Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 184 of 325
Found at i:56566196 original size:40 final size:40
Alignment explanation
Indices: 56566130--56566280 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
56566120 AAATTGAATG
* * *
56566130 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
56566169 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
56566209 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
56566249 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
56566281 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:56575256 original size:39 final size:40
Alignment explanation
Indices: 56575084--56575260 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
56575074 CCAAGGCCAA
* * * * * *
56575084 CGGGACTTA-CCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * *
56575123 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-TGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCAC-AATTGCCTT
*
56575163 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * * * *
56575203 CGGGTCTTAACCCGGATATAATTTC-AGCATAATTGTCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
*
56575242 CGGGGCTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
56575261 CATTCAATTT
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 39 0.33
40 77 0.65
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
Found at i:56579328 original size:40 final size:40
Alignment explanation
Indices: 56579283--56579489 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
56579273 CGGAATACAA
*
56579283 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
56579323 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
56579363 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *** * *
56579403 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAAT-GCCTTCGGGTCTTAGC
** * ** * *
56579443 CCGGATATAATTACTAGCATAAATGTCTTC-GGACTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
56579482 CCGGATAT
1 CCGGATAT
56579490 CATTCAATTG
Statistics
Matches: 140, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 18 0.13
40 119 0.85
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:56590462 original size:12 final size:12
Alignment explanation
Indices: 56590445--56590477 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
56590435 CCCTCGTTTA
*
56590445 TTTTCACTCACT
1 TTTTCACTCACC
56590457 TTTTCACTCACC
1 TTTTCACTCACC
56590469 TTTTCACTC
1 TTTTCACTC
56590478 TTTTCTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.36, G:0.00, T:0.48
Consensus pattern (12 bp):
TTTTCACTCACC
Found at i:56593705 original size:55 final size:53
Alignment explanation
Indices: 56593618--56593872 Score: 243
Period size: 55 Copynumber: 4.8 Consensus size: 53
56593608 ATTAGGGTTT
*
56593618 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGGC
* * * * *
56593673 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* * * * *
56593728 AAAGG-TCCCATGTAAGAACATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGG
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* *
56593781 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
** * * * *
56593830 AAGGATACCACATAAGACCATGACAAGTCATGGAAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
56593873 GTACCCATGT
Statistics
Matches: 167, Mismatches: 27, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
49 38 0.23
52 7 0.04
53 40 0.24
54 11 0.07
55 67 0.40
56 4 0.02
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:56593824 original size:108 final size:110
Alignment explanation
Indices: 56593625--56593825 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
56593615 TTTAAGGATA
* *
56593625 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGAACATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
56593690 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
56593735 CCATGTAAGAACATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGGAAGGATACCATGTAAG
1 CCATGTAAGAACATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
56593797 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
56593826 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (110 bp):
CCATGTAAGAACATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:56593967 original size:23 final size:24
Alignment explanation
Indices: 56593941--56593985 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
56593931 AAGGTAAGGT
*
56593941 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
56593964 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
56593986 GAAGAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:56594085 original size:16 final size:16
Alignment explanation
Indices: 56594064--56594094 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56594054 ATAAATCTGA
56594064 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
56594080 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
56594095 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:56595537 original size:11 final size:11
Alignment explanation
Indices: 56595521--56595549 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
56595511 CATAAACACT
56595521 TTTTTTTAGAA
1 TTTTTTTAGAA
56595532 TTTTTTTAGAA
1 TTTTTTTAGAA
56595543 TTTTTTT
1 TTTTTTT
56595550 GTATATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (11 bp):
TTTTTTTAGAA
Found at i:56595622 original size:15 final size:15
Alignment explanation
Indices: 56595602--56595634 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
56595592 ATAATACTTG
*
56595602 AATTTCATGAAGTAA
1 AATTTCACGAAGTAA
56595617 AATTTCACGAAGTAA
1 AATTTCACGAAGTAA
56595632 AAT
1 AAT
56595635 AAGAAATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.30
Consensus pattern (15 bp):
AATTTCACGAAGTAA
Found at i:56598484 original size:20 final size:20
Alignment explanation
Indices: 56598453--56598498 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
56598443 TAGCATTTAT
56598453 CTCATG-AACTTAGACTCAA
1 CTCATGAAACTTAGACTCAA
56598472 CTCATGAAACTTAGACTCAA
1 CTCATGAAACTTAGACTCAA
56598492 CTCATGA
1 CTCATGA
56598499 GTTCAGACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (20 bp):
CTCATGAAACTTAGACTCAA
Found at i:56598621 original size:36 final size:36
Alignment explanation
Indices: 56598574--56598647 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
56598564 GCTTCATATC
56598574 TAATCGAATAGCATCGCATATGCTCACACTGTAATT
1 TAATCGAATAGCATCGCATATGCTCACACTGTAATT
*
56598610 TAATCGAATAGCATCGCATATGTTCACACTGTAATT
1 TAATCGAATAGCATCGCATATGCTCACACTGTAATT
56598646 TA
1 TA
56598648 CTCGCATAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (36 bp):
TAATCGAATAGCATCGCATATGCTCACACTGTAATT
Found at i:56615794 original size:46 final size:46
Alignment explanation
Indices: 56615744--56615919 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
56615734 TGGTTGAGCA
56615744 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56615790 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
56615835 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56615883 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56615920 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:56615900 original size:93 final size:93
Alignment explanation
Indices: 56615741--56615912 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
56615731 GGATGGTTGA
* *
56615741 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56615806 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
56615834 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56615899 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
56615913 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56617725 original size:7 final size:7
Alignment explanation
Indices: 56617713--56617745 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
56617703 TTTTATGAAA
56617713 CCCAAAG
1 CCCAAAG
56617720 CCCAAAG
1 CCCAAAG
56617727 CCCAAAG
1 CCCAAAG
*
56617734 CCTAAAG
1 CCCAAAG
56617741 CCCAA
1 CCCAA
56617746 TTCATCTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.42, G:0.12, T:0.03
Consensus pattern (7 bp):
CCCAAAG
Found at i:56628836 original size:11 final size:11
Alignment explanation
Indices: 56628820--56628846 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
56628810 AATTTAACCT
56628820 AATTACTATTA
1 AATTACTATTA
56628831 AATTACTATTA
1 AATTACTATTA
56628842 AATTA
1 AATTA
56628847 TAAATTGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTACTATTA
Found at i:56629403 original size:47 final size:48
Alignment explanation
Indices: 56629351--56629444 Score: 129
Period size: 47 Copynumber: 2.0 Consensus size: 48
56629341 TTTTCAATTG
*
56629351 GTTATGTATAAATAATACATGTTTTCATT-TTCATTTT-TTTTATTTTA
1 GTTATGTATAAATAATACATGTTTTCATTCTT-ATTTTATTATATTTTA
* * *
56629398 GTTATGTATATATAATACGTGTTTTTATTCTTATTTTATTATATTTT
1 GTTATGTATAAATAATACATGTTTTCATTCTTATTTTATTATATTTT
56629445 TTGAGGGTGG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
