Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold34
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: 1758877
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 50 characters in sequence are not A, C, G, or T
File 10 of 12
Found at i:1435454 original size:33 final size:33
Alignment explanation
Indices: 1435417--1435481 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
1435407 TACCACTGTT
**
1435417 TGTATCGATACATGGC-ACATTGTATCGATACAA
1 TGTATCGATACATAACGA-ATTGTATCGATACAA
*
1435450 TGTATTGATACATAACGAATTGTATCGATACA
1 TGTATCGATACATAACGAATTGTATCGATACA
1435482 TTGTCCCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATAACGAATTGTATCGATACAA
Found at i:1436523 original size:154 final size:154
Alignment explanation
Indices: 1436241--1436673 Score: 347
Period size: 154 Copynumber: 2.8 Consensus size: 154
1436231 GTTTGACTGC
* * * ***
1436241 AAATTACCAAAATGTCCCTAAAGTATACCTTCAACATGAAAATATCTTGGTAACCTAAAAGGACC
1 AAATTACAAAAATGCCCCTAAAGTATACCTTCAACATGAAAATACCTCAATAACCTAAAAGGACC
* * * * * *
1436306 TAAAAATGATCATAAATTGGATGAACTTATCTTAAAGGTACAACTTTGGCATAAAAGCATATCGA
66 TAAAAATGATAATAAATGGGATAAACCTATCCTAAAGGCACAACTTTGGCATAAAAGCATATCGA
1436371 TGATAGCTTATGACTAGGTTTAAA
131 TGATAGCTTATGACTAGGTTTAAA
* * * * *
1436395 AAATTACAAAAATGCCCCTAGAGTATACTTTCAATATGAAAGTACCTCAATAATCCT-AATGGAC
1 AAATTACAAAAATGCCCCTAAAGTATACCTTCAACATGAAAATACCTCAATAA-CCTAAAAGGAC
* * * * * **
1436459 TTAAAAATGATAATAAATGGGGTAAACCTATCCTAAATGCATATCTTTGGCATAAAAGTGTATCG
65 CTAAAAATGATAATAAATGGGATAAACCTATCCTAAAGGCACAACTTTGGCATAAAAGCATATCG
* * * * * *
1436524 GTGACAAC-TAGGACTCGATTCTAAGA
130 ATGATAGCTTATGACTAGGTT-TAA-A
** ** * ** * * *
1436550 AAATTATGAAAATGCCTTTAAGGTATACCTTTGACATGCAATTATCC-CGATAACCCT-AAAGGA
1 AAATTACAAAAATGCCCCTAAAGTATACCTTCAACATGAAAATA-CCTCAATAA-CCTAAAAGGA
** * ** * *
1436613 ATTAAAAATGATCAT-AATGAAATGAACCTATCCTAAATGCAC-ACTTTAGGCATAAAAGCAT
64 CCTAAAAATGATAATAAATGGGATAAACCTATCCTAAAGGCACAACTTT-GGCATAAAAGCAT
1436674 CCCGATGACA
Statistics
Matches: 219, Mismatches: 55, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
153 13 0.06
154 142 0.65
155 62 0.28
156 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (154 bp):
AAATTACAAAAATGCCCCTAAAGTATACCTTCAACATGAAAATACCTCAATAACCTAAAAGGACC
TAAAAATGATAATAAATGGGATAAACCTATCCTAAAGGCACAACTTTGGCATAAAAGCATATCGA
TGATAGCTTATGACTAGGTTTAAA
Found at i:1436748 original size:75 final size:76
Alignment explanation
Indices: 1436656--1436809 Score: 220
Period size: 75 Copynumber: 2.0 Consensus size: 76
1436646 TAAATGCACA
* * * *
1436656 CTTTAGGCATAAAAGCATCCCGATGACAACCTACGACTTGATTTAAAAAAAATTACAAAATTACC
1 CTTTAGGCATAAAAGCATCCCAATGACAACCTAAGACTCGATTTAAAAAAAATTACAAAAATACC
*
1436721 CTTGGGTATAC
66 CTTGGATATAC
* * * *
1436732 CTTTA-GCATAAAAGCATCTCAATGATAACCTAAGACTCGATTTTAAAAAAATTATAAAAATACC
1 CTTTAGGCATAAAAGCATCCCAATGACAACCTAAGACTCGATTTAAAAAAAATTACAAAAATACC
1436796 CTTGGATATAC
66 CTTGGATATAC
1436807 CTT
1 CTT
1436810 CGAGATGAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
75 64 0.93
76 5 0.07
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (76 bp):
CTTTAGGCATAAAAGCATCCCAATGACAACCTAAGACTCGATTTAAAAAAAATTACAAAAATACC
CTTGGATATAC
Found at i:1436826 original size:75 final size:75
Alignment explanation
Indices: 1436662--1436827 Score: 208
Period size: 75 Copynumber: 2.2 Consensus size: 75
1436652 CACACTTTAG
* * * * * *
1436662 GCATAAAAGCATCCCGATGACAACCTACGACTTGATTTAAAAAAAATTACAAAATTACCCTTGGG
1 GCATAAAAGCATCTCAATGACAACCTAAGACTCGATTTAAAAAAAATTACAAAAATACCCTTGGA
*
1436727 TATACCTTTA
66 TATACCTTGA
* * *
1436737 GCATAAAAGCATCTCAATGATAACCTAAGACTCGATTTTAAAAAAATTATAAAAATACCCTTGGA
1 GCATAAAAGCATCTCAATGACAACCTAAGACTCGATTTAAAAAAAATTACAAAAATACCCTTGGA
1436802 TATACCTTCGA
66 TATACCTT-GA
* *
1436813 G-ATGAAAGTATCTCA
1 GCATAAAAGCATCTCA
1436828 GTAACCCTTA
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
75 76 0.97
76 2 0.03
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (75 bp):
GCATAAAAGCATCTCAATGACAACCTAAGACTCGATTTAAAAAAAATTACAAAAATACCCTTGGA
TATACCTTGA
Found at i:1436950 original size:125 final size:125
Alignment explanation
Indices: 1436728--1436956 Score: 289
Period size: 125 Copynumber: 1.8 Consensus size: 125
1436718 ACCCTTGGGT
*
1436728 ATACCTTTAGCATAAAAGCATCTCAATGATAACCTAAGACTCGATTTTAAAAAAATTATAAAAAT
1 ATACCTTTAGCATAAAAGCATCTCAATGACAACCTAAGACTCGATTTTAAAAAAATTATAAAAAT
* * *
1436793 ACCCTTGGATATACCTTCGAGATGAAAGTATCTCAGTAACCCTTAAGCACTTAAAAATGC
66 ACCCTAGGATATACCTTCGACATAAAAGTATCTCAGTAACCCTTAAGCACTTAAAAATGC
* * *** * *** * *
1436853 ATACCTTTGGCATAAAAGCATTTTGGTGACAACCTAAGACTCTATTTTGGGAAATTTATGAAAAT
1 ATACCTTTAGCATAAAAGCATCTCAATGACAACCTAAGACTCGATTTTAAAAAAATTATAAAAAT
* *
1436918 GCCTCTAGG-TATACCTTCGACATAAAAGTATCTCGGTAA
66 ACC-CTAGGATATACCTTCGACATAAAAGTATCTCAGTAA
1436957 TGACTTAAAA
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
125 82 0.95
126 4 0.05
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (125 bp):
ATACCTTTAGCATAAAAGCATCTCAATGACAACCTAAGACTCGATTTTAAAAAAATTATAAAAAT
ACCCTAGGATATACCTTCGACATAAAAGTATCTCAGTAACCCTTAAGCACTTAAAAATGC
Found at i:1439685 original size:165 final size:165
Alignment explanation
Indices: 1439354--1440213 Score: 765
Period size: 166 Copynumber: 5.2 Consensus size: 165
1439344 GGGTTTAAAT
* * * *
1439354 TTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTA-CTTTCAAAAATTTATTAAT
1 TTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTCAT
* * * ** * * * *
1439418 TTTCATGAGTTTTTTTAATTTTTTTTTTAAATTTTCTTGTTTTCAAAATACAGAGTTTTCTATTT
66 TTTCATGAG-TTTTTCAA-TTTTCTTTAAAATCCTCTTATTTTCAAAATACGGAGTTTTCTACTC
* * * *
1439483 CATAAGTTTTTCCG-GGAGGATTTTTCTTGGTTTTTAA
129 CATAAATTTTTTCGAAG-GGATTTTTCTTGGCTTTTAA
* * * * *
1439520 TTTTCAAAATTCATCAAATATTATTATTTAATTTATAGTAAATCATTTTTAAAAAATTCATTCAT
1 TTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTCAT
* * * *
1439585 TTTGAGGAGTTTTTCAATTTTCTTTAAAAATCCTC-TATTTTCGAAATGCGGAGTTTT-TAACTC
66 TTTCATGAGTTTTTCAATTTTCTTT-AAAATCCTCTTATTTTCAAAATACGGAGTTTTCT-ACTC
*
1439648 CATAAATTTTTTCGAAGGGATTTTTCTTGGTTTTTAA
129 CATAAATTTTTTCGAAGGGATTTTTCTTGGCTTTTAA
* * *
1439685 TTTTGAAAATTCATCAAATATTATTATTTAATTAATATTAAATCAGCTTTCAAAAATTCATTCAT
1 TTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTCAT
** * * *
1439750 TTTCATTTGTTTTTCATATTTTATTTGAAAATCCT-TTATTTTCGAACTACGGAGTTTTCTACTC
66 TTTCATGAGTTTTTCA-ATTTTCTTT-AAAATCCTCTTATTTTCAAAATACGGAGTTTTCTACTC
** *
1439814 CATAAATTTTTTTCGAAGGGATTTGCCTTGGCTTTTAT
129 CATAAA-TTTTTTCGAAGGGATTTTTCTTGGCTTTTAA
* ** * * *
1439852 TTTTTAAAATCCATCAAATATTATTATTTGTTTTATATTAAAGCAGTTTTCAAAAATTCATTTAT
1 TTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTCAT
* * * * * * * * *
1439917 TTTTATAAATGTTTT-ATTTTTCCTTGAAATTCTCTTATTTTTAAAATACGGAGTTTTCTACTTC
66 TTTCATGAGT-TTTTCAATTTTCTTTAAAATCCTCTTATTTTCAAAATACGGAGTTTTCTACTCC
* * *
1439981 GTAAATGTTTTC-AAGGAGA-TTTTCTTGGCTTTTGA
130 ATAAATTTTTTCGAAGG-GATTTTTCTTGGCTTTTAA
* * * * * * *
1440016 TTTTTAAAACTCATCAAATATTGTCATTTGATTCATATTAAATTAGTTTTAAAATAATTAATTCA
1 TTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTTCAAA-AATTCATTCA
* ** * * * *
1440081 TTTTCATAAGTTTTGGAGTTTTTCTTTGAAATGCCCCTT-TTCTCGAAAAGTTA---AGTTTTCT
65 TTTTCATGAGTTTTTCA-ATTTTCTTTAAAAT-CCTCTTATTTTC-AAAA--TACGGAGTTTTCT
* * * * * *
1440142 ACTCCACAAATTTTTTCG-AGAGAATTTTCTTCGATTTAAAA
125 ACTCCATAAATTTTTTCGAAGGGATTTTTCTTGGCTTT-TAA
* * *
1440183 TTTTTAAAATTCATCTAAGATTGTTATTTAA
1 TTTTTAAAATTCATCAAATATTATTATTTAA
1440214 CACCCATTAA
Statistics
Matches: 571, Mismatches: 102, Indels: 41
0.80 0.14 0.06
Matches are distributed among these distances:
164 65 0.11
165 164 0.29
166 187 0.33
167 149 0.26
168 4 0.01
169 2 0.00
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.49
Consensus pattern (165 bp):
TTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAGTTTTCAAAAATTCATTCAT
TTTCATGAGTTTTTCAATTTTCTTTAAAATCCTCTTATTTTCAAAATACGGAGTTTTCTACTCCA
TAAATTTTTTCGAAGGGATTTTTCTTGGCTTTTAA
Found at i:1445055 original size:20 final size:20
Alignment explanation
Indices: 1445018--1445055 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1445008 TATTTCAACT
*
1445018 TTTCTTTGGCATTACATTAC
1 TTTCTTTGGCACTACATTAC
1445038 TTTCATTTGGCACT-CATT
1 TTTC-TTTGGCACTACATT
1445056 CATGCATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.18, C:0.21, G:0.11, T:0.50
Consensus pattern (20 bp):
TTTCTTTGGCACTACATTAC
Found at i:1447005 original size:28 final size:28
Alignment explanation
Indices: 1446924--1447005 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
1446914 TTTTGGAGAT
*
1446924 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
1446952 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
1446980 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
1447006 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:1447148 original size:51 final size:51
Alignment explanation
Indices: 1446988--1447158 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
1446978 GAAATAACGA
* * *
1446988 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
1447040 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
1447093 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
1447144 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1447159 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:1447204 original size:27 final size:28
Alignment explanation
Indices: 1447141--1447216 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
1447131 AAAATAAAGT
*
1447141 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
1447169 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
1447196 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1447217 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1449705 original size:13 final size:13
Alignment explanation
Indices: 1449687--1449712 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1449677 ACAAAGATCC
1449687 ATGTATCGATACA
1 ATGTATCGATACA
1449700 ATGTATCGATACA
1 ATGTATCGATACA
1449713 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1449708 original size:33 final size:33
Alignment explanation
Indices: 1449666--1449732 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1449656 AAAATTTCCA
***
1449666 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1449699 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1449732 A
1 A
1449733 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1449776 original size:19 final size:17
Alignment explanation
Indices: 1449750--1449821 Score: 80
Period size: 19 Copynumber: 4.2 Consensus size: 17
1449740 GGCAGTAGCT
1449750 AATTATGTATCGATACA
1 AATTATGTATCGATACA
1449767 ATATTTATGTATCGATAC-
1 A-A-TTATGTATCGATACA
1449785 -A-T-TGTATCGATACAA
1 AATTATGTATCGATAC-A
1449800 AACTTATGTATCGATACA
1 AA-TTATGTATCGATACA
1449818 AATT
1 AATT
1449822 GTTGAATTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.23
14 1 0.02
16 2 0.04
17 3 0.06
18 5 0.11
19 25 0.53
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (17 bp):
AATTATGTATCGATACA
Found at i:1449792 original size:13 final size:13
Alignment explanation
Indices: 1449774--1449798 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1449764 ACAATATTTA
1449774 TGTATCGATACAT
1 TGTATCGATACAT
1449787 TGTATCGATACA
1 TGTATCGATACA
1449799 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1449796 original size:32 final size:32
Alignment explanation
Indices: 1449755--1449817 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
1449745 TAGCTAATTA
* *
1449755 TGTATCGATACAATATTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1449787 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1449818 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1449899 original size:21 final size:21
Alignment explanation
Indices: 1449875--1449931 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
1449865 CATTTGTAGG
1449875 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
1449896 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
1449917 ATGTATCGATACATT
1 ATGTATCGATACATT
1449932 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:1449964 original size:17 final size:17
Alignment explanation
Indices: 1449942--1449975 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1449932 TAAATTTTTT
1449942 TTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTCAA
1449959 TTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTCAA
1449976 ACACTTTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTTTTTTCAA
Found at i:1450526 original size:55 final size:55
Alignment explanation
Indices: 1450442--1451119 Score: 1032
Period size: 55 Copynumber: 12.3 Consensus size: 55
1450432 ATAAATTGTA
* * * * * *
1450442 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
1450497 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAA-AAGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
1450552 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1450607 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1450662 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1450717 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1450772 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1450827 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
