Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 149 of 199
Found at i:44648560 original size:16 final size:16
Alignment explanation
Indices: 44648528--44648578 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
44648518 GGTTCACTGA
*
44648528 AATGGAATATGA-TTGT
1 AATGGAATA-GAGCTGT
*
44648544 AATGTAATAGAGCTGT
1 AATGGAATAGAGCTGT
44648560 AATGGAATAGAGCTGT
1 AATGGAATAGAGCTGT
44648576 AAT
1 AAT
44648579 AGAGAAGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
15 2 0.06
16 29 0.94
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.31
Consensus pattern (16 bp):
AATGGAATAGAGCTGT
Found at i:44648588 original size:27 final size:27
Alignment explanation
Indices: 44648546--44648605 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
44648536 ATGATTGTAA
**
44648546 TGTAATAGAGCTGTAATGGAATAGAGC
1 TGTAATAGAGAAGTAATGGAATAGAGC
*
44648573 TGTAATAGAGAAGTAATGGAATAGAGT
1 TGTAATAGAGAAGTAATGGAATAGAGC
44648600 TGTAAT
1 TGTAAT
44648606 CAATAATTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.40, C:0.03, G:0.28, T:0.28
Consensus pattern (27 bp):
TGTAATAGAGAAGTAATGGAATAGAGC
Found at i:44648838 original size:11 final size:10
Alignment explanation
Indices: 44648794--44648866 Score: 53
Period size: 10 Copynumber: 7.3 Consensus size: 10
44648784 TTATTATTAC
44648794 ATATAATTTA
1 ATATAATTTA
* **
44648804 ATAAAATAAA
1 ATATAATTTA
44648814 ATAAATAATTTA
1 AT--ATAATTTA
*
44648826 ATCATATTTTA
1 AT-ATAATTTA
44648837 ATATAATTTA
1 ATATAATTTA
*
44648847 ATA-AA-AT-
1 ATATAATTTA
44648854 ATATAATTTA
1 ATATAATTTA
44648864 ATA
1 ATA
44648867 ATTATGTTTT
Statistics
Matches: 47, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
7 3 0.06
8 3 0.06
9 3 0.06
10 22 0.47
11 9 0.19
12 7 0.15
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (10 bp):
ATATAATTTA
Found at i:44652996 original size:3 final size:3
Alignment explanation
Indices: 44652988--44653037 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
44652978 TTTGTGAAAA
* *
44652988 TAT TAT TA- TAT GAT TAT TAT AAT ATAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
44653033 TAT TA
1 TAT TA
44653038 CAATGGCATC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.90
4 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:44660067 original size:22 final size:23
Alignment explanation
Indices: 44660012--44660074 Score: 83
Period size: 22 Copynumber: 2.8 Consensus size: 23
44660002 TACACCACAC
* *
44660012 TAGTAGGCACCAAAGTGCTTTAA
1 TAGTAGGCACCGAAGTGCTTGAA
* *
44660035 TAGTAGACACCGAAGTGC-TGAG
1 TAGTAGGCACCGAAGTGCTTGAA
44660057 TAGTAGGCACCGAAGTGC
1 TAGTAGGCACCGAAGTGC
44660075 GAATCAGCAG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
22 19 0.54
23 16 0.46
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.21
Consensus pattern (23 bp):
TAGTAGGCACCGAAGTGCTTGAA
Found at i:44660086 original size:22 final size:22
Alignment explanation
Indices: 44660042--44660102 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
44660032 TAATAGTAGA
* *
44660042 CACCGAAGTGCTGAGT-AGTAGG
1 CACCGAAGTGC-GAATCAGCAGG
44660064 CACCGAAGTGCGAATCAGCAGG
1 CACCGAAGTGCGAATCAGCAGG
*
44660086 CACC-ATAGTGCAAATCA
1 CACCGA-AGTGCGAATCA
44660103 ATAGGCCTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.12
22 30 0.88
ACGTcount: A:0.33, C:0.25, G:0.28, T:0.15
Consensus pattern (22 bp):
CACCGAAGTGCGAATCAGCAGG
Found at i:44660108 original size:22 final size:22
Alignment explanation
Indices: 44660060--44660123 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
44660050 TGCTGAGTAG
* *
44660060 TAGGCACCGA-AGTGCGAATCAG
1 TAGGCACC-ATAGTGCAAATCAA
*
44660082 CAGGCACCATAGTGCAAATCAA
1 TAGGCACCATAGTGCAAATCAA
*
44660104 TAGGC-CTCGTAGTGCAAATC
1 TAGGCAC-CATAGTGCAAATC
44660124 CTGTACAAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 33 0.94
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.17
Consensus pattern (22 bp):
TAGGCACCATAGTGCAAATCAA
Found at i:44663654 original size:51 final size:51
Alignment explanation
Indices: 44663581--44663781 Score: 230
Period size: 51 Copynumber: 4.0 Consensus size: 51
44663571 ATTAATGATA
* * * *
44663581 CCGGTTCACATAGTAGCATGCACATAGTACTACACATGTGACCATCACTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
* *
44663632 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTAT
* * * *
44663683 CCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-T
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTAT
* * *
44663733 CTGGTACACGTAGTAGCCTACACATAGTACTACACACGTAACCATCACT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
44663782 TTCACTTTCA
Statistics
Matches: 125, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
49 4 0.03
50 40 0.32
51 78 0.62
52 2 0.02
53 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (51 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
Found at i:44663771 original size:101 final size:102
Alignment explanation
Indices: 44663589--44663771 Score: 298
Period size: 101 Copynumber: 1.8 Consensus size: 102
44663579 TACCGGTTCA
* *
44663589 CATAGTAGCATGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCATGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTACA
44663654 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
* * *
44663691 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTAC
1 CATAGTAGCATGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTAC
44663754 ACATAGTACTACACACGT
65 ACATAGTACTACACACGT
44663772 AACCATCACT
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
101 37 0.49
102 34 0.45
103 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (102 bp):
CATAGTAGCATGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTACA
CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:44663797 original size:101 final size:102
Alignment explanation
Indices: 44663581--44663776 Score: 281
Period size: 102 Copynumber: 1.9 Consensus size: 102
44663571 ATTAATGATA
* *
44663581 CCGGTTCACATAGTAGCATGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGT
1 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGT
* * *
44663646 AGCCTGCACATAGTACTACACACGTGATCGAAGCTAT
66 AGCCTACACATAGTACTACACACGTGAACCAAGCTAT
* * * *
44663683 CCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAG
1 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAG
44663746 TAGCCTACACATAGTACTACACACGT-AACCA
65 TAGCCTACACATAGTACTACACACGTGAACCA
44663777 TCACTTTCAC
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
100 3 0.04
101 37 0.44
102 40 0.48
103 4 0.05
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (102 bp):
CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGT
AGCCTACACATAGTACTACACACGTGAACCAAGCTAT
Found at i:44672211 original size:31 final size:31
Alignment explanation
Indices: 44672170--44672244 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
44672160 TAGATTTGAA
* *
44672170 TATGACATATTTAAGACATGT-ATTATATTAT
1 TATGTCATATTTAAGACATCTAATTATATT-T
* * * *
44672201 TATTTTATATTTTATACATCTAATTATATTT
1 TATGTCATATTTAAGACATCTAATTATATTT
44672232 TATGTCATATTTA
1 TATGTCATATTTA
44672245 CATTTATAAC
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
31 26 0.76
32 8 0.24
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (31 bp):
TATGTCATATTTAAGACATCTAATTATATTT
Found at i:44672540 original size:22 final size:21
Alignment explanation
Indices: 44672501--44672542 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
44672491 CAATACGAAA
* *
44672501 AAAGGATAAAAGAAAGAAATC
1 AAAGGAAAAAAAAAAGAAATC
44672522 AAAGGAAAAAAAAAGAGAAAT
1 AAAGGAAAAAAAAA-AGAAAT
44672543 GTAACGCCCC
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:0.71, C:0.02, G:0.19, T:0.07
Consensus pattern (21 bp):
AAAGGAAAAAAAAAAGAAATC
Found at i:44674030 original size:11 final size:11
Alignment explanation
Indices: 44674014--44674058 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
44674004 CTGGCGCGGT
*
44674014 GGCCGACGACC
1 GGCCGATGACC
44674025 GGCCGATGACC
1 GGCCGATGACC
44674036 -GCCGATGACC
1 GGCCGATGACC
* *
44674046 GACCGATGGCC
1 GGCCGATGACC
44674057 GG
1 GG
44674059 AGGATAGAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 10 0.34
11 19 0.66
ACGTcount: A:0.18, C:0.38, G:0.38, T:0.07
Consensus pattern (11 bp):
GGCCGATGACC
Found at i:44674691 original size:22 final size:23
Alignment explanation
Indices: 44674627--44674693 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 23
44674617 TTATTTTTAT
44674627 TTTATTTTTATTTATATGTA-ATTA
1 TTTA-TTTTA-TTATATGTATATTA
44674651 TTT-TTTATAATCTATATGTATA-TA
1 TTTATTT-T-AT-TATATGTATATTA
44674675 TTTATTTTATTATATGTAT
1 TTTATTTTATTATATGTAT
44674694 GTATGTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
22 12 0.32
23 4 0.11
24 18 0.47
25 4 0.11
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.64
Consensus pattern (23 bp):
TTTATTTTATTATATGTATATTA
Found at i:44682698 original size:21 final size:22
Alignment explanation
Indices: 44682674--44682718 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
44682664 AAGAAAAATT
* *
44682674 AAAATGTACAAA-ATAAATTAA
1 AAAATATACAAATATAAAATAA
*
44682695 AAAATATATAAATATAAAATAA
1 AAAATATACAAATATAAAATAA
44682717 AA
1 AA
44682719 TAAAATATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (22 bp):
AAAATATACAAATATAAAATAA
Found at i:44683194 original size:19 final size:19
Alignment explanation
Indices: 44683170--44683206 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
44683160 CAATTCTTGA
44683170 AATCAAAA-TTTATATTGTG
1 AATCAAAACTTTA-ATTGTG
44683189 AATCAAAACTTTAATTGT
1 AATCAAAACTTTAATTGT
44683207 TTCTTTTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (19 bp):
AATCAAAACTTTAATTGTG
Found at i:44699637 original size:23 final size:22
Alignment explanation
Indices: 44699594--44699642 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
44699584 TTAATCGCTA
*
44699594 TTAAATTTTATTGATTAAATGGG
1 TTAAATTCTATTGATTAAAT-GG
*
44699617 TTAAATTCTATT-ATTGCAATGG
1 TTAAATTCTATTGATT-AAATGG
44699639 TTAA
1 TTAA
44699643 CATGGGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.47
Consensus pattern (22 bp):
TTAAATTCTATTGATTAAATGG
Found at i:44700252 original size:16 final size:16
Alignment explanation
Indices: 44700231--44700302 Score: 51
Period size: 16 Copynumber: 4.6 Consensus size: 16
44700221 AATATCATTT
44700231 TTATAATTAAAAAATA
1 TTATAATTAAAAAATA
* * *
44700247 TTATAATCAATAGATA
1 TTATAATTAAAAAATA
* **
44700263 TT-TTA-TAAAAAGGA
1 TTATAATTAAAAAATA
44700277 -TATAATTGAAAAAAATA
1 TTATAATT--AAAAAATA
44700294 TTATAATTA
1 TTATAATTA
44700303 TTAATTTTTT
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
13 1 0.03
14 6 0.15
15 3 0.08
16 16 0.41
17 6 0.15
18 7 0.18
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.38
Consensus pattern (16 bp):
TTATAATTAAAAAATA
Found at i:44706808 original size:2 final size:2
Alignment explanation
Indices: 44706801--44706837 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
44706791 TGATTTTGAA
44706801 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
44706838 AAAGAGAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:44707404 original size:9 final size:9
Alignment explanation
Indices: 44707338--44707403 Score: 89
Period size: 9 Copynumber: 7.4 Consensus size: 9
44707328 ATAGTGATTC
*
44707338 AATTCGGGT
1 AATTCGGTT
44707347 AATTCGG-T
1 AATTCGGTT
44707355 AATTCGGTT
