Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 131 of 410
Found at i:39458117 original size:34 final size:34
Alignment explanation
Indices: 39458057--39458163 Score: 155
Period size: 34 Copynumber: 3.2 Consensus size: 34
39458047 GTTTGCATCT
*
39458057 CTGATACTG-TACTG-AATTGGGCTAAGGCCCACA
1 CTGATACTGTTACCGTAA-TGGGCTAAGGCCCACA
*
39458090 CTGATACTGTTATCGTAATGGGCTAAGGCCCACA
1 CTGATACTGTTACCGTAATGGGCTAAGGCCCACA
* *
39458124 CTAATACTGTTACCGTAATAGGCTAAGGCCCACA
1 CTGATACTGTTACCGTAATGGGCTAAGGCCCACA
39458158 CTGATA
1 CTGATA
39458164 TTGCTACTAA
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
33 9 0.14
34 55 0.83
35 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.25
Consensus pattern (34 bp):
CTGATACTGTTACCGTAATGGGCTAAGGCCCACA
Found at i:39466983 original size:338 final size:338
Alignment explanation
Indices: 39466367--39467045 Score: 1358
Period size: 338 Copynumber: 2.0 Consensus size: 338
39466357 TTTTGCTAGA
39466367 CAAACTTGTAACTTAACAAATGAATAAATTAAGTTAGCTTCCCATAAAGATCACAAACGAGGTTT
1 CAAACTTGTAACTTAACAAATGAATAAATTAAGTTAGCTTCCCATAAAGATCACAAACGAGGTTT
39466432 TAACATAAATGGACTTTTCTAATAGAATTACTCTTTTCAAAACTCACTCCAATGTGACATCACAA
66 TAACATAAATGGACTTTTCTAATAGAATTACTCTTTTCAAAACTCACTCCAATGTGACATCACAA
39466497 ATTCGGCCATAACGTCTAAGTTGGGTTTGGGGTGTTACACATGACAATCAAGCTTTCATGTACAT
131 ATTCGGCCATAACGTCTAAGTTGGGTTTGGGGTGTTACACATGACAATCAAGCTTTCATGTACAT
39466562 ATAATTTTCAATATCCATGGTACTCCATGTTATCATGATAATCAAATAGCCATGATTTTTGCACA
196 ATAATTTTCAATATCCATGGTACTCCATGTTATCATGATAATCAAATAGCCATGATTTTTGCACA
39466627 ACATGAGATTAGAAAGTATTTTTCAATACATACAATATAACGACAAAGTAAGAATAACTTACCTT
261 ACATGAGATTAGAAAGTATTTTTCAATACATACAATATAACGACAAAGTAAGAATAACTTACCTT
39466692 ATAACGACAAAGT
326 ATAACGACAAAGT
39466705 CAAACTTGTAACTTAACAAATGAATAAATTAAGTTAGCTTCCCATAAAGATCACAAACGAGGTTT
1 CAAACTTGTAACTTAACAAATGAATAAATTAAGTTAGCTTCCCATAAAGATCACAAACGAGGTTT
39466770 TAACATAAATGGACTTTTCTAATAGAATTACTCTTTTCAAAACTCACTCCAATGTGACATCACAA
66 TAACATAAATGGACTTTTCTAATAGAATTACTCTTTTCAAAACTCACTCCAATGTGACATCACAA
39466835 ATTCGGCCATAACGTCTAAGTTGGGTTTGGGGTGTTACACATGACAATCAAGCTTTCATGTACAT
131 ATTCGGCCATAACGTCTAAGTTGGGTTTGGGGTGTTACACATGACAATCAAGCTTTCATGTACAT
39466900 ATAATTTTCAATATCCATGGTACTCCATGTTATCATGATAATCAAATAGCCATGATTTTTGCACA
196 ATAATTTTCAATATCCATGGTACTCCATGTTATCATGATAATCAAATAGCCATGATTTTTGCACA
39466965 ACATGAGATTAGAAAGTATTTTTCAATACATACAATATAACGACAAAGTAAGAATAACTTACCTT
261 ACATGAGATTAGAAAGTATTTTTCAATACATACAATATAACGACAAAGTAAGAATAACTTACCTT
39467030 ATAACGACAAAGT
326 ATAACGACAAAGT
39467043 CAA
1 CAA
39467046 TATGTGACAA
Statistics
Matches: 341, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
338 341 1.00
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (338 bp):
CAAACTTGTAACTTAACAAATGAATAAATTAAGTTAGCTTCCCATAAAGATCACAAACGAGGTTT
TAACATAAATGGACTTTTCTAATAGAATTACTCTTTTCAAAACTCACTCCAATGTGACATCACAA
ATTCGGCCATAACGTCTAAGTTGGGTTTGGGGTGTTACACATGACAATCAAGCTTTCATGTACAT
ATAATTTTCAATATCCATGGTACTCCATGTTATCATGATAATCAAATAGCCATGATTTTTGCACA
ACATGAGATTAGAAAGTATTTTTCAATACATACAATATAACGACAAAGTAAGAATAACTTACCTT
ATAACGACAAAGT
Found at i:39468759 original size:28 final size:28
Alignment explanation
Indices: 39468721--39468793 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
39468711 GTTCAAATTG
* * *
39468721 TATAGGACTAAGTGTGCGAGTTTGATTA
1 TATAGCACTAAGTGTGCGAGTTCGACTA
39468749 TATAGCACTAAGTGTGCGAGTTCGACTA
1 TATAGCACTAAGTGTGCGAGTTCGACTA
39468777 T-TAAGCACTAAGTGTGC
1 TAT-AGCACTAAGTGTGC
39468794 AGGCTTATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 1 0.02
28 40 0.98
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.32
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCGAGTTCGACTA
Found at i:39471630 original size:16 final size:15
Alignment explanation
Indices: 39471609--39471640 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
39471599 CTACTCTTGG
39471609 TTTTCTAACTCTAATT
1 TTTTCTAAC-CTAATT
39471625 TTTTCTAACCTAATT
1 TTTTCTAACCTAATT
39471640 T
1 T
39471641 CATGGATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.25, C:0.19, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTTCTAACCTAATT
Found at i:39471724 original size:2 final size:2
Alignment explanation
Indices: 39471717--39471741 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
39471707 TTTGGTAAGA
39471717 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
39471742 CATGAATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:39473545 original size:23 final size:23
Alignment explanation
Indices: 39473519--39473567 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
39473509 ACCGAATAAC
*
39473519 ACACCTCATTCACATACATTTAT
1 ACACATCATTCACATACATTTAT
*
39473542 ACACATCATTTACATACATTTAT
1 ACACATCATTCACATACATTTAT
39473565 ACA
1 ACA
39473568 TTCATACTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.35
Consensus pattern (23 bp):
ACACATCATTCACATACATTTAT
Found at i:39475539 original size:33 final size:33
Alignment explanation
Indices: 39475487--39475585 Score: 114
Period size: 33 Copynumber: 3.0 Consensus size: 33
39475477 TACATATAGT
* *
39475487 AACAGTCTGGG-CTCGAGCCCTAT-CTAGTATCA-
1 AACAGTCTGGGCCT-TAGCCCTATAC-AGTAACAG
39475519 ATACAGTCTGGGCCTTAGCCCTATACAGTAACAG
1 A-ACAGTCTGGGCCTTAGCCCTATACAGTAACAG
* *
39475553 AACAGTCTGAGCTTTAGCCCTATACAGTAACAG
1 AACAGTCTGGGCCTTAGCCCTATACAGTAACAG
39475586 TGTAGGCCTA
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
32 1 0.02
33 54 0.92
34 4 0.07
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.24
Consensus pattern (33 bp):
AACAGTCTGGGCCTTAGCCCTATACAGTAACAG
Found at i:39475802 original size:26 final size:26
Alignment explanation
Indices: 39475773--39475855 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 26
39475763 TTCTAGAAAA
39475773 AGTAAATGTGGCA-AGCCACCAGTATC
1 AGTAAATGTGGCATAGCCACCAGTA-C
* * * *
39475799 AGTAATTATGGCATAGCCACTAATAAC
1 AGTAAATGTGGCATAGCCACCAGT-AC
* * *
39475826 AGTGAATGTGACATAGTCACCAGTAC
1 AGTAAATGTGGCATAGCCACCAGTAC
39475852 AGTA
1 AGTA
39475856 CTTCCTCCAT
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
26 16 0.37
27 26 0.60
28 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.23
Consensus pattern (26 bp):
AGTAAATGTGGCATAGCCACCAGTAC
Found at i:39476021 original size:27 final size:26
Alignment explanation
Indices: 39475991--39476080 Score: 85
Period size: 27 Copynumber: 3.3 Consensus size: 26
39475981 GGGCATAATC
39475991 GTCATTTTACCACATAGGGGTATTACG
1 GTCATTTTACCACATA-GGGTATTACG
*
39476018 GTCATTTTACC-CTATAAGGGTATTACA
1 GTCATTTTACCAC-AT-AGGGTATTACG
**
39476045 ACCATTTTACCCTACA-AGGGTATTACG
1 GTCATTTTA-CC-ACATAGGGTATTACG
*
39476072 GTTATTTTA
1 GTCATTTTA
39476081 TAAACAGGGG
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
26 1 0.02
27 45 0.88
28 3 0.06
29 1 0.02
30 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.37
Consensus pattern (26 bp):
GTCATTTTACCACATAGGGTATTACG
Found at i:39476105 original size:27 final size:27
Alignment explanation
Indices: 39476075--39476194 Score: 98
Period size: 27 Copynumber: 4.4 Consensus size: 27
39476065 TATTACGGTT
*
39476075 ATTTTATAAA-CAGGGGGTATTTCAATA
1 ATTTTACAAATCA-GGGGTATTTCAATA
* *
39476102 ATTTTACAAATTAGGGGTATTTCAGTA
1 ATTTTACAAATCAGGGGTATTTCAATA
** ** **
39476129 ATTTTACAACCCCTGGGTATTTCGGTA
1 ATTTTACAAATCAGGGGTATTTCAATA
* * ***
39476156 ATTTCACAAATTAGGGGTATTTTGGTA
1 ATTTTACAAATCAGGGGTATTTCAATA
39476183 ATTTTACAAATC
1 ATTTTACAAATC
39476195 GAGGTCTTAA
Statistics
Matches: 74, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
27 73 0.99
28 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (27 bp):
ATTTTACAAATCAGGGGTATTTCAATA
Found at i:39476120 original size:54 final size:54
Alignment explanation
Indices: 39476062--39476192 Score: 136
Period size: 54 Copynumber: 2.4 Consensus size: 54
39476052 TACCCTACAA
* * * * *
39476062 GGGTATTACGGTTATTTTATAAACAGGGGGTATTTCAATAATTTTACAAATTAG
1 GGGTATTACAGTAATTTTACAAACACGGGGTATTTCAATAATTTCACAAATTAG
* * * * **
39476116 GGGTATTTCAGTAATTTTACAACCCCTGGGTATTTCGGTAATTTCACAAATTAG
1 GGGTATTACAGTAATTTTACAAACACGGGGTATTTCAATAATTTCACAAATTAG
***
39476170 GGGTATTTTGGTAATTTTACAAA
1 GGGTATTACAGTAATTTTACAAA
39476193 TCGAGGTCTT
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.39
Consensus pattern (54 bp):
GGGTATTACAGTAATTTTACAAACACGGGGTATTTCAATAATTTCACAAATTAG
Found at i:39478660 original size:43 final size:43
Alignment explanation
Indices: 39478494--39478663 Score: 127
Period size: 43 Copynumber: 4.0 Consensus size: 43
39478484 ATATAGCTTG
* * * *
39478494 TACAATGCC-ATATCCCTGATATGGTCTTACATGTTATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
* * * * * *
39478535 TATCAATGCCACTGTCCCAGACA-GAGTCTTTCACGAAATC-GAT
1 TA-CAATGCCAATGTCCCAGACATG-GTCTTACATGTAATCACAA
* * *
39478578 TAACGATGCTAATGTCCCAAACATGGTCTTTTACA--TAATCACAA
1 T-ACAATGCCAATGTCCCAGACATGGTC--TTACATGTAATCACAA
*
39478622 TACAATTCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
39478664 TCTCGGTAAC
Statistics
Matches: 96, Mismatches: 22, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
41 7 0.07
42 8 0.08
43 73 0.76
44 4 0.04
45 4 0.04
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.29
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
Found at i:39482452 original size:43 final size:43
Alignment explanation
Indices: 39482390--39482490 Score: 166
Period size: 43 Copynumber: 2.3 Consensus size: 43
39482380 ATTTTTGTCC
* * *
39482390 ACACGGGCATGTGTTTTAGTCGTGTGTGACACACAGTTAGGTT
1 ACACGGCCATGTGTCTTAGTCGTGTATGACACACAGTTAGGTT
*
39482433 ACACGGCCATGTGTCTTAGTCGTGTATGACACACGGTTAGGTT
1 ACACGGCCATGTGTCTTAGTCGTGTATGACACACAGTTAGGTT
39482476 ACACGGCCATGTGTC
1 ACACGGCCATGTGTC
39482491 CCTTAGTGTT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.30
