Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 102 of 318
Found at i:31129386 original size:27 final size:27
Alignment explanation
Indices: 31128845--31129376 Score: 617
Period size: 27 Copynumber: 19.7 Consensus size: 27
31128835 CCAAAGTACT
**
31128845 CTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
* *
31128872 CTC-AGTTTATAGAATTATTGTTTTACC
1 CTCGA-TTTACAGAATTACTGTTTTACC
** * *
31128899 CTCGATTTGTAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
31128926 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
31128953 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACTGTTTTACC
31128980 CTCGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
* *
31129007 CT-TAGTTTACAGAATTATTGTTTTACC
1 CTCGA-TTTACAGAATTACTGTTTTACC
* *
31129034 CTTGATTTATAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
* *
31129061 CTCGATTTATAGAATTATTGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
** * *
31129088 CTCGATTTGTAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
31129115 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
31129142 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACTGTTTTACC
* *
31129169 CTCGATTTATAGAATTACTATTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
* * **
31129196 C-CTAATTTACATAATTACCATTTTACC
1 CTC-GATTTACAGAATTACTGTTTTACC
* *
31129223 CCCGATTTACATAATTA-TCGTTTTACC
1 CTCGATTTACAGAATTACT-GTTTTACC
* *
31129250 CTCGATTTACAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
* **
31129277 CTCAATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
* *
31129304 CTCAATTTATAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
31129331 CTTGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
31129358 CTCGATTTACAAAATTACT
1 CTCGATTTACAGAATTACT
31129377 AAAATACCCT
Statistics
Matches: 441, Mismatches: 52, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
26 5 0.01
27 431 0.98
28 5 0.01
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (27 bp):
CTCGATTTACAGAATTACTGTTTTACC
Found at i:31130717 original size:11 final size:11
Alignment explanation
Indices: 31130701--31130772 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
31130691 CATGGTATGT
31130701 ATGATATGCAC
1 ATGATATGCAC
*
31130712 ATGATATG--T
1 ATGATATGCAC
31130721 ATGATATGCAC
1 ATGATATGCAC
* *
31130732 ATGACATG--T
1 ATGATATGCAC
31130741 ATGATATGCAC
1 ATGATATGCAC
*
31130752 ATGATATG--T
1 ATGATATGCAC
31130761 ATGATATGCAC
1 ATGATATGCAC
31130772 A
1 A
31130773 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:31130724 original size:9 final size:9
Alignment explanation
Indices: 31130696--31130768 Score: 56
Period size: 9 Copynumber: 7.4 Consensus size: 9
31130686 ATAAACATGG
31130696 TATGTATGA
1 TATGTATGA
*
31130705 TATGCACATGA
1 TATG--TATGA
31130716 TATGTATGA
1 TATGTATGA
*
31130725 TATGCACATGA
1 TATG--TATGA
*
31130736 CATGTATGA
1 TATGTATGA
*
31130745 TATGCACATGA
1 TATG--TATGA
31130756 TATGTATGA
1 TATGTATGA
31130765 TATG
1 TATG
31130769 CACACGAGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
9 27 0.54
11 23 0.46
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.36
Consensus pattern (9 bp):
TATGTATGA
Found at i:31130780 original size:20 final size:20
Alignment explanation
Indices: 31130690--31130772 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
31130680 ATTTTGATAA
*
31130690 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
31130710 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
31130730 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
31130750 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
31130770 ACA
1 ACA
31130773 CGAGATGTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:31130857 original size:23 final size:23
Alignment explanation
Indices: 31130827--31130946 Score: 186
Period size: 23 Copynumber: 5.1 Consensus size: 23
31130817 AGGAAGTGAA
31130827 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
31130850 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
31130874 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
31130897 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
31130921 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
31130944 AAA
1 AAA
31130947 AGAGGCTAGG
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
23 46 0.52
24 42 0.48
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:31130882 original size:24 final size:23
Alignment explanation
Indices: 31130826--31130968 Score: 189
Period size: 24 Copynumber: 6.0 Consensus size: 23
31130816 GAGGAAGTGA
31130826 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
31130849 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
31130872 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
31130896 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
31130919 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
31130944 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
31130968 A
1 A
31130969 TGATAAAGCA
Statistics
Matches: 106, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
23 43 0.41
24 52 0.49
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:31130895 original size:47 final size:47
Alignment explanation
Indices: 31130825--31130968 Score: 218
Period size: 47 Copynumber: 3.0 Consensus size: 47
31130815 GGAGGAAGTG
31130825 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
31130872 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
31130919 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATT-AAAG-GGCTTATGCC-CCAGTTAT
31130968 A
1 A
31130969 TGATAAAGCA
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
47 67 0.76
48 9 0.10
49 12 0.14
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:31131196 original size:31 final size:31
Alignment explanation
Indices: 31131161--31131224 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
31131151 CGTTTACCGT
*
31131161 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
31131192 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
31131223 AA
1 AA
31131225 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:31132688 original size:25 final size:24
Alignment explanation
Indices: 31132650--31132719 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
31132640 AGGAAGTGCT
*
31132650 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
* *
31132674 GAAAAGGGCTTTGCCCTAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
*
31132699 AGAAAGTGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
31132720 ATTACAAGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 1 0.03
25 38 0.97
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:31139124 original size:12 final size:13
Alignment explanation
Indices: 31139107--31139144 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
31139097 ATCTTGGAAT
31139107 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
31139119 ATTAAGAACACATA
1 ATTAAGAACA-AGA
31139133 ATTAAGAACAAG
1 ATTAAGAACAAG
31139145 CCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:31147475 original size:12 final size:13
Alignment explanation
Indices: 31147458--31147495 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
31147448 ATCCTGGAAT
31147458 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
31147470 ATTAAGAACACATA
1 ATTAAGAACA-AGA
31147484 ATTAAGAACAAG
1 ATTAAGAACAAG
31147496 CCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:31148471 original size:54 final size:55
Alignment explanation
Indices: 31148288--31148471 Score: 160
Period size: 54 Copynumber: 3.4 Consensus size: 55
31148278 CCATTCTCGA
* * * * * *
31148288 CATGGGCTTACATGGTATCCTTGTCTTAT-GAACA-CACCAATGGCATGCCTTGG
1 CATGGTCTTACATGATATCCTTGCCTTATAGAAAATTACCAATGCCATGCCTTGG
** * * * * **
31148341 CATGGTCTTACATGGGA-CCTTTGCCTTATAGTAATTTATCAATGCCATGTCTTAA
1 CATGGTCTTACATGATATCC-TTGCCTTATAGAAAATTACCAATGCCATGCCTTGG
** * *
31148396 CATGGTCTTACACAATTTCCTTGCCTTGTA-AAAATTACCAATGCCATGCCTTGG
1 CATGGTCTTACATGATATCCTTGCCTTATAGAAAATTACCAATGCCATGCCTTGG
*
31148450 CATGGTCTTACTTGATATCCTT
1 CATGGTCTTACATGATATCCTT
31148472 AAACCCTAAT
Statistics
Matches: 99, Mismatches: 28, Indels: 7
0.74 0.21 0.05
Matches are distributed among these distances:
52 2 0.02
53 23 0.23
54 38 0.38
55 34 0.34
56 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.35
Consensus pattern (55 bp):
CATGGTCTTACATGATATCCTTGCCTTATAGAAAATTACCAATGCCATGCCTTGG
Found at i:31160213 original size:20 final size:19
Alignment explanation
Indices: 31160171--31160305 Score: 135
Period size: 20 Copynumber: 6.8 Consensus size: 19
31160161 ATGTTACAGG
*
31160171 TGGCTTTGTGCCGCTACGA
1 TGGCTTTGTGCCGCTATGA
31160190 TGGCTTTGTGCCGCTATAGA
1 TGGCTTTGTGCCGCTAT-GA
*
31160210 TGGCTTTGTGCCACTACTGA
1 TGGCTTTGTGCCGCTA-TGA
31160230 TGGCTTTGTGCCGCTACTGA
1 TGGCTTTGTGCCGCTA-TGA
* **
31160250 TGGCTTCGTGCTACTATTGA
1 TGGCTTTGTGCCGCTA-TGA
* *
31160270 TGGCTTCGTGCTGCTACTGA
1 TGGCTTTGTGCCGCTA-TGA
* * *
31160290 TGACTTCGTGCAGCTA
1 TGGCTTTGTGCCGCTA
31160306 CCCTTGGCTT
Statistics
Matches: 103, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.16
20 86 0.83
21 1 0.01
ACGTcount: A:0.13, C:0.24, G:0.28, T:0.35
Consensus pattern (19 bp):
TGGCTTTGTGCCGCTATGA
Found at i:31160239 original size:40 final size:40
Alignment explanation
Indices: 31160171--31160300 Score: 165
Period size: 40 Copynumber: 3.3 Consensus size: 40
31160161 ATGTTACAGG
*
31160171 TGGCTTTGTGCCGCTAC-GATGGCTTTGTGCCGCTA-TAGA
1 TGGCTTTGTGCCACTACTGATGGCTTTGTGCCGCTACT-GA
31160210 TGGCTTTGTGCCACTACTGATGGCTTTGTGCCGCTACTGA
1 TGGCTTTGTGCCACTACTGATGGCTTTGTGCCGCTACTGA
* * * * *
31160250 TGGCTTCGTGCTACTATTGATGGCTTCGTGCTGCTACTGA
1 TGGCTTTGTGCCACTACTGATGGCTTTGTGCCGCTACTGA
* *
31160290 TGACTTCGTGC
1 TGGCTTTGTGC
31160301 AGCTACCCTT
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 16 0.20
40 65 0.79
41 1 0.01
ACGTcount: A:0.12, C:0.24, G:0.28, T:0.35
Consensus pattern (40 bp):
TGGCTTTGTGCCACTACTGATGGCTTTGTGCCGCTACTGA
Found at i:31160287 original size:60 final size:59
Alignment explanation
Indices: 31160171--31160306 Score: 173
Period size: 60 Copynumber: 2.3 Consensus size: 59
31160161 ATGTTACAGG
* * *
31160171 TGGCTTTGTGCCGCTACGATGGCTTTGTGCCGCTATAGATGGCTTTGTGCCACTACTGA
1 TGGCTTTGTGCCGCTACGATGGCTTCGTGCCACTATAGATGGCTTCGTGCCACTACTGA
* * **
31160230 TGGCTTTGTGCCGCTACTGATGGCTTCGTGCTACTATTGATGGCTTCGTGCTGCTACTGA
1 TGGCTTTGTGCCGCTAC-GATGGCTTCGTGCCACTATAGATGGCTTCGTGCCACTACTGA
* * *
31160290 TGACTTCGTGCAGCTAC
1 TGGCTTTGTGCCGCTAC
31160307 CCTTGGCTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
59 17 0.26
60 49 0.74
ACGTcount: A:0.13, C:0.24, G:0.28, T:0.35
Consensus pattern (59 bp):
TGGCTTTGTGCCGCTACGATGGCTTCGTGCCACTATAGATGGCTTCGTGCCACTACTGA
Found at i:31164294 original size:46 final size:46
Alignment explanation
Indices: 31164227--31164402 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
31164217 TGTAACCCGC
*
31164227 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * * * * * *
31164273 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGATGCCTAG-TT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-TTCGCAT
* * * *
31164319 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
31164366 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
31164403 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
45 2 0.02
46 68 0.66
47 31 0.30
48 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:31164346 original size:93 final size:93
Alignment explanation
Indices: 31164234--31164405 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
31164224 CGCCCATAAG
* *
31164234 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
31164299 ACGAGCTCAGATGCCTAGTTACATTTCA
66 ACGAGCTCAGATGCCTAGTTACATTTCA
* *
31164327 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
* *
31164392 ACGAGTTCGGATGC
66 ACGAGCTCAGATGC
31164406 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCAGATGCCTAGTTACATTTCA
Found at i:31169337 original size:24 final size:23
Alignment explanation
Indices: 31169301--31169346 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
31169291 CATATTACCT
*
31169301 TGCTTCAGCTCAAGAAATTCTTTA
1 TGCTTCAGATCAAGAAA-TCTTTA
* *
31169325 TGCTTCTGATCAATAAATCTTT
1 TGCTTCAGATCAAGAAATCTTT