1450882 TCCTGCTCGTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
1450937 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1450992 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1451047 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1451102 TCCTGCTCTTTGGGGACT
1 TCCTGCTCTTTGAGGACT
1451120 AAAAAGCGGA
Statistics
Matches: 589, Mismatches: 23, Indels: 22
0.93 0.04 0.03
Matches are distributed among these distances:
54 16 0.03
55 559 0.95
56 14 0.02
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:1450959 original size:27 final size:27
Alignment explanation
Indices: 1450929--1451072 Score: 64
Period size: 27 Copynumber: 5.3 Consensus size: 27
1450919 TGTGGGCTTT
1450929 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
1450956 GAAA-ATG-CCACCAACTTGTGTGGGCTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGACTG
*
1450983 TAAAAGGTGTCCTGCTCTTTGAGGACTG
1 GA-AAGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
1451011 GAAA-ATG-CCACCAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
1451039 GAAAGGTGTCCTGCTCTTTGAGGACT-
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
1451065 GAAAGGTG
1 GAAAGGTG
1451073 CCACCAACTT
Statistics
Matches: 78, Mismatches: 29, Indels: 21
0.61 0.23 0.16
Matches are distributed among these distances:
25 6 0.08
26 18 0.23
27 19 0.24
28 19 0.24
29 10 0.13
30 6 0.08
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (27 bp):
GAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:1452117 original size:9 final size:8
Alignment explanation
Indices: 1452104--1452148 Score: 56
Period size: 9 Copynumber: 5.5 Consensus size: 8
1452094 CTTTTCTCTC
*
1452104 TTTTTCTT
1 TTTTTGTT
1452112 TGTTTTGTT
1 T-TTTTGTT
1452121 TTTTTGTTT
1 TTTTTG-TT
1452130 TTTTTGTT
1 TTTTTGTT
1452138 TTTTT-TT
1 TTTTTGTT
1452145 TTTT
1 TTTT
1452149 GCTCTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
7 6 0.18
8 13 0.38
9 15 0.44
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.89
Consensus pattern (8 bp):
TTTTTGTT
Found at i:1452134 original size:17 final size:16
Alignment explanation
Indices: 1452104--1452163 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
1452094 CTTTTCTCTC
* *
1452104 TTTTTCTTTGTTTTGT
1 TTTTTTTTTTTTTTGT
1452120 TTTTTTGTTTTTTTTGT
1 TTTTTT-TTTTTTTTGT
* *
1452137 TTTTTTTTTTTTGCTCT
1 TTTTTTTTTTTT-TTGT
1452154 TTTTTTTTTT
1 TTTTTTTTTT
1452164 GAAGAGAAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
16 11 0.29
17 27 0.71
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (16 bp):
TTTTTTTTTTTTTTGT
Found at i:1452139 original size:15 final size:15
Alignment explanation
Indices: 1452121--1452164 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
1452111 TTGTTTTGTT
1452121 TTTTTGTTTTTTTTG-
1 TTTTT-TTTTTTTTGC
1452136 TTTTTTTTTTTTTGC
1 TTTTTTTTTTTTTGC
*
1452151 TCTTTTTTTTTTTG
1 TTTTTTTTTTTTTG
1452165 AAGAGAAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 9 0.33
15 18 0.67
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (15 bp):
TTTTTTTTTTTTTGC
Found at i:1462185 original size:1 final size:1
Alignment explanation
Indices: 1462174--1462266 Score: 78
Period size: 1 Copynumber: 93.0 Consensus size: 1
1462164 TGGCAATTGG
* * ** * * * *
1462174 AAAAGAAAAAAACAAAAAAAAAAAAAGGAAAAAGAAAAAAGAAAAAACAAAACAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * *
1462239 GGAAAAGAAAAAAAAACAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1462267 GTGAAGATTT
Statistics
Matches: 72, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.87, C:0.04, G:0.09, T:0.00
Consensus pattern (1 bp):
A
Found at i:1462206 original size:29 final size:29
Alignment explanation
Indices: 1462175--1462266 Score: 103
Period size: 29 Copynumber: 3.1 Consensus size: 29
1462165 GGCAATTGGA
* **
1462175 AAAGAAAAAAACAAAAAAAAAAAAAGGAA
1 AAAGAAAAAAAAAAAAAAAAAAAAAAAAA
1462204 AAAGAAAAAAGAAAAAACAAAACAAAAAAAAA
1 AAAGAAAAAA-AAAAAA-AAAA-AAAAAAAAA
* * *
1462236 AAAGGAAAAGAAAAAAAAACAAAAAAAAA
1 AAAGAAAAAAAAAAAAAAAAAAAAAAAAA
1462265 AA
1 AA
1462267 GTGAAGATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
29 21 0.39
30 8 0.15
31 10 0.19
32 15 0.28
ACGTcount: A:0.87, C:0.04, G:0.09, T:0.00
Consensus pattern (29 bp):
AAAGAAAAAAAAAAAAAAAAAAAAAAAAA
Found at i:1475956 original size:28 final size:28
Alignment explanation
Indices: 1475875--1475956 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
1475865 TTTTGGAGAT
*
1475875 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
1475903 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
1475931 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
1475957 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:1476099 original size:51 final size:51
Alignment explanation
Indices: 1475939--1476109 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
1475929 GAAATAACGA
* * *
1475939 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
1475991 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
1476044 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
1476095 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1476110 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:1476155 original size:27 final size:28
Alignment explanation
Indices: 1476092--1476167 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
1476082 AAAATAAAGT
*
1476092 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
1476120 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
1476147 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1476168 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1478656 original size:13 final size:13
Alignment explanation
Indices: 1478638--1478663 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1478628 ACAAAGATCC
1478638 ATGTATCGATACA
1 ATGTATCGATACA
1478651 ATGTATCGATACA
1 ATGTATCGATACA
1478664 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1478659 original size:33 final size:33
Alignment explanation
Indices: 1478617--1478683 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1478607 AAAATTTCCA
***
1478617 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1478650 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1478683 A
1 A
1478684 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1478727 original size:19 final size:18
Alignment explanation
Indices: 1478703--1478770 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1478693 CAGTAGCTAA
1478703 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1478722 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1478737 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1478754 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1478771 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1478743 original size:13 final size:13
Alignment explanation
Indices: 1478725--1478749 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1478715 ACAATACTTA
1478725 TGTATCGATACAT
1 TGTATCGATACAT
1478738 TGTATCGATACA
1 TGTATCGATACA
1478750 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1478747 original size:32 final size:32
Alignment explanation
Indices: 1478706--1478768 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1478696 TAGCTAATTA
*
1478706 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1478738 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1478769 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1479009 original size:33 final size:32
Alignment explanation
Indices: 1478953--1479016 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
1478943 CAATTTAGTG
*
1478953 TGTATCGATACCAAGAACATGTATCGATACAA
1 TGTATCAATACCAAGAACATGTATCGATACAA
* *
1478985 TGTATCAATACTAAGCAATATGTATCGATACA
1 TGTATCAATACCAAG-AACATGTATCGATACA
1479017 TCTAGGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCAATACCAAGAACATGTATCGATACAA
Found at i:1481324 original size:112 final size:112
Alignment explanation
Indices: 1481110--1481317 Score: 271
Period size: 110 Copynumber: 1.9 Consensus size: 112
1481100 AAAAGTAGCG
* *
1481110 AATTTGTCTGATTTTTTAGAGAAATTCACATTTTATACATTCCGATCCATTTGTGCCTAGAAAAT
1 AATTTGTCTGAATTTTTAGAGAAATTCACATTTTATACATTCCGATCCATTTATGCCTAGAAAAT
* *
1481175 GGGGACATATCCTATGAGTTTTGAAAATTTTGAGCCCAACAACATCT
66 AGGGACATAACCTATGAGTTTTGAAAATTTTGAGCCCAACAACATCT
* **
1481222 AATTTGTCT-AATTTTT-GAGAAATTCATATTTTATACATTTTGATCC-TTTCATGCCTAGGAAA
1 AATTTGTCTGAATTTTTAGAGAAATTCACATTTTATACATTCCGATCCATTT-ATGCCTA-GAAA
* *
1481284 ATAGGG-CATGTAACCTATTAGTTTTGAAATTTTT
64 ATAGGGACA--TAACCTATGAGTTTTGAAAATTTT
1481318 AGGCCCACCA
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
109 3 0.04
110 35 0.42
111 15 0.18
112 30 0.36
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (112 bp):
AATTTGTCTGAATTTTTAGAGAAATTCACATTTTATACATTCCGATCCATTTATGCCTAGAAAAT
AGGGACATAACCTATGAGTTTTGAAAATTTTGAGCCCAACAACATCT
Found at i:1482630 original size:89 final size:89
Alignment explanation
Indices: 1482469--1482669 Score: 260
Period size: 89 Copynumber: 2.3 Consensus size: 89
1482459 AAACATATAT
* * * *
1482469 TTCCGAATCATATCCCCTTCACTCAACCACTAGATCGAATTAATGCATCACAAGGCTTGATTTCC
1 TTCCTAATCATATCCCCTTCACTAAACCACTAGATCGAATTAATGCATCACAAAGCCTGATTTCC
*
1482534 ATGGGGCAAGGTACAACCCACACA
66 ATAGGGCAAGGTACAACCCACACA
* * *
1482558 TT-CTCAATCATATCCCCTTCACTAAACCACTAGATGGTATTGATGCATCACAAAGCCTGATTTC
1 TTCCT-AATCATATCCCCTTCACTAAACCACTAGATCGAATTAATGCATCACAAAGCCTGATTTC
* * * * *
1482622 CTTAGGGCAAGGTGCAGCCTATACA
65 CATAGGGCAAGGTACAACCCACACA
*
1482647 TTCCTAATCGTATCCCCTTCACT
1 TTCCTAATCATATCCCCTTCACT
1482670 CGAACACTGG
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
88 1 0.01
89 93 0.97
90 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (89 bp):
TTCCTAATCATATCCCCTTCACTAAACCACTAGATCGAATTAATGCATCACAAAGCCTGATTTCC
ATAGGGCAAGGTACAACCCACACA
Found at i:1482987 original size:36 final size:35
Alignment explanation
Indices: 1482916--1483053 Score: 143
Period size: 35 Copynumber: 3.9 Consensus size: 35
1482906 TTCCACCTTT
* * *
1482916 GTTTGATCGTATCTAGTCAAACTCTTTCTACCATC
1 GTTTGATCGTATCTGGTCAAACTCTTTCCATCATC
*
1482951 GTTTGATCGTATCTGGTTAAACTTCTTTCCATCATC
1 GTTTGATCGTATCTGGTCAAAC-TCTTTCCATCATC
* * * * *
1482987 GTTTGGTTGTATCCGGCCAAACTCTTTCCATTATC
1 GTTTGATCGTATCTGGTCAAACTCTTTCCATCATC
* * *
1483022 GTTTGA-CTATATCTGTTCAAACTCTTTTCATC
1 GTTTGATC-GTATCTGGTCAAACTCTTTCCATC
1483054 CCTTGTTTGA
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
35 55 0.66
36 28 0.34
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (35 bp):
GTTTGATCGTATCTGGTCAAACTCTTTCCATCATC
Found at i:1483170 original size:47 final size:48
Alignment explanation
Indices: 1483038--1483212 Score: 246
Period size: 48 Copynumber: 3.7 Consensus size: 48
1483028 CTATATCTGT
* * *
1483038 TCAAACTCTTTTCATCCCTTGTTTGACTGTATTGGTGTAAGGGCCTGG
1 TCAAACTCTTTTCATCCCTCGTTTGACTATATTGGTGTTAGGGCCTGG
* *
1483086 TCAAACTCTTTTCATCCCTCGTTTAACTATATTGGTGTTAGGGCTTGG
1 TCAAACTCTTTTCATCCCTCGTTTGACTATATTGGTGTTAGGGCCTGG
* * *
1483134 TCAAACTCTTTCCA-CCCTCATTTGACTATATTGGTGTTA-GTCCTGG
1 TCAAACTCTTTTCATCCCTCGTTTGACTATATTGGTGTTAGGGCCTGG
* *
1483180 TCAAATTCTTTTCATCCCTTGTTTGACTATATT
1 TCAAACTCTTTTCATCCCTCGTTTGACTATATT
1483213 TGGTCAAGCT
Statistics
Matches: 112, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
46 17 0.15
47 39 0.35
48 56 0.50
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (48 bp):
TCAAACTCTTTTCATCCCTCGTTTGACTATATTGGTGTTAGGGCCTGG
Found at i:1483209 original size:94 final size:96
Alignment explanation
Indices: 1483038--1483212 Score: 255
Period size: 94 Copynumber: 1.8 Consensus size: 96
1483028 CTATATCTGT
* ** *
1483038 TCAAACTCTTTTCATCCCTTGTTTGACTGTATTGGTGTAAGGGCCTGGTCAAACTCTTTTCATCC
1 TCAAACTCTTTCCATCCCTCATTTGACTATATTGGTGTAAGGGCCTGGTCAAACTCTTTTCATCC
1483103 CTCGTTTAACTATATTGGTGTTAGGGCTTGG
66 CTCGTTTAACTATATTGGTGTTAGGGCTTGG
* * *
1483134 TCAAACTCTTTCCA-CCCTCATTTGACTATATTGGTGTTA-GTCCTGGTCAAATTCTTTTCATCC
1 TCAAACTCTTTCCATCCCTCATTTGACTATATTGGTGTAAGGGCCTGGTCAAACTCTTTTCATCC
* *
1483197 CTTGTTTGACTATATT
66 CTCGTTTAACTATATT
1483213 TGGTCAAGCT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
94 36 0.51
95 21 0.30
96 13 0.19
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (96 bp):
TCAAACTCTTTCCATCCCTCATTTGACTATATTGGTGTAAGGGCCTGGTCAAACTCTTTTCATCC
CTCGTTTAACTATATTGGTGTTAGGGCTTGG
Found at i:1484394 original size:48 final size:47
Alignment explanation
Indices: 1484320--1484441 Score: 158
Period size: 48 Copynumber: 2.6 Consensus size: 47
1484310 TGAGCTTACA
* * * *
1484320 CTGGTTAAACTCTTTTCATCTATCGTTTGACTGTATTGGTGTTAGGGC
1 CTGGTTAAACTCTTTTCATCCATCGTTTGACT-TATTGATATTAAGGC
*
1484368 CTGGTTAAACTCTTTTCATCCCTCGTTTGACTTATTGATATTAAGGC
1 CTGGTTAAACTCTTTTCATCCATCGTTTGACTTATTGATATTAAGGC
*
1484415 CTAGTTAAACTC-TTTCTAT-CATCGTTT
1 CTGGTTAAACTCTTTTC-ATCCATCGTTT
1484442 AACTGTACCT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 11 0.17
47 25 0.38
48 30 0.45
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (47 bp):
CTGGTTAAACTCTTTTCATCCATCGTTTGACTTATTGATATTAAGGC
Found at i:1484422 original size:47 final size:48
Alignment explanation
Indices: 1484323--1484448 Score: 159
Period size: 47 Copynumber: 2.7 Consensus size: 48
1484313 GCTTACACTG
* * * * *
1484323 GTTAAACTCTTTTCATCTATCGTTTGACTGTATTGGTGTTAGGGCCTG
