTATTTTCAATTT
60422340 TTGTCTTTCA
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
91 14 0.19
92 56 0.78
93 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (91 bp):
TTTCAATTTCTGTTGTAAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTAAGCCTCAGGTCAC
ACGCCGAGCTATTTTCAATTTCCGTT
Found at i:60422383 original size:169 final size:169
Alignment explanation
Indices: 60422104--60422747 Score: 1019
Period size: 169 Copynumber: 3.8 Consensus size: 169
60422094 GTATTTTTTT
* ** * * * *
60422104 AAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTC
1 AAAAAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTTC
** * * * *
60422166 AATTTCTGT-TGTAAAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACG
65 AATTTCTGTCT-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACG
60422230 CCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC
129 CCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC
* * * *
60422271 AAAAAAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTGGCTCACGTGCTGAGCTATTTTCA
1 AAAAAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCA
*
60422336 ATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCC
66 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCC
60422401 GAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC
131 GAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC
* *
60422440 AAAAAAAATCGACTCATATTACGAGAGGTGATTTGAGCCTTGGCTCCCGCGCTGAGCTATTTTCA
1 AAAAAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCA
*
60422505 ATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCC
66 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCC
60422570 GAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC
131 GAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC
60422609 AAAAAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCA
1 AAAAAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCA
* * *
60422674 ATTTCTGTCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACT
66 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCC
60422738 GAGGTATTTT
131 GAGGTATTTT
60422748 TTTTTCAATC
Statistics
Matches: 445, Mismatches: 28, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
166 2 0.00
167 36 0.08
168 58 0.13
169 348 0.78
170 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (169 bp):
AAAAAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCA
ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCC
GAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC
Found at i:60422426 original size:77 final size:77
Alignment explanation
Indices: 60422252--60422427 Score: 217
Period size: 77 Copynumber: 2.3 Consensus size: 77
60422242 CAATTTCCGT
* ** ** *
60422252 TTTTCAATTTCTGCCTTTCAAAAAAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTGGCTC
1 TTTTCAATTTCTGTCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGATC
** *
60422317 ACGTGCTGAGCTA
65 ACACGCCGAGCTA
* *
60422330 TTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGATCA
*
60422395 CACGCCGAGGTA
66 CACGCCGAGCTA
* *
60422407 TTTTCAATTTCCGTTTTTCAA
1 TTTTCAATTTCTGTCTTTCAA
60422428 TTTCTGCCTT
Statistics
Matches: 83, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
77 66 0.80
78 17 0.20
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (77 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGATCA
CACGCCGAGCTA
Found at i:60422501 original size:92 final size:91
Alignment explanation
Indices: 60422330--60422508 Score: 241
Period size: 92 Copynumber: 2.0 Consensus size: 91
60422320 TGCTGAGCTA
* * *
60422330 TTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGATCA
*
60422395 CACGCCGAGGTATTTTCAATTTCCGT
66 CACGCCGAGCTATTTTCAATTTCCGT
* * ** *
60422421 TTTTCAATTTCTGCCTTTCAAAAAAAATCGACTCATATTACGAGAGGTGATTTGAGCCTTGGCTC
1 TTTTCAATTTCTGCCTTTC-AAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGATC
* * *
60422486 CCGCGCTGAGCTATTTTCAATTT
65 ACACGCCGAGCTATTTTCAATTT
60422509 TTGTCTTTCA
Statistics
Matches: 75, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
91 17 0.23
92 58 0.77
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (91 bp):
TTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGATCA
CACGCCGAGCTATTTTCAATTTCCGT
Found at i:60422595 original size:77 final size:77
Alignment explanation
Indices: 60422421--60422596 Score: 217
Period size: 77 Copynumber: 2.3 Consensus size: 77
60422411 CAATTTCCGT
* * * ** *
60422421 TTTTCAATTTCTGCCTTTCAAAAAAAATCGACTCATATTACGAGAGGTGATTTGAGCCTTGGCTC
1 TTTTCAATTTCTGTCTTTC-AAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGATC
* * *
60422486 CCGCGCTGAGCTA
65 ACACGCCGAGCTA
* *
60422499 TTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGATCA
*
60422564 CACGCCGAGGTA
66 CACGCCGAGCTA
* *
60422576 TTTTCAATTTCCGTTTTTCAA
1 TTTTCAATTTCTGTCTTTCAA
60422597 TTTCTGCCTT
Statistics
Matches: 83, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
77 66 0.80
78 17 0.20
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (77 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGATCA
CACGCCGAGCTA
Found at i:60422670 original size:92 final size:91
Alignment explanation
Indices: 60422499--60422688 Score: 263
Period size: 92 Copynumber: 2.1 Consensus size: 91
60422489 CGCTGAGCTA
* * *
60422499 TTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGATCA
*
60422564 CACGCCGAGGTATTTTCAATTTCCGT
66 CACGCCGAGCTATTTTCAATTTCCGT
* ** *
60422590 TTTTCAATTTCTGCCTTTCAAAAAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCTTGGCTC
1 TTTTCAATTTCTGCCTTTC-AAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGATC
* * *
60422655 ACGCGCTGAGCTATTTTCAATTTCTGT
65 ACACGCCGAGCTATTTTCAATTTCCGT
*
60422682 CTTTCAA
1 TTTTCAA
60422689 AAAATCAACT
Statistics
Matches: 86, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
91 17 0.20
92 69 0.80
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (91 bp):
TTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGATCA
CACGCCGAGCTATTTTCAATTTCCGT
Found at i:60422740 original size:76 final size:77
Alignment explanation
Indices: 60422590--60422747 Score: 212
Period size: 76 Copynumber: 2.1 Consensus size: 77
60422580 CAATTTCCGT
* * *
60422590 TTTTCAATTTCTGCCTTTCAAAAAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCTTGGCTC
1 TTTTCAATTTCTGCCTTTC-AAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTAGATC
* *
60422655 ACGCGCTGAGCTA
65 ACACACTGAGCTA
* *
60422668 TTTTCAATTTCTGTCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATC
1 TTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTT-AGATC
*
60422731 ACACACTGAGGTA
65 ACACACTGAGCTA
60422744 TTTT
1 TTTT
60422748 TTTTTCAATC
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
75 3 0.04
76 50 0.70
78 18 0.25
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (77 bp):
TTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTAGATCA
CACACTGAGCTA
Found at i:60422791 original size:63 final size:63
Alignment explanation
Indices: 60422691--60422810 Score: 213
Period size: 63 Copynumber: 1.9 Consensus size: 63
60422681 TCTTTCAAAA
* *
60422691 AATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTTTTC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACACCGAGGTATTTTTTTTTC
*
60422754 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACACCGAGGTATTTT
60422811 CAATTTCCGT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (63 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACACCGAGGTATTTTTTTTTC
Found at i:60422875 original size:92 final size:87
Alignment explanation
Indices: 60422754--60423584 Score: 462
Period size: 87 Copynumber: 9.5 Consensus size: 87
60422744 TTTTTTTTTC
* *
60422754 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAATTTCT
* **
60422819 GTTTTTCAATTTCTGCCTTTCAAAAAA
66 GTTTTTCAAGTTAAG--TTTC---AAA
* * * * ** * **
60422846 AATCGACTCATATTACGAGAGGTGAGTTGAGTCT-TGAGTCACATATCGAGGCATTTTCAAAATC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA-TCACACGTCGAGGTATTTTCAATTTC
*
60422910 TGCTTTTCAAGTTAAGTTTCAAA
65 TGTTTTTCAAGTTAAGTTTCAAA
* *
60422933 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAATTTCT
*
60422996 GTCTTTC-----AA-----AAA
66 GTTTTTCAAGTTAAGTTTCAAA
* * * * * *
60423008 AATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA-A-GACGC-T-GAGGTGTTTTCCATTTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAATTTCT
* * **
60423069 GTTCTTCAATTTCTGTGTTTCAAAAA
66 GTTTTTCAA-GT-TAAGTTTC--AAA
* * * * *
60423095 AATCAGCTCATGTTGCGAGTGGTGAGTTGAGCCT-TGACTCACACG-CTGAGGTATTTTCAAATT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA-TCACACGTC-GAGGTATTTTCAATTT
* * * **
60423158 CTATTTTTAAAATTTTGTTTTTCCAAAAAA
64 CTGTTTTTCAAGTTAAG--TTT-C---AAA
* * *
60423188 AATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAG--GACACGTTGAGGTATTTTCAA-TT-T
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAATTTCT
* *
60423249 -TTTTTCAATTTATGTTTGTCAAAAAA
66 GTTTTTCAAGTTAAG-TT-TC---AAA
** *
60423275 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCCACACGCCGAGGTATTTTCAATTGAT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAATT--T
* * * *
60423340 GTGTTTTTTTAATTTATGCTTTGCAAA
64 CTG-TTTTTCAAGTTAAG-TTT-CAAA
* * * * ** * *
60423367 AATCAACTCATATTACGAGAGGTGAGTTGAGCTTCGGGTCACATATCGAGGTATTTTC-ATAATA