47 31 0.76
48 10 0.24
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.61
Consensus pattern (48 bp):
GTTATGTATAAATAATACATGTTTTCATTCTTATTTTATTATATTTTA
Found at i:56632854 original size:28 final size:27
Alignment explanation
Indices: 56632791--56632860 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
56632781 ATAGTGAGTC
56632791 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
* *
56632818 CGCACACTTAGTGTTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
*
56632846 CGCACACTTACTGCT
1 CGCACACTTAGTGCT
56632861 GTACAGATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:56635259 original size:10 final size:10
Alignment explanation
Indices: 56635199--56635246 Score: 96
Period size: 10 Copynumber: 4.8 Consensus size: 10
56635189 AAAATTTCTG
56635199 TAATTTTTGC
1 TAATTTTTGC
56635209 TAATTTTTGC
1 TAATTTTTGC
56635219 TAATTTTTGC
1 TAATTTTTGC
56635229 TAATTTTTGC
1 TAATTTTTGC
56635239 TAATTTTT
1 TAATTTTT
56635247 TTTCTGTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 38 1.00
ACGTcount: A:0.21, C:0.08, G:0.08, T:0.62
Consensus pattern (10 bp):
TAATTTTTGC
Found at i:56636018 original size:66 final size:68
Alignment explanation
Indices: 56635940--56636126 Score: 272
Period size: 71 Copynumber: 2.7 Consensus size: 68
56635930 TAGTACCACT
*
56635940 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
56636002 CACG
65 CACG
56636006 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
*
56636071 ATCATG
63 ATCACG
56636077 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
56636127 GATACATCTC
Statistics
Matches: 113, Mismatches: 2, Indels: 7
0.93 0.02 0.06
Matches are distributed among these distances:
66 13 0.12
67 6 0.05
68 1 0.01
69 1 0.01
71 92 0.81
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:56636051 original size:71 final size:71
Alignment explanation
Indices: 56635963--56636126 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
56635953 CGATTTGTCT
56635963 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
56636028 CTTTCA
66 CTTTCA
*
56636034 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCATGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
56636099 CTTTCA
66 CTTTCA
56636105 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
56636127 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:56636164 original size:71 final size:69
Alignment explanation
Indices: 56635963--56636160 Score: 240
Period size: 71 Copynumber: 2.8 Consensus size: 69
56635953 CGATTTGTCT
* * *
56635963 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTCGGAATCA-GCATGCGACCTAGCTACATTTAT
56636028 CTTTCA
64 CTTTCA
* * *
56636034 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCATGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTCGGAATCA-GCATGCGACCTAGCTACATTTAT
56636099 CTTTCA
64 CTTTCA
* * *
56636105 CGTAGCTCTCTTGTCTACATGG-GATACAT-CTCGTATTACA-CATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTCGGAAT-CAGCATGCGACCTAGCTAC
56636161 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
68 15 0.13
69 5 0.04
70 3 0.03
71 95 0.81
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (69 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTCGGAATCAGCATGCGACCTAGCTACATTTATCT
TTCA
Found at i:56639342 original size:358 final size:355
Alignment explanation
Indices: 56638660--56639713 Score: 1439
Period size: 358 Copynumber: 3.0 Consensus size: 355
56638650 CTCAAGTTCC
*
56638660 TTTTTAAATTTGTATATGA-TT-TAGTCGGTCATGTATAGTTTTTAAGTGACTATGGATGATGGC
1 TTTTTAAATTTGTATATGATTTCTA-TCGGTCCTGTATAGTTTTTAAGTGACTATGGATGATGGC
* * * *
56638723 AACTTTCTCTTCTGTTTCACGTACCAAGTTTGGACCCACTATCTTTCTTTTGCTCAATTCCATCC
65 AACTTTCTCTTCTATTTCACGTA-CTAGTTTGGACCCACTATCTTTCTTTCGCTCAATT-CTTCC
*
56638788 AATAGGTAGGTGTCCTACAC--CT-TC-TAC-AGGCTTCAAATGGAGACATCTTCAGGCTGATGT
128 AATAGGTAGGTGTCCTACACTTCTACCATACAAGGCTTCAAATGGAGACATCTTCAGGCTGATGT
* * *
56638848 GGTAA-TAATTATTATAGGAGAATTCAACTAGAAGGACATACTTCTCCCAGTTTATTCCTAAATC
193 GGTAACT-ATTATTATAGGAGAATTCAACCAGAGGGACATACTTCTCCCAGTTTATTCCAAAATC
* ** * * * *
56638912 ACTCACACAGAAATACGTTATATCCTCTAAGACCTAAATAACTTTTTCTGATTGGCCATCAGTCA
257 AATCACACAGAAACGCATTATATCCTCTAAGACCTGAATAACTTTTTTTGATTGGCCATCAGTCG
*
56638977 AGGGTGAAATGCAGTGCTAAATTTTTGGCAGTCT
322 AGGGTGAAATGCAGTGCTAAATTTTTGGCAGTCA
* * *
56639011 TTTTTAAATCTGTATATGATTTCTATCAGTCCTGTATAGTTTTTAAGTGACTATGGATGATGACA
1 TTTTTAAATTTGTATATGATTTCTATCGGTCCTGTATAGTTTTTAAGTGACTATGGATGATGGCA
* *
56639076 ACTTTCT-TCTCTATTTAACATACTGAGTTTGGACCCACTATCTTTCTTTCGCTCAATTACTTCC
66 ACTTTCTCT-TCTATTTCACGTACT-AGTTTGGACCCACTATCTTTCTTTCGCTCAATT-CTTCC
56639140 AAT-GAGTAGGTGTCCTACATCTTCTACCATACAAGGCTTCAAATGGAGACATCTTCAGGCTGAT
128 AATAG-GTAGGTGTCCTACA-CTTCTACCATACAAGGCTTCAAATGGAGACATCTTCAGGCTGAT
* * * *
56639204 GTGGTAACTATTATTGTAGGAGAATTCGACCAGAGGGACATACTTTTCCTAGTTTATTCCAAAAT
191 GTGGTAACTATTATTATAGGAGAATTCAACCAGAGGGACATACTTCTCCCAGTTTATTCCAAAAT
*
56639269 CAATCACACAGAAACGCATTATATCCTCTAAGACCTGAATAACTTTTTTTGATTGGCCTTCAGTC
256 CAATCACACAGAAACGCATTATATCCTCTAAGACCTGAATAACTTTTTTTGATTGGCCATCAGTC
* * * *
56639334 GAGGGTGAAACT-TAGTGCTAGATTTTTGTCTGTCA
321 GAGGGTGAAA-TGCAGTGCTAAATTTTTGGCAGTCA
* * *
56639369 TTTTTAAATTTGTATATGATTTCTGTTGGTCCTGTGTAGTTTTTAAGTGACTATGGATGATGGCA
1 TTTTTAAATTTGTATATGATTTCTATCGGTCCTGTATAGTTTTTAAGTGACTATGGATGATGGCA
* * * * *
56639434 GCTTTCTCTTCTATTTCACGTACTATGTGTGGATCCATTATCTTTCTTTCGCTCAATTCTATCAA
66 ACTTTCTCTTCTATTTCACGTACTA-GTTTGGACCCACTATCTTTCTTTCGCTCAATTCT-TCCA
* * * * **
56639499 ATAGGCAGGTGTCCTACACCTTCTACCATACAAGGCTTCGAATGGAGACATCTTCAGGTTTACAT
129 ATAGGTAGGTGTCCTACA-CTTCTACCATACAAGGCTTCAAATGGAGACATCTTCAGGCTGATGT
* * *
56639564 GGTAACTGTTATTATAGGAGAATTCAACCAGAGGGACATACTTCTCCCAATTTATTCCAAAGTCA
193 GGTAACTATTATTATAGGAGAATTCAACCAGAGGGACATACTTCTCCCAGTTTATTCCAAAATCA
* *
56639629 ATCACACATG-AACGCATTATATCCTCTAAGACCTGAATAACTCTTTTTGGTTGGCCATCAGTCG
258 ATCACACA-GAAACGCATTATATCCTCTAAGACCTGAATAACTTTTTTTGATTGGCCATCAGTCG
*
56639693 AGGGTGAAACGCAGTGCTAAA
322 AGGGTGAAATGCAGTGCTAAA
56639714 ATTTAACTTG
Statistics
Matches: 619, Mismatches: 65, Indels: 31
0.87 0.09 0.04
Matches are distributed among these distances:
351 21 0.03
352 109 0.18
353 3 0.00
355 2 0.00
356 1 0.00
357 6 0.01
358 472 0.76
359 5 0.01
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (355 bp):
TTTTTAAATTTGTATATGATTTCTATCGGTCCTGTATAGTTTTTAAGTGACTATGGATGATGGCA
ACTTTCTCTTCTATTTCACGTACTAGTTTGGACCCACTATCTTTCTTTCGCTCAATTCTTCCAAT
AGGTAGGTGTCCTACACTTCTACCATACAAGGCTTCAAATGGAGACATCTTCAGGCTGATGTGGT
AACTATTATTATAGGAGAATTCAACCAGAGGGACATACTTCTCCCAGTTTATTCCAAAATCAATC
ACACAGAAACGCATTATATCCTCTAAGACCTGAATAACTTTTTTTGATTGGCCATCAGTCGAGGG
TGAAATGCAGTGCTAAATTTTTGGCAGTCA
Found at i:56645147 original size:39 final size:39
Alignment explanation
Indices: 56645121--56645214 Score: 136
Period size: 39 Copynumber: 2.4 Consensus size: 39
56645111 GGGACTTTAG
56645121 GCCCGGATAT-ATTCCAGCACGTAGCCTGCGGACCTCAA
1 GCCCGGATATGATTCCAGCACGTAGCCTGCGGACCTCAA
* * *
56645159 GTCCGGATATGTTTCCAGCACGTAGCCTGCAGACCTCAA
1 GCCCGGATATGATTCCAGCACGTAGCCTGCGGACCTCAA
* *
56645198 GTCCGGATATGTTTCCA
1 GCCCGGATATGATTCCA
56645215 AATATCATGC
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 9 0.17
39 43 0.83
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.23
Consensus pattern (39 bp):
GCCCGGATATGATTCCAGCACGTAGCCTGCGGACCTCAA
Found at i:56648464 original size:46 final size:44
Alignment explanation
Indices: 56648360--56648467 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
56648350 TGTCTTTGAC
** * * *
56648360 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
56648404 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
56648450 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
56648468 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:56652570 original size:31 final size:30
Alignment explanation
Indices: 56652535--56652597 Score: 108
Period size: 31 Copynumber: 2.1 Consensus size: 30
56652525 CGTTTACAGT
56652535 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAA-ATGA
*
56652566 AAAGGCTTCGGCCCAGTATTATGAAAATGA
1 AAAGGCTTCGGCCCAGTAATATGAAAATGA
56652596 AA
1 AA
56652598 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 6 0.19
31 25 0.81
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTAATATGAAAATGA
Found at i:56658573 original size:25 final size:25
Alignment explanation
Indices: 56658544--56658591 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
56658534 TTATACCATG
* * *
56658544 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
56658569 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
56658592 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:56658660 original size:20 final size:20
Alignment explanation
Indices: 56658635--56658693 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
56658625 TAAATATGGT
56658635 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