31169347 CACTAATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (23 bp):
TGCTTCAGATCAAGAAATCTTTA
Found at i:31171597 original size:777 final size:777
Alignment explanation
Indices: 31170060--31172392 Score: 4515
Period size: 777 Copynumber: 3.0 Consensus size: 777
31170050 GTGTTACTAA
31170060 GCTTAATTTAACATATTTAGAACTTTGGATTATTTATTTCTAC-TTCACAGCTTTTAAGCTACTT
1 GCTTAATTTAACATATTTAGAACTTTGGATTATTTATTTCTACATTCACAGCTTTTAAGCTACTT
* * *
31170124 GCATCACAGTCATAAGAAAAATCATATCTCGAGTTACGAAACTCGAAATCAAGATCCGTAAATTT
66 GCATCATAGTCACAAGAAAAATCATATCTCGAGTTACGAAACTTGAAATCAAGATCCGTAAATTT
* * *
31170189 TCCCTAAATCTAGACTCATATACCTATCTACTAATTTTTTTCTAGAATTTTTGGTTGGGCTAATT
131 TTCCTGAATCTAGACTCATATACCTATCTACTAATTTTTTTCTAGAATTTTTGGTTGGGCCAATT
* *
31170254 AGTACAGTTTATTAGTTAAAGTTACCCCTGTTTCAGGACTTGACTGGTCTGACCTCTGTTTACTT
196 AGTACAGTTTATTAGTTAAAATTACCCCTGTTTCAGGACTTGACTGGTCTGACCTCTGTTTACTA
* *
31170319 CGAACCCCATTTCTCTCTGTACAAAATTCATATGACTATGAGATTTATTTCTACTAAAACTAGAC
261 CGAACCCCATTTCTCTCTGTACAAAATTCATATGACTATGAGATTTCTTTCTACTAAAATTAGAC
*
31170384 TCAATAAGGATTCTGAGAATATAAAATACACCATCTAATTATACCTTTACAATTTATGGTGAATT
326 TCAATAAGGATTCTGAGGATATAAAATACACCATCTAATTATACCTTTACAATTTATGGTGAATT
*
31170449 TCTAAAGTTGGAATAGGGGATTCAGAAACTGCTATGACCCTGTTTCACTAAAATTCAAATATCTT
391 TCTAAAGTTGGAACAGGGGATTCAGAAACTGCTATGACCCTGTTTCACTAAAATTCAAATATCTT
31170514 GTAACATATAATTCCTTTACCTGTTTCATTTGTTTCATATGAAACTAGACATAATAAGCTTCAAT
456 GTAACATATAATTCCTTTACCTGTTTCATTTGTTTCATATGAAACTAGACATAATAAGCTTCAAT
31170579 TTGATATGTAGTCCATCACCAAGTTCAATTTCTATGATTTTTAGTAAATTTTTAAACTCGCGTCA
521 TTGATATGTAGTCCATCACCAAGTTCAATTTCTATGATTTTTAGTAAATTTTTAAACTCGCGTCA
31170644 GTGTTGCTGTAGTATTCTGTTTATGGCAAATTTCATCCCTTTTATGAGTTTTTATGCACTAAGTA
586 GTGTTGCTGTAGTATTCTGTTTATGGCAAATTTCATCCCTTTTATGAGTTTTTATGCACTAAGTA
31170709 TCTTAATAATTTTCCTTAACATCAAATATAATCTAAACTAACTATTTTTATAATTTATCATTATC
651 TCTTAATAATTTTCCTTAACATCAAATATAATCTAAACTAACTATTTTTATAATTTATCATTATC
31170774 AAGCATTTCCTCAACCATTCCATCACCATACCATAAGATCATTTACACAAAAAAGGTATATT
716 AAGCATTTCCTCAACCATTCCATCACCATACCATAAGATCATTTACACAAAAAAGGTATATT
31170836 GCTTAATTTAACATATTTAGAACTTTGGATTATTTATTTCTACATTCACAGCTTTTAAGCTACTT
1 GCTTAATTTAACATATTTAGAACTTTGGATTATTTATTTCTACATTCACAGCTTTTAAGCTACTT
31170901 GCATCATAGTCACAAGAAAAATCATATCTCGAGTTACGAAACTTGAAATCAAGATCCGTAAATTT
66 GCATCATAGTCACAAGAAAAATCATATCTCGAGTTACGAAACTTGAAATCAAGATCCGTAAATTT
31170966 TTCCTGAATCTAGACTCATATACCTATCTACTAATTTTTTTCTAGAATTTTTGGTTGGGCCAATT
131 TTCCTGAATCTAGACTCATATACCTATCTACTAATTTTTTTCTAGAATTTTTGGTTGGGCCAATT
31171031 AGTACAGTTTATTAGTTAAAATTACCCCTGTTTCAGGACTTGACTGGTCTGACCTCTGTTTACTA
196 AGTACAGTTTATTAGTTAAAATTACCCCTGTTTCAGGACTTGACTGGTCTGACCTCTGTTTACTA
31171096 CGAACCCCATTTCTCTCTGTACAAAATTCATATGACTATGAGATTTCTTTCTACTAAAATTAGAC
261 CGAACCCCATTTCTCTCTGTACAAAATTCATATGACTATGAGATTTCTTTCTACTAAAATTAGAC
31171161 TCAATAAGGATTCTGAGGATATAAAATACACCATCTAATTATACCTTTACAATTTATGGTGAATT
326 TCAATAAGGATTCTGAGGATATAAAATACACCATCTAATTATACCTTTACAATTTATGGTGAATT
31171226 TCTAAAGTTGGAACAGGGGATTCAGAAACTGCTATGACCCTGTTTCACTAAAATTCAAATATCTT
391 TCTAAAGTTGGAACAGGGGATTCAGAAACTGCTATGACCCTGTTTCACTAAAATTCAAATATCTT
31171291 GTAACATATAATTCCTTTACCTGTTTCATTTGTTTCATATGAAACTAGACATAATAAGCTTCAAT
456 GTAACATATAATTCCTTTACCTGTTTCATTTGTTTCATATGAAACTAGACATAATAAGCTTCAAT
31171356 TTGATATGTAGTCCATCACCAAGTTCAATTTCTATGATTTTTAGTAAATTTTTAAACTCGCGTCA
521 TTGATATGTAGTCCATCACCAAGTTCAATTTCTATGATTTTTAGTAAATTTTTAAACTCGCGTCA
31171421 GTGTTGCTGTAGTATTCTGTTTATGGCAAATTTCATCCCTTTTATGAGTTTTTATGCACTAAGTA
586 GTGTTGCTGTAGTATTCTGTTTATGGCAAATTTCATCCCTTTTATGAGTTTTTATGCACTAAGTA
31171486 TCTTAATAATTTTCCTTAACATCAAATATAATCTAAACTAACTATTTTTATAATTTATCATTATC
651 TCTTAATAATTTTCCTTAACATCAAATATAATCTAAACTAACTATTTTTATAATTTATCATTATC
31171551 AAGCATTTCCTCAACCATTCCATCACCATACCATAAGATCATTTACACAAAAAAGGTATATT
716 AAGCATTTCCTCAACCATTCCATCACCATACCATAAGATCATTTACACAAAAAAGGTATATT
31171613 GCTTAATTTAACATATTTAGAACTTTGGATTATTTATTTCTACATTCACAGCTTTTAAGCTACTT
1 GCTTAATTTAACATATTTAGAACTTTGGATTATTTATTTCTACATTCACAGCTTTTAAGCTACTT
31171678 GCATCATAGTCACAAGAAAAATCATATCTCGAGTTACGAAACTTGAAATCAAGATCCGTAAATTT
66 GCATCATAGTCACAAGAAAAATCATATCTCGAGTTACGAAACTTGAAATCAAGATCCGTAAATTT
31171743 TTCCTGAATCTAGACTCATATACCTATCTACTAATTTTTTTCTAGAATTTTTGGTTGGGCCAATT
131 TTCCTGAATCTAGACTCATATACCTATCTACTAATTTTTTTCTAGAATTTTTGGTTGGGCCAATT
31171808 AGTACAGTTTATTAGTTAAAATTACCCCTGTTTCAGGACTTGACTGGTCTGACCTCTGTTTACTA
196 AGTACAGTTTATTAGTTAAAATTACCCCTGTTTCAGGACTTGACTGGTCTGACCTCTGTTTACTA
31171873 CGAACCCCATTTCTCTCTGTACAAAATTCATATGACTATGAGATTTCTTTCTACTAAAATTAGAC
261 CGAACCCCATTTCTCTCTGTACAAAATTCATATGACTATGAGATTTCTTTCTACTAAAATTAGAC
*
31171938 TCAATAAGGATTCTGAGGATATAAAATAAACCATCTAATTATACCTTTACAATTTATGGTGAATT
326 TCAATAAGGATTCTGAGGATATAAAATACACCATCTAATTATACCTTTACAATTTATGGTGAATT
31172003 TCTAAAGTTGGAACAGGGGATTCAGAAACTGCTATGACCCTGTTTCACTAAAATTCAAATATCTT
391 TCTAAAGTTGGAACAGGGGATTCAGAAACTGCTATGACCCTGTTTCACTAAAATTCAAATATCTT
31172068 GTAACATATAATTCCTTTACCTGTTTCATTTGTTTCATATGAAACTAGACATAATAAGCTTCAAT
456 GTAACATATAATTCCTTTACCTGTTTCATTTGTTTCATATGAAACTAGACATAATAAGCTTCAAT
*
31172133 TTGCTATGTAGTCCATCACCAAGTTCAATTTCTATGATTTTTAGTAAATTTTTAAACTCGCGTCA
521 TTGATATGTAGTCCATCACCAAGTTCAATTTCTATGATTTTTAGTAAATTTTTAAACTCGCGTCA
*
31172198 GTGTTGCTGCAGTATTCTGTTTATGGCAAATTTCATCCCTTTTATGAGTTTTTATGCACTAAGTA
586 GTGTTGCTGTAGTATTCTGTTTATGGCAAATTTCATCCCTTTTATGAGTTTTTATGCACTAAGTA
*
31172263 TCTTAATAATTTTCCTTAACATCAAATATAATCTAAACTAACTATTTTCATAATTTATCATTATC
651 TCTTAATAATTTTCCTTAACATCAAATATAATCTAAACTAACTATTTTTATAATTTATCATTATC
31172328 AAGCATTTCCTCAACCATTCCATCACCATACCATAAGATCATTTACACAAAAAAGGTATATT
716 AAGCATTTCCTCAACCATTCCATCACCATACCATAAGATCATTTACACAAAAAAGGTATATT
31172390 GCT
1 GCT
31172393 ATACATGCCA
Statistics
Matches: 1540, Mismatches: 16, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
776 43 0.03
777 1497 0.97
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.38
Consensus pattern (777 bp):
GCTTAATTTAACATATTTAGAACTTTGGATTATTTATTTCTACATTCACAGCTTTTAAGCTACTT
GCATCATAGTCACAAGAAAAATCATATCTCGAGTTACGAAACTTGAAATCAAGATCCGTAAATTT
TTCCTGAATCTAGACTCATATACCTATCTACTAATTTTTTTCTAGAATTTTTGGTTGGGCCAATT
AGTACAGTTTATTAGTTAAAATTACCCCTGTTTCAGGACTTGACTGGTCTGACCTCTGTTTACTA
CGAACCCCATTTCTCTCTGTACAAAATTCATATGACTATGAGATTTCTTTCTACTAAAATTAGAC
TCAATAAGGATTCTGAGGATATAAAATACACCATCTAATTATACCTTTACAATTTATGGTGAATT
TCTAAAGTTGGAACAGGGGATTCAGAAACTGCTATGACCCTGTTTCACTAAAATTCAAATATCTT
GTAACATATAATTCCTTTACCTGTTTCATTTGTTTCATATGAAACTAGACATAATAAGCTTCAAT
TTGATATGTAGTCCATCACCAAGTTCAATTTCTATGATTTTTAGTAAATTTTTAAACTCGCGTCA
GTGTTGCTGTAGTATTCTGTTTATGGCAAATTTCATCCCTTTTATGAGTTTTTATGCACTAAGTA
TCTTAATAATTTTCCTTAACATCAAATATAATCTAAACTAACTATTTTTATAATTTATCATTATC
AAGCATTTCCTCAACCATTCCATCACCATACCATAAGATCATTTACACAAAAAAGGTATATT
Found at i:31172929 original size:46 final size:46
Alignment explanation
Indices: 31172862--31173039 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
31172852 TGTAACCCGC
*
31172862 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * * *
31172908 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGCAT
* * * * **
31172954 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* *
31173001 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATG
31173040 CTCAACCATC
Statistics
Matches: 106, Mismatches: 21, Indels: 10
0.77 0.15 0.07
Matches are distributed among these distances:
45 2 0.02
46 70 0.66
47 32 0.30
48 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:31172981 original size:93 final size:93
Alignment explanation
Indices: 31172869--31173040 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
31172859 CGCCCATAAG
***
31172869 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
31172934 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
* *
31172962 CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
31173027 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
31173041 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:31176113 original size:16 final size:16
Alignment explanation
Indices: 31176092--31176163 Score: 92
Period size: 16 Copynumber: 4.5 Consensus size: 16
31176082 CGTTTGGTTC
31176092 GCTGTAATGGAATAAA
1 GCTGTAATGGAATAAA
* *
31176108 GCTGTAATAGAATAGA
1 GCTGTAATGGAATAAA
* *
31176124 GTTGTAATGGAATAGA
1 GCTGTAATGGAATAAA
31176140 GCTGTAATGGAATAGAA
1 GCTGTAATGGAATA-AA
31176157 -CTGTAAT
1 GCTGTAAT
31176164 CAGTAATTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
16 48 0.98
17 1 0.02
ACGTcount: A:0.40, C:0.06, G:0.26, T:0.28
Consensus pattern (16 bp):
GCTGTAATGGAATAAA
Found at i:31176162 original size:32 final size:32
Alignment explanation
Indices: 31176093--31176163 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
31176083 GTTTGGTTCG
*
31176093 CTGTAATGGAATAAAGCTGTAATAGAATAGAG
1 CTGTAATGGAATAAAGCTGTAATAGAATAGAA
* * *
31176125 TTGTAATGGAATAGAGCTGTAATGGAATAGAA
1 CTGTAATGGAATAAAGCTGTAATAGAATAGAA
31176157 CTGTAAT
1 CTGTAAT
31176164 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.41, C:0.06, G:0.25, T:0.28
Consensus pattern (32 bp):
CTGTAATGGAATAAAGCTGTAATAGAATAGAA
Found at i:31185641 original size:23 final size:23
Alignment explanation
Indices: 31185578--31185653 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
31185568 CAACTCATTG
*
31185578 GAGCTTACCATTTTAGCTCG-TA
1 GAGCTTACCATTTCAGCTCGATA
*
31185600 TGAGTTTA-C-TGTTCAGCTCGATA
1 -GAGCTTACCAT-TTCAGCTCGATA
*
31185623 GAGCTTACCATTTCAGCTCAATA
1 GAGCTTACCATTTCAGCTCGATA
31185646 GAGCTTAC
1 GAGCTTAC
31185654 TGTTCATTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
21 1 0.02
22 15 0.33
23 28 0.62
24 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.34
Consensus pattern (23 bp):
GAGCTTACCATTTCAGCTCGATA
Found at i:31190881 original size:16 final size:16
Alignment explanation
Indices: 31190856--31190887 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31190846 AATTTAAGGT
*
31190856 TAAATTAGTAAAATAA
1 TAAATAAGTAAAATAA
31190872 TAAATAAGTAAAATAA
1 TAAATAAGTAAAATAA
31190888 CATAAACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (16 bp):
TAAATAAGTAAAATAA
Found at i:31193383 original size:68 final size:66
Alignment explanation
Indices: 31193311--31193482 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
31193301 CATCATGTGT
* * * *
31193311 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
31193374 TGTAG
62 TGTAG
** * *
31193379 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
31193444 AG
65 AG
* * * *
31193446 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
31193483 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:31193416 original size:64 final size:64
Alignment explanation
Indices: 31193335--31193518 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
31193325 AGACATTATG
* * *
31193335 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
31193399 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
31193464 AA
63 AA
* * *
31193466 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
31193519 CGAACTATGA
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:31203036 original size:84 final size:83
Alignment explanation
Indices: 31202896--31203063 Score: 300
Period size: 84 Copynumber: 2.0 Consensus size: 83
31202886 TAACCCTCAA
* *
31202896 TATGTATGGTCAATGTATATAATCATGCAATACAGGACTAAATAAAAGGGTAAGCACAAATGATT
1 TATGTATGGTCAACGTATATAATCATGCAATACAGGACCAAATAAAAGGGTAAGCACAAATGATT
*
31202961 GTTTTTTAGCTTAGGTAT
66 GTTTTTTAGCTCAGGTAT
31202979 TATGTATGGTCAAACGTATATAATCATGCAATACAGGACCAAATAAAAGGGTAAGCACAAATGAT
1 TATGTATGGTC-AACGTATATAATCATGCAATACAGGACCAAATAAAAGGGTAAGCACAAATGAT
31203044 TGTTTTTTAGCTCAGGTAT
65 TGTTTTTTAGCTCAGGTAT
31203063 T
1 T
31203064 GTATAGAGGT
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
83 11 0.14
84 70 0.86
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (83 bp):
TATGTATGGTCAACGTATATAATCATGCAATACAGGACCAAATAAAAGGGTAAGCACAAATGATT
GTTTTTTAGCTCAGGTAT
Found at i:31207822 original size:19 final size:20
Alignment explanation
Indices: 31207798--31207847 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
31207788 GGAATTTTTA
*
31207798 AAATAAATAATAATAA-GAG
1 AAATAAATAATAATAACAAG
31207817 AAATAAAT-A-AATAACAAG
1 AAATAAATAATAATAACAAG