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAAT-TTC
* * ** *
60423431 TGTTTTACAAATTTTGTTTTAAA
65 TGTTTTTCAAGTTAAGTTTCAAA
* * * * *
60423454 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TG-GCTCACGTGCTGAGCTATTTTCAATTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGT-C-GAGGTATTTTCAATTT
*
60423517 CTGTTTTT-AATGTCT-AGTTTTAAA
64 CTGTTTTTCAA-GT-TAAGTTTCAAA
* * * ** *
60423541 CAGTCAATTCATATTGTGAGAAATGAGTTAAG-CTCAGGATCACA
1 -AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GATCACA
60423585 TGCCGAGTAA
Statistics
Matches: 588, Mismatches: 103, Indels: 98
0.75 0.13 0.12
Matches are distributed among these distances:
73 21 0.04
74 1 0.00
75 42 0.07
80 2 0.00
85 28 0.05
86 4 0.01
87 178 0.30
88 44 0.07
89 36 0.06
90 14 0.02
91 46 0.08
92 118 0.20
93 36 0.06
94 2 0.00
95 16 0.03
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (87 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAATTTCT
GTTTTTCAAGTTAAGTTTCAAA
Found at i:60423077 original size:73 final size:74
Alignment explanation
Indices: 60422930--60423070 Score: 221
Period size: 75 Copynumber: 1.9 Consensus size: 74
60422920 GTTAAGTTTC
* *
60422930 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGA-ACGCTGAGGTATTTTCAATTTC
60422995 TGTCTTTCAA
65 TGTCTTTCAA
* * *
60423005 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG-ACGCTGAGGTGTTTTCCATTTCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAACGCTGAGGTATTTTCAATTTCT
60423069 GT
66 GT
60423071 TCTTCAATTT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 22 0.36
75 39 0.64
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAACGCTGAGGTATTTTCAATTTCT
GTCTTTCAA
Found at i:60423303 original size:180 final size:176
Alignment explanation
Indices: 60422989--60423526 Score: 538
Period size: 179 Copynumber: 3.0 Consensus size: 176
60422979 AGGTATTTTC
* * * * *
60422989 AATTTCTGTCTTT-CAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AGACGCT
1 AATTTATG-CTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTT
* * * * *
60423051 GAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATGTTGCGAGTG
65 GAGGTATTTTCAATTT-T-TT-TTCAATTT-TGT-TTTCAAAAAAATCAACTCATATTGCGAGAG
* * *
60423116 GTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTATTTTTAA
125 GTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTTCTGTTTTTAA
* *
60423168 AATTT-TGTTTTTCCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGT
1 AATTTATG-CTTTCC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGT
60423232 TGAGGTATTTTCAATTTTTTTTCAATTTATGTTTGTCAAAAAAAATCAACTCATATTGCGAGAGG
64 TGAGGTATTTTCAATTTTTTTTCAATTT-TGTTT-TC-AAAAAAATCAACTCATATTGCGAGAGG
* * * **
60423297 TGAGTTGAGCCTCAGGC-CACACGCCGAGGTATTTTCAATTGATGTGTTTTTTT
126 TGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTCAATT--TCTGTTTTTAA
* * * * * *
60423350 AATTTATGCTTTGC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTCGGGTCACATAT
1 AATTTATGCTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGT-T
* * *
60423413 CGAGGTATTTTCATAATATGTTTTACAAATTTTGTTTT---AAAAATCAACTCATATTGCGAGAA
65 -GAGGTATTTTC--AAT-TTTTTTTC-AATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAG
** *
60423475 GTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTTAA
125 GTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTTCTGTTTTTAA
60423527 TGTCTAGTTT
Statistics
Matches: 303, Mismatches: 39, Indels: 36
0.80 0.10 0.10
Matches are distributed among these distances:
177 8 0.03
178 11 0.04
179 115 0.38
180 98 0.32
181 14 0.05
182 35 0.12
183 6 0.02
184 11 0.04
185 5 0.02
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (176 bp):
AATTTATGCTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTG
AGGTATTTTCAATTTTTTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTTCTGTTTTTAA
Found at i:60432368 original size:73 final size:74
Alignment explanation
Indices: 60432221--60432361 Score: 221
Period size: 75 Copynumber: 1.9 Consensus size: 74
60432211 GTTAAGTTTC
* *
60432221 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGA-ACGCTGAGGTATTTTCAATTTC
60432286 TGTCTTTCAA
65 TGTCTTTCAA
* * *
60432296 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG-ACGCTGAGGTGTTTTCCATTTCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAACGCTGAGGTATTTTCAATTTCT
60432360 GT
66 GT
60432362 TCTTCAATTT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 22 0.36
75 39 0.64
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAACGCTGAGGTATTTTCAATTTCT
GTCTTTCAA
Found at i:60432576 original size:87 final size:85
Alignment explanation
Indices: 60432275--60432778 Score: 423
Period size: 87 Copynumber: 5.7 Consensus size: 85
60432265 CGTTGAGGTA
* * *
60432275 TTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AGA
1 TTTTCAATTT-TGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
60432338 CGCTGAGGTGTTTTC-CATTTCT
64 CGCTGAGGTATTTTCAAATTT-T
* * * * *
60432360 GTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATGTTGCGAGTGGTGAGTTGAGCCTTGACT
1 -TT-TTCAATTT-TGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-G
*
60432425 CACACGCTGAGGTATTTTCAAATTCTGT
60 GACACGCTGAGGTATTTTCAAATT-T-T
* *
60432453 TTTTAAAATTTTGTTTTTCCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGA
1 TTTT-CAATTTTG-TTTT-C-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
*
60432518 CACGTTGAGGTATTTTC-AATTTT
62 CACGCTGAGGTATTTTCAAATTTT
60432541 TTTTCAATTTATGTTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCC
1 TTTTCAATTT-TGTTT-TC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
*
60432606 ACACGCCGAGGTATTTTCAATTGATGTGTT
61 ACACGCTGAGGTATTTTCAA---AT-T-TT
* * * * * *
60432636 TTTTTAATTTATGCTTTGC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTCGGGTCA
1 TTTTCAATTT-TG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
** *
60432699 CATATCGAGGTATTTTCATAATCTGT
64 C-GCT-GAGGTATTTTCA-AAT-TTT
* *
60432725 TTTACAAATTTTGTTTT---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 TTTTC-AATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
60432779 TGGCTCACGT
Statistics
Matches: 353, Mismatches: 39, Indels: 51
0.80 0.09 0.12
Matches are distributed among these distances:
86 2 0.01
87 137 0.39
88 13 0.04
89 23 0.07
90 16 0.05
91 40 0.11
92 64 0.18
93 39 0.11
94 1 0.00
95 15 0.04
96 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (85 bp):
TTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTATTTTCAAATTTT
Found at i:60432594 original size:180 final size:176
Alignment explanation
Indices: 60432280--60432817 Score: 547
Period size: 179 Copynumber: 3.0 Consensus size: 176
60432270 AGGTATTTTC
* * * * *
60432280 AATTTCTGTCTTT-CAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AGACGCT
1 AATTTATG-CTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTT
* * * * *
60432342 GAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATGTTGCGAGTG
65 GAGGTATTTTCAATTT-T-TT-TTCAATTT-TGT-TTTCAAAAAAATCAACTCATATTGCGAGAG
* *
60432407 GTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGTTTTTAA
125 GTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTTCTGTTTTTAA
* *
60432459 AATTT-TGTTTTTCCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGT
1 AATTTATG-CTTTCC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGT
60432523 TGAGGTATTTTCAATTTTTTTTCAATTTATGTTTGTCAAAAAAAATCAACTCATATTGCGAGAGG
64 TGAGGTATTTTCAATTTTTTTTCAATTT-TGTTT-TC-AAAAAAATCAACTCATATTGCGAGAGG
* * * **
60432588 TGAGTTGAGCCTCAGGC-CACACGCCGAGGTATTTTCAATTGATGTGTTTTTTT
126 TGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTCAATT--TCTGTTTTTAA
* * * * * *
60432641 AATTTATGCTTTGC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTCGGGTCACATAT
1 AATTTATGCTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGT-T
* * *
60432704 CGAGGTATTTTCATAATCTGTTTTACAAATTTTGTTTT---AAAAATCAACTCATATTGCGAGAA
65 -GAGGTATTTTC--AAT-TTTTTTTC-AATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAG
** *
60432766 GTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTTAA
125 GTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTTCTGTTTTTAA
60432818 TGTCTAGTTT
Statistics
Matches: 304, Mismatches: 38, Indels: 36
0.80 0.10 0.10
Matches are distributed among these distances:
177 8 0.03
178 11 0.04
179 115 0.38
180 98 0.32
181 14 0.05
182 36 0.12
183 6 0.02
184 11 0.04
185 5 0.02
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (176 bp):
AATTTATGCTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTG
AGGTATTTTCAATTTTTTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTTGGCTCACACGCTGAGGTATTTTCAATTTCTGTTTTTAA
Found at i:60432828 original size:87 final size:85
Alignment explanation
Indices: 60432296--60432852 Score: 348
Period size: 87 Copynumber: 6.3 Consensus size: 85
60432286 TGTCTTTCAA
* * * * * * *
60432296 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACC-T--C-AAGACGCTGAGGTGTTTTCCATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTTCAATT
* *
60432357 TCTGTTCTTCAATTTCTGTGTTT
66 TCTGTT-TTTAATTT-AGT-TTT
* * * * *
60432380 CAAAAAAATCAGCTCATGTTGCGAGTGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCA
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTTCA
* *
60432445 AATTCTGTTTTTAAAATTTTGTTTTT