56658655 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
56658675 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
56658694 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:56658675 original size:11 final size:11
Alignment explanation
Indices: 56658639--56658693 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
56658629 TATGGTATGT
56658639 ATGATATGCAC
1 ATGATATGCAC
* *
56658650 ATGAAATG--T
1 ATGATATGCAC
56658659 ATGATATGCAC
1 ATGATATGCAC
*
56658670 ATGATATG--T
1 ATGATATGCAC
56658679 ATGATATGCAC
1 ATGATATGCAC
56658690 ATGA
1 ATGA
56658694 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:56658771 original size:24 final size:24
Alignment explanation
Indices: 56658744--56658886 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
56658734 GAGGAAGTGA
56658744 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
56658768 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
56658792 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
56658815 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
56658839 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
56658863 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
56658887 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:56658837 original size:47 final size:47
Alignment explanation
Indices: 56658744--56658886 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
56658734 GAGGAAGTGA
56658744 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
56658792 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
56658839 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
56658887 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:56658860 original size:71 final size:72
Alignment explanation
Indices: 56658744--56658887 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
56658734 GAGGAAGTGA
*
56658744 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
56658807 CCAGTTAT
65 CCAGTTAT
** * *
56658815 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
56658880 CAGTTAT
66 CAGTTAT
56658887 A
1 A
56658888 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:56659112 original size:31 final size:31
Alignment explanation
Indices: 56659077--56659140 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
56659067 CGTTTACAGT
56659077 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
56659108 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
56659139 AA
1 AA
56659141 TATGAAAAGG
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:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:56663044 original size:40 final size:40
Alignment explanation
Indices: 56662999--56663166 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
56662989 CGGAATATAA
56662999 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
56663039 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
56663079 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
56663119 CCGGATATAATTTCCAGCATAATTGTCC-TCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATG-CCTTCGGGTCTTAGC
56663159 CCGGATAT
1 CCGGATAT
56663167 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 104 0.97
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:56667369 original size:39 final size:40
Alignment explanation
Indices: 56667192--56667373 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
56667182 CCGCACCAAG
* * * * * * *
56667192 GCCTACGGGACTTA-CCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
56667231 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
56667271 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
56667311 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
56667350 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
56667374 CATTCAATTT
Statistics
Matches: 122, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 43 0.35
40 77 0.63
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:56675379 original size:39 final size:40
Alignment explanation
Indices: 56675207--56675383 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
56675197 CCAAGGCCAA
* * * * * *
56675207 CGGGACTTA-CCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * *
56675246 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-TGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCAC-AATTGCCTT
*
56675286 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * * * *
56675326 CGGGTCTTAACCCGGATATAATTTC-AGCATAATTGTCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
*
56675365 CGGGGCTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
56675384 CATTCAATTT
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 39 0.33
40 77 0.65
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
Found at i:56678881 original size:13 final size:13
Alignment explanation
Indices: 56678863--56678888 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56678853 ATATTATAAT
56678863 TATTTTATGTTAA
1 TATTTTATGTTAA
56678876 TATTTTATGTTAA
1 TATTTTATGTTAA
56678889 AAAAATAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:56680321 original size:40 final size:40
Alignment explanation
Indices: 56680273--56680438 Score: 282
Period size: 40 Copynumber: 4.2 Consensus size: 40
56680263 AGACTAAGAT
56680273 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
56680313 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
56680353 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
56680393 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
56680432 CCGAAGG
1 CCGAAGG
56680439 TACTTGGGTT
Statistics
Matches: 121, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
39 15 0.12
40 104 0.86
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:56685502 original size:16 final size:15
Alignment explanation
Indices: 56685472--56685505 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
56685462 ACTAGATCGG
*
56685472 CAAAAGCCGAAAAGC
1 CAAAAGCCAAAAAGC
56685487 CAAAATGCCAAAAAGC
1 CAAAA-GCCAAAAAGC
56685503 CAA
1 CAA
56685506 CATTTTGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.56, C:0.26, G:0.15, T:0.03
Consensus pattern (15 bp):
CAAAAGCCAAAAAGC
Found at i:56685781 original size:27 final size:27
Alignment explanation
Indices: 56685751--56685814 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 27
56685741 ATTTACTAAA
56685751 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATTACCATT
* *
56685778 ATA-CCCTTAGGTGCAAAATTACCATT
1 ATACCCCTAAGATGCAAAATTACCATT
56685804 ATACCCCTAAG
1 ATACCCCTAAG
56685815 GTTAATTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 2 0.06
26 21 0.66
27 9 0.28
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATT
Found at i:56685965 original size:27 final size:28
Alignment explanation
Indices: 56685918--56686030 Score: 126
Period size: 27 Copynumber: 4.2 Consensus size: 28
56685908 GAGGAAGTGT
* * *
56685918 TCTGGTGGCTCTACCAAAAATATCT-AA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* *
56685945 TCTGGTGGCTCCGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
56685973 TCTGGTGGCTCTGCCA-TAATATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* *
56686000 TCTGGTGACTCTGTCAC-AATATCTGT-
1 TCTGGTGGCTCTGCCACAAATATCTGTA
56686026 TCTGG
1 TCTGG
56686031 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 5 0.07
27 54 0.73
28 15 0.20
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:56686025 original size:54 final size:54
Alignment explanation
Indices: 56685915--56686030 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 54
56685905 ATGGAGGAAG
*
56685915 TGTTCTGGTGGCTCTACCAAAAATATCTAATCTGGTGGCTCCGCCACAAATATC
1 TGTTCTGGTGGCTCTACCAAAAATATCTAATCTGGTGACTCCGCCACAAATATC
* * * * *
56685969 TGTTTCTGGTGGCTCTGCC-ATAATATCTGTATCTGGTGACTCTGTCAC-AATATC
1 TG-TTCTGGTGGCTCTACCAAAAATATCT-AATCTGGTGACTCCGCCACAAATATC
56686023 TGTTCTGG
1 TGTTCTGG
56686031 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
53 6 0.11
54 18 0.33
55 30 0.56
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (54 bp):
TGTTCTGGTGGCTCTACCAAAAATATCTAATCTGGTGACTCCGCCACAAATATC
Found at i:56691016 original size:26 final size:23
Alignment explanation
Indices: 56690985--56691049 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 23
56690975 CCATGGTTGA
56690985 TAAGCTCTTACTGAGCTGATAAACAG
1 TAAGCTCTTACTGAGCTG---AACAG
*
56691011 TAAGCTC-TATTGAGCTGAACAG
1 TAAGCTCTTACTGAGCTGAACAG
*
56691033 TAAGCTCTTTC-GAGCTG
1 TAAGCTCTTACTGAGCTG
56691050 GATTGGTAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
22 18 0.51
23 1 0.03
25 9 0.26
26 7 0.20
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (23 bp):
TAAGCTCTTACTGAGCTGAACAG
Found at i:56691034 original size:22 final size:22
Alignment explanation
Indices: 56691006--56691049 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
56690996 TGAGCTGATA
56691006 AACAGTAAGCTCTATT-GAGCTG
1 AACAGTAAGCTCT-TTCGAGCTG
56691028 AACAGTAAGCTCTTTCGAGCTG