1 GTTAAACTCTTTTCATCCATCGTTTGACTGTATTGATATTAAGGCCTA
*
1484371 GTTAAACTCTTTTCATCCCTCGTTTGACT-TATTGATATTAAGGCCTA
1 GTTAAACTCTTTTCATCCATCGTTTGACTGTATTGATATTAAGGCCTA
*
1484418 GTTAAACTC-TTTCTAT-CATCGTTTAACTGTA
1 GTTAAACTCTTTTC-ATCCATCGTTTGACTGTA
1484449 CCTGGTCAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 14 0.21
47 27 0.40
48 27 0.40
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (48 bp):
GTTAAACTCTTTTCATCCATCGTTTGACTGTATTGATATTAAGGCCTA
Found at i:1484517 original size:128 final size:129
Alignment explanation
Indices: 1484320--1484640 Score: 385
Period size: 128 Copynumber: 2.5 Consensus size: 129
1484310 TGAGCTTACA
* * * * * * *
1484320 CTGGTTAAACTCTTTTCATCTATCGTTTGACTGTATTGGTGTTAGGGCCTGGTTAAACTCTTTTC
1 CTGGTCAAACTATTTTCACCT-TCGTTTGACTGTATTGGCGTTAGGACTTGGTCAAACTCTTTTC
* * * * *
1484385 ATCCCTCGTTTGACT-TATTGATATTAAGGCCTAGTTAAACTCTTTCTATCATCGTTTAACTGTA
65 ATCCCTCGTTTGACTGTATTGACATT-AGGCCTAGTCAAACCCTTTCCATCATCGTTTAACTATA
1484449 C
129 C
* * * *
1484450 CTGGTCAAATTATTTTCACCTTCGTTTGATTGTATTGGCATTA-GTCTTGGTCAAACTCTTTTCA
1 CTGGTCAAACTATTTTCACCTTCGTTTGACTGTATTGGCGTTAGGACTTGGTCAAACTCTTTTCA
* * * * *
1484514 TCCCTCGTTTGATTGTATTGGCATTAGTCTTGGTCAAACCCTTTCCATCATCGTTTAACTATAC
66 TCCCTCGTTTGACTGTATTGACATTAGGCCTAGTCAAACCCTTTCCATCATCGTTTAACTATAC
* * * *
1484578 CTGGTCAAACTCTTTCCACCCTCATTTGACTGTATTGGCGTTAGGACTTGGTCAAACTCTTTT
1 CTGGTCAAACTATTTTCACCTTCGTTTGACTGTATTGGCGTTAGGACTTGGTCAAACTCTTTT
1484641 TATTTTGGTC
Statistics
Matches: 161, Mismatches: 28, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
128 99 0.61
129 45 0.28
130 17 0.11
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (129 bp):
CTGGTCAAACTATTTTCACCTTCGTTTGACTGTATTGGCGTTAGGACTTGGTCAAACTCTTTTCA
TCCCTCGTTTGACTGTATTGACATTAGGCCTAGTCAAACCCTTTCCATCATCGTTTAACTATAC
Found at i:1484531 original size:47 final size:47
Alignment explanation
Indices: 1484451--1484562 Score: 172
Period size: 47 Copynumber: 2.4 Consensus size: 47
1484441 TAACTGTACC
* * *
1484451 TGGTCAAATTATTTTCA-CCTTCGTTTGATTGTATTGGCATTAGTCT
1 TGGTCAAACTCTTTTCATCCCTCGTTTGATTGTATTGGCATTAGTCT
1484497 TGGTCAAACTCTTTTCATCCCTCGTTTGATTGTATTGGCATTAGTCT
1 TGGTCAAACTCTTTTCATCCCTCGTTTGATTGTATTGGCATTAGTCT
* *
1484544 TGGTCAAACCCTTTCCATC
1 TGGTCAAACTCTTTTCATC
1484563 ATCGTTTAAC
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
46 15 0.25
47 45 0.75
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (47 bp):
TGGTCAAACTCTTTTCATCCCTCGTTTGATTGTATTGGCATTAGTCT
Found at i:1484871 original size:132 final size:130
Alignment explanation
Indices: 1484624--1484988 Score: 344
Period size: 132 Copynumber: 2.8 Consensus size: 130
1484614 GGCGTTAGGA
* * * * * *
1484624 CTTGGTCAAACTCTTTTTATTTTGGTCAGACATATGGTTACCACCCTTGTCAGATCTTTTTCATT
1 CTTGGTCAAACTCTTCTCATTTAGGTCTGACATATGGTTACTACCCTGGTCAGAT-TTTTTCA-T
* * * * *
1484689 TTAATTTGACATACGGTTACCACCCT-GATCAAATCTATCTCTTTTCTGTTTGACGTATAGCTAC
64 TTGATTTGACGTATGGTTACCACACTAG-TCAAATCTATCTCTTTTCTGTTTGACATATAGCTAC
1484753 CAC
128 CAC
*
1484756 CTTGGTCAAACTCTTCACATTTCAGGTCTGACATATGGTTACTACCCTGGTCAGATTATTTTCAT
1 CTTGGTCAAACTCTTCTCATTT-AGGTCTGACATATGGTTACTACCCTGGTCAGATT-TTTTCAT
* * * *
1484821 TTGATTTGAGGTATGGTTACCACTCTAGTCAAAT-T-TGC-CTTCTTCTTGTTTGACATATGGTT
64 TTGATTTGACGTATGGTTACCACACTAGTCAAATCTAT-CTCTT-TTC-TGTTTGACATATAGCT
1484883 ACCAC
126 ACCAC
* ** * ** *
1484888 CCTGGTCAAACTCCCCTCATTTTAAGTCTGATGTATGGTTA-TCAACCTGGTCAGATTCTTTTCA
1 CTTGGTCAAACTCTTCTCA-TTTAGGTCTGACATATGGTTACT-ACCCTGGTCAGATT-TTTTCA
* * * *
1484952 TTATGATTTAATGCATGGTTACCGCACTAGTCAAATC
63 TT-TGATTTGACGTATGGTTACCACACTAGTCAAATC
1484989 AACCTCCTTC
Statistics
Matches: 194, Mismatches: 29, Indels: 18
0.80 0.12 0.07
Matches are distributed among these distances:
130 4 0.02
131 6 0.03
132 117 0.60
133 67 0.35
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.39
Consensus pattern (130 bp):
CTTGGTCAAACTCTTCTCATTTAGGTCTGACATATGGTTACTACCCTGGTCAGATTTTTTCATTT
GATTTGACGTATGGTTACCACACTAGTCAAATCTATCTCTTTTCTGTTTGACATATAGCTACCAC
Found at i:1485243 original size:85 final size:85
Alignment explanation
Indices: 1485114--1485980 Score: 747
Period size: 85 Copynumber: 10.1 Consensus size: 85
1485104 TTGATTACTC
* * * * * * * * *
1485114 ATTTACATGTCGGCTTAGTCATCGGTAAACCTATTACCCTTATGGTGACTTGTCAGCTGAATCTT
1 ATTTACCTGTCGGCTCAGTCCTCAGTAAACCCATTACCCCTATGGTGACCTGTCAGCTCAGTCTT
*
1485179 CGGTCAACCTTTATCTCATT
66 CGGTCAACCTTCATCTCATT
* * * *
1485199 ATTTACCTGTCGGTTTAGTCC-CTAGTAAACCCATTACCCCTATGGTGATCTGTCAGCTCAGCCT
1 ATTTACCTGTCGGCTCAGTCCTC-AGTAAACCCATTACCCCTATGGTGACCTGTCAGCTCAGTCT
* *
1485263 CCGATCAACCTTCATCTCATT
65 TCGGTCAACCTTCATCTCATT
** * * * * * * *
1485284 ATTTACCTGTTAGCTCAATCCTCAATAAACCCACTACCCCTGTGGTAACCTGTCAACTCAATCTC
1 ATTTACCTGTCGGCTCAGTCCTCAGTAAACCCATTACCCCTATGGTGACCTGTCAGCTCAGTCT-
*
1485349 TC-GTCAACCATCATCTCATT
65 TCGGTCAACCTTCATCTCATT
* * * * * *
1485369 ATTTACCTATTGGCTCAGTCC-CTAGCAAACCCATTATCCCTATGGTGACTTGTCAGCTCAATCT
1 ATTTACCTGTCGGCTCAGTCCTC-AGTAAACCCATTACCCCTATGGTGACCTGTCAGCTCAGTCT
* ** * *
1485433 CCTATCAACTTTCATCTTATT
65 TCGGTCAACCTTCATCTCATT
* * * *
1485454 ATTTACCTATCGGCTCAGTCCTCAGTAAACCCATTACCCCTATGCTGACCTATTAGCTCAATCTT
1 ATTTACCTGTCGGCTCAGTCCTCAGTAAACCCATTACCCCTATGGTGACCTGTCAGCTC-A----
*
1485519 CGATCAACCTTCGATCAACCTTCATCTCATT
61 -G-T----CTTCGGTCAACCTTCATCTCATT
* * * * * *
1485550 GTTTACCTGTTGGCTCAGTCCTCAATAAACCCATTATCCTTATGGTGACCTGTCAACTCAGTC-T
1 ATTTACCTGTCGGCTCAGTCCTCAGTAAACCCATTACCCCTATGGTGACCTGTCAGCTCAGTCTT
* *
1485614 CTAGTTAACCTTCATCTCATT
66 C-GGTCAACCTTCATCTCATT
* * ** * * * *
1485635 ATTTACCTGTCGGTTCAATTTTCAATAAACCCATTACTCATATGGTGACCTGTCAGCTTAGTCTT
1 ATTTACCTGTCGGCTCAGTCCTCAGTAAACCCATTACCCCTATGGTGACCTGTCAGCTCAGTCTT
*
1485700 TGGTCAACCTTCATCTCATT
66 CGGTCAACCTTCATCTCATT
* * * * * * * * *
1485720 GTTGACCTGTCGACTCAATCCTCGGTAAACCCATTACCCCTATGGTAACCTATCAACTTAGTCTT
1 ATTTACCTGTCGGCTCAGTCCTCAGTAAACCCATTACCCCTATGGTGACCTGTCAGCTCAGTCTT
*
1485785 CGGTCAACCTTCATCTCCTT
66 CGGTCAACCTTCATCTCATT
* * * * * * * *
1485805 GTTTACCTATTGGCTTAGTCCTTAGTAAAACCC-TTACCCCTATGGTAACCTGTTAGCTTAGTC-
1 ATTTACCTGTCGGCTCAGTCCTCAGT-AAACCCATTACCCCTATGGTGACCTGTCAGCTCAGTCT
* *
1485868 TCTAGTCAACTTTCATCTCATT
65 TC-GGTCAACCTTCATCTCATT
* * * * *
1485890 CTTTACCTGTCGACTCAGTCCTCGGTAAACCCATTAACCTTATGGTGACCTGTCAGCTCAGTCTT
1 ATTTACCTGTCGGCTCAGTCCTCAGTAAACCCATTACCCCTATGGTGACCTGTCAGCTCAGTCTT
** *
1485955 CAATCAACTTTCATCTCATT
66 CGGTCAACCTTCATCTCATT
*
1485975 GTTTAC
1 ATTTAC
1485981 TTATCAACCT
Statistics
Matches: 631, Mismatches: 128, Indels: 46
0.78 0.16 0.06
Matches are distributed among these distances:
84 13 0.02
85 533 0.84
86 13 0.02
89 1 0.00
90 1 0.00
92 1 0.00
95 1 0.00
96 68 0.11
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.35
Consensus pattern (85 bp):
ATTTACCTGTCGGCTCAGTCCTCAGTAAACCCATTACCCCTATGGTGACCTGTCAGCTCAGTCTT
CGGTCAACCTTCATCTCATT
Found at i:1485530 original size:11 final size:11
Alignment explanation
Indices: 1485511--1485541 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1485501 ACCTATTAGC
*
1485511 TCAATCTTCGA
1 TCAACCTTCGA
1485522 TCAACCTTCGA
1 TCAACCTTCGA
1485533 TCAACCTTC
1 TCAACCTTC
1485542 ATCTCATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.26, C:0.35, G:0.06, T:0.32
Consensus pattern (11 bp):
TCAACCTTCGA
Found at i:1485624 original size:96 final size:96
Alignment explanation
Indices: 1485436--1485626 Score: 231
Period size: 96 Copynumber: 2.0 Consensus size: 96
1485426 TCAATCTCCT
* * *
1485436 ATCAACTTTCATCTTATTATTTACCTATCGGCTCAGTCCTCAGTAAACCCATTACCCCTATGCTG
1 ATCAACCTTCATCTCATTATTTACCTATCGGCTCAGTCCTCAATAAACCCATTACCCCTATGCTG
* * *
1485501 ACCTATTAGCTCAATCTTCGATCAACCTTCG
66 ACCTATCAACTCAATCTTAGATCAACCTTCG
* * * * * *
1485532 ATCAACCTTCATCTCATTGTTTACCTGTTGGCTCAGTCCTCAATAAACCCATTATCCTTATGGTG
1 ATCAACCTTCATCTCATTATTTACCTATCGGCTCAGTCCTCAATAAACCCATTACCCCTATGCTG
* * *
1485597 ACCTGTCAACTCAGTCTCTAG-TTAACCTTC
66 ACCTATCAACTCAATCT-TAGATCAACCTTC
1485627 ATCTCATTAT
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
96 77 0.97
97 2 0.03
ACGTcount: A:0.24, C:0.30, G:0.10, T:0.35
Consensus pattern (96 bp):
ATCAACCTTCATCTCATTATTTACCTATCGGCTCAGTCCTCAATAAACCCATTACCCCTATGCTG
ACCTATCAACTCAATCTTAGATCAACCTTCG
Found at i:1485666 original size:181 final size:181
Alignment explanation
Indices: 1485352--1485685 Score: 447
Period size: 181 Copynumber: 1.8 Consensus size: 181
1485342 CAATCTCTCG
*
1485352 TCAACCATCATCTCATTATTTACCTATTGGCTCAGTCCCTAGCAAACCCATTATCCCTATGGTGA
1 TCAACCATCATCTCATTATTTACCTATTGGCTCAGTCCCTAACAAACCCATTATCCCTATGGTGA
* * * * * *
1485417 CTTGTCAGCTCAATCTCCTATCAACTTTCATCTTATTATTTACCTATCGGCTCAGTCCTCAGTAA
66 CCTGTCAACTCAATCTCCTATCAACCTTCATCTCATTATTTACCTATCGGCTCAATCCTCAATAA
*
1485482 ACCCATTACCCCTATGCTGACCTATTAGCTCAATCTTCGATCAACCTTCGA
131 ACCCATTACCCATATGCTGACCTATTAGCTCAATCTTCGATCAACCTTCGA
* * * * *
1485533 TCAACCTTCATCTCATTGTTTACCTGTTGGCTCAGT-CCTCAATAAACCCATTATCCTTATGGTG
1 TCAACCATCATCTCATTATTTACCTATTGGCTCAGTCCCT-AACAAACCCATTATCCCTATGGTG
* * * * **
1485597 ACCTGTCAACTCAGTCT-CTAGTTAACCTTCATCTCATTATTTACCTGTCGGTTCAATTTTCAAT
65 ACCTGTCAACTCAATCTCCTA-TCAACCTTCATCTCATTATTTACCTATCGGCTCAATCCTCAAT
* *
1485661 AAACCCATTACTCATATGGTGACCT
129 AAACCCATTACCCATATGCTGACCT
1485686 GTCAGCTTAG
Statistics
Matches: 130, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
180 6 0.05
181 124 0.95
ACGTcount: A:0.25, C:0.30, G:0.10, T:0.35
Consensus pattern (181 bp):
TCAACCATCATCTCATTATTTACCTATTGGCTCAGTCCCTAACAAACCCATTATCCCTATGGTGA
CCTGTCAACTCAATCTCCTATCAACCTTCATCTCATTATTTACCTATCGGCTCAATCCTCAATAA
ACCCATTACCCATATGCTGACCTATTAGCTCAATCTTCGATCAACCTTCGA
Found at i:1485814 original size:42 final size:42
Alignment explanation
Indices: 1485682--1485814 Score: 99
Period size: 42 Copynumber: 3.1 Consensus size: 42
1485672 TCATATGGTG
* * * * *
1485682 ACCTGTCAGCTTAGTCTTTGGTCAACCTTCATCTCATTGTTG
1 ACCTATCAACTTAGTCTTCGGTCAACCTTCATCTCCTTGTTA
* * * * * * * *
1485724 ACCTGTCGACTCAATCCTCGGTAAACC--CATTACCCCTATGGTA
1 ACCTATCAACTTAGTCTTCGGTCAACCTTCA-T-CTCCT-TGTTA
*
1485767 ACCTATCAACTTAGTCTTCGGTCAACCTTCATCTCCTTGTTT
1 ACCTATCAACTTAGTCTTCGGTCAACCTTCATCTCCTTGTTA
1485809 ACCTAT
1 ACCTAT
1485815 TGGCTTAGTC
Statistics
Matches: 66, Mismatches: 20, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
40 2 0.03
41 1 0.02
42 32 0.48
43 28 0.42
44 1 0.02
45 2 0.03
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (42 bp):
ACCTATCAACTTAGTCTTCGGTCAACCTTCATCTCCTTGTTA
Found at i:1485986 original size:26 final size:26
Alignment explanation
Indices: 1485957--1486011 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
1485947 TCAGTCTTCA
* * *
1485957 ATCAACTTTCATCTCATTGTTTACTT
1 ATCAACCTTCATCTCATTATTTACCT
1485983 ATCAACCTTCATCTCATTATTTACCT
1 ATCAACCTTCATCTCATTATTTACCT
1486009 ATC
1 ATC
1486012 GGCTCAGTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.02, T:0.45
Consensus pattern (26 bp):
ATCAACCTTCATCTCATTATTTACCT
Found at i:1486073 original size:111 final size:112
Alignment explanation
Indices: 1485873--1486097 Score: 328
Period size: 111 Copynumber: 2.0 Consensus size: 112
1485863 TAGTCTCTAG
* * *
1485873 TCAACTTTCATCTCATTCTTTACCTGTCGACTCAGTCCTCGGTAAACCCATTAACCTTATGGTGA
1 TCAACCTTCATCTCATTATTTACCTATCGACTCAGTCCTCGGTAAACCCATTAACCTTATGGTGA
* *
1485938 CCTGTCAGCTCAGTCTTCAATCAA-CTTTCATCTCATTGTTTACTTA
66 CCTGTCAGCTCAGTCTCCAATCAACCTTTCATCTCATTGTTTACCTA
* * * *
1485984 TCAACCTTCATCTCATTATTTACCTATCGGCTCAGTCTTCGGTAAATCTATT-ACCTCTATGGTG
1 TCAACCTTCATCTCATTATTTACCTATCGACTCAGTCCTCGGTAAACCCATTAACCT-TATGGTG
* *
1486048 ACCTGTCAGCTCAGTCTCCAGTCAACCTTTTATCTCATTGTTTACCTA
65 ACCTGTCAGCTCAGTCTCCAATCAACCTTTCATCTCATTGTTTACCTA
1486096 TC
1 TC
1486098 GACTCAATCC
Statistics
Matches: 101, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
110 4 0.04
111 75 0.74
112 22 0.22
ACGTcount: A:0.22, C:0.29, G:0.11, T:0.38
Consensus pattern (112 bp):
TCAACCTTCATCTCATTATTTACCTATCGACTCAGTCCTCGGTAAACCCATTAACCTTATGGTGA
CCTGTCAGCTCAGTCTCCAATCAACCTTTCATCTCATTGTTTACCTA
Found at i:1486137 original size:197 final size:196
Alignment explanation
Indices: 1485788--1486177 Score: 507
Period size: 197 Copynumber: 2.0 Consensus size: 196
1485778 TAGTCTTCGG
* * * * *
1485788 TCAACCTTCATCTCCTTGTTTACCTATTGGCTTAGTCCTTAGTAAAACCCTTACCCCTATGGTAA
1 TCAACCTTCATCTCATTATTTACCTATCGGCTCAGTCCTTAGTAAAACCATTACCCCTATGGTAA
* * * * *
1485853 CCTGTTAGCTTAGTCTCTAGTCAACTTTCATCTCATTCTTTACCTGTCGACTCAGTCCTCGGTAA
66 CCTGTCAGCTCAGTCTCCAGTCAACTTTCATCTCATTCTTTACCTATCGACTCAATCCTCGGTAA
* * *
1485918 ACCCATTAACCTTATGGTGACCTGTCAGCTCAGTCTTCAATCAA-CTTTCATCTCATTGTTTACT
131 ACCCATTAACCATATAGTGACCTGTCAGCTCAGTCTTCAATCAACCATT-ATCTCATTGTTTACT
1485982 TA
195 TA
* * * * *
1485984 TCAACCTTCATCTCATTATTTACCTATCGGCTCAGT-CTTCGGTAAATCTATTACCTCTATGGTG
1 TCAACCTTCATCTCATTATTTACCTATCGGCTCAGTCCTT-AGTAAAACCATTACCCCTATGGTA
* *
1486048 ACCTGTCAGCTCAGTCTCCAGTCAACCTTTTATCTCATTGTTTACCTATCGACTCAATCC-CTGG
65 ACCTGTCAGCTCAGTCTCCAGTCAA-CTTTCATCTCATTCTTTACCTATCGACTCAATCCTC-GG
* ***
1486112 TAAACCCATTACCCATATAGTGACCTGTCAGCTCAGTCTTTGGTCAACCATTATCTCATTGTTTA
128 TAAACCCATTAACCATATAGTGACCTGTCAGCTCAGTCTTCAATCAACCATTATCTCATTGTTTA
1486177 C
193 C
1486178 CTATTGGCTC
Statistics
Matches: 166, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
195 3 0.02
196 73 0.44
197 87 0.52
198 3 0.02