Consensus pattern (43 bp):
ACACGGCCATGTGTCTTAGTCGTGTATGACACACAGTTAGGTT
Found at i:39488433 original size:47 final size:48
Alignment explanation
Indices: 39488364--39488495 Score: 160
Period size: 47 Copynumber: 2.8 Consensus size: 48
39488354 AGGGTATAAT
** * *
39488364 GTTGATGCCATGTCTTAGACATGGTCTTACACTGGCTCATC-CATC-AA
1 GTTGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCAAATCGAA
*
39488411 GTTGATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCGAG
1 GTTGATGCCATGTCCCAGACATGGTCTTACACTGACTATC-AAATCGAA
** *
39488460 GCCGACGCCATGTCCCAGACATGGTCTTACACTGAC
1 GTTGATGCCATGTCCCAGACATGGTCTTACACTGAC
39488496 ACATCTCGTA
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 3 0.04
47 34 0.46
48 3 0.04
49 34 0.46
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (48 bp):
GTTGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAATCGAA
Found at i:39493900 original size:22 final size:22
Alignment explanation
Indices: 39493857--39493901 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
39493847 TATCAATGTT
* *
39493857 ATTAGTGGTAGTTTATCTACAA
1 ATTAGTGGTAGCTTATCCACAA
* *
39493879 ATTAGTGGTGGCTTCTCCACAA
1 ATTAGTGGTAGCTTATCCACAA
39493901 A
1 A
39493902 CGGTGTTTTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (22 bp):
ATTAGTGGTAGCTTATCCACAA
Found at i:39495010 original size:29 final size:30
Alignment explanation
Indices: 39494956--39495013 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
39494946 CAAATTTCTG
* *
39494956 AAAGGAAATGCCTTTGTGGTGATCTTTGTC
1 AAAGGAAATGCCTCTGTGGTCATCTTTGTC
39494986 AAAGGAAA-GCCTCTGTGG-CATTCTTTGT
1 AAAGGAAATGCCTCTGTGGTCA-TCTTTGT
39495014 GAAGGAAGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.04
29 16 0.64
30 8 0.32
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (30 bp):
AAAGGAAATGCCTCTGTGGTCATCTTTGTC
Found at i:39496705 original size:46 final size:46
Alignment explanation
Indices: 39496641--39496811 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
39496631 CGCCCATAAG
* * *
39496641 TGAACTCGAACTCAACTCAACGAGCTCGGGTGTTCGCATCCACAAG
1 TGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCATCCACAAC
* * * * * *
39496687 TGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAG-TTACATC-TC
1 TGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGCATCCA-CAAC
* ** *
39496733 TCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAC
1 T-GAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCATCCACAAC
*
39496780 TGAACTCGGACTCAACTCAACGAGTTCGGATG
1 TGAACTCGGACTCAACTCAACGAGCTCGGATG
39496812 CTCAACCATC
Statistics
Matches: 99, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
46 64 0.65
47 35 0.35
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCATCCACAAC
Found at i:39496750 original size:93 final size:93
Alignment explanation
Indices: 39496642--39496812 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
39496632 GCCCATAAGT
*** *
39496642 GAACTCGAACTCAACTCAACGAGCTCGGGTGTTCGCATCCACAAGTGAACTCAGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCACAACTGAACTCAGACTCAACTCAA
39496707 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
39496735 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAACTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCACAACTGAACTCAGACTCAACTCAA
*
39496800 CGAGTTCGGATGC
66 CGAGCTCGGATGC
39496813 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCACAACTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:39500554 original size:39 final size:40
Alignment explanation
Indices: 39500449--39500656 Score: 217
Period size: 40 Copynumber: 5.2 Consensus size: 40
39500439 TATTCGAATG
* ** * *
39500449 ATATCCGGGCTAAGTCCCGAAGGCTTTTGCCCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
* *
39500490 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
*
39500530 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
39500569 AAATCCGGGTTAAGTCCAGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
39500609 ATAACCAGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
39500649 ATATCCGG
1 ATATCCGG
39500657 TTAAATTCCG
Statistics
Matches: 139, Mismatches: 22, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
39 36 0.26
40 77 0.55
41 25 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:39500591 original size:79 final size:79
Alignment explanation
Indices: 39500500--39500670 Score: 199
Period size: 79 Copynumber: 2.2 Consensus size: 79
39500490 ATATCCGGAC
* * * *
39500500 TAAGATCCGAAGGCATTTGTGTGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGA
1 TAAGATCCGAAGGCATTTGTGCGAGTTACTATA-ACCAGGCTAAGTCCCGAAGGCATTGGAGCGA
39500563 GTTA-CTAAATCCGGGT
65 G-TAGCTAAATCC-GGT
* *
39500579 TAAG-TCCAGAAGGCATTTGTGCGAGTTACTATAACCAGGCTATGTCCCGAAGGCATTTGAGCGA
1 TAAGATCC-GAAGGCATTTGTGCGAGTTACTATAACCAGGCTAAGTCCCGAAGGCATTGGAGCGA
*
39500643 GTAGCTATATCCGGT
65 GTAGCTAAATCCGGT
39500658 TAA-ATTCCGAAGG
1 TAAGA-TCCGAAGG
39500671 TATGTGATTC
Statistics
Matches: 79, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
78 3 0.04
79 47 0.59
80 29 0.37
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (79 bp):
TAAGATCCGAAGGCATTTGTGCGAGTTACTATAACCAGGCTAAGTCCCGAAGGCATTGGAGCGAG
TAGCTAAATCCGGT
Found at i:39505629 original size:59 final size:60
Alignment explanation
Indices: 39505533--39505665 Score: 205
Period size: 59 Copynumber: 2.2 Consensus size: 60
39505523 GACAAGATTG
* * *
39505533 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
* * *
39505593 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
39505652 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39505666 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 52 0.78
60 15 0.22
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (60 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
Found at i:39505678 original size:29 final size:29
Alignment explanation
Indices: 39505563--39505665 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
39505553 AAAATTGTAC
*
39505563 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
39505592 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
39505622 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
39505651 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
39505666 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:39513164 original size:59 final size:60
Alignment explanation
Indices: 39513068--39513200 Score: 205
Period size: 59 Copynumber: 2.2 Consensus size: 60
39513058 GACAAGATTG
* * *
39513068 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
* * *
39513128 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
39513187 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39513201 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 52 0.78
60 15 0.22
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (60 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
Found at i:39513213 original size:29 final size:29
Alignment explanation
Indices: 39513098--39513200 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
39513088 AAAATTGTAC
*
39513098 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
39513127 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
39513157 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
39513186 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
39513201 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:39520667 original size:29 final size:29
Alignment explanation
Indices: 39520625--39520726 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
39520615 AAAATTGTAC
*
39520625 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
*
39520654 AGCACTAAGTGTGCGAGCTGAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
39520683 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
39520712 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
39520727 GATTCACTAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.25
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:39525962 original size:46 final size:46
Alignment explanation
Indices: 39525912--39526087 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
39525902 TGGTTGAGCA
39525912 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
39525958 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
39526003 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
39526051 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39526088 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:39526068 original size:93 final size:93
Alignment explanation
Indices: 39525909--39526080 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
39525899 GGATGGTTGA
* *
39525909 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39525974 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
39526002 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39526067 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
39526081 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:39541806 original size:46 final size:46
Alignment explanation
Indices: 39541756--39541931 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
39541746 TGGTTGAGCA
39541756 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
39541802 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
39541847 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
39541895 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39541932 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:39541912 original size:93 final size:93
Alignment explanation
Indices: 39541753--39541924 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
39541743 GGATGGTTGA
* *
39541753 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39541818 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