1 AACAGTAAGCTCTTTCGAGCTG
56691050 GATTGGTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 2 0.10
22 19 0.90
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (22 bp):
AACAGTAAGCTCTTTCGAGCTG
Found at i:56691094 original size:23 final size:23
Alignment explanation
Indices: 56690985--56691094 Score: 71
Period size: 23 Copynumber: 4.7 Consensus size: 23
56690975 CCATGGTTGA
56690985 TAAGCTCTTACTGAGCTGATAAACAG
1 TAAGCTCTTAC-GAGCTG--AAACAG
*
56691011 TAAGCTC-TATTGAGCTG-AACAG
1 TAAGCTCTTA-CGAGCTGAAACAG
* * ***
56691033 TAAGCTCTTTCGAGCTGGATTGG
1 TAAGCTCTTACGAGCTGAAACAG
** ** *
56691056 TAAGCTCCAATAAGCTGAAACAA
1 TAAGCTCTTACGAGCTGAAACAG
56691079 TAAGCTCTTACGAGCT
1 TAAGCTCTTACGAGCT
56691095 ATGGTGAGTC
Statistics
Matches: 61, Mismatches: 20, Indels: 9
0.68 0.22 0.10
Matches are distributed among these distances:
22 18 0.30
23 28 0.46
25 8 0.13
26 7 0.11
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (23 bp):
TAAGCTCTTACGAGCTGAAACAG
Found at i:56698587 original size:27 final size:27
Alignment explanation
Indices: 56698549--56698602 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
56698539 TCATACATCT
* *
56698549 CATAGGGGCATAAAAGTTATTTTATCA
1 CATAGGAGCATAAAAGTCATTTTATCA
*
56698576 CATAGGAGCATAATAGTCATTTTATCA
1 CATAGGAGCATAAAAGTCATTTTATCA
56698603 ATTAAGGTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (27 bp):
CATAGGAGCATAAAAGTCATTTTATCA
Found at i:56700456 original size:34 final size:34
Alignment explanation
Indices: 56700418--56700490 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
56700408 AGTGACAGTC
*
56700418 CAGTATCAGT-TAGGGCATTAGCCCAATACAGTAT
1 CAGTATCAGTGT-GGGCATTAGCCCAATACAGTAA
* * *
56700452 CAGTATCTGTGTGGGCCTTAGCCCAATTCAGTAA
1 CAGTATCAGTGTGGGCATTAGCCCAATACAGTAA
56700486 CAGTA
1 CAGTA
56700491 ACAGAAATGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 33 0.97
35 1 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (34 bp):
CAGTATCAGTGTGGGCATTAGCCCAATACAGTAA
Found at i:56702923 original size:85 final size:85
Alignment explanation
Indices: 56702832--56702987 Score: 276
Period size: 85 Copynumber: 1.8 Consensus size: 85
56702822 TCGCACACAG
* * * *
56702832 CTGAGACGCACGCCCGTATCTCTGCCTGTGTGGACAAAAATAGGCTACTTTTAAAGCTATTTTGC
1 CTGAGACACACGCCCGTATCTCTGCCTGTGTAGACAAAAATAGGCTACTTGTAAAGCCATTTTGC
56702897 CACCCTTGTGTCATACACGA
66 CACCCTTGTGTCATACACGA
56702917 CTGAGACACACGCCCGTATCTCTGCCTGTGTAGACAAAAATAGGCTACTTGTAAAGCCATTTTGC
1 CTGAGACACACGCCCGTATCTCTGCCTGTGTAGACAAAAATAGGCTACTTGTAAAGCCATTTTGC
56702982 CACCCT
66 CACCCT
56702988 ACAATCACAA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 67 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (85 bp):
CTGAGACACACGCCCGTATCTCTGCCTGTGTAGACAAAAATAGGCTACTTGTAAAGCCATTTTGC
CACCCTTGTGTCATACACGA
Found at i:56707582 original size:29 final size:29
Alignment explanation
Indices: 56707553--56707726 Score: 183
Period size: 29 Copynumber: 6.1 Consensus size: 29
56707543 TGAATATAAG
* ** *
56707553 GTGATTTGGGCCTAGCGGGCCATATGAAG
1 GTGAATTGGGCCTAATGGGCCATATGAAT
* *
56707582 GTGATTTGGGCCTAATAGGCCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
* *
56707611 ATGAATTGGGCCTAATTGGCCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
*
56707640 GTGAATTGGGCCTGATGGGCCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
* * **
56707669 GTGAATTGGACCTGATGGGTTATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
* *
56707698 GAG-A-TGGGCC-AAGTGGGCCATATGCAT
1 GTGAATTGGGCCTAA-TGGGCCATATGAAT
56707725 GT
1 GT
56707727 ATGTAGGGGT
Statistics
Matches: 124, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 17 0.14
28 1 0.01
29 105 0.85
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.28
Consensus pattern (29 bp):
GTGAATTGGGCCTAATGGGCCATATGAAT
Found at i:56712187 original size:112 final size:112
Alignment explanation
Indices: 56711990--56712213 Score: 403
Period size: 112 Copynumber: 2.0 Consensus size: 112
56711980 GGCATCAGGC
* *
56711990 CATATGCCCAATGTTGGAGTAGAAGAGGCTCTGGCCTCACCTGTGGCTCGAAATGGACCGTATGA
1 CATATGCCCAATGTTGGAGTAGAAGAGGCTCCGGCCTCACCTGTGGCTCGAAATAGACCGTATGA
*
56712055 TCGGGCCGCAGGAGAAGATGCATTGTCGCAGGCTATGCTGAGGATTT
66 TCGGGCCGCAGGAGAAGATGCATTGTCGCAGGCAATGCTGAGGATTT
* *
56712102 CATATGCCCAATGTTGGAGTAGAAGAGGCTCCGGCCTCACCTGTGGCTGGAAATAGACCTTATGA
1 CATATGCCCAATGTTGGAGTAGAAGAGGCTCCGGCCTCACCTGTGGCTCGAAATAGACCGTATGA
56712167 TCGGGCCGCAGGAGAAGATGCATTGTCGCAGGCAATGCTGAGGATTT
66 TCGGGCCGCAGGAGAAGATGCATTGTCGCAGGCAATGCTGAGGATTT
56712214 TGGAAAGGGC
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 107 1.00
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (112 bp):
CATATGCCCAATGTTGGAGTAGAAGAGGCTCCGGCCTCACCTGTGGCTCGAAATAGACCGTATGA
TCGGGCCGCAGGAGAAGATGCATTGTCGCAGGCAATGCTGAGGATTT
Found at i:56714912 original size:29 final size:28
Alignment explanation
Indices: 56714870--56714930 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
56714860 GTGAGCATGA
* *
56714870 ATATAAGGTTATTTGGGCATAACGGGCC
1 ATATAAGGTGATTTGGGCATAACAGGCC
* *
56714898 ATATAAAGGTGATTTGGGCCTAATAGGCC
1 ATAT-AAGGTGATTTGGGCATAACAGGCC
56714927 ATAT
1 ATAT
56714931 GAATATGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (28 bp):
ATATAAGGTGATTTGGGCATAACAGGCC
Found at i:56716690 original size:24 final size:24
Alignment explanation
Indices: 56716636--56716728 Score: 102
Period size: 24 Copynumber: 3.9 Consensus size: 24
56716626 AGTCATGGTC
*
56716636 GGTAAGCTCTTACTGAGCTGATAAAT
1 GGTAAGCTC-TATTGAGCTGA-AAAT
*
56716662 AGTAAGCTCTATTGAGCTGAAAAT
1 GGTAAGCTCTATTGAGCTGAAAAT
* *
56716686 GGTAAGCTCTAATGAGCTGAACA-
1 GGTAAGCTCTATTGAGCTGAAAAT
56716709 -GTAAGCTCT-TTCGAGCTGAA
1 GGTAAGCTCTATT-GAGCTGAA
56716729 TCGGTAAGAT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.02
22 17 0.28
24 24 0.40
25 10 0.17
26 8 0.13
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (24 bp):
GGTAAGCTCTATTGAGCTGAAAAT
Found at i:56716715 original size:22 final size:22
Alignment explanation
Indices: 56716662--56716748 Score: 77
Period size: 24 Copynumber: 3.8 Consensus size: 22
56716652 GCTGATAAAT
* *
56716662 AGTAAGCTCTATTGAGCTGAAA
1 AGTAAGCTCTAATGAGCTGAAC
56716684 ATGGTAAGCTCTAATGAGCTGAAC
1 A--GTAAGCTCTAATGAGCTGAAC
*
56716708 AGTAAGCTCT-TTCGAGCTGAATC
1 AGTAAGCTCTAAT-GAGCTGAA-C
* * *
56716731 GGTAAGATCCAATGAGCT
1 AGTAAGCTCTAATGAGCT
56716749 AAAACTGTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
21 1 0.02
22 18 0.34
23 13 0.25
24 21 0.40
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (22 bp):
AGTAAGCTCTAATGAGCTGAAC
Found at i:56720584 original size:46 final size:46
Alignment explanation
Indices: 56720517--56720692 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
56720507 TGTAACCCGC
* * *
56720517 CCATAAGCGAACTCGGGCTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * * *
56720563 CCATAAGTGAACTCAGACTCAACTCAACCAGTTCAGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-G--GAC--GTTCGCAT
* *
56720613 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
56720656 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
56720693 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 59 0.56
47 25 0.24
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:56720637 original size:93 final size:93
Alignment explanation
Indices: 56720524--56720695 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
56720514 CGCCCATAAG
* * *
56720524 CGAACTCGGGCTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
56720589 ACCAGTTCAGATGCCTAGTTACATCTCA
66 ACCAGTTCAGATGCCTAGTTACATCTCA
* *
56720617 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
* *
56720682 ACGAGTTCGGATGC
66 ACCAGTTCAGATGC
56720696 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACCAGTTCAGATGCCTAGTTACATCTCA
Found at i:56728809 original size:30 final size:30
Alignment explanation
Indices: 56728768--56728824 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
56728758 TCAAGAATGG
56728768 TTCACTATAAATATTTAAAACCTGTCATGA
1 TTCACTATAAATATTTAAAACCTGTCATGA
*
56728798 TTCATTATAAATATTTAAAACCTGTCA
1 TTCACTATAAATATTTAAAACCTGTCA
56728825 CGAATATCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (30 bp):
TTCACTATAAATATTTAAAACCTGTCATGA
Found at i:56728987 original size:22 final size:22
Alignment explanation
Indices: 56728957--56728998 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
56728947 TCTGGCAACG
*
56728957 GATACAGGTTAGGGGTGTTATA
1 GATACAGGTTAAGGGTGTTATA
* *
56728979 GATATAGGTTAAGTGTGTTA
1 GATACAGGTTAAGGGTGTTA
56728999 CAGGATTACC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.02, G:0.33, T:0.36
Consensus pattern (22 bp):
GATACAGGTTAAGGGTGTTATA
Found at i:56739364 original size:17 final size:17
Alignment explanation
Indices: 56739342--56739375 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
56739332 TCACATGAGA
56739342 GGGGTTTGATCTATATT
1 GGGGTTTGATCTATATT
56739359 GGGGTTTGATCTATATT
1 GGGGTTTGATCTATATT