63 ATTTCTGTTTTT--AATTTAG-TTTT
* * * *
60432471 CCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGG---ACACGTTGAGGTATTT
1 -----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACATGCTGAGGTATTT
*
60432533 TCAATTT-T-TTTTCAATTTATGTTTGT
60 TCAATTTCTGTTTTTAATTTA-GTTT-T
* * *
60432559 CAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGC-CACACGCCGAGGTATTTT
1 ----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACATGCTGAGGTATTTT
* *
60432623 CAATTGATGTGTTTTTTTAATTTATGCTTTGC
61 CAATT--TCTG--TTTTTAATTTA-G-TTT-T
* * *
60432655 AAAAATCAACTCATATTACGAGAGGTGAGTTGAG-CTTCGGGTCACAT-ATCGAGGTATTTTC-A
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCACATGCT-GAGGTATTTTCAA
* * *
60432717 TAATCTGTTTTACAAATTTTGTTTT
64 T-TTCTGTTTT--TAATTTAGTTTT
* * *
60432742 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTTCAATT
60432807 TCTGTTTTTAATGTCTAGTTTT
66 TCTGTTTTTAAT-T-TAGTTTT
* * *
60432829 AAACAGTCAATTCATATTGTGAGA
1 AAA-AATCAACTCATATTGCGAGA
60432853 AATGAGTTAA
Statistics
Matches: 389, Mismatches: 48, Indels: 65
0.77 0.10 0.13
Matches are distributed among these distances:
85 3 0.01
86 1 0.00
87 151 0.39
88 33 0.08
89 25 0.06
90 12 0.03
91 57 0.15
92 55 0.14
93 35 0.09
94 1 0.00
95 12 0.03
96 4 0.01
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.37
Consensus pattern (85 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTTCAATT
TCTGTTTTTAATTTAGTTTT
Found at i:60433918 original size:227 final size:229
Alignment explanation
Indices: 60433515--60433976 Score: 849
Period size: 227 Copynumber: 2.0 Consensus size: 229
60433505 CCAAAAAAAA
60433515 AAAAAAGAAAAACCTAACCCCCCCAAAAAAAAACAAGAAACCCTAGCCACCTAGCCACTTTCCCA
1 AAAAAAGAAAAACCTAACCCCCCCAAAAAAAAACAAGAAACCCTAGCCACCTAGCCACTTTCCCA
60433580 CTTGCCCCATTTTTCCTCCCATTTTTGATATCCATTGTCTACCACCACCACCTACAAAATAGAAA
66 CTTGCCCCATTTTTCCTCCCATTTTTGATATCCATTGTCTACCACCACCACCTACAAAATAGAAA
60433645 AAGAAATAAAAGAAAATCATGTAAAAAATGGCTATAAAAAGCCATTCAAAAATCATGTAAAGGAG
131 AAGAAATAAAAGAAAATCATGTAAAAAATGGCTATAAAAAGCCATTCAAAAATCATGTAAAGGAG
60433710 GAGGAATTTTGATCAATACAAAGAATTTATCTTC
196 GAGGAATTTTGATCAATACAAAGAATTTATCTTC
*
60433744 AAAAAA-AAAAACCTAACCCCCACC-AAAAAAACCAAGAAACCCTAGCCACCT-GCCACTTTCCC
1 AAAAAAGAAAAACCTAACCCCC-CCAAAAAAAAACAAGAAACCCTAGCCACCTAGCCACTTTCCC
60433806 ACTTGCCCCATTTTTCCTCCCATTTTTGATATCCATTGTCTACCACCACCACCTACAAAATAGAA
65 ACTTGCCCCATTTTTCCTCCCATTTTTGATATCCATTGTCTACCACCACCACCTACAAAATAGAA
* * *
60433871 AAAGAAATAATAGAAAATCATGTAAAAGATGGCTATAAAAAGCCATTCAAAAATCATGTAAGGGA
130 AAAGAAATAAAAGAAAATCATGTAAAAAATGGCTATAAAAAGCCATTCAAAAATCATGTAAAGGA
*
60433936 GGGGGAATTTTGATCAATACAAAGAATTTATCTTC
195 GGAGGAATTTTGATCAATACAAAGAATTTATCTTC
60433971 AAAAAA
1 AAAAAA
60433977 TACCTAAAGG
Statistics
Matches: 227, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
227 178 0.78
228 41 0.18
229 8 0.04
ACGTcount: A:0.43, C:0.24, G:0.10, T:0.22
Consensus pattern (229 bp):
AAAAAAGAAAAACCTAACCCCCCCAAAAAAAAACAAGAAACCCTAGCCACCTAGCCACTTTCCCA
CTTGCCCCATTTTTCCTCCCATTTTTGATATCCATTGTCTACCACCACCACCTACAAAATAGAAA
AAGAAATAAAAGAAAATCATGTAAAAAATGGCTATAAAAAGCCATTCAAAAATCATGTAAAGGAG
GAGGAATTTTGATCAATACAAAGAATTTATCTTC
Found at i:60434029 original size:18 final size:17
Alignment explanation
Indices: 60433989--60434027 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
60433979 CCTAAAGGTG
*
60433989 ATTTTATCTTCTTTATT
1 ATTTTATCTTATTTATT
60434006 ATTTTACTCTTATTT-TT
1 ATTTTA-TCTTATTTATT
60434023 ATTTT
1 ATTTT
60434028 TATTTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTATCTTATTTATT
Found at i:60442841 original size:8 final size:8
Alignment explanation
Indices: 60442817--60442862 Score: 62
Period size: 8 Copynumber: 6.1 Consensus size: 8
60442807 TTCTTTTGCA
60442817 ATATTATT
1 ATATTATT
*
60442825 A-ACTATT
1 ATATTATT
60442832 ATATTATT
1 ATATTATT
60442840 ATATTATT
1 ATATTATT
60442848 ATATTA-T
1 ATATTATT
60442855 A-ATTATT
1 ATATTATT
60442862 A
1 A
60442863 ATTTCTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 4 0.12
7 10 0.29
8 20 0.59
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (8 bp):
ATATTATT
Found at i:60449275 original size:6 final size:6
Alignment explanation
Indices: 60449264--60449295 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
60449254 ACACCGTAGG
60449264 GTAACA GTAACA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GT
60449296 CATAGTCAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:60449320 original size:18 final size:16
Alignment explanation
Indices: 60449268--60449321 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 16
60449258 CGTAGGGTAA
60449268 CAGTAACAGTAACAGT
1 CAGTAACAGTAACAGT
* *
60449284 AACAGTAACAGTCATAGT
1 --CAGTAACAGTAACAGT
60449302 CAGGTAAACAGTAACAGT
1 CA-GT-AACAGTAACAGT
60449320 CA
1 CA
60449322 TAGTCAGGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
16 2 0.07
17 2 0.07
18 26 0.87
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (16 bp):
CAGTAACAGTAACAGT
Found at i:60449338 original size:24 final size:24
Alignment explanation
Indices: 60449284--60449331 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
60449274 CAGTAACAGT
60449284 AACAGTAACAGTCATAGTCAGGTA
1 AACAGTAACAGTCATAGTCAGGTA
60449308 AACAGTAACAGTCATAGTCAGGTA
1 AACAGTAACAGTCATAGTCAGGTA
60449332 CAAAGTACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.21
Consensus pattern (24 bp):
AACAGTAACAGTCATAGTCAGGTA
Found at i:60450214 original size:12 final size:11
Alignment explanation
Indices: 60450196--60450247 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 11
60450186 CACCTTGTCG
60450196 TTATTTCTTTT
1 TTATTTCTTTT
60450207 TCTATTTCATTTCT
1 T-TATTTC-TTT-T
60450221 TTA-TTCTTTT
1 TTATTTCTTTT
60450231 ATTATTTCTTTT
1 -TTATTTCTTTT
60450243 ATTAT
1 -TTAT
60450248 ATTATTAACT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
10 1 0.03
11 7 0.19
12 21 0.58
13 5 0.14
14 2 0.06
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATTTCTTTT
Found at i:60450252 original size:8 final size:8
Alignment explanation
Indices: 60450241--60450291 Score: 63
Period size: 8 Copynumber: 6.8 Consensus size: 8
60450231 ATTATTTCTT
60450241 TTATTATA
1 TTATTATA
60450249 TTATTA-A
1 TTATTATA
*
60450256 CTATTATA
1 TTATTATA
60450264 TTATTATA
1 TTATTATA
*
60450272 TTATTAAA
1 TTATTATA
60450280 TTA-TA-A
1 TTATTATA
60450286 TTATTA
1 TTATTA
60450292 ATTTCTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
6 4 0.11
7 10 0.26
8 24 0.63
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (8 bp):
TTATTATA
Found at i:60450302 original size:22 final size:22
Alignment explanation
Indices: 60450241--60450291 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
60450231 ATTATTTCTT
60450241 TTATTATATTATTAACTATTAT-A
1 TTATTATATTATTAA--ATTATAA
60450264 TTATTATATTATTAAATTATAA
1 TTATTATATTATTAAATTATAA
60450286 TTATTA
1 TTATTA
60450292 ATTTCTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.19
22 7 0.26
23 15 0.56
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATTATATTATTAAATTATAA
Found at i:60453197 original size:46 final size:46
Alignment explanation
Indices: 60453137--60453870 Score: 1128
Period size: 46 Copynumber: 16.0 Consensus size: 46
60453127 TTTGACATGA
* * * * * *
60453137 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
60453183 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
60453229 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
60453275 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
60453321 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
60453367 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
60453413 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
60453459 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
60453505 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
**
60453551 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
** *
60453597 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*** *** *
60453643 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * * ** * * *
60453689 TGCTATGGTATCTCTCAACCATGATCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * * *
60453735 TGCCATGATATCTTTCATCCATGGTTTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * * *
60453781 TGCCATGGTGTCTTTCAACCATGGTTTTACATATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
60453827 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
60453871 AGACCACACT
Statistics
Matches: 644, Mismatches: 43, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
45 4 0.01
46 640 0.99
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:60455751 original size:27 final size:26
Alignment explanation
Indices: 60455721--60455773 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
60455711 AATAAAATAA
60455721 TAAAAAAATAATAATAA-AATATCTTAT
1 TAAAAAAATAATAA-AATAATAT-TTAT
* *
60455748 TAAAATATTAATAAAATAATATTTAT
1 TAAAAAAATAATAAAATAATATTTAT
60455774 CTAATTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
TAAAAAAATAATAAAATAATATTTAT
Found at i:60455764 original size:11 final size:11
Alignment explanation
Indices: 60455710--60455768 Score: 64
Period size: 11 Copynumber: 5.2 Consensus size: 11
60455700 CTTTATATAC
60455710 TAATAAAATAA
1 TAATAAAATAA
