Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 73 of 235
Found at i:25028069 original size:21 final size:21
Alignment explanation
Indices: 25028045--25028086 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
25028035 TCATCAGATC
*
25028045 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
25028066 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
25028087 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:25030305 original size:30 final size:30
Alignment explanation
Indices: 25030271--25030330 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
25030261 ATTTAATACG
25030271 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
25030301 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
25030331 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:25076018 original size:30 final size:30
Alignment explanation
Indices: 25075982--25076049 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
25075972 AACATATTTT
*
25075982 TATTATT-GTATGATTATTAAATATTATAAG
1 TATTATTAGTATGATTATTAAAGA-TATAAG
* *
25076012 TATTATTATTATTATTATTAAAGATATAAG
1 TATTATTAGTATGATTATTAAAGATATAAG
25076042 TATTATTA
1 TATTATTA
25076050 TTCAACATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 21 0.62
31 13 0.38
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (30 bp):
TATTATTAGTATGATTATTAAAGATATAAG
Found at i:25086918 original size:39 final size:40
Alignment explanation
Indices: 25086823--25087045 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
25086813 TTGAATGATG
*
25086823 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
25086861 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
25086902 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
25086941 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
25086980 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
25087019 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
25087046 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:25087009 original size:79 final size:81
Alignment explanation
Indices: 25086823--25087045 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
25086813 TTGAATGATG
* * *
25086823 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
25086884 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
25086902 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
25086964 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
25086980 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
25087044 TG
66 TG
25087046 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:25087067 original size:79 final size:79
Alignment explanation
Indices: 25086823--25087078 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
25086813 TTGAATGATG
* * * *
25086823 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
25086884 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
25086902 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
25086966 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
25086980 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
25087044 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
25087060 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
25087079 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:25089097 original size:67 final size:67
Alignment explanation
Indices: 25088989--25089123 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
25088979 GAGGCTTGGT
25088989 TAGAATATCTATTGGCTGATCTTCAGTGCTACAATAAACCAAAGTCACTTACTCTATTCAACTTC
1 TAGAATATCTATTGGCTGATCTTCAGTGCTACAATAAACCAAAGTCACTTACTCTATTCAACTTC
25089054 TC
66 TC
25089056 TAGAATATCTATTGGCTGATCTTCAGTGCTACAATAAACCAAAGTCACTTACTCTATTCAACTTC
1 TAGAATATCTATTGGCTGATCTTCAGTGCTACAATAAACCAAAGTCACTTACTCTATTCAACTTC
25089121 TC
66 TC
25089123 T
1 T
25089124 CACAAACTGA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (67 bp):
TAGAATATCTATTGGCTGATCTTCAGTGCTACAATAAACCAAAGTCACTTACTCTATTCAACTTC
TC
Found at i:25093773 original size:109 final size:108
Alignment explanation
Indices: 25093652--25094019 Score: 470
Period size: 109 Copynumber: 3.4 Consensus size: 108
25093642 TTATACTTGG
* ** * * **
25093652 CTGCCATAGCATCTTTCATCTATGGTCTTACACTGTATACCTTATATTTTGTACCATGCTACCAT
1 CTGCCATAGCATCTTTCATCTATGGTCTTACGCCATATACCTTATATCTTGTACCATGTTGTCAT
*
25093717 GGCATCTTTCATACATGGTCTTACACTACATACCTCATACTAGA
66 GGCATCTTTCAT-CATGGTCTTACACTACATACCTCATACCAGA
* * *
25093761 TTGCCATAGCATCTTTCATCTATGATCTTACGCCATATACCTTATACCTTGT-CCGATGTTGTCA
1 CTGCCATAGCATCTTTCATCTATGGTCTTACGCCATATACCTTATATCTTGTACC-ATGTTGTCA
* **
25093825 TGGCATCTTTCATCAATGGTCTTACGCTACGCACCTCATACCAGA
65 TGGCATCTTTCATC-ATGGTCTTACACTACATACCTCATACCAGA
* * * *
25093870 CTGCCATAGCGTCTTTCATCTATGGTCTTATGCCATATGCCTTATATCTTGTATCATGTTGTCAT
1 CTGCCATAGCATCTTTCATCTATGGTCTTACGCCATATACCTTATATCTTGTACCATGTTGTCAT
* * *
25093935 AGCCTCTTTCATCCATGGTCTTACACTACATACAC-CATACCAAA
66 GGCATCTTTCAT-CATGGTCTTACACTACATAC-CTCATACCAGA
* *
25093979 CTGCCATAGCATCTTTTATCTATGGTTTTACGCCATATACC
1 CTGCCATAGCATCTTTCATCTATGGTCTTACGCCATATACC
25094020 GTTGTCACAG
Statistics
Matches: 222, Mismatches: 32, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