ACGTcount: A:0.22, C:0.29, G:0.12, T:0.37
Consensus pattern (196 bp):
TCAACCTTCATCTCATTATTTACCTATCGGCTCAGTCCTTAGTAAAACCATTACCCCTATGGTAA
CCTGTCAGCTCAGTCTCCAGTCAACTTTCATCTCATTCTTTACCTATCGACTCAATCCTCGGTAA
ACCCATTAACCATATAGTGACCTGTCAGCTCAGTCTTCAATCAACCATTATCTCATTGTTTACTT
A
Found at i:1486188 original size:42 final size:42
Alignment explanation
Indices: 1485984--1486264 Score: 162
Period size: 43 Copynumber: 6.6 Consensus size: 42
1485974 TGTTTACTTA
* *
1485984 TCAACC-TTCATCTCATTATTTACCTATCGGCTCAGTCTTCGG
1 TCAACCATT-ATCTCATTGTTTACCTATCAGCTCAGTCTTCGG
* * * * * * * *
1486026 TAAATCTATTACCTC-TATGGTGACCTGTCAGCTCAGTCTCCAG
1 TCAA-CCATTATCTCAT-TGTTTACCTATCAGCTCAGTCTTCGG
* * *
1486069 TCAACCTTTTATCTCATTGTTTACCTATC-GACTCAATC-CCTGG
1 TCAACC-ATTATCTCATTGTTTACCTATCAG-CTCAGTCTTC-GG
* * * * *
1486112 TAAACCCATTA-CCCATATAG-TGACCTGTCAGCTCAGTCTTTGG
1 TCAA-CCATTATCTCAT-T-GTTTACCTATCAGCTCAGTCTTCGG
** * *
1486155 TCAACCATTATCTCATTGTTTACCTATTGGCTCAGTCCTCAG
1 TCAACCATTATCTCATTGTTTACCTATCAGCTCAGTCTTCGG
* * * * *
1486197 TAAATCCATTA-CCCCTATGGTGACCTATCAGCTCAGTCTTCGG
1 TCAA-CCATTATCTCAT-TGTTTACCTATCAGCTCAGTCTTCGG
*
1486240 TCAACCTTTATCTCATTGTTTACCT
1 TCAACCATTATCTCATTGTTTACCT
1486265 GTCGGCTTAG
Statistics
Matches: 171, Mismatches: 51, Indels: 34
0.67 0.20 0.13
Matches are distributed among these distances:
41 1 0.01
42 53 0.31
43 110 0.64
44 7 0.04
ACGTcount: A:0.22, C:0.29, G:0.13, T:0.36
Consensus pattern (42 bp):
TCAACCATTATCTCATTGTTTACCTATCAGCTCAGTCTTCGG
Found at i:1486209 original size:85 final size:84
Alignment explanation
Indices: 1485984--1486963 Score: 619
Period size: 85 Copynumber: 11.5 Consensus size: 84
1485974 TGTTTACTTA
* * * * * *
1485984 TCAACCTTCATCTCATTATTTACCTATCGGCTCAGTCTTCGGTAAATCTATTACCTCTATGGTGA
1 TCAACCTTTATCTCATTGTTTACCTATCGGCTCAGTCCTCAGTAAACCCATTACC-CTATGGTGA
*
1486049 CCTGTCAGCTCAGTCTCCAG
65 CCTGTCAGCTCAGTCTCCGG
* * * *
1486069 TCAACCTTTTATCTCATTGTTTACCTATCGACTCAATCC-CTGGTAAACCCATTACCCATATAGT
1 TCAACC-TTTATCTCATTGTTTACCTATCGGCTCAGTCCTC-AGTAAACCCATTACCC-TATGGT
**
1486133 GACCTGTCAGCTCAGTCTTTGG
63 GACCTGTCAGCTCAGTCTCCGG
* * *
1486155 TCAACCATTATCTCATTGTTTACCTATTGGCTCAGTCCTCAGTAAATCCATTACCCCTATGGTGA
1 TCAACCTTTATCTCATTGTTTACCTATCGGCTCAGTCCTCAGTAAACCCATTA-CCCTATGGTGA
* *
1486220 CCTATCAGCTCAGTCTTCGG
65 CCTGTCAGCTCAGTCTCCGG
* * * *
1486240 TCAACCTTTATCTCATTGTTTACCTGTCGGCTTAGTCC-CCGATAAACCCATTACCCCTATGGCG
1 TCAACCTTTATCTCATTGTTTACCTATCGGCTCAGTCCTCAG-TAAACCCATTA-CCCTATGGTG
** * * *
1486304 ACCAATCAACCCAGTCTCTGG
64 ACCTGTCAGCTCAGTCTCCGG
* * * * * *
1486325 TCAACCGTCATCTTATTGTTTACCTGTCAGCTCAGT-CTCCAGTAAACTCATTACCCCTATGGTG
1 TCAACCTTTATCTCATTGTTTACCTATCGGCTCAGTCCT-CAGTAAACCCATTA-CCCTATGGTG
* *
1486389 ACCTGTCAACTCAGTCTCTGG
64 ACCTGTCAGCTCAGTCTCCGG
* * * * * * * * *
1486410 TCAACCTTCATCTCCTTGTTTACTTGTCAGCTTAGT-CTCTAGTAAACCCCTTACTCTTGTGGTG
1 TCAACCTTTATCTCATTGTTTACCTATCGGCTCAGTCCTC-AGTAAACCCATTAC-CCTATGGTG
* **
1486474 ACCTGTTAGCTCAGTCTCTAG
64 ACCTGTCAGCTCAGTCTCCGG
* * * * * *
1486495 TCAACCTTCATTTTC-TTGTTCACCTATCGGCTCAGTCCTCAATAAACCCCTTATCCCT-TCAGT
1 TCAACCTTTA-TCTCATTGTTTACCTATCGGCTCAGTCCTCAGTAAACCCATTA-CCCTAT-GGT
* * *
1486558 GACCTATCGGCTTAGTC-CTCGG
63 GACCTGTCAGCTCAGTCTC-CGG
* * * ** * * *
1486580 TCAACCCTTTATC-CCTTGTTTACTTGTCAACTCAGTCCCCGGTAAACCCCTTACACCTATGGTG
1 TCAA-CCTTTATCTCATTGTTTACCTATCGGCTCAGTCCTCAGTAAACCCATTAC-CCTATGGTG
* *
1486644 ACTTGTCAGCTCAGTCTTCGG
64 ACCTGTCAGCTCAGTCTCCGG
* * * * * * *
1486665 TTAA-CTTTCATCTCATTGTTTACTTGTCAGCTTAGTCC-AAGTAAACCCTTTACACCTATGGTG
1 TCAACCTTT-ATCTCATTGTTTACCTATCGGCTCAGTCCTCAGTAAACCCATTAC-CCTATGGTG
* * * *
1486728 ACCTATTAGCTCAATCTTCGG
64 ACCTGTCAGCTCAGTCTCCGG
* * * * * * * * *
1486749 TGAA-CTTTATCTCATCGTTTACTTGTCAGCTCAATCCT-TGATAAACCCCTTATCCCCT-CGGT
1 TCAACCTTTATCTCATTGTTTACCTATCGGCTCAGTCCTCAG-TAAACCCATTA--CCCTATGGT
* * *
1486811 GACCTATCGGCTTAGT-TCGCGG
63 GACCTGTCAGCTCAGTCTC-CGG
* * * ** * * * **
1486833 TCAACCCTTCATC-CCTTGTTTACCTTTCAACTTAGTCC-CGGGTAAAACCC-TTACCCTTTTAA
1 TCAA-CCTTTATCTCATTGTTTACCTATCGGCTCAGTCCTC-AGT-AAACCCATTACCC-TATGG
* *
1486895 TGACCTGTTAG-TATAGTCTCCGG
62 TGACCTGTCAGCT-CAGTCTCCGG
** ** * *
1486918 TCAACCTCCATCTCATTGTTTACCCGTCGGCCCAGTCCTAAGTAAA
1 TCAACCTTTATCTCATTGTTTACCTATCGGCTCAGTCCTCAGTAAA
1486964 TCCTTGGTCC
Statistics
Matches: 722, Mismatches: 135, Indels: 77
0.77 0.14 0.08
Matches are distributed among these distances:
83 35 0.05
84 101 0.14
85 481 0.67
86 105 0.15
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.34
Consensus pattern (84 bp):
TCAACCTTTATCTCATTGTTTACCTATCGGCTCAGTCCTCAGTAAACCCATTACCCTATGGTGAC
CTGTCAGCTCAGTCTCCGG
Found at i:1486222 original size:282 final size:281
Alignment explanation
Indices: 1485703--1486262 Score: 685
Period size: 282 Copynumber: 2.0 Consensus size: 281
1485693 TAGTCTTTGG
* *
1485703 TCAACCTTCATCTCATTGTTGACCTGTCGACTCAATCCTCGGTAAACCCATTACCCCTATGGTAA
1 TCAACCTTCATCTCATTATTGACCTATCGACTCAATCCTCGGTAAACCCATTACCCCTATGGTAA
* * * * * * * * *
1485768 CCTATCAACTTAGTCTTCGGTCAACCTTCATCTCCTTGTTTACCTATTGGCTTAGTCCTTAGTAA
66 CCTATCAACTCAGTCTCCAGTCAACCTTCATCTCATTGTTTACCTATCGACTCAATCCCTAGTAA
* * * * *
1485833 AACCCTTACCCCTATGGTAACCTGTTAGCTTAGTCTCTAGTCAACTTTCATCTCATTCTTTACCT
131 AACCCTTACCCATATAGTAACCTGTCAGCTCAGTCTCTAGTCAACATTCATCTCATTCTTTACCT
* * * *
1485898 GTCGACTCAGTCCTCGGTAAACCCATTAACCTTATGGTGACCTGTCAGCTCAGTCTTCAATCAA-
196 ATCGACTCAGTCCTCAGTAAACCCATTAACCCTATGGTGACCTATCAGCTCAGTCTTCAATCAAC
1485962 CTTTCATCTCATTGTTTACTTA
261 CTTT-ATCTCATTGTTTACTTA
* * * * * * * *
1485984 TCAACCTTCATCTCATTATTTACCTATCGGCTCAGTCTTCGGTAAATCTATTACCTCTATGGTGA
1 TCAACCTTCATCTCATTATTGACCTATCGACTCAATCCTCGGTAAACCCATTACCCCTATGGTAA
* * * *
1486049 CCTGTCAGCTCAGTCTCCAGTCAACCTTTTATCTCATTGTTTACCTATCGACTCAATCCCTGGT-
66 CCTATCAACTCAGTCTCCAGTCAACC-TTCATCTCATTGTTTACCTATCGACTCAATCCCTAGTA
* * * *
1486113 AAACCCATTACCCATATAGTGACCTGTCAGCTCAGTCTTTGGTCAACCATT-ATCTCATTGTTTA
130 AAACCC-TTACCCATATAGTAACCTGTCAGCTCAGTCTCTAGTCAA-CATTCATCTCATTCTTTA
* * * * **
1486177 CCTATTGGCTCAGTCCTCAGTAAATCCATTACCCCTATGGTGACCTATCAGCTCAGTCTTCGGTC
193 CCTATCGACTCAGTCCTCAGTAAACCCATTAACCCTATGGTGACCTATCAGCTCAGTCTTCAATC
1486242 AACCTTTATCTCATTGTTTAC
258 AACCTTTATCTCATTGTTTAC
1486263 CTGTCGGCTT
Statistics
Matches: 233, Mismatches: 42, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
281 82 0.35
282 144 0.62
283 7 0.03
ACGTcount: A:0.22, C:0.29, G:0.12, T:0.36
Consensus pattern (281 bp):
TCAACCTTCATCTCATTATTGACCTATCGACTCAATCCTCGGTAAACCCATTACCCCTATGGTAA
CCTATCAACTCAGTCTCCAGTCAACCTTCATCTCATTGTTTACCTATCGACTCAATCCCTAGTAA
AACCCTTACCCATATAGTAACCTGTCAGCTCAGTCTCTAGTCAACATTCATCTCATTCTTTACCT
ATCGACTCAGTCCTCAGTAAACCCATTAACCCTATGGTGACCTATCAGCTCAGTCTTCAATCAAC
CTTTATCTCATTGTTTACTTA
Found at i:1486360 original size:170 final size:170
Alignment explanation
Indices: 1485984--1486857 Score: 775
Period size: 170 Copynumber: 5.1 Consensus size: 170
1485974 TGTTTACTTA
* * * * * *
1485984 TCAACCTTCATCTCATTATTTACCTATCGGCTCAGTCTTCGGTAAATCTATTACCTCTATGGTGA
1 TCAACCTTCATCTCATTGTTTACCTATCGGCTCAGTCCTCAGTAAACCCATTACCCCTATGGTGA
* * * * * * * * *
1486049 CCTGTCAGCTCAGTCTCCAGTCAACCTTTTATCTCATTGTTTACCTATCGACTCAATCCCTGGTA
66 CCTATCAGCTCAGTCTTCGGTCAACC-TTTATCTCATTGTTTACTTGTCAACTCAGTCCCCGATA
* * *
1486114 AACCCATTACCCATATAGTGACCTGTCAGCTCAGTCTTTGG
130 AACCCATTACCCCTATGGTGACCTGTCAGCTCAGTCTCTGG
* *
1486155 TCAACCATT-ATCTCATTGTTTACCTATTGGCTCAGTCCTCAGTAAATCCATTACCCCTATGGTG
1 TCAACC-TTCATCTCATTGTTTACCTATCGGCTCAGTCCTCAGTAAACCCATTACCCCTATGGTG
* ** *
1486219 ACCTATCAGCTCAGTCTTCGGTCAACCTTTATCTCATTGTTTACCTGTCGGCTTAGTCCCCGATA
65 ACCTATCAGCTCAGTCTTCGGTCAACCTTTATCTCATTGTTTACTTGTCAACTCAGTCCCCGATA
* ** * *
1486284 AACCCATTACCCCTATGGCGACCAATCAACCCAGTCTCTGG
130 AACCCATTACCCCTATGGTGACCTGTCAGCTCAGTCTCTGG
* * * * *
1486325 TCAACCGTCATCTTATTGTTTACCTGTCAGCTCAGT-CTCCAGTAAACTCATTACCCCTATGGTG
1 TCAACCTTCATCTCATTGTTTACCTATCGGCTCAGTCCT-CAGTAAACCCATTACCCCTATGGTG
* * * * * * * *
1486389 ACCTGTCAACTCAGTC-TCTGGTCAACCTTCATCTCCTTGTTTACTTGTCAGCTTAGT-CTCTAG
65 ACCTATCAGCTCAGTCTTC-GGTCAACCTTTATCTCATTGTTTACTTGTCAACTCAGTCCCCGA-
* * * * * *
1486452 TAAACCCCTTACTCTTGTGGTGACCTGTTAGCTCAGTCTCTAG
128 TAAACCCATTACCCCTATGGTGACCTGTCAGCTCAGTCTCTGG
* * * * * *
1486495 TCAACCTTCATTTTC-TTGTTCACCTATCGGCTCAGTCCTCAATAAACCCCTTATCCCT-TCAGT
1 TCAACCTTCA-TCTCATTGTTTACCTATCGGCTCAGTCCTCAGTAAACCCATTACCCCTAT-GGT
* * * * *
1486558 GACCTATCGGCTTAGTCCTCGGTCAACCCTTTATC-CCTTGTTTACTTGTCAACTCAGTCCCCGG
64 GACCTATCAGCTCAGTCTTCGGTCAA-CCTTTATCTCATTGTTTACTTGTCAACTCAGTCCCCGA
* * *
1486622 TAAACCCCTTACACCTATGGTGACTTGTCAGCTCAGTCT-TCGG
128 TAAACCCATTACCCCTATGGTGACCTGTCAGCTCAGTCTCT-GG
* * * * * * * * *
1486665 TTAACTTTCATCTCATTGTTTACTTGTCAGCTTAGTCC-AAGTAAACCCTTTACACCTATGGTGA
1 TCAACCTTCATCTCATTGTTTACCTATCGGCTCAGTCCTCAGTAAACCCATTACCCCTATGGTGA
* * * * * * **
1486729 CCTATTAGCTCAATCTTCGGTGAA-CTTTATCTCATCGTTTACTTGTCAGCTCAATCCTTGATAA
66 CCTATCAGCTCAGTCTTCGGTCAACCTTTATCTCATTGTTTACTTGTCAACTCAGTCCCCGATAA
* * * * * *
1486793 ACCCCTTATCCCCT-CGGTGACCTATCGGCTTAGT-TCGCGG
131 ACCCATTA-CCCCTATGGTGACCTGTCAGCTCAGTCTC-TGG
*
1486833 TCAACCCTTCATC-CCTTGTTTACCT
1 TCAA-CCTTCATCTCATTGTTTACCT
1486858 TTCAACTTAG
Statistics
Matches: 570, Mismatches: 114, Indels: 41
0.79 0.16 0.06
Matches are distributed among these distances:
167 8 0.01
168 63 0.11
169 60 0.11
170 343 0.60
171 94 0.16
172 2 0.00
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.35
Consensus pattern (170 bp):
TCAACCTTCATCTCATTGTTTACCTATCGGCTCAGTCCTCAGTAAACCCATTACCCCTATGGTGA
CCTATCAGCTCAGTCTTCGGTCAACCTTTATCTCATTGTTTACTTGTCAACTCAGTCCCCGATAA
ACCCATTACCCCTATGGTGACCTGTCAGCTCAGTCTCTGG
Found at i:1486447 original size:42 final size:41
Alignment explanation
Indices: 1486315--1486531 Score: 132
Period size: 42 Copynumber: 5.1 Consensus size: 41
1486305 CCAATCAACC
**
1486315 CAGTCTCTGGTCAACCGTCATCTTATTGTTTACCTGTCAGCT
1 CAGTCTCTGGTCAACC-TCATCTCCTTGTTTACCTGTCAGCT
** * * * * *
1486357 CAGTCTCCAGT-AAACTCATTACCCCTATGGTGACCTGTCAACT
1 CAGTCTCTGGTCAACCTCA-T-CTCCT-TGTTTACCTGTCAGCT
*
1486400 CAGTCTCTGGTCAACCTTCATCTCCTTGTTTACTTGTCAGCT
1 CAGTCTCTGGTCAACC-TCATCTCCTTGTTTACCTGTCAGCT
* * * * * * *
1486442 TAGTCTCTAGTAAACCCCTTACT-CTTGTGGTGACCTGTTAGCT
1 CAGTCTCTGGTCAACCTCAT-CTCCTTGT--TTACCTGTCAGCT
* * * * * *
1486485 CAGTCTCTAGTCAACCTTCATTTTCTTGTTCACCTATCGGCT
1 CAGTCTCTGGTCAACC-TCATCTCCTTGTTTACCTGTCAGCT
1486527 CAGTC
1 CAGTC
1486532 CTCAATAAAC
Statistics
Matches: 131, Mismatches: 34, Indels: 20
0.71 0.18 0.11
Matches are distributed among these distances:
40 3 0.02
41 11 0.08
42 52 0.40
43 51 0.39
44 11 0.08
45 3 0.02
ACGTcount: A:0.18, C:0.30, G:0.15, T:0.36
Consensus pattern (41 bp):
CAGTCTCTGGTCAACCTCATCTCCTTGTTTACCTGTCAGCT
Found at i:1486475 original size:255 final size:252
Alignment explanation
Indices: 1485984--1486940 Score: 833
Period size: 255 Copynumber: 3.8 Consensus size: 252
1485974 TGTTTACTTA
* * * * * *
1485984 TCAACCTTCATCTCATTATTTACCTATCGGCTCAGTCTTCGGTAAATCTATTACCTCTATGGTGA
1 TCAACCTTCATCTCATTGTTTACCTATCGGCTCAGTCCTCGATAAACCCATTACCCCTATGGTGA
* ** * *
1486049 CCTGTCAGCTCAGTCTCCAGTCAACCTTTTATCTCATTGTTTACCTATC-GACTCAATCCCTGGT
66 CCTATCAGCTCAGTCTCTGGTCAACC-TTTATCTCATTGTTTACCTGTCAG-CTCAGTCCC-GGT
* *
1486113 AAACCCATTACCCATATAGTGACCTGTCAGCTCAGTCTTTGGTCAACCATT-ATCTCATTGTTTA
128 AAACCCATTACCCCTATGGTGACCTGTCAGCTCAGTC-TTGGTCAACC-TTCATCTCATTGTTTA
* * ** * * * *
1486177 CCTATTGGCTCAGTCCTCAGTAAATCCATTACCCCTATGGTGACCTATCAGCTCAGTCTTCGG
191 CTTGTCAGCTTAGTCCT-AGTAAACCCATTACACCTATGGTGACCTATTAGCTCAGTCTTCGG
* * * * *
1486240 TCAACCTTTATCTCATTGTTTACCTGTCGGCTTAGTCCCCGATAAACCCATTACCCCTATGGCGA
1 TCAACCTTCATCTCATTGTTTACCTATCGGCTCAGTCCTCGATAAACCCATTACCCCTATGGTGA
* * * * * * *
1486305 CCAATCAACCCAGTCTCTGGTCAACCGTCATCTTATTGTTTACCTGTCAGCTCAGTCTCCAGTAA
66 CCTATCAGCTCAGTCTCTGGTCAACCTTTATCTCATTGTTTACCTGTCAGCTCAGTC-CCGGTAA
* * *
1486370 ACTCATTACCCCTATGGTGACCTGTCAACTCAGTCTCTGGTCAACCTTCATCTCCTTGTTTACTT
130 ACCCATTACCCCTATGGTGACCTGTCAGCTCAGTCT-TGGTCAACCTTCATCTCATTGTTTACTT
* * * * * *
1486435 GTCAGCTTAGTCTCTAGTAAACCCCTTACTCTTGTGGTGACCTGTTAGCTCAGTC-TCTAG
194 GTCAGCTTAGTC-CTAGTAAACCCATTACACCTATGGTGACCTATTAGCTCAGTCTTC-GG
* * * * * *
1486495 TCAACCTTCATTTTC-TTGTTCACCTATCGGCTCAGTCCTCAATAAACCCCTTATCCCT-TCAGT
1 TCAACCTTCA-TCTCATTGTTTACCTATCGGCTCAGTCCTCGATAAACCCATTACCCCTAT-GGT
* * * * *
1486558 GACCTATCGGCTTAGTC-CTCGGTCAACCCTTTATC-CCTTGTTTACTTGTCAACTCAGTCCCCG
64 GACCTATCAGCTCAGTCTCT-GGTCAA-CCTTTATCTCATTGTTTACCTGTCAGCTCAGT-CCCG
* * * * *
1486621 GTAAACCCCTTACACCTATGGTGACTTGTCAGCTCAGTCTTCGGTTAACTTTCATCTCATTGTTT
126 GTAAACCCATTACCCCTATGGTGACCTGTCAGCTCAGTCTT-GGTCAACCTTCATCTCATTGTTT
* * *
1486686 ACTTGTCAGCTTAGTCCAAGTAAACCCTTTACACCTATGGTGACCTATTAGCTCAATCTTCGG
190 ACTTGTCAGCTTAGTCCTAGTAAACCCATTACACCTATGGTGACCTATTAGCTCAGTCTTCGG
* * * * * * * * * *
1486749 TGAA-CTTTATCTCATCGTTTACTTGTCAGCTCAATCCTTGATAAACCCCTTATCCCCT-CGGTG
1 TCAACCTTCATCTCATTGTTTACCTATCGGCTCAGTCCTCGATAAACCCATTA-CCCCTATGGTG
* * * * * * * *
1486812 ACCTATCGGCTTAGT-TCGCGGTCAACCCTTCATC-CCTTGTTTACCTTTCAACTTAGTCCCGGG
65 ACCTATCAGCTCAGTCTC-TGGTCAA-CCTTTATCTCATTGTTTACCTGTCAGCTCAGTCCC-GG
* * ** * * * *
1486875 TAAAACCC-TTACCCTTTTAATGACCTGTTAG-TATAGTCTCCGGTCAACCTCCATCTCATTGTT
127 T-AAACCCATTACCCCTATGGTGACCTGTCAGCT-CAGTCT-TGGTCAACCTTCATCTCATTGTT
1486938 TAC
189 TAC