*
60455721 TAAAAAAATAA
1 TAATAAAATAA
*
60455732 TAATAAAATATCT
1 TAATAAAATA--A
* *
60455745 TATTAAAATAT
1 TAATAAAATAA
60455756 TAATAAAATAA
1 TAATAAAATAA
60455767 TA
1 TA
60455769 TTTATCTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
11 31 0.77
13 9 0.22
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:60459063 original size:22 final size:20
Alignment explanation
Indices: 60459018--60459062 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
60459008 TGCAACCCCT
*
60459018 CACACGCCTGTGTGGATAGA
1 CACACGCCCGTGTGGATAGA
*
60459038 CACATGCCCGTGTGGATAGA
1 CACACGCCCGTGTGGATAGA
60459058 CACAC
1 CACAC
60459063 ACCCCTGTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.18
Consensus pattern (20 bp):
CACACGCCCGTGTGGATAGA
Found at i:60459071 original size:20 final size:20
Alignment explanation
Indices: 60459028--60459071 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
60459018 CACACGCCTG
** *
60459028 TGTGGATAGACACATGCCCG
1 TGTGGATAGACACACACCCC
60459048 TGTGGATAGACACACACCCC
1 TGTGGATAGACACACACCCC
60459068 TGTG
1 TGTG
60459072 AAAACCACTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.25, C:0.27, G:0.27, T:0.20
Consensus pattern (20 bp):
TGTGGATAGACACACACCCC
Found at i:60461126 original size:48 final size:48
Alignment explanation
Indices: 60461055--60461154 Score: 155
Period size: 48 Copynumber: 2.1 Consensus size: 48
60461045 CAATCGAAAA
60461055 CATTTAAACCTCATATAATTCAACATGGTAATACTAGCATAAACCAAT
1 CATTTAAACCTCATATAATTCAACATGGTAATACTAGCATAAACCAAT
* * * * *
60461103 CATTTAAACCTCATATTATTCAACATGTTAATACTATCATACACTAAT
1 CATTTAAACCTCATATAATTCAACATGGTAATACTAGCATAAACCAAT
60461151 CATT
1 CATT
60461155 CACATGCATA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.41, C:0.21, G:0.04, T:0.34
Consensus pattern (48 bp):
CATTTAAACCTCATATAATTCAACATGGTAATACTAGCATAAACCAAT
Found at i:60462195 original size:20 final size:19
Alignment explanation
Indices: 60462144--60462196 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
60462134 GAGTTACCGG
*
60462144 AGTATAAATAGGGGTACGA
1 AGTATAATTAGGGGTACGA
**
60462163 AGT-GCATTCAGGGGTACTGA
1 AGTATAATT-AGGGGTAC-GA
60462183 AGTATAATTAGGGG
1 AGTATAATTAGGGG
60462197 CATGTGTATG
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
18 2 0.08
19 11 0.42
20 10 0.38
21 3 0.12
ACGTcount: A:0.34, C:0.08, G:0.34, T:0.25
Consensus pattern (19 bp):
AGTATAATTAGGGGTACGA
Found at i:60462256 original size:60 final size:59
Alignment explanation
Indices: 60462182--60462322 Score: 151
Period size: 60 Copynumber: 2.4 Consensus size: 59
60462172 AGGGGTACTG
* * * *
60462182 AAGTATAATTAGGGGCATGT-GTATGCAACCAGGGGCACGTATGTGCAATTAAGGGCACCA
1 AAGTACAATCAGGGGCATGTAGTAT--AAACAGGGGCACGTATGTGCAATCAAGGGCACCA
* * * *
60462242 AAGTACAATCAGGGGTAT-TAAAGTATAAACAGGGGCACGTATGTGCAATCAGGGGTACCG
1 AAGTACAATCAGGGGCATGT--AGTATAAACAGGGGCACGTATGTGCAATCAAGGGCACCA
*
60462302 AAGTACAAACAGGGGCATGTA
1 AAGTACAATCAGGGGCATGTA
60462323 TGTGCAATCA
Statistics
Matches: 67, Mismatches: 10, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
59 2 0.03
60 60 0.90
61 1 0.01
62 4 0.06
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.20
Consensus pattern (59 bp):
AAGTACAATCAGGGGCATGTAGTATAAACAGGGGCACGTATGTGCAATCAAGGGCACCA
Found at i:60462278 original size:40 final size:40
Alignment explanation
Indices: 60462234--60462318 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
60462224 GTGCAATTAA
** *
60462234 GGGCACCAAAGTACAATCAGGGGTATTAAAGTATAAACAG
1 GGGCACCAAAGTACAATCAGGGGTACCAAAGTACAAACAG
** * * *
60462274 GGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAACAG
1 GGGCACCAAAGTACAATCAGGGGTACCAAAGTACAAACAG
60462314 GGGCA
1 GGGCA
60462319 TGTATGTGCA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.36, C:0.18, G:0.31, T:0.15
Consensus pattern (40 bp):
GGGCACCAAAGTACAATCAGGGGTACCAAAGTACAAACAG
Found at i:60462294 original size:20 final size:20
Alignment explanation
Indices: 60462271--60462332 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
60462261 AAAGTATAAA
60462271 CAGGGGCACGTATGTGCAAT
1 CAGGGGCACGTATGTGCAAT
* * * *
60462291 CAGGGGTACCG-AAGTACAAA
1 CAGGGGCA-CGTATGTGCAAT
*
60462311 CAGGGGCATGTATGTGCAAT
1 CAGGGGCACGTATGTGCAAT
60462331 CA
1 CA
60462333 TATAATAATT
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
19 1 0.03
20 28 0.90
21 2 0.06
ACGTcount: A:0.31, C:0.19, G:0.32, T:0.18
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCAAT
Found at i:60462324 original size:40 final size:40
Alignment explanation
Indices: 60462247--60462332 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
60462237 CACCAAAGTA
** *
60462247 CAATCAGGGGTATTAAAGTATAAACAGGGGCACGTATGTG
1 CAATCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTG
* *
60462287 CAATCAGGGGTACCGAAGTACAAACAGGGGCATGTATGTG
1 CAATCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTG
60462327 CAATCA
1 CAATCA
60462333 TATAATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (40 bp):
CAATCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTG
Found at i:60470596 original size:18 final size:17
Alignment explanation
Indices: 60470563--60470597 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60470553 ATTTTATTTT
*
60470563 TATTATAAAATTTTGAA
1 TATTATAAAATATTGAA
60470580 TATTATAAAAATATTGAA
1 TATTAT-AAAATATTGAA
60470598 AATGAATCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (17 bp):
TATTATAAAATATTGAA
Found at i:60470736 original size:41 final size:41
Alignment explanation
Indices: 60470679--60470756 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
60470669 GTGATGGGTA
* *
60470679 TCGAATCTATCAAATATAAAATTCTTACCTTTAAAATTGAG
1 TCGAATCCATCAAATATAAAATTCTTACCTCTAAAATTGAG
60470720 TCGAATCCATCAAATATAAAATTCTTACCTCTAAAAT
1 TCGAATCCATCAAATATAAAATTCTTACCTCTAAAAT
60470757 CGAAATTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.42, C:0.18, G:0.05, T:0.35
Consensus pattern (41 bp):
TCGAATCCATCAAATATAAAATTCTTACCTCTAAAATTGAG
Found at i:60470914 original size:13 final size:13
Alignment explanation
Indices: 60470893--60470922 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
60470883 ATGGGGGATT
*
60470893 AAATCAAAATAGA
1 AAATAAAAATAGA
60470906 AAATAAAAATAGA
1 AAATAAAAATAGA
60470919 AAAT
1 AAAT
60470923 TAAACCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.03, G:0.07, T:0.17
Consensus pattern (13 bp):
AAATAAAAATAGA
Found at i:60473818 original size:39 final size:39
Alignment explanation
Indices: 60473773--60473858 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 39
60473763 CAATAATAAG
* *
60473773 AACAGTAACAGTATTCAATACACAAAGTG-CTGAATCTGT
1 AACAGTAACAGTATTCAACACACAAAGTGTC-GAATCAGT
*
60473812 AACAGTAACAGTATTCGACACACAAAGTGTCGAATCAGT
1 AACAGTAACAGTATTCAACACACAAAGTGTCGAATCAGT
*
60473851 AATAGTAA
1 AACAGTAA
60473859 TGGTAACAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 41 0.98
40 1 0.02
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.23
Consensus pattern (39 bp):
AACAGTAACAGTATTCAACACACAAAGTGTCGAATCAGT
Found at i:60474136 original size:40 final size:40
Alignment explanation
Indices: 60474086--60474166 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
60474076 TTTCATAAAA
* **
60474086 AATTTTACAGTTCAATACAGTATACGTAACAATATTCAGT
1 AATTTCACAGTTCAATACAGTATACAAAACAATATTCAGT
* * *
60474126 AATTTCACAGTTCAATTCGGTATTCAAAACAATATTCAGT
1 AATTTCACAGTTCAATACAGTATACAAAACAATATTCAGT
60474166 A
1 A
60474167 TCCCATAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.35
Consensus pattern (40 bp):
AATTTCACAGTTCAATACAGTATACAAAACAATATTCAGT
Found at i:60475077 original size:416 final size:416
Alignment explanation
Indices: 60474306--60475138 Score: 1666
Period size: 416 Copynumber: 2.0 Consensus size: 416
60474296 CTTGAGTTAT
60474306 ACTGATACAAACCGGAATTCTCTTCGGATTTAATATTCTACGGTCTTTTCTTTTCCTTCTTGGGT
1 ACTGATACAAACCGGAATTCTCTTCGGATTTAATATTCTACGGTCTTTTCTTTTCCTTCTTGGGT
60474371 CGATGCTTCAGGCTCGATATTAGCTACAAACAATTAAAATAATTTCACAATTATTAGCATAACAC
66 CGATGCTTCAGGCTCGATATTAGCTACAAACAATTAAAATAATTTCACAATTATTAGCATAACAC
60474436 AATTTAAATGCTAAAATTTTTATCTAACTTTTACTTTAATTCCAATTTAATCCTAACTAAACCTA
131 AATTTAAATGCTAAAATTTTTATCTAACTTTTACTTTAATTCCAATTTAATCCTAACTAAACCTA
60474501 TATATTTTTCTTTCTCAATTCATACCTTTTTTGCTACTCAATTTCTTGCCAAACTCACATTTAAC
196 TATATTTTTCTTTCTCAATTCATACCTTTTTTGCTACTCAATTTCTTGCCAAACTCACATTTAAC
60474566 TATCTAATTTTTATCATATTTTCATAATTTCAAATTTATTTCAATTTAATCCCTAAAACTCAAAA
261 TATCTAATTTTTATCATATTTTCATAATTTCAAATTTATTTCAATTTAATCCCTAAAACTCAAAA
60474631 CTTATAGCTTAGTTTACAATTCAATCCTTCATTCAAATCCAATTAAAATTTCTATAAAATAAACC
326 CTTATAGCTTAGTTTACAATTCAATCCTTCATTCAAATCCAATTAAAATTTCTATAAAATAAACC
60474696 CCCAATTCCATCATTTGTTCAACATA
391 CCCAATTCCATCATTTGTTCAACATA
60474722 ACTGATACAAACCGGAATTCTCTTCGGATTTAATATTCTACGGTCTTTTCTTTTCCTTCTTGGGT
1 ACTGATACAAACCGGAATTCTCTTCGGATTTAATATTCTACGGTCTTTTCTTTTCCTTCTTGGGT
60474787 CGATGCTTCAGGCTCGATATTAGCTACAAACAATTAAAATAATTTCACAATTATTAGCATAACAC
66 CGATGCTTCAGGCTCGATATTAGCTACAAACAATTAAAATAATTTCACAATTATTAGCATAACAC
60474852 AATTTAAATGCTAAAATTTTTATCTAACTTTTACTTTAATTCCAATTTAATCCTAACTAAACCTA
131 AATTTAAATGCTAAAATTTTTATCTAACTTTTACTTTAATTCCAATTTAATCCTAACTAAACCTA
60474917 TATATTTTTCTTTCTCAATTCATACCTTTTTTGCTACTCAATTTCTTGCCAAACTCACATTTAAC
