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 105 of 318
Found at i:32051140 original size:21 final size:21
Alignment explanation
Indices: 32051114--32051175 Score: 115
Period size: 21 Copynumber: 3.0 Consensus size: 21
32051104 TATAGTCTGA
32051114 GTTTATGGTTTGGGGTTTGGG
1 GTTTATGGTTTGGGGTTTGGG
*
32051135 GTTTATGGTTTGGGGTTTGAG
1 GTTTATGGTTTGGGGTTTGGG
32051156 GTTTATGGTTTGGGGTTTGG
1 GTTTATGGTTTGGGGTTTGG
32051176 AATTTGGAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.06, C:0.00, G:0.45, T:0.48
Consensus pattern (21 bp):
GTTTATGGTTTGGGGTTTGGG
Found at i:32051172 original size:7 final size:7
Alignment explanation
Indices: 32051120--32051175 Score: 67
Period size: 7 Copynumber: 8.0 Consensus size: 7
32051110 CTGAGTTTAT
32051120 GGTTTGG
1 GGTTTGG
32051127 GGTTTGG
1 GGTTTGG
**
32051134 GGTTTAT
1 GGTTTGG
32051141 GGTTTGG
1 GGTTTGG
*
32051148 GGTTTGA
1 GGTTTGG
**
32051155 GGTTTAT
1 GGTTTGG
32051162 GGTTTGG
1 GGTTTGG
32051169 GGTTTGG
1 GGTTTGG
32051176 AATTTGGAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.05, C:0.00, G:0.48, T:0.46
Consensus pattern (7 bp):
GGTTTGG
Found at i:32051515 original size:14 final size:14
Alignment explanation
Indices: 32051493--32051537 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
32051483 CTAATTATCA
* *
32051493 TTATAGTTTAAGGT
1 TTATGGTTTAGGGT
32051507 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
*
32051521 ATATGGTTTAGGGT
1 TTATGGTTTAGGGT
32051535 TTA
1 TTA
32051538 AAGTGTATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:32051546 original size:21 final size:21
Alignment explanation
Indices: 32051504--32051546 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
32051494 TATAGTTTAA
* **
32051504 GGTTTATGGTTTAGGGTATAT
1 GGTTTAGGGTTTAAAGTATAT
*
32051525 GGTTTAGGGTTTAAAGTGTAT
1 GGTTTAGGGTTTAAAGTATAT
32051546 G
1 G
32051547 AGTTACTATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (21 bp):
GGTTTAGGGTTTAAAGTATAT
Found at i:32053535 original size:40 final size:40
Alignment explanation
Indices: 32053491--32053600 Score: 139
Period size: 40 Copynumber: 2.8 Consensus size: 40
32053481 TTCACAATTT
* *
32053491 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * * *
32053531 GCACAATTGCCTTCGGGTCTTAACCTGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
32053571 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
32053601 ATCATTCAAT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:32055488 original size:113 final size:115
Alignment explanation
Indices: 32055319--32055852 Score: 532
Period size: 113 Copynumber: 4.7 Consensus size: 115
32055309 CGACATCGTT
* * * * *
32055319 TTTTTTTGGATTTTTAGTGGCATTTTAGGTTAAAATGCCGCAATAGGTTTG-ATTTAGCGGCGCA
1 TTTTTATGGATTTTTAGTGGCGTTTTAGGTTAAAACGCCGCAATAGGTTTGCCTTTAGCGGCGCT
** * *
32055383 AGGTTATAAACACCACTAATGGTTATTTTGTTTATATCAAAACGGTGTAG
66 AGGGGATAAACGCCACTAATGGTTATTTTGTTTATATCAAAACGGCGTAG
* * * *
32055433 TTTTTATCGATTTTTAGTGGCGTTTT-GGTTAAAACGCCACAATAGGTTAG-ATTTAGCGGCGCT
1 TTTTTATGGATTTTTAGTGGCGTTTTAGGTTAAAACGCCGCAATAGGTTTGCCTTTAGCGGCGCT
* * **
32055496 AGGGTATAAACGCCACTAATGGTTATTTTGTTTATATCAAAATGATGTAG
66 AGGGGATAAACGCCACTAATGGTTATTTTGTTTATATCAAAACGGCGTAG
* *
32055546 -TTTTATTGGATTCTTAGTGGCGTTTTAAGG-TAAAATGCCGCAATA-GTTTCGCCTTTAGCGGC
1 TTTTTA-TGGATTTTTAGTGGCGTTTT-AGGTTAAAACGCCGCAATAGGTTT-GCCTTTAGCGGC
* * * * * *
32055608 GCTTGGAGATAAAACGCCACTAAAT-GTTATTCTGTTTATATGAAAACGCCGTCAT
63 GCTAGGGGAT-AAACGCCACT-AATGGTTATTTTGTTTATATCAAAACGGCGT-AG
* * * * *
32055663 TTTTTTTGGATTTTTAGTGGCATTTTAGGGTT-AAACGCCGCAATTGATTTGCCTTTAGCGGTGC
1 TTTTTATGGATTTTTAGTGGCGTTTTA-GGTTAAAACGCCGCAATAGGTTTGCCTTTAGCGGCGC
* * * * * * *
32055727 TAGGGGAAAAACGCCACTAAAGTTTATTTTGTTTATGTCAAAATGGCATTG
65 TAGGGGATAAACGCCACTAATGGTTATTTTGTTTATATCAAAACGGCGTAG
* * * * *
32055778 TTTTGT-TTGATTTTTAGTGGCG-TTTATGTTAAAACACCGCAATTGGTTTGCCTTTAGCGGCGT
1 TTTT-TATGGATTTTTAGTGGCGTTTTAGGTTAAAACGCCGCAATAGGTTTGCCTTTAGCGGCGC
*
32055841 TAGGAGA-AAACG
65 TAGGGGATAAACG
32055853 TGGCAAATGT
Statistics
Matches: 351, Mismatches: 54, Indels: 31
0.81 0.12 0.07
Matches are distributed among these distances:
112 5 0.01
113 108 0.31
114 75 0.21
115 38 0.11
116 64 0.18
117 53 0.15
118 8 0.02
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (115 bp):
TTTTTATGGATTTTTAGTGGCGTTTTAGGTTAAAACGCCGCAATAGGTTTGCCTTTAGCGGCGCT
AGGGGATAAACGCCACTAATGGTTATTTTGTTTATATCAAAACGGCGTAG
Found at i:32056027 original size:60 final size:59
Alignment explanation
Indices: 32055932--32056061 Score: 163
Period size: 60 Copynumber: 2.2 Consensus size: 59
32055922 TATTCATTTT
* * * ** *
32055932 CCCCCTTCTCTCTGGTTTATTTCCCCCATTTTCCCTTCTCTGAATCCCTAAAATAATCA
1 CCCCTTTCTCCCTAGTTTATTTCCCCCATTTTCCCTAATCTGAAACCCTAAAATAATCA
* * *
32055991 CCCCTTTCTCCCTAGTTTATTTGCCCCCCTTTTCCCTAATTTGAAACCCTAAAATAATTA
1 CCCCTTTCTCCCTAGTTTATTT-CCCCCATTTTCCCTAATCTGAAACCCTAAAATAATCA
32056051 CCCCTTT-TCCC
1 CCCCTTTCTCCC
32056062 CAATTCAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
59 23 0.38
60 38 0.62
ACGTcount: A:0.19, C:0.38, G:0.05, T:0.38
Consensus pattern (59 bp):
CCCCTTTCTCCCTAGTTTATTTCCCCCATTTTCCCTAATCTGAAACCCTAAAATAATCA
Found at i:32058558 original size:10 final size:9
Alignment explanation
Indices: 32058545--32058591 Score: 51
Period size: 10 Copynumber: 5.0 Consensus size: 9
32058535 CTTATATTTC
32058545 ATTTATCAAT
1 ATTT-TCAAT
*
32058555 ATTTTAAAT
1 ATTTTCAAT
32058564 ATATTTCAAT
1 AT-TTTCAAT
32058574 A-TTTCAAT
1 ATTTTCAAT
32058582 ATTTATCAAT
1 ATTT-TCAAT
32058592 TAATATAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 8 0.25
9 8 0.25
10 16 0.50
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (9 bp):
ATTTTCAAT
Found at i:32058837 original size:14 final size:15
Alignment explanation
Indices: 32058820--32058854 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
32058810 TAAATTTTAA
32058820 ATTAA-ATATTTTGG
1 ATTAATATATTTTGG
*
32058834 ATTAATTTATTTTGG
1 ATTAATATATTTTGG
32058849 ATTAAT
1 ATTAAT
32058855 CAGGACACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (15 bp):
ATTAATATATTTTGG
Found at i:32058846 original size:15 final size:15
Alignment explanation
Indices: 32058826--32058854 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32058816 TTAAATTAAA
32058826 TATTTTGGATTAATT
1 TATTTTGGATTAATT
32058841 TATTTTGGATTAAT
1 TATTTTGGATTAAT
32058855 CAGGACACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (15 bp):
TATTTTGGATTAATT
Found at i:32058877 original size:25 final size:24
Alignment explanation
Indices: 32058849--32058922 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 24
32058839 TTTATTTTGG
32058849 ATTAATCAGGACACAATTTTTTTAA
1 ATTAATCA-GACACAATTTTTTTAA
**
32058874 ATT-A-C-GACAC-ATATTTTGCAA
1 ATTAATCAGACACAAT-TTTTTTAA
*
32058895 TTTAATCACGACACAA-TTTTTTAA
1 ATTAATCA-GACACAATTTTTTTAA
32058919 ATTA
1 ATTA
32058923 CATATTTTGG
Statistics
Matches: 37, Mismatches: 6, Indels: 13
0.66 0.11 0.23
Matches are distributed among these distances:
20 2 0.05
21 13 0.35
22 1 0.03
23 2 0.05
24 10 0.27
25 8 0.22
26 1 0.03
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (24 bp):
ATTAATCAGACACAATTTTTTTAA
Found at i:32059030 original size:9 final size:9
Alignment explanation
Indices: 32059018--32059048 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
32059008 ATATCATATA
32059018 ATAACTTAC
1 ATAACTTAC
32059027 ATAACTTAC
1 ATAACTTAC
*
32059036 AAAACTTAC
1 ATAACTTAC
32059045 ATAA
1 ATAA
32059049 TACATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (9 bp):
ATAACTTAC
Found at i:32059074 original size:43 final size:42
Alignment explanation
Indices: 32059026--32059220 Score: 131
Period size: 36 Copynumber: 4.5 Consensus size: 42
32059016 TAATAACTTA
32059026 CATAACTTACAAAACTTACATAATACATAAATATATATCATAT
1 CATAACTTAC-AAACTTACATAATACATAAATATATATCATAT
32059069 CATAACTT---AACTTACATAATAC-TCCAAATATATATCATAAATATATAT
1 CATAACTTACAAACTTACATAATACAT--AAATATATATC--------ATAT
32059117 CTTATCATTACTTACACAACTTACATAATACATAAATATATATCATAT
1 C--AT-A--ACTTACA-AACTTACATAATACATAAATATATATCATAT
* * *
32059165 CATAACTTAC--A--TACCT--TACATAAATGTATATCATAA
1 CATAACTTACAAACTTACATAATACATAAATATATATCATAT
32059201 CATAACTTACATAACTTACA
1 CATAACTTACA-AACTTACA
32059221 AAGCTTACTT
Statistics
Matches: 123, Mismatches: 4, Indels: 52
0.69 0.02 0.29
Matches are distributed among these distances:
36 28 0.23
38 5 0.04
39 15 0.12
40 12 0.10
41 3 0.02
43 14 0.11
45 1 0.01
46 2 0.02
48 10 0.08
50 2 0.02
51 1 0.01
53 4 0.03
56 11 0.09
57 14 0.11
58 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.34
Consensus pattern (42 bp):
CATAACTTACAAACTTACATAATACATAAATATATATCATAT
Found at i:32059177 original size:9 final size:9
Alignment explanation
Indices: 32059165--32059237 Score: 60
Period size: 9 Copynumber: 8.1 Consensus size: 9
32059155 TATATCATAT
32059165 CATAACTTA
1 CATAACTTA
*
32059174 CATACCTTA
1 CATAACTTA
*
32059183 CATAAATGTA
1 CATAACT-TA
* * *
32059193 TATCA-TAA
1 CATAACTTA
32059201 CATAACTTA
1 CATAACTTA
32059210 CATAACTTA
1 CATAACTTA
32059219 CA-AAGCTTA
1 CATAA-CTTA
*
32059228 CTTAACTTA
1 CATAACTTA
32059237 C
1 C
32059238 GTAATACATA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
8 6 0.12
9 37 0.74
10 7 0.14
ACGTcount: A:0.42, C:0.22, G:0.03, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:32059195 original size:36 final size:36
Alignment explanation
Indices: 32059134--32059220 Score: 133
Period size: 36 Copynumber: 2.5 Consensus size: 36
32059124 TTACTTACAC
*
32059134 AACTTACATAA--TACATAAATATATATCATATCAT
1 AACTTACATAACTTACATAAATATATATCATAACAT
* *
32059168 AACTTACATACCTTACATAAATGTATATCATAACAT
1 AACTTACATAACTTACATAAATATATATCATAACAT
32059204 AACTTACATAACTTACA
1 AACTTACATAACTTACA