108 3 0.01
109 216 0.97
110 3 0.01
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.36
Consensus pattern (108 bp):
CTGCCATAGCATCTTTCATCTATGGTCTTACGCCATATACCTTATATCTTGTACCATGTTGTCAT
GGCATCTTTCATCATGGTCTTACACTACATACCTCATACCAGA
Found at i:25093801 original size:51 final size:51
Alignment explanation
Indices: 25093713--25094019 Score: 168
Period size: 51 Copynumber: 5.7 Consensus size: 51
25093703 TACCATGCTA
* * *
25093713 CCATGGCATCTTTCATAC-ATGGTCTTACACTACATACCTCATACTAGATTG
1 CCATAGCATCTTTCAT-CTATGGTCTTACGCCACATACCTCATACTAGATTG
* * * *
25093764 CCATAGCATCTTTCATCTATGATCTTACGCCATATACCTTATACCTTGTCCGATGTTG
1 CCATAGCATCTTTCATCTATGGTCTTACGCCACATACCTCATA-C---T-AGA--TTG
* * * * ** * *
25093822 TCATGGCATCTTTCATCAATGGTCTTACGCTACGCACCTCATACCAGACTG
1 CCATAGCATCTTTCATCTATGGTCTTACGCCACATACCTCATACTAGATTG
* * * * * *
25093873 CCATAGCGTCTTTCATCTATGGTCTTATGCCATATGCCTTATATCTTGTATCATGTTG
1 CCATAGCATCTTTCATCTATGGTCTTACGCCACATACCTCATA-C---TA-GA--TTG
* * * * * * * *
25093931 TCATAGCCTCTTTCATCCATGGTCTTACACTACATACAC-CATACCAAACTG
1 CCATAGCATCTTTCATCTATGGTCTTACGCCACATAC-CTCATACTAGATTG
* * *
25093982 CCATAGCATCTTTTATCTATGGTTTTACGCCATATACC
1 CCATAGCATCTTTCATCTATGGTCTTACGCCACATACC
25094020 GTTGTCACAG
Statistics
Matches: 187, Mismatches: 53, Indels: 33
0.68 0.19 0.12
Matches are distributed among these distances:
50 2 0.01
51 100 0.53
52 2 0.01
53 3 0.02
54 1 0.01
55 2 0.01
56 3 0.02
57 2 0.01
58 71 0.38
59 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.36
Consensus pattern (51 bp):
CCATAGCATCTTTCATCTATGGTCTTACGCCACATACCTCATACTAGATTG
Found at i:25094517 original size:27 final size:27
Alignment explanation
Indices: 25094411--25094509 Score: 137
Period size: 27 Copynumber: 3.7 Consensus size: 27
25094401 TCGCCAGGTA
*
25094411 AATTGTGAACTAGGGGTTTGCTC-GTTG
1 AATTGTAAACTAGGGGTTTGC-CAGTTG
*
25094438 AATTGTAAACTGGGGGTTTGCCAGTTG
1 AATTGTAAACTAGGGGTTTGCCAGTTG
*
25094465 AATTGTAAACTGGGGGTTTGCCAGTTG
1 AATTGTAAACTAGGGGTTTGCCAGTTG
* *
25094492 AATTATGAACTAGGGGTT
1 AATTGTAAACTAGGGGTT
25094510 CGCTAGTTAA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
26 1 0.02
27 65 0.98
ACGTcount: A:0.23, C:0.10, G:0.32, T:0.34
Consensus pattern (27 bp):
AATTGTAAACTAGGGGTTTGCCAGTTG
Found at i:25108730 original size:12 final size:12
Alignment explanation
Indices: 25108713--25108737 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25108703 TAGAACGCAT
25108713 TGGCCCGGTTGC
1 TGGCCCGGTTGC
25108725 TGGCCCGGTTGC
1 TGGCCCGGTTGC
25108737 T
1 T
25108738 TACAGGCTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.32, G:0.40, T:0.28
Consensus pattern (12 bp):
TGGCCCGGTTGC
Found at i:25119318 original size:46 final size:46
Alignment explanation
Indices: 25119135--25119400 Score: 195
Period size: 47 Copynumber: 5.7 Consensus size: 46
25119125 TGGGTAAGGT
* * *
25119135 GCCGATGCCATATCCCAGACATGGTCCTACACTAGCTCAT-ATCTC-AA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCATCTCGAG
* * *
25119182 GTCGATACCATGTCCCAGACATGGTCTTACACT-GACTATCATCTCGTA-
1 GCCGAT-GCATGTCCCAGACAT-GTCTTACACTAG-CTCTCATCTCG-AG
* ** *
25119230 GCAGATGCATGTATCAAACATGTCTTACACTAGCT-T-ATGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCA--TCTCGAG
* * * *
25119276 GCCGATGCATGTCCCAGACATATCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAG
* * * *
25119322 GCTGATGCCATGTCCCAGACATGGTCTTACACTATCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCGAG
**
25119370 GCCGATGCATGTCCTGGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
25119401 TGCCAATAAT
Statistics
Matches: 175, Mismatches: 30, Indels: 29
0.75 0.13 0.12
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 70 0.40
47 74 0.42
48 26 0.15
49 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAG
Found at i:25121720 original size:47 final size:47
Alignment explanation
Indices: 25121651--25121819 Score: 206
Period size: 47 Copynumber: 3.6 Consensus size: 47
25121641 GATAAGGTGC
*
25121651 CGATGGCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGT
* * *
25121698 CGATGCCATGTTCCAGACATGGTCTTACACT-GACT-ACATCTCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCACATCTC-AAGT
*
25121745 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTA-GTCTCAA-T
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-ACATCTCAAGT
25121789 ACCGATGCCATGTCCCAGACATGGTCTTACA
1 --CGATGCCATGTCCCAGACATGGTCTTACA
25121820 TTGACTCTCA
Statistics
Matches: 105, Mismatches: 8, Indels: 17
0.81 0.06 0.13
Matches are distributed among these distances:
45 13 0.12
46 31 0.30
47 53 0.50
48 8 0.08
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGT
Found at i:25121815 original size:93 final size:93
Alignment explanation
Indices: 25121649--25121870 Score: 299
Period size: 93 Copynumber: 2.4 Consensus size: 93
25121639 TGGATAAGGT
*
25121649 GCCGATGGCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGTCGATGCCATGTTCCAG
1 GCCGAT-GCATGTCCCAGACAT-GTCTTACACTAGCTCACATCTCAAGTCGATGCCATGTCCCAG
*
25121714 ACATGGTCTTACACTGACT-ACAT-CTCGTA
64 ACATGGTCTTACACTGACTCACATAAT-GTA
*