196 TATATTTTTCTTTCTCAATTCATACCTTTTTTGCTACTCAATTTCTTGCCAAACTCACATTTAAC
60474982 TATCTAATTTTTATCATATTTTCATAATTTCAAATTTATTTCAATTTAATCCCTAAAACTCAAAA
261 TATCTAATTTTTATCATATTTTCATAATTTCAAATTTATTTCAATTTAATCCCTAAAACTCAAAA
60475047 CTTATAGCTTAGTTTACAATTCAATCCTTCATTCAAATCCAATTAAAATTTCTATAAAATAAACC
326 CTTATAGCTTAGTTTACAATTCAATCCTTCATTCAAATCCAATTAAAATTTCTATAAAATAAACC
60475112 CCCAATTCCATCATTTGTTCAACATA
391 CCCAATTCCATCATTTGTTCAACATA
60475138 A
1 A
60475139 ACCCTACTAA
Statistics
Matches: 417, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
416 417 1.00
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41
Consensus pattern (416 bp):
ACTGATACAAACCGGAATTCTCTTCGGATTTAATATTCTACGGTCTTTTCTTTTCCTTCTTGGGT
CGATGCTTCAGGCTCGATATTAGCTACAAACAATTAAAATAATTTCACAATTATTAGCATAACAC
AATTTAAATGCTAAAATTTTTATCTAACTTTTACTTTAATTCCAATTTAATCCTAACTAAACCTA
TATATTTTTCTTTCTCAATTCATACCTTTTTTGCTACTCAATTTCTTGCCAAACTCACATTTAAC
TATCTAATTTTTATCATATTTTCATAATTTCAAATTTATTTCAATTTAATCCCTAAAACTCAAAA
CTTATAGCTTAGTTTACAATTCAATCCTTCATTCAAATCCAATTAAAATTTCTATAAAATAAACC
CCCAATTCCATCATTTGTTCAACATA
Found at i:60475307 original size:12 final size:12
Alignment explanation
Indices: 60475292--60475322 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
60475282 TTCTCTTTTA
60475292 TTTTTCTTTCCC
1 TTTTTCTTTCCC
60475304 TTTTTCTTTCCC
1 TTTTTCTTTCCC
60475316 TTTTTCT
1 TTTTTCT
60475323 CCCCTGCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:60479820 original size:6 final size:6
Alignment explanation
Indices: 60479785--60479828 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
60479775 ACAGTACCTA
* * *
60479785 AACAGT AATCAGT AACGGT AGCAAT AACAGT AACAGT AACAGT A
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT A
60479829 TTCAACACAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
AACAGT
Found at i:60479907 original size:45 final size:45
Alignment explanation
Indices: 60479809--60479917 Score: 139
Period size: 45 Copynumber: 2.4 Consensus size: 45
60479799 ACGGTAGCAA
* * * *
60479809 TAACAGTAACAGTAACAGTATTCAACACACCAAGTGCTACATCTG
1 TAACAGTAACGGTAACAGTATTCAACACACAAAGTGCGACATCAG
* *
60479854 TCACAGTAACGGTAACAGTATTCGACACACAAAGTGTCGA-ATCAG
1 TAACAGTAACGGTAACAGTATTCAACACACAAAGTG-CGACATCAG
*
60479899 TAATAGTAACGGTAACAGT
1 TAACAGTAACGGTAACAGT
60479918 TACAGTAGTC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 53 0.96
46 2 0.04
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.22
Consensus pattern (45 bp):
TAACAGTAACGGTAACAGTATTCAACACACAAAGTGCGACATCAG
Found at i:60481954 original size:44 final size:44
Alignment explanation
Indices: 60481877--60481999 Score: 167
Period size: 44 Copynumber: 2.8 Consensus size: 44
60481867 GCCATTAGGG
** *
60481877 TTTATATTCAATA-GTACTATGTACCGGTTTTGGCTATGTGCCA
1 TTTATATTCAGCAGGTACTATGTACCGGTGTTGGCTATGTGCCA
* *
60481920 TTTATATTCAGCAGGTACTATGCACCGATGTTGGCTATGTGCCA
1 TTTATATTCAGCAGGTACTATGTACCGGTGTTGGCTATGTGCCA
* * *
60481964 TTTATATTAAGCTGGTACTATGTACTGGTGTTGGCT
1 TTTATATTCAGCAGGTACTATGTACCGGTGTTGGCT
60482000 GTTACACCGT
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
43 11 0.16
44 58 0.84
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (44 bp):
TTTATATTCAGCAGGTACTATGTACCGGTGTTGGCTATGTGCCA
Found at i:60483212 original size:23 final size:22
Alignment explanation
Indices: 60483160--60483232 Score: 87
Period size: 21 Copynumber: 3.4 Consensus size: 22
60483150 CCTGATCAGT
** *
60483160 ATACGACACATAAAGTGCCT-A
1 ATACGACACACGAGGTGCCTGA
*
60483181 AAACGACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
60483202 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTG-A
60483225 ATACGACA
1 ATACGACA
60483233 AATAAAGTGC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
21 36 0.82
23 8 0.18
ACGTcount: A:0.38, C:0.26, G:0.22, T:0.14
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:60483242 original size:23 final size:23
Alignment explanation
Indices: 60483160--60483246 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
60483150 CCTGATCAGT
*
60483160 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
60483182 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
60483202 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
* *
60483225 ATACGACAAATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
60483247 TCGATAAAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.63
22 1 0.02
23 18 0.33
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:60483644 original size:15 final size:15
Alignment explanation
Indices: 60483618--60483674 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
60483608 CATATATATT
60483618 ATATAA-TTCAATCA
1 ATATAATTTCAATCA
60483632 ATATAATTTCAATCA
1 ATATAATTTCAATCA
*
60483647 AAATAATTTCAATCA
1 ATATAATTTCAATCA
*
60483662 ATATAAATTCAAT
1 ATATAATTTCAAT
60483675 AAATTCATCG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 6 0.15
15 33 0.85
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:60491346 original size:53 final size:53
Alignment explanation
Indices: 60491190--60491355 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
60491180 GACGAAAAAT
* **
60491190 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
60491242 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
60491295 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
60491349 TATGTGA
1 -ATGTGA
60491356 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:60501516 original size:39 final size:39
Alignment explanation
Indices: 60501473--60501661 Score: 173
Period size: 39 Copynumber: 4.8 Consensus size: 39
60501463 AGAAATACGA
* **
60501473 TGATTATTTGGGATAAGTGCCTATTAGGCTGTGT-CCTAG
1 TGATTATTTGGGCTAAGTGCCTAGCAGGCTGTGTGCC-AG
* * *
60501512 TGATTATTTGGGCTATGTGCCTAGCAGGTTGTGTGCCGG
1 TGATTATTTGGGCTAAGTGCCTAGCAGGCTGTGTGCCAG
* * * * *
60501551 TGATTATTCGGGCTAAGTGCCTAGCAGGTTGTCTGACGG
1 TGATTATTTGGGCTAAGTGCCTAGCAGGCTGTGTGCCAG
* * * * * * *
60501590 TAATTATTCGGGCTATGTGTCTAACAGGCTGTGTGTCGG
1 TGATTATTTGGGCTAAGTGCCTAGCAGGCTGTGTGCCAG
* * *
60501629 TGATTATTCGGGCTATGTGCTTAGCAGGCTGTG
1 TGATTATTTGGGCTAAGTGCCTAGCAGGCTGTG
60501662 GTGGTGTGTT
Statistics
Matches: 128, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 126 0.98
40 2 0.02
ACGTcount: A:0.17, C:0.15, G:0.32, T:0.35
Consensus pattern (39 bp):
TGATTATTTGGGCTAAGTGCCTAGCAGGCTGTGTGCCAG
Found at i:60504156 original size:42 final size:42
Alignment explanation
Indices: 60504092--60504191 Score: 182
Period size: 42 Copynumber: 2.4 Consensus size: 42
60504082 CTTCATATAC
*
60504092 AATGCAATGAAAAAGTAAATAGACCTCCACACCTGGGCCTCTA
1 AATGCAATG-AAAAGTAAATAGACCTCCACACCTAGGCCTCTA
60504135 AATGCAATGAAAAGTAAATAGACCTCCACACCTAGGCCTCTA
1 AATGCAATGAAAAGTAAATAGACCTCCACACCTAGGCCTCTA
60504177 AATGCAATGAAAAGT
1 AATGCAATGAAAAGT
60504192 CCACACCTAG
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
42 47 0.84
43 9 0.16
ACGTcount: A:0.42, C:0.23, G:0.16, T:0.19
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATAGACCTCCACACCTAGGCCTCTA
Found at i:60504200 original size:32 final size:32
Alignment explanation
Indices: 60504159--60504223 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
60504149 TAAATAGACC
60504159 TCCACACCTAGGCCTCTAAATGCAATGAAAAG
1 TCCACACCTAGGCCTCTAAATGCAATGAAAAG
60504191 TCCACACCTAGGCCTCTAAATGCAATGAAAAG
1 TCCACACCTAGGCCTCTAAATGCAATGAAAAG
60504223 T
1 T
60504224 AAATGGACCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.28, G:0.15, T:0.20
Consensus pattern (32 bp):
TCCACACCTAGGCCTCTAAATGCAATGAAAAG
Found at i:60504207 original size:74 final size:74
Alignment explanation
Indices: 60504117--60504265 Score: 255
Period size: 74 Copynumber: 2.0 Consensus size: 74
60504107 TAAATAGACC
*
60504117 TCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATAGACCTCCACACCTAG-GCCTCTAAATG
1 TCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAATAGACCTCCACA-CTAGTGCCTCTAAATG
60504181 CAATGAAAAG
65 CAATGAAAAG
* *
60504191 TCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACTTGTGCCTCTAAATGC
1 TCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAATAGACCTCCACACTAGTGCCTCTAAATGC
60504256 AATGAAAAG
66 AATGAAAAG
60504265 T
1 T
60504266 AAATGGACCT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
73 3 0.04
74 68 0.96
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (74 bp):
TCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAATAGACCTCCACACTAGTGCCTCTAAATGC
AATGAAAAG
Found at i:60504250 original size:42 final size:42
Alignment explanation
Indices: 60504191--60504303 Score: 183
Period size: 42 Copynumber: 2.7 Consensus size: 42
60504181 CAATGAAAAG
60504191 TCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAATGGACC
1 TCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAATGGACC
*
60504233 TCCACA-CTTGTGCCTCTAAATGCAATGAAAAGTAAATGGACC
1 TCCACACCTAG-GCCTCTAAATGCAATGAAAAGTAAATGGACC
* *
60504275 TTCACACCTAGGCCTCTAAATACAATGAA
1 TCCACACCTAGGCCTCTAAATGCAATGAA
60504304 TGCTTTCTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
41 3 0.05
42 59 0.91
43 3 0.05
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (42 bp):
TCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAATGGACC
Found at i:60519262 original size:13 final size:13