56739376 TATGCAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.29, T:0.47
Consensus pattern (17 bp):
GGGGTTTGATCTATATT
Found at i:56744467 original size:40 final size:40
Alignment explanation
Indices: 56744359--56744485 Score: 127
Period size: 40 Copynumber: 3.2 Consensus size: 40
56744349 ACTAGGATCT
* * * * *
56744359 GAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAA-TCCC
1 GAAGGCATTCGTGCAAGTCACTAAACCCGGGTTAAGTCCC
* *
56744398 GAAGGC-TTTGTGCAAGTTACTAAACCCGGGTTAAGTCCC
1 GAAGGCATTCGTGCAAGTCACTAAACCCGGGTTAAGTCCC
* *
56744437 GAAGGCATTCGTGCAAGTCGCTATAA-CCGGGCTT-CGTCCC
1 GAAGGCATTCGTGCAAGTCACTA-AACCCGGG-TTAAGTCCC
56744477 GAAGGCATT
1 GAAGGCATT
56744486 TGAGCGAGTC
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
38 23 0.31
39 16 0.21
40 32 0.43
41 4 0.05
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
GAAGGCATTCGTGCAAGTCACTAAACCCGGGTTAAGTCCC
Found at i:56744469 original size:78 final size:79
Alignment explanation
Indices: 56744304--56744455 Score: 191
Period size: 78 Copynumber: 1.9 Consensus size: 79
56744294 TCGAATGATG
* * * *
56744304 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCTGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
56744369 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
56744384 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
56744447 GTGCAAGTC
65 GTGCAAGTC
56744456 GCTATAACCG
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
77 1 0.02
78 34 0.55
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:56746730 original size:40 final size:39
Alignment explanation
Indices: 56746671--56746878 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
56746661 CAGAATACAA
* *
56746671 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
* *
56746711 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
56746751 CCGGATTTAACAATTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* * ** * *
56746791 CTGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATAT-AACACTTGCACAAAT-GCCTTCGGGTCTTAGC
* * * * *
56746831 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
56746871 CCGGATAT
1 CCGGATAT
56746879 CATTCAATTG
Statistics
Matches: 137, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
39 4 0.03
40 129 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (39 bp):
CCGGATATAACACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:56753832 original size:40 final size:40
Alignment explanation
Indices: 56753759--56753903 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
56753749 CCGCACCAAG
* * * * *
56753759 GCCTACGGGACTTA-CCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
56753798 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
56753838 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
56753878 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
56753904 TTTAGCATAA
Statistics
Matches: 90, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 12 0.13
40 78 0.87
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:56753922 original size:38 final size:40
Alignment explanation
Indices: 56753790--56753939 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
56753780 ATCACGATTT
* * * *
56753790 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTA-ACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGA-TACTA
*
56753830 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGATACTA
* *
56753870 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-AT-TTA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGATACTA
* * *
56753908 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
56753940 CATTCAATTT
Statistics
Matches: 96, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
38 30 0.31
39 3 0.03
40 61 0.64
41 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGATACTA
Found at i:56758334 original size:17 final size:18
Alignment explanation
Indices: 56758292--56758340 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
56758282 AGTTGAAAAG
56758292 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
56758311 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
56758328 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
56758341 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:56759284 original size:39 final size:40
Alignment explanation
Indices: 56759161--56759326 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
56759151 AAATTGAATG
* * *
56759161 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTAATT
* * ***
56759200 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
*
56759240 ATATCCGGGCTAAG-CCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTAATT
* * *
56759279 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTAATT
56759319 ATATCCGG
1 ATATCCGG
56759327 TTATATTCCG
Statistics
Matches: 104, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
38 3 0.03
39 44 0.42
40 55 0.53
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
Found at i:56759293 original size:79 final size:79
Alignment explanation
Indices: 56759161--56759310 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
56759151 AAATTGAATG
*
56759161 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
56759226 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * ** *
56759240 ATATCCGGGCTAAGCCCGAAGGC-ATTCGTGC-GAGTTATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGCCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
56759303 ATTTGTGC
64 AATTGTGC
56759311 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 4 0.06
79 58 0.94
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:56766338 original size:17 final size:18
Alignment explanation
Indices: 56766296--56766344 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
56766286 AGTTGAAAAG
56766296 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
56766315 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
56766332 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
56766345 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:56767232 original size:40 final size:40
Alignment explanation
Indices: 56767166--56767332 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
56767156 AAATTGAATG
* * *
56767166 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
56767205 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
56767245 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
56767285 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
56767325 ATATCCGG
1 ATATCCGG
56767333 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:56769150 original size:6 final size:6
Alignment explanation
Indices: 56769135--56769309 Score: 139
Period size: 6 Copynumber: 28.8 Consensus size: 6
56769125 AACCAAAATG
* *
56769135 AGAATT AGAATC AGAATC AGTAA-C AGAATC AGAATC A-ATATT AGTAA-C
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGA-ATC AG-AATC
* * *
56769183 AGAATC AAAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
56769232 AGTAA-C AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* *
56769280 AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
56769310 GTGAATGCAA
Statistics
Matches: 136, Mismatches: 17, Indels: 32
0.74 0.09 0.17
Matches are distributed among these distances:
5 11 0.08
6 112 0.82
7 10 0.07
8 3 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:56769162 original size:24 final size:24
Alignment explanation
Indices: 56769135--56769281 Score: 170
Period size: 24 Copynumber: 5.8 Consensus size: 24
56769125 AACCAAAATG
*
56769135 AGAATTAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
*
56769159 AGAATCAGAATCA-ATATTAGTAAC
1 AGAATCAGAATCAGA-ATCAGTAAC
*
56769183 AGAATCAAAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAG---TA----AC
56769214 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
* *
56769238 AGAATCAGAATCAGTATTAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
56769262 AGAATCAGAATCAGAATCAG
1 AGAATCAGAATCAGAATCAG
56769282 AATTACGTGA
Statistics
Matches: 105, Mismatches: 9, Indels: 18
0.80 0.07 0.14
Matches are distributed among these distances:
23 1 0.01
24 78 0.74
25 1 0.01
27 2 0.02
28 2 0.02
31 21 0.20
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGTAAC
Found at i:56769219 original size:31 final size:31
Alignment explanation
Indices: 56769161--56769233 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
56769151 TCAGTAACAG
56769161 AATCAGAATCA-ATATTAGTAACAGAATCAA
1 AATCAGAATCAGATATTAGTAACAGAATCAA
* *
56769191 AATCAGAATCAGA-ATTAGGTGACAGAATCAG
1 AATCAGAATCAGATATTA-GTAACAGAATCAA
56769222 AATCAGAATCAG
1 AATCAGAATCAG
56769234 TAACAGAATC
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
30 15 0.38
31 24 0.62
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (31 bp):
AATCAGAATCAGATATTAGTAACAGAATCAA
Found at i:56769230 original size:79 final size:79
Alignment explanation
Indices: 56769135--56769309 Score: 314