32059221 AAGCTTACTT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
34 10 0.21
36 37 0.79
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.33
Consensus pattern (36 bp):
AACTTACATAACTTACATAAATATATATCATAACAT
Found at i:32064755 original size:11 final size:10
Alignment explanation
Indices: 32064723--32064777 Score: 60
Period size: 11 Copynumber: 5.5 Consensus size: 10
32064713 CATGAGATTT
32064723 TGATAT-ACA
1 TGATATGACA
*
32064732 TGATTTGACA
1 TGATATGACA
32064742 TGATATGCACA
1 TGATATG-ACA
*
32064753 TGATATG-TA
1 TGATATGACA
32064762 TGATATGCACA
1 TGATATG-ACA
32064773 TGATA
1 TGATA
32064778 AACTCATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 13 0.34
10 9 0.24
11 16 0.42
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:32071019 original size:2 final size:2
Alignment explanation
Indices: 32071012--32071037 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32071002 CATTAATGTG
32071012 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
32071038 ATACACATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32075542 original size:24 final size:24
Alignment explanation
Indices: 32075515--32075685 Score: 333
Period size: 24 Copynumber: 7.1 Consensus size: 24
32075505 GCTTATTATG
*
32075515 ATCGCACACATAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
32075539 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
32075563 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
32075587 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
32075611 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
32075635 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
32075659 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
32075683 ATC
1 ATC
32075686 TTCTACCCCT
Statistics
Matches: 146, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
24 146 1.00
ACGTcount: A:0.37, C:0.29, G:0.16, T:0.18
Consensus pattern (24 bp):
ATCGCACACACAGTGCCATAGTAA
Found at i:32087487 original size:40 final size:40
Alignment explanation
Indices: 32087396--32087546 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
32087386 ATCACGATTT
32087396 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCA
*
32087437 -CACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACT-A
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTCA
* * * **
32087476 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTC-CA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTCA
* * *
32087516 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
32087547 TCATTCAATT
Statistics
Matches: 90, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.06
40 83 0.92
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCA
Found at i:32091558 original size:28 final size:29
Alignment explanation
Indices: 32091491--32091591 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
32091481 ATAGTGAATC
*
32091491 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
32091520 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
32091548 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
32091578 CGCACACTTAGTGC
1 CGCACACTTAGTGC
32091592 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:32097766 original size:40 final size:40
Alignment explanation
Indices: 32097707--32097938 Score: 189
Period size: 40 Copynumber: 5.8 Consensus size: 40
32097697 CAATTGAATG
* * *
32097707 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTGGTAATT
* * * * *
32097747 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTGGTAATT
* * * **
32097787 ACATCCAGGCTAAGACCCGAAGGCATTCGTGC-GAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTG-GTAATT
* * **
32097827 AAATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTG-GTAATT
* * * ** **
32097867 AAATCCGAGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTGGTAATT
* * *
32097907 CTATCCGGGCTAAGACCCAAAGGCATTCGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
32097939 ATGTGGTTAT
Statistics
Matches: 160, Mismatches: 30, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
40 160 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTGGTAATT
Found at i:32097939 original size:40 final size:40
Alignment explanation
Indices: 32097749--32097954 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 40
32097739 TGGTAATTAT
* * * *
32097749 ATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-TGACTAC
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TTAA
* *
32097789 ATCCAGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
*
32097829 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
* * * * **
32097869 ATCCGAGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
* * * *
32097909 ATCCGGGCTAAGACCCAAAGGCATTCGTGCATGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
32097949 ATCCGG
1 ATCCGG
32097955 TCGTATTCCG
Statistics
Matches: 144, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
39 3 0.02
40 139 0.97
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
Found at i:32110954 original size:3 final size:3
Alignment explanation
Indices: 32110939--32110990 Score: 50
Period size: 3 Copynumber: 16.3 Consensus size: 3
32110929 CATGTTTTAC
* * *
32110939 TAT TAT TAA TAT TAT TAT TGT TAT TAT TAT TGTT TATT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TA-T TAT TA-T TAT
32110987 TAT T
1 TAT T
32110991 GTCATTTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
3 32 0.80
4 8 0.20
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:32110970 original size:12 final size:13
Alignment explanation
Indices: 32110948--32110983 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
32110938 CTATTATTAA
32110948 TATTATTATTG-T
1 TATTATTATTGTT
32110960 TATTATTATTGTT
1 TATTATTATTGTT
32110973 TATTTATTATT
1 TA-TTATTATT
32110984 TATTATTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.50
13 3 0.14
14 8 0.36
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (13 bp):
TATTATTATTGTT
Found at i:32110986 original size:21 final size:21
Alignment explanation
Indices: 32110962--32111012 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
32110952 ATTATTGTTA
*
32110962 TTATTATTGTTTATTTATT-AT
1 TTATTATTG-TCATTTATTCAT
32110983 TTATTATTGTCATTTATTCAT
1 TTATTATTGTCATTTATTCAT
32111004 TTATTATTG
1 TTATTATTG
32111013 CCGTTGTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 8 0.29
21 20 0.71
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.67
Consensus pattern (21 bp):
TTATTATTGTCATTTATTCAT
Found at i:32118169 original size:43 final size:44
Alignment explanation
Indices: 32118049--32118205 Score: 141
Period size: 43 Copynumber: 3.6 Consensus size: 44
32118039 AGCTCATACA
*
32118049 ATGCCAAC-GTCCCAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACATGTAAATCAAATATCG
32118092 ATGCCACTGTCCCAGACA-GGATCTTACATG-AAATCAAATA-CG
1 ATGCCACTGTCCCAGACATGG-TCTTACATGTAAATCAAATATCG
* * * *
32118134 ATGTCGA-TGTCCCAGAAATGGTCTTACACGTAAATCATAA-GTCG
1 ATG-CCACTGTCCCAGACATGGTCTTACATGTAAATCA-AATATCG
* * *
32118178 ATGCAAAC-GTCCGAGACGTGGTCTTACA
1 ATGC-CACTGTCCCAGACATGGTCTTACA
32118206 CGAAAACACA
Statistics
Matches: 95, Mismatches: 9, Indels: 19
0.77 0.07 0.15
Matches are distributed among these distances:
42 27 0.28
43 43 0.45
44 25 0.26
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (44 bp):
ATGCCACTGTCCCAGACATGGTCTTACATGTAAATCAAATATCG
Found at i:32118593 original size:8 final size:8
Alignment explanation
Indices: 32118580--32118604 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
32118570 AAATTAACCC
32118580 TCACATTT
1 TCACATTT
32118588 TCACATTT
1 TCACATTT
32118596 TCACATTT
1 TCACATTT
32118604 T
1 T
32118605 AGTCCCTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCACATTT
Found at i:32124942 original size:55 final size:55
Alignment explanation
Indices: 32124841--32124945 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 55
32124831 TACTTCACCT
* ** * *
32124841 AAAAAAGGGGAGAGGCCACTGCGAAAACCCGTAAAGGGCACTTTGAGACCTTCTA
1 AAAAAAAGGGAGAGGCCAAGGCGAAAACCCGCAAAGGGCACCTTGAGACCTTCTA
**
32124896 AAAAAAAGGGAGAGGCCAAGGCGAAAACCCGCAAAGGGTGCCTTGAGACC
1 AAAAAAAGGGAGAGGCCAAGGCGAAAACCCGCAAAGGGCACCTTGAGACC
32124946 AAAGGGGTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.38, C:0.22, G:0.30, T:0.10
Consensus pattern (55 bp):
AAAAAAAGGGAGAGGCCAAGGCGAAAACCCGCAAAGGGCACCTTGAGACCTTCTA
Found at i:32127866 original size:12 final size:13
Alignment explanation
Indices: 32127844--32127879 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
32127834 CTATTATTAA
32127844 TATTATTATTG-T
1 TATTATTATTGTT
32127856 TATTATTATTGTT
1 TATTATTATTGTT
32127869 TATTTATTATT
1 TA-TTATTATT
32127880 TAATTAGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.50
13 3 0.14
14 8 0.36
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (13 bp):
TATTATTATTGTT
Found at i:32134669 original size:14 final size:13
Alignment explanation
Indices: 32134646--32134677 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
32134636 GGAATATCAA
32134646 AACAATAATTAAG
1 AACAATAATTAAG
32134659 AACACATAATTAAG
1 AACA-ATAATTAAG
32134673 AACAA
1 AACAA
32134678 GTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:32139234 original size:48 final size:48
Alignment explanation
Indices: 32139177--32139355 Score: 140
Period size: 48 Copynumber: 3.8 Consensus size: 48
32139167 ACATGGTAGG
* * * *
32139177 ATGCCAATGCCATATCTCGGATATTGTCTTACATGGAATCACATATCA
1 ATGCCAATGCCATATCCCAGACATGGTCTTACATGGAATCACATATCA
* *
32139225 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAT--
1 ATGCCAATGCCATATCCCAGACATGGTCTTACATGGAATCACATATCA
* ** *** *
32139271 -TG--ATAT-CGATAGGCCAG-CTATGGTCTTACACAAAATTACATATCA
1 ATGCCA-ATGCCATATCCCAGAC-ATGGTCTTACATGGAATCACATATCA
* *