1 AATTCGGTT
44707364 AATTCGGTT
1 AATTCGGTT
*
44707373 AATTCGGGT
1 AATTCGGTT
*
44707382 AATTCGATT
1 AATTCGGTT
*
44707391 AATTTGGTT
1 AATTCGGTT
44707400 AATT
1 AATT
44707404 TTTAACAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
8 8 0.16
9 43 0.84
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:44708643 original size:5 final size:5
Alignment explanation
Indices: 44708635--44708659 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
44708625 TAAAATAGTT
44708635 GTTTA GTTTA GTTTA GTTTA GTTTA
1 GTTTA GTTTA GTTTA GTTTA GTTTA
44708660 TGGTTACTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
GTTTA
Found at i:44725472 original size:17 final size:16
Alignment explanation
Indices: 44725452--44725499 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
44725442 ATGAACTTTT
*
44725452 TTTTTTAGATTTGTTGA
1 TTTTTTAAATTT-TTGA
*
44725469 TTTTTTAAATATTTTTA
1 TTTTTTAAAT-TTTTGA
44725486 TTTTTTAAATTTTT
1 TTTTTTAAATTTTT
44725500 ATGAATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 4 0.14
17 22 0.79
18 2 0.07
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (16 bp):
TTTTTTAAATTTTTGA
Found at i:44728356 original size:47 final size:47
Alignment explanation
Indices: 44728304--44728416 Score: 172
Period size: 47 Copynumber: 2.4 Consensus size: 47
44728294 GTCACAGTAA
* *
44728304 TGCAGATAAATTGTCACTTAATAATATTGTGAACAAGCTACCACTTT
1 TGCAGATAAATTGTCACTTAATAATATTATGAACAAGCCACCACTTT
* *
44728351 TGCAGATAAATTGTCACTTAATAATATTATGGATAAGCCACCACTTT
1 TGCAGATAAATTGTCACTTAATAATATTATGAACAAGCCACCACTTT
* *
44728398 TGTAGATAATTTGTCACTT
1 TGCAGATAAATTGTCACTT
44728417 CTTCCTCCTT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 60 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (47 bp):
TGCAGATAAATTGTCACTTAATAATATTATGAACAAGCCACCACTTT
Found at i:44734065 original size:24 final size:25
Alignment explanation
Indices: 44734037--44734084 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
44734027 CAAAATAATT
*
44734037 TAAAAA-ATAAAAAGTA-TTTAAAA
1 TAAAAATAAAAAAAGTATTTTAAAA
44734060 TAAAAATAAAAAAAGTATTTTAAAA
1 TAAAAATAAAAAAAGTATTTTAAAA
44734085 ATATTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.27
24 9 0.41
25 7 0.32
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (25 bp):
TAAAAATAAAAAAAGTATTTTAAAA
Found at i:44735657 original size:28 final size:28
Alignment explanation
Indices: 44735617--44735672 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
44735607 TAAAGGTTAT
*
44735617 TATCATCTTTCTTAGCCGAATGCATGCA
1 TATCATCTTTCTTAGCCAAATGCATGCA
44735645 TATCATCTTTCTTAGCCAAATGCATGCA
1 TATCATCTTTCTTAGCCAAATGCATGCA
44735673 AAGGAAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (28 bp):
TATCATCTTTCTTAGCCAAATGCATGCA
Found at i:44736025 original size:28 final size:28
Alignment explanation
Indices: 44735993--44736092 Score: 164
Period size: 28 Copynumber: 3.6 Consensus size: 28
44735983 TAATGAGATT
44735993 AGCACTAAGTGTGCGAGTTTAATTGTAA
1 AGCACTAAGTGTGCGAGTTTAATTGTAA
*
44736021 AGCACTAAGTGTGCGAGTTTAATGGTAA
1 AGCACTAAGTGTGCGAGTTTAATTGTAA
* * *
44736049 AGCACTAAGTGTGCGAGTTTGATTATTA
1 AGCACTAAGTGTGCGAGTTTAATTGTAA
44736077 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
44736093 ACTTATTAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTAATTGTAA
Found at i:44737484 original size:23 final size:22
Alignment explanation
Indices: 44737440--44737484 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
44737430 AATATTAGGT
*
44737440 TTGAATATGTTAAATGATATGA
1 TTGAATATGTTAAATGACATGA
* *
44737462 TTGAATGTGTATAAATTACATGA
1 TTGAATATGT-TAAATGACATGA
44737485 AATTTGTTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (22 bp):
TTGAATATGTTAAATGACATGA
Found at i:44750992 original size:27 final size:26
Alignment explanation
Indices: 44750947--44751019 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 26
44750937 TACATTCAGA
* **
44750947 TAGAATATGCCACTGAGGCAATCCATT
1 TAGAATTTGCCACAAAGGCAATCC-TT
*
44750974 TAGAATTTGCCACAAAGGCATTCCTT
1 TAGAATTTGCCACAAAGGCAATCCTT
** *
44751000 TCAGTGTTAGCCACAAAGGC
1 T-AGAATTTGCCACAAAGGC
44751020 TATTCTTTCT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 3 0.08
27 35 0.92
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (26 bp):
TAGAATTTGCCACAAAGGCAATCCTT
Found at i:44756047 original size:24 final size:24
Alignment explanation
Indices: 44755996--44756049 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
44755986 GAACACGGAA
**
44755996 AAAAAT-TTAATAAAAAAAATCTT
1 AAAAATATTAATAAAAAAAATAAT
* *
44756019 GAAAATATTAATAAAAAATATAAT
1 AAAAATATTAATAAAAAAAATAAT
44756043 AAAAATA
1 AAAAATA
44756050 GAATTAGGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAAATATTAATAAAAAAAATAAT
Found at i:44756133 original size:20 final size:20
Alignment explanation
Indices: 44756085--44756136 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
44756075 GTAAAAAAAA
44756085 TTAAGAGAGAATTTGAGAGT
1 TTAAGAGAGAATTTGAGAGT
* *
44756105 TGATTGAGA-AATTTGAGAGAT
1 TTA-AGAGAGAATTTGAGAG-T
44756126 TTAAGAGAGAA
1 TTAAGAGAGAA
44756137 ATGTGAGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (20 bp):
TTAAGAGAGAATTTGAGAGT
Found at i:44761400 original size:53 final size:48
Alignment explanation
Indices: 44761221--44761365 Score: 231
Period size: 48 Copynumber: 3.0 Consensus size: 48
44761211 TCAAATATCA
* *
44761221 CACACCGAAGCCATAGCCCA-ATTATGGTCTTACACGGAAA-CACATAT
1 CACACCGATGCCATATCCCAGA-TATGGTCTTACACGGAAATCACATAT
*
44761268 CACACCGATGCCATATCCCAGATATGGTCTTATACGGAAATCACATAT
1 CACACCGATGCCATATCCCAGATATGGTCTTACACGGAAATCACATAT
*
44761316 CACACCAATGCCATATCCCAGATATGGTCTTACACGGAAATCACATAT
1 CACACCGATGCCATATCCCAGATATGGTCTTACACGGAAATCACATAT
44761364 CA
1 CA
44761366 TATCACACCG
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
47 35 0.38
48 56 0.62
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.22
Consensus pattern (48 bp):
CACACCGATGCCATATCCCAGATATGGTCTTACACGGAAATCACATAT
Found at i:44761419 original size:53 final size:51
Alignment explanation
Indices: 44761263--44761421 Score: 173
Period size: 53 Copynumber: 3.1 Consensus size: 51
44761253 CACGGAAACA
*
44761263 CATATCACACCGATGCCATATCCCAGATATGGTCTTATACG--G-AAATCA-
1 CATATCACACCGATGCCATATCCCAGATATGGTCTTATACGAAGCACAT-AT
* * *
44761311 CATATCACACCAATGCCATATCCCAGATATGGTCTTACACGGAAATCACATAT
1 CATATCACACCGATGCCATATCCCAGATATGGTCTTATAC-G-AAGCACATAT
* * * *
44761364 CATATCACACCGATGCCATAACCTAGCTATGATCTTATACTGAAGCACATAAT
1 CATATCACACCGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACAT-AT
44761417 CATAT
1 CATAT
44761422 TTTCACATGT
Statistics
Matches: 92, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
48 38 0.41
49 1 0.01
52 8 0.09
53 45 0.49
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.26
Consensus pattern (51 bp):
CATATCACACCGATGCCATATCCCAGATATGGTCTTATACGAAGCACATAT
Found at i:44764959 original size:19 final size:19
Alignment explanation
Indices: 44764935--44765026 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
44764925 AATCTTGAAG
44764935 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
44764954 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
44764973 GGTATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
44764992 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
44765011 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
44765027 AGATATGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:44764981 original size:38 final size:38
Alignment explanation
Indices: 44764935--44765049 Score: 176
Period size: 38 Copynumber: 2.9 Consensus size: 38
44764925 AATCTTGAAG
44764935 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
*
44764973 GGTATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
*
44765011 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT---AGATATGA-TATGTAATCTTAGA
44765050 GATTTAATTT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 49 0.70
41 8 0.11
42 13 0.19
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
Found at i:44764995 original size:24 final size:20
Alignment explanation
Indices: 44764942--44765049 Score: 116
Period size: 19 Copynumber: 5.5 Consensus size: 20
44764932 AAGGATATGC
44764942 AATCTTAGATATGATAT-GT
1 AATCTTAGATATGATATGGT
* *
44764961 AATCTTAGATATGGTAT-GC
1 AATCTTAGATATGATATGGT
44764980 AATCTTAGATATGATAT-GT
1 AATCTTAGATATGATATGGT
*
44764999 AATCTTAGATATGATAT-GC
1 AATCTTAGATATGATATGGT
* *
44765018 AATCTTAGAAGATATGATTTTGT
1 AATCTT---AGATATGATATGGT
44765041 AATCTTAGA
1 AATCTTAGA
44765050 GATTTAATTT
Statistics
Matches: 78, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
19 58 0.74
20 3 0.04
22 10 0.13
23 7 0.09
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (20 bp):
AATCTTAGATATGATATGGT
Found at i:44772196 original size:44 final size:44
Alignment explanation
Indices: 44771968--44772540 Score: 163
Period size: 44 Copynumber: 13.0 Consensus size: 44
44771958 AGTGAAGATA
44771968 ACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGAC
1 ACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGAC
* * **** * * * ** * *
44772012 ACCA-ACCTTGCCTCCCTGGTTTG-TAGCGGAGCAGGTTAAAAAT
1 A-CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGAC
* *
44772055 AGCAGATCTTGCCTTCCAGCACCGACAGCGAAGCAGATCAAAGAC
1 A-CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGAC
* * *** * ** * *
44772100 ACTAG-CCTTACC-TCCTAG-GTTG-CAGCGGAGCATG-TTAAAAAT
1 AC-AGATCTTGCCTTCCT-GCACCGACAGCGAAGCA-GATCGAAGAC
*
44772142 AGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGAC
1 A-CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGAC
* * ** * * ** * *
44772187 ACTAG-TCTTGCCTCCCTGGATTG-CAGTGGAGCCAG-TTAAAAATT
1 AC-AGATCTTGCCTTCCTGCACCGACAGCGAAG-CAGATCGAAGA-C
44772231 ACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGAC
1 ACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGAC
* **** * * * ** * *
44772275 ACCAGCT-TTGCC-TCTCTGGGTTG-TAGCGGAGCAGGTTAAAAATA
1 A-CAGATCTTGCCTTC-CTGCACCGACAGCGAAGCAGATCGAAGA-C
44772319 ACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGAC
1 ACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGAC
* * **** * * * ** * *
44772363 ACCA-ACCTTGCCTCCCTGGTTTG-TAGCGGAGCAGGTTAAAAATA
1 A-CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGA-C
* * * * *
44772407 ACAAATCTTACCTTCCTGCATCGACAGCGAAGCAGATTGAAAAC
1 ACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGAC
* * **** * * * ** * *
44772451 ACCA-ACCTTGCCTCCCTGGGTTG-TAGCGGAGCAGGTTAAAAAT
1 A-CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGAC
*
44772494 AGCAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGAC
1 A-CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGAC
44772539 AC
1 AC
44772541 CAGCCTTGCC
Statistics
Matches: 357, Mismatches: 141, Indels: 62
0.64 0.25 0.11
Matches are distributed among these distances:
42 17 0.05
43 92 0.26
44 151 0.42
45 97 0.27
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.21
Consensus pattern (44 bp):
ACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGAC
Found at i:44772593 original size:44 final size:44
Alignment explanation
Indices: 44772117--44772600 Score: 181
Period size: 44 Copynumber: 11.0 Consensus size: 44
44772107 TTACCTCCTA
* * * *
44772117 GGTTGCAGCGGAGCATGTTAAAAATAGCAGATCTTGCCTTCCTG
1 GGTTGCAGCGGAGCAGGTTGAAAATACCAGATCTTGCCTCCCTG