31207835 AAATCAAATAATA
1 AAAT-AAATAATA
31207848 GAATCTGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 5 0.19
18 7 0.27
19 12 0.46
20 1 0.04
21 1 0.04
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.20
Consensus pattern (20 bp):
AAATAAATAATAATAACAAG
Found at i:31220082 original size:48 final size:48
Alignment explanation
Indices: 31220006--31220133 Score: 132
Period size: 48 Copynumber: 2.7 Consensus size: 48
31219996 ACATACTGAG
* * * *
31220006 GCTGATGCCATATCCTAGATATGGTCTTACACTAGCACAT-ATATCAAT
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCAC-TCATATCAAC
* * * * *
31220054 GCTGATGCCATGTCCCAAACATGTTCTTACATTGGCTCTCATATCAAC
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATATCAAC
* * *
31220102 ACCGATGACATGTCCCAGACATGGTCTTACAC
1 GCTGATGCCATGTCCCAGACATGGTCTTACAC
31220134 CGAATCTCAT
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
47 1 0.02
48 63 0.98
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (48 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATATCAAC
Found at i:31228182 original size:23 final size:25
Alignment explanation
Indices: 31228151--31228196 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
31228141 TTATATGAAA
31228151 ATATACTCATTGAG-CTCTAATTTG
1 ATATACTCATTGAGTCTCTAATTTG
*
31228175 ATAT-CTCATTTAGTCTCTAATT
1 ATATACTCATTGAGTCTCTAATT
31228197 AAATTTATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.46
Consensus pattern (25 bp):
ATATACTCATTGAGTCTCTAATTTG
Found at i:31229315 original size:30 final size:30
Alignment explanation
Indices: 31229281--31229341 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
31229271 TCCTTAACTC
31229281 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
31229311 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
31229341 A
1 A
31229342 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:31231859 original size:79 final size:80
Alignment explanation
Indices: 31231758--31231942 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
31231748 ACGACTCGCT
* ** * *
31231758 CAAATGCCTTCCGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTT-CGGGCTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
31231821 GGGTTTAGTAACTT-GCA
63 GGATATAGTAACTTAGCA
* **
31231838 CAAATGCCTTCGGGCTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGGA
*
31231903 TATAGTCACTTAGCA
66 TATAGTAACTTAGCA
31231918 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
31231943 CATCATTCGA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.63
80 30 0.33
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGGA
TATAGTAACTTAGCA
Found at i:31231872 original size:39 final size:40
Alignment explanation
Indices: 31231758--31231942 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
31231748 ACGACTCGCT
* ** * *
31231758 CAAATGCCTTCCGGACGAAGCCCGG-TTATAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTTGCA
* * *
31231798 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
* *
31231838 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
* * * * *
31231877 CGAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTT-GCA
31231918 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31231943 CATCATTCGA
Statistics
Matches: 118, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 74 0.63
41 11 0.09
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
Found at i:31234980 original size:22 final size:22
Alignment explanation
Indices: 31234955--31235006 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
31234945 GGGTCACATG
31234955 CCCGTGTGGACACAAGGACACA
1 CCCGTGTGGACACAAGGACACA
*
31234977 CCCGTGTGGACACAAGGACACG
1 CCCGTGTGGACACAAGGACACA
31234999 CCCGTGTG
1 CCCGTGTG
31235007 CCCTTCACAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.25, C:0.33, G:0.31, T:0.12
Consensus pattern (22 bp):
CCCGTGTGGACACAAGGACACA
Found at i:31236536 original size:48 final size:48
Alignment explanation
Indices: 31236484--31236622 Score: 170
Period size: 48 Copynumber: 2.9 Consensus size: 48
31236474 AACATGAAAT
* * * * * *
31236484 CACATACCAAGGCCGATGCCATATCCCAGATATAGTCTTACACTGGGA
1 CACATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCA
* * *
31236532 CACATATCAATGTCGATGCCATGTCCCAAACATGGTCTTACACTGGCT
1 CACATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCA
** *
31236580 GTCATATCAATGCTGATGCCATGTCCCAGACATGGTCTTACAC
1 CACATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACAC
31236623 GAGATCTCAT
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 77 1.00
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (48 bp):
CACATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCA
Found at i:31236633 original size:48 final size:48
Alignment explanation
Indices: 31236336--31236633 Score: 153
Period size: 48 Copynumber: 6.5 Consensus size: 48
31236326 TATCCTAGAT
* * * * *
31236336 ATGGTCTTATACGA-AGTCTCATGTCAGTGCCGATGCCATGTCCTAGAC
1 ATGGTCTTACACGAGA-TCTCATATCAATGCTGATGCCATGTCCCAGAC
* * * * *
31236384 ATGGTCTTATACAAGAGCTTATATC-A---T--TGCCATGTCCCA-TC
1 ATGGTCTTACACGAGATCTCATATCAATGCTGATGCCATGTCCCAGAC
* * * * * * *
31236425 ATGGTCATACATGAAATCTCATATCAA--C----GCCATATCCTAAAT
1 ATGGTCTTACACGAGATCTCATATCAATGCTGATGCCATGTCCCAGAC
* * * * * * * * *
31236467 ATGGTCTAACATGAAATCACATACCAAGGCCGATGCCATATCCCAGAT
1 ATGGTCTTACACGAGATCTCATATCAATGCTGATGCCATGTCCCAGAC
* * * *
31236515 ATAGTCTTACACTGGGA-CACATATCAATG-TCGATGCCATGTCCCAAAC
1 ATGGTCTTACAC-GAGATCTCATATCAATGCT-GATGCCATGTCCCAGAC
* *
31236563 ATGGTCTTACACTG-GCTGTCATATCAATGCTGATGCCATGTCCCAGAC
1 ATGGTCTTACAC-GAGATCTCATATCAATGCTGATGCCATGTCCCAGAC
31236611 ATGGTCTTACACGAGATCTCATA
1 ATGGTCTTACACGAGATCTCATA
31236634 AATTATGGTG
Statistics
Matches: 192, Mismatches: 43, Indels: 30
0.72 0.16 0.11
Matches are distributed among these distances:
41 28 0.15
42 35 0.18
44 1 0.01
47 2 0.01
48 122 0.64
49 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (48 bp):
ATGGTCTTACACGAGATCTCATATCAATGCTGATGCCATGTCCCAGAC
Found at i:31239328 original size:43 final size:42
Alignment explanation
Indices: 31239281--31239436 Score: 154
Period size: 43 Copynumber: 3.7 Consensus size: 42
31239271 CGTGAATTCG
*
31239281 TGTAAAACCATGTCTGGGACATTGGCATCACT-TTTGCTTTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCA-TATTTG-TTTACA
* * * *
31239324 TGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTA-G
1 TGTAAGACCATGTCTGGGACATTGGCATCATATTTG-TTTACA
* * * * *
31239366 TGTAAGACCTTATCTGGGACAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATC-ATATTTGTTTACA
* *
31239409 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
31239437 TGTATATGTT
Statistics
Matches: 90, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
42 29 0.32
43 61 0.68
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCATATTTGTTTACA
Found at i:31245726 original size:136 final size:138
Alignment explanation
Indices: 31245458--31245840 Score: 583
Period size: 136 Copynumber: 2.8 Consensus size: 138
31245448 TAGAAAAATG
* * * * *
31245458 AATTATATTCTTTTCAAAAAGAATATTAATTTCTATGTCTTTTATATTTTGATTGAAATTAATTA
1 AATTATATT-ATTTCCAAAAGAACATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTA
* * **
31245523 ATATAATTGTTTATGTTAATACCTTCGGTAAAATATATACAATTAATATTTTGTATAAATCAAAT
65 ATATAATTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATAAATCAAAT
31245588 TCATATATT
130 TCATATATT
* * *
31245597 AATTATATTATTTCCAAAA-AA-ATTAATTTCCATATCTTTTATATTTTGACCGAAATTAAGTAA
1 AATTATATTATTTCCAAAAGAACATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAA
* *
31245660 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAATTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATAAATCAAATT
31245725 CATATATT
131 CATATATT
* *
31245733 AATTATATTCTTTCCAAAAGAACACTAATTTCCATGTCTTTTATA-TTTGACTGAAATTAATTAA
1 AATTATATTATTTCCAAAAGAACATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAA
*
31245797 TATAATTTTTTATATTAATAAATTCGGTAAAATATATACAATTA
66 TATAATTATTTATATTAATAAATTCGGTAAAATATATACAATTA
31245841 TTCCTATATT
Statistics
Matches: 222, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
136 122 0.55
137 63 0.28
138 28 0.13
139 9 0.04
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.45
Consensus pattern (138 bp):
AATTATATTATTTCCAAAAGAACATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAA
TATAATTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATAAATCAAATT
CATATATT
Found at i:31246185 original size:17 final size:19
Alignment explanation
Indices: 31246143--31246186 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
31246133 ACGAAATTTT
*
31246143 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
31246162 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
31246180 AA-TATTA
1 AATTATTA
31246187 CTGCATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:31250728 original size:71 final size:71
Alignment explanation
Indices: 31250651--31250869 Score: 186
Period size: 71 Copynumber: 3.1 Consensus size: 71
31250641 TAATTTCGGT
31250651 CAAAATATAAAAGACATGGAAATTAATATTCTTTTAGAAAGAATATAATTAATATATGAATTTGA
1 CAAAATATAAAAGACATGGAAATTAATATTCTTTTAGAAAGAATATAATTAATATATGAATTTGA
31250716 TCCATA
66 TCCATA
* * * *** * ** * *
31250722 CAAAATAT-TAATA-AT----ATAAATATT-TTACCGAATTTATTAATATAAACAGTTATATTAA
1 CAAAATATAAAAGACATGGAAATTAATATTCTTTTAGAA---A-GAATATAATTA-ATATATGAA
* **
31250780 TTAAT-TTCGGT-
61 TT--TGATCCATA
31250791 CAAAATATAAAAGACATGGAAATTAATATTCTTTTAGAAAGAATATAATTAATATATGAATTTGA
1 CAAAATATAAAAGACATGGAAATTAATATTCTTTTAGAAAGAATATAATTAATATATGAATTTGA
31250856 TCCATA
66 TCCATA
31250862 CAAAATAT
1 CAAAATAT
31250870 TAATAATATA
Statistics
Matches: 104, Mismatches: 28, Indels: 32
0.63 0.17 0.20
Matches are distributed among these distances:
64 5 0.05
65 8 0.08
67 1 0.01
68 8 0.08
69 20 0.19
70 12 0.12
71 28 0.27
72 8 0.08
73 1 0.01
75 8 0.08
76 5 0.05
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.36
Consensus pattern (71 bp):
CAAAATATAAAAGACATGGAAATTAATATTCTTTTAGAAAGAATATAATTAATATATGAATTTGA
TCCATA
Found at i:31250795 original size:69 final size:69
Alignment explanation
Indices: 31250722--31250938 Score: 178
Period size: 69 Copynumber: 3.1 Consensus size: 69
31250712 TTGATCCATA
31250722 CAAAATATTAATAATATAAATATTTTACCGAATTTATTAATATAAACAGTTATATTAATTAATTT
1 CAAAATATTAATAATATAAATATTTTACCGAATTTATTAATATAAACAGTTATATTAATTAATTT
31250787 CGGT
66 CGGT
* * * *** * ** * *
31250791 CAAAATATAAAAGACATGGAAATTAATATTCTTTTAGAA---A-GAATATAATTA-ATATATGAA
1 CAAAATAT-TAATA-AT----ATAAATATT-TTACCGAATTTATTAATATAAACAGTTATATTAA
* **
31250851 TT--TGATCCAT
59 TTAAT-TTCGGT
31250861 ACAAAATATTAATAATATAAATATTTTACCGAATTTATTAATATAAACAGTTATATTAATTAATT
1 -CAAAATATTAATAATATAAATATTTTACCGAATTTATTAATATAAACAGTTATATTAATTAATT
31250926 TCGGT
65 TCGGT
31250931 CAAAATAT
1 CAAAATAT
31250939 AAAAGACATG
Statistics
Matches: 104, Mismatches: 28, Indels: 32
0.63 0.17 0.20
Matches are distributed among these distances:
64 5 0.05
65 8 0.08
67 1 0.01
68 8 0.08
69 28 0.27
70 12 0.12
71 20 0.19
72 8 0.08
73 1 0.01
75 8 0.08
76 5 0.05
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (69 bp):
CAAAATATTAATAATATAAATATTTTACCGAATTTATTAATATAAACAGTTATATTAATTAATTT
CGGT
Found at i:31250800 original size:140 final size:138
Alignment explanation
Indices: 31250417--31251381 Score: 1160
Period size: 138 Copynumber: 7.1 Consensus size: 138
31250407 GAGAGCATAG
* * * **** **
31250417 ATATAATTAATATAAGAATTTCATTCATACAAAATATTAATTGCCTATATTTTACATAATTTATT
1 ATATAATTAATATATGAATTTGATCCATACAAAATATTAATTATAAATATTTTACCGAATTTATT
* * * *
31250482 AATATAAACAGTTATATTAATTAATTTC-ATCCAAAATATAAAATACTTTGAAATTAATATTCTT
66 AATATAAACAGTTATATTAATTAATTTCGGT-CAAAATATAAAAGACATGGAAATTAATATTCTT
*
31250546 TTGGAAATG-
130 TTAGAAA-GA
* * * * * *
31250555 ATATAATTAATAGATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTGTT
1 ATATAATTAATATATGAATTTGATCCATACAAAATATTAATTATAAATATTTTACCGAATTTATT
31250620 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
66 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
31250685 TAGAAAGA
131 TAGAAAGA
31250693 ATATAATTAATATATGAATTTGATCCATACAAAATATTAATAATATAAATATTTTACCGAATTTA
1 ATATAATTAATATATGAATTTGATCCATACAAAATATTAAT--TATAAATATTTTACCGAATTTA
31250758 TTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCT
64 TTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCT
31250823 TTTAGAAAGA
129 TTTAGAAAGA
31250833 ATATAATTAATATATGAATTTGATCCATACAAAATATTAATAATATAAATATTTTACCGAATTTA
1 ATATAATTAATATATGAATTTGATCCATACAAAATATTAAT--TATAAATATTTTACCGAATTTA
*
31250898 TTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGTTAGAAA-GAATA-
64 TTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATG---GAAATTAATAT
**
31250961 -----T--AATTA
126 TCTTTTAGAAAGA
* * * * * *
31250967 ATAT-ATGAAT-T-TG-A-TTCATACA-A-AATATTAATAA-TATAAAGATTTTACCGAATTTAT
1 ATATAATTAATATATGAATTTGATCCATACAA-AATATTAATTATAAATATTTTACCGAATTTAT
* ** * *
31251024 TAATATAAATAGTT-TAATTAATTAATTTTAGTCAAAATATAAATGACATGAAAATTAATATTCT
65 TAATATAAACAGTTAT-ATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCT
* *
31251088 TTTGGAGAGA
129 TTTAGAAAGA
* * * * *
31251098 ATATAATTAATATATGAATTTGGTTCATACAAAATATTAATTTTATATATTTTACTGAATTTATT
1 ATATAATTAATATATGAATTTGATCCATACAAAATATTAATTATAAATATTTTACCGAATTTATT
* * * ** * * *
31251163 AATATGAACAATTATACTAATTAATTTAAGTCAAAATATATAAGATAAGGAAATTAATATTCTTT
66 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
*
31251228 TGGAAAGA
131 TAGAAAGA
* * * * *
31251236 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATATATT
1 ATATAATTAATATATGAATTTGATCCATACAAAATATTAATTATAAATATTTTACCGAATTTATT
* * *
31251301 AATATAAACATTTATATTAATTAATTTCGATCAAAATATAAAAGACATGGGAATTAATATTCTTT
66 AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
*
31251366 TGGAAAGA
131 TAGAAAGA
31251374 ATATAATT
1 ATATAATT
31251382 CCTTTTTTCT
Statistics
Matches: 727, Mismatches: 73, Indels: 54
0.85 0.09 0.06
Matches are distributed among these distances:
122 3 0.00
123 4 0.01
124 1 0.00
125 66 0.09
127 2 0.00
128 7 0.01
129 7 0.01
130 1 0.00
131 8 0.01
132 6 0.01
133 6 0.01
134 9 0.01
135 1 0.00
136 6 0.01
137 8 0.01
138 373 0.51
139 2 0.00
140 209 0.29
142 4 0.01
143 4 0.01
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATCCATACAAAATATTAATTATAAATATTTTACCGAATTTATT
AATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
TAGAAAGA
Found at i:31250969 original size:125 final size:125
Alignment explanation
Indices: 31250824--31251073 Score: 430
Period size: 125 Copynumber: 2.0 Consensus size: 125
31250814 TAATATTCTT
*
31250824 TTAGAAAGAATATAATTAATATATGAATTTGATCCATACAAAATATTAATAATATAAATATTTTA
1 TTAGAAAGAATATAATTAATATATGAATTTGATCCATACAAAATATTAATAATATAAAGATTTTA
*
31250889 CCGAATTTATTAATATAAACAG-TTATATTAATTAATTTCGGTCAAAATATAAAAGACATG
66 CCGAATTTATTAATATAAACAGTTTA-ATTAATTAATTTCAGTCAAAATATAAAAGACATG
*
31250949 TTAGAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATAATATAAAGATTTTA
1 TTAGAAAGAATATAATTAATATATGAATTTGATCCATACAAAATATTAATAATATAAAGATTTTA
* * *
31251014 CCGAATTTATTAATATAAATAGTTTAATTAATTAATTTTAGTCAAAATATAAATGACATG
66 CCGAATTTATTAATATAAACAGTTTAATTAATTAATTTCAGTCAAAATATAAAAGACATG
31251074 AAAATTAATA
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
125 115 0.97
126 3 0.03
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (125 bp):
TTAGAAAGAATATAATTAATATATGAATTTGATCCATACAAAATATTAATAATATAAAGATTTTA
CCGAATTTATTAATATAAACAGTTTAATTAATTAATTTCAGTCAAAATATAAAAGACATG
Found at i:31251002 original size:265 final size:268
Alignment explanation
Indices: 31250417--31251381 Score: 1137
Period size: 265 Copynumber: 3.6 Consensus size: 268
31250407 GAGAGCATAG
* * **** **
31250417 ATATAATTAATATAAGAATTTCATTCATACAAAATATTAAT--TGCCTATATTTTACATAATTTA
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATAATATAAATATTTTACCGAATTTA
* * * *
31250480 TTAATATAAACAGTTATATTAATTAATTTC-ATCCAAAATATAAAATACTTTGAAATTAATATTC
66 TTAATATAAACAGTTATATTAATTAATTTCGGT-CAAAATATAAAAGACATGGAAATTAATATTC
* * * *
31250544 TTTTGGAAATG-ATATAATTAATAGATGAATTTGATTCATACAAAATATTAATTGTATATATTTT
130 TTTTGGAAA-GAATATAATTAATATATGAATTTGATCCATACAAAATATTAATTATAAATATTTT
* * * * ** *
31250608 ACTGAATTTGTTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAA
194 ACCGAATTTATTAATATAAACAATTATACTAATTAATTTAAGTCAAAATATATAAG--AT---AA
**
31250673 TTAATATTCTTTTAGAAAGA
254 GGAA-A----TTTAGAAAGA
*
31250693 ATATAATTAATATATGAATTTGATCCATACAAAATATTAATAATATAAATATTTTACCGAATTTA
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATAATATAAATATTTTACCGAATTTA
31250758 TTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCT
66 TTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCT
*
31250823 TTTAGAAAGAATATAATTAATATATGAATTTGATCCATACAAAATATTAATAATATAAATATTTT
131 TTTGGAAAGAATATAATTAATATATGAATTTGATCCATACAAAATATTAAT--TATAAATATTTT
* * ** *
31250888 ACCGAATTTATTAATATAAACAGTTATATTAATTAATTTCGGTC-AAA-ATAT-A-A-AA-GACA
194 ACCGAATTTATTAATATAAACAATTATACTAATTAATTTAAGTCAAAATATATAAGATAAGGAAA
31250947 TGTTAGAAAGA
259 T-TTAGAAAGA
*
31250958 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATAATATAAAGATTTTACCGAATTTA
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATAATATAAATATTTTACCGAATTTA
* ** * *
31251023 TTAATATAAATAGTT-TAATTAATTAATTTTAGTCAAAATATAAATGACATGAAAATTAATATTC
66 TTAATATAAACAGTTAT-ATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTC
* * * * *
31251087 TTTTGGAGAGAATATAATTAATATATGAATTTGGTTCATACAAAATATTAATTTTATATATTTTA
130 TTTTGGAAAGAATATAATTAATATATGAATTTGATCCATACAAAATATTAATTATAAATATTTTA
* *
31251152 CTGAATTTATTAATATGAACAATTATACTAATTAATTTAAGTCAAAATATATAAGATAAGGAAAT
195 CCGAATTTATTAATATAAACAATTATACTAATTAATTTAAGTCAAAATATATAAGATAAGGAAAT
31251217 TAATATTCTTTTGGAAAGA
260 T--TA--------GAAAGA
* * * *
31251236 ATATAATTAATATATGAATTTGATTCATACAAAATATTAAT--TGTATATATTTTATCGAATATA
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATAATATAAATATTTTACCGAATTTA
* * *
31251299 TTAATATAAACATTTATATTAATTAATTTCGATCAAAATATAAAAGACATGGGAATTAATATTCT
66 TTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCT
31251364 TTTGGAAAGAATATAATT
131 TTTGGAAAGAATATAATT
31251382 CCTTTTTTCT
Statistics
Matches: 607, Mismatches: 57, Indels: 50
0.85 0.08 0.07
Matches are distributed among these distances:
263 48 0.08
264 5 0.01
265 181 0.30
266 1 0.00
267 1 0.00
268 4 0.01
269 5 0.01
270 4 0.01
274 1 0.00
276 127 0.21
277 3 0.00
278 171 0.28
279 4 0.01
280 52 0.09
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (268 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATAATATAAATATTTTACCGAATTTA
TTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCT
TTTGGAAAGAATATAATTAATATATGAATTTGATCCATACAAAATATTAATTATAAATATTTTAC
CGAATTTATTAATATAAACAATTATACTAATTAATTTAAGTCAAAATATATAAGATAAGGAAATT
TAGAAAGA
Found at i:31260949 original size:137 final size:138
Alignment explanation
Indices: 31260682--31261198 Score: 755
Period size: 137 Copynumber: 3.8 Consensus size: 138
31260672 TAGAAAAACG
* * *
31260682 AATTATATTCTTTTCAAAGAGAATATTAATTTCCATGTCTTTTATTTTTTGACCGAAATTAATTA
1 AATTATATTCTTTCCAAA-ACAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTA
* * * *
31260747 ATATAATTTTTTATATTAATAAATTCGGTAAAATAGATACAACTAATATTTTGTATGAAT-TAAT
65 ATATAATTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
*
31260811 TCGTATATT
130 TCATATATT
* ** *
31260820 ATTTATATTCTTTCCAAAACAATATTAATTTTTATGTCTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAACAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
31260885 TATAAAT-TTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTTTATGAATCAAATT
66 TATAATTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
31260949 CATATATT
131 CATATATT
* * * *
31260957 AATCATATTCTTTCCAAAACAATATTAATTTTCATGTCTTTTATATTTTTACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAACAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
31261022 TATAATTGTTTATATAAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAATTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
31261087 CATATATT
131 CATATATT
* *
31261095 AATTATATTCTTTCCAAAA-GA-A-T-A---CCATGTCTTTTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAACAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
*
31261153 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAAT
66 TATAATTATTTATATTAATAAATTCGGTAAAATATATACAATTAAT
31261199 TTAATTCATG
Statistics
Matches: 348, Mismatches: 29, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
131 75 0.22
134 1 0.00
135 1 0.00
136 49 0.14
137 125 0.36
138 97 0.28
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.46
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAACAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAATTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:31264417 original size:43 final size:43
Alignment explanation
Indices: 31264369--31264527 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
31264359 AGCTCATACA
* *
31264369 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATAAAATAGTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATAAAATAGCG
** * * *
31264412 ATGCCATTGTTCCAGACAG-GGTCTTACACGAAATCAAATA-CG
1 ATGCCAACGTCCCAGAC-GTGGTCTTACACGTAATAAAATAGCG
* **
31264454 ATGCCAACGTCCTAGACGTGGTCTTACACGTAA-ATCATAAGCCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATAAAAT-AG-CG
* * *
31264498 ATGCCAATGTCCCAGATGTGGTCTCACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
31264528 AAAACACATA
Statistics
Matches: 92, Mismatches: 19, Indels: 9
0.77 0.16 0.08
Matches are distributed among these distances:
41 3 0.03
42 28 0.30
43 32 0.35
44 29 0.32
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATAAAATAGCG
Found at i:31264543 original size:44 final size:44
Alignment explanation
Indices: 31264369--31264551 Score: 132
Period size: 44 Copynumber: 4.2 Consensus size: 44
31264359 AGCTCATACA
* *
31264369 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATAA-A-ATAGT--G
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AA-AACACATA-TCCG
* * * *
31264412 ATGCCATTGTTCCAGACAG-GGTCTTACACGAAATCA-A-ATACG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGAAAACACATATCCG
* * * * *
31264454 ATGCCAACGTCCTAGACGTGGTCTTACACGTAAA-TCATAAGCCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAAACACAT-ATCCG
* *
31264498 ATGCCAATGTCCCAGATGTGGTCTCACACGAAAACACATATCCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAAACACATATCCG
*
31264542 AT-CCTATGTC
1 ATGCCAATGTC
31264552 ATGACATATG
Statistics
Matches: 109, Mismatches: 22, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 32 0.29
43 31 0.28
44 39 0.36
45 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAAAACACATATCCG
Found at i:31266380 original size:47 final size:47
Alignment explanation
Indices: 31266282--31266408 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 47
31266272 AATCGATAAG
* * * * *
31266282 TACCTTTACCATGGCCCATAGCCAAATCAAGGTAAGTTATCTTGGAG
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTTGGAA
* *
31266329 TACCTATACCGTGGCCCGTAGCCAAATCAAGGTAACTCCTCTCT-GAA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCT-TGGAA
* *
31266376 TACCTCTACCATGG-CCGTAGCAAAATCAAGGTA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTA
31266409 TTATTCGCAC
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
46 18 0.26
47 50 0.72
48 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (47 bp):
TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTTGGAA
Found at i:31266999 original size:209 final size:209
Alignment explanation
Indices: 31266639--31267058 Score: 840
Period size: 209 Copynumber: 2.0 Consensus size: 209
31266629 TTATGCGATA
31266639 TTAAAGCATATAACATACATTTATAATGAAATTATCACATACGAACTTACCTCGGATACTAAAAC
1 TTAAAGCATATAACATACATTTATAATGAAATTATCACATACGAACTTACCTCGGATACTAAAAC
31266704 TGTGAATCAAATCGTTTAGTTGATAACTTTAGTTTTCCCCCGATCTAGATCTGAATTCCTCCTTT
66 TGTGAATCAAATCGTTTAGTTGATAACTTTAGTTTTCCCCCGATCTAGATCTGAATTCCTCCTTT
31266769 CTTGATCTAAATATATTCAAAATTAAAACATTTAATCACCAACTCATTCAATTTAATCCACAACC
131 CTTGATCTAAATATATTCAAAATTAAAACATTTAATCACCAACTCATTCAATTTAATCCACAACC
31266834 ACATATTTGGGCAT
196 ACATATTTGGGCAT
31266848 TTAAAGCATATAACATACATTTATAATGAAATTATCACATACGAACTTACCTCGGATACTAAAAC
1 TTAAAGCATATAACATACATTTATAATGAAATTATCACATACGAACTTACCTCGGATACTAAAAC
31266913 TGTGAATCAAATCGTTTAGTTGATAACTTTAGTTTTCCCCCGATCTAGATCTGAATTCCTCCTTT
66 TGTGAATCAAATCGTTTAGTTGATAACTTTAGTTTTCCCCCGATCTAGATCTGAATTCCTCCTTT
31266978 CTTGATCTAAATATATTCAAAATTAAAACATTTAATCACCAACTCATTCAATTTAATCCACAACC
131 CTTGATCTAAATATATTCAAAATTAAAACATTTAATCACCAACTCATTCAATTTAATCCACAACC