32139316 ATGCCAGA-GCCATGTCCCAAACATGGTCTTACATGGAATC
1 ATGCCA-ATGCCATATCCCAGACATGGTCTTACATGGAATC
32139356 GTACATAACC
Statistics
Matches: 97, Mismatches: 25, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
42 1 0.01
43 27 0.28
44 2 0.02
45 2 0.02
46 2 0.02
48 62 0.64
49 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (48 bp):
ATGCCAATGCCATATCCCAGACATGGTCTTACATGGAATCACATATCA
Found at i:32141864 original size:55 final size:54
Alignment explanation
Indices: 32141775--32142029 Score: 228
Period size: 55 Copynumber: 4.8 Consensus size: 54
32141765 CATTAGGGTT
**
32141775 CAAGGATACCATGTAAGACCATG-CTAAGGTATGGCAATTGGTAAGGTTTCTAAGG
1 CAAGGATACCATGTAAGACCATGTC-AAGACATGGCAATTGGTAA-GTTTCTAAGG
* * * *
32141830 CAAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGG
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTT--TCTAAGG
* * * *
32141885 CGAAGG-TTCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGG
1 C-AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTC-TAAGG
* * *
32141938 CAAGGCTACCATGTAAGA-CATGTCAAGACGTGG-AAATGGTAAGTTTC-AA--
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGG
* * *
32141987 -AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAG
32142030 GTACCCGTGT
Statistics
Matches: 165, Mismatches: 25, Indels: 26
0.76 0.12 0.12
Matches are distributed among these distances:
48 15 0.09
49 19 0.12
50 2 0.01
51 2 0.01
52 24 0.15
53 23 0.14
54 8 0.05
55 67 0.41
56 5 0.03
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.22
Consensus pattern (54 bp):
CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGG
Found at i:32142242 original size:16 final size:16
Alignment explanation
Indices: 32142221--32142251 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32142211 ATAAAATTGA
32142221 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
32142237 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
32142252 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:32147767 original size:25 final size:25
Alignment explanation
Indices: 32147719--32147767 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
32147709 CATAATTGAA
* * *
32147719 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTGTGAATATT
*
32147744 ATGAAATATATTGATTGTGAATAT
1 ATGAAATAGATTGATTGTGAATAT
32147768 ATGTGTATCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTGTGAATATT
Found at i:32148224 original size:43 final size:43
Alignment explanation
Indices: 32148163--32148248 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
32148153 CATGTGATTG
32148163 ATATTGAAATGACAAATATGAGAAATGAATATGAGATGAGAAA
1 ATATTGAAATGACAAATATGAGAAATGAATATGAGATGAGAAA
* * **
32148206 ATATTGAAATGGCAAATATGAGAATTGGTTATGAGATGAGAAA
1 ATATTGAAATGACAAATATGAGAAATGAATATGAGATGAGAAA
32148249 TGAGATATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.49, C:0.02, G:0.23, T:0.26
Consensus pattern (43 bp):
ATATTGAAATGACAAATATGAGAAATGAATATGAGATGAGAAA
Found at i:32149671 original size:12 final size:12
Alignment explanation
Indices: 32149654--32149679 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32149644 TATTTGTTTC
32149654 TTGTTTTAATAT
1 TTGTTTTAATAT
32149666 TTGTTTTAATAT
1 TTGTTTTAATAT
32149678 TT
1 TT
32149680 TTAATTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (12 bp):
TTGTTTTAATAT
Found at i:32152749 original size:30 final size:31
Alignment explanation
Indices: 32152684--32152749 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
32152674 TGTCTCAGCC
** *
32152684 GTGTGAGGTGCACGGCCTGGCCATACAGGCT
1 GTGTGAGGCACACGGCCTGGCCACACAGGCT
*
32152715 -TGTGAGGCACACGGCCTGGCCACAC-GGGT
1 GTGTGAGGCACACGGCCTGGCCACACAGGCT
32152744 GTGTGA
1 GTGTGA
32152750 CCTTGAAATC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 3 0.10
30 27 0.90
ACGTcount: A:0.17, C:0.26, G:0.39, T:0.18
Consensus pattern (31 bp):
GTGTGAGGCACACGGCCTGGCCACACAGGCT
Found at i:32155146 original size:2 final size:2
Alignment explanation
Indices: 32155139--32155167 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
32155129 TGAGTTCTTT
32155139 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32155168 TCATAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32155593 original size:16 final size:16
Alignment explanation
Indices: 32155536--32155593 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 16
32155526 GTTTCAAATA
32155536 ATATTTTTAATACTTTT
1 ATATTTTTAATA-TTTT
* *
32155553 ATAAATTTATAATTTTTT
1 AT--ATTTTTAATATTTT
*
32155571 TTATTTTTAATATTTT
1 ATATTTTTAATATTTT
32155587 ATATTTT
1 ATATTTT
32155594 AAAATAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
16 18 0.55
17 2 0.06
18 5 0.15
19 8 0.24
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
ATATTTTTAATATTTT
Found at i:32161042 original size:27 final size:25
Alignment explanation
Indices: 32160979--32161034 Score: 67
Period size: 28 Copynumber: 2.1 Consensus size: 25
32160969 TGTATCATTG
* *
32160979 TATTAAATTATTTAAATATTATTGATCA
1 TATTTAATTATTAAAATATT-TT-AT-A
32161007 TATTTAATTATTAAAATATTTTATA
1 TATTTAATTATTAAAATATTTTATA
32161032 TAT
1 TAT
32161035 CATTAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 4 0.15
26 2 0.08
27 2 0.08
28 18 0.69
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (25 bp):
TATTTAATTATTAAAATATTTTATA
Found at i:32162506 original size:137 final size:138
Alignment explanation
Indices: 32162269--32162682 Score: 615
Period size: 135 Copynumber: 3.0 Consensus size: 138
32162259 TAGAAAAATG
* *
32162269 AATTATATTCTTTTTAAAAGAATATTAATCTCCATATTTTTTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTCTAAAAGAATATTAATTTCCATATTTTTTATATTTTGACTGAAATTAATTAA
**
32162334 TATAAATGTTTATATTAATAAATTTTGTAAAATATATATAATTAATATTTTGTATGAATCAAATT
66 TATAAATGTTTATATTAATAAATTCGGTAAAATATATATAATTAATATTTTGTATGAATCAAATT
32162399 CATATATT
131 CATATATT
* *
32162407 AATTATATTATTTCTAAAAGAATATTAATTTTCAT-TTTTTTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTCTAAAAGAATATTAATTTCCATATTTTTTATATTTTGACTGAAATTAATTAA
*
32162471 TATAACTGTTTATATTAATAAATTCGGT--AATATATATAATTAATATTTTGTATGAATCAAATT
66 TATAAATGTTTATATTAATAAATTCGGTAAAATATATATAATTAATATTTTGTATGAATCAAATT
32162534 CATATATT
131 CATATATT
* * * **
32162542 AATTATATTCTTTC-CAAA-AA-ATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTCTTTCTAAAAGAATATTAATTTCCATATTTTTTATATTTTGACTGAAATTAATTAA
* * * * * *
32162604 TAGAATTATTTATATTAATGAATTCGGTAAAATGTATACAATTAAATATTTTGTATGAATCAAAT
66 TATAAATGTTTATATTAATAAATTCGGTAAAATATATATAATT-AATATTTTGTATGAATCAAAT
32162669 TCATATATT
130 TCATATATT
32162678 AATTA
1 AATTA
32162683 AAATTCATAT
Statistics
Matches: 253, Mismatches: 19, Indels: 10
0.90 0.07 0.04
Matches are distributed among these distances:
132 11 0.04
133 52 0.21
134 3 0.01
135 67 0.26
136 35 0.14
137 54 0.21
138 31 0.12
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (138 bp):
AATTATATTCTTTCTAAAAGAATATTAATTTCCATATTTTTTATATTTTGACTGAAATTAATTAA
TATAAATGTTTATATTAATAAATTCGGTAAAATATATATAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:32162686 original size:18 final size:18
Alignment explanation
Indices: 32162665--32162700 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
32162655 TGTATGAATC
32162665 AAATTCATATATTAATTA
1 AAATTCATATATTAATTA
32162683 AAATTCATATATTAATTA
1 AAATTCATATATTAATTA
32162701 TATTCTTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATTCATATATTAATTA
Found at i:32162775 original size:157 final size:153
Alignment explanation
Indices: 32162529--32162837 Score: 483
Period size: 157 Copynumber: 2.0 Consensus size: 153
32162519 TGTATGAATC
32162529 AAATTCATATATTAATTATATTCTTTCCAAAAAATTAATTTCCATGTCTTTTATATTTTGACCAA
1 AAATTCATATATTAATTATATTCTTTCCAAAAAATTAATTTCCATGTCTTTTATATTTTGACCAA
* * ** * *
32162594 AATTAATTAATAGAATTATTTATATTAATGAATTCGGTAAAATGTATACAATTAAATATTTTGTA
66 AATTAATTAATAGAACTATTTATATTAATAAATTAAGTAAAATATATACAATT-AATAATTTGTA
32162659 TGAATCAAATTCATATATTAATTA
130 TGAATCAAATTCATATATTAATTA
*
32162683 AAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGAC
1 AAATTCATATATTAATTATATTCTTTCC-AAA-AA-ATTAATTTCCATGTCTTTTATATTTTGAC
** **
32162748 TGAAATTAATTAATTTAACTATTTATATTAATAAATTAAGTAAAATATATACAATTAATAATTTG
63 CAAAATTAATTAATAGAACTATTTATATTAATAAATTAAGTAAAATATATACAATTAATAATTTG
32162813 TATGAATCAAATTCATATATTAATT
128 TATGAATCAAATTCATATATTAATT
32162838 GTATCTATGT
Statistics
Matches: 141, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
154 28 0.20
155 3 0.02
156 35 0.25
157 75 0.53
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (153 bp):
AAATTCATATATTAATTATATTCTTTCCAAAAAATTAATTTCCATGTCTTTTATATTTTGACCAA
AATTAATTAATAGAACTATTTATATTAATAAATTAAGTAAAATATATACAATTAATAATTTGTAT
GAATCAAATTCATATATTAATTA
Found at i:32162923 original size:17 final size:17
Alignment explanation
Indices: 32162903--32162935 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32162893 TTTAACTATC
32162903 AAATTAAATTAATTCAA
1 AAATTAAATTAATTCAA
*
32162920 AAATTAATTTAATTCA
1 AAATTAAATTAATTCA
32162936 TATGACAGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTAAATTAATTCAA
Found at i:32166182 original size:34 final size:34
Alignment explanation
Indices: 32166139--32166206 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
32166129 AAATTTGTAG
32166139 ACATAACTTACACATTTCCAATCTTAGCAAAAGT
1 ACATAACTTACACATTTCCAATCTTAGCAAAAGT
32166173 ACATAACTTACACATTTCCAATCTTAGCAAAAGT
1 ACATAACTTACACATTTCCAATCTTAGCAAAAGT
32166207 TCATCGCATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (34 bp):
ACATAACTTACACATTTCCAATCTTAGCAAAAGT
Found at i:32171017 original size:28 final size:27
Alignment explanation
Indices: 32170954--32171023 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
32170944 ATAGTGAGTC
*
32170954 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