39541846 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39541911 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
39541925 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:39549302 original size:46 final size:46
Alignment explanation
Indices: 39549252--39549427 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
39549242 TGGTTGAGCA
39549252 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
39549298 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
39549343 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
39549391 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39549428 CGGGTTACAT
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:39549408 original size:93 final size:93
Alignment explanation
Indices: 39549249--39549420 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
39549239 GGATGGTTGA
* *
39549249 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39549314 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
39549342 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
39549407 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
39549421 CTTATGGCGG
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:39552242 original size:20 final size:21
Alignment explanation
Indices: 39552217--39552263 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
39552207 GCATAAGAGA
39552217 GCCAAAGGAAC-GAG-AAACGG
1 GCCAAA-GAACGGAGAAAACGG
*
39552237 GCCAAA-AACGGAGAAAATGG
1 GCCAAAGAACGGAGAAAACGG
39552257 GCCAAAG
1 GCCAAAG
39552264 TACGAAATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 3 0.13
19 3 0.13
20 17 0.74
ACGTcount: A:0.47, C:0.19, G:0.32, T:0.02
Consensus pattern (21 bp):
GCCAAAGAACGGAGAAAACGG
Found at i:39559300 original size:34 final size:33
Alignment explanation
Indices: 39559258--39559322 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
39559248 GTGTTTGCAT
39559258 ACTGTACTGAAATGGGCT-AAGGCCCAAACTGCC
1 ACTGTACTGAAATGGGCTCAA-GCCCAAACTGCC
* *
39559291 ACTGATACTGTAATGGGCTCAAGCCCAGACTG
1 ACTG-TACTGAAATGGGCTCAAGCCCAAACTG
39559323 TTACTGCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 4 0.14
34 22 0.79
35 2 0.07
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (33 bp):
ACTGTACTGAAATGGGCTCAAGCCCAAACTGCC
Found at i:39563517 original size:2 final size:2
Alignment explanation
Indices: 39563504--39563536 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
39563494 GGAATGATAA
*
39563504 AT AT AT AC 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 A
39563537 CATGTATGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:39563716 original size:28 final size:28
Alignment explanation
Indices: 39563651--39563749 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
39563641 CATGAGATTG
* * *
39563651 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
39563680 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
39563708 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
39563736 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39563750 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:39565635 original size:62 final size:62
Alignment explanation
Indices: 39565524--39565641 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 62
39565514 CTGTAAGCTC
* * **
39565524 GCACACTCAGTGCCAATTCCTTGTAACGTATCGCACACTTAGTTTCGTTACATTAACGTCTT
1 GCACACTCAGTGCCAAGTCCTTGTAACGTATCACACACTTAGTGCCGTTACATTAACGTCTT
* * * *
39565586 GCACACTTAGTGCCACAGT-CTTGTGATGTATCACACACTTAGTGCCGTTACCTTAA
1 GCACACTCAGTGCCA-AGTCCTTGTAACGTATCACACACTTAGTGCCGTTACATTAA
39565642 TAGGTTTATT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
62 45 0.96
63 2 0.04
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (62 bp):
GCACACTCAGTGCCAAGTCCTTGTAACGTATCACACACTTAGTGCCGTTACATTAACGTCTT
Found at i:39569809 original size:48 final size:49
Alignment explanation
Indices: 39569706--39569817 Score: 163
Period size: 48 Copynumber: 2.3 Consensus size: 49
39569696 CAATAATGTT
* * * *
39569706 GACAAGCCACCAGATAATGCAGTCAAGTTGCTAGATACAGAATATTGTG
1 GACAAGCCACCAGATAATGCAATCAAGATGCCAGATACAGAATATTATG
39569755 GACAAGCCACCAGATAATGCAATCAA-ATGCCAGATACAGAATATTATG
1 GACAAGCCACCAGATAATGCAATCAAGATGCCAGATACAGAATATTATG
* *
39569803 GTCAAGCCACTAGAT
1 GACAAGCCACCAGAT
39569818 TTGTAGATAT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 32 0.56
49 25 0.44
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.21
Consensus pattern (49 bp):
GACAAGCCACCAGATAATGCAATCAAGATGCCAGATACAGAATATTATG
Found at i:39570075 original size:34 final size:34
Alignment explanation
Indices: 39569996--39570088 Score: 123
Period size: 35 Copynumber: 2.7 Consensus size: 34
39569986 ATTGAACACA
* * *
39569996 ATGGCATGTTTTACATGTGAATTAGAATCAGTAT
1 ATGGCATGCTTAACATGTGAATCAGAATCAGTAT
* *
39570030 AGTGGCATGCTTAACATGCGAATCAGAATTAGTAT
1 A-TGGCATGCTTAACATGTGAATCAGAATCAGTAT
*
39570065 ATGGCATGCTTAACAAGTGAATCA
1 ATGGCATGCTTAACATGTGAATCA
39570089 TAATATCAAC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
34 22 0.43
35 29 0.57
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (34 bp):
ATGGCATGCTTAACATGTGAATCAGAATCAGTAT
Found at i:39572974 original size:55 final size:54
Alignment explanation
Indices: 39572890--39573140 Score: 218
Period size: 55 Copynumber: 4.8 Consensus size: 54
39572880 AGGGTTTAAA
* *
39572890 GATACCATGTAAGACCATGCCAAGGCATGGAAATTAGTAAGTTTTCTAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAG-TTTCTAAGGCAAG
* * * *
39572945 GATACCATGTAAGACCATGTCAAGACATGG-AATTGATGAGTTACTATAAGGCAAAG
1 GATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAGTT--TCTAAGGC-AAG
* * * *
39573001 G-TCCCATGTAAGACCATGCCAAGGCAT-GACATTGGTGAG-TTCATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAGTTTC-TAAGGCAAG
* * **
39573053 GATACCATGTAA-ACCATGTCGAGACATGTCAA-TGGTAAGTTTC-AA---AAG
1 GATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAGTTTCTAAGGCAAG
* * * *
39573101 GATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 GATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAG
39573141 GTACCTGTGT
Statistics
Matches: 162, Mismatches: 25, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
48 14 0.09
49 23 0.14
51 2 0.01
52 23 0.14
53 21 0.13
54 9 0.06
55 66 0.41
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
GATACCATGTAAGACCATGCCAAGACATGGAAATTGGTAAGTTTCTAAGGCAAG
Found at i:39578433 original size:16 final size:17
Alignment explanation
Indices: 39578411--39578452 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
39578401 TCAATTATTC
39578411 TTTTTATTTCTATTGCA
1 TTTTTATTTCTATTGCA
*
39578428 -TTTTATTTCTATTGTA
1 TTTTTATTTCTATTGCA
39578444 TTTTTATTT
1 TTTTTATTT
39578453 TTTCTTTGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.17, C:0.07, G:0.05, T:0.71
Consensus pattern (17 bp):
TTTTTATTTCTATTGCA
Found at i:39578754 original size:15 final size:15
Alignment explanation
Indices: 39578734--39578765 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
39578724 CTTAATTCCA
*
39578734 TTAGTTTTATTTAAC
1 TTAGTTATATTTAAC
39578749 TTAGTTATATTTAAC
1 TTAGTTATATTTAAC
39578764 TT
1 TT
39578766 CTACAGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.59
Consensus pattern (15 bp):
TTAGTTATATTTAAC
Found at i:39582175 original size:29 final size:29
Alignment explanation
Indices: 39582142--39582302 Score: 198
Period size: 29 Copynumber: 5.6 Consensus size: 29
39582132 GTGACGAGAT
39582142 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
39582171 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
39582200 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
39582229 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
39582258 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
39582287 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
39582303 AAATCGAGTA
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 115 0.98
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:39585226 original size:40 final size:38
Alignment explanation
Indices: 39585117--39585226 Score: 105
Period size: 39 Copynumber: 2.8 Consensus size: 38
39585107 AAAATTTATG
* ** *
39585117 TGGTATTATATCCGGGTTAAATCCCGTAGGCTTAATGC
1 TGGTATGATATCCGGGTTAAATCCCACAGGCCTAATGC
* * * *
39585155 TGGTATTATATCCGGACTTATAGT-CCACAGGCCTAGTGC
1 TGGTATGATATCCGG-GTTA-AATCCCACAGGCCTAATGC
39585194 TGGTAATAGATATCCGGGTTAAATCCCACAGGC
1 TGGT-AT-GATATCCGGGTTAAATCCCACAGGC
39585227 TTTGTGCTAG
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
38 15 0.26
39 20 0.34
40 15 0.26
41 8 0.14
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (38 bp):
TGGTATGATATCCGGGTTAAATCCCACAGGCCTAATGC
Found at i:39585234 original size:40 final size:38
Alignment explanation
Indices: 39585117--39585234 Score: 112
Period size: 40 Copynumber: 3.0 Consensus size: 38
39585107 AAAATTTATG
* ** *
39585117 TGGTATTATATCCGGGTTAAATCCCGTAGGCTTAATGC
1 TGGTATGATATCCGGGTTAAATCCCACAGGCTTAGTGC
* * * *
39585155 TGGTATTATATCCGGACTTATAGT-CCACAGGCCTAGTGC
1 TGGTATGATATCCGG-GTTA-AATCCCACAGGCTTAGTGC
*
39585194 TGGTAATAGATATCCGGGTTAAATCCCACAGGCTTTGTGC
1 TGGT-AT-GATATCCGGGTTAAATCCCACAGGCTTAGTGC
39585234 T
1 T
39585235 AGAAATTGGA
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
38 15 0.23
39 20 0.31
40 21 0.33
41 8 0.12
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (38 bp):
TGGTATGATATCCGGGTTAAATCCCACAGGCTTAGTGC
Found at i:39595151 original size:24 final size:25
Alignment explanation
Indices: 39595117--39595166 Score: 93
Period size: 24 Copynumber: 2.0 Consensus size: 25
39595107 ATAAAACTTG
39595117 TATATTTCACAACAAACATTCATAA
1 TATATTTCACAACAAACATTCATAA
39595142 TATA-TTCACAACAAACATTCATAA
1 TATATTTCACAACAAACATTCATAA
39595166 T
1 T