31267043 ACATATTTGGGCAT
196 ACATATTTGGGCAT
31267057 TT
1 TT
31267059 TTACACTTTA
Statistics
Matches: 211, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
209 211 1.00
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (209 bp):
TTAAAGCATATAACATACATTTATAATGAAATTATCACATACGAACTTACCTCGGATACTAAAAC
TGTGAATCAAATCGTTTAGTTGATAACTTTAGTTTTCCCCCGATCTAGATCTGAATTCCTCCTTT
CTTGATCTAAATATATTCAAAATTAAAACATTTAATCACCAACTCATTCAATTTAATCCACAACC
ACATATTTGGGCAT
Found at i:31268237 original size:39 final size:39
Alignment explanation
Indices: 31268222--31268374 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
31268212 CTGGACATAT
* *
31268222 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGTTGTAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
31268261 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
* * *
31268300 TTCTAGCACATAGCCTGTGGACCCTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
* * *
31268339 TTCCAGCACATAGCCTGTGGACCCTAAGTCCAGATA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATA
31268375 AACATCAATG
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 107 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
Found at i:31276572 original size:78 final size:78
Alignment explanation
Indices: 31276453--31276677 Score: 210
Period size: 78 Copynumber: 2.9 Consensus size: 78
31276443 ACTTGAAACC
* ** * * *
31276453 AATTACCAGCACA-AGCCTGCGAGAATTTAAACCCGGTATAATACCAGCTCGA-AGCCTGCGGGA
1 AATT-CCAACACATAGCCTGC-AGACCTTAAGCCCGGTATAATTCCAGCAC-ATAGCCTGCGGGA
*
31276516 -CTTTAGC-CTGGACAT
63 CCTTAAGCTC-GGACAT
* * *
31276531 ATTTCCAGCACGTAGCCTGCAGACCTTAAGCCCGGTTATAATTCCAGCACATAGCCTGC-GGACC
1 AATTCCAACACATAGCCTGCAGACCTTAAGCCCGG-TATAATTCCAGCACATAGCCTGCGGGACC
* *
31276595 TTAAGTTCGGATAT
65 TTAAGCTCGGACAT
* * *
31276609 AATTCCAACACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCTGC-GGACC
1 AATTCCAACACATAGCCTGCAGACCTTAAGCCCGG-TATAATTCCAGCACATAGCCTGCGGGACC
*
31276673 CTAAG
65 TTAAG
31276678 TCCGGATAAA
Statistics
Matches: 124, Mismatches: 18, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
77 23 0.19
78 100 0.81
79 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (78 bp):
AATTCCAACACATAGCCTGCAGACCTTAAGCCCGGTATAATTCCAGCACATAGCCTGCGGGACCT
TAAGCTCGGACAT
Found at i:31276576 original size:39 final size:39
Alignment explanation
Indices: 31276533--31276685 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
31276523 CTGGACATAT
* * * * *
31276533 TTCCAGCACGTAGCCTGCAGACCTTAAGCCCGGTTATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
* *
31276572 TTCCAGCACATAGCCTGCGGACCTTAAGTTCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
*
31276611 TTCCAACACATAGCCTGCGGACCCTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
31276650 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATA
31276686 AACATCACTG
Statistics
Matches: 105, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 105 1.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.22
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
Found at i:31288399 original size:40 final size:39
Alignment explanation
Indices: 31288257--31288406 Score: 117
Period size: 40 Copynumber: 3.8 Consensus size: 39
31288247 ACAGTAACTC
* * *
31288257 GCACGAATGCCTTCGGGA-CTCAACCCGGATTTAGTAGCTT
1 GCACGAAAGCCTTC-GGATCTTAGCCCGGATTTAGTA-CTT
* * * * *
31288297 GCTCGAAAGCCTTCAGATCTTAGTCCGAATTTAGTAACTC
1 GCACGAAAGCCTTCGGATCTTAGCCCGGATTTAGT-ACTT
* * * *
31288337 GCACGTATGCCGTCGGATCTTAGTCCGGATTTAGTCACTT
1 GCACGAAAGCCTTCGGATCTTAGCCCGGATTTAGT-ACTT
31288377 AGCAC-AAAGCCTTCGGGA-CTTAGCCCGGAT
1 -GCACGAAAGCCTTC-GGATCTTAGCCCGGAT
31288407 ATCATTCGAA
Statistics
Matches: 86, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
39 2 0.02
40 76 0.88
41 8 0.09
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACGAAAGCCTTCGGATCTTAGCCCGGATTTAGTACTT
Found at i:31294237 original size:25 final size:25
Alignment explanation
Indices: 31294185--31294295 Score: 71
Period size: 25 Copynumber: 4.5 Consensus size: 25
31294175 AATCGGTATG
* * *
31294185 CTCTTACGAGCTGTA-AATGGTAAC
1 CTCTTACGAGCTGAATAACGGTAAA
*
31294209 CTCTTTCGAGCTGAATAACGGTAAA
1 CTCTTACGAGCTGAATAACGGTAAA
* * * * *
31294234 CTCTTCCGATCTAAATAACGATAAG
1 CTCTTACGAGCTGAATAACGGTAAA
* * * * * *
31294259 CTCATGCGAGCTGAGTATCAGTAAG
1 CTCTTACGAGCTGAATAACGGTAAA
*
31294284 CTCATACGAGCT
1 CTCTTACGAGCT
31294296 AAAATCAAAA
Statistics
Matches: 68, Mismatches: 18, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
24 13 0.19
25 55 0.81
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.27
Consensus pattern (25 bp):
CTCTTACGAGCTGAATAACGGTAAA
Found at i:31296030 original size:29 final size:29
Alignment explanation
Indices: 31295988--31296046 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
31295978 CCGCATATGA
31295988 TTTCTAACGATCTGAAGCTACTTTCAAAC
1 TTTCTAACGATCTGAAGCTACTTTCAAAC
31296017 TTTCTAACGATCTGAAGCTACTTTCAAAC
1 TTTCTAACGATCTGAAGCTACTTTCAAAC
31296046 T
1 T
31296047 ATTTCGGATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.36
Consensus pattern (29 bp):
TTTCTAACGATCTGAAGCTACTTTCAAAC
Found at i:31298546 original size:29 final size:28
Alignment explanation
Indices: 31298513--31298573 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 28
31298503 TCGGATTATC
31298513 TGATTCAATATGAAATGTCTAACTATTCT
1 TGATTCAATATGAAATGTCTAACTATT-T
*
31298542 TGATTCAATATGAAATGTCTCACTATTT
1 TGATTCAATATGAAATGTCTAACTATTT
31298570 TGAT
1 TGAT
31298574 GTGACAGCCC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 5 0.16
29 26 0.84
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (28 bp):
TGATTCAATATGAAATGTCTAACTATTT
Found at i:31300410 original size:40 final size:39
Alignment explanation
Indices: 31300245--31300428 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
31300235 AAATTGAATG
* * *
31300245 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
31300285 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
31300325 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
31300365 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
31300404 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
31300429 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:31300453 original size:80 final size:81
Alignment explanation
Indices: 31300285--31300473 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
31300275 GCTGGAAATT
* * * *
31300285 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
31300350 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
31300366 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
31300429 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
31300445 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
31300474 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:31308527 original size:40 final size:39
Alignment explanation
Indices: 31308362--31308545 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
31308352 AAATTGAATG
* * *
31308362 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
31308402 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
31308442 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
31308482 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
31308521 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
31308546 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:31308570 original size:80 final size:81
Alignment explanation
Indices: 31308402--31308590 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
31308392 GCTGGAAATT
* * * *
31308402 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
31308467 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
31308483 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
31308546 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
31308562 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
31308591 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:31314948 original size:42 final size:42
Alignment explanation
Indices: 31314885--31314970 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
31314875 AAATGGTTTT
** * * *
31314885 ATAAGTTGGGTATCAGTGAAGCTCCCTACATGAGTTTAAGTG
1 ATAAGTTGGGTATCAACGAAGCTCCCCACATGAGCTAAAGTG
* *
31314927 ATAAGTTGTGTATCAACGAAGCTCCCCATATGAGCTAAAGTG
1 ATAAGTTGGGTATCAACGAAGCTCCCCACATGAGCTAAAGTG
31314969 AT
1 AT
31314971 TATGCTCCCT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29
Consensus pattern (42 bp):
ATAAGTTGGGTATCAACGAAGCTCCCCACATGAGCTAAAGTG
Found at i:31320956 original size:40 final size:40
Alignment explanation
Indices: 31320744--31320949 Score: 344
Period size: 40 Copynumber: 5.2 Consensus size: 40
31320734 AACCCAAGTA
* *
31320744 CCTTCGGGATTTAG-CCGGATATAG-CAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
31320783 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
31320823 CCTTCGGGACTTAGCCCGGATATGGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
31320863 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
31320903 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
31320943 CCTTCGG
1 CCTTCGG
31320950 ATCTTAGTCC
Statistics
Matches: 157, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 13 0.08
40 143 0.91
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:31328473 original size:92 final size:91
Alignment explanation
Indices: 31328361--31328530 Score: 295
Period size: 92 Copynumber: 1.9 Consensus size: 91
31328351 CGCCCATAAG
* *
31328361 CGAACTCGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31328426 CGAGCTCGGATGCCTAGTTACATTCA
66 CGAGCTCGGATGCCTAGTTACATTCA
*
31328452 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTC-GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
31328517 ACGAGTTCGGATGC
65 ACGAGCTCGGATGC
31328531 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
91 7 0.09
92 67 0.91
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (91 bp):
CGAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATTCA
Found at i:31328527 original size:46 final size:46
Alignment explanation
Indices: 31328354--31328527 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
31328344 TGTAACCCGC
* *
31328354 CCATAAGCGAACTC-GACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
31328399 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* * *
31328445 ACATTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA-TAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
31328491 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
31328528 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 15 0.14
46 83 0.76
47 2 0.02
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:31328546 original size:46 final size:46
Alignment explanation
Indices: 31328362--31328546 Score: 127
Period size: 46 Copynumber: 4.0 Consensus size: 46
31328352 GCCCATAAGC
** * *
31328362 GAACTC-GACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T-AGT
* *
31328407 GAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATTC-A-C
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATCCTAGT
* * * * *
31328453 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCCTAGT
*
31328499 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
31328545 GA
1 GA
31328547 CATGTCACTT
Statistics
Matches: 112, Mismatches: 13, Indels: 29
0.73 0.08 0.19
Matches are distributed among these distances:
44 9 0.08
45 8 0.07
46 85 0.76
47 1 0.01
48 4 0.04
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
Found at i:31332590 original size:40 final size:40
Alignment explanation
Indices: 31332524--31332690 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
31332514 GAATTGAATG
* * *
31332524 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
31332563 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
31332603 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
31332643 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
31332683 ATATCCGG
1 ATATCCGG
31332691 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:31340665 original size:40 final size:40
Alignment explanation
Indices: 31340500--31340667 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
31340490 AGATTGAATG
* * * **