32170981 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
32171009 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
32171024 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:32178959 original size:28 final size:27
Alignment explanation
Indices: 32178896--32178965 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
32178886 ATAGTGAGTC
*
32178896 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
32178923 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
32178951 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
32178966 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:32183110 original size:48 final size:48
Alignment explanation
Indices: 32183038--32183143 Score: 131
Period size: 48 Copynumber: 2.2 Consensus size: 48
32183028 GAGATCCCAC
* * * * * * * *
32183038 GTAAGACCCTGTGTGGGATATGGCATCAGCGTTGATATGTGTGCCATT
1 GTAAGACCATGTCTAGGACATGGCATCAGCATTAATATATGTGCCAGT
*
32183086 GTAAGACCATGTCTAGGACATGGCATCGGCATTAATATATGTGCCAGT
1 GTAAGACCATGTCTAGGACATGGCATCAGCATTAATATATGTGCCAGT
32183134 GTAAGACCAT
1 GTAAGACCAT
32183144 ATCTGGAATA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (48 bp):
GTAAGACCATGTCTAGGACATGGCATCAGCATTAATATATGTGCCAGT
Found at i:32183162 original size:48 final size:48
Alignment explanation
Indices: 32183057--32183165 Score: 130
Period size: 48 Copynumber: 2.3 Consensus size: 48
32183047 TGTGTGGGAT
* * * * * *
32183057 ATGGCATCAGCGTTGATATGTGTGCCATTGTAAGACCATGTCTAGGAC
1 ATGGCATCGGCATTAATATATGTGCCAGTGTAAGACCATATCTAGGAC
*
32183105 ATGGCATCGGCATTAATATATGTGCCAGTGTAAGACCATATCT-GGAAT
1 ATGGCATCGGCATTAATATATGTGCCAGTGTAAGACCATATCTAGG-AC
*
32183153 ATGGTATCGGCAT
1 ATGGCATCGGCAT
32183166 CGGTATGTGA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
47 2 0.04
48 50 0.96
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (48 bp):
ATGGCATCGGCATTAATATATGTGCCAGTGTAAGACCATATCTAGGAC
Found at i:32183253 original size:42 final size:42
Alignment explanation
Indices: 32183169--32183287 Score: 130
Period size: 42 Copynumber: 2.8 Consensus size: 42
32183159 TCGGCATCGG
* * * * * * *
32183169 TATGTGATTTCATGTAAGACCATATTTGGGATATGGCGTTGA
1 TATGAGATTTCGTGTAAGACCATGTCTGGGACATGACATTGA
*
32183211 TATGAGATTTCGTGTAAGACCATGTCTAGGACATGACATTGA
1 TATGAGATTTCGTGTAAGACCATGTCTGGGACATGACATTGA
* ** *
32183253 TATGAGGTCCCGTATAAGACCATGTCTGGGACATG
1 TATGAGATTTCGTGTAAGACCATGTCTGGGACATG
32183288 GCATCGACAC
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (42 bp):
TATGAGATTTCGTGTAAGACCATGTCTGGGACATGACATTGA
Found at i:32186795 original size:258 final size:257
Alignment explanation
Indices: 32186273--32187052 Score: 1305
Period size: 258 Copynumber: 3.0 Consensus size: 257
32186263 CGTGTCCTGC
* *
32186273 TGTAATTACAGGTACATTTTCTATTTATGAAACTTCTATTGTTGCTTTGATTGATCCGGGGTCTA
1 TGTAATTACA-GTACATTTTCTATCTATGAAACTTCTATTATTGCTTTGATTGATCCGGGGTCTA
* * *
32186338 CCCATTCGTATATTTGCATAAAGTTGGTGTCTGATATAAACTTGTTTGTTGAATCTACTGAGTTC
65 CCCATTCGTATATTTGCATGAAGTTAGTGTCTGATATGAACTTGTTTGTTGAATCTACTGAGTTC
*
32186403 GT-ATAAAGGTGTCAAACCCGTTAGGCAAGTATGTGTTAGTTGATAAAGTGTGTAAAAATTTCCC
130 GTAATAAAGGTGTCAAACCCGTTAGGCAAGTATGTGTTAGTTGATAAAGTGTGTAAAAAATTCCC
* *
32186467 TTTAATGATTAGAGGTCAATATTTTCC-AGCTAATCTCATGCTATTACCGTTTGACGAATTTGA
195 TTTAATGATTAGAGGTCATTATTTTCCGA-CTAATCTCATGCTATTACCATTTGACGAATTTGA
*
32186530 TGTAATTACGAGTACATTTTCTATCTATGAAACTTCTATTATTGCTTTGATTGATTCGGGGTCTA
1 TGTAATTAC-AGTACATTTTCTATCTATGAAACTTCTATTATTGCTTTGATTGATCCGGGGTCTA
32186595 CCCATTCGTATATTTGCATGAAGTTAGTGTCTGATATGAACTTGTTTGTTGAATCTACTGAGTTC
65 CCCATTCGTATATTTGCATGAAGTTAGTGTCTGATATGAACTTGTTTGTTGAATCTACTGAGTTC
* **
32186660 GTAATAAAGGTGTCAAACCCATTAGGCAAGTATGTGTTAGTTGATAAAGTGTGTAAAAAATTCAA
130 GTAATAAAGGTGTCAAACCCGTTAGGCAAGTATGTGTTAGTTGATAAAGTGTGTAAAAAATTCCC
* *
32186725 TTTAATGATTAGATGTCATTATTTTCCGACTAATCTCATGATATTACCATTTGACGAATTTGA
195 TTTAATGATTAGAGGTCATTATTTTCCGACTAATCTCATGCTATTACCATTTGACGAATTTGA
*
32186788 TGTAATTACAAGTACATTTTCTATCTATGAAACTTCTATTATTGCTTTGATTGATCCGGGGTTTA
1 TGTAATTAC-AGTACATTTTCTATCTATGAAACTTCTATTATTGCTTTGATTGATCCGGGGTCTA
* *
32186853 CCCATTCATATATTTGCATGAAGTTAATGTCTGATATGAACTTGTTTGTTGAATCTACTGAGTTC
65 CCCATTCGTATATTTGCATGAAGTTAGTGTCTGATATGAACTTGTTTGTTGAATCTACTGAGTTC
* *
32186918 GTAATAAAGGTGTCAAACCCGTTAGGCAAGTATGTGTTATTTGATAAAGTGTAT-AAAAATTGCC
130 GTAATAAAGGTGTCAAACCCGTTAGGCAAGTATGTGTTAGTTGATAAAGTGTGTAAAAAATT-CC
* *
32186982 CTTTAATGATTAGAGGTCATTATTTTCCGGCTAATCTCATTCTATTACCATTTGACGAATTTGA
194 CTTTAATGATTAGAGGTCATTATTTTCCGACTAATCTCATGCTATTACCATTTGACGAATTTGA
32187046 TGTAATT
1 TGTAATT
32187053 CTTGGTATTG
Statistics
Matches: 491, Mismatches: 28, Indels: 7
0.93 0.05 0.01
Matches are distributed among these distances:
257 131 0.27
258 359 0.73
259 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (257 bp):
TGTAATTACAGTACATTTTCTATCTATGAAACTTCTATTATTGCTTTGATTGATCCGGGGTCTAC
CCATTCGTATATTTGCATGAAGTTAGTGTCTGATATGAACTTGTTTGTTGAATCTACTGAGTTCG
TAATAAAGGTGTCAAACCCGTTAGGCAAGTATGTGTTAGTTGATAAAGTGTGTAAAAAATTCCCT
TTAATGATTAGAGGTCATTATTTTCCGACTAATCTCATGCTATTACCATTTGACGAATTTGA
Found at i:32191471 original size:48 final size:48
Alignment explanation
Indices: 32191416--32191540 Score: 187
Period size: 48 Copynumber: 2.6 Consensus size: 48
32191406 TGAGATCCCG
*
32191416 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAA
1 TGTAAGACCATGTCTAGGACATGGCATCGGCATTGATATGTGTGCCAA
* * *
32191464 TGTAAGACCATGTCTAGGACATGGCATTGGCATTGATATTTGTGCCAG
1 TGTAAGACCATGTCTAGGACATGGCATCGGCATTGATATGTGTGCCAA
* **
32191512 TGTAAGACCATGTCTCGGTTATGGCATCG
1 TGTAAGACCATGTCTAGGACATGGCATCG
32191541 ATATGAGGTC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (48 bp):
TGTAAGACCATGTCTAGGACATGGCATCGGCATTGATATGTGTGCCAA
Found at i:32197153 original size:39 final size:39
Alignment explanation
Indices: 32197099--32197194 Score: 147
Period size: 39 Copynumber: 2.5 Consensus size: 39
32197089 GACATTCAGT
* **
32197099 GAATTATATCCGGACTTAGGGTCTGCAGGCCATGTGTTG
1 GAATTATATCCGGACTTAGGGTCTACAGGCCATGTACTG
*
32197138 GAATTATATCCGGACTTAGGGTCTACAGGCTATGTACTG
1 GAATTATATCCGGACTTAGGGTCTACAGGCCATGTACTG
*
32197177 GAATTATAACCGGACTTA
1 GAATTATATCCGGACTTA
32197195 AAGTCCGCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (39 bp):
GAATTATATCCGGACTTAGGGTCTACAGGCCATGTACTG
Found at i:32197206 original size:39 final size:39
Alignment explanation
Indices: 32197099--32197246 Score: 145
Period size: 39 Copynumber: 3.8 Consensus size: 39
32197089 GACATTCAGT
** * * **
32197099 GAATTATATCCGGACTTAGGGTCTGCAGGCCATGTGTTG
1 GAATTATATCCGGACTTAAAGTCCGCAGGCTATGTACTG
** **
32197138 GAATTATATCCGGACTTAGGGTCTACAGGCTATGTACTG
1 GAATTATATCCGGACTTAAAGTCCGCAGGCTATGTACTG
* *
32197177 GAATTATAACCGGACTTAAAGTCCGCAGGCTACGTACTG
1 GAATTATATCCGGACTTAAAGTCCGCAGGCTATGTACTG
* * *
32197216 GAAATATGTCCGGGC-TAAAGTCCCGCAGGCT
1 GAATTATATCCGGACTTAAAGT-CCGCAGGCT
32197247 TCGAGCTGGT
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
38 6 0.06
39 88 0.94
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
GAATTATATCCGGACTTAAAGTCCGCAGGCTATGTACTG
Found at i:32198407 original size:20 final size:21
Alignment explanation
Indices: 32198375--32198413 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
32198365 GGACTAAATA
32198375 GAGAACTTTAGAAAAATTTAG
1 GAGAACTTTAGAAAAATTTAG
*
32198396 GAGAAC-TTAGAAGAATTT
1 GAGAACTTTAGAAAAATTT
32198414 TCATGAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.46, C:0.05, G:0.21, T:0.28
Consensus pattern (21 bp):
GAGAACTTTAGAAAAATTTAG
Found at i:32200567 original size:40 final size:40
Alignment explanation
Indices: 32200523--32200707 Score: 248
Period size: 40 Copynumber: 4.6 Consensus size: 40
32200513 AGCCTGGTTA
** *
32200523 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGAAT
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATT
*
32200563 TAGTAATTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* *
32200603 TAGTAATTCGCACGAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* *
32200643 TAGTAACTTGCACAAATGCCTTCGGATCTTAGTCCGGATA
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* *
32200683 TAGTCACTTAGCACAAA-GCCTTCGG
1 TAGTAAC-TCGCACAAATGCCTTCGG
32200708 GACTTAGCCT
Statistics
Matches: 132, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 3 0.02
40 121 0.92
41 8 0.06
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
Found at i:32200607 original size:80 final size:80
Alignment explanation
Indices: 32200495--32200713 Score: 268
Period size: 80 Copynumber: 2.7 Consensus size: 80
32200485 GCTACTCGTT
* *
32200495 CAAATGCCTTCGGGA-CATAG-CCTGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTC-GGATCTTAGTCC-GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
32200558 GGAATTAGTAA-TTCGCA
64 GGAATTAGTAACTT-GCA
* * * **
32200575 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAATTCGCACGAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGATCTTAGTCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
*
32200639 GATTTAGTAACTTGCA
65 GAATTAGTAACTTGCA
* *
32200655 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGATCTTAGTCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTA
32200714 GCCTGGACAT
Statistics
Matches: 120, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
79 6 0.05
80 100 0.83
81 14 0.12
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (80 bp):
CAAATGCCTTCGGATCTTAGTCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTTGCA
Found at i:32200714 original size:40 final size:40
Alignment explanation
Indices: 32200476--32200707 Score: 228
Period size: 40 Copynumber: 5.8 Consensus size: 40
32200466 CGGAATTTAA
** *
32200476 CCGGATATAGCTAC-TCGTTCAAATGCCTTCGGGA-CATAG-
1 CCGGATATAG-TACTTCGCACAAATGCCTTC-GGATCTTAGT
* **