**** * * * * * *
44772161 TACCGACAGCGAAGCAGATCGAAGACACTAG-TCTTGCCTCCCTG
1 GGTTG-CAGCGGAGCAGGTTGAAAATACCAGATCTTGCCTCCCTG
* * * *
44772205 GATTGCAGTGGAGCCA-GTTAAAAATTA-CAGATCTTGCCTTCCTG
1 GGTTGCAGCGGAG-CAGGTTGAAAA-TACCAGATCTTGCCTCCCTG
**** * * * * * * *
44772249 CACCGACAGCGAAGCAGATCGAAGACACCAGCT-TTGCCTCTCTG
1 GGTTG-CAGCGGAGCAGGTTGAAAATACCAGATCTTGCCTCCCTG
* * * *
44772293 GGTTGTAGCGGAGCAGGTTAAAAATAACAGATCTTGCCTTCCTG
1 GGTTGCAGCGGAGCAGGTTGAAAATACCAGATCTTGCCTCCCTG
**** * * * * * *
44772337 CACCGACAGCGAAGCAGATCGAAGACACCA-ACCTTGCCTCCCTG
1 GGTTG-CAGCGGAGCAGGTTGAAAATACCAGATCTTGCCTCCCTG
* * * * * * *
44772381 GTTTGTAGCGGAGCAGGTTAAAAATAACAAATCTTACCTTCCTG
1 GGTTGCAGCGGAGCAGGTTGAAAATACCAGATCTTGCCTCCCTG
** * * * * *
44772425 CATCGACAGCGAAGCAGATTGAAAACACCA-ACCTTGCCTCCCTG
1 GGTTG-CAGCGGAGCAGGTTGAAAATACCAGATCTTGCCTCCCTG
* * * *
44772469 GGTTGTAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTG
1 GGTTGCAGCGGAGCAGGTTGAAAATACCAGATCTTGCCTCCCTG
***** * * * * * *
44772513 CACCAACAGCGAAGCAGATCGAAGACACCAG-CCTTGCCTCCCTG
1 -GGTTGCAGCGGAGCAGGTTGAAAATACCAGATCTTGCCTCCCTG
* * *
44772557 GGTTGCAGGGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTG
1 GGTTGCAGCGGAGCAGGTTGAAAATACCAGATCTTGCCTCCCTG
44772601 CGCCAACAGC
Statistics
Matches: 291, Mismatches: 135, Indels: 28
0.64 0.30 0.06
Matches are distributed among these distances:
43 82 0.28
44 128 0.44
45 81 0.28
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (44 bp):
GGTTGCAGCGGAGCAGGTTGAAAATACCAGATCTTGCCTCCCTG
Found at i:44772643 original size:88 final size:88
Alignment explanation
Indices: 44771969--44772633 Score: 967
Period size: 88 Copynumber: 7.6 Consensus size: 88
44771959 GTGAAGATAA
* *
44771969 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTGGTTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
44772034 GTAGCGGAGCAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
* * * * *
44772057 CAGATCTTGCCTTCCAGCACCGACAGCGAAGCAGATCAAAGACACTAGCCTTACCT-CCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
44772121 GCAGCGGAGCATGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
* * * *
44772144 CAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACTAGTCTTGCCTCCCTGGATT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
44772209 GCAGTGGAGCCA-GTTAAAAATTA-
66 GTAGCGGAG-CAGGTTAAAAA-TAG
* *
44772232 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCTTTGCCTCTCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
44772297 GTAGCGGAGCAGGTTAAAAATAA
66 GTAGCGGAGCAGGTTAAAAATAG
* *
44772320 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTGGTTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
44772385 GTAGCGGAGCAGGTTAAAAATAA
66 GTAGCGGAGCAGGTTAAAAATAG
* * * * * *
44772408 CAAATCTTACCTTCCTGCATCGACAGCGAAGCAGATTGAAAACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
44772473 GTAGCGGAGCAGGTTAAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
*
44772496 CAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* * *
44772561 GCAGGGGAGCAGGTTGAAAATAG
66 GTAGCGGAGCAGGTTAAAAATAG
* * * * *
44772584 CAGATCTTGCCTTCCTGCGCCAACAGCAAAGCAGATCGATGACCCCAGCC
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
44772634 CTATCTCCCT
Statistics
Matches: 522, Mismatches: 50, Indels: 10
0.90 0.09 0.02
Matches are distributed among these distances:
87 82 0.16
88 436 0.84
89 4 0.01
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.20
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GTAGCGGAGCAGGTTAAAAATAG
Found at i:44772682 original size:44 final size:44
Alignment explanation
Indices: 44772633--44772754 Score: 185
Period size: 44 Copynumber: 2.8 Consensus size: 44
44772623 TGACCCCAGC
44772633 CCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATTGT-AAGT
1 CCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATTGTGAA-T
*
44772677 CCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
1 CCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
44772721 CCTATCTCCCTA-AGCAACAGTGGAGTAGGTTGAA
1 CCTATCTCCCTAGA-CAGCAGTGGAATAGGTTGAA
44772755 AATAGCAGAT
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
44 70 0.97
45 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (44 bp):
CCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:44773473 original size:211 final size:212
Alignment explanation
Indices: 44773140--44773541 Score: 585
Period size: 211 Copynumber: 1.9 Consensus size: 212
44773130 CTAAAGTTGC
*
44773140 AGTGGAGCAAATTAAAGCCAATAATCCTATCTCCCTGAAGTCACAATGGAGCGGATTAAAATCAC
1 AGTGGAGCAAATTAAAGCCAATAATCCTATCTCCCTGAAGTCACAATGGAGCGGATTAAAACCAC
* * *
44773205 AGATCTTATCTCTCTGAAATTGTAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAATTGAAG
66 AGATCTTATCTCTCTGAAATTGCAGAGAGCAGATCACATCGAGTCTTATCTCCCTGAAATTGAAG
* * * * *
44773270 TGGAGCAGA-CTAAGTAAGCAAGCCTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGATG
131 TGGAGCAAACCCAAGAAAGCAAGCCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTCAAGATG
44773332 GCGAATCTTATCTCCCTGA
194 GCGAATCTTATCTCCCTGA
* ** * *
44773351 AGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCAC
1 AGTGGAGCAAATTAAAGCCAATAATCCTATCTCCCTGAAGTCACAATGGAGCGGATTAAAACCAC
* * * *
44773416 AGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACATCGGGTCTTATCTCCCTGAAGTTGTAG
66 AGATCTTATCTCTCTGAAATTGCAGAGAGCAGATCACATCGAGTCTTATCTCCCTGAAATTGAAG
* *
44773481 TGGAGCAAACCCAAGAAAGTAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGA
131 TGGAGCAAACCCAAGAAAGCAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGA
44773542 AATCAAGTTT
Statistics
Matches: 168, Mismatches: 20, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
211 125 0.74
212 40 0.24
213 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (212 bp):
AGTGGAGCAAATTAAAGCCAATAATCCTATCTCCCTGAAGTCACAATGGAGCGGATTAAAACCAC
AGATCTTATCTCTCTGAAATTGCAGAGAGCAGATCACATCGAGTCTTATCTCCCTGAAATTGAAG
TGGAGCAAACCCAAGAAAGCAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGATGGC
GAATCTTATCTCCCTGA
Found at i:44773509 original size:45 final size:45
Alignment explanation
Indices: 44773458--44773571 Score: 151
Period size: 45 Copynumber: 2.5 Consensus size: 45
44773448 ATCACATCGG
*
44773458 GTCTTATCTCCCTGAAGTTGTAGTGGAGCAAACCCAAGAAAGTAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACCCAAGAAAGTAA
* *
44773503 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAA-TCAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACCCAAGAAAGT-AA
* *
44773548 GTTTTATC-CTCCTGAAATTGCAGT
1 GTCTTATCTC-CCTGAAGTTGCAGT
44773572 AGGGCAGACT
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
44 2 0.03
45 60 0.97
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (45 bp):
GTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACCCAAGAAAGTAA
Found at i:44774155 original size:19 final size:19
Alignment explanation
Indices: 44774131--44774203 Score: 137
Period size: 19 Copynumber: 3.8 Consensus size: 19
44774121 AATCTTCAAA
44774131 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
44774150 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
44774169 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
44774188 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
44774204 AGATATGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:44774174 original size:38 final size:36
Alignment explanation
Indices: 44774121--44774210 Score: 137
Period size: 38 Copynumber: 2.4 Consensus size: 36
44774111 ATGGAAACAT
44774121 AATCTTCA-AAGATATGCAATCTTAGATATGATATGC
1 AATCTT-AGAAGATATGCAATCTTAGATATGATATGC
*
44774157 AATCTTAGATATGATATGTAATCTTAGATATGATATGC
1 AATCTTAGA-A-GATATGCAATCTTAGATATGATATGC
44774195 AATCTTAGAAGATATG
1 AATCTTAGAAGATATG
44774211 ATTTTGTAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
35 1 0.02
36 13 0.26
37 2 0.04
38 34 0.68
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.36
Consensus pattern (36 bp):
AATCTTAGAAGATATGCAATCTTAGATATGATATGC
Found at i:44778121 original size:115 final size:115
Alignment explanation
Indices: 44777919--44778159 Score: 482
Period size: 115 Copynumber: 2.1 Consensus size: 115
44777909 TTGAGAAATT
44777919 GTGCCCTAACGTATTGGGCCGCGATTTCTTTATAAATCTTAAACAAATGAATATTCTTTTAAATT
1 GTGCCCTAACGTATTGGGCCGCGATTTCTTTATAAATCTTAAACAAATGAATATTCTTTTAAATT
44777984 TTATTACATGAGTATTTTGGACTAATTCATTTTTGAGGAATTTAAATATC
66 TTATTACATGAGTATTTTGGACTAATTCATTTTTGAGGAATTTAAATATC
44778034 GTGCCCTAACGTATTGGGCCGCGATTTCTTTATAAATCTTAAACAAATGAATATTCTTTTAAATT
1 GTGCCCTAACGTATTGGGCCGCGATTTCTTTATAAATCTTAAACAAATGAATATTCTTTTAAATT
44778099 TTATTACATGAGTATTTTGGACTAATTCATTTTTGAGGAATTTAAATATC
66 TTATTACATGAGTATTTTGGACTAATTCATTTTTGAGGAATTTAAATATC
44778149 GTGCCCTAACG
1 GTGCCCTAACG
44778160 CATTAGGTGT
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 126 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.41
Consensus pattern (115 bp):
GTGCCCTAACGTATTGGGCCGCGATTTCTTTATAAATCTTAAACAAATGAATATTCTTTTAAATT
TTATTACATGAGTATTTTGGACTAATTCATTTTTGAGGAATTTAAATATC
Found at i:44782289 original size:953 final size:950
Alignment explanation
Indices: 44779425--44782795 Score: 5605
Period size: 952 Copynumber: 3.6 Consensus size: 950
44779415 CATAATAGAA
* *
44779425 GGAGATGAGAAAGTTGAGAAATAAATTACCTGCCCAGGTGAAAACAATGACTCCAATATGGAAGC
1 GGAGATGAGGAAGTTGAGAAATAAAATACCTGCCCAGGTGAAAACAATGACTCCAATATGGAAGC
** * * * *
44779490 CCTATCAAGAACCTTTTGTTAAGGTGAACTTCGATGTTGCGTTCAAAGAAACCCTCTACCACTCC
66 CCCCTCAAGAACCTTTTGTTAAGGTGAACTTCGATGCTGCGTTTAAAGCAACCCTCAACCACTCC
* * * *
44779555 TATTCTGGTTTTGTCATTAGGAATAGTAGAGGCTCGATTATGGGCAGCAGAACAGTACTCAACAA
131 TATTC-CGTTTTGTCATTAGGAATAATAGAGGCTCGGTTATGGGCAGCGGAACAGTACTCAACAA
44779620 ATTCGTCTCCGA-----TT---------G-----GCTTGTCTCCAGGCCTTGAACCTTTCACGTG
195 ATTCGTCTCCGATCCCTTTACCGCAGAAGCCATAGCTTGTCTCCAGGCCTTGAACCTTTCACGTG
* *
44779666 AAATGGGTGGAGGGGGAATTCAAGCTACTACTGCAAACAATGGTATTGAAAAAATATCAGACCTT
260 AAATGGG-GGAGGGGGAATTCAAGCTACTACCGCAAAAAATGGTATTGAAAAAATATCAGACCTT
* *
44779731 ATTGACCAATCAGCAAAGACTTGGAAAGTGGAACTTATTAAGAGTCTTTTTACCCCGATGGAAGC
324 ATTGATCAATCAGCAAAGACTTGGAAAGTGGAACTTATTAAGAGTCTTTTTACCCGGATGGAAGC
* *
44779796 TCATGCAATCTGTTGTATTCTTCTTTCAATTTACACAATTGAAGATAAAATGGTGTGCTGTACAG
389 TCATGCAATCTGTTGTATTCCTCTTTCAATTTACACAATTGAAGATAAAATGGTGTGCTGTATAG
* * * * * *
44779861 ATAAATCTAGTATGTATACGGTATACAGTGGTTACCGCTGTCTTGTCGAATCGAACATCAACGAC
454 ATAACTCTGGTCTGTATACGGTATGCAGTGGTTACCGCTGTCTTATCGAATCGAATATCAACGAC
*
44779926 ACTATAAGTACCAATCATACAAGATTTTACAGCAGATTTGGGAGCTAAATCTCCCTCCAAAAATT
519 ACTATAAGTACCAATCATACAAGATTTTACAGCAGATTTGGGAGCTAAATCTCCCCCCAAAAATT
* * *
44779991 AGAATCGCCATTTGGTGATTTACACATGAGTACATTCCTACTACAGCTAATCTCTACAATAGAAG
584 AGAATCGCCATTTGGTGATTTACACATGAGTACATTCCTACTGCAACTAATCTCTACAACAGAAG
* * * * *
44780056 AATAAATTCATCTCCCATTTGTCCTAGCCGTGGAAAAGCTCCTGAGAATTTTATGCATACCTTTC
649 AATAAATTCATCTCCTATTTGTCCTAGCTGTGGAAAGGCTCATGAGAATTTTATGCATACCCTTC
*
44780121 TGATGTGTGGCCCTGCAAAAAATGTTTGGCGATCAAT-TGATGTTGACTGGTCAACTTTAAATGA
714 TGATGTGTGGCCCTGTAAAAAATGTTTGGCGATCAATCTG-TGTTGACTGGTCAACTTTAAATGA
*
44780185 AAATATGGATTTTCGCACCTGGCTTAATGTTGTTTTTCGAAACAAGGGCATGATTTTGGTGAGAT
778 AAATATGGATTTTCGCACCTGGCTTAATGTTGTTTTTCAAAACAAGGGCATGATTTTGGTGAGAT
** * * *
44780250 TGCTGCAGTCATGGCTTGGGCACTCTGGCAAGCCTGAAAGAAGCTCATAATGGAAGGAAAAAGAC
843 TGCTGCAACCATGGCTTGGGCACTCTGGCAAGCTTGAAACAAGCGCATAATGGAAGGAAAAAGAC