39595167 CTATCATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (25 bp):
TATATTTCACAACAAACATTCATAA
Found at i:39596985 original size:145 final size:145
Alignment explanation
Indices: 39596722--39596991 Score: 416
Period size: 145 Copynumber: 1.9 Consensus size: 145
39596712 GGTATAGGGA
* * * * *
39596722 ATTTCACCAATACAATTAGATAGAATGCCATCAATGCATCGCCTGGTTATACTCAACCTATGTCG
1 ATTTCACCAATACAATAAGACAAAATGCCATCAATGCACCGCCTGGTTATACTCAACCTATGTCA
* * * * *
39596787 AGGGAAAATGTCCAGCAAGGTTAGGCATCGATTTTATCATCATCATCTATTGAAGCTTTGTTCCA
66 AGGCAAAATGTCCAGCAAGGTCAGGCATCAATTTCATAATCATCATCTATTGAAGCTTTGTTCCA
39596852 GGAATGGTGTGGGGG
131 GGAATGGTGTGGGGG
*
39596867 ATTTCACCAATACAATAAGACAAAATGCCATCAATGCACCGCCTGGTTATACTCAACCTATGTTA
1 ATTTCACCAATACAATAAGACAAAATGCCATCAATGCACCGCCTGGTTATACTCAACCTATGTCA
*
39596932 AGGCAAAATGTTCAGCAAGGTCAGGCAAT-AATTTCATAATCATCATCTATTGAAGCTTTG
66 AGGCAAAATGTCCAGCAAGGTCAGGC-ATCAATTTCATAATCATCATCTATTGAAGCTTTG
39596992 CTAAAGGAAT
Statistics
Matches: 112, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
145 110 0.98
146 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (145 bp):
ATTTCACCAATACAATAAGACAAAATGCCATCAATGCACCGCCTGGTTATACTCAACCTATGTCA
AGGCAAAATGTCCAGCAAGGTCAGGCATCAATTTCATAATCATCATCTATTGAAGCTTTGTTCCA
GGAATGGTGTGGGGG
Found at i:39600449 original size:34 final size:34
Alignment explanation
Indices: 39600411--39600478 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
39600401 GTTTTTCAAT
39600411 TGATGAAAATGTGTGTTTTGATGTTTGATGATAG
1 TGATGAAAATGTGTGTTTTGATGTTTGATGATAG
*
39600445 TGATGAAAATGTGTTTTTTGATGTTTGATGATAG
1 TGATGAAAATGTGTGTTTTGATGTTTGATGATAG
39600479 AAAATGTACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (34 bp):
TGATGAAAATGTGTGTTTTGATGTTTGATGATAG
Found at i:39604380 original size:47 final size:47
Alignment explanation
Indices: 39604327--39604435 Score: 191
Period size: 47 Copynumber: 2.3 Consensus size: 47
39604317 ACACATTTTC
39604327 TTTGGCAGCTTGTTTACGATTCTAGTGGCTTGACCATAATTATTCGT
1 TTTGGCAGCTTGTTTACGATTCTAGTGGCTTGACCATAATTATTCGT
* *
39604374 TTTGGCAGCTTGTCTACGATTCTAGTGGCTTGACCATAATTATTTGT
1 TTTGGCAGCTTGTTTACGATTCTAGTGGCTTGACCATAATTATTCGT
*
39604421 CTTGGCAGCTTGTTT
1 TTTGGCAGCTTGTTT
39604436 GCATTTTTGG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 58 1.00
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.43
Consensus pattern (47 bp):
TTTGGCAGCTTGTTTACGATTCTAGTGGCTTGACCATAATTATTCGT
Found at i:39608961 original size:27 final size:26
Alignment explanation
Indices: 39608892--39609003 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
39608882 GGAAGCGTTT
* *
39608892 TGGTGGCTATGCCACAAACATCTGTTTC
1 TGGTGGCTCTGCCAC-AATATCTG-TTC
* *
39608920 TGGTGGCTAC-ACCACAAATATCTATTC
1 TGGTGGCT-CTGCCAC-AATATCTGTTC
39608947 TGGTGGCTCTGCCACAATATCTGTATC
1 TGGTGGCTCTGCCACAATATCTGT-TC
* *
39608974 TGGTGACTCTGTCACAATATCTGTTC
1 TGGTGGCTCTGCCACAATATCTGTTC
39609000 TGGT
1 TGGT
39609004 AGCCATGCTG
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 15 0.21
27 39 0.53
28 19 0.26
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (26 bp):
TGGTGGCTCTGCCACAATATCTGTTC
Found at i:39617093 original size:28 final size:27
Alignment explanation
Indices: 39617046--39617127 Score: 105
Period size: 28 Copynumber: 3.0 Consensus size: 27
39617036 GGAGGAAGCG
*
39617046 TTCTGGTGGCTATGCCACAAACATCTGT
1 TTCTGGTGGCTACGCCACAAA-ATCTGT
*
39617074 TTCTGGTGGCTACGCTACAAATATCTG-
1 TTCTGGTGGCTACGCCACAAA-ATCTGT
39617101 TTCTGGTGGCT-CTGCCACAAAATCTGT
1 TTCTGGTGGCTAC-GCCACAAAATCTGT
39617128 ATCGAGTGAC
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 6 0.12
27 18 0.38
28 24 0.50
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (27 bp):
TTCTGGTGGCTACGCCACAAAATCTGT
Found at i:39617120 original size:27 final size:27
Alignment explanation
Indices: 39617045--39617157 Score: 117
Period size: 27 Copynumber: 4.2 Consensus size: 27
39617035 TGGAGGAAGC
* *
39617045 GTTCTGGTGGCTATGCCACAAACATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
*
39617072 GTTTCTGGTGGCTAC-GCTACAAATATCT
1 G-TTCTGGTGGCT-CTGCCACAAATATCT
39617100 GTTCTGGTGGCTCTGCCACAAA-ATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* *
39617126 GTATC-GAGTGACTCTGTCAC-AATATCT
1 GT-TCTG-GTGGCTCTGCCACAAATATCT
39617153 GTTCT
1 GTTCT
39617158 CGCAACCATG
Statistics
Matches: 73, Mismatches: 6, Indels: 14
0.78 0.06 0.15
Matches are distributed among these distances:
26 12 0.16
27 38 0.52
28 23 0.32
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACAAATATCT
Found at i:39620006 original size:40 final size:40
Alignment explanation
Indices: 39619947--39620127 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
39619937 AACCCAAGTA
* *
39619947 CCTTC-GGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
39619985 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
39620025 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
39620065 CCTTAGGGACTTAGCCTGGAAATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
39620105 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
39620128 CATTCGAATA
Statistics
Matches: 130, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
38 5 0.04
39 6 0.05
40 118 0.91
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:39627870 original size:40 final size:40
Alignment explanation
Indices: 39627796--39627937 Score: 234
Period size: 40 Copynumber: 3.6 Consensus size: 40
39627786 AACCCAAGTA
* *
39627796 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
39627835 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
39627875 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
39627915 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
39627938 CATTCGAATA
Statistics
Matches: 97, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
39 12 0.12
40 84 0.87
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:39633810 original size:28 final size:28
Alignment explanation
Indices: 39633745--39633845 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
39633735 ATAGTGGATC
*
39633745 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
39633774 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
39633802 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
39633832 CGCACACTTAGTGC
1 CGCACACTTAGTGC
39633846 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:39638908 original size:12 final size:12
Alignment explanation
Indices: 39638891--39638918 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
39638881 TAAGTTGTTG
39638891 GATACTGATATT
1 GATACTGATATT
39638903 GATACTGATATT
1 GATACTGATATT
39638915 GATA
1 GATA
39638919 TTGAAAGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (12 bp):
GATACTGATATT
Found at i:39642375 original size:47 final size:47
Alignment explanation
Indices: 39642321--39642600 Score: 443
Period size: 47 Copynumber: 6.0 Consensus size: 47
39642311 TTAGGATTTT
** *
39642321 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
39642368 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
39642415 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
39642462 ATGTGATGAACGTGAACATGCATATACGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
39642509 ATGTGATGAACGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
39642556 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
39642601 TAGTGTGAAA
Statistics
Matches: 216, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 216 1.00
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:39642564 original size:25 final size:25
Alignment explanation
Indices: 39642489--39642564 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
39642479 ATGCATATAC
39642489 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
39642514 ATGA-ACGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
39642536 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
39642561 GTGA
1 GTGA
39642565 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.22
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:39642908 original size:37 final size:37
Alignment explanation
Indices: 39642763--39642907 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
39642753 GGAAATATAC
*
39642763 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
39642800 TCCGGGTAAGACCCGATGACTATGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
39642837 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
39642874 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
39642908 TCGTCTGAGC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:39649041 original size:21 final size:22
Alignment explanation
Indices: 39649002--39649042 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
39648992 GTTGAAATGT
39649002 CACACGGACGTGTTGCCCCTCC
1 CACACGGACGTGTTGCCCCTCC
*
39649024 CACACGGGCGTG-TGCCCCT
1 CACACGGACGTGTTGCCCCT
39649043 GTGTTAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.44, G:0.27, T:0.17
Consensus pattern (22 bp):
CACACGGACGTGTTGCCCCTCC
Found at i:39653743 original size:49 final size:47
Alignment explanation
Indices: 39653522--39653934 Score: 664
Period size: 47 Copynumber: 8.7 Consensus size: 47
39653512 CTCTTCGGGA
* * * * * **
39653522 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCTGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39653569 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39653616 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39653663 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39653710 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39653759 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39653808 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39653857 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39653904 CTTATCTCATATATACACATTCACATTCATC