32200515 CCTGGTTATAGTAAC-TCGCACAAATGCCTTCGGGA-CTTAAC
1 CC-GGATATAGT-ACTTCGCACAAATGCCTTC-GGATCTTAGT
*
32200556 CCGGA-ATTAGTAATTCGCACAAATGCCTTCGGATCTTAGT
1 CCGGATA-TAGTACTTCGCACAAATGCCTTCGGATCTTAGT
* * *
32200596 CCGGATTTAGTAATTCGCACGAATGCCTTCGGATCTTAGT
1 CCGGATATAGTACTTCGCACAAATGCCTTCGGATCTTAGT
*
32200636 CCGGATTTAGTAACTT-GCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGT-ACTTCGCACAAATGCCTTCGGATCTTAGT
*
32200676 CCGGATATAGTCACTTAGCACAAA-GCCTTCGG
1 CCGGATATAGT-ACTTCGCACAAATGCCTTCGG
32200708 GACTTAGCCT
Statistics
Matches: 169, Mismatches: 15, Indels: 17
0.84 0.07 0.08
Matches are distributed among these distances:
39 8 0.05
40 149 0.88
41 12 0.07
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (40 bp):
CCGGATATAGTACTTCGCACAAATGCCTTCGGATCTTAGT
Found at i:32203261 original size:48 final size:47
Alignment explanation
Indices: 32203186--32203413 Score: 171
Period size: 48 Copynumber: 4.9 Consensus size: 47
32203176 AACATGGTAG
* * * *
32203186 GATGCTAATGCCATATCCTAGATATGGTCATACATGGGATCACATATC
1 GATGCCAATGCCATGTCC-AGACATGGTCTTACATGGGATCACATATC
* * ** **
32203234 GATGCCAATGCCATGTCGCAGACATGGTTTTACATAGGATCGTAGGTC
1 GATGCCAATGCCATGTC-CAGACATGGTCTTACATGGGATCACATATC
* * *
32203282 GATGCCAATGCCATGTCCCAGACATGGTCTTACATAGGATCACACATT
1 GATGCCAATGCCATGT-CCAGACATGGTCTTACATGGGATCACATATC
* * * ** *
32203330 GATG-C--TG--ATAGCCCAG-CTATGGTCATACACGATATTACATATC
1 GATGCCAATGCCAT-GTCCAGAC-ATGGTCTTACATGGGATCACATATC
* *
32203373 GATGCCAAAGCCATGTCCTAGACATGGTTTTACATGGGATC
1 GATGCCAATGCCATGTCC-AGACATGGTCTTACATGGGATC
32203414 GTACATAACC
Statistics
Matches: 136, Mismatches: 33, Indels: 22
0.71 0.17 0.12
Matches are distributed among these distances:
42 1 0.01
43 27 0.20
44 2 0.01
45 2 0.01
46 1 0.01
47 4 0.03
48 96 0.71
49 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (47 bp):
GATGCCAATGCCATGTCCAGACATGGTCTTACATGGGATCACATATC
Found at i:32208407 original size:40 final size:39
Alignment explanation
Indices: 32208362--32208491 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
32208352 CGGAATATAA
32208362 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
32208402 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
32208442 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
32208482 CCGGATATAA
1 CCGGATATAA
32208492 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:32208506 original size:40 final size:40
Alignment explanation
Indices: 32208378--32208529 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
32208368 ATAACCATGT
* * *
32208378 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
32208418 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
32208458 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
32208498 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
32208530 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:32208512 original size:80 final size:80
Alignment explanation
Indices: 32208378--32208527 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
32208368 ATAACCATGT
*
32208378 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
32208442 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
32208458 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
32208521 CCCGGAT
64 CCCGGAT
32208528 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:32214070 original size:71 final size:71
Alignment explanation
Indices: 32213979--32214147 Score: 329
Period size: 71 Copynumber: 2.4 Consensus size: 71
32213969 CCTAACCGAT
*
32213979 TTTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
1 TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
32214044 TTTATC
66 TTTATC
32214050 TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
1 TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
32214115 TTTATC
66 TTTATC
32214121 TTTCACGTAGCTCTCTTGTCTACATGG
1 TTTCACGTAGCTCTCTTGTCTACATGG
32214148 GATACATCTC
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 97 1.00
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.37
Consensus pattern (71 bp):
TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
TTTATC
Found at i:32214185 original size:71 final size:70
Alignment explanation
Indices: 32213979--32214181 Score: 259
Period size: 71 Copynumber: 2.9 Consensus size: 70
32213969 CCTAACCGAT
* * * * *
32213979 TTTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
1 TTTCACGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACA
32214044 TTTATC
65 TTTATC
* * * *
32214050 TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
1 TTTCACGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACA
32214115 TTTATC
65 TTTATC
* *
32214121 TTTCACGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 TTTCACGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
32214182 TACAGGGTGT
Statistics
Matches: 124, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 100 0.81
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (70 bp):
TTTCACGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACAT
TTATC
Found at i:32221248 original size:71 final size:71
Alignment explanation
Indices: 32221162--32221325 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
32221152 CGATTTGTCT
32221162 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
32221227 CTTTCA
66 CTTTCA
32221233 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
32221298 CTTTCA
66 CTTTCA
32221304 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
32221326 GATACATCTC
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:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:32221363 original size:71 final size:70
Alignment explanation
Indices: 32221162--32221359 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
32221152 CGATTTGTCT
* * * *
32221162 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
32221227 CTTTCA
65 CTTTCA
* * * *
32221233 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
32221298 CTTTCA
65 CTTTCA
* *
32221304 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
32221360 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:32227025 original size:39 final size:38
Alignment explanation
Indices: 32226981--32227109 Score: 132
Period size: 40 Copynumber: 3.3 Consensus size: 38
32226971 CGGAATATAA
32226981 CCGGATATAACATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAT-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
32227020 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAT-T-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
32227060 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACA-TTGCACAAATGCCTTCGGGTCTTAGC
32227100 CCGGATATAA
1 CCGGATATAA
32227110 TTTCCAGCAT
Statistics
Matches: 71, Mismatches: 16, Indels: 6
0.76 0.17 0.06
Matches are distributed among these distances:
39 11 0.15
40 59 0.83
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (38 bp):
CCGGATATAACATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:32227087 original size:40 final size:39
Alignment explanation
Indices: 32226996--32227146 Score: 128
Period size: 40 Copynumber: 3.8 Consensus size: 39
32226986 TATAACATGT
* *
32226996 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
32227036 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * ** *
32227076 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* *
32227116 GCATAATTGTCTTCGGGAT-TTAGCCCGGATA
1 GCACAA-TGCCTTCGGG-TCTTAGCCCGGATA
32227147 TCATTCAATT
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 85 0.92
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:32227130 original size:80 final size:80
Alignment explanation
Indices: 32226996--32227145 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
32226986 TATAACATGT
*
32226996 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
32227060 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
32227076 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
32227139 CCCGGAT
64 CCCGGAT
32227146 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:32231037 original size:42 final size:42
Alignment explanation
Indices: 32230977--32231098 Score: 138
Period size: 43 Copynumber: 2.9 Consensus size: 42
32230967 TAGGGTTAGT
* *
32230977 TGAGATTACGTGTCAGACCTTATCTGGGATATGGCATCGATA
1 TGAGATTACATGTAAGACCTTATCTGGGATATGGCATCGATA
* * * *
32231019 TGAGATTTCATGTAAGACCATTGT-TGGGCTAATGGTATCGATA
1 TGAGATTACATGTAAGACC-TTATCTGGGAT-ATGGCATCGATA
** *
32231062 TGAGATCCCATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTACATGTAAGACCTTATCTGGGATATGGCAT
32231099 TGGTATGATA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
42 29 0.45
43 36 0.55
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (42 bp):
TGAGATTACATGTAAGACCTTATCTGGGATATGGCATCGATA
Found at i:32234025 original size:42 final size:44
Alignment explanation
Indices: 32233917--32234074 Score: 137
Period size: 43 Copynumber: 3.7 Consensus size: 44
32233907 ATCTTGTACA
* * * * *
32233917 ATGCCAACATCCCAGACGTGGTCTCACATGT-AATC-AAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCG
* * * * *
32233960 ATGCC-ACTGTCTCAGATAGGGTCTTACACG-AAATCTTATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATCTCAAATCG
* *
32234002 ATGCCAATGTCCTAGACATGGTCTTACACGTAAATCTCAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCTCAAATCG
**
32234046 ATGCCAACGTCCCAGATGTGGTCTTACAC
1 ATGCCAACGTCCCAGACATGGTCTTACAC
32234075 AATAACACAT
Statistics
Matches: 89, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
42 27 0.30
43 34 0.38
44 28 0.31
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCTCAAATCG
Found at i:32239315 original size:40 final size:39
Alignment explanation
Indices: 32239150--32239333 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