25121743 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTA-GTCTCAA-TACCGATGCCATGTCCCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC-ACATCTCAAGT--CGATGCCATGTCCCA
* * *
25121806 GACATGGTCTTACATTGACTCTCATAATGTG
63 GACATGGTCTTACACTGACTCACATAATGTA
*
25121837 GCCGATGCATGTCCCGGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
25121871 CAACAATAAC
Statistics
Matches: 116, Mismatches: 7, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
91 1 0.01
92 21 0.18
93 49 0.42
94 44 0.38
95 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (93 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCACATCTCAAGTCGATGCCATGTCCCAGAC
ATGGTCTTACACTGACTCACATAATGTA
Found at i:25121848 original size:47 final size:46
Alignment explanation
Indices: 25121649--25121870 Score: 190
Period size: 47 Copynumber: 4.8 Consensus size: 46
25121639 TGGATAAGGT
* **
25121649 GCCGATGGCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAA
1 GCCGAT-GCATGTCCCAGACATGGTCTTACACTAGCTCACATATGTA
* * *
25121696 GTCGATGCCATGTTCCAGACATGGTCTTACACT-GACT-ACATCTCGTA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAG-CTCACATAT-GTA
*
25121743 GCCGATGCATGTCCCAGACAT-GTCTTACACTAGCTCTAGTC-TCA-ATA
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTC-A--CAT-ATGTA
* * *
25121790 -CCGATGCCATGTCCCAGACATGGTCTTACA-TTGACTCTCATAATGTG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAG-CTCACAT-ATGTA
*
25121837 GCCGATGCATGTCCCGGACAT-GTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGC
25121871 CAACAATAAC
Statistics
Matches: 144, Mismatches: 15, Indels: 33
0.75 0.08 0.17
Matches are distributed among these distances:
45 13 0.09
46 39 0.27
47 73 0.51
48 18 0.12
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCACATATGTA
Found at i:25124157 original size:57 final size:56
Alignment explanation
Indices: 25124088--25124275 Score: 166
Period size: 57 Copynumber: 3.3 Consensus size: 56
25124078 AACACCAGAA
* * *
25124088 AAAGGACAGCCTTTGTGGCAAAAATTTGGAAAGGCAAGCATTGTTGGCGAACCTATT
1 AAAGGATAGCCTTTGTGGCAAAAATTTAGAAAGGCAAGCTTTG-TGGCGAACCTATT
* * * * * *
25124145 AAAGGATAGCCTTTATGG-AAAAACTCTCGAAA-GCAAGCCTTTGTGGTGAACATGTT
1 AAAGGATAGCCTTTGTGGCAAAAA-TTTAGAAAGGCAAG-CTTTGTGGCGAACCTATT
* * * ** * * *
25124201 AAAAGATAGCATTTGTCGCAAATCTTTAGAAGGGTAAGCTTTTGTGGCGAACCTCTT
1 AAAGGATAGCCTTTGTGGCAAAAATTTAGAAAGGCAAGC-TTTGTGGCGAACCTATT
25124258 AAAGGAT-GCCTTTGTGGC
1 AAAGGATAGCCTTTGTGGC
25124276 GAGACCTTGA
Statistics
Matches: 102, Mismatches: 24, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
56 49 0.48
57 53 0.52
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (56 bp):
AAAGGATAGCCTTTGTGGCAAAAATTTAGAAAGGCAAGCTTTGTGGCGAACCTATT
Found at i:25124296 original size:28 final size:27
Alignment explanation
Indices: 25124088--25124298 Score: 75
Period size: 28 Copynumber: 7.5 Consensus size: 27
25124078 AACACCAGAA
* ** *
25124088 AAAGGACAGCCTTTGTGGCAAAAATTTGG
1 AAAGGA-AGCCTTTGTGGCGAACCTCT-G
* * *
25124117 AAAGGCAAG-CATTGTTGGCGAACCTATT
1 AAAGG-AAGCCTTTG-TGGCGAACCTCTG
* ** *
25124145 AAAGGATAGCCTTTATGGAAAAACTCTCG
1 AAAGGA-AGCCTTTGTGGCGAACCTCT-G
* * * * *
25124174 AAAGCAAGCCTTTGTGGTGAACATGTT
1 AAAGGAAGCCTTTGTGGCGAACCTCTG
* * * * * *
25124201 AAAAGATAGCATTTGTCGCAAATCTTTAG
1 AAAGGA-AGCCTTTGTGGCGAACCTCT-G
* * *
25124230 AAGGGTAAGCTTTTGTGGCGAACCTCTT
1 AAAGG-AAGCCTTTGTGGCGAACCTCTG
*
25124258 AAAGGATGCCTTTGTGGCGAGACCT-TG
1 AAAGGAAGCCTTTGTGGCGA-ACCTCTG
25124285 AAAGGAAAGCCTTT
1 AAAGG-AAGCCTTT
25124299 TTGGTAAGTA
Statistics
Matches: 128, Mismatches: 44, Indels: 21
0.66 0.23 0.11
Matches are distributed among these distances:
27 24 0.19
28 61 0.48
29 41 0.32
30 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (27 bp):
AAAGGAAGCCTTTGTGGCGAACCTCTG
Found at i:25124358 original size:28 final size:28
Alignment explanation
Indices: 25124324--25124388 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
25124314 TGAAAATGAC
25124324 GCCTTTGTGGAAATCTCTAGATAAA-GAAT
1 GCCTTTGTGGAAATCTCT-GA-AAAGGAAT
**
25124353 -CCTTTGTGGCTATCTCTGAAAAGGAAT
1 GCCTTTGTGGAAATCTCTGAAAAGGAAT
25124380 GCCTTTGTG
1 GCCTTTGTG
25124389 ACACCATCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 3 0.09
27 6 0.19
28 23 0.72
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (28 bp):
GCCTTTGTGGAAATCTCTGAAAAGGAAT
Found at i:25126733 original size:20 final size:19
Alignment explanation
Indices: 25126701--25126743 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
25126691 CCAGTCCGCA
* * *
25126701 TTTTTCACCTTTTTCCACT
1 TTTTTCACATTTTACAACT
25126720 TTTTTACACATTTTACAACT
1 TTTTT-CACATTTTACAACT
25126740 TTTT
1 TTTT
25126744 ACAAATAGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTTCACATTTTACAACT
Found at i:25136169 original size:31 final size:31
Alignment explanation
Indices: 25136128--25136186 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
25136118 TAGCTTTATC
*
25136128 ATTAAACTATTCGAAAGTTTTCATTTAAATT
1 ATTAAACTATTCAAAAGTTTTCATTTAAATT
* *
25136159 ATTAATCTATTCAAAAGTTTTTATTTAA
1 ATTAAACTATTCAAAAGTTTTCATTTAA
25136187 GTCAATGTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.47
Consensus pattern (31 bp):
ATTAAACTATTCAAAAGTTTTCATTTAAATT
Found at i:25141167 original size:120 final size:119