1486941 CCGTCGGCCC
Statistics
Matches: 569, Mismatches: 111, Indels: 45
0.78 0.15 0.06
Matches are distributed among these distances:
252 7 0.01
253 133 0.23
254 58 0.10
255 282 0.50
256 89 0.16
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.35
Consensus pattern (252 bp):
TCAACCTTCATCTCATTGTTTACCTATCGGCTCAGTCCTCGATAAACCCATTACCCCTATGGTGA
CCTATCAGCTCAGTCTCTGGTCAACCTTTATCTCATTGTTTACCTGTCAGCTCAGTCCCGGTAAA
CCCATTACCCCTATGGTGACCTGTCAGCTCAGTCTTGGTCAACCTTCATCTCATTGTTTACTTGT
CAGCTTAGTCCTAGTAAACCCATTACACCTATGGTGACCTATTAGCTCAGTCTTCGG
Found at i:1486491 original size:43 final size:43
Alignment explanation
Indices: 1486346--1486500 Score: 129
Period size: 43 Copynumber: 3.6 Consensus size: 43
1486336 CTTATTGTTT
* * * * * *
1486346 ACCTGTCAGCTCAGTCTCCAGTAAACTCATTACCCCTATGGTG
1 ACCTGTCAGCTCAGTCTCTAGTAAACCCCTTACTCTTGTGGTG
* * * *
1486389 ACCTGTCAACTCAGTCTCTGGTCAA--CCTTCATCTCCTTGT--TT
1 ACCTGTCAGCTCAGTCTCTAGTAAACCCCTT-A-CT-CTTGTGGTG
* *
1486431 ACTTGTCAGCTTAGTCTCTAGTAAACCCCTTACTCTTGTGGTG
1 ACCTGTCAGCTCAGTCTCTAGTAAACCCCTTACTCTTGTGGTG
* *
1486474 ACCTGTTAGCTCAGTCTCTAGTCAACC
1 ACCTGTCAGCTCAGTCTCTAGTAAACC
1486501 TTCATTTTCT
Statistics
Matches: 86, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
41 8 0.09
42 24 0.28
43 47 0.55
44 7 0.08
ACGTcount: A:0.20, C:0.31, G:0.15, T:0.34
Consensus pattern (43 bp):
ACCTGTCAGCTCAGTCTCTAGTAAACCCCTTACTCTTGTGGTG
Found at i:1486628 original size:42 final size:43
Alignment explanation
Indices: 1486571--1486721 Score: 116
Period size: 42 Copynumber: 3.6 Consensus size: 43
1486561 CTATCGGCTT
* * *
1486571 AGTCCTCGGTCAACCCTTTATC-CCTTGTTTACTTGTCAACTC
1 AGTCCCCGGTAAACCCTTTATCACCTTGTTTACTTGTCAGCTC
* * *
1486613 AGTCCCCGGTAAACCCCTTA-CACCTATGGTGACTTGTCAGCTC
1 AGTCCCCGGTAAACCCTTTATCACCT-TGTTTACTTGTCAGCTC
** * * * *
1486656 AGTCTTCGGTTAA--CTTTCATCTCATTGTTTACTTGTCAGCTT
1 AGTCCCCGGTAAACCCTTT-ATCACCTTGTTTACTTGTCAGCTC
**
1486698 AGT-CCAAGTAAACCCTTTA-CACCT
1 AGTCCCCGGTAAACCCTTTATCACCT
1486722 ATGGTGACCT
Statistics
Matches: 81, Mismatches: 22, Indels: 13
0.70 0.19 0.11
Matches are distributed among these distances:
41 11 0.14
42 39 0.48
43 31 0.38
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.35
Consensus pattern (43 bp):
AGTCCCCGGTAAACCCTTTATCACCTTGTTTACTTGTCAGCTC
Found at i:1486932 original size:253 final size:255
Alignment explanation
Indices: 1486340--1486940 Score: 660
Period size: 253 Copynumber: 2.4 Consensus size: 255
1486330 CGTCATCTTA
* * * * * * ** *
1486340 TTGTTTACCTGTCAGCTCAGTCTCCAGT-AAACTCATTACCCCTATGGTGACCTGTCAACTCAGT
1 TTGTTTACTTGTCAACTCAGTCCCCGGTAAAAC-CCTTACACCTATAATGACCTGTCAGCTCAGT
* * * * * *
1486404 CTCTGGTCAACCTTCATCTCCTTGTTTACTTGTCAGCTTAGTCTCTAGTAAACCCCTTACTCTTG
65 CTCCGGTCAACCTTCATCTCATTGTTTACTTGTCAGCTTAGTCTCAAGTAAACCCCTTACACCTA
* * * * * *
1486469 TGGTGACCTGTTAGCTCAGTCTCTAGTCAACCTTCATTTTCTTGTTCACCTATCGGCTCAGTCCT
130 TGGTGACCTATTAGCTCAATCTCTAGTCAACCTTCATTCTCTCGTTCACCTATCAGCTCAATCCT
* * *
1486534 CAATAAACCCCTTATCCCTTCAGTGACCTATCGGCTTAGTCCTCGGTCAACCCTTTATCCC
195 CAATAAACCCCTTATCCCCTCAGTGACCTATCGGCTTAGTCCGCGGTCAACCCTTCATCCC
* ** *
1486595 TTGTTTACTTGTCAACTCAGTCCCCGGTAAACCCCTTACACCTATGGTGACTTGTCAGCTCAGTC
1 TTGTTTACTTGTCAACTCAGTCCCCGGTAAAACCCTTACACCTATAATGACCTGTCAGCTCAGTC
* * * *
1486660 TTCGGTTAACTTTCATCTCATTGTTTACTTGTCAGCTTAGTC-CAAGTAAACCCTTTACACCTAT
66 TCCGGTCAACCTTCATCTCATTGTTTACTTGTCAGCTTAGTCTCAAGTAAACCCCTTACACCTAT
* * * * * *
1486724 GGTGACCTATTAGCTCAATCT-TCGGTGAA-CTTTA-TCTCATCGTTTACTTGTCAGCTCAATCC
131 GGTGACCTATTAGCTCAATCTCT-AGTCAACCTTCATTCTC-TCGTTCACCTATCAGCTCAATCC
** * *
1486786 TTGATAAACCCCTTATCCCCTCGGTGACCTATCGGCTTAGTTCGCGGTCAACCCTTCATCCC
194 TCAATAAACCCCTTATCCCCTCAGTGACCTATCGGCTTAGTCCGCGGTCAACCCTTCATCCC
* * * * *
1486848 TTGTTTACCTT-TCAACTTAGTCCCGGGTAAAACCCTTAC-CCTTTTAATGACCTGTTAG-TATA
1 TTGTTTA-CTTGTCAACTCAGTCCCCGGTAAAACCCTTACACC-TATAATGACCTGTCAGCT-CA
*
1486910 GTCTCCGGTCAACCTCCATCTCATTGTTTAC
63 GTCTCCGGTCAACCTTCATCTCATTGTTTAC
1486941 CCGTCGGCCC
Statistics
Matches: 289, Mismatches: 51, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
252 6 0.02
253 148 0.51
254 43 0.15
255 89 0.31
256 3 0.01
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.35
Consensus pattern (255 bp):
TTGTTTACTTGTCAACTCAGTCCCCGGTAAAACCCTTACACCTATAATGACCTGTCAGCTCAGTC
TCCGGTCAACCTTCATCTCATTGTTTACTTGTCAGCTTAGTCTCAAGTAAACCCCTTACACCTAT
GGTGACCTATTAGCTCAATCTCTAGTCAACCTTCATTCTCTCGTTCACCTATCAGCTCAATCCTC
AATAAACCCCTTATCCCCTCAGTGACCTATCGGCTTAGTCCGCGGTCAACCCTTCATCCC
Found at i:1488386 original size:155 final size:155
Alignment explanation
Indices: 1488205--1488518 Score: 456
Period size: 156 Copynumber: 2.0 Consensus size: 155
1488195 TTTCATGAGT
*
1488205 TTTTTCATTTTTCTTTAAAAAGCTCTTATTTTCAAAATAC-AGAGTTTTCTGCTCCACAAATTTG
1 TTTTTCATTTTTCTTTAAAAAGCTCTTATTTTCAAAATACGA-AGTTTTCTACTCCACAAATTT-
*
1488269 TTTAGG-GGGA-TTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATCATTTAATTCATA
64 TTTAGGAGGAAGTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATCATTTAATTCATA
1488332 GTAAATCAGTTTT-CAAAAATTCATTCA
129 GTAAAT-AGTTTTACAAAAATTCATTCA
* * * * *
1488359 TTTTTCATTTTTTCTTTGAAAATCTCTTATTTTTAAAATACGAAGTTTTTTACTCCATAAATTTT
1 TTTTTCA-TTTTTCTTTAAAAAGCTCTTATTTTCAAAATACGAAGTTTTCTACTCCACAAATTTT
* * *
1488424 TTCGGAGGAAGTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATTATTTAATTCATAT
65 TTAGGAGGAAGTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATCATTTAATTCATAG
* *
1488489 TAAATTGTTTTACAAAAATTCATTTA
130 TAAATAGTTTTACAAAAATTCATTCA
1488515 TTTT
1 TTTT
1488519 CATAAAGTTT
Statistics
Matches: 143, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
154 12 0.08
155 56 0.39
156 75 0.52
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.50
Consensus pattern (155 bp):
TTTTTCATTTTTCTTTAAAAAGCTCTTATTTTCAAAATACGAAGTTTTCTACTCCACAAATTTTT
TAGGAGGAAGTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATCATTTAATTCATAGT
AAATAGTTTTACAAAAATTCATTCA
Found at i:1488493 original size:156 final size:153
Alignment explanation
Indices: 1488205--1488684 Score: 484
Period size: 167 Copynumber: 3.0 Consensus size: 153
1488195 TTTCATGAGT
* * * * *
1488205 TTTTTCA-TTTTTCTTTAAAAAGCTCTTATTTTCAAAATAC-AGAGTTTTCTGCTCCACAAATTT
1 TTTTTCATTTTTTCTTTGAAAATCTCTTATTTTTAAAATACGA-AGTTTTCTACTCCATAAATTT
* * *
1488268 GTTTAGGGGGATTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATCATTTAATTCATAG
65 -TTTCGGAGGATTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATCATTTAATTCATAT
1488333 TAAATCAGTTTTCAAAAATTCATTCA
129 TAAAT-AGTTTTCAAAAATTCATTCA
*
1488359 TTTTTCATTTTTTCTTTGAAAATCTCTTATTTTTAAAATACGAAGTTTTTTACTCCATAAATTTT
1 TTTTTCATTTTTTCTTTGAAAATCTCTTATTTTTAAAATACGAAGTTTTCTACTCCATAAATTTT
*
1488424 TTCGGAGGAAGTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATTATTTAATTCATAT
66 TTCGGAGG-A-TTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATCATTTAATTCATAT
*
1488489 TAAATTGTTTTACAAAAATTCATTTATTTTCATAAA
129 TAAATAGTTTT-CAAAAATTC----A--TTC----A
* * * * **
1488525 GTTTTTAATTTTTT-TATTGAAATTC-CATTGTTTTTAAAATACGGAGTTTTCTACTCTGTAAAT
1 -TTTTTCATTTTTTCT-TTGAAAATCTC-TTATTTTTAAAATACGAAGTTTTCTACTCCATAAAT
* * * * * * * *
1488588 GTTTTCAAGAGGATTTTTCTTGGTTTTTGATTTTCAAAACTCATCAAATATTGTCATTTGATT-A
63 TTTTTC-GGAGGA-TTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATCATTTAATTCA
* *
1488652 TATTAAATTAGTTTTAAAAAATTAATTCA
126 TATTAAA-TAGTTTTCAAAAATTCATTCA
1488681 TTTT
1 TTTT
1488685 CATAAGTTTT
Statistics
Matches: 275, Mismatches: 31, Indels: 39
0.80 0.09 0.11
Matches are distributed among these distances:
154 14 0.05
155 58 0.21
156 68 0.25
160 4 0.01
162 4 0.01
166 18 0.07
167 105 0.38
168 4 0.01
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.50
Consensus pattern (153 bp):
TTTTTCATTTTTTCTTTGAAAATCTCTTATTTTTAAAATACGAAGTTTTCTACTCCATAAATTTT
TTCGGAGGATTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATCATTTAATTCATATTA
AATAGTTTTCAAAAATTCATTCA
Found at i:1488805 original size:165 final size:167
Alignment explanation
Indices: 1488388--1488813 Score: 433
Period size: 165 Copynumber: 2.6 Consensus size: 167
1488378 AAATCTCTTA
* * *
1488388 TTTTTAAAATACGAAGTTTTT-TACTCCATAAATTTTT-TCGGAGGAAGTTTTCTTGGTTTTTAA
1 TTTTCAAAATACGGA-TTTTTCTACTCCATAAATTTTTCTAGGAGGAA-TTTTCTTGGTTTTTAA
* * * *
1488451 TTTTTAAAATTCATAAAATATTATTATTTAATTCATATTAAATTGTTTTACAAAAATTCATTTAT
64 TTTTTAAAATTCATCAAATATTGTTATTTAATTCATATTAAATTGTTTTACAAAAATTAATTCAT
* *
1488516 TTTCATAAAGTTTTTAATTTTTTTATTGAAATTCCATTG
129 TTTCATAAAGTTTTGAATTTTTTTATTGAAATGCCATTG
* * ** * * *
1488555 TTTTTAAAATACGGAGTTTTCTACTCTGTAAATGTTTTC-AAGAGGATTTTTCTTGGTTTTTGAT
1 TTTTCAAAATACGGATTTTTCTACTCCATAAAT-TTTTCTAGGAGGAATTTTCTTGGTTTTTAAT
* * * *
1488619 TTTCAAAACTCATCAAATATTGTCATTTGATT-ATATTAAATTAGTTTTA-AAAAATTAATTCAT
65 TTTTAAAATTCATCAAATATTGTTATTTAATTCATATTAAATT-GTTTTACAAAAATTAATTCAT
* *
1488682 TTTCAT-AAGTTTTGGATTTTTTCT-TTGAAATGCCCTT-
129 TTTCATAAAGTTTTGAATTTTTT-TATTGAAATGCCATTG
* * * * * *
1488719 TTTCTCGAAA-A-GTTATTTTTTCTACTCCATAAATTTTTCTGGGA-GAATTTTCTTCGATTTAA
1 TTT-TCAAAATACG-GA-TTTTTCTACTCCATAAATTTTTCTAGGAGGAATTTTCTTGGTTTTTA
*
1488781 AGTTTTTAAAATTCATCTAATATTGTTATTTAA
63 A-TTTTTAAAATTCATCAAATATTGTTATTTAA
1488814 CTCCCATTAA
Statistics
Matches: 211, Mismatches: 38, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
163 1 0.00
164 24 0.11
165 72 0.34
166 33 0.16
167 72 0.34
168 9 0.04
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.50
Consensus pattern (167 bp):
TTTTCAAAATACGGATTTTTCTACTCCATAAATTTTTCTAGGAGGAATTTTCTTGGTTTTTAATT
TTTAAAATTCATCAAATATTGTTATTTAATTCATATTAAATTGTTTTACAAAAATTAATTCATTT
TCATAAAGTTTTGAATTTTTTTATTGAAATGCCATTG
Found at i:1489213 original size:21 final size:19
Alignment explanation
Indices: 1489189--1489228 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 19
1489179 GAAAAAAGAT
1489189 GAGAGAAAAAAGAAAGAAAAA
1 GAGAGAAAAAA-AAA-AAAAA
1489210 GAGAGAAGAAAAAAAAAAA
1 GAGAGAA-AAAAAAAAAAA
1489229 CTAGGAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (19 bp):
GAGAGAAAAAAAAAAAAAA
Found at i:1489223 original size:14 final size:13
Alignment explanation
Indices: 1489181--1489222 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
1489171 GTTTAGTTGA
1489181 AAAAAGATGAG-AG
1 AAAAAGA-GAGAAG
1489194 AAAAA-AGA-AAG
1 AAAAAGAGAGAAG
1489205 AAAAAGAGAGAAG
1 AAAAAGAGAGAAG
1489218 AAAAA
1 AAAAA
1489223 AAAAAACTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 9 0.35
12 4 0.15
13 13 0.50
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (13 bp):
AAAAAGAGAGAAG
Found at i:1491017 original size:155 final size:155
Alignment explanation
Indices: 1490730--1491017 Score: 368
Period size: 155 Copynumber: 1.9 Consensus size: 155
1490720 TATCCCTTAT
* *
1490730 GGGTATTTTCGTAATTTTTTAGAATCGAGTCTTAAGTTGTCACCGGGTCTGCTTTTATGCCAACA
1 GGGTATTTTCGTAATTTTTTAAAATCGAGTCTTAAGTTGTCACCGGGTCCGCTTTTATGCCAACA
* * * * * * * *
1490795 GTGGGCATTTTGGATAGGTTCATCCCATCTCTAATCTTTTTTAGTTTTTTAGAGTTATCGAGATA
66 ATGGGCATTTAGGATAGGTTAATCCCATCTCTAATCTTTTTAAGTCTTTAAGAGGTATCAAGATA
1490860 CTTTGATGCCGAAAGTATCTCCTAG
131 CTTTGATGCCGAAAGTATCTCCTAG
* * * *
1490885 GGGTATTTTTGTAATTTTTTAAAATCGAGTCTTAGGTTGTCATCGGGTCCGCTTTTATGCGGAA-
1 GGGTATTTTCGTAATTTTTTAAAATCGAGTCTTAAGTTGTCACCGGGTCCGCTTTTATGC-CAAC
* *
1490949 AATGGGTATTTAGGATAGGTTAATCCCATTTAC-AATCCTTTTTAAGCTCTTTAAG-GGTATCAA
65 AATGGGCATTTAGGATAGGTTAATCCCATCT-CTAAT-CTTTTTAAG-TCTTTAAGAGGTATCAA
1491012 G-TACTT
127 GATACTT
1491018 CTACATCGAA
Statistics
Matches: 113, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
155 89 0.79
156 18 0.16
157 6 0.05
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (155 bp):
GGGTATTTTCGTAATTTTTTAAAATCGAGTCTTAAGTTGTCACCGGGTCCGCTTTTATGCCAACA
ATGGGCATTTAGGATAGGTTAATCCCATCTCTAATCTTTTTAAGTCTTTAAGAGGTATCAAGATA
CTTTGATGCCGAAAGTATCTCCTAG
Found at i:1492238 original size:32 final size:33
Alignment explanation
Indices: 1492190--1492280 Score: 89
Period size: 32 Copynumber: 2.8 Consensus size: 33
1492180 CAACACTATC
*
1492190 TTTC-AAGGCTACGATAGAAACCTCCCTATCT-
1 TTTCAAAGGCTAAGATAGAAACCTCCCTATCTA
** *
1492221 TTTCACGGGCTAAGATAGAACTTCTCTCCCTATCTA
1 TTTCAAAGGCTAAGATAGAA--AC-CTCCCTATCTA
*
1492257 TTTCAAAGGCTAATATAG-AACCTC
1 TTTCAAAGGCTAAGATAGAAACCTC
1492281 TCAATCACTT
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
31 4 0.09
32 15 0.32
33 1 0.02
34 1 0.02
35 11 0.23
36 15 0.32
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (33 bp):
TTTCAAAGGCTAAGATAGAAACCTCCCTATCTA
Found at i:1492268 original size:36 final size:35
Alignment explanation
Indices: 1492211--1492282 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 35
1492201 CGATAGAAAC
** *
1492211 CTCCCTATCTTTTCACGGGCTAAGATAGAACTTCT
1 CTCCCTATCTTTTCAAAGGCTAAGATAGAACCTCT
*
1492246 CTCCCTATCTATTTCAAAGGCTAATATAGAACCTCT
1 CTCCCTATCT-TTTCAAAGGCTAAGATAGAACCTCT
1492282 C
1 C
1492283 AATCACTTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 10 0.31
36 22 0.69
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.33
Consensus pattern (35 bp):
CTCCCTATCTTTTCAAAGGCTAAGATAGAACCTCT
Found at i:1495195 original size:65 final size:66
Alignment explanation
Indices: 1495090--1495227 Score: 174
Period size: 65 Copynumber: 2.1 Consensus size: 66
1495080 CAAAACTGAC
* *
1495090 AAGTCAATAAAGGATGACTAAGGCGAAACCTAAATCGAAAAGA-AGTTTACCAGGGC-AAACCAA