Period size: 79 Copynumber: 2.2 Consensus size: 79
56769125 AACCAAAATG
*
56769135 AGAATTAGAATCAGAATCAGTAACAGAATCAGAATCAATATTAGTAACAGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAATATTAGTAACAGAATCAAAATCAGAAT
*
56769200 CAGAATTAGGTGAC
66 CAGAATTACGTGAC
* *
56769214 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAATATTAGTAACAGAATCAAAATCAGAAT
56769279 CAGAATTACGTGAC
66 CAGAATTACGTGAC
56769293 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
56769310 GTGAATGCAA
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 92 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.21
Consensus pattern (79 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAATATTAGTAACAGAATCAAAATCAGAAT
CAGAATTACGTGAC
Found at i:56769464 original size:27 final size:26
Alignment explanation
Indices: 56769427--56769492 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
56769417 AGCATGGCTG
*
56769427 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
56769453 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
56769480 CCAGAATCAGATA
1 CCAGAA-CAGATA
56769493 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:56769497 original size:27 final size:27
Alignment explanation
Indices: 56769427--56769500 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
56769417 AGCATGGCTG
* *
56769427 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
56769453 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
56769480 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
56769501 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:56769507 original size:27 final size:27
Alignment explanation
Indices: 56769451--56769508 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
56769441 GTGACAGAGT
* * *
56769451 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
56769478 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
56769505 CACC
1 CACC
56769509 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:56769713 original size:22 final size:22
Alignment explanation
Indices: 56769665--56769723 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
56769655 GTAAATACGT
*
56769665 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
56769687 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
56769709 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
56769724 TAATAATGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:56769890 original size:27 final size:26
Alignment explanation
Indices: 56769817--56769893 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 26
56769807 GGTCAATAGG
* * *
56769817 TATTGTGACAGAGTCACCAAATACAGA
1 TATTGTGGCAGAGCCACCAGA-ACAGA
56769844 TATTGTGGCAGAGCCACCAGAACAGA
1 TATTGTGGCAGAGCCACCAGAACAGA
*
56769870 TATTTGTGGCATAGCCACCAGAAC
1 TA-TTGTGGCAGAGCCACCAGAAC
56769894 GCTTCCTCCG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.16
27 38 0.84
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (26 bp):
TATTGTGGCAGAGCCACCAGAACAGA
Found at i:56770122 original size:27 final size:27
Alignment explanation
Indices: 56770092--56770287 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
56770082 GGGGCAAAAT
* ** *
56770092 GGTAATTTTACCCCGCAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
56770119 GGTAATTCTACTCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
56770146 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
56770173 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
56770200 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
56770227 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
56770254 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
56770281 AGTAATT
1 GGTAATT
56770288 TCACAATCAA
Statistics
Matches: 143, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:56770158 original size:54 final size:54
Alignment explanation
Indices: 56770092--56770287 Score: 257
Period size: 54 Copynumber: 3.6 Consensus size: 54
56770082 GGGGCAAAAT
* ** * *
56770092 GGTAATTTTACCCCGCAAGGGTATCTCGGTAATTCTACTCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
56770146 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
56770200 GGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
56770254 GGAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATT
56770288 TCACAATCAA
Statistics
Matches: 123, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 123 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:56770322 original size:27 final size:27
Alignment explanation
Indices: 56770292--56770782 Score: 614
Period size: 27 Copynumber: 18.2 Consensus size: 27
56770282 GTAATTTCAC
*
56770292 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
56770319 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
56770346 AA-CTGAGGGTAAACCAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
56770373 AATCAAGGGTAGAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
56770400 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
56770427 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
56770454 AA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
56770481 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56770508 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
56770535 AATCGAGGATAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
56770562 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
56770589 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56770616 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
56770643 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
56770670 AA-CTAAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
56770697 AATTGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56770724 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
56770751 AATCAAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56770778 AATCG
1 AATCG
56770783 GGAGTACTTT
Statistics
Matches: 402, Mismatches: 52, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.01
27 393 0.98
28 4 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:56777484 original size:16 final size:14
Alignment explanation
Indices: 56777453--56777480 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
56777443 TTTTTCGTGC
56777453 TTATTATGTGTGAA
1 TTATTATGTGTGAA
56777467 TTATTATGTGTGAA
1 TTATTATGTGTGAA
56777481 AATTTCGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (14 bp):
TTATTATGTGTGAA
Found at i:56778716 original size:43 final size:43
Alignment explanation
Indices: 56778560--56778716 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
56778550 TGTGTTATCG
*
56778560 TGTAAGACCACATCTGGGACGTTGGCATTGAGT-TATGATTTACA
1 TGTAAGACCACATCTGGGACGTTGGCATCGA-TATATGA-TTACA
* * ***
56778604 TGTAAGACCACATCTGGGATGTTGGCATCG-TATCTGATTTTG
1 TGTAAGACCACATCTGGGACGTTGGCATCGATATATGATTACA
* * *
56778646 TGTAAGACC-CTGTCTGGGACAG-AGGCATCGATATTTGATTACA
1 TGTAAGACCAC-ATCTGGGAC-GTTGGCATCGATATATGATTACA
* *
56778689 TGTAAGACCACGTCTAGGACGTTGGCAT
1 TGTAAGACCACATCTGGGACGTTGGCAT
56778717 TGTATGAGAT
Statistics
Matches: 92, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
41 1 0.01
42 27 0.29
43 35 0.38
44 29 0.32
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACATCTGGGACGTTGGCATCGATATATGATTACA
Found at i:56781895 original size:22 final size:22
Alignment explanation
Indices: 56781870--56781941 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
56781860 AGATTGAATT
56781870 GGTAATTGGTAACTATGGAAAC
1 GGTAATTGGTAACTATGGAAAC
* * * **
56781892 GGTAAGT-GT-ACAAAGGTTGAATT
1 GGTAATTGGTAAC-TA--TGGAAAC
56781915 GGTAATTGGTAACTATGGAAAC
1 GGTAATTGGTAACTATGGAAAC
56781937 GGTAA
1 GGTAA
56781942 GTGTACAAAG
Statistics
Matches: 35, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
20 2 0.06
21 3 0.09
22 15 0.43
23 10 0.29
24 3 0.09
25 2 0.06
ACGTcount: A:0.36, C:0.07, G:0.29, T:0.28
Consensus pattern (22 bp):
GGTAATTGGTAACTATGGAAAC
Found at i:56781927 original size:45 final size:45
Alignment explanation
Indices: 56781858--56781954 Score: 185
Period size: 45 Copynumber: 2.2 Consensus size: 45
56781848 AGAGGTATTG
*
56781858 AAAGATTGAATTGGTAATTGGTAACTATGGAAACGGTAAGTGTAC
1 AAAGGTTGAATTGGTAATTGGTAACTATGGAAACGGTAAGTGTAC
56781903 AAAGGTTGAATTGGTAATTGGTAACTATGGAAACGGTAAGTGTAC
1 AAAGGTTGAATTGGTAATTGGTAACTATGGAAACGGTAAGTGTAC
56781948 AAAGGTT
1 AAAGGTT
56781955 AAGTATATGG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.37, C:0.06, G:0.28, T:0.29
Consensus pattern (45 bp):
AAAGGTTGAATTGGTAATTGGTAACTATGGAAACGGTAAGTGTAC
Found at i:56790051 original size:24 final size:24
Alignment explanation
Indices: 56790019--56790067 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
56790009 TTGAGTAATT
* *
56790019 AGGACTAAATTGA-AAAAATGATAA
1 AGGAATAAATT-ATAAAAATAATAA
56790043 AGGAATAAATTATAAAAATAATAA
1 AGGAATAAATTATAAAAATAATAA
56790067 A
1 A
56790068 TTGAGGGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.22
Consensus pattern (24 bp):