*
44780315 AACCAGTCCAAGATATATGCTCTATTATCTTCAGCATTATAAG
908 AACCAGTCCAAGATATATGCTCTATTATCTTCAGCATTACAAG
* * *
44780358 GGAGATGAAGAAGTTGAGAAATAAAATACTTGCCCAGGTGAAAACAATTACTCCAATATGGAAGC
1 GGAGATGAGGAAGTTGAGAAATAAAATACCTGCCCAGGTGAAAACAATGACTCCAATATGGAAGC
* * * *
44780423 CCCCTCAAGAACCTTTTGTCAAGGTGAACTTCGATGCTGCGTTTAACGCAACCCTCTACCACTGC
66 CCCCTCAAGAACCTTTTGTTAAGGTGAACTTCGATGCTGCGTTTAAAGCAACCCTCAACCACTCC
* ** *
44780488 TATTCCAGTTTTGTCATTTGGAATAGCAGAGGCTCGGTTATGGGCAGCGGAACAGTACTCCACAA
131 TATTCC-GTTTTGTCATTAGGAATAATAGAGGCTCGGTTATGGGCAGCGGAACAGTACTCAACAA
* * *
44780553 ATTCGTATCCGATCCCTTTACAGTAGAAGCCATAGCTTGTCTCCAGGCCTTGAACCTTTCACGTG
195 ATTCGTCTCCGATCCCTTTACCGCAGAAGCCATAGCTTGTCTCCAGGCCTTGAACCTTTCACGTG
* * * *
44780618 AAATGGGGGGAGGGGGAATTCAAGCTACTACCGCAAACACTGGTATTGAAAAAGTATAAGACCTT
260 AAAT-GGGGGAGGGGGAATTCAAGCTACTACCGCAAAAAATGGTATTGAAAAAATATCAGACCTT
*
44780683 ATTGATCAATCAGCAAAGACTTGGAAAGTGGAACTTATTAACAGTCTTTTTACCCGGATGGAAGC
324 ATTGATCAATCAGCAAAGACTTGGAAAGTGGAACTTATTAAGAGTCTTTTTACCCGGATGGAAGC
* *
44780748 TCATGCAATCTGTTGTATTTCTCTTTCAATTTACACAATTGAAGATAAAATGGTGTGGTGTATAG
389 TCATGCAATCTGTTGTATTCCTCTTTCAATTTACACAATTGAAGATAAAATGGTGTGCTGTATAG
44780813 ATAACTCTGGTCTGTATACGGTATGCAGTGGTTACCGCTGTCTTATCGAATCGAATATCAACGAC
454 ATAACTCTGGTCTGTATACGGTATGCAGTGGTTACCGCTGTCTTATCGAATCGAATATCAACGAC
*
44780878 ACTATAAGTACCAATCATACAAGATTTTACAGCAGATTTGGGAGCTACATCTCCCCCCAAAAATT
519 ACTATAAGTACCAATCATACAAGATTTTACAGCAGATTTGGGAGCTAAATCTCCCCCCAAAAATT
* * *
44780943 AGAATCGCCATTTGGTGATTTAGACATGAATACATTCCTACTGCAACAAATCTCTACAACAGAAG
584 AGAATCGCCATTTGGTGATTTACACATGAGTACATTCCTACTGCAACTAATCTCTACAACAGAAG
44781008 AATAAATTCATCTCCTATTTGTCCTAGCTGTGGAAAGGCTCATGAGAATTTTATGCATACCCTTC
649 AATAAATTCATCTCCTATTTGTCCTAGCTGTGGAAAGGCTCATGAGAATTTTATGCATACCCTTC
*
44781073 TGATGTGTGGCCCTGTAAAAAATGTTTGGCGATCAATCGGTGTTGACTGGTCAACTTTAAATGAA
714 TGATGTGTGGCCCTGTAAAAAATGTTTGGCGATCAATCTGTGTTGACTGGTCAACTTTAAATGAA
*
44781138 AATATGGATTTTCGTACCTGGCTTAATGTTGTTTTTCAAAACAAGGGCATGATTTTGGTGAGATT
779 AATATGGATTTTCGCACCTGGCTTAATGTTGTTTTTCAAAACAAGGGCATGATTTTGGTGAGATT
* * *
44781203 GCTACAACCATGGCTTGGGCACTCTGGCAAGCTTGAAACAAGCGTATAATGGAAGGAAAAAGCCA
844 GCTGCAACCATGGCTTGGGCACTCTGGCAAGCTTGAAACAAGCGCATAATGGAAGGAAAAAGACA
44781268 ACCAGTCCAAGATATATGCTCTATTATCTTCAGCATTACAAG
909 ACCAGTCCAAGATATATGCTCTATTATCTTCAGCATTACAAG
* *
44781310 GGAGATGAGGGAGTTGAGAAATAAAATACCTGCCCAGGTGAAAATAATGACTCCAATATGGAAGC
1 GGAGATGAGGAAGTTGAGAAATAAAATACCTGCCCAGGTGAAAACAATGACTCCAATATGGAAGC
* * **
44781375 CCCCTCCAGAACCTTTTGTTAAGGTGAACTTTGATAATGCGTTTAAAGCAACCCTCAACCACTCC
66 CCCCTCAAGAACCTTTTGTTAAGGTGAACTTCGATGCTGCGTTTAAAGCAACCCTCAACCACTCC
*
44781440 TATTCCGTTTTGTCATTAGGAATAATAAAGGCTCGGTTATGGGCAGCGGAACAGTACTCAACAAA
131 TATTCCGTTTTGTCATTAGGAATAATAGAGGCTCGGTTATGGGCAGCGGAACAGTACTCAACAAA
* *
44781505 TTCTTCTCCGATCCCTTTACCGCAGAAGCCATAGCTTTTCTCCAGGCCTTGAACCTTTCACGTGA
196 TTCGTCTCCGATCCCTTTACCGCAGAAGCCATAGCTTGTCTCCAGGCCTTGAACCTTTCACGTGA
* *
44781570 AATAGGGAGGAGGGGGAATTCAAGCTACAACCGCAAAAAATGGTATTGAAAAAATATCAGACCCT
261 AAT-GGG-GGAGGGGGAATTCAAGCTACTACCGCAAAAAATGGTATTGAAAAAATATCAGACCTT
*
44781635 ATTGATCAATCAGCAAAGACTTGGAAAGTTGAACTTATTAAGAGTCTTTTTACCCGGATGGAAGC
324 ATTGATCAATCAGCAAAGACTTGGAAAGTGGAACTTATTAAGAGTCTTTTTACCCGGATGGAAGC
* *
44781700 TCATGCAATCTATTGTATTCCTCTTTCAATTTACACAATTGAAGATAAAATGGTGTGGTGTATAG
389 TCATGCAATCTGTTGTATTCCTCTTTCAATTTACACAATTGAAGATAAAATGGTGTGCTGTATAG
*
44781765 ATAACTCTGGTCTGTATACGGTATGCAGTGGTTACCGCTGTCTTATCGAATCGAATATCAATGAC
454 ATAACTCTGGTCTGTATACGGTATGCAGTGGTTACCGCTGTCTTATCGAATCGAATATCAACGAC
* *
44781830 ACTATAAGTACCAATCATACAAGATTTTATAGCAGATTTGGGAGTTAAATCTCCCCCCCAAAAAT
519 ACTATAAGTACCAATCATACAAGATTTTACAGCAGATTTGGGAGCTAAATCT-CCCCCCAAAAAT
*
44781895 CAGAATCGCCATTTGGTGATTTACACATGAGTACATTCCTACTGCAACTAATCTCTACAACAGAA
583 TAGAATCGCCATTTGGTGATTTACACATGAGTACATTCCTACTGCAACTAATCTCTACAACAGAA
* *
44781960 GAATAAATTCCTCGCCTATTTGTCCTAGCTGTGGAAAGGCTCATGAGAATTTTATGCATACCCTT
648 GAATAAATTCATCTCCTATTTGTCCTAGCTGTGGAAAGGCTCATGAGAATTTTATGCATACCCTT
*
44782025 CTGATGTGTGGCCCTGTAAAAAATGTTTGGTGATCAATCTGTGTTGACTGGTCAACTTTAAATGA
713 CTGATGTGTGGCCCTGTAAAAAATGTTTGGCGATCAATCTGTGTTGACTGGTCAACTTTAAATGA
44782090 AAATATGGATTTTCGCACCTGGCTTAATGTTGTTTTTCAAAACAAGGGCATGATTTTGGTGAGAT
778 AAATATGGATTTTCGCACCTGGCTTAATGTTGTTTTTCAAAACAAGGGCATGATTTTGGTGAGAT
44782155 TGCTGCAACCATGGCTTGGGCACTCTGGCAAGCTTGAAACAAGCGCATAATGGAAGGAAAAAGAC
843 TGCTGCAACCATGGCTTGGGCACTCTGGCAAGCTTGAAACAAGCGCATAATGGAAGGAAAAAGAC
44782220 AACCAGTCCAAGATATATGCTCTATTATCTTCAGCATTACAAG
908 AACCAGTCCAAGATATATGCTCTATTATCTTCAGCATTACAAG
* *
44782263 GGAGATGAGGGAGTTGAGAAATAAAATACCTGCCCAGGTGAAAACAATGACTCCAATATGGAATC
1 GGAGATGAGGAAGTTGAGAAATAAAATACCTGCCCAGGTGAAAACAATGACTCCAATATGGAAGC
*
44782328 CCCCTCAAGAACCTTTTGTTAAGGTGAACTTCAATGCTGCGTTTAAAGCAACCCTCAACCACTCC
66 CCCCTCAAGAACCTTTTGTTAAGGTGAACTTCGATGCTGCGTTTAAAGCAACCCTCAACCACTCC
*
44782393 TATTCCGTTTTGTCATTAGGAATAATAGAGGCTCGGTTATGGGCAGTGGAACAGTACTCAACAAA
131 TATTCCGTTTTGTCATTAGGAATAATAGAGGCTCGGTTATGGGCAGCGGAACAGTACTCAACAAA
44782458 TTCGTCTCCGATCCCTTTACCGCAGAAGCCATAGCTTGTCTCCAGGCCTTGAACCTTTCACGTGA
196 TTCGTCTCCGATCCCTTTACCGCAGAAGCCATAGCTTGTCTCCAGGCCTTGAACCTTTCACGTGA
* *
44782523 AATAGGGGGAGGGGGAATTCAAGCTACTACCACAAAAAATGGTATTGAAAAAATATCAGACCTTG
261 AAT-GGGGGAGGGGGAATTCAAGCTACTACCGCAAAAAATGGTATTGAAAAAATATCAGACCTTA
*
44782588 TTGATCAATCAGCAAAGACTTGG-AAGTGGAACTTATTAAGAGTCTTGTTACCCGGATGGAAGCT
325 TTGATCAATCAGCAAAGACTTGGAAAGTGGAACTTATTAAGAGTCTTTTTACCCGGATGGAAGCT
*
44782652 CATGTAATCTGTTGTATTCCTCTTTCAATTTACACAATTGAAGATAAAATGGTGTGCTGTATAGA
390 CATGCAATCTGTTGTATTCCTCTTTCAATTTACACAATTGAAGATAAAATGGTGTGCTGTATAGA
*
44782717 TAACTCTGGTCTGTATATGGTATGCAGTGGTTACCGCTGTCTTATCGAATCGAATATCAACGACA
455 TAACTCTGGTCTGTATACGGTATGCAGTGGTTACCGCTGTCTTATCGAATCGAATATCAACGACA
44782782 CTATAAGTACCAAT
520 CTATAAGTACCAAT
44782796 TTTTGATTTA
Statistics
Matches: 2279, Mismatches: 135, Indels: 30
0.93 0.06 0.01
Matches are distributed among these distances:
933 186 0.08
938 2 0.00
947 1 0.00
951 298 0.13
952 1164 0.51
953 628 0.28
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (950 bp):
GGAGATGAGGAAGTTGAGAAATAAAATACCTGCCCAGGTGAAAACAATGACTCCAATATGGAAGC
CCCCTCAAGAACCTTTTGTTAAGGTGAACTTCGATGCTGCGTTTAAAGCAACCCTCAACCACTCC
TATTCCGTTTTGTCATTAGGAATAATAGAGGCTCGGTTATGGGCAGCGGAACAGTACTCAACAAA
TTCGTCTCCGATCCCTTTACCGCAGAAGCCATAGCTTGTCTCCAGGCCTTGAACCTTTCACGTGA
AATGGGGGAGGGGGAATTCAAGCTACTACCGCAAAAAATGGTATTGAAAAAATATCAGACCTTAT
TGATCAATCAGCAAAGACTTGGAAAGTGGAACTTATTAAGAGTCTTTTTACCCGGATGGAAGCTC
ATGCAATCTGTTGTATTCCTCTTTCAATTTACACAATTGAAGATAAAATGGTGTGCTGTATAGAT
AACTCTGGTCTGTATACGGTATGCAGTGGTTACCGCTGTCTTATCGAATCGAATATCAACGACAC
TATAAGTACCAATCATACAAGATTTTACAGCAGATTTGGGAGCTAAATCTCCCCCCAAAAATTAG
AATCGCCATTTGGTGATTTACACATGAGTACATTCCTACTGCAACTAATCTCTACAACAGAAGAA
TAAATTCATCTCCTATTTGTCCTAGCTGTGGAAAGGCTCATGAGAATTTTATGCATACCCTTCTG
ATGTGTGGCCCTGTAAAAAATGTTTGGCGATCAATCTGTGTTGACTGGTCAACTTTAAATGAAAA
TATGGATTTTCGCACCTGGCTTAATGTTGTTTTTCAAAACAAGGGCATGATTTTGGTGAGATTGC
TGCAACCATGGCTTGGGCACTCTGGCAAGCTTGAAACAAGCGCATAATGGAAGGAAAAAGACAAC
CAGTCCAAGATATATGCTCTATTATCTTCAGCATTACAAG
Found at i:44785195 original size:126 final size:123
Alignment explanation
Indices: 44784935--44785274 Score: 462
Period size: 126 Copynumber: 2.8 Consensus size: 123
44784925 TTAGCCTCTC
44784935 TAAAGCGTTTTTGACACTATTTGCTAAGAAACGTCAACTCGAAATTATTTTTTCAGGAGCTACTG
1 TAAAGCGTTTTTGACACTATTTGCTAA-AAACGTCAACTCGAAATTATTTTTTCAGGAGCTACTG
* *
44785000 TACCAAAAGC-G----CGT-GAGCTTCTTTTAGTACTTCTGCTGACAAAGCATCCTACT
65 TAGCAAAAGCGGTCCACGTGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCTACT
*
44785053 TAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTTCAAGAGCTACTG
1 TAAAGCGTTTTTGACACTATTTGCT-AAAAACGTCAACTCGAAATTATTTTTTCAGGAGCTACTG
* *
44785118 TAGCAAAAGCGTGTCCACATGGAAGCTTCTTTCAGTACTAT-TGCTGACAAAGCATCCTGCT
65 TAGCAAAAGCG-GTCCACGTGG-AGCTTCTTTCAGTACT-TCTGCTGACAAAGCATCCTACT
* * * *
44785179 TAAAGCTTTTTTGACACTATTTGCTTAGAAACGTCTACTCGAAATTATTTTTT-GGGAGCTACTG
1 TAAAGCGTTTTTGACACTATTTGC-TAAAAACGTCAACTCGAAATTATTTTTTCAGGAGCTACTG
*
44785243 TAGCAAAAGCGCATCCACGTGGGAGCTTCTTT
65 TAGCAAAAGCG-GTCCACGT-GGAGCTTCTTT
44785275 AAATTAACAA
Statistics
Matches: 197, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
118 70 0.36
119 2 0.01
120 1 0.01
124 2 0.01
125 36 0.18
126 84 0.43
127 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (123 bp):
TAAAGCGTTTTTGACACTATTTGCTAAAAACGTCAACTCGAAATTATTTTTTCAGGAGCTACTGT
AGCAAAAGCGGTCCACGTGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCTACT
Found at i:44785388 original size:98 final size:97
Alignment explanation
Indices: 44785286--44785640 Score: 335
Period size: 96 Copynumber: 3.6 Consensus size: 97
44785276 AATTAACAAA
* * * *
44785286 TAATTTAATTAAGTAACCCTAAACCCTAATTTATTTAAGTTTTTACTTAAAAACCCTAAACACTA
1 TAATTTAATCAACTAACCCTAAACCCTAATTTATTTGA-TTTTTTCTTAAAAACCCTAAACACTA
*
44785351 AACCCTAATCTAATTTTTTTTTAAATTTATAAT
65 AACCCTAATCTAATTTTTTTTAAAATTTATAAT
* * * * * * *
44785384 TAATTTACTCAAGTAACCCTGAACCTTAATTTATTTGATTTTTTCATAAAAACCCTTAACTCTAA
1 TAATTTAATCAACTAACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAACCCTAAACACTAA
*
44785449 ACCCTAATCTAATTTTTTTTAAAAATT-TAAT
66 ACCCTAATCTAATTTTTTTTAAAATTTATAAT
* * * * * **
44785480 TAAATTACTCAACTAACCTTAAACCTTAATTTAATTGATTTTTTCTTAAAAAACAATAAACA-TA
1 TAATTTAATCAACTAACCCTAAACCCTAATTTATTTGATTTTTTCTT-AAAAACCCTAAACACTA
* * *
44785544 AAACCTAATCCAA---TTTTGAAAATTTTATAAT
65 AACCCTAATCTAATTTTTTTTAAAA-TTTATAAT
* * *
44785575 TAATTTAATTGACAAACCTTAAACCCTAATCCCTTATTTATTTAATTTTTTCTCT-AAAACCCTA
1 TAATTTAA-T--C-AA-C-T-AACCCTAAACCCTAATTTATTTGATTTTTTCT-TAAAAACCCTA
44785639 AA
58 AA
44785641 TCTAAAAACA
Statistics
Matches: 211, Mismatches: 35, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
93 8 0.04
94 2 0.01
95 10 0.05
96 59 0.28
97 58 0.27
98 34 0.16
99 2 0.01
100 1 0.00
101 10 0.05
102 26 0.12
103 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.41
Consensus pattern (97 bp):
TAATTTAATCAACTAACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAACCCTAAACACTAA
ACCCTAATCTAATTTTTTTTAAAATTTATAAT
Found at i:44785523 original size:97 final size:97
Alignment explanation
Indices: 44785299--44785560 Score: 339
Period size: 96 Copynumber: 2.7 Consensus size: 97
44785289 TTTAATTAAG
* * *
44785299 TAACCCTAAACCCTAATTTATTTAAGTTTTTACTTAAAAACCCTAAACACTAAACCCTAATCTAA
1 TAACCCTAAACCTTAATTTATTTGA-TTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAA
* * * *
44785364 TTTTTTTTTAAATTTATAATTAATTTACTCAAG
65 TTTTTTTTAAAAATTATAATTAAATTACTCAAC
* * * *
44785397 TAACCCTGAACCTTAATTTATTTGATTTTTTCATAAAAACCCTTAACTCTAAACCCTAATCTAAT
1 TAACCCTAAACCTTAATTTATTTGATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAAT
44785462 TTTTTTTAAAAATT-TAATTAAATTACTCAAC
66 TTTTTTTAAAAATTATAATTAAATTACTCAAC
* * ** * *
44785493 TAACCTTAAACCTTAATTTAATTGATTTTTTCTTAAAAAACAATAAACA-TAAAACCTAATCCAA
1 TAACCCTAAACCTTAATTTATTTGATTTTTTCTT-AAAAACCCTAAACACTAAACCCTAATCTAA
44785557 TTTT
65 TTTT
44785561 GAAAATTTTA
Statistics
Matches: 142, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
96 62 0.44
97 58 0.41
98 22 0.15
ACGTcount: A:0.40, C:0.18, G:0.02, T:0.40
Consensus pattern (97 bp):
TAACCCTAAACCTTAATTTATTTGATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAAT
TTTTTTTAAAAATTATAATTAAATTACTCAAC