1 AAGTCAATAAAGAATGACTAAGGCGAAACCTAAATCGAAAAGAGA-TTTACCAGGACAAAACCAA
1495153 TA
65 TA
* * * * *
1495155 AAGTCAATTAAA-AATGACTAGGGTGAAACCTAATTTGAAAAGAGATTTACCAGGACAAAACTAA
1 AAGTCAA-TAAAGAATGACTAAGGCGAAACCTAAATCGAAAAGAGATTTACCAGGACAAAACCAA
1495219 TA
65 TA
1495221 AAGTCAA
1 AAGTCAA
1495228 CAAGTTTAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
65 43 0.68
66 20 0.32
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (66 bp):
AAGTCAATAAAGAATGACTAAGGCGAAACCTAAATCGAAAAGAGATTTACCAGGACAAAACCAAT
A
Found at i:1495475 original size:171 final size:169
Alignment explanation
Indices: 1495033--1495676 Score: 584
Period size: 171 Copynumber: 3.8 Consensus size: 169
1495023 CTAAAAGTGA
* * * * *
1495033 CTAGGGTGAAACCAATAAAGTTAATGAGTTTAAGGGGTTAATCGGGACAAAACTGACAAGTCAAT
1 CTAGGGTAAAACCAATAAAGTCAATGAGTTTAAGGGGTTAACCAGGACAAAACTGACAAGTCAAA
* * * *
1495098 AAAGGATGACTAAGGCGAAACCTAAATCGAAAAGAAGTTTACCAGGG-CAAACCAATAAAGTCAA
66 AAAGG-TGACTAAGG-AAAACCTAAGTCGAAAAGAAGTTAACCAGGGTAAAACCAATAAAGTCAA
* * *
1495162 TTAAAAA-TGACTAGGGTGAAACCTAATTTGAAAAGAGATT-T
129 -CAAAAAGTGACTAGGGTGAAACCT-AGTTGAAAAGAGGTTGT
* ** * ** * * * * *
1495203 ACCAGGACAAAACTAATAAAGTCAACAAGTTTAAAGGGTTGATCAGGATAAAACCT-ACATGTCA
1 -CTAGGGTAAAACCAATAAAGTCAATGAGTTTAAGGGGTTAACCAGGACAAAA-CTGACAAGTCA
* * *
1495267 ATAAAGGGTGATTAAGGAAAAACCTAAGTCGAAAAGAAGTTAACTAGGGTAAAACCAATAAAGTC
64 A-AAAAGGTGACTAAGG-AAAACCTAAGTCGAAAAGAAGTTAACCAGGGTAAAACCAATAAAGTC
* *
1495332 AACAAAAAGTGACTAGGGTGAAACCTGAGTTGTATAGAGGTTGT
127 AACAAAAAGTGACTAGGGTGAAACCT-AGTTGAAAAGAGGTTGT
* * * * * *
1495376 CTAGGGCT-AAACCAATAAAATTAATGGGTTTAAGGGGTTAACCAAGACAAAATTGATAAGTCAA
1 CTAGGG-TAAAACCAATAAAGTCAATGAGTTTAAGGGGTTAACCAGGACAAAACTGACAAGTCAA
* *
1495440 CAAAAGG-GACTAAGGAAAAGCCTAAGTCAAAAAGAAGTTGACCAGGGTAAAACCAATAAAGTCA
65 -AAAAGGTGACTAAGGAAAA-CCTAAGTCGAAAAGAAGTTAACCAGGGTAAAACCAATAAAGTCA
** ** *
1495504 ACTGAAAGTGACTAAAGTGAAACCTAGGTTGAAAAGAGGTTGA
128 ACAAAAAGTGACTAGGGTGAAACCTA-GTTGAAAAGAGGTTGT
* * * * * * *
1495547 CTAAGGTAAAACCAACAAAGTCAATGAGTTTAAGAGGTTAACCGGGATAAAACTAACAAGTTAAC
1 CTAGGGTAAAACCAATAAAGTCAATGAGTTTAAGGGGTTAACCAGGACAAAACTGACAAGTCAA-
* * * * * * *
1495612 AAAAGGTGAC-CACGATAGAACCTATGT-TAAAACGAATTTGACCAGGGTGAAACCAATAAAGTC
65 AAAAGGTGACTAAGGA-A-AACCTAAGTCGAAAA-GAAGTTAACCAGGGTAAAACCAATAAAGTC
1495675 AA
127 AA
1495677 TATGTTTTAA
Statistics
Matches: 382, Mismatches: 77, Indels: 27
0.79 0.16 0.06
Matches are distributed among these distances:
170 6 0.02
171 234 0.61
172 139 0.36
173 3 0.01
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.20
Consensus pattern (169 bp):
CTAGGGTAAAACCAATAAAGTCAATGAGTTTAAGGGGTTAACCAGGACAAAACTGACAAGTCAAA
AAAGGTGACTAAGGAAAACCTAAGTCGAAAAGAAGTTAACCAGGGTAAAACCAATAAAGTCAACA
AAAAGTGACTAGGGTGAAACCTAGTTGAAAAGAGGTTGT
Found at i:1495667 original size:343 final size:342
Alignment explanation
Indices: 1495033--1495676 Score: 737
Period size: 343 Copynumber: 1.9 Consensus size: 342
1495023 CTAAAAGTGA
* * ** *
1495033 CTAGGGTGAAACCAATAAAGTTAATGAGTTTAAGGGGTTAATCGGGACAAAACTGACAAGTCAAT
1 CTAGGGTGAAACCAATAAAATTAATGAGTTTAAGGGGTTAACCAAGACAAAACTGACAAGTCAAA
* * * * *
1495098 AAAGGATGACTAAGGCGAAACCTAAATCGAAAAGAAGTTTACCAGGGCAAACCAATAAAGTCAAT
66 AAAGGA-GACTAAGGCAAAACCTAAATCAAAAAGAAGTTGACCAGGGAAAACCAATAAAGTCAAC
** * * * * *
1495163 TAAAAATGACTAGGGTGAAACCTAATTTGAAAAGAGATTTACCAGGACAAAACTAATAAAGTCAA
130 TAAAAATGACTAAAGTGAAACCTAAGTTGAAAAGAGATTGACAAGGACAAAACCAACAAAGTCAA
* * * * * * *
1495228 CAAGTTTAAAGGGTTGATCAGGATAAAACCTACATGTCAATAAAGGGTGATTAAGGAAAAACCTA
195 CAAGTTTAAAGGGTTAACCAGGATAAAACCTACAAGTCAACAAAAGGTGATCAACGAAAAACCTA
*
1495293 AGTCGAAAAGAAGTTAACTAGGGTAAAACCAATAAAGTCAACAAAAAGTGACTAGGGTGAAACCT
260 AGTCGAAAAGAAGTTAACCAGGGTAAAACCAATAAAGTCAACAAAAAGTGACTAGGGTGAAACCT
1495358 GAGTTGTATAGAGGTTGT
325 GAGTTGTATAGAGGTTGT
* * *
1495376 CTAGGGCT-AAACCAATAAAATTAATGGGTTTAAGGGGTTAACCAAGACAAAATTGATAAGTCAA
1 CTAGGG-TGAAACCAATAAAATTAATGAGTTTAAGGGGTTAACCAAGACAAAACTGACAAGTCAA
*
1495440 CAAAAGG-GACTAAGG-AAAAGCCTAAGTCAAAAAGAAGTTGACCAGGGTAAAACCAATAAAGTC
65 -AAAAGGAGACTAAGGCAAAA-CCTAAATCAAAAAGAAGTTGACCAGGG-AAAACCAATAAAGTC
* * * * *
1495503 AACTGAAAGTGACTAAAGTGAAACCTAGGTTGAAAAGAGGTTGACTAAGG-TAAAACCAACAAAG
127 AACTAAAAATGACTAAAGTGAAACCTAAGTTGAAAAGAGATTGAC-AAGGACAAAACCAACAAAG
** * * *
1495567 TCAATGAGTTT-AAGAGGTTAACCGGGATAAAA-CTAACAAGTTAACAAAAGGTGA-CCACGATA
191 TCAACAAGTTTAAAG-GGTTAACCAGGATAAAACCT-ACAAGTCAACAAAAGGTGATCAACGA-A
* * * * * *
1495629 GAACCTATGT-TAAAACGAATTTGACCAGGGTGAAACCAATAAAGTCAA
253 AAACCTAAGTCGAAAA-GAAGTTAACCAGGGTAAAACCAATAAAGTCAA
1495677 TATGTTTTAA
Statistics
Matches: 247, Mismatches: 45, Indels: 18
0.80 0.15 0.06
Matches are distributed among these distances:
341 3 0.01
342 44 0.18
343 191 0.77
344 9 0.04
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.20
Consensus pattern (342 bp):
CTAGGGTGAAACCAATAAAATTAATGAGTTTAAGGGGTTAACCAAGACAAAACTGACAAGTCAAA
AAAGGAGACTAAGGCAAAACCTAAATCAAAAAGAAGTTGACCAGGGAAAACCAATAAAGTCAACT
AAAAATGACTAAAGTGAAACCTAAGTTGAAAAGAGATTGACAAGGACAAAACCAACAAAGTCAAC
AAGTTTAAAGGGTTAACCAGGATAAAACCTACAAGTCAACAAAAGGTGATCAACGAAAAACCTAA
GTCGAAAAGAAGTTAACCAGGGTAAAACCAATAAAGTCAACAAAAAGTGACTAGGGTGAAACCTG
AGTTGTATAGAGGTTGT
Found at i:1495843 original size:40 final size:41
Alignment explanation
Indices: 1495790--1495976 Score: 195
Period size: 40 Copynumber: 4.7 Consensus size: 41
1495780 ACAAAACCAA
* *
1495790 CAAGTCAATAAGTTAAAAAGGTTGAGTGGGATGAAACTGAT
1 CAAGTTAACAAGTTAAAAAGGTTGAGTGGGATGAAACTGAT
1495831 C-AGTTAACAAGTTAAAAAGGTTGAGTGGGATGAAACTGA-
1 CAAGTTAACAAGTTAAAAAGGTTGAGTGGGATGAAACTGAT
* * * *
1495870 CAAGTTAACAAGTTAAAGAGGTTGATTGGGATGAAAC-CAA
1 CAAGTTAACAAGTTAAAAAGGTTGAGTGGGATGAAACTGAT
* * * **** *
1495910 CAAGTCAATAAGTTAAAAAGATTGACCAAGATGAAACTAAT
1 CAAGTTAACAAGTTAAAAAGGTTGAGTGGGATGAAACTGAT
*
1495951 -AA-TTCAACAAGTTAAAGAGGTTGAGT
1 CAAGTT-AACAAGTTAAAAAGGTTGAGT
1495977 AACATTTGAC
Statistics
Matches: 121, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.02
40 116 0.96
41 2 0.02
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.24
Consensus pattern (41 bp):
CAAGTTAACAAGTTAAAAAGGTTGAGTGGGATGAAACTGAT
Found at i:1495880 original size:120 final size:120
Alignment explanation
Indices: 1495756--1495976 Score: 275
Period size: 120 Copynumber: 1.8 Consensus size: 120
1495746 TCGACTAGTC
* ****
1495756 AACAAGTCAAAG-GGCATGACCGAGACAAAACCAACAAGTCAATAAGTTAAAAAGGTTGAGTGGG
1 AACAAGTCAAAGAGG-ATGACCGAGACAAAACCAACAAGTCAATAAGTTAAAAAGATTGACCAAG
* *
1495820 ATGAAACTGATCAGTT-AACAAGTTAAAAAGGTTGAGTGGGATGAAACTGACAAGTT
65 ATGAAACTAAT-AATTCAACAAGTTAAAAAGGTTGAGTGGGATGAAACTGACAAGTT
* * ** * **
1495876 AACAAGTTAAAGAGGTTGATTGGGATGAAACCAACAAGTCAATAAGTTAAAAAGATTGACCAAGA
1 AACAAGTCAAAGAGGATGACCGAGACAAAACCAACAAGTCAATAAGTTAAAAAGATTGACCAAGA
*
1495941 TGAAACTAATAATTCAACAAGTTAAAGAGGTTGAGT
66 TGAAACTAATAATTCAACAAGTTAAAAAGGTTGAGT
1495977 AACATTTGAC
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
119 3 0.04
120 79 0.94
121 2 0.02
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.21
Consensus pattern (120 bp):
AACAAGTCAAAGAGGATGACCGAGACAAAACCAACAAGTCAATAAGTTAAAAAGATTGACCAAGA
TGAAACTAATAATTCAACAAGTTAAAAAGGTTGAGTGGGATGAAACTGACAAGTT
Found at i:1496593 original size:76 final size:72
Alignment explanation
Indices: 1496473--1496757 Score: 206
Period size: 72 Copynumber: 3.9 Consensus size: 72
1496463 AATGAACACA
* * **
1496473 ATAGGAAATATGTGGTTTCTAAGATTTTTATCAACAGTTGAAACAAACTGATAACAAGCTGAAGG
1 ATAGGTAATATGTGGTTTCTAAAATTTTTATCAACAGTCAAAACAAACTGATAACAAGCT--A-G
*
1496538 AAAAGAATATG
63 AAAA-AAGATG
* * ** * *
1496549 ATGAGG-AATATGTGGTTTTTAAAATTTTTATCAACAGCCAAAACAAGTTGATAACAGGCTAGAC
1 AT-AGGTAATATGTGGTTTCTAAAATTTTTATCAACAGTCAAAACAAACTGATAACAAGCTAGAA
* *
1496613 AATAGCTG
65 AAAAGATG
* * *
1496621 ATAGGTAATATGTGGATTCTAAAATTTTCCTATCAACAGTCAAAACAAACT-AGTAATAATCTGG
1 ATAGGTAATATGTGGTTTCTAAAATTTT--TATCAACAGTCAAAACAAACTGA-TAACAAGCT--
**
1496685 AGAAACCA-ATG
61 AGAAAAAAGATG
** * *
1496696 --AGG-AATATGTAATTTCTAAAATTTTTCCATCAATAGTCAAAACAAATTGATAATC-AGCTAG
1 ATAGGTAATATGTGGTTTCTAAAATTTTT--ATCAACAGTCAAAACAAACTGATAA-CAAGCTAG
1496757 A
63 A
1496758 GGACAGCTAA
Statistics
Matches: 167, Mismatches: 31, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
70 4 0.02
71 3 0.02
72 68 0.41
73 9 0.05
74 25 0.15
75 2 0.01
76 53 0.32
77 3 0.02
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.29
Consensus pattern (72 bp):
ATAGGTAATATGTGGTTTCTAAAATTTTTATCAACAGTCAAAACAAACTGATAACAAGCTAGAAA
AAAGATG
Found at i:1496777 original size:146 final size:142
Alignment explanation
Indices: 1496549--1496815 Score: 315
Period size: 146 Copynumber: 1.9 Consensus size: 142
1496539 AAAGAATATG
** * *
1496549 ATGAGGAATATGTGGTTTTTAAAATTTTTATCAACAGCCAAAACAAGTTGATAACAGGCTAGACA
1 ATGAGGAATATGTAATTTCTAAAATTTTTATCAACAGCCAAAACAAATTGATAACAGGCTAGACA
* * * * *
1496614 ATAGCTGATAGGTAATATGTGGATTCTAAAATTTTCCTATCAACAG-TCAAAACAAACTAGTAAT
66 ACAGCTAATAGGGAATATATGGATTCTAAAA-TATCC-ATCAACAGAT-AAAACAAACTAGTAAT
1496678 AATCTGGAGAAACCA
128 AATCTGGAGAAACCA
* *
1496693 ATGAGGAATATGTAATTTCTAAAATTTTTCCATCAATAGTCAAAACAAATTGATAATCA-GCTAG
1 ATGAGGAATATGTAATTTCTAAAATTTTT--ATCAACAGCCAAAACAAATTGATAA-CAGGCTAG
** * *
1496757 AGGACAGCTAAT-GGAGAATATATGGGTTCTAAAATATCCATCAATAGATAAAACAAACT
63 ACAACAGCTAATAGG-GAATATATGGATTCTAAAATATCCATCAACAGATAAAACAAACT
1496816 GATAAGAGTA
Statistics
Matches: 103, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
144 43 0.42
145 7 0.07
146 51 0.50
147 2 0.02
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.28
Consensus pattern (142 bp):
ATGAGGAATATGTAATTTCTAAAATTTTTATCAACAGCCAAAACAAATTGATAACAGGCTAGACA
ACAGCTAATAGGGAATATATGGATTCTAAAATATCCATCAACAGATAAAACAAACTAGTAATAAT
CTGGAGAAACCA
Found at i:1497057 original size:60 final size:60
Alignment explanation
Indices: 1496978--1497153 Score: 185
Period size: 60 Copynumber: 2.9 Consensus size: 60
1496968 TGACTTCGGG
* * *
1496978 AAACTAAGACTCAACAAAATGGCCTAGATGAAACTAGAAACCTAAATAATGACTTAGGCAA
1 AAAC-AAGACTCAAAAAAATGGCCTAGATAAAACTAGAAACCTAAATAATGACTTAGGAAA
* * * * * *
1497039 AACCAA-AGCTCAAAAAAATGGCTTGGATAAAAC-CGAAAACCTAAACAATGACTTGGGAAA
1 AAACAAGA-CTCAAAAAAATGGCCTAGATAAAACTAG-AAACCTAAATAATGACTTAGGAAA
* ** * *
1497099 AAACGAGACTCAATGAAATAGCCTAGATAAAACTAGAAACTTAAATAATGACTTA
1 AAACAAGACTCAAAAAAATGGCCTAGATAAAACTAGAAACCTAAATAATGACTTA
1497154 AGTGAAACCA
Statistics
Matches: 91, Mismatches: 20, Indels: 9
0.76 0.17 0.08
Matches are distributed among these distances:
59 2 0.02
60 84 0.92
61 5 0.05
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.18
Consensus pattern (60 bp):
AAACAAGACTCAAAAAAATGGCCTAGATAAAACTAGAAACCTAAATAATGACTTAGGAAA
Found at i:1497094 original size:30 final size:28
Alignment explanation
Indices: 1497015--1497099 Score: 71
Period size: 30 Copynumber: 2.9 Consensus size: 28
1497005 ATGAAACTAG
*
1497015 AAACCTAAATAATGACTTAGGCAAAACCA
1 AAACCTAAAAAATGACTT-GGCAAAACCA
* * * *
1497044 AAGCTCAAAAAAATGGCTTGGATAAAACCGA
1 AAAC-CTAAAAAATGACTTGG-CAAAACC-A
* *
1497075 AAACCTAAACAATGACTTGGGAAAA
1 AAACCTAAAAAATGACTTGGCAAAA
1497100 AACGAGACTC
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
29 9 0.21
30 30 0.70
31 4 0.09
ACGTcount: A:0.51, C:0.18, G:0.15, T:0.16
Consensus pattern (28 bp):
AAACCTAAAAAATGACTTGGCAAAACCA
Found at i:1497700 original size:88 final size:88
Alignment explanation
Indices: 1497598--1498449 Score: 622
Period size: 88 Copynumber: 9.7 Consensus size: 88
1497588 GACGATAAAA
* * * * *
1497598 TGCAAACATCAATAAAATGGCAAATGCATATGAAATGATGTAAATACTAATATCATCCAAAATGC
1 TGCAAGCATCAATAAAATGGCAAATGCATATGAAATGATGCAAATACTAATGTCATCTAAAGTGC
* * * *
1497663 AGATGTACGTGAAATGATGCAAT
66 AGATATGCATGAAATGATGCAAC
* * * * * *
1497686 TGCAAGCATTAATAAAAAGGCAAATGCATATGAATTGATGCAAATACCAATGTTATCTAAAATGC
1 TGCAAGCATCAATAAAATGGCAAATGCATATGAAATGATGCAAATACTAATGTCATCTAAAGTGC
* * *
1497751 ACATATGCGTGAAACGATGCAAC
66 AGATATGCATGAAATGATGCAAC
* * * * * * ** * *
1497774 TGCAAGCA-AAAAATAAAGGGACAAATGTATGTGAAATGATGCAAATGCTAATGTTTTTTAAAAT
1 TGCAAGCATCAATA-AAATGG-CAAATGCATATGAAATGATGCAAATACTAATGTCATCTAAAGT
* * *
1497838 GCAAATATGCATGAAATGATACAAA
64 GCAGATATGCATGAAATGATGCAAC
** * * * * * * *
1497863 TATAAGCATCAATAAAGTGGTAAATGCACATGAAATGATACAGATATTAATGTCATCTAAAGTAC
1 TGCAAGCATCAATAAAATGGCAAATGCATATGAAATGATGCAAATACTAATGTCATCTAAAGTGC
* * *
1497928 AAATATGCATGAAACGATGCAAA
66 AGATATGCATGAAATGATGCAAC
* * * * * * * *
1497951 TGCAAGAATCAATAAAGTGGCAAATGTATATGAAATGATGTAAATGCTAATATTATCTAAAGTGT
1 TGCAAGCATCAATAAAATGGCAAATGCATATGAAATGATGCAAATACTAATGTCATCTAAAGTGC
* *** **
1498016 AGATGTGTGCGAAACAATGCAAC
66 AGATATGCATGAAATGATGCAAC
* * * ** * * * *
1498039 TACAAGCATCAATAAAGTGGCAAATGCATATGAAATGATGTAAAGGCCAATATTATCTAAAGTGT
1 TGCAAGCATCAATAAAATGGCAAATGCATATGAAATGATGCAAATACTAATGTCATCTAAAGTGC
* **
1498104 AGATGTG--TGCAAAACAGTGCAAC
66 AGATATGCATG-AAATGA-TGCAAC
* * * * * *
1498127 TACAAGCATCAATAAAAAGGCAAATGTACATGAAATGATGCAAATACCAATGTCATCTAAAGTGA
1 TGCAAGCATCAATAAAATGGCAAATGCATATGAAATGATGCAAATACTAATGTCATCTAAAGTGC
** * *
1498192 AGATACACATGACATGAT-CAAAA
66 AGATATGCATGAAATGATGC-AAC
* * * * * * *
1498215 TGAAAGGATCAATAAAGA-GGAAAATGAACT-TGAAATGATGTAAATACCAATGTCATATAAAGT
1 TGCAAGCATCAATAAA-ATGGCAAATGCA-TATGAAATGATGCAAATACTAATGTCATCTAAAGT
* * *
1498278 GTAAATGTGCATGAAATGATGCAAC