Alignment explanation
Indices: 60519246--60519275 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
60519236 CGTTATACCA
60519246 AAATGATTTCACT
1 AAATGATTTCACT
60519259 AAATGATTTCACT
1 AAATGATTTCACT
60519272 AAAT
1 AAAT
60519276 ATACCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (13 bp):
AAATGATTTCACT
Found at i:60520472 original size:20 final size:20
Alignment explanation
Indices: 60520443--60520487 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
60520433 AGCACATGTA
* *
60520443 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
60520463 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
60520483 TTCAT
1 TTCAT
60520488 TTTAGTTCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:60521482 original size:16 final size:16
Alignment explanation
Indices: 60521461--60521493 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
60521451 CCTACACAAT
60521461 TTTTTTGTA-TTTTTTA
1 TTTTTT-TACTTTTTTA
60521477 TTTTTTTACTTTTTTA
1 TTTTTTTACTTTTTTA
60521493 T
1 T
60521494 CACTTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTTTTTACTTTTTTA
Found at i:60527086 original size:24 final size:23
Alignment explanation
Indices: 60527037--60527086 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
60527027 ATAAAGTAGT
* *
60527037 TATATATTATTTTTATAATATTA
1 TATATATGATTTTTATAATATCA
60527060 TATATTATGATTTTTATTAAT-TCA
1 TATA-TATGATTTTTA-TAATATCA
60527084 TAT
1 TAT
60527087 TTTAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.17
24 15 0.65
25 4 0.17
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TATATATGATTTTTATAATATCA
Found at i:60527208 original size:26 final size:26
Alignment explanation
Indices: 60527126--60527214 Score: 81
Period size: 26 Copynumber: 3.4 Consensus size: 26
60527116 ATTATATATT
*
60527126 ATTTTATTAAATTTTATTTAATAATA
1 ATTTTATTAAATTATATTTAATAATA
* * * * ** *
60527152 CTTATGTTAAAATATGATCAAATTAT-
1 ATTTTATTAAATTAT-ATTTAATAATA
*
60527178 TTTTTATTAAATTATATTTAATAATA
1 ATTTTATTAAATTATATTTAATAATA
60527204 ATTTTATTAAA
1 ATTTTATTAAA
60527215 AATTTAAAAA
Statistics
Matches: 45, Mismatches: 16, Indels: 4
0.69 0.25 0.06
Matches are distributed among these distances:
25 7 0.16
26 31 0.69
27 7 0.16
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (26 bp):
ATTTTATTAAATTATATTTAATAATA
Found at i:60527226 original size:23 final size:25
Alignment explanation
Indices: 60527179--60527228 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 25
60527169 TCAAATTATT
*
60527179 TTTTATTAAATTATATTTAATAATAA
1 TTTTATTAAA-TATATTTAAAAATAA
60527205 TTTTATTAAA-A-ATTTAAAAATAA
1 TTTTATTAAATATATTTAAAAATAA
60527228 T
1 T
60527229 AATTATCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 12 0.52
24 1 0.04
26 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TTTTATTAAATATATTTAAAAATAA
Found at i:60527398 original size:16 final size:16
Alignment explanation
Indices: 60527377--60527424 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
60527367 ACTGAATTAT
*
60527377 TATTACAGGTCTATTC
1 TATTACAGCTCTATTC
*
60527393 TATTACAACTCTATTC
1 TATTACAGCTCTATTC
*
60527409 TATTACAGTTCTATTC
1 TATTACAGCTCTATTC
60527425 CATTCCCCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.27, C:0.21, G:0.06, T:0.46
Consensus pattern (16 bp):
TATTACAGCTCTATTC
Found at i:60529433 original size:26 final size:26
Alignment explanation
Indices: 60529392--60529443 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
60529382 GAAACAAGCT
*
60529392 GCCTAGAATCTTCAAGAGTGTTGGTA
1 GCCTAGAATCTACAAGAGTGTTGGTA
*
60529418 GCCTAGAGTCTACAAGAGTGTTGGTA
1 GCCTAGAATCTACAAGAGTGTTGGTA
60529444 CTATAGAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (26 bp):
GCCTAGAATCTACAAGAGTGTTGGTA
Found at i:60529450 original size:26 final size:26
Alignment explanation
Indices: 60529395--60529451 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
60529385 ACAAGCTGCC
* *
60529395 TAGAATCTTCAAGAGTGTTGGTAGCC
1 TAGAATCTACAAGAGTGTTGGTAGCA
*
60529421 TAGAGTCTACAAGAGTGTTGGTA-CTA
1 TAGAATCTACAAGAGTGTTGGTAGC-A
60529447 TAGAA
1 TAGAA
60529452 CACCGTCGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (26 bp):
TAGAATCTACAAGAGTGTTGGTAGCA
Found at i:60531097 original size:31 final size:31
Alignment explanation
Indices: 60531055--60531234 Score: 119
Period size: 31 Copynumber: 6.0 Consensus size: 31
60531045 CAAAAAAAAA
60531055 TAGGTACCAAATTAGGAAAAAGAGTCAAGTT
1 TAGGTACCAAATTAGGAAAAAGAGTCAAGTT
* * *
60531086 CAGGTATCAAATT-GGACCCCAAA-A---AAGTT
1 TAGGTACCAAATTAGGA---AAAAGAGTCAAGTT
* * * *
60531115 TAAGTACCAACTTAAGAAAAAGTGTCAAGTT
1 TAGGTACCAAATTAGGAAAAAGAGTCAAGTT
* * *
60531146 TAGGTATCAAATTAGGAAAAAAATGACAAGTT
1 TAGGTACCAAATTAGGAAAAAGA-GTCAAGTT
**
60531178 TAGGTACCAAATT-TTAAAAA-A---AAGTT
1 TAGGTACCAAATTAGGAAAAAGAGTCAAGTT
* * *
60531204 TAGGCACCAAATTAGGAAAACGTGTCAAGTT
1 TAGGTACCAAATTAGGAAAAAGAGTCAAGTT
60531235 CAGATGCCAA
Statistics
Matches: 110, Mismatches: 25, Indels: 28
0.67 0.15 0.17
Matches are distributed among these distances:
26 17 0.15
27 7 0.06
29 14 0.13
30 6 0.05
31 43 0.39
32 20 0.18
33 3 0.03
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.24
Consensus pattern (31 bp):
TAGGTACCAAATTAGGAAAAAGAGTCAAGTT
Found at i:60531223 original size:26 final size:26
Alignment explanation
Indices: 60531173--60531223 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
60531163 AAAAAATGAC
* **
60531173 AAGTTTAGGTACCAAATTTTAAAAAA
1 AAGTTTAGGCACCAAATTAGAAAAAA
*
60531199 AAGTTTAGGCACCAAATTAGGAAAA
1 AAGTTTAGGCACCAAATTAGAAAAA
60531224 CGTGTCAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.49, C:0.10, G:0.16, T:0.25
Consensus pattern (26 bp):
AAGTTTAGGCACCAAATTAGAAAAAA
Found at i:60531718 original size:22 final size:22
Alignment explanation
Indices: 60531693--60531734 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
60531683 TATCCAAACA
60531693 ATAACAACAAAATAGTAGCATC
1 ATAACAACAAAATAGTAGCATC
* **
60531715 ATAATAGTAAAATAGTAGCA
1 ATAACAACAAAATAGTAGCA
60531735 AAATAAGGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCATC
Found at i:60532393 original size:27 final size:26
Alignment explanation
Indices: 60532354--60532404 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
60532344 TTGATTGATC
* *
60532354 AAAAAATCTTTAAAAATTATAAAAGA
1 AAAAAATATTTAAAAATTAAAAAAGA
60532380 AAAAGAATATTTAAAAATTAAAAAA
1 AAAA-AATATTTAAAAATTAAAAAA
60532405 ATGCAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (26 bp):
AAAAAATATTTAAAAATTAAAAAAGA
Found at i:60533346 original size:33 final size:31
Alignment explanation
Indices: 60533298--60533382 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 31
60533288 TGATGCATAA
*
60533298 ATATTT-ATA-TTTTAAATTTATTTAAAATA-
1 ATATTTAATATTTTTAAATATATTT-AAATAC
60533327 ATTAATTTAATATTTTTAAATATATTTAAATAC
1 A-T-ATTTAATATTTTTAAATATATTTAAATAC
60533360 ATATGTTAAATATTTTTAAATAT
1 ATAT-TT-AATATTTTTAAATAT
60533383 CCACAGAATC
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
29 1 0.02
30 1 0.02
31 6 0.12
32 11 0.23
33 29 0.60
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (31 bp):
ATATTTAATATTTTTAAATATATTTAAATAC
Found at i:60533354 original size:10 final size:10
Alignment explanation
Indices: 60533303--60533382 Score: 54
Period size: 10 Copynumber: 7.3 Consensus size: 10
60533293 CATAAATATT
60533303 TATATTTTAAA
1 TATA-TTTAAA
*
60533314 TTTATTTAAAA
1 TATATTT-AAA
60533325 TAATTAATTT-AA
1 T-A-T-ATTTAAA
*
60533337 TATTTTTAAA
1 TATATTTAAA
60533347 TATATTTAAA
1 TATATTTAAA
60533357 TACATATGTTAAA
1 T--ATAT-TTAAA
*
60533370 TATTTTTAAA
1 TATATTTAAA
60533380 TAT
1 TAT
60533383 CCACAGAATC
Statistics
Matches: 56, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
9 3 0.05
10 24 0.43
11 11 0.20
12 7 0.12
13 7 0.12
14 4 0.07
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (10 bp):
TATATTTAAA
Found at i:60533547 original size:25 final size:27
Alignment explanation
Indices: 60533519--60533570 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
60533509 TTAATGTAGG
60533519 ATTTCTGAAAAT-A-TTTTATGTTTTT
1 ATTTCTGAAAATAATTTTTATGTTTTT
* * *
60533544 ATTTTTTAAAATAATTTTTATTTTTTT
1 ATTTCTGAAAATAATTTTTATGTTTTT
60533571 GAAAATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 10 0.45
26 1 0.05
27 11 0.50
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (27 bp):
ATTTCTGAAAATAATTTTTATGTTTTT
Found at i:60536545 original size:52 final size:52
Alignment explanation
Indices: 60536467--60536574 Score: 189
Period size: 52 Copynumber: 2.1 Consensus size: 52
60536457 TGTGATATGT
**
60536467 ATGTGGCATCCGAGCTCGTTGAGTTGGTCTGAATTCATAATGGATGCGATAC
1 ATGTGGCATCCGAGCTCAATGAGTTGGTCTGAATTCATAATGGATGCGATAC
*
60536519 ATGTGGCATCCGAGCTCAATGAGTTGGTCTGAGTTCATAATGGATGCGATAC
1 ATGTGGCATCCGAGCTCAATGAGTTGGTCTGAATTCATAATGGATGCGATAC
60536571 ATGT
1 ATGT
60536575 AACTGGGTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (52 bp):
ATGTGGCATCCGAGCTCAATGAGTTGGTCTGAATTCATAATGGATGCGATAC
Found at i:60538074 original size:19 final size:19
Alignment explanation
Indices: 60538047--60538160 Score: 66
Period size: 19 Copynumber: 5.7 Consensus size: 19
60538037 CGGCCGGAAG
*
60538047 ACACAGGCGTGTTGAGAGC
1 ACACGGGCGTGTTGAGAGC
* ***
60538066 ACACGGGCGTGTTCCTTATCTC
1 ACACGGGCGTG-T--TGAGAGC