Alignment explanation
Indices: 25140955--25141198 Score: 330
Period size: 120 Copynumber: 2.0 Consensus size: 119
25140945 GTTGTCAACA
* * *
25140955 ATGGCCTTTACAAAACTAAATACACTTCGTTTAGCCTAGCATGAGGGTTCCTACGTTTCTATATT
1 ATGGCCTTTACAAAACTAAATACACTTCATTTAACCTAGCATGAGGGTTCCTACGTTTCTACATT
* *
25141020 TTAGCAGATTACTCTCTCACCCCCTCTC-GAAAATTTATCTACATGGTATCTTTG
66 TTAGCAGATTACTCTCTCACCCCCTCTCTG-AAATTTAGCAACATGGTATCTTTG
* * * * *
25141074 ATGGCCTTTTCAAAATTAAGTACACTTTCATTTAACCTAGTATGAGGGTTCCTACGTTTCTGCAT
1 ATGGCCTTTACAAAACTAAATACAC-TTCATTTAACCTAGCATGAGGGTTCCTACGTTTCTACAT
* * *
25141139 TTTAGCTGCTTACTCTAC-CACCCTCTCTCTGAAATTTAGCAACATGGTATCTTTG
65 TTTAGCAGATTACTCT-CTCACCCCCTCTCTGAAATTTAGCAACATGGTATCTTTG
25141194 ATGGC
1 ATGGC
25141199 AGGGTAAATG
Statistics
Matches: 109, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
119 22 0.20
120 85 0.78
121 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (119 bp):
ATGGCCTTTACAAAACTAAATACACTTCATTTAACCTAGCATGAGGGTTCCTACGTTTCTACATT
TTAGCAGATTACTCTCTCACCCCCTCTCTGAAATTTAGCAACATGGTATCTTTG
Found at i:25146649 original size:23 final size:23
Alignment explanation
Indices: 25146619--25146671 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
25146609 GCATCATGAC
25146619 GAAA-ATGAGTAAGACCATAGCT
1 GAAAGATGAGTAAGACCATAGCT
*
25146641 GAAAGATGAGTAAGATCATAGCT
1 GAAAGATGAGTAAGACCATAGCT
25146664 GAAAGATG
1 GAAAGATG
25146672 CTATAGTATC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.45, C:0.09, G:0.26, T:0.19
Consensus pattern (23 bp):
GAAAGATGAGTAAGACCATAGCT
Found at i:25152915 original size:23 final size:23
Alignment explanation
Indices: 25152888--25152936 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
25152878 TGGCTGCCAA
25152888 TTCAAGATCATGTATCGAGTAAT
1 TTCAAGATCATGTATCGAGTAAT
25152911 TTCAAGATCATGTATCGAGTAAT
1 TTCAAGATCATGTATCGAGTAAT
25152934 TTC
1 TTC
25152937 TTTCATGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (23 bp):
TTCAAGATCATGTATCGAGTAAT
Found at i:25166620 original size:12 final size:12
Alignment explanation
Indices: 25166603--25166627 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25166593 CAAAAATGTA
25166603 AAAATCATCAAG
1 AAAATCATCAAG
25166615 AAAATCATCAAG
1 AAAATCATCAAG
25166627 A
1 A
25166628 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:25187143 original size:45 final size:45
Alignment explanation
Indices: 25187076--25187161 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
25187066 TTATATGCTT
25187076 AAAATGAGTAAGACCATAGCTGAAAGACATTATGGCATCATGACG
1 AAAATGAGTAAGACCATAGCTGAAAGACATTATGGCATCATGACG
* * *
25187121 AAAATGAGTAAGACTATGGCTGAAAGACGTTATGGCATCAT
1 AAAATGAGTAAGACCATAGCTGAAAGACATTATGGCATCAT
25187162 AGTAAATAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (45 bp):
AAAATGAGTAAGACCATAGCTGAAAGACATTATGGCATCATGACG
Found at i:25187190 original size:45 final size:45
Alignment explanation
Indices: 25187076--25187192 Score: 121
Period size: 45 Copynumber: 2.6 Consensus size: 45
25187066 TTATATGCTT
* *
25187076 AAAATGAGTAAGACCATAGCTGAAAGACATTATGGCATCATGACG
1 AAAAGGAGTAAAACCATAGCTGAAAGACATTATGGCATCATGACG
* * * * *
25187121 AAAATGAGTAAGACTATGGCTGAAAGACGTTATGGCATCAT-A-G
1 AAAAGGAGTAAAACCATAGCTGAAAGACATTATGGCATCATGACG
* *
25187164 TAAATAGGATTAAAACCATAGATGAAAGA
1 -AAA-AGGAGTAAAACCATAGCTGAAAGA
25187193 TGCTATGACA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
43 1 0.02
44 4 0.07
45 56 0.92
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.21
Consensus pattern (45 bp):
AAAAGGAGTAAAACCATAGCTGAAAGACATTATGGCATCATGACG
Found at i:25189592 original size:40 final size:40
Alignment explanation
Indices: 25189537--25189710 Score: 289
Period size: 40 Copynumber: 4.4 Consensus size: 40
25189527 TGGTAAACGA
* *
25189537 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
25189577 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
25189617 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
*
25189657 GCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
*
25189696 GCTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
25189711 TACTTGGTTT
Statistics
Matches: 129, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
39 17 0.13
40 112 0.87
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
Found at i:25200069 original size:22 final size:22
Alignment explanation
Indices: 25200029--25200070 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
25200019 GAATGTGCAT
*
25200029 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
25200051 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
25200071 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:25203784 original size:34 final size:34
Alignment explanation
Indices: 25203746--25203817 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
25203736 ATAAACCAAA
25203746 TAAAGTAAGCTTTCAAATAAGCTTAGTAAGCTCG
1 TAAAGTAAGCTTTCAAATAAGCTTAGTAAGCTCG
*
25203780 TAAAGTAAGCTTTCAAATAAGCTTAGTAAGTTCG
1 TAAAGTAAGCTTTCAAATAAGCTTAGTAAGCTCG
25203814 TAAA
1 TAAA
25203818 ATCAAACATA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (34 bp):
TAAAGTAAGCTTTCAAATAAGCTTAGTAAGCTCG