1 CTTATCACATATATACACTTTCACATTCATC
39653935 GCATAAAATC
Statistics
Matches: 349, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 204 0.58
49 145 0.42
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39675207 original size:39 final size:40
Alignment explanation
Indices: 39675099--39675288 Score: 194
Period size: 40 Copynumber: 4.8 Consensus size: 40
39675089 TTTAATGATG
* * *
39675099 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
39675139 TCCGGACTAAGAT-CCGAAGGCGTTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
39675179 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
39675218 CCCGGGTTAAGTCCC-AA-GCATTCGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
** *
39675257 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
39675289 CGTTATATCC
Statistics
Matches: 125, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
38 29 0.23
39 39 0.31
40 50 0.40
41 7 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39675304 original size:77 final size:77
Alignment explanation
Indices: 39675099--39675289 Score: 188
Period size: 78 Copynumber: 2.4 Consensus size: 77
39675089 TTTAATGATG
* * * * * ** * *
39675099 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCGTT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-GAGTCACTAAACCCGGGTTAAG-TCCCAA-GCATT
39675163 CGTGCGAGTTAATAAA
62 CGTGCGAGTTAATAAA
* *
39675179 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTCCCAAGCATTCGTG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCGAGTCACTAAACCCGGGTTAAGTCCCAAGCATTCGTG
*
39675244 CGAGTTACTATAA
66 CGAGTTAATA-AA
**
39675257 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGTC
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCGAGTC
39675290 GTTATATCCG
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
77 25 0.26
78 27 0.28
79 25 0.26
80 18 0.19
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (77 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCGAGTCACTAAACCCGGGTTAAGTCCCAAGCATTCGTG
CGAGTTAATAAA
Found at i:39682572 original size:79 final size:82
Alignment explanation
Indices: 39682432--39682616 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
39682422 TCGAATGATG
* * *
39682432 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
39682496 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
39682512 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
39682574 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
39682592 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39682617 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:39682624 original size:40 final size:40
Alignment explanation
Indices: 39682433--39682624 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
39682423 CGAATGATGT
* * * * *
39682433 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
39682473 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
39682513 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
39682552 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
39682592 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
39682625 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:39682647 original size:79 final size:79
Alignment explanation
Indices: 39682432--39682649 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
39682422 TCGAATGATG
* * * * ** *
39682432 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
39682495 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
39682512 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
39682577 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
39682592 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
39682650 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:39686448 original size:40 final size:39
Alignment explanation
Indices: 39686365--39686556 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
39686355 TTGAATGATG
* * * * *
39686365 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGC-GAGTTAATAAA
* *
39686405 TCCGGACTAAGATCCGAAGGCGTTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTAATAAA
* * *
39686445 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
* * *
39686484 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGTTAATA-AA
** * *
39686525 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGT
39686557 CGTTATATCC
Statistics
Matches: 128, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 33 0.26
40 86 0.67
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
Found at i:39686510 original size:79 final size:81
Alignment explanation
Indices: 39686365--39686556 Score: 232
Period size: 79 Copynumber: 2.4 Consensus size: 81
39686355 TTGAATGATG
* * * *
39686365 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCGTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
39686429 CGTGCGAGTTAATA-AA
65 CGTGCGAGTTAATATAA
* **
39686445 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
*
39686508 CGTGCGAGTTACTATAA
65 CGTGCGAGTTAATATAA
** *
39686525 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
39686557 CGTTATATCC
Statistics
Matches: 97, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.58
80 40 0.41
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATATAA
Found at i:39686571 original size:79 final size:77
Alignment explanation
Indices: 39686365--39686582 Score: 206
Period size: 79 Copynumber: 2.7 Consensus size: 77
39686355 TTGAATGATG
* * * * *
39686365 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCGTT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-GAGTCACTATATCCGG-TTAAG-TCCGAAGGCATT
39686429 CGTGCGAGTTAATAAA
62 CGTGCGAGTTAATAAA
* * * *
39686445 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCGAGTCACTATATCC-GGTTAAGT-CCGAAGGCATTCG
*
39686510 TGCGAGTTACTATAA
64 TGCGAGTTAATA-AA
** ** *
39686525 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGTCGTTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCGAGTCACTATATCCGGTT-AAGTCCGAAGG
39686583 TACGTGATTC
Statistics
Matches: 116, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
78 1 0.01
79 65 0.56
80 50 0.43
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (77 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCGAGTCACTATATCCGGTTAAGTCCGAAGGCATTCGTG
CGAGTTAATAAA
Found at i:39688858 original size:21 final size:21
Alignment explanation
Indices: 39688810--39688851 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
39688800 TAAGATTTGA
*
39688810 TAAG-GATCATGTGATAAGCT
1 TAAGTGATCATGTGATAAGAT
*
39688830 TAATTGATCATGTGATAAGAT
1 TAAGTGATCATGTGATAAGAT
39688851 T
1 T
39688852 TGGTGATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (21 bp):
TAAGTGATCATGTGATAAGAT
Found at i:39699138 original size:38 final size:38
Alignment explanation
Indices: 39699096--39699253 Score: 176
Period size: 38 Copynumber: 4.1 Consensus size: 38
39699086 TTTAAACTCA
* *
39699096 GATATAATACCATCACTAGGCCTGCGGGATTTAACCCG
1 GATATAATACCAGCACTAAGCCTGCGGGATTTAACCCG
*
39699134 GATATAATACCAGCA-TGAAGCCTGCGGGATTTAACCCA
1 GATATAATACCAGCACT-AAGCCTGCGGGATTTAACCCG
* * * *
39699172 GATATATTACCAGCACGAAGCCTGCAGGATTTAACCTG
1 GATATAATACCAGCACTAAGCCTGCGGGATTTAACCCG
* * *
39699210 GATATAATTCCAGCA-TATAGCCTGTGGGTCTTTAAGCCCG
1 GATATAATACCAGCACTA-AGCCTGCGGG-ATTTAA-CCCG
39699250 GATA
1 GATA
39699254 CACATCAAAT
Statistics
Matches: 100, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
37 2 0.02
38 86 0.86
39 5 0.05
40 7 0.07
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (38 bp):
GATATAATACCAGCACTAAGCCTGCGGGATTTAACCCG
Found at i:39705303 original size:46 final size:45
Alignment explanation
Indices: 39705248--39705418 Score: 146
Period size: 46 Copynumber: 3.7 Consensus size: 45
39705238 TTCATACCCA
39705248 ATGCATGTCCCAAACATGTCTTACACTGGCTTACTTCTCGAGGCCG
1 ATGCATGTCCCAAACATGTCTTACACTGGCTT-CTTCTCGAGGCCG
* * * * * * * *
39705294 ATGGATGTCCCAGACATGTTTTACACTAGCCCTCATCTCAATGCCG
1 ATGCATGTCCCAAACATGTCTTACACT-GGCTTCTTCTCGAGGCCG
* * * *
39705340 ATGCCATGTCCCAATCATGGTCTTACACTGAC-TCTTATACTGTGGCCG
1 ATG-CATGTCCCAAACAT-GTCTTACACTGGCTTCTTCT-C-GAGGCCG
* * *
39705388 ATTCATGTCCCAGACAAGTCTTACACTGGCT
1 ATGCATGTCCCAAACATGTCTTACACTGGCT
39705419 CACACATGAA
Statistics
Matches: 96, Mismatches: 23, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
46 53 0.55
47 28 0.29
48 15 0.16
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (45 bp):
ATGCATGTCCCAAACATGTCTTACACTGGCTTCTTCTCGAGGCCG
Found at i:39712764 original size:47 final size:47
Alignment explanation
Indices: 39712694--39712915 Score: 195
Period size: 47 Copynumber: 4.7 Consensus size: 47
39712684 GTAAGGTACT
*
39712694 GATGCCATGTCCCAGACACGGTCTTACACTGGCTCACATCTCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGTC
* * **
39712741 GATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATTTCATACCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-CATCTCA-AGTC
** * * * *
39712789 GA-GGTATGTCCCAGACAT-GTCTTACACTGGCTTACTTCTCGAGGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTC-AAGTC
* * * * *
39712835 AATG-GATGTCCCAGACAT-GTCTTACACTAGCCCTCATCTCAA-TACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGT--C
* *
39712881 GATGCCATGTCCTAGACATGGTCTTACATTGGCTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC
39712916 TCATAATGTG
Statistics
Matches: 138, Mismatches: 28, Indels: 17
0.75 0.15 0.09
Matches are distributed among these distances:
45 1 0.01
46 54 0.39
47 67 0.49
48 16 0.12
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGTC
Found at i:39712880 original size:93 final size:93
Alignment explanation
Indices: 39712694--39712915 Score: 236
Period size: 93 Copynumber: 2.4 Consensus size: 93
39712684 GTAAGGTACT