64 GCAGATATGCATGAAATGATGCAAC
* * * *
1498303 TACAAGCATAAAT-AAAGGGAAAATGCATATGAAATGATGCAAATACTAATGTCATCTAAAGTG-
1 TGCAAGCATCAATAAAATGGCAAATGCATATGAAATGATGCAAATACTAATGTCATCTAAAGTGC
* ** **
1498366 ACGATATGCGTGAAACAAAACAAC
66 A-GATATGCATGAAATGATGCAAC
** * * * * * *
1498390 CACAAACATCAATAAAAGGGAAAATGTACATGAAATGATGCAAATACCAATGTCATCTAA
1 TGCAAGCATCAATAAAATGGCAAATGCATATGAAATGATGCAAATACTAATGTCATCTAA
1498450 TGGTGTAAAT
Statistics
Matches: 616, Mismatches: 133, Indels: 30
0.79 0.17 0.04
Matches are distributed among these distances:
86 4 0.01
87 75 0.12
88 461 0.75
89 71 0.12
90 5 0.01
ACGTcount: A:0.46, C:0.13, G:0.17, T:0.24
Consensus pattern (88 bp):
TGCAAGCATCAATAAAATGGCAAATGCATATGAAATGATGCAAATACTAATGTCATCTAAAGTGC
AGATATGCATGAAATGATGCAAC
Found at i:1497939 original size:44 final size:42
Alignment explanation
Indices: 1497839--1497951 Score: 104
Period size: 44 Copynumber: 2.6 Consensus size: 42
1497829 TTTTAAAATG
*
1497839 CAAATATGCATGAAATGATACAAATATAAGCATCAATAAAGTG
1 CAAATATGCATGAAATGATACAAATATAAGCATC-ATAAAGTA
** *
1497882 GTAA-ATGCACATGAAATGATACAGATATTAATGTCATC-TAAAGTA
1 CAAATATG--CATGAAATGATACAAATA-TAA-G-CATCATAAAGTA
* *
1497927 CAAATATGCATGAAACGATGCAAAT
1 CAAATATGCATGAAATGATACAAAT
1497952 GCAAGAATCA
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
42 3 0.05
43 2 0.04
44 31 0.56
45 11 0.20
46 4 0.07
47 4 0.07
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (42 bp):
CAAATATGCATGAAATGATACAAATATAAGCATCATAAAGTA
Found at i:1497984 original size:44 final size:44
Alignment explanation
Indices: 1497936--1498078 Score: 112
Period size: 44 Copynumber: 3.2 Consensus size: 44
1497926 ACAAATATGC
1497936 ATGAAACGATGCAAATGCAAGAATCAATAAAGTGGCAAATGTAT
1 ATGAAACGATGCAAATGCAAGAATCAATAAAGTGGCAAATGTAT
* * * * * *
1497980 ATGAAATGATGTAAATGCTAATATTATC--TAAAGT-GTAGATGTGT
1 ATGAAACGATGCAAATGC-AAGA--ATCAATAAAGTGGCAAATGTAT
** * * * * *
1498024 GCGAAACAATGCAACTACAAGCATCAATAAAGTGGCAAATGCAT
1 ATGAAACGATGCAAATGCAAGAATCAATAAAGTGGCAAATGTAT
*
1498068 ATGAAATGATG
1 ATGAAACGATG
1498079 TAAAGGCCAA
Statistics
Matches: 70, Mismatches: 23, Indels: 12
0.67 0.22 0.11
Matches are distributed among these distances:
41 3 0.04
43 8 0.11
44 47 0.67
45 9 0.13
47 3 0.04
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.24
Consensus pattern (44 bp):
ATGAAACGATGCAAATGCAAGAATCAATAAAGTGGCAAATGTAT
Found at i:1498284 original size:44 final size:44
Alignment explanation
Indices: 1498148--1498366 Score: 141
Period size: 44 Copynumber: 5.0 Consensus size: 44
1498138 ATAAAAAGGC
* * *
1498148 AAATGTACATGAAATGATGCAAATACCAATGTCATCTAAAGTGA
1 AAATGAACTTGAAATGATGCAAATACCAATGTCATATAAAGTGA
* * * * *
1498192 AGAT-ACACATGACATGAT-CAAAATGA--AAGGATCA-ATAAAGAGGA
1 AAATGA-ACTTGAAATGATGC-AAAT-ACCAATG-TCATATAAAG-TGA
* *
1498236 AAATGAACTTGAAATGATGTAAATACCAATGTCATATAAAGTGT
1 AAATGAACTTGAAATGATGCAAATACCAATGTCATATAAAGTGA
** * * *
1498280 AAATGTGCATGAAATGATGCAACTA-CAA-G-CATAAATAAAGGGA
1 AAATGAACTTGAAATGATGCAAATACCAATGTCAT--ATAAAGTGA
* * *
1498323 AAATGCA-TATGAAATGATGCAAATACTAATGTCATCTAAAGTGA
1 AAATGAACT-TGAAATGATGCAAATACCAATGTCATATAAAGTGA
1498367 CGATATGCGT
Statistics
Matches: 132, Mismatches: 27, Indels: 32
0.69 0.14 0.17
Matches are distributed among these distances:
41 3 0.02
42 1 0.01
43 40 0.30
44 73 0.55
45 12 0.09
46 3 0.02
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.23
Consensus pattern (44 bp):
AAATGAACTTGAAATGATGCAAATACCAATGTCATATAAAGTGA
Found at i:1499778 original size:6 final size:6
Alignment explanation
Indices: 1499752--1499797 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
1499742 TTTCATGCTT
* *
1499752 TTTTTG TTTTTC TTCTT- TTTTTC TTTTTC ATTTTTC TTTTT- TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC TTTTTC TTTTT
1499798 GTTTCTTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
5 9 0.26
6 20 0.57
7 6 0.17
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:1502710 original size:154 final size:157
Alignment explanation
Indices: 1502181--1503119 Score: 684
Period size: 156 Copynumber: 6.0 Consensus size: 157
1502171 GTATGCTGAA
* * * * * * * * *
1502181 AACCCTAAAGGACCTAAAAATGATCATTAATGGGATGAAACCAATCTTAAAGGTACA-CTTGTGG
1 AACCTTAAAAGACTTAAAAATGATCATAAATGAGATG-AACCTATCCTAAATGCACACCTT-TGG
* * * * * * * * *
1502245 CATAAAATCATCTTGGTGACAACTTAAGACTCGGTTCTAAAAAAATTATAAAAATACCCCT-AGA
64 CATAAAAGCATCCTAGTGACAACCTAAGACTCAGTTCTAGAAAAATTATGAAAATACTCTTAAG-
* **
1502309 GTATA-TCTTTAACACGAAAGTATC-CTGA-T
128 GTATACT-TTTGACATAAAAGTATCTC-GAGT
* ** * * * * * * * *
1502338 AACCCTAATGGATTTAAAAATGAACATAAATGGGGTGAACCTATCTTAAATGCACTCATATGGCA
1 AACCTTAAAAGACTTAAAAATGATCATAAATGAGATGAACCTATCCTAAATGCACACCTTTGGCA
* * * * * ** * *
1502403 TAAAAGCAT-CTCGGTTACATCCTAAGATTCAATTCTA-AGAAAATTACAAAAATA-TCCGTATG
66 TAAAAGCATCCT-AGTGACAACCTAAGACTCAGTTCTAGA-AAAATTATGAAAATACT-CTTAAG
* * * * ** *
1502465 ATGTACCTTCGACACGAAAGTAT-TATG-GT
128 GTATACTTTTGACATAAAAGTATCT-CGAGT
* * *
1502494 AACCTTAAAAAACTTAAAAATGACCATAAATGAGATGAACCTATCCTAAATGCACACTTTTGGCA
1 AACCTTAAAAGACTTAAAAATGATCATAAATGAGATGAACCTATCCTAAATGCACACCTTTGGCA
* * *
1502559 TAAAAGCATCCTGGTGACAACCTAAGACTCAGTTTTA-AAAAATTATGAAAATACTTTTAAGGTA
66 TAAAAGCATCCTAGTGACAACCTAAGACTCAGTTCTAGAAAAATTATGAAAATACTCTTAAGGTA
* * *
1502623 CA-TTTTCAACATTAAAGTATCT-GAGT
131 TACTTTT-GACATAAAAGTATCTCGAGT
* * * * * * *
1502649 AACCTTTAAAGGCTT-AAAATGATCATAAATGAGATGAACCAATCCTAAGTGTAGACCTTTGGCT
1 AACCTTAAAAGACTTAAAAATGATCATAAATGAGATGAACCTATCCTAAATGCACACCTTTGGCA
** * * * *
1502713 TAAAAGCATTTTAGTGACAACCGAAGACT-TGATTCTAGGAAAATTATGAAAATGCTCTT-AGAG
66 TAAAAGCATCCTAGTGACAACCTAAGACTCAG-TTCTAGAAAAATTATGAAAATACTCTTAAG-G
* *
1502776 TATACTATTGACATGAAA-TATCTCGA-T
129 TATACTTTTGACATAAAAGTATCTCGAGT
* * *
1502803 AACCTTAAAAGACTTAAAAATGATCATAAATGAGATGAACCGATCCTATATGCATACCTTTGGCA
1 AACCTTAAAAGACTTAAAAATGATCATAAATGAGATGAACCTATCCTAAATGCACACCTTTGGCA
* * * * * * * *
1502868 TAAAAGCATCCTAATGACAACCTAGGACTTAATTCTAGAAAAATAATGGAAATACCCTTAGGGTA
66 TAAAAGCATCCTAGTGACAACCTAAGACTCAGTTCTAGAAAAATTATGAAAATACTCTTAAGGTA
*
1502933 TACCTTTGACATAAAAGTATCTCG-GT
131 TACTTTTGACATAAAAGTATCTCGAGT
* * * *
1502959 AACCTTAAAAGACCTAAAAATGATCAT--AT-AGATGAACCTATCTTAAATGTACACTTTTGGCA
1 AACCTTAAAAGACTTAAAAATGATCATAAATGAGATGAACCTATCCTAAATGCACACCTTTGGCA
* * * * * * * *
1503021 TAAAAGTATCCCATTGACAACCTAGGACTCAGTTTTAGAAAAATTATAAAAAATGCTC-CAAGGG
66 TAAAAGCATCCTAGTGACAACCTAAGACTCAGTTCTAGAAAAATTAT-GAAAATACTCTTAA-GG
* * * *
1503085 TATACGTTCGACATGAAAGTATCTC-AAT
129 TATACTTTTGACATAAAAGTATCTCGAGT
1503113 AACCTTA
1 AACCTTA
1503120 TAGGACATAA
Statistics
Matches: 624, Mismatches: 131, Indels: 57
0.77 0.16 0.07
Matches are distributed among these distances:
153 69 0.11
154 135 0.22
155 180 0.29
156 205 0.33
157 35 0.06
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.28
Consensus pattern (157 bp):
AACCTTAAAAGACTTAAAAATGATCATAAATGAGATGAACCTATCCTAAATGCACACCTTTGGCA
TAAAAGCATCCTAGTGACAACCTAAGACTCAGTTCTAGAAAAATTATGAAAATACTCTTAAGGTA
TACTTTTGACATAAAAGTATCTCGAGT
Found at i:1503076 original size:309 final size:309
Alignment explanation
Indices: 1502493--1503119 Score: 719
Period size: 309 Copynumber: 2.0 Consensus size: 309
1502483 AGTATTATGG
* *
1502493 TAACCTTAAAAAACTTAAAAATGACCATAAATGAGATGAACCTATCCTAAATGCACACTTTTGGC
1 TAACCTTAAAAAACTTAAAAATGACCATAAATGAGATGAACCGATCCTAAATGCACACCTTTGGC
** * * * **
1502558 ATAAAAGCATCCTGGTGACAACCTAAGACTCAGTTTTAAAAAATTATGAAAATACTTTTAAGGTA
66 ATAAAAGCATCCTAATGACAACCTAAGACTCAATTCTAAAAAATAATGAAAATACCCTTAAGGTA
* * * * *
1502623 CATTTTCAACATTAAAGTATCTGAGTAACCTTTAAAGGCTTAAAATGATCATAAATGAGATGAAC
131 CACTTTCAACATAAAAGTATCTGAGTAACCTTAAAAGCCTAAAAATGATCAT-AATGAGATGAAC
* * * *** * *
1502688 CAATCCTAAGTGTAGACCTTTGGCTTAAAAGCATTTTAGTGACAACCGAAGACTTGATTCTAGGA
195 CAATCCTAAATGTACACCTTTGGCATAAAAGCATCCCAGTGACAACCGAAGACTAGATTCTAGAA
* ** * *
1502753 AAATTATGAAAATGCTCTTAGAGTATAC-TATTGACATGAAA-TATCTCGA
260 AAATTATAAAAATGCTCCAAGAGTATACGT-TCGACATGAAAGTATCTCAA
* * * *
1502802 TAACCTTAAAAGACTTAAAAATGATCATAAATGAGATGAACCGATCCTATATGCATACCTTTGGC
1 TAACCTTAAAAAACTTAAAAATGACCATAAATGAGATGAACCGATCCTAAATGCACACCTTTGGC
* * * *
1502867 ATAAAAGCATCCTAATGACAACCTAGGACTTAATTCTAGAAAAATAATGGAAATACCCTTAGGGT
66 ATAAAAGCATCCTAATGACAACCTAAGACTCAATTCTA-AAAAATAATGAAAATACCCTTAAGGT
* *
1502932 ATACCTTT-GACATAAAAGTATCTCG-GTAACCTTAAAAGACCTAAAAATGATCAT-AT-AGATG
130 ACA-CTTTCAACATAAAAGTATCT-GAGTAACCTTAAAAG-CCTAAAAATGATCATAATGAGATG
* * * * * * * *
1502993 AACCTATCTTAAATGTACACTTTTGGCATAAAAGTATCCCATTGACAACCTAGGACTCAG-TTTT
192 AACCAATCCTAAATGTACACCTTTGGCATAAAAGCATCCCAGTGACAACCGAAGACT-AGATTCT
*
1503057 AGAAAAATTATAAAAAATGCTCCAAGGGTATACGTTCGACATGAAAGTATCTCAA
256 AGAAAAATTAT-AAAAATGCTCCAAGAGTATACGTTCGACATGAAAGTATCTCAA
1503112 TAACCTTA
1 TAACCTTA
1503120 TAGGACATAA
Statistics
Matches: 264, Mismatches: 46, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
308 62 0.23
309 121 0.46
310 64 0.24
311 17 0.06
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (309 bp):
TAACCTTAAAAAACTTAAAAATGACCATAAATGAGATGAACCGATCCTAAATGCACACCTTTGGC
ATAAAAGCATCCTAATGACAACCTAAGACTCAATTCTAAAAAATAATGAAAATACCCTTAAGGTA
CACTTTCAACATAAAAGTATCTGAGTAACCTTAAAAGCCTAAAAATGATCATAATGAGATGAACC
AATCCTAAATGTACACCTTTGGCATAAAAGCATCCCAGTGACAACCGAAGACTAGATTCTAGAAA
AATTATAAAAATGCTCCAAGAGTATACGTTCGACATGAAAGTATCTCAA
Found at i:1504876 original size:5 final size:5
Alignment explanation
Indices: 1504866--1504894 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
1504856 AACTAGTTAA
1504866 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1504895 ATTTTCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:1506162 original size:32 final size:32
Alignment explanation
Indices: 1506101--1506163 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
1506091 ACTCATGTCC
* * *
1506101 ATTCGCACTCATAGGCATTTGTGCTCACGTGA
1 ATTCACACTCATAGGCATTTGTACCCACGTGA
* *
1506133 ATTCACACTTATATGCATTTGTACCCACGTG
1 ATTCACACTCATAGGCATTTGTACCCACGTG
1506164 CATTTGCTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.33
Consensus pattern (32 bp):
ATTCACACTCATAGGCATTTGTACCCACGTGA
Found at i:1508875 original size:22 final size:22
Alignment explanation
Indices: 1508847--1508919 Score: 119
Period size: 22 Copynumber: 3.3 Consensus size: 22
1508837 TTTTAGACTA
1508847 ATCGATACATTAGGCCAAATGT
1 ATCGATACATTAGGCCAAATGT
*
1508869 ATTGATACATTAGGCCAAATGT
1 ATCGATACATTAGGCCAAATGT
* *
1508891 ATCGATACATTAGGCTAATTGT
1 ATCGATACATTAGGCCAAATGT
1508913 ATCGATA
1 ATCGATA
1508920 TTACATGAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.32
Consensus pattern (22 bp):
ATCGATACATTAGGCCAAATGT
Found at i:1516528 original size:20 final size:20
Alignment explanation
Indices: 1516503--1516552 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1516493 AATACCCTTA
1516503 TATCGATACAAAGAACACAG
1 TATCGATACAAAGAACACAG
* **
1516523 TATCGATACTAAGAATGCAG
1 TATCGATACAAAGAACACAG
*
1516543 TATCTATACA
1 TATCGATACA
1516553 TTTGGGTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (20 bp):
TATCGATACAAAGAACACAG
Found at i:1520340 original size:20 final size:20
Alignment explanation
Indices: 1520299--1520340 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1520289 CATTACAAGC
* * *
1520299 ATGTATCTATACATTCATTT
1 ATGTATCGATACATTAACTT
1520319 ATGTATCGATACATTAACTT
1 ATGTATCGATACATTAACTT
1520339 AT
1 AT
1520341 TGTACTGATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.14, G:0.07, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACATTAACTT
Found at i:1520642 original size:2 final size:2
Alignment explanation
Indices: 1520635--1520679 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1520625 TTTATTTGTT
1520635 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1520677 TA T
1 TA T
1520680 TTGATCTCAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1521297 original size:22 final size:23
Alignment explanation
Indices: 1521267--1521317 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
1521257 TCATATCATG
* *
1521267 TTATGTTTTATTTTATATT-TTAA
1 TTAT-TTTTATATTATATTCTAAA
1521290 TTATTTTTATATTATATTCTAAA
1 TTATTTTTATATTATATTCTAAA
1521313 TTATT
1 TTATT
1521318 CCTTCTGGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (23 bp):
TTATTTTTATATTATATTCTAAA
Found at i:1522011 original size:23 final size:22
Alignment explanation
Indices: 1521985--1522027 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
1521975 ATAATAATTT
1521985 TATATAAA-ATTTAATTATAAAAA
1 TATATAAATA-TTAA-TATAAAAA
1522008 TATATAAATATTAATATAAA
1 TATATAAATATTAATATAAA
1522028 TTATTTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 12 0.63
24 1 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TATATAAATATTAATATAAAAA
Found at i:1523275 original size:16 final size:16
Alignment explanation
Indices: 1523250--1523280 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1523240 AAAAAGTAAA
1523250 AGTAGGTTTTTAGATG
1 AGTAGGTTTTTAGATG
*
1523266 AGTAGTTTTTTAGAT
1 AGTAGGTTTTTAGAT
1523281 AAAAGTGAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (16 bp):
AGTAGGTTTTTAGATG
Found at i:1529931 original size:18 final size:18
Alignment explanation
Indices: 1529908--1529957 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
1529898 AAGCTAGGAA
1529908 GAAAGAGAAAAAAAGAAG