Found at i:44786033 original size:13 final size:14
Alignment explanation
Indices: 44785996--44786030 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
44785986 TTATTTTTTT
44785996 TTACTTTTCCACTC
1 TTACTTTTCCACTC
44786010 TTACTTTTCCACTC
1 TTACTTTTCCACTC
*
44786024 TTTCTTT
1 TTACTTT
44786031 CCATCCTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.11, C:0.31, G:0.00, T:0.57
Consensus pattern (14 bp):
TTACTTTTCCACTC
Found at i:44796169 original size:17 final size:17
Alignment explanation
Indices: 44796147--44796179 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44796137 GTACATGTTA
*
44796147 CTTATGTGATAGATCGT
1 CTTATGAGATAGATCGT
44796164 CTTATGAGATAGATCG
1 CTTATGAGATAGATCG
44796180 AGTGAAACCG
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:0.27, C:0.12, G:0.24, T:0.36
Consensus pattern (17 bp):
CTTATGAGATAGATCGT
Found at i:44796758 original size:22 final size:22
Alignment explanation
Indices: 44796730--44796789 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
44796720 CATCAGTGTT
*
44796730 ATCAGTGGCAATTTATCT-ACAA
1 ATCAGTGGAAATTTATCTGA-AA
* *
44796752 ATCAGTGGTAGTTTATCTGAAA
1 ATCAGTGGAAATTTATCTGAAA
44796774 ATCAGTGGAAATTTAT
1 ATCAGTGGAAATTTAT
44796790 TTGCAAACCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 32 0.97
23 1 0.03
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (22 bp):
ATCAGTGGAAATTTATCTGAAA
Found at i:44796998 original size:22 final size:21
Alignment explanation
Indices: 44796970--44797015 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
44796960 ATTATGATGA
44796970 TTGATATG-ATGAGATTGATAAT
1 TTGATATGCATGAGATT-AT-AT
*
44796992 TTGATATGCATGTGATTATAT
1 TTGATATGCATGAGATTATAT
44797013 TTG
1 TTG
44797016 TGTTGATCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 10 0.45
23 7 0.32
ACGTcount: A:0.30, C:0.02, G:0.22, T:0.46
Consensus pattern (21 bp):
TTGATATGCATGAGATTATAT
Found at i:44798793 original size:17 final size:17
Alignment explanation
Indices: 44798767--44798809 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
44798757 TGGAAAATGA
*
44798767 ATTC-CCAAAGGAAAAT
1 ATTCTCCAAAGGAAAAC
44798783 ATTCTCCAAAGGAAAAC
1 ATTCTCCAAAGGAAAAC
*
44798800 ACTCTCCAAA
1 ATTCTCCAAA
44798810 ACATGGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.47, C:0.26, G:0.09, T:0.19
Consensus pattern (17 bp):
ATTCTCCAAAGGAAAAC
Found at i:44802415 original size:14 final size:13
Alignment explanation
Indices: 44802395--44802428 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
44802385 TAATGATGGT
44802395 AATATATGTGTATA
1 AATATATGTGT-TA
*
44802409 TATATATGTGTTA
1 AATATATGTGTTA
44802422 AATATAT
1 AATATAT
44802429 TTTATTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (13 bp):
AATATATGTGTTA
Found at i:44803024 original size:16 final size:16
Alignment explanation
Indices: 44803003--44803033 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44802993 AATACGAGTA
*
44803003 ATGCACTTGGACAATT
1 ATGCACTTAGACAATT
44803019 ATGCACTTAGACAAT
1 ATGCACTTAGACAAT
44803034 GTTGTTATCT
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:0.19, G:0.16, T:0.29
Consensus pattern (16 bp):
ATGCACTTAGACAATT
Found at i:44806409 original size:26 final size:26
Alignment explanation
Indices: 44806354--44806447 Score: 86
Period size: 26 Copynumber: 3.7 Consensus size: 26
44806344 TTTAAGCGAG
* *
44806354 CTTT-ATCGGGAAGCTC-CAGAGAGC
1 CTTTAATCAGGAAGCTCACAAAGAGC
*
44806378 CATTAATCAGGAAGCTCACAAAGAGC
1 CTTTAATCAGGAAGCTCACAAAGAGC
* * *
44806404 CTTTAATCGGGAAACTCACGAAGAGC
1 CTTTAATCAGGAAGCTCACAAAGAGC
* *
44806430 CATATAA-CAGGACGCTCA
1 C-TTTAATCAGGAAGCTCA
44806448 TAAGAGTTGT
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
24 3 0.05
25 11 0.20
26 38 0.68
27 4 0.07
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.18
Consensus pattern (26 bp):
CTTTAATCAGGAAGCTCACAAAGAGC
Found at i:44806891 original size:21 final size:21
Alignment explanation
Indices: 44806867--44806908 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
44806857 TAAATTTAGC
44806867 TCAATTTAA-TACAATTCACAT
1 TCAA-TTAATTACAATTCACAT
44806888 TCAATTAATTACAATTCACAT
1 TCAATTAATTACAATTCACAT
44806909 ACTAGGCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (21 bp):
TCAATTAATTACAATTCACAT
Found at i:44816387 original size:26 final size:26
Alignment explanation
Indices: 44816358--44816410 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
44816348 GTACGCAGAT
44816358 TTGAAATGTAGAAATATTGAGTTTGC
1 TTGAAATGTAGAAATATTGAGTTTGC
*
44816384 TTGAAATGTAGAGATATTGAGTTTGC
1 TTGAAATGTAGAAATATTGAGTTTGC
44816410 T
1 T
44816411 GTTGGTGACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.32, C:0.04, G:0.25, T:0.40
Consensus pattern (26 bp):
TTGAAATGTAGAAATATTGAGTTTGC
Found at i:44818516 original size:43 final size:43
Alignment explanation
Indices: 44818455--44818537 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
44818445 GTGATTGATA
**
44818455 TTGAAATGGTAAAGATGAGAAATGAATATGAGATGAGAAAATG
1 TTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAAATG
* *
44818498 TTGAAATGACAAAGATGAGCAATGATTATGAGATGAGAAA
1 TTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAA
44818538 TGAAATATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.48, C:0.02, G:0.27, T:0.23
Consensus pattern (43 bp):
TTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAAATG
Found at i:44819574 original size:43 final size:43
Alignment explanation
Indices: 44819521--44819617 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 43
44819511 GGCCTAAGAG
* *
44819521 ATGGGCGTGTGTTTTAGCCGTGTGAGGCACAC-GACCTGGCCAC
1 ATGGGCGTGTGTCTCAGCCGTGTGAGGCACACAG-CCTGGCCAC
* * *
44819564 ATGGGTGTGTGTCTCGGCCGTGTGAGGCACACAGTCTGGCCAC
1 ATGGGCGTGTGTCTCAGCCGTGTGAGGCACACAGCCTGGCCAC
*
44819607 ACGGGCGTGTG
1 ATGGGCGTGTG
44819618 ACCCCTGCAG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.14, C:0.25, G:0.38, T:0.23
Consensus pattern (43 bp):
ATGGGCGTGTGTCTCAGCCGTGTGAGGCACACAGCCTGGCCAC
Found at i:44820846 original size:2 final size:2
Alignment explanation
Indices: 44820839--44820863 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44820829 CTCGTGCTTT
44820839 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 T
44820864 TAGATTATGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44822063 original size:23 final size:24
Alignment explanation
Indices: 44822028--44822075 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
44822018 TATTATATGT
*
44822028 TTATATTGTTTATTATTGTAATTA
1 TTATATTGATTATTATTGTAATTA
*
44822052 TTATATT-ATTATTATTGTATTTA
1 TTATATTGATTATTATTGTAATTA
44822075 T
1 T
44822076 ATGTGTGCGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
TTATATTGATTATTATTGTAATTA
Found at i:44826231 original size:3 final size:3
Alignment explanation
Indices: 44826223--44826247 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
44826213 TAGATAGGTC
44826223 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
44826248 TTGTGTATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:44827033 original size:26 final size:27
Alignment explanation
Indices: 44827003--44827076 Score: 73
Period size: 30 Copynumber: 2.7 Consensus size: 27
44826993 TTCTGTTTTG
44827003 TAATAAATATTTATAT-TATTTTAATT
1 TAATAAATATTTATATATATTTTAATT
*
44827029 TAATATCTAATAATTT-TATATATTTTTATT
1 TAATA---AAT-ATTTATATATATTTTAATT
*
44827059 TACTAAA-ATTTATATATA
1 TAATAAATATTTATATATA
44827077 CCTTTTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
25 4 0.10
26 11 0.28
27 2 0.05
29 6 0.15
30 17 0.43
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (27 bp):
TAATAAATATTTATATATATTTTAATT
Found at i:44831184 original size:22 final size:23
Alignment explanation
Indices: 44831151--44831226 Score: 79
Period size: 22 Copynumber: 3.4 Consensus size: 23
44831141 AACTAATCCT
44831151 CTCTCAAATTTCCTCTCAATTTC
1 CTCTCAAATTTCCTCTCAATTTC
* * *
44831174 CTCT-AAATTTCTTTTCAATTTG
1 CTCTCAAATTTCCTCTCAATTTC
44831196 CTCTCAAA-TTCCT-TACAAATTT-
1 CTCTCAAATTTCCTCT-C-AATTTC
44831218 CTCTCAAAT
1 CTCTCAAAT
44831227 CCATATTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
21 1 0.02
22 32 0.71
23 12 0.27
ACGTcount: A:0.26, C:0.28, G:0.01, T:0.45
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTCAATTTC
Found at i:44831225 original size:11 final size:11
Alignment explanation
Indices: 44831150--44831226 Score: 63
Period size: 11 Copynumber: 6.9 Consensus size: 11
44831140 AAACTAATCC
44831150 TCTCTCAAATT
1 TCTCTCAAATT
44831161 TCCTCTC-AATT
1 T-CTCTCAAATT
44831172 TC-CTCTAAATT
1 TCTCTC-AAATT
*
44831183 TCTTTTC-AATT
1 TC-TCTCAAATT
44831194 TGCTCTCAAATT
1 T-CTCTCAAATT
*
44831206 CCT-TACAAATT
1 TCTCT-CAAATT
44831217 TCTCTCAAAT
1 TCTCTCAAAT
44831227 CCATATTTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
9 3 0.06
10 2 0.04
11 35 0.66
12 11 0.21
13 2 0.04
ACGTcount: A:0.26, C:0.27, G:0.01, T:0.45
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:44831318 original size:14 final size:15
Alignment explanation
Indices: 44831294--44831323 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44831284 TTTTAAATAA
44831294 TTTTAAAAATTTTTG
1 TTTTAAAAATTTTTG
*
44831309 TTTTAAAATTTTTTG
1 TTTTAAAAATTTTTG
44831324 AACCATAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (15 bp):
TTTTAAAAATTTTTG
Found at i:44833156 original size:18 final size:18
Alignment explanation
Indices: 44833129--44833168 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
44833119 CAGGTGCGTT
*
44833129 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
44833147 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
44833165 TCCT
1 TCCT
44833169 TTTTAGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:44833448 original size:21 final size:21
Alignment explanation
Indices: 44833424--44833472 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
44833414 AGATGCCGTA
* *
44833424 CCGGAAGAACCAGAATCC-CCG
1 CCGGAAGAACAACAA-CCGCCG
*
44833445 CCGGAGGAACAACAACCGCCG
1 CCGGAAGAACAACAACCGCCG
44833466 CCGGAAG
1 CCGGAAG
44833473 CTAGAGAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.33, C:0.37, G:0.29, T:0.02
Consensus pattern (21 bp):
CCGGAAGAACAACAACCGCCG
Found at i:44833636 original size:45 final size:45
Alignment explanation
Indices: 44833587--44833753 Score: 176
Period size: 45 Copynumber: 3.6 Consensus size: 45
44833577 ATATTTTGAA
*
44833587 TATTTTGATATTATTTTATGTAATAAAGTAGAAATTTTTTTGAGT
1 TATTTTGATATTATTTGATGTAATAAAGTAGAAATTTTTTTGAGT
* *
44833632 TATTTTGATATTATTTGATGTAATAAAGTAGAAGTTTATTTGA-T
1 TATTTTGATATTATTTGATGTAATAAAGTAGAAATTTTTTTGAGT
* * * *
44833676 ATAATAAAATAGA-AGTTTATTTGATGTAATAAAATAGAAATTCTTTTGAGT
1 -T-AT---TTTGATA--TTATTTGATGTAATAAAGTAGAAATTTTTTTGAGT
* *
44833727 TTTTTTGAAATTATTTGATGTAATAAA
1 TATTTTGATATTATTTGATGTAATAAA
44833754 ATAAAAGTTT
Statistics
Matches: 101, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
44 1 0.01
45 58 0.57
46 5 0.05
47 1 0.01
48 1 0.01
49 4 0.04
50 30 0.30
51 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.48
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAATAAAGTAGAAATTTTTTTGAGT
Found at i:44833708 original size:95 final size:95
Alignment explanation
Indices: 44833597--44833888 Score: 342
Period size: 95 Copynumber: 3.1 Consensus size: 95
44833587 TATTTTGATA
* * *