Found at i:25220276 original size:85 final size:86
Alignment explanation
Indices: 25220132--25220299 Score: 250
Period size: 85 Copynumber: 2.0 Consensus size: 86
25220122 CTATAAAACA
* * * *
25220132 TGACTTTTAGCGGCGCTTTTGCTACAAACACCGCTAAAGAACATGACCTTTAGCGGCGCTTTCTC
1 TGACTTTTAGCGGCACTTTTCCTACAAACACCACTAAACAACATGACCTTTAGCGGCGCTTTCTC
*
25220197 CACAAAC-GTTGCTAAAGATCC
66 CAC-AACTGTCGCTAAAGATCC
**
25220218 TGACTTTTAGCGGCACTTTTCCTA-AAACGTCACTAAACAACATGACCTTTAGCGGCGCTTTCTC
1 TGACTTTTAGCGGCACTTTTCCTACAAACACCACTAAACAACATGACCTTTAGCGGCGCTTTCTC
25220282 CACAACTGTCGCTAAAGA
66 CACAACTGTCGCTAAAGA
25220300 ACATGATCTT
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
84 3 0.04
85 49 0.66
86 22 0.30
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (86 bp):
TGACTTTTAGCGGCACTTTTCCTACAAACACCACTAAACAACATGACCTTTAGCGGCGCTTTCTC
CACAACTGTCGCTAAAGATCC
Found at i:25220321 original size:43 final size:42
Alignment explanation
Indices: 25220120--25220310 Score: 190
Period size: 43 Copynumber: 4.5 Consensus size: 42
25220110 AAAAAAATGC
* * **
25220120 CGCTATAA-AACATGACTTTTAGCGGCGCTTT-TGCTACAAACAC
1 CGCTA-AAGAACATGACCTTTAGCGGCGCTTTCT-CCAC-AACGT
25220163 CGCTAAAGAACATGACCTTTAGCGGCGCTTTCTCCACAAACGT
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTCTCCAC-AACGT
* * * * * *
25220206 TGCTAAAGATCCTGACTTTTAGCGGCACTTT-TCCTAAAACGT
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTCTCC-ACAACGT
* *
25220248 CACTAAACAACATGACCTTTAGCGGCGCTTTCTCCACAACTGT
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTCTCCACAAC-GT
*
25220291 CGCTAAAGAACATGATCTTT
1 CGCTAAAGAACATGACCTTT
25220311 GGCGATGCTT
Statistics
Matches: 122, Mismatches: 21, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
42 38 0.31
43 83 0.68
44 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (42 bp):
CGCTAAAGAACATGACCTTTAGCGGCGCTTTCTCCACAACGT
Found at i:25220331 original size:85 final size:85
Alignment explanation
Indices: 25220120--25220310 Score: 215
Period size: 85 Copynumber: 2.2 Consensus size: 85
25220110 AAAAAAATGC
* * * * ** * *
25220120 CGCTATAA-AACATGACTTTTAGCGGCGCTTTTGCTACAAACACCGCTAAAGAACATGACCTTTA
1 CGCTA-AAGAACATGACTTTTAGCGACACTTTT-CCAAAAACGTCACTAAACAACATGACCTTTA
25220184 GCGGCGCTTTCTCCACAAACGT
64 GCGGCGCTTTCTCCACAAACGT
* * * * *
25220206 TGCTAAAGATCCTGACTTTTAGCGGCACTTTTCCTAAAACGTCACTAAACAACATGACCTTTAGC
1 CGCTAAAGAACATGACTTTTAGCGACACTTTTCCAAAAACGTCACTAAACAACATGACCTTTAGC
25220271 GGCGCTTTCTCCAC-AACTGT
66 GGCGCTTTCTCCACAAAC-GT
25220291 CGCTAAAGAACATGATCTTT
1 CGCTAAAGAACATGA-CTTT
25220311 GGCGATGCTT
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
84 3 0.03
85 56 0.64
86 29 0.33
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (85 bp):
CGCTAAAGAACATGACTTTTAGCGACACTTTTCCAAAAACGTCACTAAACAACATGACCTTTAGC
GGCGCTTTCTCCACAAACGT
Found at i:25221068 original size:46 final size:46
Alignment explanation
Indices: 25221018--25221115 Score: 160
Period size: 46 Copynumber: 2.1 Consensus size: 46
25221008 TTTCAGCAAC
*
25221018 TAAACAATTCAATTTATAGTACTTAAAAACTTCAATTTACAACATT
1 TAAACAATTCAATTTACAGTACTTAAAAACTTCAATTTACAACATT
* * *
25221064 TAAACACTTGAATTTGCAGTACTTAAAAACTTCAATTTACAACATT
1 TAAACAATTCAATTTACAGTACTTAAAAACTTCAATTTACAACATT
25221110 TAAACA
1 TAAACA
25221116 CTTGAAATCG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.35
Consensus pattern (46 bp):
TAAACAATTCAATTTACAGTACTTAAAAACTTCAATTTACAACATT
Found at i:25221140 original size:24 final size:23
Alignment explanation
Indices: 25221112--25221165 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
25221102 ACAACATTTA
*
25221112 AACACTTGAAATCGCAGCACTTTT
1 AACACTTGAAATCGCAGAAC-TTT
* *
25221136 AACACTTGAATTTGCAGAACTTT
1 AACACTTGAAATCGCAGAACTTT
25221159 AACACTT
1 AACACTT
25221166 CAATTTACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.31
Consensus pattern (23 bp):
AACACTTGAAATCGCAGAACTTT
Found at i:25221149 original size:70 final size:69
Alignment explanation
Indices: 25221060--25221208 Score: 226
Period size: 70 Copynumber: 2.1 Consensus size: 69
25221050 CAATTTACAA
* * *
25221060 CATTTAAACACTTGAATTTGCAGTACTTAAAAACTTCAATTTACAACATTTAAACACTTGAAATC
1 CATTTTAACACTTGAATTTGCAGAACTTAAAAACTTCAATTTACAACATTTAAACACTTCAAATC
25221125 GCAG
66 GCAG
* * *
25221129 CACTTTTAACACTTGAATTTGCAGAACTTTAACACTTCAATTTACAACATTTAAACACTTCAATT
1 CA-TTTTAACACTTGAATTTGCAGAACTTAAAAACTTCAATTTACAACATTTAAACACTTCAAAT
*
25221194 TGCAG
65 CGCAG
25221199 CATTTTAACA
1 CATTTTAACA
25221209 TCTCAATTAA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
69 10 0.14
70 62 0.86
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.34
Consensus pattern (69 bp):
CATTTTAACACTTGAATTTGCAGAACTTAAAAACTTCAATTTACAACATTTAAACACTTCAAATC
GCAG
Found at i:25221194 original size:46 final size:46
Alignment explanation
Indices: 25221136--25221460 Score: 304
Period size: 46 Copynumber: 7.1 Consensus size: 46
25221126 CAGCACTTTT
* *
25221136 AACACTTGAATTTGCAGAACTTTAACACTTCAATTTACAACATTTA
1 AACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATTTA
* *
25221182 AACACTTCAATTTGCAGCATTTTAACA-TCTCAATTAACAACATTTA
1 AACACTTCAATTTGCAGCACTTTAACACT-TCAATTTACAACATTTA
* ** * * ** * * **