31340500 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGATT
* * * **
31340540 ATATCCGGGTTAAGACTCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
* *
31340580 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTTCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGATT
* *
31340620 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGATT
31340660 ATATCCGG
1 ATATCCGG
31340668 TTATATTCCG
Statistics
Matches: 102, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
39 4 0.04
40 96 0.94
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
Found at i:31342788 original size:43 final size:42
Alignment explanation
Indices: 31342733--31342890 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 42
31342723 AACATATACA
31342733 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAA-ATCG
* * * * *
31342776 ATGCC-ACTGTCCCAGATAG-GGTCTTACAAGAAATC-AGATACA
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACATGTAATCAAAAT-CG
* ** * * *
31342818 ATTCCAATATCCCAGACATGGTCTTA-ATGTAAAACAGAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCA-AAATCG
*
31342861 ATGCCAACGTCCCAGACGTGGTGTTACATG
1 ATGCCAACGTCCCAGACGTGGTCTTACATG
31342891 AAATTAGATA
Statistics
Matches: 85, Mismatches: 21, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
41 4 0.05
42 25 0.29
43 50 0.59
44 6 0.07
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAAATCG
Found at i:31351486 original size:14 final size:14
Alignment explanation
Indices: 31351469--31351496 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31351459 ATGCTTGTCT
31351469 CATAAAATTAAAAG
1 CATAAAATTAAAAG
31351483 CATAAAATTAAAAG
1 CATAAAATTAAAAG
31351497 ACTCTGACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.07, G:0.07, T:0.21
Consensus pattern (14 bp):
CATAAAATTAAAAG
Found at i:31368264 original size:68 final size:68
Alignment explanation
Indices: 31368155--31368295 Score: 255
Period size: 68 Copynumber: 2.1 Consensus size: 68
31368145 TCTTAAGTCT
* *
31368155 AGCATCATATAATGTTAAATCATGCATCGTCTAATAGGTCATTATTATAACGCTTATGTACTCAT
1 AGCATCATATAATGTTAAATCATGCATCGTCTAATAGGTCATTATCATAACGCTTACGTACTCAT
31368220 TCA
66 TCA
*
31368223 AGCATCATATAGTGTTAAATCATGCATCGTCTAATAGGTCATTATCATAACGCTTACGTACTCAT
1 AGCATCATATAATGTTAAATCATGCATCGTCTAATAGGTCATTATCATAACGCTTACGTACTCAT
31368288 TCA
66 TCA
31368291 AGCAT
1 AGCAT
31368296 AGAACATATT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (68 bp):
AGCATCATATAATGTTAAATCATGCATCGTCTAATAGGTCATTATCATAACGCTTACGTACTCAT
TCA
Found at i:31385609 original size:50 final size:50
Alignment explanation
Indices: 31385538--31385633 Score: 183
Period size: 50 Copynumber: 1.9 Consensus size: 50
31385528 CCCTTTTCAC
*
31385538 TATTCGTATGAATCTCGTACGTACCTGAGTCACTTAACTCATTCACTCAA
1 TATTCGTATGAATCTCATACGTACCTGAGTCACTTAACTCATTCACTCAA
31385588 TATTCGTATGAATCTCATACGTACCTGAGTCACTTAACTCATTCAC
1 TATTCGTATGAATCTCATACGTACCTGAGTCACTTAACTCATTCAC
31385634 ACATTCTTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.34
Consensus pattern (50 bp):
TATTCGTATGAATCTCATACGTACCTGAGTCACTTAACTCATTCACTCAA
Found at i:31385780 original size:43 final size:44
Alignment explanation
Indices: 31385713--31385840 Score: 156
Period size: 43 Copynumber: 3.0 Consensus size: 44
31385703 ATATAGCTCG
* *
31385713 TACAATGCCATAT--CCCAGATATGGTCTTACATGTTATCACATA
1 TACAATGCCA-ATGCCCCAGACATGGTCTTACATGTAATCACATA
* **
31385756 T-CGATGCCAATGCCCCAGACATGGTCTTACACATAATCACA-A
1 TACAATGCCAATGCCCCAGACATGGTCTTACATGTAATCACATA
* *
31385798 TACAATGCCAATGTCCAAGACATGGTCTTACATGTAATCACAT
1 TACAATGCCAATGCCCCAGACATGGTCTTACATGTAATCACAT
31385841 CTCGGTAATC
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
41 2 0.03
42 9 0.13
43 60 0.85
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (44 bp):
TACAATGCCAATGCCCCAGACATGGTCTTACATGTAATCACATA
Found at i:31387966 original size:42 final size:43
Alignment explanation
Indices: 31387914--31388011 Score: 162
Period size: 43 Copynumber: 2.3 Consensus size: 43
31387904 TACTATAGAA
* *
31387914 CATGAACTTTAGTGGCGC-TTTATCACAAATGCCGCTAAAGAG
1 CATGACCTTTAGCGGCGCTTTTATCACAAATGCCGCTAAAGAG
*
31387956 CATGACCTTTAGCGGCGCTTTTATCACAAATGCTGCTAAAGAG
1 CATGACCTTTAGCGGCGCTTTTATCACAAATGCCGCTAAAGAG
31387999 CATGACCTTTAGC
1 CATGACCTTTAGC
31388012 TCTGTAACGG
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 16 0.31
43 36 0.69
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (43 bp):
CATGACCTTTAGCGGCGCTTTTATCACAAATGCCGCTAAAGAG
Found at i:31388464 original size:21 final size:21
Alignment explanation
Indices: 31388426--31388475 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
31388416 TTCTGCTCTG
*
31388426 CTCTGCTTCCCTCGCTGCTAC
1 CTCTGCTTCCCTCACTGCTAC
* *
31388447 CTCTGCTTCCCTTACTGCTGC
1 CTCTGCTTCCCTCACTGCTAC
*
31388468 CTCCGCTT
1 CTCTGCTT
31388476 TAAGTTTTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.04, C:0.46, G:0.14, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCACTGCTAC
Found at i:31392195 original size:31 final size:31
Alignment explanation
Indices: 31392123--31392262 Score: 246
Period size: 31 Copynumber: 4.5 Consensus size: 31
31392113 TTTAACAGTT
*
31392123 ACTGGGCCGGAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
31392154 ACT-GGCCGAAGCCATTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
31392184 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
31392215 ACTGGGCCGAAGCCTTTTCGTAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
31392246 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
31392263 ACTGTAAACG
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
30 28 0.27
31 76 0.73
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:31392253 original size:62 final size:61
Alignment explanation
Indices: 31392089--31392262 Score: 250
Period size: 62 Copynumber: 2.9 Consensus size: 61
31392079 TTAGTCTTGA
* *
31392089 CATAT-ACTGGGCCGAAGCCTTTCGTTTAA-CAGT-T-ACTGGGCCGGAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCG-TAAATCA-TATCACTGGGCCGAAGCCTTTTCATAAAT
*
31392148 CATATCACT-GGCCGAAGCCATTTCATAAATCATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCC-TTTCGTAAATCATATCACTGGGCCGAAGCCTTTTCATAAAT
31392209 CATATCACTGGGCCGAAGCCTTTTCGTAAATCATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCC-TTTCGTAAATCATATCACTGGGCCGAAGCCTTT
31392263 ACTGTAAACG
Statistics
Matches: 104, Mismatches: 5, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
59 19 0.18
60 10 0.10
61 33 0.32
62 42 0.40
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (61 bp):
CATATCACTGGGCCGAAGCCTTTCGTAAATCATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:31392333 original size:42 final size:42
Alignment explanation
Indices: 31392286--31392377 Score: 184
Period size: 42 Copynumber: 2.2 Consensus size: 42
31392276 TGGCCCTTAG
31392286 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
31392328 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
31392370 GCCCATTT
1 GCCCATTT
31392378 GGGGAGACTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:31392553 original size:25 final size:25
Alignment explanation
Indices: 31392525--31392594 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
31392515 CTCTTTTAAT
31392525 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
* *
31392550 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
31392575 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
31392595 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 36 0.90
26 4 0.10
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:31393468 original size:27 final size:27
Alignment explanation
Indices: 31393408--31393470 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
31393398 GTATATTCGA
31393408 CATTTTACCATACAGGGGTATTACGGT
1 CATTTTACCATACAGGGGTATTACGGT
* *
31393435 CACTTTACCCTACAGGGGCT-TTACGGT
1 CATTTTACCATACAGGGG-TATTACGGT
*
31393462 CTTTTTACC
1 CATTTTACC
31393471 TATTAGAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (27 bp):
CATTTTACCATACAGGGGTATTACGGT
Found at i:31393554 original size:27 final size:27
Alignment explanation
Indices: 31393528--31393684 Score: 124
Period size: 27 Copynumber: 5.7 Consensus size: 27
31393518 ATCTACAAAC
*
31393528 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
31393555 CAATGGTATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT--AAA-T
31393584 CAAGGGTATTTCTA-TAATTTTGTAAAT
1 CAAGGGTATTTC-AGTAATTTTGTAAAT
* **
31393611 CAGGGGTATTTTGGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* ** **
31393638 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
**
31393665 TGAGGGTATTTC-GATAATTT
1 CAAGGGTATTTCAG-TAATTT
31393685 CACAAACCAG
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
26 2 0.02
27 81 0.73
28 7 0.06
29 20 0.18
30 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.43
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:31393672 original size:54 final size:53
Alignment explanation
Indices: 31393598--31393736 Score: 161
Period size: 54 Copynumber: 2.6 Consensus size: 53
31393588 GGTATTTCTA
** *** *
31393598 TAATTTTGTAAATCAGGGGTATTTTGGTAATTTTGTAAATCAGGGGTATTTTGG
1 TAATTTTACAAAT-AGGGGTATTTTGGTAATTTCACAAACCAGGGGTATTTTGG
* * * *
31393652 TAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAGTGGTATTTTGG
1 TAATTTTACAAATAG-GGGTATTTTGGTAATTTCACAAACCAGGGGTATTTTGG
*
31393706 TAATTTTACAACTAGGGGTATTTTGGTAATT
1 TAATTTTACAAATAGGGGTATTTTGGTAATT
31393737 CTACCCTACA
Statistics
Matches: 70, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
53 15 0.21
54 55 0.79
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (53 bp):
TAATTTTACAAATAGGGGTATTTTGGTAATTTCACAAACCAGGGGTATTTTGG
Found at i:31393705 original size:81 final size:80
Alignment explanation
Indices: 31393586--31393736 Score: 212
Period size: 81 Copynumber: 1.9 Consensus size: 80
31393576 TAGAAAGTCA
* *** * **
31393586 AGGGTATTTCTATAATTTTGTAAATCAGGGGTATTTTGGTAATTTTGTAAATCAGGGGTATTTTG
1 AGGGTATTTCGATAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAAT-AGGGGTATTTTG
31393651 GTAATTTTACAAATTG
65 GTAATTTTACAAATTG
* *
31393667 AGGGTATTTCGATAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAACTAGGGGTATTTTGG
1 AGGGTATTTCGATAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAATAGGGGTATTTTGG
31393732 TAATT
66 TAATT
31393737 CTACCCTACA
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 18 0.30
81 43 0.70
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.42
Consensus pattern (80 bp):
AGGGTATTTCGATAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAATAGGGGTATTTTGG
TAATTTTACAAATTG
Found at i:31393731 original size:26 final size:26
Alignment explanation
Indices: 31393598--31393736 Score: 143
Period size: 27 Copynumber: 5.2 Consensus size: 26
31393588 GGTATTTCTA
**
31393598 TAATTTTGTAAATCAGGGGTATTTTGG
1 TAATTTTACAAAT-AGGGGTATTTTGG
**
31393625 TAATTTTGTAAATCAGGGGTATTTTGG
1 TAATTTTACAAAT-AGGGGTATTTTGG
* * *
31393652 TAATTTTACAAATTGAGGGTATTTCGA
1 TAATTTTACAAATAG-GGGTATTTTGG
* * *
31393679 TAATTTCACAAACCAGTGGTATTTTGG
1 TAATTTTACAAA-TAGGGGTATTTTGG
*
31393706 TAATTTTACAACTAGGGGTATTTTGG
1 TAATTTTACAAATAGGGGTATTTTGG
31393732 TAATT
1 TAATT
31393737 CTACCCTACA
Statistics
Matches: 95, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
26 18 0.19
27 76 0.80
28 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (26 bp):
TAATTTTACAAATAGGGGTATTTTGG
Found at i:31393764 original size:80 final size:81
Alignment explanation
Indices: 31393586--31393765 Score: 195
Period size: 81 Copynumber: 2.2 Consensus size: 81
31393576 TAGAAAGTCA
* *** * * **
31393586 AGGGTATTTCTATAATTTTGTAAATCAGGGGTATTTTGGTAATTTTGTAAATCAGGGGTATTTTG
1 AGGGTATTTCGATAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTG
* **
31393651 GTAATTTTACAAATTG
66 GTAATTCTACAAACAG
*
31393667 AGGGTATTTCGATAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAACT-AGGGGTATTTTG
1 AGGGTATTTCGATAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTG
**
31393731 GTAATTCTACCCTACAG
66 GTAATTCTA-CAAACAG
31393748 -GGGTATTTCAGA-AATTTC
1 AGGGTATTTC-GATAATTTC
31393766 TCAATCGAGG
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
80 35 0.42
81 48 0.58
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (81 bp):
AGGGTATTTCGATAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTG
GTAATTCTACAAACAG
Found at i:31393816 original size:27 final size:27
Alignment explanation
Indices: 31393772--31393859 Score: 77
Period size: 27 Copynumber: 3.3 Consensus size: 27
31393762 TTTCTCAATC
* * *
31393772 GAGGGTAAAACGGTAATTTTGTAAATT
1 GAGGGTAAAACAGCAATTCTGTAAATT
* *
31393799 GAGGGTAAAATAGCAATTCTGTAAATC
1 GAGGGTAAAACAGCAATTCTGTAAATT
* * * * * *
31393826 AAGTGTCAAACAGTAATTCTATAAATC
1 GAGGGTAAAACAGCAATTCTGTAAATT
31393853 GAGGGTA
1 GAGGGTA
31393860 TTTGGTAATT
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
GAGGGTAAAACAGCAATTCTGTAAATT
Found at i:31396546 original size:121 final size:121
Alignment explanation
Indices: 31396336--31396558 Score: 299
Period size: 121 Copynumber: 1.8 Consensus size: 121
31396326 TGGGATCCCT
* * * *
31396336 AAATCCCCAAATCAGCCACACGGTCGTATGGCCAGGCCGTGTGACTTCAAATCTCTGAAACCCTA
1 AAATCCCCAAATCAGCCACACAGTCATATAGCCAGGCCGTGTAACTTCAAATCTCTGAAACCCTA
*
31396401 ATTCCCAAACCCACACATCCGTGTGCCAAATGGACACAGTCGTGTGAATTCTAACA
66 ATTCCCAAACCCACACATCCGTGTGCCAAAGGGACACAGTCGTGTGAATTCTAACA
* *
31396457 AAATCCCCAAATC-GACCACACAGTCATGTAGCCAGGCTGTGTAAC-TCTAAATCTCTGAAACCC
1 AAATCCCCAAATCAG-CCACACAGTCATATAGCCAGGCCGTGTAACTTC-AAATCTCTGAAACCC
* * * *
31396520 TAATTCCTAAACCCATACA-CTTGTGTGCCCAAGGGACAC
64 TAATTCCCAAACCCACACATC-CGTGTGCCAAAGGGACAC
31396559 GACCGTGTGG
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
120 4 0.05
121 84 0.95
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.21
Consensus pattern (121 bp):
AAATCCCCAAATCAGCCACACAGTCATATAGCCAGGCCGTGTAACTTCAAATCTCTGAAACCCTA
ATTCCCAAACCCACACATCCGTGTGCCAAAGGGACACAGTCGTGTGAATTCTAACA
Found at i:31397519 original size:43 final size:44
Alignment explanation
Indices: 31397389--31397679 Score: 233
Period size: 44 Copynumber: 6.8 Consensus size: 44
31397379 CAAAAGTTCA
* * * *
31397389 CGGCG-TTTTTTATAAAAGCGCCGCTGA-AGACCAGGACCTTTAG
1 CGGCGCTTTTGTAAAAAAGCGCCGCT-ATAGACCAAGAACTTTAG
* * * * * * * * *
31397432 CGGCGC-TCT-TAAAAAA-TGCTGCCAAAGACCAGGACCTATGG
1 CGGCGCTTTTGTAAAAAAGCGCCGCTATAGACCAAGAACTTTAG
* * *
31397473 CGGCG-TTTTTTAAAAAAGCACCGCTATAGGCCAAGAACTTTAG
1 CGGCGCTTTTGTAAAAAAGCGCCGCTATAGACCAAGAACTTTAG
* * *
31397516 CGGCGCTTTTTTTAAAAAA-CGCCGCTATAGACC-TGTACTTTTAG
1 CGGCGC-TTTTGTAAAAAAGCGCCGCTATAGACCAAGAAC-TTTAG
*
31397560 CGGCGCTTTTGT-AAAAAGCGCCGCTATAGACCAAGAGCTTTAG
1 CGGCGCTTTTGTAAAAAAGCGCCGCTATAGACCAAGAACTTTAG
* * * *
31397603 CGGCGCTTCTGTAAAAAAACGCCGCTATAGACC-TGTACTTTTAG
1 CGGCGCTTTTGTAAAAAAGCGCCGCTATAGACCAAGAAC-TTTAG
* * *
31397647 CGGCGCTTTTGCAAAAAAACGCCGTTATAGACC
1 CGGCGCTTTTGTAAAAAAGCGCCGCTATAGACC
31397680 TGTACTTTTA
Statistics
Matches: 202, Mismatches: 34, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
40 1 0.00
41 25 0.12
42 18 0.09
43 67 0.33
44 79 0.39
45 12 0.06
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (44 bp):
CGGCGCTTTTGTAAAAAAGCGCCGCTATAGACCAAGAACTTTAG
Found at i:31397541 original size:44 final size:44
Alignment explanation
Indices: 31397478--31397716 Score: 254
Period size: 44 Copynumber: 5.5 Consensus size: 44
31397468 TATGGCGGCG
* * * *
31397478 TTTTTTAAAAAAGCACCGCTATAGGCCAAGAAC-TTTAGCGGCGCT
1 TTTTTTAAAAAA-CGCCGCTATAGACC-TGTACTTTTAGCGGCGCT
31397523 TTTTTTAAAAAACGCCGCTATAGACCTGTACTTTTAGCGGCGC-
1 TTTTTTAAAAAACGCCGCTATAGACCTGTACTTTTAGCGGCGCT
* * *
31397566 TTTTGTAAAAAGCGCCGCTATAGACCAAG-AGC-TTTAGCGGCGCT
1 TTTTTTAAAAAACGCCGCTATAGACC-TGTA-CTTTTAGCGGCGCT
* * *
31397610 TCTGTAAAAAAACGCCGCTATAGACCTGTACTTTTAGCGGCGCT
1 TTTTTTAAAAAACGCCGCTATAGACCTGTACTTTTAGCGGCGCT
*** * *
31397654 TTTGCAAAAAAACGCCGTTATAGACCTGTACTTTTAGCGGTGC-
1 TTTTTTAAAAAACGCCGCTATAGACCTGTACTTTTAGCGGCGCT
* *
31397697 TTTTTCAAAAAATGCCGCTA
1 TTTTTTAAAAAACGCCGCTA
31397717 ATTTGCCCAG
Statistics
Matches: 166, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
43 56 0.34
44 98 0.59
45 12 0.07
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
TTTTTTAAAAAACGCCGCTATAGACCTGTACTTTTAGCGGCGCT
Found at i:31397707 original size:87 final size:86
Alignment explanation
Indices: 31397472--31397716 Score: 296
Period size: 87 Copynumber: 2.8 Consensus size: 86
31397462 AGGACCTATG
* * * * * * *
31397472 GCGGCGTTTTTTAAAAAAGCACCGCTATAGGCCAAGAACTTTAGCGGCGCTTTTTTTAAAAAACG
1 GCGGCGCTTTTGAAAAAAACGCCGCTATAGACCAAGAGCTTTAGCGGCGC-TTTTTAAAAAAACG
31397537 CCGCTATAGACCTGTACTTTTA
65 CCGCTATAGACCTGTACTTTTA
* * *
31397559 GCGGCGCTTTTGTAAAAAGCGCCGCTATAGACCAAGAGCTTTAGCGGCGCTTCTGTAAAAAAACG
1 GCGGCGCTTTTGAAAAAAACGCCGCTATAGACCAAGAGCTTTAGCGGCGCTT-TTTAAAAAAACG
31397624 CCGCTATAGACCTGTACTTTTA
65 CCGCTATAGACCTGTACTTTTA
* * * *
31397646 GCGGCGCTTTTGCAAAAAAACGCCGTTATAGACC-TGTA-CTTTTAGCGGTGCTTTTTCAAAAAA
1 GCGGCGCTTTTG-AAAAAAACGCCGCTATAGACCAAG-AGC-TTTAGCGGCGCTTTTTAAAAAAA
*
31397709 TGCCGCTA
63 CGCCGCTA
31397717 ATTTGCCCAG
Statistics
Matches: 138, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
86 2 0.01
87 105 0.76
88 31 0.22
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (86 bp):
GCGGCGCTTTTGAAAAAAACGCCGCTATAGACCAAGAGCTTTAGCGGCGCTTTTTAAAAAAACGC
CGCTATAGACCTGTACTTTTA
Found at i:31398046 original size:20 final size:21
Alignment explanation
Indices: 31398014--31398057 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
31398004 TCCTATTCTG
*
31398014 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCTCACTGCTGC
31398035 CTCCGCCT-CCTCACTGCTGC
1 CTCCGCCTCCCTCACTGCTGC
31398055 CTC
1 CTC
31398058 TGCTCTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.02, C:0.57, G:0.16, T:0.25
Consensus pattern (21 bp):
CTCCGCCTCCCTCACTGCTGC
Found at i:31398648 original size:17 final size:18
Alignment explanation
Indices: 31398614--31398650 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
31398604 TACAATATAG
*
31398614 TAGTAAAAATTTATTTAA
1 TAGTAAAAAGTTATTTAA
31398632 TAGTAAAAAGTTA-TTAA
1 TAGTAAAAAGTTATTTAA
31398649 TA
1 TA
31398651 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (18 bp):
TAGTAAAAAGTTATTTAA
Found at i:31404226 original size:21 final size:21
Alignment explanation
Indices: 31404202--31404241 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
31404192 AAATTAATTC
*
31404202 ATACTTAAGTTGAATCAAATA
1 ATACTTAAGTTGAACCAAATA
31404223 ATACTTAAGTTGAACCAAA
1 ATACTTAAGTTGAACCAAA
31404242 ATATAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.30
Consensus pattern (21 bp):
ATACTTAAGTTGAACCAAATA
Found at i:31409392 original size:15 final size:15
Alignment explanation
Indices: 31409374--31409404 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
31409364 TAAATAATAA
*
31409374 TATATATATTTATCT
1 TATATACATTTATCT
31409389 TATATACATTTATCT
1 TATATACATTTATCT
31409404 T
1 T
31409405 CTAAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (15 bp):
TATATACATTTATCT
Found at i:31409808 original size:25 final size:25
Alignment explanation
Indices: 31409773--31409824 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
31409763 TTTCTAGCTA
31409773 ATAGTTAAACAAATGCTAATTCCAC
1 ATAGTTAAACAAATGCTAATTCCAC
*
31409798 ATAGTTCAACAAATGCTAATTCCAC
1 ATAGTTAAACAAATGCTAATTCCAC
31409823 AT
1 AT
31409825 TCAAAATCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (25 bp):
ATAGTTAAACAAATGCTAATTCCAC
Found at i:31410289 original size:41 final size:41
Alignment explanation
Indices: 31410232--31410426 Score: 295
Period size: 41 Copynumber: 4.8 Consensus size: 41
31410222 GGTTTATGAC
* * *
31410232 TTTTAGCGGCGTTTTACCAAAACCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCACTAATGATCTGGT
* *
31410273 TTTTACCGGCGTTTTACCTAAAGCGCCACTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCACTAATGATCTGGT
*
31410314 TTTTAGCGGCGTTTTAACCCAAAGCGCCGCTAATGATCTGGTT
1 TTTTAGCGGCGTTTT-ACCCAAAGCGCCACTAATGATCTGG-T
31410357 TTTTAGCGGC--TTTACCCAAAGCGCCACTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCACTAATGATCTGGT
*
31410396 TTTTAGCGGCGTTTTACCTAAAGCGCCACTA
1 TTTTAGCGGCGTTTTACCCAAAGCGCCACTA
31410427 GTTCTCTATT
Statistics
Matches: 141, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 11 0.08
40 24 0.17
41 72 0.51
42 23 0.16
43 11 0.08
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCCAAAGCGCCACTAATGATCTGGT
Found at i:31410452 original size:41 final size:41
Alignment explanation
Indices: 31410407--31410490 Score: 109
Period size: 41 Copynumber: 2.0 Consensus size: 41
31410397 TTTAGCGGCG
*
31410407 TTTTACCTAAAGCGCCACTAGTT-CTCT-ATTTTAGTGGCGTT
1 TTTTA-CTAAAACGCCACT-GTTGCTCTGATTTTAGTGGCGTT
* *
31410448 TTTTACTAAAACGCCGCTGTTGCTCTGTTTTTAGTGGCGTT
1 TTTTACTAAAACGCCACTGTTGCTCTGATTTTAGTGGCGTT
31410489 TT
1 TT
31410491 CCTAAGACGC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
39 3 0.08
40 15 0.39
41 20 0.53
ACGTcount: A:0.17, C:0.20, G:0.19, T:0.44
Consensus pattern (41 bp):
TTTTACTAAAACGCCACTGTTGCTCTGATTTTAGTGGCGTT
Found at i:31415335 original size:68 final size:70
Alignment explanation
Indices: 31415263--31415460 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
31415253 ACACCCTGTA
* * * *
31415263 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
31415325 ATAAAT
65 ATAAAT
*
31415331 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
31415396 ATAAAT
65 ATAAAT
*
31415402 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
31415461 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:31415374 original size:41 final size:41
Alignment explanation
Indices: 31415329--31415446 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
31415319 TGAAAGATAA
31415329 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
31415370 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
31415400 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
31415441 ATGTAG
1 ATGTAG
31415447 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:31415386 original size:71 final size:71
Alignment explanation
Indices: 31415297--31415460 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
31415287 GAGATGTATC
31415297 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
31415362 AGGACA
66 AGGACA
31415368 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
31415433 AGGACA
66 AGGACA
31415439 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
31415461 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:31420482 original size:50 final size:50
Alignment explanation
Indices: 31420261--31420474 Score: 250
Period size: 50 Copynumber: 4.3 Consensus size: 50
31420251 TGGTACGCAC
*
31420261 AGTAGCCTGCACTTAGTACTACACATGCGACCTATCAGTCTGGTACACGT
1 AGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGT
* * * * * *
31420311 AGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGT
1 AGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGT
* * ** * * * *
31420361 AGTAGCCTACACTTAGTACTACACATGTGATCGAAGTTAA-CGGGTACGCAT
1 AGTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAATCTGGTACACGT
*
31420412 AGTGGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGT
1 AGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGT
*
31420462 AATAGCCTGCACT
1 AGTAGCCTGCACT
31420475 CAATACTATA
Statistics
Matches: 132, Mismatches: 29, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
49 3 0.02
50 92 0.70
51 36 0.27
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (50 bp):
AGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGT
Found at i:31420482 original size:101 final size:101
Alignment explanation
Indices: 31420310--31420491 Score: 247
Period size: 101 Copynumber: 1.8 Consensus size: 101
31420300 CTGGTACACG
* * * * *
31420310 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGATACACGTAATAGCCTACACTC
*
31420375 AGTACTACACATGTGATCGAAGTTAACGGGTACGCA
66 AATACTACACATGTGATCGAAGTTAACGGGTACGCA
* * * * *
31420411 TAGTGGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAATAGCCTGCACTC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGATACACGTAATAGCCTACACTC
* *
31420476 AATACTATATATGTGA
66 AATACTACACATGTGA
31420492 CTCACAACAG
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
101 68 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGATACACGTAATAGCCTACACTC
AATACTACACATGTGATCGAAGTTAACGGGTACGCA
Found at i:31420863 original size:19 final size:20
Alignment explanation
Indices: 31420835--31420881 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
31420825 AAGAACATGT