44833597 TTATTTTATGTAATAAAGTAGAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAGTA
1 TTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
* *
44833662 GAAGTTTATTTGATATAATAAAATAGAAGT
66 GAAGTTTATTTGATGTAATAAAATAGAAAT
* * *
44833692 TTATTTGATGTAATAAAATAGAAATTCTTTTGAGTTTTTTTGAAATTATTTGATGTAATAAAATA
1 TTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
*
44833757 AAAGTTTATTTGATGTAATAAAATAGAAAT
66 GAAGTTTATTTGATGTAATAAAATAGAAAT
* ** * * * **
44833787 TTTTTTGA-GT--T-ATTTTGATA-TTATTTGATGTAATAAAATTGATATTATTTGATGTAATAA
1 TTATTTGATGTAATAAAATAGAAATTTTTTTGA-GT--T-ATTTTGATATTATTTGATGTAATAA
*
44833847 AATAGAAGTTTATTTGATGTAATAAAATATAAAT
62 AATAGAAGTTTATTTGATGTAATAAAATAGAAAT
*
44833881 TTTTTTGA
1 TTATTTGA
44833889 GTTATTTTAA
Statistics
Matches: 171, Mismatches: 22, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
90 6 0.04
91 7 0.04
92 1 0.01
93 1 0.01
94 63 0.37
95 93 0.54
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.47
Consensus pattern (95 bp):
TTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
GAAGTTTATTTGATGTAATAAAATAGAAAT
Found at i:44833741 original size:70 final size:70
Alignment explanation
Indices: 44833667--44833853 Score: 297
Period size: 70 Copynumber: 2.7 Consensus size: 70
44833657 AAGTAGAAGT
* *
44833667 TTATTTGATATAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTCTTTTGAGTTTTTT
1 TTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTCTTTTGAGTTATTT
44833732 TGAAA
66 TGAAA
* *
44833737 TTATTTGATGTAATAAAATAAAAGTTTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTT
1 TTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTCTTTTGAGTTATTT
*
44833802 TGATA
66 TGAAA
*
44833807 TTATTTGATGTAATAAAATTG-A-TATTATTTGATGTAATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAAGT-TTATTTGATGTAATAAAATAGAA
44833854 GTTTATTTGA
Statistics
Matches: 109, Mismatches: 7, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
68 1 0.01
69 24 0.22
70 84 0.77
ACGTcount: A:0.41, C:0.01, G:0.13, T:0.45
Consensus pattern (70 bp):
TTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTCTTTTGAGTTATTT
TGAAA
Found at i:44833811 original size:45 final size:45
Alignment explanation
Indices: 44833762--44833916 Score: 170
Period size: 45 Copynumber: 3.4 Consensus size: 45
44833752 AAATAAAAGT
44833762 TTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATA
1 TTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATA
* * * ** *
44833807 TTATTTGATGTAATAAAATTGATA-TTATTTGATGTAATAAAATAGA-A
1 TTATTTGATGTAATAAAATAGAAATTTTTTTGA-GT--T-ATTTTGATA
* *
44833854 GTTTATTTGATGTAATAAAATATAAATTTTTTTGAGTTATTTTAATA
1 --TTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATA
44833901 TTATTTGATGTAATAA
1 TTATTTGATGTAATAA
44833917 CATGAGATTA
Statistics
Matches: 88, Mismatches: 14, Indels: 16
0.75 0.12 0.14
Matches are distributed among these distances:
44 7 0.08
45 40 0.45
46 3 0.03
47 4 0.05
48 4 0.05
49 23 0.26
50 7 0.08
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (45 bp):
TTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATA
Found at i:44833861 original size:94 final size:94
Alignment explanation
Indices: 44833636--44833916 Score: 345
Period size: 94 Copynumber: 3.0 Consensus size: 94
44833626 TTGAGTTATT
* * * *
44833636 TTGATATTATTTGATGTAATAAAGTAGAAGTTTATTTGATATAATAAAATAGAAGTTTATTTGAT
1 TTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTTTTTTGA-
** * * * ***
44833701 GTAATAAAATAGAAATTCTTTTGA-GT--T-TTT
65 GT--T-ATTTTGATATT-ATTTGATGTAATAAAA
* *
44833731 TTGAAATTATTTGATGTAATAAAATAAAAGTTTATTTGATGTAATAAAATAGAAATTTTTTTGAG
1 TTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTTTTTTGAG
44833796 TTATTTTGATATTATTTGATGTAATAAAA
66 TTATTTTGATATTATTTGATGTAATAAAA
*
44833825 TTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATATAAATTTTTTTGAG
1 TTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTTTTTTGAG
*
44833890 TTATTTTAATATTATTTGATGTAATAA
66 TTATTTTGATATTATTTGATGTAATAA
44833917 CATGAGATTA
Statistics
Matches: 164, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
90 5 0.03
91 9 0.05
92 1 0.01
93 1 0.01
94 90 0.55
95 58 0.35
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (94 bp):
TTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATAGAAATTTTTTTGAG
TTATTTTGATATTATTTGATGTAATAAAA
Found at i:44833887 original size:25 final size:25
Alignment explanation
Indices: 44833642--44833888 Score: 223
Period size: 25 Copynumber: 10.3 Consensus size: 25
44833632 TATTTTGATA
* *
44833642 TTATTTGATGTAATAAAGTAGAAGT
1 TTATTTGATGTAATAAAATAGAAAT
* *
44833667 TTATTTGATATAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAAT
44833692 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAAT
*** *
44833717 TCT-TTTGA-GT--T-TTTTTGAAA-
1 T-TATTTGATGTAATAAAATAGAAAT
44833737 TTATTTGATGTAATAAAATA-AAAGT
1 TTATTTGATGTAATAAAATAGAAA-T
44833762 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAAT
* ** * *
44833787 TTTTTTGA-GT--T-ATTTTGATA-
1 TTATTTGATGTAATAAAATAGAAAT
* *
44833807 TTATTTGATGTAATAAAATTGATA-
1 TTATTTGATGTAATAAAATAGAAAT
*
44833831 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAAT
*
44833856 TTATTTGATGTAATAAAATATAAAT
1 TTATTTGATGTAATAAAATAGAAAT
*
44833881 TTTTTTGA
1 TTATTTGA
44833889 GTTATTTTAA
Statistics
Matches: 182, Mismatches: 26, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
19 1 0.01
20 13 0.07
21 14 0.08
22 2 0.01
23 5 0.03
24 33 0.18
25 110 0.60
26 4 0.02
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.46
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAAT
Found at i:44837312 original size:124 final size:124
Alignment explanation
Indices: 44837035--44837405 Score: 523
Period size: 125 Copynumber: 3.0 Consensus size: 124
44837025 CATGCTGCTG
* * *
44837035 TAGCAAAAGCGCGTCCACGTGGGCGCAATTTCACAAATTCTTCTCATAAAACATCCTGGTAGAAG
1 TAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGATAGAAG
* *
44837100 CGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCAACTG
66 C-ATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCTACTA
** * * * * *
44837160 TAGCAAAAGCGCGTCCACAAGGACGCGATTTCAGAAATTCTTCTCA-AATAGCATCTTGCTTGAA
1 TAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGATAGAA
*
44837224 GCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTT-TT-CAGGACCTACTA
65 GCA--TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCTACTA
* * *
44837284 TAGCAAAAGCGCGTCCACGTGGGCGCGATTTAACTAATTCTTCTCATAAAGCATCCTGATAAAAG
1 TAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGATAGAAG
*
44837349 AGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCTA
66 -CATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCTA
44837406 AAAACCCTAA
Statistics
Matches: 215, Mismatches: 24, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
123 40 0.19
124 67 0.31
125 68 0.32
126 40 0.19
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (124 bp):
TAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGATAGAAG
CATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCTACTA
Found at i:44838553 original size:25 final size:26
Alignment explanation
Indices: 44838521--44838577 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
44838511 AATTTGTCTA
44838521 TTTTTT-CCAAATTAGTACATATAA-T
1 TTTTTTCCCAAATTAGTACATA-AACT
*
44838546 TTTTTTCCCAAATTAGTACTTAAACT
1 TTTTTTCCCAAATTAGTACATAAACT
44838572 TTTTTT
1 TTTTTT
44838578 TTCATCCACT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 8 0.28
26 21 0.72
ACGTcount: A:0.30, C:0.14, G:0.04, T:0.53
Consensus pattern (26 bp):
TTTTTTCCCAAATTAGTACATAAACT
Found at i:44838704 original size:12 final size:11
Alignment explanation
Indices: 44838682--44838739 Score: 53
Period size: 11 Copynumber: 4.9 Consensus size: 11
44838672 ACATCTTTTT
44838682 CTTTTTCTTTC
1 CTTTTTCTTTC
44838693 CTTTTTCATTTCC
1 CTTTTTC-TTT-C
* *
44838706 CTCATTATCTTCC
1 CT--TTTTCTTTC
*
44838719 CTTTTTCTTTT
1 CTTTTTCTTTC
44838730 CTTTTTCTTT
1 CTTTTTCTTT
44838740 TTCCTACCCG
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
11 23 0.61
12 3 0.08
13 6 0.16
14 2 0.05
15 4 0.11
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.67
Consensus pattern (11 bp):
CTTTTTCTTTC
Found at i:44839844 original size:185 final size:184
Alignment explanation
Indices: 44839532--44839885 Score: 523
Period size: 185 Copynumber: 1.9 Consensus size: 184
44839522 ACTTTGTTGG
* * * *
44839532 AAAGATGCCTTCTTTGACAAACCCCTTATGGTGGAAGAAGATGTTGAGTCCTAGGTTTCGGGTTA
1 AAAGATGCCTTCTTTGACAAACCCCTTATGGTGGAAGAAAATGTTGAATCCCAGGTTTCAGGTTA
* *
44839597 GAAATTCGATGGGTTTGGTAGAGGTCCTTGAAAATCTAGTCTGATCAAAGAGAAGAGGGGAAGAA
66 GAAATTCGATGGGTTTGGTAGAGCTCCTTGAAAATCTAGTCTGATCAAAGAGAAAAGGGGAAGAA
* *
44839662 AAGGATCATTTTGGAAGGCAGCAGTAAGCCGGAAAGTCACTGGCGTCGATAGAAC
131 AAGGATCA-TTTGAAAGGCAGCAGTAAGCCGAAAAGTCACTGGCGTCGATAGAAC
* *
44839717 AAAGATGTCTTCTTTGGCAAACCCCTTATGGTGGAAGAAAATGTTGAATCCCAGGTTTCAGGTTA
1 AAAGATGCCTTCTTTGACAAACCCCTTATGGTGGAAGAAAATGTTGAATCCCAGGTTTCAGGTTA
* *
44839782 GGAATTCGATGGGTTTGG-AGGAGCTCCTTGGAAATCTAGTCTGATCAAA-AGGAAAAGGGGAAG
66 GAAATTCGATGGGTTTGGTA-GAGCTCCTTGAAAATCTAGTCTGATCAAAGA-GAAAAGGGGAAG
* * * *
44839845 GAGAGGATCATTTGAAAGGGAGCAGTAAGTCGAAAAGTCAC
129 AAAAGGATCATTTGAAAGGCAGCAGTAAGCCGAAAAGTCAC
44839886 CTATGTCGGT
Statistics
Matches: 151, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
184 29 0.19
185 122 0.81
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (184 bp):
AAAGATGCCTTCTTTGACAAACCCCTTATGGTGGAAGAAAATGTTGAATCCCAGGTTTCAGGTTA
GAAATTCGATGGGTTTGGTAGAGCTCCTTGAAAATCTAGTCTGATCAAAGAGAAAAGGGGAAGAA
AAGGATCATTTGAAAGGCAGCAGTAAGCCGAAAAGTCACTGGCGTCGATAGAAC
Found at i:44850388 original size:57 final size:57
Alignment explanation
Indices: 44850324--44850435 Score: 224
Period size: 57 Copynumber: 2.0 Consensus size: 57
44850314 TTTAAATTGC
44850324 AACTCAATTTCAAATTTTCCTTAAGTCTAGGTTAGACTTGTCCATGGGCCGGGCCGG
1 AACTCAATTTCAAATTTTCCTTAAGTCTAGGTTAGACTTGTCCATGGGCCGGGCCGG
44850381 AACTCAATTTCAAATTTTCCTTAAGTCTAGGTTAGACTTGTCCATGGGCCGGGCC
1 AACTCAATTTCAAATTTTCCTTAAGTCTAGGTTAGACTTGTCCATGGGCCGGGCC
44850436 AGGCCCACAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (57 bp):
AACTCAATTTCAAATTTTCCTTAAGTCTAGGTTAGACTTGTCCATGGGCCGGGCCGG
Found at i:44850589 original size:16 final size:17
Alignment explanation
Indices: 44850562--44850593 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
44850552 GCCCGGCCCG
44850562 TTTTTAATTAAAATTAT
1 TTTTTAATTAAAATTAT
44850579 TTTTTAA-TAAAATTA
1 TTTTTAATTAAAATTA
44850594 AAACTAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTTAATTAAAATTAT
Found at i:44850629 original size:16 final size:16
Alignment explanation
Indices: 44850592--44850631 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
44850582 TTAATAAAAT
* *
44850592 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
44850608 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
44850624 TAAAATTA
1 TAAAATTA
44850632 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:44850631 original size:22 final size:22
Alignment explanation
Indices: 44850567--44850616 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
44850557 GCCCGTTTTT
* * *
44850567 AATTAAAATTATTTTTTAATAA
1 AATTAAAACTAATTGTTAATAA
*
44850589 AATTAAAACTAATTGTTATTAA
1 AATTAAAACTAATTGTTAATAA
44850611 AATTAA
1 AATTAA
44850617 TTGTTAGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
AATTAAAACTAATTGTTAATAA