25221228 TATTCCTCAA-TTACAGCGA-TAAAACA-TCTCAATTTTCAGCAACTA
1 AACACTTCAATTTGCAGC-ACTTTAACACT-TCAATTTACAACATTTA
* *
25221273 AACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTA
1 AACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATTTA
* * * *
25221319 AGCACTTCAATTTACAGCA-TTTAAACACTTCAATTTATAGCATTT-
1 AACACTTCAATTTGCAGCACTTT-AACACTTCAATTTACAACATTTA
* * *
25221364 AATACTTCAATTTGCAGCACTTTAACACTTAAATTTACAGCATTTA
1 AACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATTTA
* * *
25221410 AACACTTCAATTTGCTGCACTTTAACA-TCTCAATTAATAACATTTA
1 AACACTTCAATTTGCAGCACTTTAACACT-TCAATTTACAACATTTA
*
25221456 TACAC
1 AACAC
25221461 CTCATGTAAC
Statistics
Matches: 225, Mismatches: 45, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
45 72 0.32
46 152 0.68
47 1 0.00
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.35
Consensus pattern (46 bp):
AACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATTTA
Found at i:25221422 original size:91 final size:91
Alignment explanation
Indices: 25221040--25221422 Score: 321
Period size: 91 Copynumber: 4.2 Consensus size: 91
25221030 TTTATAGTAC
* * * * * * *
25221040 TTAAAAACTTCAATTTACAACATTTAAACACTTGAATTTGCAGTACTTAAAAACTTCAATTTACA
1 TTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCA-TTAAACACTTCAATTTGCA
* ** *
25221105 ACA-TTTAAACACTTGAAA-TCGCAGCACT
65 GCACTTT-AACACTT-AAATTTACAACA-T
* * * * *
25221133 TTTAACACTTGAATTTGCAGAACTTT-AACACTTCAATTTACAACATTTAAACACTTCAATTTGC
1 TTAAACACTTCAATTTACAGCA-TTTAAACACTTCAATTTACAGCA-TTAAACACTTCAATTTGC
* * *
25221197 AGCATTTTAACA-TCTCAATTAACAACAT
64 AGCACTTTAACACT-TAAATTTACAACAT
* ** * * * *
25221225 TTATATTCCTCAA-TTACAGCGA-TAAAACA-TCTCAATTTTCAGCAACTAAACACTTCAATTTG
1 TTAAACACTTCAATTTACAGC-ATTTAAACACT-TCAATTTACAGC-ATTAAACACTTCAATTTG
* * *
25221287 CAGTACTTAAACACTTCAATTTACAACAT
63 CAGCACTTTAACACTTAAATTTACAACAT
* * * *
25221316 TTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTATAGCATTTAATACTTCAATTTGCAG
1 TTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTAAACACTTCAATTTGCAG
*
25221381 CACTTTAACACTTAAATTTACAGCAT
66 CACTTTAACACTTAAATTTACAACAT
25221407 TTAAACACTTCAATTT
1 TTAAACACTTCAATTT
25221423 GCTGCACTTT
Statistics
Matches: 228, Mismatches: 50, Indels: 26
0.75 0.16 0.09
Matches are distributed among these distances:
90 2 0.01
91 122 0.54
92 37 0.16
93 61 0.27
94 6 0.03
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.35
Consensus pattern (91 bp):
TTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCATTAAACACTTCAATTTGCAG
CACTTTAACACTTAAATTTACAACAT
Found at i:25221436 original size:23 final size:22
Alignment explanation
Indices: 25221046--25221444 Score: 266
Period size: 23 Copynumber: 17.4 Consensus size: 22
25221036 GTACTTAAAA
*
25221046 ACTTCAATTTACAACATTTAAAC
1 ACTTCAATTTACAGCATTT-AAC
* * * * *
25221069 ACTTGAATTTGCAGTACTTAAAA
1 ACTTCAATTTACAGCA-TTTAAC
*
25221092 ACTTCAATTTACAACATTTAAAC
1 ACTTCAATTTACAGCATTT-AAC
* * **
25221115 ACTTGAAATCGCAGCACTTTTAAC
1 ACTTCAATTTACAGCA--TTTAAC
* * *
25221139 ACTTGAATTTGCAGAACTTTAAC
1 ACTTCAATTTACAGCA-TTTAAC
*
25221162 ACTTCAATTTACAACATTTAAAC
1 ACTTCAATTTACAGCATTT-AAC
*
25221185 ACTTCAATTTGCAGCATTTTAAC
1 ACTTCAATTTACAGCA-TTTAAC
* * *
25221208 A-TCTCAATTAACAACATTTATAT
1 ACT-TCAATTTACAGCATTTA-AC
* * **
25221231 TCCTCAA-TTACAGCGATAAAAC
1 ACTTCAATTTACAGC-ATTTAAC
* * *
25221253 A-TCTCAATTTTCAGCAACTAAAC
1 ACT-TCAATTTACAGC-ATTTAAC
* * *
25221276 ACTTCAATTTGCAGTACTTAAAC
1 ACTTCAATTTACAGCA-TTTAAC
*
25221299 ACTTCAATTTACAACATTTAAGC
1 ACTTCAATTTACAGCATTTAA-C
25221322 ACTTCAATTTACAGCATTTAAAC
1 ACTTCAATTTACAGCATTT-AAC
* *
25221345 ACTTCAATTTATAGCATTTAAT
1 ACTTCAATTTACAGCATTTAAC
*
25221367 ACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCA-TTTAAC
*
25221390 ACTTAAATTTACAGCATTTAAAC
1 ACTTCAATTTACAGCATTT-AAC
* *
25221413 ACTTCAATTTGCTGCACTTTAAC
1 ACTTCAATTTACAGCA-TTTAAC
25221436 A-TCTCAATT
1 ACT-TCAATT
25221445 AATAACATTT
Statistics
Matches: 294, Mismatches: 62, Indels: 40
0.74 0.16 0.10
Matches are distributed among these distances:
22 45 0.15
23 219 0.74
24 27 0.09
25 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (22 bp):
ACTTCAATTTACAGCATTTAAC
Found at i:25221975 original size:41 final size:40
Alignment explanation
Indices: 25221896--25221979 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
25221886 TAATATACAT
* *
25221896 ATATTAGTAATTATTATATATTTACTTATAATTTAAGTAA
1 ATATTAGTAATTATTATATATTTAATTATAATTAAAGTAA
*
25221936 ATATTATTATATTATTATATTATATTAATTA-AA-TAAAGTAA
1 ATATTAGTA-ATTATTATA-TAT-TTAATTATAATTAAAGTAA
25221977 ATA
1 ATA
25221980 AATTAAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
40 8 0.21
41 19 0.50
42 5 0.13
43 6 0.16
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (40 bp):
ATATTAGTAATTATTATATATTTAATTATAATTAAAGTAA
Found at i:25222150 original size:13 final size:13
Alignment explanation
Indices: 25222132--25222175 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
25222122 AATAAACAAA
25222132 AAAGAAAAGAAAG
1 AAAGAAAAGAAAG
*
25222145 AAAGAAAAGGAAG
1 AAAGAAAAGAAAG
*
25222158 AACAGAATAGAAACG
1 AA-AGAAAAGAAA-G
25222173 AAA
1 AAA