1 GAAAGAGAAAAAAAGAAG
1529926 GAAAGA-AAAAAGAA-AAG
1 GAAAGAGAAAAA-AAGAAG
*
1529943 TAAA-AGGAAAAAAAG
1 GAAAGA-GAAAAAAAG
1529958 GAGAAGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
16 1 0.04
17 13 0.48
18 13 0.48
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (18 bp):
GAAAGAGAAAAAAAGAAG
Found at i:1529941 original size:21 final size:21
Alignment explanation
Indices: 1529917--1529997 Score: 51
Period size: 23 Copynumber: 3.8 Consensus size: 21
1529907 AGAAAGAGAA
1529917 AAAAAGAAGGAAAGAAAAAAG
1 AAAAAGAAGGAAAGAAAAAAG
* *
1529938 AAAAGTAAAAGGAAA-AAAAGGAG
1 AAAA--AGAAGGAAAGAAAA-AAG
* *
1529961 AAGAA-AA-GAAAGGAAAAAG
1 AAAAAGAAGGAAAGAAAAAAG
* *
1529980 AGAAAGAAAGAAAAGAAA
1 AAAAAG-AAGGAAAGAAA
1529998 GAGCTTTGGG
Statistics
Matches: 44, Mismatches: 9, Indels: 13
0.67 0.14 0.20
Matches are distributed among these distances:
19 9 0.20
20 5 0.11
21 7 0.16
22 10 0.23
23 13 0.30
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.01
Consensus pattern (21 bp):
AAAAAGAAGGAAAGAAAAAAG
Found at i:1529947 original size:6 final size:5
Alignment explanation
Indices: 1529933--1529997 Score: 53
Period size: 5 Copynumber: 12.6 Consensus size: 5
1529923 AAGGAAAGAA
* * *
1529933 AAAAG AAAAG TAAAAGG AAAA- AAAGG AGAAG AAAAG AAAGG AAAAAG
1 AAAAG AAAAG -AAAA-G AAAAG AAAAG AAAAG AAAAG AAAAG -AAAAG
1529980 AGAAAG -AAAG AAAAG AAA
1 A-AAAG AAAAG AAAAG AAA
1529998 GAGCTTTGGG
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
4 7 0.15
5 24 0.50
6 16 0.33
7 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:1529971 original size:31 final size:31
Alignment explanation
Indices: 1529909--1529997 Score: 81
Period size: 31 Copynumber: 2.7 Consensus size: 31
1529899 AGCTAGGAAG
*
1529909 AAAGAGAAAAAAAGAAGGAAAGAAAAAAGAAAAGTA
1 AAAGAGAAAAAAAG-A-G-AAG--AAAAGAAAAGAA
*
1529945 AAAG-GAAAAAAAGGAGAAGAAAAGAAAGGAA
1 AAAGAGAAAAAAA-GAGAAGAAAAGAAAAGAA
* *
1529976 AAAGAGAAAGAAAGAAAAGAAA
1 AAAGAGAAAAAAAGAGAAGAAA
1529998 GAGCTTTGGG
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
31 22 0.47
32 7 0.15
33 3 0.06
34 1 0.02
35 9 0.19
36 5 0.11
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.01
Consensus pattern (31 bp):
AAAGAGAAAAAAAGAGAAGAAAAGAAAAGAA
Found at i:1529983 original size:13 final size:14
Alignment explanation
Indices: 1529906--1529998 Score: 70
Period size: 13 Copynumber: 6.5 Consensus size: 14
1529896 TTAAGCTAGG
1529906 AAGAAAGAGAAA-AA
1 AAGAAAG-GAAAGAA
1529920 AAG-AAGGAAAGAAAA
1 AAGAAAGGAAAG--AA
*
1529935 AAGAAAAGTAAAAGGAA
1 AAG-AAAG-GAAA-GAA
1529952 AA-AAAGGAGAAGAA
1 AAGAAAGGA-AAGAA
1529966 AAGAAAGGAAA-AA
1 AAGAAAGGAAAGAA
*
1529979 GAGAAA-GAAAGAA
1 AAGAAAGGAAAGAA
1529992 AAGAAAG
1 AAGAAAG
1529999 AGCTTTGGGG
Statistics
Matches: 64, Mismatches: 4, Indels: 22
0.71 0.04 0.24
Matches are distributed among these distances:
12 8 0.12
13 17 0.27
14 11 0.17
15 17 0.27
17 7 0.11
18 3 0.05
19 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.26, T:0.01
Consensus pattern (14 bp):
AAGAAAGGAAAGAA
Found at i:1529990 original size:26 final size:26
Alignment explanation
Indices: 1529927--1529998 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
1529917 AAAAAGAAGG
1529927 AAAGAAA-AAAGAAAAGTAAAAGGAAAA
1 AAAGAAAGAAAGAAAAG--AAAGGAAAA
*
1529954 AAAG-GAG-AAGAAAAGAAAGGAAAA
1 AAAGAAAGAAAGAAAAGAAAGGAAAA
*
1529978 AGAGAAAGAAAGAAAAGAAAG
1 AAAGAAAGAAAGAAAAGAAAG
1529999 AGCTTTGGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 12 0.31
25 2 0.05
26 21 0.54
27 4 0.10
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.01
Consensus pattern (26 bp):
AAAGAAAGAAAGAAAAGAAAGGAAAA
Found at i:1530678 original size:3 final size:3
Alignment explanation
Indices: 1530670--1530698 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1530660 TTGGACATAT
1530670 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1530699 TGTATGTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1531881 original size:13 final size:13
Alignment explanation
Indices: 1531863--1531888 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1531853 ATAATTCATC
1531863 ATGTATCGATACA
1 ATGTATCGATACA
1531876 ATGTATCGATACA
1 ATGTATCGATACA
1531889 TTGTGCCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1531963 original size:20 final size:20
Alignment explanation
Indices: 1531938--1531992 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
1531928 CTACCAATCT
**
1531938 CATGTATCGATACAATTCTC
1 CATGTATCGATACAATTCAA
*
1531958 CATGTATC-AGTACAA-TGAA
1 CATGTATCGA-TACAATTCAA
1531977 CATGTATCGATACAAT
1 CATGTATCGATACAAT
1531993 GTATCGATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTCAA
Found at i:1531996 original size:13 final size:13
Alignment explanation
Indices: 1531978--1532004 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1531968 TACAATGAAC
1531978 ATGTATCGATACA
1 ATGTATCGATACA
1531991 ATGTATCGATACA
1 ATGTATCGATACA
1532004 A
1 A
1532005 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1532593 original size:21 final size:22
Alignment explanation
Indices: 1532547--1532620 Score: 107
Period size: 22 Copynumber: 3.4 Consensus size: 22
1532537 AGTTTTCATT
*
1532547 TTTCTCCCCTTTAATTAAAGAA
1 TTTCTCCCCTTTAATCAAAGAA
1532569 TTTCTCCCCTTTAATCAAA-AA
1 TTTCTCCCCTTTAATCAAAGAA
*
1532590 TTTCTCCGCC-TTAATCAAAGCA
1 TTTCTCC-CCTTTAATCAAAGAA
1532612 TTTCTCCCC
1 TTTCTCCCC
1532621 ATTTGTCAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
21 20 0.42
22 28 0.58
ACGTcount: A:0.27, C:0.31, G:0.04, T:0.38
Consensus pattern (22 bp):
TTTCTCCCCTTTAATCAAAGAA
Found at i:1533625 original size:16 final size:16
Alignment explanation
Indices: 1533604--1533634 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1533594 AAAAAGTAAA
1533604 AGTAGTTTTTTAGATG
1 AGTAGTTTTTTAGATG
1533620 AGTAGTTTTTTAGAT
1 AGTAGTTTTTTAGAT
1533635 AAAAGTGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (16 bp):
AGTAGTTTTTTAGATG
Found at i:1537954 original size:2 final size:2
Alignment explanation
Indices: 1537949--1537983 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1537939 CAAAATATGC
*
1537949 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1537984 AAAACTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1538083 original size:2 final size:2
Alignment explanation
Indices: 1538076--1538109 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1538066 ATAGATTTCA
1538076 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1538110 TAACAAAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1540340 original size:5 final size:5
Alignment explanation
Indices: 1540306--1540403 Score: 74
Period size: 5 Copynumber: 18.6 Consensus size: 5
1540296 GAAAGGGAAA
* *
1540306 AAAAG -AAAG AAAGAA AAAAG AAAAG TAAAAG AAAAA AAAAG AGGAGAAG
1 AAAAG AAAAG AAA-AG AAAAG AAAAG -AAAAG AAAAG AAAAG A--A-AAG
* * *
1540355 AAAAG AAAGG AAAAC ACAGAG AGAAAG AAAAG AAAAG AAAA- AAAAG AAA
1 AAAAG AAAAG AAAAG A-AAAG A-AAAG AAAAG AAAAG AAAAG AAAAG AAA
1540404 GAGCTTTGGG
Statistics
Matches: 74, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
4 8 0.11
5 44 0.59
6 17 0.23
7 1 0.01
8 4 0.05
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.01
Consensus pattern (5 bp):
AAAAG
Found at i:1540399 original size:9 final size:10
Alignment explanation
Indices: 1540306--1540403 Score: 74
Period size: 11 Copynumber: 9.3 Consensus size: 10
1540296 GAAAGGGAAA
1540306 AAAAG-AAAG
1 AAAAGAAAAG
*
1540315 AAAGAAAAAAG
1 AAA-AGAAAAG
1540326 AAAAGTAAAAG
1 AAAAG-AAAAG
*
1540337 AAAAAAAAAG
1 AAAAGAAAAG
1540347 AGGAGAAGAAAAG
1 A--A-AAGAAAAG
* *
1540360 AAAGGAAAAC
1 AAAAGAAAAG
*
1540370 ACAGAGAGAAAG
1 A-AAAGA-AAAG
1540382 AAAAGAAAAG
1 AAAAGAAAAG
1540392 AAAA-AAAAG
1 AAAAGAAAAG
1540401 AAA
1 AAA
1540404 GAGCTTTGGG
Statistics
Matches: 71, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
9 11 0.15
10 23 0.32
11 24 0.34
12 5 0.07
13 8 0.11
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.01
Consensus pattern (10 bp):
AAAAGAAAAG
Found at i:1540979 original size:21 final size:21
Alignment explanation
Indices: 1540940--1540979 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1540930 AAAACCCTGA
**
1540940 AATGTATCGATACTTGTTAAG
1 AATGTATCGATACAGGTTAAG
1540961 AATGTATCGATACAGGTTA
1 AATGTATCGATACAGGTTA
1540980 TTGGCAGTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACAGGTTAAG
Found at i:1547709 original size:20 final size:22
Alignment explanation
Indices: 1547676--1547720 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
1547666 GCAGCACTCA
*
1547676 CCAGGTCACGACC-GGCA-CCC
1 CCAGGTCACAACCGGGCAGCCC
*
1547696 CCAGGTCGCAACCGGGCAGCCC
1 CCAGGTCACAACCGGGCAGCCC
1547718 CCA
1 CCA
1547721 CACTAGCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 4 0.19
22 6 0.29
ACGTcount: A:0.20, C:0.49, G:0.27, T:0.04
Consensus pattern (22 bp):
CCAGGTCACAACCGGGCAGCCC
Found at i:1549478 original size:51 final size:52
Alignment explanation
Indices: 1549356--1549491 Score: 166
Period size: 51 Copynumber: 2.6 Consensus size: 52
1549346 AAAATTGGGG
* * * * * *
1549356 TTTTGAAAATAAAATCGGGGTTAGAGTATCCCCGATTGTGGAAAAATTAGTG
1 TTTTGGAAATAAAATCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATA
* * * *
1549408 TTTTAGCAATAAAACCGGGGTTGGAGTTTCCCCGATTAT-GAAAAATCAATA
1 TTTTGGAAATAAAATCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATA
*
1549459 TTTTGGAAATAAAGTCGGGGTTGGAGTATCCCC
1 TTTTGGAAATAAAATCGGGGTTGGAGTATCCCC
1549492 TCAAAAATAA
Statistics
Matches: 69, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
51 37 0.54
52 32 0.46
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.30
Consensus pattern (52 bp):
TTTTGGAAATAAAATCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATA
Found at i:1549537 original size:27 final size:27
Alignment explanation
Indices: 1549474--1549549 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
1549464 GAAATAAAGT
* *
1549474 CGGGGTTGGAGTATCCCCTCAAAAATAA
1 CGGGGTTGGAGTATCCCC-GATAAATAA
* *
1549502 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATAAATAA
1549529 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1549550 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 26 0.59
28 18 0.41
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATAAATAA
Found at i:1549640 original size:51 final size:53
Alignment explanation
Indices: 1549533--1549655 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 53
1549523 GATTAACGGG
* * *
1549533 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGGAAATAAAATCAGA
1549587 GTTGGAGTATCCCCGATTAT--AGAAAATTAGTG-TTTT-GAAGATAAAATCAGA
1 GTTGGAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGGAA-ATAAAATCAGA
*
1549638 GTTGGAATATCCCCGATT
1 GTTGGAGTATCCCCGATT
1549656 GTGGAGAATT
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
50 3 0.05
51 31 0.49
52 2 0.03
53 8 0.13
54 19 0.30
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (53 bp):
GTTGGAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGGAAATAAAATCAGA
Found at i:1552032 original size:13 final size:13
Alignment explanation
Indices: 1552014--1552039 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1552004 ACAAAGATCC
1552014 ATGTATCGATACA
1 ATGTATCGATACA
1552027 ATGTATCGATACA
1 ATGTATCGATACA
1552040 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1552035 original size:33 final size:33
Alignment explanation
Indices: 1551993--1552059 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1551983 AAAATTTCCA
***
1551993 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1552026 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1552059 A
1 A
1552060 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1552103 original size:19 final size:18
Alignment explanation
Indices: 1552079--1552146 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1552069 CAGTAGCTAA
1552079 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1552098 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1552113 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1552130 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1552147 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1552119 original size:13 final size:13
Alignment explanation
Indices: 1552101--1552125 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1552091 ACAATACTTA
1552101 TGTATCGATACAT
1 TGTATCGATACAT
1552114 TGTATCGATACA
1 TGTATCGATACA
1552126 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1552123 original size:32 final size:32
Alignment explanation
Indices: 1552082--1552144 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1552072 TAGCTAATTA
*
1552082 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1552114 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1552145 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1552208 original size:21 final size:21
Alignment explanation
Indices: 1552182--1552258 Score: 127
Period size: 21 Copynumber: 3.7 Consensus size: 21
1552172 GTTGGGACCC
* *
1552182 TGTATCGATACATTTTACGAA
1 TGTATCGATACATTCTACAAA
*
1552203 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
1552224 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
1552245 TGTATCGATACATT
1 TGTATCGATACATT
1552259 TGAATTTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Done.