Found at i:44850716 original size:9 final size:9
Alignment explanation
Indices: 44850704--44850731 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
44850694 TTTATCAAAT
44850704 TATTAATTG
1 TATTAATTG
44850713 TATTAATTG
1 TATTAATTG
44850722 TATTAATTG
1 TATTAATTG
44850731 T
1 T
44850732 TGTAACCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:44850743 original size:68 final size:66
Alignment explanation
Indices: 44850620--44850762 Score: 241
Period size: 68 Copynumber: 2.1 Consensus size: 66
44850610 AAATTAATTG
*
44850620 TTAGTAAAATTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
1 TTAGTAAAATTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAACAAAATCTAACATTTG
44850685 A
66 A
* *
44850686 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACCAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAATTG--TTAATTGTATTAATTGTTGTAACAAAATCTAACATT
44850751 TGA
64 TGA
44850754 TTAGTAAAA
1 TTAGTAAAA
44850763 CAAACTTGAT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
66 26 0.37
68 45 0.63
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.45
Consensus pattern (66 bp):
TTAGTAAAATTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAACAAAATCTAACATTTG
A
Found at i:44850861 original size:24 final size:25
Alignment explanation
Indices: 44850828--44850874 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
44850818 AAATAAACTT
44850828 AAAATAAAAAAACTAT-TATATTTTA
1 AAAATAAAAAAA-TATATATATTTTA
44850853 AAAAT-AAAAAATATATATATTT
1 AAAATAAAAAAATATATATATTT
44850875 AATATTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
AAAATAAAAAAATATATATATTTTA
Found at i:44854694 original size:25 final size:23
Alignment explanation
Indices: 44854666--44854724 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 23
44854656 ATTTTTCTCC
* *
44854666 TAAATTTTAATTTTATTTAATTATT
1 TAAATTTTAA-CTTATTGAATTA-T
44854691 TAAATTTTCAACTTATTGAATTAT
1 TAAATTTT-AACTTATTGAATTAT
44854715 TAATATTTTA
1 TAA-ATTTTA
44854725 TACTAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 5 0.17
25 23 0.77
26 2 0.07
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (23 bp):
TAAATTTTAACTTATTGAATTAT
Found at i:44854737 original size:25 final size:25
Alignment explanation
Indices: 44854684--44854737 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
44854674 AATTTTATTT
* *
44854684 AATTATTTAAATTTTCAACTTATTG
1 AATTATTTAAATTTTCAACTAATTA
44854709 AATTA-TTAATATTTT-ATACTAATTA
1 AATTATTTAA-ATTTTCA-ACTAATTA
44854734 AATT
1 AATT
44854738 TTTGAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.52
Consensus pattern (25 bp):
AATTATTTAAATTTTCAACTAATTA
Found at i:44855033 original size:12 final size:12
Alignment explanation
Indices: 44855016--44855041 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44855006 GGATGAGGAG
44855016 TTAGTTCGTAAA
1 TTAGTTCGTAAA
44855028 TTAGTTCGTAAA
1 TTAGTTCGTAAA
44855040 TT
1 TT
44855042 TTATGCGAAT
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:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (12 bp):
TTAGTTCGTAAA
Found at i:44856224 original size:25 final size:25
Alignment explanation
Indices: 44856179--44856229 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
44856169 ACTATTCTCA
* *
44856179 TCTCTTCACTTCTCTCTCATTTTTC
1 TCTCTTCACTTCCCTCTCATTATTC
*
44856204 TCTCTTCATTTCCCT-TCCATTATTC
1 TCTCTTCACTTCCCTCT-CATTATTC
44856229 T
1 T
44856230 TCATTCCCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.10, C:0.35, G:0.00, T:0.55
Consensus pattern (25 bp):
TCTCTTCACTTCCCTCTCATTATTC
Found at i:44861370 original size:2 final size:2
Alignment explanation
Indices: 44861363--44861395 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
44861353 GTAAAAGGAA
44861363 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44861396 TTCTATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:44867211 original size:42 final size:42
Alignment explanation
Indices: 44867152--44867282 Score: 208
Period size: 42 Copynumber: 3.1 Consensus size: 42
44867142 TTCGCAACAT
*
44867152 CTCCTCCGTTTTTTTCATCTTTGCTTCAGACTGCTGTAATTG
1 CTCCTCCGTTTTTTTCATCTTTGCTTCAGACTGTTGTAATTG
44867194 CTCCTCCGTTTTTTTCATCTTTGCTTCAGACTGTTGTAATTG
1 CTCCTCCGTTTTTTTCATCTTTGCTTCAGACTGTTGTAATTG
* * * * *
44867236 CTCATCCATTTTTTTCATCTTTGCCTCATACTGTTGCAATTG
1 CTCCTCCGTTTTTTTCATCTTTGCTTCAGACTGTTGTAATTG
44867278 CTCCT
1 CTCCT
44867283 GTAATGTGGC
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 82 1.00
ACGTcount: A:0.13, C:0.27, G:0.12, T:0.48
Consensus pattern (42 bp):
CTCCTCCGTTTTTTTCATCTTTGCTTCAGACTGTTGTAATTG
Found at i:44875755 original size:56 final size:56
Alignment explanation
Indices: 44875693--44875805 Score: 174
Period size: 56 Copynumber: 2.0 Consensus size: 56
44875683 TTTTATTATA
*
44875693 ATATTTTATCATTTCAGTTTGTTATTTAGTTTAAA-ATATTAGATATCTTTTTGGAC
1 ATATTTTATCATTTCAGTTTATTATTTAGTTTAAAGA-ATTAGATATCTTTTTGGAC
** *
44875749 ATATTTTATTGTTTCAGTTTATTATTTAGTTTAAAGAATTAGATGTCTTTTTGGAC
1 ATATTTTATCATTTCAGTTTATTATTTAGTTTAAAGAATTAGATATCTTTTTGGAC
44875805 A
1 A
44875806 GGTAGGCTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 51 0.98
57 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.53
Consensus pattern (56 bp):
ATATTTTATCATTTCAGTTTATTATTTAGTTTAAAGAATTAGATATCTTTTTGGAC
Found at i:44883288 original size:55 final size:55
Alignment explanation
Indices: 44883222--44883331 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
44883212 ACGTTTGCAT
44883222 GATAGTTTTTCTAAACATTCACTGAACTTGTTAAGCTTACCCACTCCTATTTAAA
1 GATAGTTTTTCTAAACATTCACTGAACTTGTTAAGCTTACCCACTCCTATTTAAA
* *
44883277 GATAGTTTTTCTGAACATTCACTGAACTTGTTAAGCTTACTCACTCCTATTTAAA
1 GATAGTTTTTCTAAACATTCACTGAACTTGTTAAGCTTACCCACTCCTATTTAAA
44883332 CCATTGTAGA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (55 bp):
GATAGTTTTTCTAAACATTCACTGAACTTGTTAAGCTTACCCACTCCTATTTAAA
Found at i:44886572 original size:43 final size:41
Alignment explanation
Indices: 44886511--44886666 Score: 156
Period size: 43 Copynumber: 3.7 Consensus size: 41
44886501 ATGTATTTTT
*
44886511 GTGTAAGACCACGCCTGGGACGTTGGCATCGAATTGTGTATAC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTGTG-ATAC
* * **
44886554 GTGTAAGACCATGTCTGGGACATTGGCATCGTATT-TGATTT
1 GTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTGTGATAC
44886595 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGATTAC
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TGTGA-TAC
* * *
44886638 ATGTAAGACCACATCTTGGACGTTGGCAT
1 GTGTAAGACCACGTCTGGGACGTTGGCAT
44886667 TGTACGAGCC
Statistics
Matches: 93, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
40 2 0.02
41 30 0.32
42 6 0.06
43 54 0.58
44 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (41 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATTGTGATAC
Found at i:44886611 original size:41 final size:41
Alignment explanation
Indices: 44886508--44886635 Score: 141
Period size: 41 Copynumber: 3.0 Consensus size: 41
44886498 GATATGTATT
* * *
44886508 TTTGTGTAAGACCAC-GCCTGGGACGTTGGCATCGAATTGTGTA
1 TTTGTGTAAGACC-CTGTCTGGGACATTGGCATCGTATT-TG-A
** *
44886551 TACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA
1 TTTGTGTAAGACCCTGTCTGGGACATTGGCATCGTATTTGA
* *
44886592 TTTGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGA
1 TTTGTGTAAGACCCTGTCTGGGACATTGGCATCG-TATTTGA
44886634 TT
1 TT
44886636 ACATGTAAGA
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
41 31 0.43
42 10 0.14
43 31 0.43
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (41 bp):
TTTGTGTAAGACCCTGTCTGGGACATTGGCATCGTATTTGA
Found at i:44886664 original size:84 final size:84
Alignment explanation
Indices: 44886508--44886666 Score: 200
Period size: 84 Copynumber: 1.9 Consensus size: 84
44886498 GATATGTATT
* **
44886508 TTTGTGTAAGACCACGCCTGGGACGTTGGCATCGAATTGTGTATACGTGTAAGACCATGTCTGGG
1 TTTGTGTAAGACCACGCCTGGGACGTTGGCATCGAATTGTGTATACATGTAAGACCACATCTGGG
44886573 ACATTGGCATCGTATTTGA
66 ACATTGGCATCGTATTTGA
*
44886592 TTTGTGTAAGACC-CTGTCTGGGACAG-TGGCATCG-ATATGTG-ATTACATGTAAGACCACATC
1 TTTGTGTAAGACCAC-GCCTGGGAC-GTTGGCATCGAAT-TGTGTA-TACATGTAAGACCACATC
* *
44886653 TTGGACGTTGGCAT
62 TGGGACATTGGCAT
44886667 TGTACGAGCC
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
83 4 0.06
84 60 0.92
85 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (84 bp):
TTTGTGTAAGACCACGCCTGGGACGTTGGCATCGAATTGTGTATACATGTAAGACCACATCTGGG
ACATTGGCATCGTATTTGA
Found at i:44889263 original size:42 final size:42
Alignment explanation
Indices: 44889211--44889416 Score: 141
Period size: 42 Copynumber: 4.9 Consensus size: 42
44889201 ATTCACTACT
* *
44889211 TGTGCTAGTATATTT-ACTTTGGCTTATTCGATGATGCACTTA
1 TGTGCCAGTATATTTGA-TTTGGCTTATCCGATGATGCACTTA
* * *
44889253 TGTGCCAGTATGTTTGATTTGGTTTATCCGATGATGCATTTA
1 TGTGCCAGTATATTTGATTTGGCTTATCCGATGATGCACTTA
* * * ** *
44889295 CGTGCCAGTATATTTGCTCTGG-TTCATCTAATGATGAACTTA
1 TGTGCCAGTATATTTGATTTGGCTT-ATCCGATGATGCACTTA
** * * *** * *
44889337 CATGCCAATATATTTG-CTTCAATTCATCCAATTATGCACTTA
1 TGTGCCAGTATATTTGATTTGGCTT-ATCCGATGATGCACTTA
** *
44889379 CATGCCAGTATATTTGCTTTGG-TTCATCCGATGATGCA
1 TGTGCCAGTATATTTGATTTGGCTT-ATCCGATGATGCA
44889417 ATTGTGTACT
Statistics
Matches: 132, Mismatches: 28, Indels: 8
0.79 0.17 0.05
Matches are distributed among these distances:
41 3 0.02
42 126 0.95
43 3 0.02
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (42 bp):
TGTGCCAGTATATTTGATTTGGCTTATCCGATGATGCACTTA
Found at i:44894682 original size:32 final size:32
Alignment explanation
Indices: 44894646--44894709 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
44894636 CCTTTGATTC
44894646 GGGAATGTTAAAAATAAATACTTTTTTACACT
1 GGGAATGTTAAAAATAAATACTTTTTTACACT
*
44894678 GGGAATGTTAGAAATAAATACTTTTTTACACT
1 GGGAATGTTAAAAATAAATACTTTTTTACACT
44894710 ATTCTCTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (32 bp):
GGGAATGTTAAAAATAAATACTTTTTTACACT
Found at i:44894859 original size:31 final size:31
Alignment explanation
Indices: 44894821--44894884 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
44894811 AAATTAATGG
*
44894821 TAGACCTAGAAGTAGCCGAAAAGGGTCTTCC
1 TAGACCTAGAAGTAGCCAAAAAGGGTCTTCC
44894852 TAGACCTAGAAGTAGCCAAAAAGGGTCTTCC
1 TAGACCTAGAAGTAGCCAAAAAGGGTCTTCC
44894883 TA
1 TA
44894885 CTAAGACTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.20
Consensus pattern (31 bp):
TAGACCTAGAAGTAGCCAAAAAGGGTCTTCC
Found at i:44895433 original size:2 final size:2
Alignment explanation
Indices: 44895426--44895454 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
44895416 TTATTTGGTG
44895426 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
44895455 GTGTGTGTGT
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:44901059 original size:19 final size:19
Alignment explanation
Indices: 44901035--44901073 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
44901025 AGGCCTAGGG
44901035 TTTGTTTCACGTTCTTCCT
1 TTTGTTTCACGTTCTTCCT
44901054 TTTGTTTCACGTTCTTCCT
1 TTTGTTTCACGTTCTTCCT
44901073 T
1 T
44901074 CCCCAAACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.05, C:0.26, G:0.10, T:0.59
Consensus pattern (19 bp):
TTTGTTTCACGTTCTTCCT
Found at i:44901328 original size:30 final size:30
Alignment explanation
Indices: 44901292--44901354 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
44901282 AAATCTCTTG