25222176 AAATAGGGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 14 0.54
14 9 0.35
15 3 0.12
ACGTcount: A:0.70, C:0.05, G:0.23, T:0.02
Consensus pattern (13 bp):
AAAGAAAAGAAAG
Found at i:25222368 original size:17 final size:17
Alignment explanation
Indices: 25222346--25222379 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25222336 AATTTGAAAG
*
25222346 TTAGTATATTTTTGGAC
1 TTAGTAGATTTTTGGAC
25222363 TTAGTAGATTTTTGGAC
1 TTAGTAGATTTTTGGAC
25222380 ATGGTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.21, T:0.50
Consensus pattern (17 bp):
TTAGTAGATTTTTGGAC
Found at i:25223155 original size:40 final size:39
Alignment explanation
Indices: 25223099--25223214 Score: 151
Period size: 40 Copynumber: 2.9 Consensus size: 39
25223089 CCTTCTCGAG
25223099 AATTAAAAGTGAATAGGATTTATTCCTGATTCACTAAAAGA
1 AATT-AAAGTGAATAGGATTTATTCCTGATTCACTAAAA-A
* *
25223140 AATTAAAGTGAATAGGAATTATTCCTGATTCACTAGAAA
1 AATTAAAGTGAATAGGATTTATTCCTGATTCACTAAAAA
* * * *
25223179 TATATAAAATGGATAGGATTTGTTCCTGATTCACTA
1 AAT-TAAAGTGAATAGGATTTATTCCTGATTCACTA
25223215 TGGTAACTCA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.04
40 60 0.90
41 4 0.06
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.34
Consensus pattern (39 bp):
AATTAAAGTGAATAGGATTTATTCCTGATTCACTAAAAA
Found at i:25225105 original size:32 final size:33
Alignment explanation
Indices: 25225022--25225240 Score: 142
Period size: 33 Copynumber: 6.7 Consensus size: 33
25225012 GTACATTCCT
* *
25225022 TTTTCAAGTAGTACACACGAAGTGTACATACCC
1 TTTTCAAGTAGTACACACAAAGTGTACATAACC
* * *
25225055 TTTTCAATTTGTACACACAAAGTGCACATAACC
1 TTTTCAAGTAGTACACACAAAGTGTACATAACC
* * **
25225088 TTTTCAAGT-GTACACACATAGTGTACCTTTCC
1 TTTTCAAGTAGTACACACAAAGTGTACATAACC
* * * * *
25225120 TTTTCAAGTGGTATACACAAAGTATACCCT-TCC
1 TTTTCAAGTAGTACACACAAAGTGTA-CATAACC
* * * * **
25225153 TTTTTATA-TGGTATACACAAAGTATACCCAACC
1 TTTTCA-AGTAGTACACACAAAGTGTACATAACC
* * * *
25225186 TTTCCAAGT-GTAGACACATAGTGTACATAGCC
1 TTTTCAAGTAGTACACACAAAGTGTACATAACC
* *
25225218 TTTTCATA-TGGTATACACAAAGT
1 TTTTCA-AGTAGTACACACAAAGT
25225241 ATACCTTTCC
Statistics
Matches: 151, Mismatches: 28, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
32 53 0.35
33 94 0.62
34 4 0.03
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.32
Consensus pattern (33 bp):
TTTTCAAGTAGTACACACAAAGTGTACATAACC
Found at i:25225113 original size:98 final size:97
Alignment explanation
Indices: 25225011--25225259 Score: 225
Period size: 98 Copynumber: 2.5 Consensus size: 97
25225001 ACACCCGAGA
* * *
25225011 TGTACATTCCTTTTTCAAGTAGTACACACGAAGTGTA-CATACCCTTTTCAAT-TTGTACACACA
1 TGTACATTCC-TTTTCAAGTAGTACACACAAAGTATACCAT-CCCTTTT-AATATGGTACACACA
* * *
25225074 AAGTGCACATAACCTTTTCAAGTGTACACACATAG
63 AAGTACACACAACCTTTCCAAGTGTACACACATAG
* * * * * * *
25225109 TGTACCTTTCCTTTTCAAGTGGTATACACAAAGTATACCCTTCCTTTTTATATGGTATACACAAA
1 TGTA-CATTCCTTTTCAAGTAGTACACACAAAGTATACCATCCCTTTTAATATGGTACACACAAA
* * *
25225174 GTATACCCAACCTTTCCAAGTGTAGACACATAG
65 GTACACACAACCTTTCCAAGTGTACACACATAG
* * * * * *
25225207 TGTACATAGCCTTTTCATA-TGGTATACACAAAGTATACCTTTCCTTTTCATAT
1 TGTACAT-TCCTTTTCA-AGTAGTACACACAAAGTATACCATCCCTTTTAATAT
25225260 TCGATAGCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
97 4 0.03
98 114 0.90
99 8 0.06
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.35
Consensus pattern (97 bp):
TGTACATTCCTTTTCAAGTAGTACACACAAAGTATACCATCCCTTTTAATATGGTACACACAAAG
TACACACAACCTTTCCAAGTGTACACACATAG
Found at i:25225153 original size:33 final size:33
Alignment explanation
Indices: 25225086--25225256 Score: 154
Period size: 33 Copynumber: 5.2 Consensus size: 33
25225076 GTGCACATAA
* * * *
25225086 CCTTTTCAAGT-GTACACACATAGTGTACCTTT
1 CCTTTTCAAGTGGTATACACAAAGTATACCCTT
25225118 CCTTTTCAAGTGGTATACACAAAGTATACCCTT
1 CCTTTTCAAGTGGTATACACAAAGTATACCCTT
* **
25225151 CCTTTTTATA-TGGTATACACAAAGTATACCCAA
1 CCTTTTCA-AGTGGTATACACAAAGTATACCCTT
* * * * * *
25225184 CCTTTCCAAGT-GTAGACACATAGTGTA-CATAG
1 CCTTTTCAAGTGGTATACACAAAGTATACCCT-T
*
25225216 CCTTTTCATA-TGGTATACACAAAGTATACCTTT
1 CCTTTTCA-AGTGGTATACACAAAGTATACCCTT
25225249 CCTTTTCA
1 CCTTTTCA
25225257 TATTCGATAG
Statistics
Matches: 111, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
31 1 0.01
32 33 0.30
33 74 0.67
34 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (33 bp):
CCTTTTCAAGTGGTATACACAAAGTATACCCTT
Found at i:25225253 original size:65 final size:65
Alignment explanation
Indices: 25225064--25225253 Score: 188
Period size: 65 Copynumber: 2.9 Consensus size: 65
25225054 CTTTTCAATT
* * * * *
25225064 TGTACACACAAAGTGCACATAACCTTTTCA-A-GTGTACACACATAGTGTACCTTTCCTTTTCAA
1 TGTACACACAAAGTGTACATAACCTTTTCATATG-GTATACACAAAGTATACCTTTCCTTTCCAA
25225127 G
65 G
* * * * * ***
25225128 TGGTATACACAAAGTATACCCT-TCCTTTTTATATGGTATACACAAAGTATACCCAACCTTTCCA
1 T-GTACACACAAAGTGTA-CATAACCTTTTCATATGGTATACACAAAGTATACCTTTCCTTTCCA
25225192 AG
64 AG
* * *
25225194 TGTAGACACATAGTGTACATAGCCTTTTCATATGGTATACACAAAGTATACCTTTCCTTT
1 TGTACACACAAAGTGTACATAACCTTTTCATATGGTATACACAAAGTATACCTTTCCTTT
25225254 TCATATTCGA
Statistics
Matches: 99, Mismatches: 22, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