* * *
39712694 GATGCCATGTCCCAGACACGGTCTTACACTGGCTCACATCTCAAGTCGATGCCATGTCCCAGACA
1 GATGCCATGTCCCAGACA-TGTCTTACACTGGCTCACATCTCAAGACAATGCCATGTCCCAGACA
* *
39712759 TGGTCTTACACTGACTATCATTTCATACCC
65 TGGTCTTACACTGACCATCATCTCATA-CC
** * * * *
39712789 GA-GGTATGTCCCAGACATGTCTTACACTGGCTTACTTCTCGAGGACAATG-GATGTCCCAGACA
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTC-AAGACAATGCCATGTCCCAGACA
*
39712852 T-GTCTTACACT-AGCCCTCATCTCAATACC
65 TGGTCTTACACTGA-CCATCATCTC-ATACC
* *
39712881 GATGCCATGTCCTAGACATGGTCTTACATTGGCTC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTC
39712916 TCATAATGTG
Statistics
Matches: 105, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
91 1 0.01
92 21 0.20
93 49 0.47
94 32 0.30
95 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGACAATGCCATGTCCCAGACAT
GGTCTTACACTGACCATCATCTCATACC
Found at i:39712956 original size:140 final size:140
Alignment explanation
Indices: 39712700--39712963 Score: 336
Period size: 140 Copynumber: 1.9 Consensus size: 140
39712690 TACTGATGCC
* *
39712700 ATGTCCCAGACACGGTCTTACACTGGCTCACATCTCAAGTCGATGCCATGTCCCAGACATGGTCT
1 ATGTCCCAGACACGGTCTTACACTAGCCCACATCTCAAGTCGATGCCATGTCCCAGACATGGTCT
* * *
39712765 TACACTGACTATCATTTCATACCCGAGGTATGTCCCAGACATGTCTTACACTGGCTTACTTCTCG
66 TACACTGACTATCATATCATACCCGAGGCATGTCCCAGACATGTCTGACACTGGCTTACTTCTCG
39712830 AGGACAATGG
131 AGGACAATGG
* * *
39712840 ATGTCCCAGACA-TGTCTTACACTAGCCCTCATCTCAA-TACCGATGCCATGTCCTAGACATGGT
1 ATGTCCCAGACACGGTCTTACACTAGCCCACATCTCAAGT--CGATGCCATGTCCCAGACATGGT
* * * * ** * *
39712903 CTTACATTGGCTCTCATAAT-GTGGCCGATGCATGTCCCATACATGTCTGACACTGGCTTAC
64 CTTACACTGACTATCAT-ATCATACCCGAGGCATGTCCCAGACATGTCTGACACTGGCTTAC
39712964 ACACGAATGA
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
138 1 0.01
139 21 0.20
140 82 0.78
141 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (140 bp):
ATGTCCCAGACACGGTCTTACACTAGCCCACATCTCAAGTCGATGCCATGTCCCAGACATGGTCT
TACACTGACTATCATATCATACCCGAGGCATGTCCCAGACATGTCTGACACTGGCTTACTTCTCG
AGGACAATGG
Found at i:39716720 original size:67 final size:65
Alignment explanation
Indices: 39716594--39716833 Score: 204
Period size: 68 Copynumber: 3.6 Consensus size: 65
39716584 TCTCTTTTAC
* * * * *
39716594 ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGT-TTATCTCGTAGCTCTCTTGTC
1 ACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACA-TCATATCTCGTAGCTCTCTTGTC
39716656 T
65 T
* * * *
39716657 ACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTACAT-ATATCCCGTAGCTCTCTTG
1 ACATGGTG---TACACATAGAACCACCCATGCGACCTAGCTACATCATATCTCGTAGCTCTCTTG
39716721 TCT
63 TCT
* *
39716724 ACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTCGTAGCTCTCTTG
1 ACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATCAT-A--TCTCGTAGCTCTCTTG
39716789 TAC-
63 T-CT
* * * ** *
39716792 ACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACAT
1 ACATGGTGTACACAT-AGAACCACCCATGCGACCTAGCTACAT
39716834 ACCATCTGTA
Statistics
Matches: 145, Mismatches: 21, Indels: 17
0.79 0.11 0.09
Matches are distributed among these distances:
63 8 0.06
64 29 0.20
65 2 0.01
66 24 0.17
67 30 0.21
68 51 0.35
69 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.29
Consensus pattern (65 bp):
ACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATCATATCTCGTAGCTCTCTTGTCT
Found at i:39718104 original size:20 final size:20
Alignment explanation
Indices: 39718079--39718123 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
39718069 AGGGACTAAA
* *
39718079 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
39718099 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
39718119 ATGAA
1 ATGAA
39718124 TATATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:39719856 original size:42 final size:42
Alignment explanation
Indices: 39719797--39719919 Score: 212
Period size: 42 Copynumber: 2.9 Consensus size: 42
39719787 CAGAATTGAG
* *
39719797 CACACGGGC-AGAGACACGGGCGTGTGTCTTAGCCGTGTGTGC
1 CACACGGCCTAGA-ACACGGGCGTGTGTCTTGGCCGTGTGTGC
39719839 CACACGGCCTAGAACACGGGCGTGTGTCTTGGCCGTGTGTGC
1 CACACGGCCTAGAACACGGGCGTGTGTCTTGGCCGTGTGTGC
39719881 CACACGGCCTAGAACACGGGCGTGTGTCTTGGCCGTGTG
1 CACACGGCCTAGAACACGGGCGTGTGTCTTGGCCGTGTG
39719920 AAACATGCAC
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
42 75 0.96
43 3 0.04
ACGTcount: A:0.15, C:0.28, G:0.37, T:0.20
Consensus pattern (42 bp):
CACACGGCCTAGAACACGGGCGTGTGTCTTGGCCGTGTGTGC
Found at i:39721169 original size:92 final size:93
Alignment explanation
Indices: 39721059--39721239 Score: 310
Period size: 93 Copynumber: 2.0 Consensus size: 93
39721049 ACAAACTTGG
* *
39721059 ACCTAAACTTAGAAATTGTAAGTCAATTTGATATTTT-TTTAGATACCTGACTAACTATCGTTAA
1 ACCTAAACTTAGAAATTGTAAGCCAATTTGATATTTTCTTTAAATACCTGACTAACTATCGTTAA
*
39721123 ATTATTATTTTCATCCAATCATATCAAT
66 ATTATTAATTTCATCCAATCATATCAAT
* *
39721151 ACCTAAATTTAGAAATTGTAAGCCAATTTGATATTTTCTTTAAATACCTGACTAACTGTCGTTAA
1 ACCTAAACTTAGAAATTGTAAGCCAATTTGATATTTTCTTTAAATACCTGACTAACTATCGTTAA
39721216 ATTATTAATTTCATCCAATCATAT
66 ATTATTAATTTCATCCAATCATAT
39721240 TGACACCACA
Statistics
Matches: 83, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
92 35 0.42
93 48 0.58
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (93 bp):
ACCTAAACTTAGAAATTGTAAGCCAATTTGATATTTTCTTTAAATACCTGACTAACTATCGTTAA
ATTATTAATTTCATCCAATCATATCAAT
Found at i:39733355 original size:29 final size:29
Alignment explanation
Indices: 39733310--39733366 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
39733300 AGGGGAGAGA
* *
39733310 CTCGAGGCTGTTTAGCTGGTGTGGGTAAC
1 CTCGAGGCTGTTGAGCTGGTGCGGGTAAC
*
39733339 CTCGAGTCTGTTGAGCTGGTGCGGGTAA
1 CTCGAGGCTGTTGAGCTGGTGCGGGTAA
39733367 TTTAGATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.14, C:0.18, G:0.39, T:0.30
Consensus pattern (29 bp):
CTCGAGGCTGTTGAGCTGGTGCGGGTAAC
Found at i:39737028 original size:15 final size:16
Alignment explanation
Indices: 39736999--39737028 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39736989 CAAACATGAT
39736999 TTAACACATTATCAAA
1 TTAACACATTATCAAA
39737015 TTAACACA-TATCAA
1 TTAACACATTATCAA
39737029 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:39741942 original size:30 final size:29
Alignment explanation
Indices: 39741867--39741958 Score: 98
Period size: 29 Copynumber: 3.1 Consensus size: 29
39741857 GTGTGCTAAA
* * *
39741867 CGATGGTCATAACCGTCCCTTTTCATATT
1 CGATGGTCGTAACCATCCCTTTTCATAAT
*
39741896 CGATGGTTG-AAGCCATCCCTTTTCACTAAT
1 CGATGGTCGTAA-CCATCCCTTTTCA-TAAT
*
39741926 CGATGGTCGTCACCATCCCTTGTT-ATAAT
1 CGATGGTCGTAACCATCCCTT-TTCATAAT
39741955 CGAT
1 CGAT
39741959 AGCCAAAGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
28 2 0.04
29 27 0.51
30 21 0.40
31 3 0.06
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (29 bp):
CGATGGTCGTAACCATCCCTTTTCATAAT
Found at i:39742790 original size:9 final size:9
Alignment explanation
Indices: 39742778--39742860 Score: 139
Period size: 9 Copynumber: 8.9 Consensus size: 9
39742768 TTATTGTTAC
39742778 ATGTGTTTA
1 ATGTGTTTA
39742787 ATGTGTGTTTA
1 A--TGTGTTTA
39742798 ATGTGTTTA
1 ATGTGTTTA
39742807 ATGTGTTTA
1 ATGTGTTTA
39742816 ATGTGTTTA
1 ATGTGTTTA
39742825 ATGTGTTTA
1 ATGTGTTTA
39742834 ATGTGTTTA
1 ATGTGTTTA
39742843 ATGTGTTTTA
1 ATGTG-TTTA
39742853 ATGTGTTT
1 ATGTGTTT
39742861 GTTAAATGAA
Statistics
Matches: 71, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
9 53 0.75
10 9 0.13
11 9 0.13
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (9 bp):
ATGTGTTTA
Found at i:39749977 original size:16 final size:15
Alignment explanation
Indices: 39749953--39749982 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
39749943 AACTATTTTA
39749953 TTACAAATTTCACTC
1 TTACAAATTTCACTC
39749968 TTACATAATTTCACT
1 TTACA-AATTTCACT
39749983 TACTCCATTC
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:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:39750294 original size:50 final size:50
Alignment explanation
Indices: 39750189--39750450 Score: 228
Period size: 50 Copynumber: 5.2 Consensus size: 50
39750179 CTGGTACGTA
* * * * * *
39750189 TAGTATCCTGCACTCAGTACTACACACGCGACC-AACAATCTGGA-ACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCAT-TTGATACACG
* *
39750238 TAGTAGCCTGAACTTAGTATTACACACGTGACCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
* * * *
39750288 TAGTAGCCTGCACTTAGTACTACACACGTAATC-AA--AGTTGTCAAATACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCA-TT-T--GATACACG
* * * * *
39750339 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTGGTAAACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
* * * * *
39750389 TAGTAGCCTACACTTAGTACTACACATGTGACCTAAAACCATTTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATTTGATACACG
39750441 TAGTAGCCTG
1 TAGTAGCCTG
39750451 TACATAACAC
Statistics
Matches: 171, Mismatches: 31, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 34 0.20
50 75 0.44
51 36 0.21
52 21 0.12
53 1 0.01
54 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
Found at i:39750315 original size:99 final size:99
Alignment explanation
Indices: 39750189--39750414 Score: 249
Period size: 101 Copynumber: 2.3 Consensus size: 99
39750179 CTGGTACGTA
* * * * **
39750189 TAGTATCCTGCACTCAGTACTACACACGCGACCAACAATCTG-GA-ACATGTAGTAGCCTGAACT
1 TAGTAGCCTGCACTTAGTACTACACACGCAACCAA-AAT-TGAAATACACATAGTAGCCTGAACT
* * *
39750252 TAGTATTACACACGTGACCTAACCATTTGATACACG
64 TAGTACTACACACGTGACCTAACCATCTGATAAACG
* * * *
39750288 TAGTAGCCTGCACTTAGTACTACACACGTAATCAAAGTTGTCAAATACACATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCAACCAAAATTG--AAATACACATAGTAGCCTGAACT
* * *
39750353 TAGTACTACACATGTGACCTAACTATCTGGTAAACG
64 TAGTACTACACACGTGACCTAACCATCTGATAAACG
*