44901292 AAATCAACAAGAACAATTGAAATAAATCTA
1 AAATCAACAAGAACAATTGAAATAAATCTA
44901322 AAATCAACAAGAACAATTGAAATAAATCTA
1 AAATCAACAAGAACAATTGAAATAAATCTA
44901352 AAA
1 AAA
44901355 CCCTAAGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.62, C:0.13, G:0.06, T:0.19
Consensus pattern (30 bp):
AAATCAACAAGAACAATTGAAATAAATCTA
Found at i:44904946 original size:43 final size:43
Alignment explanation
Indices: 44904902--44905130 Score: 218
Period size: 43 Copynumber: 5.4 Consensus size: 43
44904892 AGTGCTGCTA
* *
44904902 AAAG-TCATGACCTTTAGCGGCGCTTTTCCCATAAACACCGCT
1 AAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCT
* **
44904944 AAAGATCATGACCTTTAGCGACGCTTTTCCCACAAACGTTGCT
1 AAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCT
* * * *
44904987 ATAGATCACGACTTTTAGCGGCGCTTTTGCCACAAACGCCGCT
1 AAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCT
* ** *
44905030 ATAGATCATGAGTTTTAGCGGCGCTTCTT-TCACAAACGCCGCTAT
1 AAAGATCATGACCTTTAGCGGCGCTT-TTCCCACAAACGCCGC--T
* * * *
44905075 AAAGA--ACGACTTTTACCGGCGCTTTT-TCACAAACGCCGCT
1 AAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCT
* *
44905115 AAA-AACATGACTTTTA
1 AAAGATCATGACCTTTA
44905131 AAAAATATAT
Statistics
Matches: 161, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 4 0.02
41 9 0.06
42 19 0.12
43 121 0.75
44 2 0.01
45 5 0.03
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (43 bp):
AAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCT
Found at i:44905047 original size:86 final size:85
Alignment explanation
Indices: 44904914--44905130 Score: 249
Period size: 86 Copynumber: 2.5 Consensus size: 85
44904904 AGTCATGACC
* *
44904914 TTTAGCGGCGCTTTTCCCATAAACACCGCTAAAGATCATGACCTTTAGCGACGCTT-TTCCCACA
1 TTTAGCGGCGCTTTT-CCACAAACGCCGCTAAAGATCATGACCTTTAGCGACGCTTCTT-CCACA
** * **
44904978 AACGTTGCTATAGATCACGACT
64 AACGCCGCTATAAAGAACGACT
* ** * *
44905000 TTTAGCGGCGCTTTTGCCACAAACGCCGCTATAGATCATGAGTTTTAGCGGCGCTTCTTTCACAA
1 TTTAGCGGCGCTTTT-CCACAAACGCCGCTAAAGATCATGACCTTTAGCGACGCTTCTTCCACAA
44905065 ACGCCGCTATAAAGAACGACT
65 ACGCCGCTATAAAGAACGACT
* * * *
44905086 TTTACCGGCGCTTTTTCACAAACGCCGCTAAA-AACATGACTTTTA
1 TTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGATCATGACCTTTA
44905131 AAAAATATAT
Statistics
Matches: 112, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
84 11 0.10
85 15 0.13
86 84 0.75
87 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (85 bp):
TTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGATCATGACCTTTAGCGACGCTTCTTCCACAAA
CGCCGCTATAAAGAACGACT
Found at i:44909941 original size:7 final size:7
Alignment explanation
Indices: 44909931--44909979 Score: 71
Period size: 7 Copynumber: 6.9 Consensus size: 7
44909921 AAACCGTAAA
44909931 CCATAAT
1 CCATAAT
44909938 CCATAAT
1 CCATAAT
44909945 CCATAAT
1 CCATAAT
44909952 CCATAAT
1 CCATAAT
*
44909959 CCCTAAAT
1 CCAT-AAT
*
44909967 CCATACT
1 CCATAAT
44909974 CCATAA
1 CCATAA
44909980 ACCTTAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
7 31 0.84
8 6 0.16
ACGTcount: A:0.41, C:0.33, G:0.00, T:0.27
Consensus pattern (7 bp):
CCATAAT
Found at i:44909987 original size:22 final size:22
Alignment explanation
Indices: 44909942--44909987 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
44909932 CATAATCCAT
*
44909942 AATCCATAATCCATAATCCCTA
1 AATCCATAATCCATAAACCCTA
* *
44909964 AATCCATACTCCATAAACCTTA
1 AATCCATAATCCATAAACCCTA
44909986 AA
1 AA
44909988 ATAGTAACTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.26
Consensus pattern (22 bp):
AATCCATAATCCATAAACCCTA
Found at i:44910228 original size:14 final size:15
Alignment explanation
Indices: 44910200--44910228 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
44910190 GTCTAACCCC
44910200 AAATCCCAAACCCTT
1 AAATCCCAAACCCTT
44910215 AAATCCC-AACCCTT
1 AAATCCCAAACCCTT
44910229 TATACCATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATCCCAAACCCTT
Found at i:44910796 original size:40 final size:40
Alignment explanation
Indices: 44910711--44910995 Score: 277
Period size: 40 Copynumber: 7.0 Consensus size: 40
44910701 CACTAAAGAT
* ***
44910711 CGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAAAT
1 CGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCC
* * *
44910751 AGAGCATTCA-CGACGCTTTTTCAAAAACGCCGCTAATTCC
1 CGAGCATT-AGCGGCGCTTTTTCAAAAACGCCGCTAAATCC
* * * * *
44910791 CGAGCATTAGCGGCACTTTTTTAAAAACGACGCTAAAGCA
1 CGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCC
* * * *
44910831 CGAAGCATTAGCAGTG-TTTTTTAAAAATGCCGCTAAATCAC
1 CG-AGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAATC-C
* * * * *
44910872 GGAGCATTAGCGGCGCTTTTTTAAATACGCCGCCAAAGCC
1 CGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCC
*
44910912 CTGAACATTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCC
1 C-GAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCC
* * *
44910953 TTGATCATTAGCGGCGCTTTTTCAAAAAACGTCGCTAAATCC
1 -CGAGCATTAGCGGCGCTTTTTC-AAAAACGCCGCTAAATCC
44910995 C
1 C
44910996 CGAAAGGTTA
Statistics
Matches: 198, Mismatches: 39, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
39 1 0.01
40 95 0.48
41 85 0.43
42 17 0.09
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (40 bp):
CGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCC
Found at i:44911142 original size:40 final size:40
Alignment explanation
Indices: 44911050--44911166 Score: 114
Period size: 40 Copynumber: 3.0 Consensus size: 40
44911040 TGCTTTTTGG
* **
44911050 AAAAA-CGCCGCTAGTGCTC-AT-TTCTAGCGGCGTTTACC
1 AAAAAGCGCCGCTAATGCTCGATCTT-TAGCGGCGTTTTTC
**
44911088 AAAAAGCGCCGCTAATTTTCGATCTTTAGCGGCGTTTTTC
1 AAAAAGCGCCGCTAATGCTCGATCTTTAGCGGCGTTTTTC
*** * *
44911128 AAAAAGCTTTGCTAATGCTCGATTTTTAGCGGCATTTTT
1 AAAAAGCGCCGCTAATGCTCGATCTTTAGCGGCGTTTTT
44911167 ATCCAAACGC
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
38 5 0.08
39 11 0.17
40 46 0.72
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (40 bp):
AAAAAGCGCCGCTAATGCTCGATCTTTAGCGGCGTTTTTC
Found at i:44917512 original size:28 final size:28
Alignment explanation
Indices: 44917480--44917577 Score: 133
Period size: 28 Copynumber: 3.5 Consensus size: 28
44917470 TAATAAGTTT
* * * *
44917480 GCACATTTAGTGCTTAATAATCAAACTC
1 GCACACTTAGTGCTTTACAATTAAACTC
* *
44917508 GCACACTTAGTGCTTTACCATTAAACCC
1 GCACACTTAGTGCTTTACAATTAAACTC
44917536 GCACACTTAGTGCTTTACAATTAAACTC
1 GCACACTTAGTGCTTTACAATTAAACTC
*
44917564 ACACACTTAGTGCT
1 GCACACTTAGTGCT
44917578 AATCTCATTA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.31
Consensus pattern (28 bp):
GCACACTTAGTGCTTTACAATTAAACTC
Found at i:44919386 original size:33 final size:33
Alignment explanation
Indices: 44919339--44919478 Score: 199
Period size: 33 Copynumber: 4.2 Consensus size: 33
44919329 TACACTCTGT
**
44919339 TTGGTGTGTTGGTTGGATTAGCTCATATGAGCA
1 TTGGTGTGTTGGAGGGATTAGCTCATATGAGCA
* **
44919372 TTGGAGTGTTGGTTGGATTAGCTCATATGAGCA
1 TTGGTGTGTTGGAGGGATTAGCTCATATGAGCA
44919405 TTGGTGTGTTGGAGGGATTAGCTCATATGAGCA
1 TTGGTGTGTTGGAGGGATTAGCTCATATGAGCA
* * *
44919438 TTGGTGTGTTGGAGGGATTGGCTCGTCTGAGCA
1 TTGGTGTGTTGGAGGGATTAGCTCATATGAGCA
44919471 TTTGGTGT
1 -TTGGTGT
44919479 TTTTGGTTGG
Statistics
Matches: 99, Mismatches: 7, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
33 92 0.93
34 7 0.07
ACGTcount: A:0.17, C:0.09, G:0.36, T:0.37
Consensus pattern (33 bp):
TTGGTGTGTTGGAGGGATTAGCTCATATGAGCA
Found at i:44920620 original size:15 final size:16
Alignment explanation
Indices: 44920600--44920629 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44920590 TGGTGCCTTA
44920600 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
44920615 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
44920630 AACATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:44923937 original size:26 final size:26
Alignment explanation
Indices: 44923902--44923998 Score: 78
Period size: 26 Copynumber: 3.8 Consensus size: 26
44923892 GCAGCTCTTA
*
44923902 TGAGCGTCCCGATATATGGCTCTTCG
1 TGAGCTTCCCGATATATGGCTCTTCG
* *
44923928 TGAGCTTCCCGAT-TAAAGGCTCTTTG
1 TGAGCTTCCCGATAT-ATGGCTCTTCG
* * *
44923954 TGAGCTTCTCGTTA-ATGACTC-TC-
1 TGAGCTTCCCGATATATGGCTCTTCG
*
44923977 TAGAGCTTCCTGATAT-TGGCTC
1 T-GAGCTTCCCGATATATGGCTC
44923999 GCTCGAACCT
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
23 1 0.02
24 16 0.29
25 6 0.11
26 32 0.58
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (26 bp):
TGAGCTTCCCGATATATGGCTCTTCG
Found at i:44924096 original size:25 final size:24
Alignment explanation
Indices: 44924051--44924134 Score: 66
Period size: 25 Copynumber: 3.3 Consensus size: 24
44924041 ATGGTCTCCG
44924051 AAGCTTCCCGTTACATG-GCTCATAT
1 AAGCTTCCCGTT--ATGTGCTCATAT
44924076 AAGCTTCCCGTTATGTAGCTCGA-A-
1 AAGCTTCCCGTTATGT-GCTC-ATAT
*
44924100 AGAGCTTCCCGTTTATGTGCTAATAT
1 A-AGCTTCCCG-TTATGTGCTCATAT
*
44924126 GAGCATTCC
1 AAGC-TTCC
44924135 AGAATTTGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
23 3 0.06
24 2 0.04
25 33 0.67
26 11 0.22
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (24 bp):
AAGCTTCCCGTTATGTGCTCATAT
Found at i:44925860 original size:13 final size:13
Alignment explanation
Indices: 44925842--44925866 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44925832 TAATTTATAT
44925842 GTGTGAAAATTTC
1 GTGTGAAAATTTC
44925855 GTGTGAAAATTT
1 GTGTGAAAATTT
44925867 TATCGTTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:44927624 original size:41 final size:41
Alignment explanation
Indices: 44927577--44927659 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
44927567 GTGAAATTAT
*
44927577 TCAGGCTATATG-TCTAGCAGGCTAAGTGCCGGTGAACTGAA
1 TCAGGCTATAAGCT-TAGCAGGCTAAGTGCCGGTGAACTGAA
44927618 TCAGGCTATAAGCTTAGCAGGCTAAGTGCCGGTGAACTGAA
1 TCAGGCTATAAGCTTAGCAGGCTAAGTGCCGGTGAACTGAA
44927659 T
1 T
44927660 TAGACTTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 39 0.98
42 1 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (41 bp):
TCAGGCTATAAGCTTAGCAGGCTAAGTGCCGGTGAACTGAA
Found at i:44927687 original size:41 final size:41
Alignment explanation
Indices: 44927590--44927675 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 41
44927580 GGCTATATGT
* * *
44927590 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
1 CTAGCAGGATAAGTGCCGGTGAACTGAATCAGACTATAAAC
* * * *
44927631 TTAGCAGGCTAAGTGCCGGTGAACTGAATTAGACTTTAAAC
1 CTAGCAGGATAAGTGCCGGTGAACTGAATCAGACTATAAAC
44927672 CTAG
1 CTAG
44927676 TAGATGAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (41 bp):
CTAGCAGGATAAGTGCCGGTGAACTGAATCAGACTATAAAC
Found at i:44931595 original size:16 final size:16
Alignment explanation
Indices: 44931574--44931604 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44931564 AATTAATTTA
*
44931574 AATTAATTAATTTTCC
1 AATTAAATAATTTTCC
44931590 AATTAAATAATTTTC
1 AATTAAATAATTTTC
44931605 TCAACTCAAT
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:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAAATAATTTTCC
Found at i:44933804 original size:20 final size:21
Alignment explanation
Indices: 44933781--44933826 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
44933771 AAAAATGGTT
* * *
44933781 TAAAATCTAAAA-ATTATAAA
1 TAAAATATAAAATATAAAAAA
44933801 TAAAATATAAAATATAAAAAA
1 TAAAATATAAAATATAAAAAA
44933822 TAAAA
1 TAAAA
44933827 AACATATGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAAATATAAAATATAAAAAA
Done.