AGGAATAAATTATAAAAATAATAA
Found at i:56792024 original size:2 final size:2
Alignment explanation
Indices: 56792017--56792047 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
56792007 TAGATGTCTT
*
56792017 TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
56792048 CGAATGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:56792879 original size:5 final size:5
Alignment explanation
Indices: 56792871--56792917 Score: 58
Period size: 5 Copynumber: 8.8 Consensus size: 5
56792861 GGGTTAGGGT
*
56792871 TTTTC TTTTC TTTTC TTTTCCC TTTTC TTTTC TTTTT TTTTC ATTTT
1 TTTTC TTTTC TTTTC TTTT--C TTTTC TTTTC TTTTC TTTTC -TTTT
56792918 TAGTTTAGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
5 28 0.76
6 4 0.11
7 5 0.14
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:56792899 original size:22 final size:22
Alignment explanation
Indices: 56792871--56792912 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
56792861 GGGTTAGGGT
56792871 TTTTCTTTTCTTTTCTTTTCCC
1 TTTTCTTTTCTTTTCTTTTCCC
*
56792893 TTTTCTTTTCTTTTTTTTTC
1 TTTTCTTTTCTTTTCTTTTC
56792913 ATTTTTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTCTTTTCTTTTCTTTTCCC
Found at i:56792918 original size:22 final size:22
Alignment explanation
Indices: 56792870--56792918 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
56792860 AGGGTTAGGG
*
56792870 TTTTTCTTTTCTTTTCTTTTCC
1 TTTTTCTTTTCTTTTCTTTTCA
* *
56792892 CTTTTCTTTTCTTTTTTTTTCA
1 TTTTTCTTTTCTTTTCTTTTCA
56792914 TTTTT
1 TTTTT
56792919 AGTTTAGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTCTTTTCTTTTCTTTTCA
Found at i:56796751 original size:29 final size:29
Alignment explanation
Indices: 56796691--56796803 Score: 167
Period size: 29 Copynumber: 4.0 Consensus size: 29
56796681 ACATACCTGT
* * *
56796691 ATATGGCCCACTAGGCCC-AATCTCTTTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
* *
56796719 ATATGGCTCATGAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
56796748 ATATGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
56796777 ATAT-GCCCATTAGGCCCAAATCACATT
1 ATATGGCCCATTAGGCCCAAATCACATT
56796804 TACAGTCATG
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
28 38 0.49
29 39 0.51
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTC
Found at i:56796752 original size:57 final size:57
Alignment explanation
Indices: 56796691--56796803 Score: 165
Period size: 57 Copynumber: 2.0 Consensus size: 57
56796681 ACATACCTGT
* * *
56796691 ATATGGCCCACTAGGCCC-AATCTCTTTCATATGGCTCATGAGGCCCAAATCACATTC
1 ATATGGCCCACTAGGCCCAAATCACATTCATAT-GCCCATGAGGCCCAAATCACATTC
* *
56796748 ATATGGCCCATTAGGCCCAAATCACATTCATATGCCCATTAGGCCCAAATCACATT
1 ATATGGCCCACTAGGCCCAAATCACATTCATATGCCCATGAGGCCCAAATCACATT
56796804 TACAGTCATG
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
57 38 0.76
58 12 0.24
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (57 bp):
ATATGGCCCACTAGGCCCAAATCACATTCATATGCCCATGAGGCCCAAATCACATTC
Found at i:56797033 original size:8 final size:8
Alignment explanation
Indices: 56797020--56797065 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
56797010 GTAGCCAAAC
56797020 TTTCGGCT
1 TTTCGGCT
*
56797028 TTTCGGCA
1 TTTCGGCT
*
56797036 TTTCAGCT
1 TTTCGGCT
*
56797044 TTTCGGCA
1 TTTCGGCT
56797052 TTTCGGCT
1 TTTCGGCT
56797060 TTTCGG
1 TTTCGG
56797066 GATTAGCAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.07, C:0.24, G:0.24, T:0.46
Consensus pattern (8 bp):
TTTCGGCT
Found at i:56797044 original size:16 final size:16
Alignment explanation
Indices: 56797020--56797065 Score: 83
Period size: 16 Copynumber: 2.9 Consensus size: 16
56797010 GTAGCCAAAC
56797020 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
*
56797036 TTTCAGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
56797052 TTTCGGCTTTTCGG
1 TTTCGGCTTTTCGG
56797066 GATTAGCAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.07, C:0.24, G:0.24, T:0.46
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:56808900 original size:29 final size:29
Alignment explanation
Indices: 56808867--56808940 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
56808857 CCTTCGAGCT
56808867 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
56808896 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
56808925 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
56808941 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:56808901 original size:58 final size:58
Alignment explanation
Indices: 56808808--56808940 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
56808798 ATACTCGATT
* * * * *
56808808 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
56808866 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
56808924 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
56808941 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:56816773 original size:29 final size:29
Alignment explanation
Indices: 56816740--56816813 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
56816730 CCTTCGAGCT
56816740 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
56816769 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
56816798 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
56816814 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:56816774 original size:58 final size:58
Alignment explanation
Indices: 56816681--56816813 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
56816671 ATACTCGATT
* * * * *
56816681 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
56816739 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
56816797 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
56816814 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:56818410 original size:27 final size:28
Alignment explanation
Indices: 56818380--56818449 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
56818370 ATAATAAGTC
*
56818380 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
56818407 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
56818435 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56818450 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56825595 original size:68 final size:67
Alignment explanation
Indices: 56825523--56825672 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
56825513 CATCATGTGT
* * * *
56825523 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
56825585 ATGTAG
62 ATGTAG
** * *
56825591 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
56825656 AG
66 AG
56825658 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
56825673 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:56825628 original size:64 final size:64
Alignment explanation
Indices: 56825547--56825730 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
56825537 AGACATTATG
* *
56825547 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
56825611 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
56825676 AA
63 AA
* * * *
56825678 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
56825731 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:56837539 original size:46 final size:46
Alignment explanation
Indices: 56837467--56837556 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
56837457 GGCTTGGGTT
*
56837467 AAATTCATTTTACGAGCCTAGAGACTAAATCGTAAAATATTGAATG
1 AAATTCATTTTACGAGCCTAGAGACTAAATCATAAAATATTGAATG
* *
56837513 AAATTCATTTTACGAGCCTAGGGACTAAATCATAGAATATTGAA
1 AAATTCATTTTACGAGCCTAGAGACTAAATCATAAAATATTGAA
56837557 ATATTAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (46 bp):
AAATTCATTTTACGAGCCTAGAGACTAAATCATAAAATATTGAATG
Found at i:56845144 original size:28 final size:28
Alignment explanation
Indices: 56845104--56845173 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
56845094 ATAGTAAGTC
*
56845104 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
56845132 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
56845160 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56845174 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:56845741 original size:16 final size:16
Alignment explanation
Indices: 56845720--56845752 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
56845710 ACGAATGGGC
*
56845720 ATACATTTATATATAT
1 ATACATATATATATAT
56845736 ATACATATATATATAT
1 ATACATATATATATAT
56845752 A
1 A
56845753 GCCGAATGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
ATACATATATATATAT
Found at i:56855783 original size:28 final size:28
Alignment explanation
Indices: 56855743--56855811 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
56855733 TAGTAAGTCT
*
56855743 GCACACTTAGTGCT-TAATAATCAAACTC
1 GCACACTTAGTGCTAT-ACAATCAAACTC
*
56855771 GCACACTTAGTGCTATACAATTAAACTC
1 GCACACTTAGTGCTATACAATCAAACTC
56855799 GCACACTTAGTGC
1 GCACACTTAGTGC
56855812 CAATCTCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (28 bp):
GCACACTTAGTGCTATACAATCAAACTC