31420835 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
31420856 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
31420875 TATATAT
1 TATATAT
31420882 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:31435012 original size:49 final size:49
Alignment explanation
Indices: 31434958--31435177 Score: 197
Period size: 49 Copynumber: 4.6 Consensus size: 49
31434948 ACATCAAAGT
*
31434958 CGATGCCATGTCCTAGACAGGTCTGACACTGACTTTCATATATCGAGGC
1 CGATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATATATCGAGGC
* * * * *
31435007 CGATGCCATGTCCTAGACAGGTCTTACGCTGGCTCTCATCTATCG-GTGT
1 CGATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATATATCGAG-GC
* * * * * *
31435056 CGATGCCATGTCCCAGACAAGTCTAACACTGAC--ACACA-A-C-AAGC
1 CGATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATATATCGAGGC
* * *
31435100 TGACGCCATGTCCTAGACAGGTCTTACACT-AGCTTGT-ATATCTCGAGGC
1 CGATGCCATGTCCTAGACAGGTCTTACACTGA-CTT-TCATATATCGAGGC
* *
31435149 CGATG-CATGTCCCAGACATGTCTTACACT
1 CGATGCCATGTCCTAGACAGGTCTTACACT
31435178 AGCACACATA
Statistics
Matches: 133, Mismatches: 29, Indels: 19
0.73 0.16 0.10
Matches are distributed among these distances:
43 1 0.01
44 27 0.20
45 1 0.01
46 3 0.02
47 2 0.02
48 24 0.18
49 75 0.56
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (49 bp):
CGATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATATATCGAGGC
Found at i:31435153 original size:93 final size:92
Alignment explanation
Indices: 31435011--31435185 Score: 221
Period size: 93 Copynumber: 1.9 Consensus size: 92
31435001 CGAGGCCGAT
* * * *
31435011 GCCATGTCCTAGACAGGTCTTACGCTGGCTCTCATCTATCGGTGTCGATGCCATGTCCCAGACAA
1 GCCATGTCCTAGACAGGTCTTACACTAGCTCTCATATATCGGTGCCGATG-CATGTCCCAGACAA
31435076 GTCTAACACT-GACACACAACAAGCTGAC
65 GTCTAACACTAG-CACACAACAAGCTGAC
* *
31435104 GCCATGTCCTAGACAGGTCTTACACTAGCT-TGTATATCTCGAG-GCCGATGCATGTCCCAGACA
1 GCCATGTCCTAGACAGGTCTTACACTAGCTCT-CATATATCG-GTGCCGATGCATGTCCCAGACA
* *
31435167 TGTCTTACACTAGCACACA
64 AGTCTAACACTAGCACACA
31435186 TATCACCCAA
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
92 29 0.41
93 41 0.58
94 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (92 bp):
GCCATGTCCTAGACAGGTCTTACACTAGCTCTCATATATCGGTGCCGATGCATGTCCCAGACAAG
TCTAACACTAGCACACAACAAGCTGAC
Found at i:31439539 original size:18 final size:18
Alignment explanation
Indices: 31439505--31439539 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31439495 AGAGAGACCG
*
31439505 CAAACCAATTTTCAAATC
1 CAAACCAATTATCAAATC
*
31439523 CAAACCAATTATGAAAT
1 CAAACCAATTATCAAAT
31439540 AGTCATTAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.26
Consensus pattern (18 bp):
CAAACCAATTATCAAATC
Found at i:31440559 original size:2 final size:2
Alignment explanation
Indices: 31440552--31440576 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
31440542 TGCATTCTGA
31440552 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
31440577 CACACACACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31440591 original size:12 final size:12
Alignment explanation
Indices: 31440576--31440609 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
31440566 ATATATATAT
31440576 ACACACACACGC
1 ACACACACACGC
*
31440588 ACACGCACACGC
1 ACACACACACGC
31440600 ACACACACAC
1 ACACACACAC
31440610 AATATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.50, G:0.09, T:0.00
Consensus pattern (12 bp):
ACACACACACGC
Found at i:31442635 original size:29 final size:30
Alignment explanation
Indices: 31442592--31442660 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
31442582 AAGTTGTGAA
* * *
31442592 TTTAGTCCTTGTACTTT-AATTTGATCAAT
1 TTTAGTCCCTATACTTTCAAATTGATCAAT
*
31442621 TTTAGTCCCTATACTTTCAAATTGGTCAAT
1 TTTAGTCCCTATACTTTCAAATTGATCAAT
31442651 TTTAGTCCCT
1 TTTAGTCCCT
31442661 GTACATTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
29 15 0.43
30 20 0.57
ACGTcount: A:0.23, C:0.19, G:0.10, T:0.48
Consensus pattern (30 bp):
TTTAGTCCCTATACTTTCAAATTGATCAAT
Found at i:31443670 original size:205 final size:203
Alignment explanation
Indices: 31443320--31443705 Score: 621
Period size: 205 Copynumber: 1.9 Consensus size: 203
31443310 GTCGACACTG
* *
31443320 GTACGAGGGGATTTCCAGCTTGTCCGTGCTTCATAGTTTAGGAATGAAATGTCCTCTATAGTTTA
1 GTACGAGGGGATTTCCAGCGTGTCCGTGCTTCATAGGTTAGGAATGAAATGTCCTCTATAGTTTA
*
31443385 ATGGTTTGGATGATGTAGAGATGATATTTGATTTGTATCTCATATTATTATTGCAATGTATTATT
66 ATGGTTTGGATGATGTAGAGATGATATTTGATTTGTAACTCATATTATTATTGCAATGTATTATT
*
31443450 TGATGAGCTAGCATTAGCAAATTGAACAACAAATCTGATTACATCTCCATTTTCGGACAACGTGT
131 TGATGAGCTAGCATTAGCAAATTGAACAACAAATCTGATAACATCTCCATTTTCGGACAACGTGT
31443515 TGACACCA
196 TGACACCA
** ** * * *
31443523 GTACGAGGGGATTTCTGGCGTGTTTGTTCTTCGTAGGTTAGGAATGAAATGTCCTCTCTA-TTGA
1 GTACGAGGGGATTTCCAGCGTGTCCGTGCTTCATAGGTTAGGAATGAAATGTCCTCTATAGTT--
*
31443587 GTAATGGTTTGGATGATGTAGAGATGATGTTTGATTTGTAACTCATATTATTATTGCAATGTATT
64 -TAATGGTTTGGATGATGTAGAGATGATATTTGATTTGTAACTCATATTATTATTGCAATGTATT
*
31443652 ATTTGATGAGCTAGCATTAGCAAATTGAACAACAAATTTGATAACATCTCCATT
128 ATTTGATGAGCTAGCATTAGCAAATTGAACAACAAATCTGATAACATCTCCATT
31443706 CTAAGATATA
Statistics
Matches: 167, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
202 2 0.01
203 51 0.31
205 114 0.68
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.37
Consensus pattern (203 bp):
GTACGAGGGGATTTCCAGCGTGTCCGTGCTTCATAGGTTAGGAATGAAATGTCCTCTATAGTTTA
ATGGTTTGGATGATGTAGAGATGATATTTGATTTGTAACTCATATTATTATTGCAATGTATTATT
TGATGAGCTAGCATTAGCAAATTGAACAACAAATCTGATAACATCTCCATTTTCGGACAACGTGT
TGACACCA
Found at i:31448058 original size:26 final size:26
Alignment explanation
Indices: 31448029--31448110 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
31448019 TGGTACAAAT
31448029 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
31448055 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31448081 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31448107 TGAT
1 TGAT
31448111 GGACATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:31454992 original size:26 final size:26
Alignment explanation
Indices: 31454963--31455070 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
31454953 TGGTACAAAT
31454963 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
31454989 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31455015 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
31455041 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31455067 TGAT
1 TGAT
31455071 GGCATTTCAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:31460564 original size:40 final size:40
Alignment explanation
Indices: 31460520--31460631 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 40
31460510 ATGGTAACCC
* * * *
31460520 GCACAAAGGCCTTCGGGACTTAACCCGGAT-TTCACAATTT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATGTTCAC-ACTA
* **
31460560 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTTGTCACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATGTTCACACTA
*
31460600 GCACAATTGCCTTCGGGTCTTAACCCGGATGT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATGT
31460632 AATTACCAGC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 59 0.95
41 3 0.05
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATGTTCACACTA
Found at i:31460654 original size:40 final size:40
Alignment explanation
Indices: 31460520--31460661 Score: 128
Period size: 40 Copynumber: 3.5 Consensus size: 40
31460510 ATGGTAACCC
* * *
31460520 GCACAAAGGCCTTCGGGACTTAACCCGGAT-T--TCACAA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATGTAATCACCA
* ** *
31460557 TTTGCACAAATGCCTTCGGGTCTTAGCCCGGATGTTGTCACTA
1 ---GCACAAATGCCTTCGGGTCTTAACCCGGATGTAATCACCA
* *
31460600 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATGTAATCACCA
* * *
31460640 GCATAAATGTCTTCGGGACTTA
1 GCACAAATGCCTTCGGGTCTTA
31460662 GCCCATATAT
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
40 79 0.93
41 1 0.01
43 5 0.06
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATGTAATCACCA
Found at i:31465202 original size:30 final size:30
Alignment explanation
Indices: 31465168--31465224 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
31465158 TTTTCGAATA
*
31465168 TAGGGGTAAAATGGTCATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTCATTTTGCCAAAGTT
*
31465198 TAGGGGCAAAATGGTTATTTTGCCAAA
1 TAGGGGCAAAATGGTCATTTTGCCAAA
31465225 TGGTTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTGCCAAAGTT
Found at i:31465227 original size:16 final size:16
Alignment explanation
Indices: 31465206--31465240 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
31465196 TTTAGGGGCA
*
31465206 AAATGGTTATTTTGCC
1 AAATGGTTATTTTACC
31465222 AAATGGTTATTTTACC
1 AAATGGTTATTTTACC
31465238 AAA
1 AAA
31465241 GATGTGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (16 bp):
AAATGGTTATTTTACC
Found at i:31465686 original size:48 final size:45
Alignment explanation
Indices: 31465579--31465701 Score: 151
Period size: 47 Copynumber: 2.6 Consensus size: 45
31465569 TCATTTGTGT
31465579 GAGCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCACATTAGGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAG-C-CATTAGGA
* *
31465625 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCTG-CATTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCAGCCATT-AG--GA
*
31465673 GTGCTAGTGTAAGACATGTCTGGGACATG
1 GAGCTAGTGTAAGACATGTCTGGGACATG
31465702 CTTCGGCCTC
Statistics
Matches: 68, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
45 4 0.06
46 15 0.22
47 29 0.43
48 20 0.29
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.23
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCCATTAGGA
Found at i:31465761 original size:46 final size:46
Alignment explanation
Indices: 31465584--31465943 Score: 172
Period size: 46 Copynumber: 7.6 Consensus size: 46
31465574 TGTGTGAGCT
*
31465584 AGTGTAAGA-CATGTCTGGGACATGCATCAGC-C-ACAT-TAGGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCAGCACGAGATGTA--AGA--C
* * * *
31465630 AGTGTAAGACCATGTCTGGGACATGGCATCTGCATTGAGACG--AGTGC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCAGCA-CGAGATGTAAG-AC
* * *
31465677 TAGTGTAAGA-CATGTCTGGGACATGCTTCGGCCTCGAGATGTAAGAC
1 -AGTGTAAGACCATGTCTGGGACATGCATCAG-CACGAGATGTAAGAC
*
31465724 AGTGTAAGA-CATGTCTGGGACATGCATCAGCTACGAGATGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGCATCAGC-ACGAGATGTAAGAC
* * * * * *
31465768 CGTGTAAGACCAGGTTTAGGACATGGCATCGGCACGAATATGTGAA-AGC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCAGCACG-AGATGT-AAGA-C
* * * * * *
31465817 TAGTGTAAGACCATGTCTGGGACATGGCGTCGGC-CTCAAATTTGATAGTC
1 -AGTGTAAGACCATGTCTGGGACAT-GCATCAGCAC-GAGATGT-A-AGAC
* ** * *
31465867 AGTATAAGACCATGTCTGGGACATTGCATC-G-ACTTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACA-TGCATCAGCACGAGAT-G-TAAGAC
*
31465914 AGTGTAAGACCATGTCTAGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACAT-GCATC
31465944 GGTATTATAC
Statistics
Matches: 245, Mismatches: 41, Indels: 55
0.72 0.12 0.16
Matches are distributed among these distances:
44 10 0.04
45 15 0.06
46 68 0.28
47 62 0.25
48 22 0.09
49 35 0.14
50 31 0.13
51 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCAGCACGAGATGTAAGAC
Found at i:31470817 original size:27 final size:28
Alignment explanation
Indices: 31470765--31470834 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
31470755 GTGACAGAGT
* *
31470765 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATATTATGTGGCAGGGC
31470794 CACCAGAACAGATA-TATGTGGCAGGGC
1 CACCAGAACAGATATTATGTGGCAGGGC
31470821 CACCAGAACAGATA
1 CACCAGAACAGATA
31470835 ATTTGTAGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 25 0.64
28 7 0.18
29 7 0.18
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (28 bp):
CACCAGAACAGATATTATGTGGCAGGGC
Found at i:31471007 original size:28 final size:28
Alignment explanation
Indices: 31470960--31471024 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
31470950 AAATTAACCC
*
31470960 TAGGGGTATAAAGGTCATTTTGCACACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
* *
31470988 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
31471016 TAGGGGTAT
1 TAGGGGTAT
31471025 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCACACA
Done.