32239140 AAATTGAATG
* * *
32239150 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
32239190 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
32239230 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
32239270 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
32239309 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
32239334 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:32239358 original size:80 final size:81
Alignment explanation
Indices: 32239190--32239378 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
32239180 GCTGGAAATT
* * * *
32239190 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
32239255 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
32239271 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
32239334 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
32239350 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
32239379 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:32246623 original size:40 final size:39
Alignment explanation
Indices: 32246458--32246641 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
32246448 AAATTGAATG
* * *
32246458 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
32246498 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
32246538 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
32246578 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
32246617 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
32246642 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:32246666 original size:80 final size:81
Alignment explanation
Indices: 32246498--32246686 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
32246488 GCTGGAAATT
* * * *
32246498 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
32246563 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
32246579 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
32246642 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
32246658 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
32246687 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:32248635 original size:28 final size:27
Alignment explanation
Indices: 32248574--32248643 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
32248564 ATAGTGAGTC
*
32248574 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
32248601 CGCACACTTAGTGCTATATGATCCAACT
1 CGCACACTTAGTGCTATATAAT-CAACT
32248629 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
32248644 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 20 0.50
28 20 0.50
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:32250349 original size:53 final size:54
Alignment explanation
Indices: 32250259--32250474 Score: 249
Period size: 55 Copynumber: 4.0 Consensus size: 54
32250249 TACGTGGTAT
* * * * * *
32250259 CCTTTTGAAGCTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
* *
32250313 CCTTATG-AACTTACCAATGCCGTGCCTTGGCATGGTCTTACATGGGA-CCTTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCC-TTG
* * * * *
32250366 CCTTATAGAAACTTATCAATGCCATGTCTTGACATGGTCTTACGTGATATCCTTG
1 CCTTAT-GAAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
*
32250421 CCTTA-GAAACCTTACCAATTGCCATGCCTTGGCATGGTCTTGCATGGTATCCTT
1 CCTTATGAAA-CTTACCAA-TGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
32250475 AAACCCTAAT
Statistics
Matches: 135, Mismatches: 21, Indels: 11
0.81 0.13 0.07
Matches are distributed among these distances:
52 2 0.01
53 46 0.34
54 14 0.10
55 71 0.53
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (54 bp):
CCTTATGAAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
Found at i:32250841 original size:29 final size:30
Alignment explanation
Indices: 32250809--32250866 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
32250799 TCCTTGACTC
32250809 AAACTTTGAAA-AATTACA-TTTTTGCCCCT
1 AAACTTTGAAATAATTACACTTTTT-CCCCT
* *
32250838 AAACTTTTAAATATTTACACTTTTTCCCC
1 AAACTTTGAAATAATTACACTTTTTCCCC
32250867 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.40
30 10 0.40
31 5 0.20
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.41
Consensus pattern (30 bp):
AAACTTTGAAATAATTACACTTTTTCCCCT
Found at i:32259164 original size:39 final size:40
Alignment explanation
Indices: 32259134--32259324 Score: 278
Period size: 40 Copynumber: 4.8 Consensus size: 40
32259124 ATAACAACTC
32259134 GCACAAATGCCTTCGGGTCTTAGCCC-GATATAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
* * *
32259173 GCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCGCTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
*
32259213 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAG-CAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC-ACTA
* *
32259253 GCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
* **
32259293 GCACAAAAGCCTTCGGGAATTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
32259325 CATTCGAATA
Statistics
Matches: 134, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 25 0.19
40 108 0.81
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
Found at i:32263488 original size:24 final size:24
Alignment explanation
Indices: 32263461--32263523 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
32263451 CTTATTATGT
*
32263461 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAATAAA
32263485 TCGCACACATAGTGCCATAATAAA
1 TCGCACACATAGTGCCATAATAAA
32263509 TCGCACACATAGTGC
1 TCGCACACATAGTGC
32263524 ATTTGAGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.37, C:0.27, G:0.16, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAATAAA
Found at i:32264685 original size:27 final size:26
Alignment explanation
Indices: 32264611--32264687 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 26
32264601 GGAGGAAGCG
*
32264611 TTCTGGTGGCTATGCCACAAATATCTA
1 TTCTGGTGGCTCTGCCAC-AATATCTA
*
32264638 TTCTGGTGGCTCTGCCACAATATCTG
1 TTCTGGTGGCTCTGCCACAATATCTA
* *
32264664 TATCTGGTGACTCTGTCACAATAT
1 T-TCTGGTGGCTCTGCCACAATAT
32264688 TTGTTTTGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.18
27 37 0.82
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (26 bp):
TTCTGGTGGCTCTGCCACAATATCTA
Found at i:32271528 original size:2 final size:2
Alignment explanation
Indices: 32271521--32271548 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
32271511 AATGGTATGC
32271521 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32271549 GTTAAATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32275538 original size:40 final size:40
Alignment explanation
Indices: 32275452--32275651 Score: 312
Period size: 40 Copynumber: 5.0 Consensus size: 40
32275442 AGAATTGAGA
32275452 GTTATATCCGGGCTAAGTCCCGAAGAGCATT-GTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
32275491 GTTATATCCGTGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
32275531 GTTATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
32275571 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* * * ** * *
32275611 GTTACATCTGAGCTAAGTCTTGAAGGGCATTCGTGCCGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
32275651 G
1 G
32275652 ATGTGTAATC
Statistics
Matches: 149, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 30 0.20
40 119 0.80
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (40 bp):
GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
Found at i:32275725 original size:43 final size:43
Alignment explanation
Indices: 32275644--32275781 Score: 161
Period size: 43 Copynumber: 3.2 Consensus size: 43
32275634 AGGGCATTCG
* ** * **
32275644 TGCCGGTGATGTGTAATCACG-CTTCATGCCTAGCAGGCTTTG
1 TGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCA
* *
32275686 TGCTGGTGATGTGTATTCGGGCCTTCGTTCCTAGCAGGCTTCA
1 TGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCA
* * *
32275729 TGCCGGTGATGTGTATTTGGGTCTTCGTGCCTAGCAGGCTTAA
1 TGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCA
*
32275772 TGCCAGTGAT
1 TGCCGGTGAT
32275782 TCGAGCAAAG
Statistics
Matches: 81, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 17 0.21
43 64 0.79
ACGTcount: A:0.14, C:0.22, G:0.30, T:0.33
Consensus pattern (43 bp):
TGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCA
Found at i:32275939 original size:25 final size:25
Alignment explanation
Indices: 32275900--32275954 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
32275890 TGTATAATAA
32275900 CGAATGAATATAGGCACTATGGGTG
1 CGAATGAATATAGGCACTATGGGTG
* *
32275925 CGAATGAAT-TGAGGCACTGTGTGTG
1 CGAATGAATAT-AGGCACTATGGGTG
32275950 CGAAT
1 CGAAT
32275955 TCTTTAACCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (25 bp):
CGAATGAATATAGGCACTATGGGTG
Found at i:32275975 original size:28 final size:28
Alignment explanation
Indices: 32275938--32276036 Score: 92
Period size: 28 Copynumber: 3.5 Consensus size: 28
32275928 ATGAATTGAG
*
32275938 GCACTGTGTGTGCGAATTCTTTAACCGA
1 GCACTATGTGTGCGAATTCTTTAACCGA
** * ** *
32275966 GCACTATGTGTGCGAGA-TCGGTCAGTGG
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
* *
32275994 GCACTGTGTGTTCGAATTCTTTAACCGA
1 GCACTATGTGTGCGAATTCTTTAACCGA
*
32276022 GCAATATGTGTGCGA
1 GCACTATGTGTGCGA
32276037 GATCGGTCAG
Statistics
Matches: 51, Mismatches: 18, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
27 1 0.02
28 49 0.96
29 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (28 bp):
GCACTATGTGTGCGAATTCTTTAACCGA
Found at i:32276010 original size:56 final size:56
Alignment explanation
Indices: 32275937--32276062 Score: 225
Period size: 56 Copynumber: 2.2 Consensus size: 56
32275927 AATGAATTGA
*
32275937 GGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGTCAGTG
1 GGCACTGTGTGTGCGAATTCTTTAACCGAGCAATATGTGTGCGAGATCGGTCAGTG
*
32275993 GGCACTGTGTGTTCGAATTCTTTAACCGAGCAATATGTGTGCGAGATCGGTCAGTG