39750389 TAGTAGCCTACACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
39750415 TGTGACCTAA
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
97 2 0.02
98 2 0.02
99 30 0.28
100 1 0.01
101 71 0.67
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCAACCAAAATTGAAATACACATAGTAGCCTGAACTTA
GTACTACACACGTGACCTAACCATCTGATAAACG
Found at i:39751136 original size:30 final size:30
Alignment explanation
Indices: 39751095--39751151 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
39751085 AAAATCACAT
* **
39751095 TTTGGCAAAATTATGTTTTTGCCCCTAAAC
1 TTTGACAAAATTATACTTTTGCCCCTAAAC
39751125 TTTGACAAAATTATACTTTTGCCCCTA
1 TTTGACAAAATTATACTTTTGCCCCTA
39751152 GGCTCGTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (30 bp):
TTTGACAAAATTATACTTTTGCCCCTAAAC
Found at i:39754391 original size:42 final size:43
Alignment explanation
Indices: 39754289--39754446 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
39754279 AACATATACA
* * *
39754289 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCAGATATCG
*
39754332 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCAGATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAGATATCG
* * * *
39754374 ATGCCAATGTCCTAGACATGGTCTTACACGCAAAACAGAAATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACG-AAATCAGATATCG
* * *
39754418 ATGCCAACGTCTCAGA-TGTGGTCTTACAC
1 ATGCCAATGTCCCAGACAG-GGTCTTACAC
39754447 ACAGAACAGA
Statistics
Matches: 97, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
42 29 0.30
43 42 0.43
44 26 0.27
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAGATATCG
Found at i:39755700 original size:9 final size:9
Alignment explanation
Indices: 39755686--39755719 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
39755676 ACATTTAATG
39755686 TGTGTTTAA
1 TGTGTTTAA
39755695 TGTGTTTAA
1 TGTGTTTAA
*
39755704 TGTGTTCAA
1 TGTGTTTAA
39755713 TGTGTTT
1 TGTGTTT
39755720 GTTAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.18, C:0.03, G:0.24, T:0.56
Consensus pattern (9 bp):
TGTGTTTAA
Found at i:39759365 original size:62 final size:62
Alignment explanation
Indices: 39759268--39759388 Score: 242
Period size: 62 Copynumber: 2.0 Consensus size: 62
39759258 TTGGAACTTC
39759268 AAGGACTACTCAACATTTTTTGTCTTTTCCACAATTATTTTTTATTTGGTCCAATTCCCTTT
1 AAGGACTACTCAACATTTTTTGTCTTTTCCACAATTATTTTTTATTTGGTCCAATTCCCTTT
39759330 AAGGACTACTCAACATTTTTTGTCTTTTCCACAATTATTTTTTATTTGGTCCAATTCCC
1 AAGGACTACTCAACATTTTTTGTCTTTTCCACAATTATTTTTTATTTGGTCCAATTCCC
39759389 AATCTAAACT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.23, C:0.21, G:0.08, T:0.47
Consensus pattern (62 bp):
AAGGACTACTCAACATTTTTTGTCTTTTCCACAATTATTTTTTATTTGGTCCAATTCCCTTT
Found at i:39759906 original size:10 final size:10
Alignment explanation
Indices: 39759891--39759936 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
39759881 GTTTAACTTT
*
39759891 TAATTAATTA
1 TAATTAACTA
39759901 TAATTAACTA
1 TAATTAACTA
*
39759911 -AATTAACCTT
1 TAATTAA-CTA
39759921 TAATTAACTA
1 TAATTAACTA
39759931 -AATTAA
1 TAATTAA
39759937 ACATGATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 12 0.39
10 13 0.42
11 6 0.19
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (10 bp):
TAATTAACTA
Found at i:39776102 original size:40 final size:40
Alignment explanation
Indices: 39776047--39776296 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
39776037 AACATTGGAA
39776047 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
39776087 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
39776127 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
39776167 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
39776207 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
39776246 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
39776287 CTATATCCGG
1 ATATATCCGG
39776297 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:39784275 original size:40 final size:40
Alignment explanation
Indices: 39784220--39784429 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
39784210 AACATTGGAA
39784220 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
39784260 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
39784300 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
39784340 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
39784379 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
39784420 CTATATCCGG
1 ATATATCCGG
39784430 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:39787185 original size:8 final size:8
Alignment explanation
Indices: 39787172--39787210 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
39787162 CTAGATCGGC
*
39787172 AAAAGCTG
1 AAAAGCCG
39787180 AAAAGCCG
1 AAAAGCCG
39787188 AAAAGCCG
1 AAAAGCCG
* *
39787196 AAATGCCA
1 AAAAGCCG
39787204 AAAAGCC
1 AAAAGCC
39787211 AACATTTTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.51, C:0.23, G:0.21, T:0.05
Consensus pattern (8 bp):
AAAAGCCG
Found at i:39787719 original size:27 final size:27
Alignment explanation
Indices: 39787620--39787732 Score: 122
Period size: 27 Copynumber: 4.2 Consensus size: 27
39787610 GAGGGAGTGT
*
39787620 TCTGGTGGCTCTGTCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
* * * *
39787647 TATGGTGGCTCTGCCAAAAATATTTGTT
1 TCTGGTGGCTCTGCC-ACAATATCTGTA
39787675 TCTGGTGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* **
39787702 TCTGGTGACTCTATCACAATATCTGT-
1 TCTGGTGGCTCTGCCACAATATCTGTA
39787728 TCTGG
1 TCTGG
39787733 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
26 5 0.07
27 52 0.72
28 15 0.21
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:39792441 original size:40 final size:40
Alignment explanation
Indices: 39792382--39792523 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
39792372 AAATTGAATG
* * *
39792382 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
39792422 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
39792462 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
39792502 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
39792524 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:39792524 original size:40 final size:39
Alignment explanation
Indices: 39792421--39792549 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
39792411 TGCTGGAAAT
* * *
39792421 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
39792461 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
39792501 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
39792541 TATATCCGG
1 TATATCCGG
39792550 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:39800473 original size:40 final size:40
Alignment explanation
Indices: 39800407--39800573 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
39800397 AAATTGAATG
* * *
39800407 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
39800446 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
39800486 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
39800526 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
39800566 ATATCCGG
1 ATATCCGG
39800574 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:39803351 original size:40 final size:40
Alignment explanation
Indices: 39803292--39803460 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
39803282 CGGGACTTTA
* * *
39803292 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
39803332 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
39803372 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
39803412 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
39803452 CCCGGATAT
1 CCCGGATAT
39803461 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:39811366 original size:40 final size:40
Alignment explanation
Indices: 39811307--39811475 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
39811297 CGGGACTTTA
* * *
39811307 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
39811347 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
39811387 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
39811427 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
39811467 CCCGGATAT
1 CCCGGATAT
39811476 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:39821414 original size:44 final size:44
Alignment explanation
Indices: 39821364--39821452 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
39821354 GGTTTGAATG
39821364 TCCCATATTAGCATTTGAACGGCTTTGATCATCTCGGAATTTCT
1 TCCCATATTAGCATTTGAACGGCTTTGATCATCTCGGAATTTCT
39821408 TCCCATATTAGCATTTGAACGGCTTTGATCATCTCGGAATTTCT
1 TCCCATATTAGCATTTGAACGGCTTTGATCATCTCGGAATTTCT
39821452 T
1 T
39821453 TGGCCCAGAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (44 bp):
TCCCATATTAGCATTTGAACGGCTTTGATCATCTCGGAATTTCT
Found at i:39827929 original size:6 final size:6
Alignment explanation
Indices: 39827918--39827943 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
39827908 GTTGGAACCA
39827918 TTCCTT TTCCTT TTCCTT TTCCTT TT
1 TTCCTT TTCCTT TTCCTT TTCCTT TT
39827944 TATAGATGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
TTCCTT
Found at i:39830738 original size:26 final size:26
Alignment explanation
Indices: 39830709--39830761 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
39830699 TTTACAATTT
39830709 TACCCCTAGGAGATAAATT-ACCAAAA
1 TACCCCTAGG-GATAAATTGACCAAAA
* *
39830735 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCAAAA
39830761 T
1 T
39830762 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCAAAA
Found at i:39831148 original size:33 final size:34
Alignment explanation
Indices: 39831071--39831151 Score: 85
Period size: 33 Copynumber: 2.4 Consensus size: 34
39831061 TATGGGCCAT
* *
39831071 ACTGTTATCTAAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * **
39831105 AATGTAATCTGAA-AA-GGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-TC
39831138 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
39831152 GGGCTTAGGC
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
32 13 0.35
33 14 0.38
34 10 0.27
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:39843283 original size:13 final size:13
Alignment explanation
Indices: 39843267--39843291 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39843257 TTAAATCCGT
39843267 TAATTAGTTTAAA
1 TAATTAGTTTAAA
39843280 TAATTAGTTTAA
1 TAATTAGTTTAA
39843292 TGAACAAACC
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:39847924 original size:5 final size:5
Alignment explanation
Indices: 39847914--39848011 Score: 65
Period size: 6 Copynumber: 18.2 Consensus size: 5
39847904 TGAATCCTCC
*
39847914 TATTT TATTT TA-TT TATTCT TATTTT TATTT T-CTT TATTT TATTTT
1 TATTT TATTT TATTT TATT-T TA-TTT TATTT TATTT TATTT TA-TTT
* * *
39847960 TATTTT TATTTT TATTTT TGTTT TCATTT CAACTT TATTAT TATTT TATTT
1 TA-TTT TA-TTT TA-TTT TATTT T-ATTT -TATTT TATT-T TATTT TATTT
39848011 T
1 T
39848012 GAAAGACATA
Statistics
Matches: 77, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
4 7 0.09
5 29 0.38
6 39 0.51
7 2 0.03
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (5 bp):
TATTT
Found at i:39847942 original size:6 final size:6
Alignment explanation
Indices: 39847926--39847988 Score: 72
Period size: 6 Copynumber: 10.2 Consensus size: 6
39847916 TTTTATTTTA
* *
39847926 TTTATT CTTATT TTTATT TTCTTTAT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TT-TAT-T TTTATT TTTATT TTTATT TTTATT
* *
39847976 TTTGTT TTCATT T
1 TTTATT TTTATT T
39847989 CAACTTTATT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
6 41 0.85
7 4 0.08
8 3 0.06
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:39847942 original size:21 final size:20
Alignment explanation
Indices: 39847916--39848010 Score: 95
Period size: 20 Copynumber: 4.7 Consensus size: 20
39847906 AATCCTCCTA
39847916 TTTTATTTTATTTATTCTTAT
1 TTTTATTTTATTTATT-TTAT
*
39847937 TTTTATTTTCTTTATTTTAT
1 TTTTATTTTATTTATTTTAT
*
39847957 TTTTATTTT-TAT-TTTTAT
1 TTTTATTTTATTTATTTTAT
* *
39847975 TTTTGTTTTCATTTCAACTTTAT
1 TTTTATTTT-ATTT--ATTTTAT
*
39847998 TATTATTTTATTT
1 TTTTATTTTATTT
39848011 TGAAAGACAT
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
18 14 0.23
19 2 0.03
20 15 0.24
21 15 0.24
22 4 0.06
23 12 0.19
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (20 bp):
TTTTATTTTATTTATTTTAT
Found at i:39847955 original size:26 final size:25
Alignment explanation
Indices: 39847922--39847971 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
39847912 CCTATTTTAT
39847922 TTTATTTATTCTTATTTTTATTTTC
1 TTTATTTATTCTTATTTTTATTTTC
*
39847947 TTTATTTTATTTTTATTTTTATTTT
1 TTTA-TTTATTCTTATTTTTATTTT
39847972 TATTTTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (25 bp):
TTTATTTATTCTTATTTTTATTTTC
Found at i:39847960 original size:15 final size:15
Alignment explanation
Indices: 39847917--39847960 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
39847907 ATCCTCCTAT
39847917 TTTATTTTATTTATTC
1 TTTATTTTATTT-TTC
39847933 -TTATTTT-TATTTTC
1 TTTATTTTAT-TTTTC
39847947 TTTATTTTATTTTT
1 TTTATTTTATTTTT
39847961 ATTTTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 4 0.16
15 20 0.80
16 1 0.04
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTATTTTATTTTTC
Found at i:39854511 original size:13 final size:13
Alignment explanation
Indices: 39854495--39854519 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39854485 TTAAATATGT
39854495 TAATTAGTTTAAA
1 TAATTAGTTTAAA
39854508 TAATTAGTTTAA
1 TAATTAGTTTAA
39854520 TAAACAAACC
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:39860040 original size:25 final size:25
Alignment explanation
Indices: 39860010--39860057 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
39860000 TATAGCCTGA
* *
39860010 ATAAGCTTTCTGTTACATGGCTCAC
1 ATAAGCATCCTGTTACATGGCTCAC
*
39860035 ATAAGCATCCTGTTATATGGCTC
1 ATAAGCATCCTGTTACATGGCTC
39860058 GAGAGAGTGC
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:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (25 bp):
ATAAGCATCCTGTTACATGGCTCAC
Found at i:39865045 original size:39 final size:39
Alignment explanation
Indices: 39864998--39865180 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
39864988 AATGTTCGAG
39864998 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
39865037 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCTAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
39865076 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
39865115 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
39865155 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
39865181 GTTTGAACGA
Statistics
Matches: 125, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 87 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:39876309 original size:39 final size:39
Alignment explanation
Indices: 39876262--39876444 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
39876252 AATGTTCGAG
39876262 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
39876301 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
39876340 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
39876379 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
39876419 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
39876445 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:39878133 original size:24 final size:24
Alignment explanation
Indices: 39878085--39878133 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
39878075 TGTTAAAAGG
**
39878085 AAAGATGGATCATTGAGGTTGTGT
1 AAAGATGGATCATTGAGGTCATGT
39878109 AAAGATGGATCATTGAGGTCATGT
1 AAAGATGGATCATTGAGGTCATGT
39878133 A
1 A
39878134 TTGATTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.06, G:0.31, T:0.31
Consensus pattern (24 bp):
AAAGATGGATCATTGAGGTCATGT
Found at i:39888220 original size:73 final size:73
Alignment explanation
Indices: 39888063--39888235 Score: 186
Period size: 73 Copynumber: 2.4 Consensus size: 73
39888053 TAGAAACCGC
* **
39888063 CATCATAGTGTTGCTCTAGTGAGCCAGTCAATTATTGTCGACATGGTATTGCTCCATAGAGTCAA
1 CATCATAGTGTCGCTCTAGTGAGCCAGTCAATTACCGTCGACATGGTATTGCTCCATAGAGTCAA
*
39888128 TAGACTAT
66 TAGACCAT
* ** * ** * * **
39888136 CGTCACGGTGTCACTCTAGTGAGTTAGTCAATTACCGTC-ATCATGGTGTTGCTCTATAGAGTTG
1 CATCATAGTGTCGCTCTAGTGAGCCAGTCAATTACCGTCGA-CATGGTATTGCTCCATAGAGTCA
39888200 ATAGACCAT
65 ATAGACCAT
* *
39888209 TATCATAGTGTCGCTCTAGCGAGCCAG
1 CATCATAGTGTCGCTCTAGTGAGCCAG
39888236 CCCATTTTAG
Statistics
Matches: 77, Mismatches: 22, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
72 1 0.01
73 76 0.99
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (73 bp):
CATCATAGTGTCGCTCTAGTGAGCCAGTCAATTACCGTCGACATGGTATTGCTCCATAGAGTCAA
TAGACCAT
Found at i:39897464 original size:19 final size:18
Alignment explanation
Indices: 39897427--39897470 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
39897417 ATACATACAG
39897427 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
39897444 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
39897463 TACTAATT
1 TAATAATT
39897471 AAAAGTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:39909554 original size:21 final size:21
Alignment explanation
Indices: 39909505--39909556 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
39909495 TTAATTAAGT
* *
39909505 TCAAGTGATAAGACCCTCAAG
1 TCAAGTGGTTAGACCCTCAAG
**
39909526 TCAAGTGGTTAGACCCTCTGG
1 TCAAGTGGTTAGACCCTCAAG
39909547 TCAAGTGGTT
1 TCAAGTGGTT
39909557 TTAGAAAATA
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:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (21 bp):
TCAAGTGGTTAGACCCTCAAG
Found at i:39909901 original size:3 final size:3
Alignment explanation
Indices: 39909893--39909950 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
39909883 GGTTAAAAAT
39909893 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
39909941 ATA ATA ATA A
1 ATA ATA ATA A
39909951 AACATAAAGT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:39917011 original size:106 final size:106
Alignment explanation
Indices: 39916865--39917059 Score: 293
Period size: 106 Copynumber: 1.8 Consensus size: 106
39916855 TCACATGCCT
* * *
39916865 GTGTGCCAGGCCGTGTAATAGCTTGACTTGCAACCCTTTGAAAGCTACAGGGGACACATGGCCGT
1 GTGTGCCAGGCCGTGTAATAGCCTGACTTGCAACCCTTTGAAAGCTACAGGGGACACATAGACGT
*
39916930 GTCACCTGGCCATGTGTCACACACGGATGAGACACACACCC
66 GTCACCTAGCCATGTGTCACACACGGATGAGACACACACCC
* * * *
39916971 GTGTGCCAGGCTGTGTAACT-GCCTGATTTGCAACCCTTTGAAAGCTATAGGGGTCACATAGACG
1 GTGTGCCAGGCCGTGTAA-TAGCCTGACTTGCAACCCTTTGAAAGCTACAGGGGACACATAGACG
*
39917035 TGTCACCTAGCCGTGTGTCACACAC
65 TGTCACCTAGCCATGTGTCACACAC
39917060 ACCTGAGACA
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
106 78 0.99
107 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.23
Consensus pattern (106 bp):
GTGTGCCAGGCCGTGTAATAGCCTGACTTGCAACCCTTTGAAAGCTACAGGGGACACATAGACGT
GTCACCTAGCCATGTGTCACACACGGATGAGACACACACCC
Found at i:39918154 original size:25 final size:24
Alignment explanation
Indices: 39918126--39918220 Score: 84
Period size: 25 Copynumber: 3.8 Consensus size: 24
39918116 ATGCTCATAT
*
39918126 GAGCTATGAATCGGTATGCTCTCAC
1 GAGCTA-GAATCGGTAAGCTCTCAC
39918151 GAGCTAGAAATCGGTAAGCTCAT-AC
1 GAGCTAG-AATCGGTAAGCTC-TCAC
** *
39918176 GAGCTAAGAATTAGTAAGCTCTCAT
1 GAGCT-AGAATCGGTAAGCTCTCAC
* **
39918201 GAGCTAAAATTAGTAAGCTC
1 GAGCTAGAATCGGTAAGCTC
39918221 ATATGAGCTG
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
24 16 0.26
25 42 0.69
26 3 0.05
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (24 bp):
GAGCTAGAATCGGTAAGCTCTCAC
Done.