Found at i:56856373 original size:2 final size:2
Alignment explanation
Indices: 56856366--56856401 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
56856356 GGCATACATT
*
56856366 TA TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56856402 GCCGAATGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:56861572 original size:39 final size:39
Alignment explanation
Indices: 56861542--56861648 Score: 162
Period size: 39 Copynumber: 2.8 Consensus size: 39
56861532 AAAACATGTG
* * * *
56861542 TTAAAGATGTCCAAACTATGACATAATT-AAAACTCTTA
1 TTAATGATGTTCAAATTATGACATAATTAAAAACTCATA
*
56861580 TTAATGATGTTCAGATTATGACATAATTAAAAACTCATA
1 TTAATGATGTTCAAATTATGACATAATTAAAAACTCATA
56861619 TTAATGATGTTCAAATTATGACATAATTAA
1 TTAATGATGTTCAAATTATGACATAATTAA
56861649 GGACTCAAAC
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
38 24 0.39
39 38 0.61
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (39 bp):
TTAATGATGTTCAAATTATGACATAATTAAAAACTCATA
Found at i:56879576 original size:40 final size:40
Alignment explanation
Indices: 56879519--56879704 Score: 157
Period size: 40 Copynumber: 4.7 Consensus size: 40
56879509 TCGAATGATG
* *
56879519 TCCGGGCTAAG-TGCCGAAGGC-TTTGTGCTAAGTAACTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-AAGTAACTAAA
* * *
56879559 TCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTAACTAAA
* *
56879599 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTAACTAAA
* ** * * *
56879639 TCTGGGTTAAG-TCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGTAACTA-AA
* *
56879680 -CCGGGCTATG-TCCCGAAGGCATTTG
1 TCCGGACTAAGAT-CCGAAGGCATTTG
56879705 AACTAGTAGC
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 118 0.92
41 9 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTAACTAAA
Found at i:56881326 original size:40 final size:40
Alignment explanation
Indices: 56881282--56881391 Score: 139
Period size: 40 Copynumber: 2.8 Consensus size: 40
56881272 ATGGTAACCC
* * *
56881282 GCACAAATACCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
56881322 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
56881362 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
56881392 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:56884380 original size:25 final size:25
Alignment explanation
Indices: 56884346--56884393 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
56884336 ATACATCAAA
56884346 TTCATTACTCATGAATTTTGCGTAC
1 TTCATTACTCATGAATTTTGCGTAC
56884371 TTCATTACTCATGAATTTTGCGT
1 TTCATTACTCATGAATTTTGCGT
56884394 TAATACTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (25 bp):
TTCATTACTCATGAATTTTGCGTAC
Found at i:56886025 original size:41 final size:43
Alignment explanation
Indices: 56885953--56886077 Score: 123
Period size: 41 Copynumber: 3.0 Consensus size: 43
56885943 TGGCGTCGAT
* *
56885953 ATATGTGGTTACATGTAAGACCATGTCTGGGACA-TCGGCATCG
1 ATATGTGATTACATGTAAGACCATATCTGGGACAGT-GGCATCG
* * * * *
56885996 -TATTTGATT-CGTGTAAGACCCTATTTGGGACAGTGGCATGG
1 ATATGTGATTACATGTAAGACCATATCTGGGACAGTGGCATCG
**
56886037 ATATGTGATTACATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 ATATGTGATTACATGTAAGACCATATCTGGGACAG-TGGCAT
56886078 TTTACGATAT
Statistics
Matches: 65, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
41 25 0.38
42 17 0.26
43 23 0.35
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
ATATGTGATTACATGTAAGACCATATCTGGGACAGTGGCATCG
Found at i:56895768 original size:44 final size:43
Alignment explanation
Indices: 56895673--56895768 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 43
56895663 GGAATGCTGA
* *
56895673 CATTGATTAGAGATATCATGTAAGACCGTGTCTGGGACACAGG
1 CATTGATTTGAGATATCATGTAAGACCATGTCTGGGACACAGG
* * * * * *
56895716 CCTCGATTTGAGATTTACGTGTAAGACCATGTCTGGGATATAGG
1 CATTGATTTGAGATAT-CATGTAAGACCATGTCTGGGACACAGG
56895760 CATTGATTT
1 CATTGATTT
56895769 TGTGTACCAG
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
43 12 0.29
44 30 0.71
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (43 bp):
CATTGATTTGAGATATCATGTAAGACCATGTCTGGGACACAGG
Found at i:56901451 original size:22 final size:22
Alignment explanation
Indices: 56901421--56901470 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
56901411 CTAAGTCAAT
*
56901421 AGGACGGCTCAATGCTATAGAC
1 AGGACGGCTCAACGCTATAGAC
* * *
56901443 AGGATGGCTCAACGTTGTAGAC
1 AGGACGGCTCAACGCTATAGAC
56901465 AGGACG
1 AGGACG
56901471 ACTAAAGGCC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.20, G:0.32, T:0.18
Consensus pattern (22 bp):
AGGACGGCTCAACGCTATAGAC
Found at i:56906579 original size:68 final size:65
Alignment explanation
Indices: 56906507--56906654 Score: 172
Period size: 65 Copynumber: 2.2 Consensus size: 65
56906497 CATCATGTGT
* * * * *
56906507 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATG-TGTACACCAT
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGGAAGGACACCAT
56906571 GTAG
62 GTAG
** * *
56906575 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGAAGGACACCATGTAG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGGAAGGACACCATGTAG
56906640 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
56906655 GATAAACTGG
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
64 25 0.36
65 29 0.42
66 2 0.03
68 13 0.19
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (65 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGGAAGGACACCATGTAG
Found at i:56906612 original size:64 final size:64
Alignment explanation
Indices: 56906463--56906712 Score: 211
Period size: 68 Copynumber: 3.8 Consensus size: 64
56906453 TACAGATAGT
* ** * * * * *
56906463 ATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTACAAGACAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAG-ACAAGAGAGCTAC--GAGA-
*
56906527 TATG
62 TA-A
* * * *
56906531 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
56906595 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGAAGGACACCATGTAGACAAGAGAGCTACGAGATAA
1 ATGTAGCTAGGTCGCATGGGTGGTACTAAG-TGTACACCATGTAGACAAGAGAGCTACGAGATAA
* *
56906660 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAG-ACAAGAGAGC
56906713 CGAACTATAT
Statistics
Matches: 149, Mismatches: 29, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
62 1 0.01
63 19 0.13
64 45 0.30
65 33 0.22
66 4 0.03
68 46 0.31
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:56907791 original size:2 final size:2
Alignment explanation
Indices: 56907784--56907808 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
56907774 TCATGACATG
56907784 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
56907809 GACTAGTCTC
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:56912193 original size:2 final size:2
Alignment explanation
Indices: 56912186--56912210 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
56912176 TCATGACATG
56912186 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
56912211 GACTTGTCTC
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:56913760 original size:22 final size:22
Alignment explanation
Indices: 56913733--56913779 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
56913723 GGAAGCACAT
*
56913733 GAGTCGTTCTCAAGCACTAGTA
1 GAGTCGTTCTCAAGCACCAGTA
56913755 GAGTCGTTCTCAAGCACCAGTA
1 GAGTCGTTCTCAAGCACCAGTA
56913777 GAG
1 GAG
56913780 GACTTGTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (22 bp):
GAGTCGTTCTCAAGCACCAGTA
Found at i:56914533 original size:21 final size:21
Alignment explanation
Indices: 56914509--56914560 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
56914499 TGTTAAATTA
* *
56914509 ACACGGGCATGGGGCTTGCAC
1 ACACGAGCATGAGGCTTGCAC
*
56914530 ACACGAGCGTGAGGCTTGCAC
1 ACACGAGCATGAGGCTTGCAC
56914551 ACACGAGCAT
1 ACACGAGCAT
56914561 AGGAGAAGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.25, C:0.29, G:0.33, T:0.13
Consensus pattern (21 bp):
ACACGAGCATGAGGCTTGCAC
Found at i:56916513 original size:39 final size:39
Alignment explanation
Indices: 56916459--56916611 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
56916449 GAATGTTCGA
*
56916459 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
56916498 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
56916537 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
56916576 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
56916612 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:56916627 original size:40 final size:39
Alignment explanation
Indices: 56916460--56916641 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
56916450 AATGTTCGAG
* *
56916460 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
56916499 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
56916538 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
56916577 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
56916617 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
56916642 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Done.