*
60538088 ACACGGTCGTGTTGAGAGC
1 ACACGGGCGTGTTGAGAGC
* * * * *
60538107 ACACGAGCTTGTTCCATATTTC
1 ACACGGGCGTGTT-GAGA--GC
*
60538129 ACACGGGCATGTTGAGAGC
1 ACACGGGCGTGTTGAGAGC
60538148 ACACGGGCGTGTT
1 ACACGGGCGTGTT
60538161 CCCTATCTCA
Statistics
Matches: 67, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
19 36 0.54
20 3 0.04
21 3 0.04
22 25 0.37
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.25
Consensus pattern (19 bp):
ACACGGGCGTGTTGAGAGC
Found at i:60538111 original size:41 final size:41
Alignment explanation
Indices: 60538047--60538176 Score: 188
Period size: 41 Copynumber: 3.2 Consensus size: 41
60538037 CGGCCGGAAG
* *
60538047 ACACAGGCGTGTTGAGAGCACACGGGCGTGTTCCTTATCTC
1 ACACGGGCGTGTTGAGAGCACACGGGCGTGTTCCATATCTC
* * * *
60538088 ACACGGTCGTGTTGAGAGCACACGAGCTTGTTCCATATTTC
1 ACACGGGCGTGTTGAGAGCACACGGGCGTGTTCCATATCTC
* *
60538129 ACACGGGCATGTTGAGAGCACACGGGCGTGTTCCCTATCTC
1 ACACGGGCGTGTTGAGAGCACACGGGCGTGTTCCATATCTC
60538170 ACACGGG
1 ACACGGG
60538177 TATGTGGCTC
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 77 1.00
ACGTcount: A:0.21, C:0.27, G:0.28, T:0.24
Consensus pattern (41 bp):
ACACGGGCGTGTTGAGAGCACACGGGCGTGTTCCATATCTC
Found at i:60544595 original size:25 final size:25
Alignment explanation
Indices: 60544554--60544632 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
60544544 GTCATTAGGG
* * *
60544554 TTACCGAT-TTCAACTTGTATGAGC
1 TTACCGATACTCAGCTTGCATGAGC
*
60544578 TTATCGATACTCAGCTTGCATGAGC
1 TTACCGATACTCAGCTTGCATGAGC
* * * *
60544603 TTACCGTTACTCAGCTCGAAGGAGC
1 TTACCGATACTCAGCTTGCATGAGC
60544628 TTACC
1 TTACC
60544633 ATTATTCAGC
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
24 7 0.16
25 38 0.84
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (25 bp):
TTACCGATACTCAGCTTGCATGAGC
Found at i:60544641 original size:25 final size:25
Alignment explanation
Indices: 60544599--60544656 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
60544589 CAGCTTGCAT
*
60544599 GAGCTTACCGTTACTCAGCTC-GAAG
1 GAGCTTACCATTACTCAGCTCAG-AG
*
60544624 GAGCTTACCATTATTCAGCTCAGAG
1 GAGCTTACCATTACTCAGCTCAGAG
60544649 GAGCTTAC
1 GAGCTTAC
60544657 AGTTTACAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 29 0.97
26 1 0.03
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (25 bp):
GAGCTTACCATTACTCAGCTCAGAG
Found at i:60558997 original size:26 final size:25
Alignment explanation
Indices: 60558968--60559022 Score: 83
Period size: 26 Copynumber: 2.2 Consensus size: 25
60558958 ATTGGGGGTG
*
60558968 AAATCGTCAAAATTTTACCGAGAGTA
1 AAATCATCAAAATTTTACCGA-AGTA
*
60558994 AAATCATCAAAATTTTACTGAAGTA
1 AAATCATCAAAATTTTACCGAAGTA
60559019 AAAT
1 AAAT
60559023 TGGGATGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (25 bp):
AAATCATCAAAATTTTACCGAAGTA
Found at i:60560792 original size:23 final size:23
Alignment explanation
Indices: 60560765--60560836 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
60560755 ATCCTTTAAT
*
60560765 ACCAAATCATGGATAACAACTTA
1 ACCAAATCATGAATAACAACTTA
* *
60560788 ACCAAAT--T-AACAACCAA-AT-
1 ACCAAATCATGAATAA-CAACTTA
60560807 ACCAAATCATGAATAACAACTTA
1 ACCAAATCATGAATAACAACTTA
60560830 ACCAAAT
1 ACCAAAT
60560837 TAACAACCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
19 7 0.18
20 4 0.11
21 8 0.21
22 5 0.13
23 14 0.37
ACGTcount: A:0.53, C:0.24, G:0.04, T:0.19
Consensus pattern (23 bp):
ACCAAATCATGAATAACAACTTA
Found at i:60560809 original size:42 final size:42
Alignment explanation
Indices: 60560762--60560848 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
60560752 ATCATCCTTT
*
60560762 AATACCAAATCATGGATAACAACTTAACCAAATTAACAACCA
1 AATACCAAATCATGAATAACAACTTAACCAAATTAACAACCA
60560804 AATACCAAATCATGAATAACAACTTAACCAAATTAACAACCA
1 AATACCAAATCATGAATAACAACTTAACCAAATTAACAACCA
60560846 AAT
1 AAT
60560849 TCACTCATCC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.20
Consensus pattern (42 bp):
AATACCAAATCATGAATAACAACTTAACCAAATTAACAACCA
Found at i:60563290 original size:783 final size:783
Alignment explanation
Indices: 60561785--60563351 Score: 3134
Period size: 783 Copynumber: 2.0 Consensus size: 783
60561775 TAAGTCAAAG
60561785 TCTAACAGTTATGTATATATTTATATCAATGGCCGAATATACCACCAATTGCATATATTCAAAAA
1 TCTAACAGTTATGTATATATTTATATCAATGGCCGAATATACCACCAATTGCATATATTCAAAAA
60561850 ATAATTTCAATAATATTCATATTATTTATTTACAAGGCCGAATACCTTTTTCACATTCACATATG
66 ATAATTTCAATAATATTCATATTATTTATTTACAAGGCCGAATACCTTTTTCACATTCACATATG
60561915 TACTCACTTTACTTCAAGCATGTCTTGCAACAAATATTAAGTAACTTACTCACTTAGTTTCAAAT
131 TACTCACTTTACTTCAAGCATGTCTTGCAACAAATATTAAGTAACTTACTCACTTAGTTTCAAAT
60561980 AGGTAACAAACCAATTCATACCTGACGATTTTAGCTCACTTTTGCACATTTTATCTCAACTTATC
196 AGGTAACAAACCAATTCATACCTGACGATTTTAGCTCACTTTTGCACATTTTATCTCAACTTATC
60562045 GATGCCTGTTGGACCATTCAGAATTGGATAGGACACTCGGATAGTCACACATATATCGTACAATA
261 GATGCCTGTTGGACCATTCAGAATTGGATAGGACACTCGGATAGTCACACATATATCGTACAATA
60562110 CCAACGTCCCAGACATGGTCTTACATGTAACCACATATCGATGCCACTGTCCCAGACAGGGTCTT
326 CCAACGTCCCAGACATGGTCTTACATGTAACCACATATCGATGCCACTGTCCCAGACAGGGTCTT
60562175 ACTCGCTCACATATATCAGAGTCACATATCGATGCCATGGTCTTACTCGCACATCACATATCGAA
391 ACTCGCTCACATATATCAGAGTCACATATCGATGCCATGGTCTTACTCGCACATCACATATCGAA
60562240 ATCCTATGTCATGACATATGTATCCTAACTATTCCTAAGGTTCATATGGGGCTTTCGGACATCGT
456 ATCCTATGTCATGACATATGTATCCTAACTATTCCTAAGGTTCATATGGGGCTTTCGGACATCGT
60562305 AACTCAGTTGAAACGAATGCTTGAACATGGTTACCAAGCTTATTCACATTCGGCATAAGCATATA
521 AACTCAGTTGAAACGAATGCTTGAACATGGTTACCAAGCTTATTCACATTCGGCATAAGCATATA
60562370 TAAATTCATATTTCTCATACCAGCATATATATTTAGCATTTATCTACAATTAAACACGTTTATTT
586 TAAATTCATATTTCTCATACCAGCATATATATTTAGCATTTATCTACAATTAAACACGTTTATTT
60562435 GCCTATAAACTTACCTCGGACGATGTAAAACGGAATGGGACGACTAGTCGACAACTTTCGTTTTT
651 GCCTATAAACTTACCTCGGACGATGTAAAACGGAATGGGACGACTAGTCGACAACTTTCGTTTTT
60562500 CTCTGATCCAAATTCAATTTCTTTGGTTCTTGATCTAAACATATTCAAATTCAGCTCATTCAAAC
716 CTCTGATCCAAATTCAATTTCTTTGGTTCTTGATCTAAACATATTCAAATTCAGCTCATTCAAAC
60562565 ATA
781 ATA
60562568 TCTAACAGTTATGTATATATTTATATCAATGGCCGAATATACCACCAATTGCATATATTCAAAAA
1 TCTAACAGTTATGTATATATTTATATCAATGGCCGAATATACCACCAATTGCATATATTCAAAAA
60562633 ATAATTTCAATAATATTCATATTATTTATTTACAAGGCCGAATACCTTTTTCACATTCACATATG
66 ATAATTTCAATAATATTCATATTATTTATTTACAAGGCCGAATACCTTTTTCACATTCACATATG
60562698 TACTCACTTTACTTCAAGCATGTCTTGCAACAAATATTAAGTAACTTACTCACTTAGTTTCAAAT
131 TACTCACTTTACTTCAAGCATGTCTTGCAACAAATATTAAGTAACTTACTCACTTAGTTTCAAAT
60562763 AGGTAACAAACCAATTCATACCTGACGATTTTAGCTCACTTTTGCACATTTTATCTCAACTTATC
196 AGGTAACAAACCAATTCATACCTGACGATTTTAGCTCACTTTTGCACATTTTATCTCAACTTATC
60562828 GATGCCTGTTGGACCATTCAGAATTGGATAGGACACTCGGATAGTCACACATATATCGTACAATA
261 GATGCCTGTTGGACCATTCAGAATTGGATAGGACACTCGGATAGTCACACATATATCGTACAATA
60562893 CCAACGTCCCAGACATGGTCTTACATGTAACCACATATCGATGCCACTGTCCCAGACAGGGTCTT
326 CCAACGTCCCAGACATGGTCTTACATGTAACCACATATCGATGCCACTGTCCCAGACAGGGTCTT
60562958 ACTCGCTCACATATATCAGAGTCACATATCGATGCCATGGTCTTACTCGCACATCACATATCGAA
391 ACTCGCTCACATATATCAGAGTCACATATCGATGCCATGGTCTTACTCGCACATCACATATCGAA
60563023 ATCCTATGTCATGACATATGTATCCTAACTATTCCTAAGGTTCATATGGGGCTTTCGGACATCGT
456 ATCCTATGTCATGACATATGTATCCTAACTATTCCTAAGGTTCATATGGGGCTTTCGGACATCGT
60563088 AACTCAGTTGAAACGAATGCTTGAACATGGTTACCAAGCTTATTCACATTCGGCATAAGCATATA
521 AACTCAGTTGAAACGAATGCTTGAACATGGTTACCAAGCTTATTCACATTCGGCATAAGCATATA
60563153 TAAATTCATATTTCTCATACCAGCATATATATTTAGCATTTATCTACAATTAAACACGTTTATTT
586 TAAATTCATATTTCTCATACCAGCATATATATTTAGCATTTATCTACAATTAAACACGTTTATTT
60563218 GCCTATAAACTTACCTCGGACGATGTAAAACGGAATGGGACGACTAGTCGACAACTTTCGTTTTT
651 GCCTATAAACTTACCTCGGACGATGTAAAACGGAATGGGACGACTAGTCGACAACTTTCGTTTTT
60563283 CTCTGATCCAAATTCAATTTCTTTGGTTCTTGATCTAAACATATTCAAATTCAGCTCATTCAAAC
716 CTCTGATCCAAATTCAATTTCTTTGGTTCTTGATCTAAACATATTCAAATTCAGCTCATTCAAAC
60563348 ATA
781 ATA
60563351 T
1 T
60563352 TTTCATTCAA
Statistics
Matches: 784, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
783 784 1.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (783 bp):
TCTAACAGTTATGTATATATTTATATCAATGGCCGAATATACCACCAATTGCATATATTCAAAAA
ATAATTTCAATAATATTCATATTATTTATTTACAAGGCCGAATACCTTTTTCACATTCACATATG
TACTCACTTTACTTCAAGCATGTCTTGCAACAAATATTAAGTAACTTACTCACTTAGTTTCAAAT
AGGTAACAAACCAATTCATACCTGACGATTTTAGCTCACTTTTGCACATTTTATCTCAACTTATC
GATGCCTGTTGGACCATTCAGAATTGGATAGGACACTCGGATAGTCACACATATATCGTACAATA
CCAACGTCCCAGACATGGTCTTACATGTAACCACATATCGATGCCACTGTCCCAGACAGGGTCTT
ACTCGCTCACATATATCAGAGTCACATATCGATGCCATGGTCTTACTCGCACATCACATATCGAA
ATCCTATGTCATGACATATGTATCCTAACTATTCCTAAGGTTCATATGGGGCTTTCGGACATCGT
AACTCAGTTGAAACGAATGCTTGAACATGGTTACCAAGCTTATTCACATTCGGCATAAGCATATA
TAAATTCATATTTCTCATACCAGCATATATATTTAGCATTTATCTACAATTAAACACGTTTATTT
GCCTATAAACTTACCTCGGACGATGTAAAACGGAATGGGACGACTAGTCGACAACTTTCGTTTTT
CTCTGATCCAAATTCAATTTCTTTGGTTCTTGATCTAAACATATTCAAATTCAGCTCATTCAAAC
ATA
Found at i:60564543 original size:918 final size:918
Alignment explanation
Indices: 60562768--60564604 Score: 3674
Period size: 918 Copynumber: 2.0 Consensus size: 918
60562758 CAAATAGGTA
60562768 ACAAACCAATTCATACCTGACGATTTTAGCTCACTTTTGCACATTTTATCTCAACTTATCGATGC
1 ACAAACCAATTCATACCTGACGATTTTAGCTCACTTTTGCACATTTTATCTCAACTTATCGATGC
60562833 CTGTTGGACCATTCAGAATTGGATAGGACACTCGGATAGTCACACATATATCGTACAATACCAAC