1 GGCACTGTGTGTGCGAATTCTTTAACCGAGCAATATGTGTGCGAGATCGGTCAGTG
*
32276049 GGCATTGTGTGTGC
1 GGCACTGTGTGTGC
32276063 AGATTTCGTT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 66 1.00
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.30
Consensus pattern (56 bp):
GGCACTGTGTGTGCGAATTCTTTAACCGAGCAATATGTGTGCGAGATCGGTCAGTG
Found at i:32276059 original size:28 final size:28
Alignment explanation
Indices: 32275972--32276066 Score: 77
Period size: 28 Copynumber: 3.4 Consensus size: 28
32275962 CCGAGCACTA
*
32275972 TGTGTGCGAGATCGGTCAGTGGGCACTG
1 TGTGTGCGAGATCGGTCAGTGGGCAATG
* ** * ** * *
32276000 TGTGTTCGA-ATTCTTTAACCGAGCAATA
1 TGTGTGCGAGA-TCGGTCAGTGGGCAATG
*
32276028 TGTGTGCGAGATCGGTCAGTGGGCATTG
1 TGTGTGCGAGATCGGTCAGTGGGCAATG
32276056 TGTGTGC-AGAT
1 TGTGTGCGAGAT
32276067 TTCGTTTCAT
Statistics
Matches: 47, Mismatches: 18, Indels: 5
0.67 0.26 0.07
Matches are distributed among these distances:
27 5 0.11
28 41 0.87
29 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.35, T:0.31
Consensus pattern (28 bp):
TGTGTGCGAGATCGGTCAGTGGGCAATG
Found at i:32283320 original size:27 final size:26
Alignment explanation
Indices: 32283262--32283347 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 26
32283252 GGAGGAAGCG
* * *
32283262 TTCTGGTGGCTATGCCACAAATATCTG
1 TTCTGGTGGCTCTGCCAC-AATATATA
32283289 TTCTGGTGGCTCTGCCACAATATATA
1 TTCTGGTGGCTCTGCCACAATATATA
* ** *
32283315 TATCTGGTGACTCTATCACAATATCTA
1 T-TCTGGTGGCTCTGCCACAATATATA
32283342 TTCTGG
1 TTCTGG
32283348 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 12 0.24
27 39 0.76
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (26 bp):
TTCTGGTGGCTCTGCCACAATATATA
Found at i:32284944 original size:27 final size:27
Alignment explanation
Indices: 32284913--32284985 Score: 137
Period size: 27 Copynumber: 2.7 Consensus size: 27
32284903 TAATTTGATC
*
32284913 AAATGACTATTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTATGAGGTA
32284940 AAATGACTATTTTGCCCTTATGAGGTA
1 AAATGACTATTTTGCCCTTATGAGGTA
32284967 AAATGACTATTTTGCCCTT
1 AAATGACTATTTTGCCCTT
32284986 TTATGCTAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
AAATGACTATTTTGCCCTTATGAGGTA
Found at i:32284995 original size:27 final size:27
Alignment explanation
Indices: 32284913--32284998 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
32284903 TAATTTGATC
* *
32284913 AAATGACTATTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTTTATGGTA
*
32284940 AAATGACTATTTTGCCCTTATGA-GGTA
1 AAATGACTATTTTGCCCTT-TTATGGTA
*
32284967 AAATGACTATTTTGCCCTTTTATGCTA
1 AAATGACTATTTTGCCCTTTTATGGTA
32284994 AAATG
1 AAATG
32284999 GCTAAAATGC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
26 2 0.04
27 50 0.96
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (27 bp):
AAATGACTATTTTGCCCTTTTATGGTA
Found at i:32285010 original size:54 final size:54
Alignment explanation
Indices: 32284913--32285036 Score: 133
Period size: 54 Copynumber: 2.3 Consensus size: 54
32284903 TAATTTGATC
* * *** * *
32284913 AAATGACTATTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATGA-GGTA
1 AAATGACTATTTTGCCCTTATATGCTAAAATGACTAAAATGCCCCTA-CATGGTA
* *
32284967 AAATGACTATTTTGCCCTTTTATGCTAAAATGGCTAAAATGCCCCTACATGGTA
1 AAATGACTATTTTGCCCTTATATGCTAAAATGACTAAAATGCCCCTACATGGTA
* *
32285021 AATTGACTGTTTTGCC
1 AAATGACTATTTTGCC
32285037 TCTATGTGAG
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.02
54 57 0.98
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (54 bp):
AAATGACTATTTTGCCCTTATATGCTAAAATGACTAAAATGCCCCTACATGGTA
Found at i:32285548 original size:40 final size:39
Alignment explanation
Indices: 32285436--32285553 Score: 114
Period size: 40 Copynumber: 3.0 Consensus size: 39
32285426 ACTGCTCTGT
* * **
32285436 TTACTGTTACTTCAATGGGCCAAGGCCCAAACACATGATTG
1 TTACTGTTAC-TGAATGGGCTAAGGCCCAAACTGAT-ATTG
* * *
32285477 TTTCTG-TATTGAGATGGGCTAAAGCCCAAACTGATATTG
1 TTACTGTTACTGA-ATGGGCTAAGGCCCAAACTGATATTG
*
32285516 TTACTGTTACTGATATGGGCTTAGGCCCAAACTG-TATT
1 TTACTGTTACTGA-ATGGGCTAAGGCCCAAACTGATATT
32285554 TGCTCACTAT
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
39 15 0.24
40 43 0.68
41 5 0.08
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (39 bp):
TTACTGTTACTGAATGGGCTAAGGCCCAAACTGATATTG
Found at i:32288047 original size:42 final size:43
Alignment explanation
Indices: 32287944--32288049 Score: 144
Period size: 44 Copynumber: 2.5 Consensus size: 43
32287934 ATATGTGTTA
* *
32287944 TCGTGTAAGACCATGTCTGGGATGTTGGCATCGACTTATGATT
1 TCGTGTAAGACCATGTATGGAATGTTGGCATCGACTTATGATT
*
32287987 TACGTGTAAGACCATGTATGGAATGTTGGCATTGTAC-T-TGATT
1 T-CGTGTAAGACCATGTATGGAATGTTGGCATCG-ACTTATGATT
*
32288030 TCGTGTAAGACCCTGTATGG
1 TCGTGTAAGACCATGTATGG
32288050 GACAATGGCA
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
42 18 0.32
43 7 0.12
44 30 0.53
45 2 0.04
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (43 bp):
TCGTGTAAGACCATGTATGGAATGTTGGCATCGACTTATGATT
Found at i:32288059 original size:42 final size:43
Alignment explanation
Indices: 32287982--32288085 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 43
32287972 CATCGACTTA
*** *
32287982 TGATTTACGTGTAAGACCATGTATGGAATGTTGGCATTG-TACT
1 TGATTT-CGTGTAAGACCATGTATGGAACAATGGCATCGATACT
* * *
32288025 TGATTTCGTGTAAGACCCTGTATGGGACAATGGCATCGATATT
1 TGATTTCGTGTAAGACCATGTATGGAACAATGGCATCGATACT
* *
32288068 TGATTACATGTAAGACCA
1 TGATTTCGTGTAAGACCA
32288086 CGTCTAGGAC
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 26 0.52
43 24 0.48
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCATGTATGGAACAATGGCATCGATACT
Found at i:32288071 original size:43 final size:43
Alignment explanation
Indices: 32287931--32288103 Score: 154
Period size: 43 Copynumber: 4.0 Consensus size: 43
32287921 GACATAGGAT
* *
32287931 TCGATATGTG-TTATCGTGTAAGACCATGTCTGGGATGTTGGCA
1 TCGATATTTGATT-TCGTGTAAGACCATGTATGGGATGTTGGCA
* *
32287974 TCGACT-TATGATTTACGTGTAAGACCATGTATGGAATGTTGGCA
1 TCGA-TATTTGATTT-CGTGTAAGACCATGTATGGGATGTTGGCA
* * * ***
32288018 TTG-TACTTGATTTCGTGTAAGACCCTGTATGGGACAATGGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTATGGGATGTTGGCA
* * * * * *
32288060 TCGATATTTGATTACATGTAAGACCACGTCTAGGACGTTGGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTATGGGATGTTGGCA
32288103 T
1 T
32288104 TGTATGAGCT
Statistics
Matches: 104, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
42 27 0.26
43 45 0.43
44 32 0.31
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
TCGATATTTGATTTCGTGTAAGACCATGTATGGGATGTTGGCA
Found at i:32288946 original size:22 final size:21
Alignment explanation
Indices: 32288920--32288961 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
32288910 GATTTGGTTG
32288920 TAAAATGGCTGAGAATTTGATA
1 TAAAAT-GCTGAGAATTTGATA
* *
32288942 TAAAATGTTGTGAATTTGAT
1 TAAAATGCTGAGAATTTGAT
32288962 GCTTGTAGCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.38
Consensus pattern (21 bp):
TAAAATGCTGAGAATTTGATA
Found at i:32295605 original size:42 final size:42
Alignment explanation
Indices: 32295498--32295654 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 42
32295488 ATATGTGTTA
* * *
32295498 TCGTGTAAGACCATGTCTGGGATGTTAGCATCG-ACTTATGATT
1 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGAAC-T-TGATT
* *
32295541 TACGTGTAAAACCACGTTTGGGACGTTGGCATCGAACTTGATT
1 T-CGTGTAAGACCACGTCTGGGACGTTGGCATCGAACTTGATT
* * *
32295584 TTGTGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTTGATT
1 TCGTGTAAGACCAC-GTCTGGGA-CGTTGGCATCGA-ACTTGATT
* *
32295627 ACATGTAAGACCACGTCTGGGACGTTGG
1 TCGTGTAAGACCACGTCTGGGACGTTGG
32295655 AATTGTACGA
Statistics
Matches: 93, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
41 1 0.01
42 26 0.28
43 35 0.38
44 29 0.31
45 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGACGTTGGCATCGAACTTGATT
Found at i:32298695 original size:31 final size:31
Alignment explanation
Indices: 32298659--32298720 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
32298649 AATGTAAATG
*
32298659 TTCTTACAATGCCACTTATCATCAGTTTGAA
1 TTCTTACAATGCCACTTATCATCAATTTGAA
32298690 TTCTTACAATGCCACTTATCATCAATTTGAA
1 TTCTTACAATGCCACTTATCATCAATTTGAA
32298721 CTTAGATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.39
Consensus pattern (31 bp):
TTCTTACAATGCCACTTATCATCAATTTGAA
Found at i:32307924 original size:22 final size:22
Alignment explanation
Indices: 32307879--32307925 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
32307869 ATAATTCATA
**
32307879 ATTATAATAAAGCATTTATCAC
1 ATTATAATAAAGCATTTAAAAC
*
32307901 ATTATATTAAAGCATTTAAAAC
1 ATTATAATAAAGCATTTAAAAC
32307923 ATT
1 ATT
32307926 CTACCATACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (22 bp):
ATTATAATAAAGCATTTAAAAC
Found at i:32309984 original size:43 final size:45
Alignment explanation
Indices: 32309918--32310004 Score: 124
Period size: 43 Copynumber: 2.0 Consensus size: 45
32309908 TATGTCATTG
* *
32309918 ATATTGAAATGGAAAAGATGAGAAACGA-ATATGAGATG-TGAAA
1 ATATAGAAATGGAAAAGATGAGAAACGAGATATGAAATGATGAAA
* *
32309961 ATATAGAAATGGAAAATATGAGAAATGAGATATGAAATGATGAA
1 ATATAGAAATGGAAAAGATGAGAAACGAGATATGAAATGATGAA
32310005 TTGAAATGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 25 0.66
44 9 0.24
45 4 0.11
ACGTcount: A:0.53, C:0.01, G:0.24, T:0.22
Consensus pattern (45 bp):
ATATAGAAATGGAAAAGATGAGAAACGAGATATGAAATGATGAAA
Found at i:32309986 original size:16 final size:16
Alignment explanation
Indices: 32309923--32309987 Score: 61
Period size: 15 Copynumber: 4.4 Consensus size: 16
32309913 CATTGATATT
*
32309923 GAAATGGAAAAGATGA
1 GAAATGGAAAATATGA
*
32309939 GAAA-CG--AATATGA
1 GAAATGGAAAATATGA
32309952 G--ATGTGAAAATAT-A
1 GAAATG-GAAAATATGA
32309966 GAAATGGAAAATATGA
1 GAAATGGAAAATATGA