66 CTGTTGGACCATTCAGAATTGGATAGGACACTCGGATAGTCACACATATATCGTACAATACCAAC
60562898 GTCCCAGACATGGTCTTACATGTAACCACATATCGATGCCACTGTCCCAGACAGGGTCTTACTCG
131 GTCCCAGACATGGTCTTACATGTAACCACATATCGATGCCACTGTCCCAGACAGGGTCTTACTCG
60562963 CTCACATATATCAGAGTCACATATCGATGCCATGGTCTTACTCGCACATCACATATCGAAATCCT
196 CTCACATATATCAGAGTCACATATCGATGCCATGGTCTTACTCGCACATCACATATCGAAATCCT
60563028 ATGTCATGACATATGTATCCTAACTATTCCTAAGGTTCATATGGGGCTTTCGGACATCGTAACTC
261 ATGTCATGACATATGTATCCTAACTATTCCTAAGGTTCATATGGGGCTTTCGGACATCGTAACTC
60563093 AGTTGAAACGAATGCTTGAACATGGTTACCAAGCTTATTCACATTCGGCATAAGCATATATAAAT
326 AGTTGAAACGAATGCTTGAACATGGTTACCAAGCTTATTCACATTCGGCATAAGCATATATAAAT
60563158 TCATATTTCTCATACCAGCATATATATTTAGCATTTATCTACAATTAAACACGTTTATTTGCCTA
391 TCATATTTCTCATACCAGCATATATATTTAGCATTTATCTACAATTAAACACGTTTATTTGCCTA
60563223 TAAACTTACCTCGGACGATGTAAAACGGAATGGGACGACTAGTCGACAACTTTCGTTTTTCTCTG
456 TAAACTTACCTCGGACGATGTAAAACGGAATGGGACGACTAGTCGACAACTTTCGTTTTTCTCTG
60563288 ATCCAAATTCAATTTCTTTGGTTCTTGATCTAAACATATTCAAATTCAGCTCATTCAAACATATT
521 ATCCAAATTCAATTTCTTTGGTTCTTGATCTAAACATATTCAAATTCAGCTCATTCAAACATATT
60563353 TTCATTCAATTTAGTTCAAAAACACATAAATGGAAAAATTACCATTTTACCCCTAACATTTACAT
586 TTCATTCAATTTAGTTCAAAAACACATAAATGGAAAAATTACCATTTTACCCCTAACATTTACAT
60563418 TTTACAATTTAGTCCCTATTGCACAAAACTCAAAACATTCAAAATTTCCAGATACCCATGTTTGG
651 TTTACAATTTAGTCCCTATTGCACAAAACTCAAAACATTCAAAATTTCCAGATACCCATGTTTGG
60563483 CCGAATATTCCTAGTGTTCATGCAAGCCCATATATTTCATTTATTTCACATTTTAGTCCCTCAAA
716 CCGAATATTCCTAGTGTTCATGCAAGCCCATATATTTCATTTATTTCACATTTTAGTCCCTCAAA
60563548 TTATTATTTTTTCAATTTAATCCTAATTACTCAATCATCAAAAACTCCAATACAAAATATGTTAA
781 TTATTATTTTTTCAATTTAATCCTAATTACTCAATCATCAAAAACTCCAATACAAAATATGTTAA
60563613 TATAAGACATCTTTCATAGTTCATCATCAAACAACAAAAATCATAAGCTATCAACAATGGCACAA
846 TATAAGACATCTTTCATAGTTCATCATCAAACAACAAAAATCATAAGCTATCAACAATGGCACAA
60563678 CTCAAAAT
911 CTCAAAAT
60563686 ACAAACCAATTCATACCTGACGATTTTAGCTCACTTTTGCACATTTTATCTCAACTTATCGATGC
1 ACAAACCAATTCATACCTGACGATTTTAGCTCACTTTTGCACATTTTATCTCAACTTATCGATGC
60563751 CTGTTGGACCATTCAGAATTGGATAGGACACTCGGATAGTCACACATATATCGTACAATACCAAC
66 CTGTTGGACCATTCAGAATTGGATAGGACACTCGGATAGTCACACATATATCGTACAATACCAAC
60563816 GTCCCAGACATGGTCTTACATGTAACCACATATCGATGCCACTGTCCCAGACAGGGTCTTACTCG
131 GTCCCAGACATGGTCTTACATGTAACCACATATCGATGCCACTGTCCCAGACAGGGTCTTACTCG
60563881 CTCACATATATCAGAGTCACATATCGATGCCATGGTCTTACTCGCACATCACATATCGAAATCCT
196 CTCACATATATCAGAGTCACATATCGATGCCATGGTCTTACTCGCACATCACATATCGAAATCCT
60563946 ATGTCATGACATATGTATCCTAACTATTCCTAAGGTTCATATGGGGCTTTCGGACATCGTAACTC
261 ATGTCATGACATATGTATCCTAACTATTCCTAAGGTTCATATGGGGCTTTCGGACATCGTAACTC
60564011 AGTTGAAACGAATGCTTGAACATGGTTACCAAGCTTATTCACATTCGGCATAAGCATATATAAAT
326 AGTTGAAACGAATGCTTGAACATGGTTACCAAGCTTATTCACATTCGGCATAAGCATATATAAAT
60564076 TCATATTTCTCATACCAGCATATATATTTAGCATTTATCTACAATTAAACACGTTTATTTGCCTA
391 TCATATTTCTCATACCAGCATATATATTTAGCATTTATCTACAATTAAACACGTTTATTTGCCTA
60564141 TAAACTTACCTCGGACGATGTAAAACGGAATGGGACGACTAGTCGACAACTTTCGTTTTTCTCTG
456 TAAACTTACCTCGGACGATGTAAAACGGAATGGGACGACTAGTCGACAACTTTCGTTTTTCTCTG
60564206 ATCCAAATTCAATTTCTTTGGTTCTTGATCTAAACATATTCAAATTCAGCTCATTCAAACATATT
521 ATCCAAATTCAATTTCTTTGGTTCTTGATCTAAACATATTCAAATTCAGCTCATTCAAACATATT
60564271 TTCATTCAATTTAGTTCAAAAACACATAAATGGAAAAATTACCATTTTACCCCTAACATTTACAT
586 TTCATTCAATTTAGTTCAAAAACACATAAATGGAAAAATTACCATTTTACCCCTAACATTTACAT
60564336 TTTACAATTTAGTCCCTATTGCACAAAACTCAAAACATTCAAAATTTCCAGATACCCATGTTTGG
651 TTTACAATTTAGTCCCTATTGCACAAAACTCAAAACATTCAAAATTTCCAGATACCCATGTTTGG
60564401 CCGAATATTCCTAGTGTTCATGCAAGCCCATATATTTCATTTATTTCACATTTTAGTCCCTCAAA
716 CCGAATATTCCTAGTGTTCATGCAAGCCCATATATTTCATTTATTTCACATTTTAGTCCCTCAAA
60564466 TTATTATTTTTTCAATTTAATCCTAATTACTCAATCATCAAAAACTCCAATACAAAATATGTTAA
781 TTATTATTTTTTCAATTTAATCCTAATTACTCAATCATCAAAAACTCCAATACAAAATATGTTAA
60564531 TATAAGACATCTTTCATAGTTCATCATCAAACAACAAAAATCATAAGCTATCAACAATGGCACAA
846 TATAAGACATCTTTCATAGTTCATCATCAAACAACAAAAATCATAAGCTATCAACAATGGCACAA
60564596 CTCAAAAT
911 CTCAAAAT
60564604 A
1 A
60564605 TTCATCAAAA
Statistics
Matches: 919, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
918 919 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (918 bp):
ACAAACCAATTCATACCTGACGATTTTAGCTCACTTTTGCACATTTTATCTCAACTTATCGATGC
CTGTTGGACCATTCAGAATTGGATAGGACACTCGGATAGTCACACATATATCGTACAATACCAAC
GTCCCAGACATGGTCTTACATGTAACCACATATCGATGCCACTGTCCCAGACAGGGTCTTACTCG
CTCACATATATCAGAGTCACATATCGATGCCATGGTCTTACTCGCACATCACATATCGAAATCCT
ATGTCATGACATATGTATCCTAACTATTCCTAAGGTTCATATGGGGCTTTCGGACATCGTAACTC
AGTTGAAACGAATGCTTGAACATGGTTACCAAGCTTATTCACATTCGGCATAAGCATATATAAAT
TCATATTTCTCATACCAGCATATATATTTAGCATTTATCTACAATTAAACACGTTTATTTGCCTA
TAAACTTACCTCGGACGATGTAAAACGGAATGGGACGACTAGTCGACAACTTTCGTTTTTCTCTG
ATCCAAATTCAATTTCTTTGGTTCTTGATCTAAACATATTCAAATTCAGCTCATTCAAACATATT
TTCATTCAATTTAGTTCAAAAACACATAAATGGAAAAATTACCATTTTACCCCTAACATTTACAT
TTTACAATTTAGTCCCTATTGCACAAAACTCAAAACATTCAAAATTTCCAGATACCCATGTTTGG
CCGAATATTCCTAGTGTTCATGCAAGCCCATATATTTCATTTATTTCACATTTTAGTCCCTCAAA
TTATTATTTTTTCAATTTAATCCTAATTACTCAATCATCAAAAACTCCAATACAAAATATGTTAA
TATAAGACATCTTTCATAGTTCATCATCAAACAACAAAAATCATAAGCTATCAACAATGGCACAA
CTCAAAAT
Found at i:60566949 original size:18 final size:18
Alignment explanation
Indices: 60566921--60566962 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
60566911 ATTTAGAATC
* *
60566921 AAAACTAAAATAAATAATA
1 AAAATTAAATTAAAT-ATA
60566940 AAAATTAAATTAAATATA
1 AAAATTAAATTAAATATA
60566958 AAAAT
1 AAAAT
60566963 ATCAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAATTAAATTAAATATA
Found at i:60566971 original size:18 final size:17
Alignment explanation
Indices: 60566928--60566975 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
60566918 ATCAAAACTA
60566928 AAATAAATAATAAAAATT
1 AAATAAAT-ATAAAAATT
60566946 AAATTAAATATAAAAATAT
1 AAA-TAAATATAAAAAT-T
*
60566965 CAATAAA-ATAA
1 AAATAAATATAA
60566976 GATATTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 4 0.15
18 15 0.56
19 8 0.30
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATAAATATAAAAATT
Found at i:60566973 original size:19 final size:18
Alignment explanation
Indices: 60566928--60566974 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
60566918 ATCAAAACTA
60566928 AAAT-AAATAATAAAAATT
1 AAATAAAAT-ATAAAAATT
*
60566946 AAATTAAATATAAAAATAT
1 AAATAAAATATAAAAAT-T
*
60566965 CAATAAAATA
1 AAATAAAATA
60566975 AGATATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATAAAATATAAAAATT
Found at i:60570270 original size:27 final size:27
Alignment explanation
Indices: 60570240--60570294 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
60570230 CCTAGCCCAT
60570240 CATACCAAAACCAAAGTTGCATTTTTA
1 CATACCAAAACCAAAGTTGCATTTTTA
60570267 CATACCAAAACCAAAGTTGCATTTTTA
1 CATACCAAAACCAAAGTTGCATTTTTA
60570294 C
1 C
60570295 TTGCATGTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.29
Consensus pattern (27 bp):
CATACCAAAACCAAAGTTGCATTTTTA
Found at i:60570884 original size:15 final size:15
Alignment explanation
Indices: 60570864--60570894 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
60570854 TCATATCAAA
60570864 AACTTCATAACATAC
1 AACTTCATAACATAC
60570879 AACTTCATAACATAC
1 AACTTCATAACATAC
60570894 A
1 A
60570895 GAAGATTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (15 bp):
AACTTCATAACATAC
Found at i:60571663 original size:7 final size:7
Alignment explanation
Indices: 60571651--60571675 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
60571641 ATATGGACTA
60571651 AAATATT
1 AAATATT
60571658 AAATATT
1 AAATATT
60571665 AAATATT
1 AAATATT
60571672 AAAT
1 AAAT
60571676 TTTTAAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATATT
Found at i:60571681 original size:15 final size:15
Alignment explanation
Indices: 60571651--60571708 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
60571641 ATATGGACTA
*
60571651 AAATATTAAA-TATT
1 AAATATTAAATTTTT
60571665 AAATATTAAATTTTT
1 AAATATTAAATTTTT
* * *
60571680 AAGTTTTTAATTTTT
1 AAATATTAAATTTTT
* *
60571695 AATTTTTAAATTTT
1 AAATATTAAATTTT
60571709 AATTTTTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 10 0.27
15 27 0.73
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
AAATATTAAATTTTT
Found at i:60571716 original size:8 final size:7
Alignment explanation
Indices: 60571673--60571715 Score: 68
Period size: 7 Copynumber: 6.0 Consensus size: 7
60571663 TTAAATATTA
60571673 AATTTTT
1 AATTTTT
60571680 AAGTTTTT
1 AA-TTTTT
60571688 AATTTTT
1 AATTTTT
60571695 AATTTTT
1 AATTTTT
*
60571702 AAATTTT
1 AATTTTT
60571709 AATTTTT
1 AATTTTT
60571716 TTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (7 bp):
AATTTTT
Found at i:60571716 original size:15 final size:14
Alignment explanation
Indices: 60571656--60571715 Score: 66
Period size: 14 Copynumber: 4.1 Consensus size: 14
60571646 GACTAAAATA
* * *
60571656 TTAAATATTAAATA
1 TTAAATTTTAATTT
60571670 TTAAATTTTTAAGTTT
1 TTAAA-TTTTAA-TTT
*
60571686 TTAATTTTTAATTT
1 TTAAATTTTAATTT
60571700 TTAAATTTTAATTT
1 TTAAATTTTAATTT
60571714 TT
1 TT
60571716 TTTGAAGATT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
14 23 0.59
15 11 0.28
16 5 0.13
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (14 bp):
TTAAATTTTAATTT
Done.