32309982 GAAATG
1 GAAATG
32309988 AGATATGAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
11 1 0.03
13 8 0.21
14 2 0.05
15 14 0.36
16 14 0.36
ACGTcount: A:0.54, C:0.02, G:0.26, T:0.18
Consensus pattern (16 bp):
GAAATGGAAAATATGA
Found at i:32317392 original size:18 final size:18
Alignment explanation
Indices: 32317369--32317405 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
32317359 TACATATAAG
32317369 TATAACTCCTAATTATTC
1 TATAACTCCTAATTATTC
32317387 TATAACTCCTAATTATTC
1 TATAACTCCTAATTATTC
32317405 T
1 T
32317406 TGTAAAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.00, T:0.46
Consensus pattern (18 bp):
TATAACTCCTAATTATTC
Found at i:32318098 original size:16 final size:16
Alignment explanation
Indices: 32318079--32318109 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32318069 CTTCTTCACT
32318079 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
32318095 TACTTACTTACTTAA
1 TACTCACTTACTTAA
32318110 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:32318115 original size:20 final size:20
Alignment explanation
Indices: 32318076--32318115 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
32318066 AAACTTCTTC
* *
32318076 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
32318096 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
32318116 TTATTAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:32318230 original size:23 final size:24
Alignment explanation
Indices: 32318188--32318232 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
32318178 TTTGCTCTTC
*
32318188 TAGCATGAACTTGTCCTACCTTTT
1 TAGCATGAACTCGTCCTACCTTTT
*
32318212 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCCTACCTT
32318233 ACCTTACCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.40
Consensus pattern (24 bp):
TAGCATGAACTCGTCCTACCTTTT
Found at i:32318491 original size:55 final size:53
Alignment explanation
Indices: 32318348--32318555 Score: 222
Period size: 55 Copynumber: 3.8 Consensus size: 53
32318338 ATCCTTTTGA
* * *
32318348 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAG
* * * *
32318401 AACTCACCAATTCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG
* * * * *
32318455 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAG
*
32318509 AACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
32318556 AAACCCTAAT
Statistics
Matches: 127, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
52 2 0.02
53 44 0.35
54 9 0.07
55 70 0.55
56 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG
Found at i:32324110 original size:40 final size:40
Alignment explanation
Indices: 32323827--32324096 Score: 321
Period size: 40 Copynumber: 6.8 Consensus size: 40
32323817 ATTGAATGAT
* * ** ** *
32323827 ATCCGGGCTAAGTCCCGAAGACATTTATGCTG-GTAATTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTTGTTAA
* * * *
32323867 ATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-TGACTAC
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTAA
*
32323907 ATCCGGGCTAAGACCCGAAGGTATTCGTGCGAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAA
32323947 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAA
32323987 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAA
* * * * **
32324027 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAA
*
32324067 ATCCAGGCTAAGACCCGAAGGCATTCGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGC
32324097 ATGTGGTTAT
Statistics
Matches: 201, Mismatches: 24, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.01
40 193 0.96
41 5 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:32328861 original size:28 final size:29
Alignment explanation
Indices: 32328794--32328894 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
32328784 ATAGTGAATC
*
32328794 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
32328823 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
32328851 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
32328881 CGCACACTTAGTGC
1 CGCACACTTAGTGC
32328895 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:32340163 original size:40 final size:40
Alignment explanation
Indices: 32340118--32340247 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
32340108 CGGAATATAA
32340118 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
32340158 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
32340198 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
32340238 CCGGATATAA
1 CCGGATATAA
32340248 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:32340262 original size:40 final size:39
Alignment explanation
Indices: 32340134--32340284 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
32340124 ATAACCATGT
* * *
32340134 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
32340174 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
32340214 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
32340253 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
32340285 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:32340268 original size:80 final size:79
Alignment explanation
Indices: 32340118--32340284 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
32340108 CGGAATATAA
*
32340118 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
32340183 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
32340198 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
32340260 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
32340277 CCGGATAT
1 CCGGATAT
32340285 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:32343219 original size:26 final size:26
Alignment explanation
Indices: 32343189--32343245 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
32343179 TATGATGAAC
* *
32343189 TGACTGTTATACCCCTATGAGGTAAA
1 TGACTGATATACCCCTATGAGATAAA
* *
32343215 TGACTGATATGCCCCTATGTGATAAA
1 TGACTGATATACCCCTATGAGATAAA
32343241 TGACT
1 TGACT
32343246 AGTTGAGCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (26 bp):
TGACTGATATACCCCTATGAGATAAA
Found at i:32347122 original size:20 final size:21
Alignment explanation
Indices: 32347085--32347124 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
32347075 CTGGACTGAT
32347085 AGGCAGTAAGAAAGTTTTGAG
1 AGGCAGTAAGAAAGTTTTGAG
32347106 AGGCA-TAAGAATA-TTTTGA
1 AGGCAGTAAGAA-AGTTTTGA
32347125 CTGAGGCTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.40, C:0.05, G:0.28, T:0.28
Consensus pattern (21 bp):
AGGCAGTAAGAAAGTTTTGAG
Found at i:32351580 original size:17 final size:18
Alignment explanation
Indices: 32351546--32351580 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
32351536 TTAAAAATAG
32351546 AAAATTTATATGGAAAAT
1 AAAATTTATATGGAAAAT
*
32351564 AAAATTTA-ATGGCAAAT
1 AAAATTTATATGGAAAAT
32351581 TACAGAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.54, C:0.03, G:0.11, T:0.31
Consensus pattern (18 bp):
AAAATTTATATGGAAAAT
Found at i:32354963 original size:24 final size:24
Alignment explanation
Indices: 32354931--32354991 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
32354921 AAAATCCAAT
* * *
32354931 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAAT-TA
32354955 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGCGAGTGTAATTA
32354979 GCACTATGTGTGC
1 GCACTATGTGTGC
32354992 AAATACGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATTA
Found at i:32362757 original size:24 final size:24
Alignment explanation
Indices: 32362725--32362785 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
32362715 AAAATCCAAT
* * *
32362725 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAAT-TA
32362749 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGCGAGTGTAATTA
32362773 GCACTATGTGTGC
1 GCACTATGTGTGC
32362786 AAATACGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATTA
Found at i:32364537 original size:30 final size:28
Alignment explanation
Indices: 32364485--32364549 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 28
32364475 GGATCATCTC
* * * *
32364485 ATATATATATATCATAATTATAACATTAA
1 ATATATATATATAAAAAATATAA-AATAA
32364514 ATAATATATATATAAAAAATATAAAATAA
1 AT-ATATATATATAAAAAATATAAAATAA
32364543 ATATATA
1 ATATATA
32364550 AGGAGATAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 5 0.16
29 8 0.26
30 18 0.58
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (28 bp):
ATATATATATATAAAAAATATAAAATAA
Found at i:32366346 original size:27 final size:27
Alignment explanation
Indices: 32366316--32366431 Score: 117
Period size: 27 Copynumber: 4.3 Consensus size: 27
32366306 TAATTTGATC
*
32366316 AAATGACTATTTTGCACTTATGTAGAA
1 AAATGACTATTTTGCCCTTATGTAGAA
* * * *
32366343 AAATGACTGTTTTGCCCCTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTAGAA
*
32366370 AAATGACTATTTTGCCCTTTTG-AGGAA
1 AAATGACTATTTTGCCCTTATGTA-GAA
* * * * *
32366397 AAATGATTGTTTTGCCCTTATATGGTA
1 AAATGACTATTTTGCCCTTATGTAGAA
32366424 AAATGACT
1 AAATGACT
32366432 TAAATGCCCC
Statistics
Matches: 70, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (27 bp):
AAATGACTATTTTGCCCTTATGTAGAA
Found at i:32366376 original size:54 final size:54
Alignment explanation
Indices: 32366316--32366431 Score: 171
Period size: 54 Copynumber: 2.1 Consensus size: 54
32366306 TAATTTGATC
*
32366316 AAATGACTATTTTGCACTTATGTA-GAAAAATGACTGTTTTGCCCCTATGTGGTA
1 AAATGACTATTTTGCACTTATG-AGGAAAAATGACTGTTTTGCCCCTATATGGTA
* * * *
32366370 AAATGACTATTTTGCCCTTTTGAGGAAAAATGATTGTTTTGCCCTTATATGGTA
1 AAATGACTATTTTGCACTTATGAGGAAAAATGACTGTTTTGCCCCTATATGGTA
32366424 AAATGACT
1 AAATGACT
32366432 TAAATGCCCC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
53 1 0.02
54 55 0.98
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (54 bp):
AAATGACTATTTTGCACTTATGAGGAAAAATGACTGTTTTGCCCCTATATGGTA
Done.