64 3 0.03
65 67 0.68
66 28 0.28
67 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (65 bp):
TGTACACACAAAGTGTACATAACCTTTTCATATGGTATACACAAAGTATACCTTTCCTTTCCAAG
Found at i:25225989 original size:20 final size:22
Alignment explanation
Indices: 25225947--25225994 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
25225937 TGTAAAAGTG
*
25225947 ATTTATCTATCAATAATCTTTC
1 ATTTATCTATCAATAAACTTTC
25225969 ATTT-TCTATCAA-AAACTTTC
1 ATTTATCTATCAATAAACTTTC
25225989 AATTTA
1 -ATTTA
25225995 CAGCATATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.30
21 12 0.52
22 4 0.17
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTATCTATCAATAAACTTTC
Found at i:25232380 original size:41 final size:40
Alignment explanation
Indices: 25232301--25232384 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
25232291 TAATATACAT
* *
25232301 ATATTAGTAATTATTATATATTTACTTATAATTTAAGTAA
1 ATATTAGTAATTATTATATATTTAATTATAATTAAAGTAA
*
25232341 ATATTATTATATTATTATATTATATTAATTA-AA-TAAAGTAA
1 ATATTAGTA-ATTATTATA-TAT-TTAATTATAATTAAAGTAA
25232382 ATA
1 ATA
25232385 AATTAAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
40 8 0.21
41 19 0.50
42 5 0.13
43 6 0.16
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (40 bp):
ATATTAGTAATTATTATATATTTAATTATAATTAAAGTAA
Found at i:25232612 original size:14 final size:15
Alignment explanation
Indices: 25232593--25232623 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
25232583 GAGAAAGAAA
25232593 GAAAGAAA-AAAAGG
1 GAAAGAAAGAAAAGG
25232607 GAAAGAAAGAAAAGG
1 GAAAGAAAGAAAAGG
25232622 GA
1 GA
25232624 GAAATTGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (15 bp):
GAAAGAAAGAAAAGG
Found at i:25233535 original size:40 final size:40
Alignment explanation
Indices: 25233483--25233599 Score: 146
Period size: 40 Copynumber: 2.9 Consensus size: 40
25233473 CCTTCTCAAG
*
25233483 AATTAAAAGTGAATAGGATTTATTCTTGATTCACTA-AAAGA
1 AATT-AAAGTGAATAGGATTTATTCCTGATTCACTATAAA-A
* *
25233524 AATTAAGGTGAATAGGATTTATTCCTGATTCACTATAAAT
1 AATTAAAGTGAATAGGATTTATTCCTGATTCACTATAAAA
* * * *
25233564 ATTTAAAGTGGATAAGATTTGTTCCTGATTCACTAT
1 AATTAAAGTGAATAGGATTTATTCCTGATTCACTAT
25233600 GGTAACTTAA
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
40 60 0.90
41 7 0.10
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (40 bp):
AATTAAAGTGAATAGGATTTATTCCTGATTCACTATAAAA
Found at i:25233615 original size:40 final size:40
Alignment explanation
Indices: 25233499--25233623 Score: 128
Period size: 40 Copynumber: 3.1 Consensus size: 40
25233489 AAGTGAATAG
* * * * *
25233499 GATTTATTCTTGATTCACTA-AAAGAAATTAAGGTGAATAG
1 GATTTATTCCTGATTCACTATAAA-TACTTAAGGTGGATAA
* *
25233539 GATTTATTCCTGATTCACTATAAATATTTAAAGTGGATAA
1 GATTTATTCCTGATTCACTATAAATACTTAAGGTGGATAA
* **
25233579 GATTTGTTCCTGATTCACTAT-GGTAACTTAAGGTGGATAA
1 GATTTATTCCTGATTCACTATAAAT-ACTTAAGGTGGATAA
25233619 GATTT
1 GATTT
25233624 TCCCTAAAAT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 68 0.94
41 3 0.04
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (40 bp):
GATTTATTCCTGATTCACTATAAATACTTAAGGTGGATAA
Found at i:25235343 original size:45 final size:45
Alignment explanation
Indices: 25235198--25235344 Score: 111
Period size: 45 Copynumber: 3.2 Consensus size: 45
25235188 TAGGGGTGTT
*
25235198 ACACCTCAATTACAATGAAAAAACATCTCAA-TTTCTAGCAACTAA
1 ACACCTCAATTACAGTGAAAAAACATCTCAATTTTC-AGCAACTAA
* * *** * ** * ** *
25235243 ACACTTCAATT--TGCTGCACTTTAACATCTTAATTAACAACATTTAT
1 ACACCTCAATTACAG-TG-A-AAAAACATCTCAATTTTCAGCAACTAA
25235289 ACACCTCAATTACAGTGAAAAAACATCTCAATTTTCAGCAACTAA
1 ACACCTCAATTACAGTGAAAAAACATCTCAATTTTCAGCAACTAA
*
25235334 ACACTTCAATT
1 ACACCTCAATT
25235345 TGCAGTACTT
Statistics
Matches: 70, Mismatches: 26, Indels: 12
0.65 0.24 0.11
Matches are distributed among these distances:
44 2 0.03
45 38 0.54
46 25 0.36
47 4 0.06
48 1 0.01
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.30
Consensus pattern (45 bp):
ACACCTCAATTACAGTGAAAAAACATCTCAATTTTCAGCAACTAA
Found at i:25235390 original size:91 final size:91
Alignment explanation
Indices: 25235197--25235378 Score: 287
Period size: 91 Copynumber: 2.0 Consensus size: 91
25235187 TTAGGGGTGT
*
25235197 TACACCTCAATTACAATGAAAAAACATCTCAATTTCTAGCAACTAAACACTTCAATTTGCTGCAC
1 TACACCTCAATTACAATGAAAAAACATCTCAATTTCTAGCAACTAAACACTTCAATTTGCAGCAC
*
25235262 TTTAACATCTTAATTAACAACATTTA
66 TTAAACATCTTAATTAACAACATTTA
* *
25235288 TACACCTCAATTACAGTGAAAAAACATCTCAATTT-TCAGCAACTAAACACTTCAATTTGCAGTA
1 TACACCTCAATTACAATGAAAAAACATCTCAATTTCT-AGCAACTAAACACTTCAATTTGCAGCA
*
25235352 CTTAAACA-CTTTAATTTACAACATTTA
65 CTTAAACATC-TTAATTAACAACATTTA
25235379 AGCACTTCAA
Statistics
Matches: 84, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
90 2 0.02
91 82 0.98
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.32
Consensus pattern (91 bp):
TACACCTCAATTACAATGAAAAAACATCTCAATTTCTAGCAACTAAACACTTCAATTTGCAGCAC
TTAAACATCTTAATTAACAACATTTA
Found at i:25235411 original size:69 final size:69
Alignment explanation
Indices: 25235316--25235632 Score: 320
Period size: 69 Copynumber: 4.6 Consensus size: 69
25235306 AAAAAACATC
* ** * * *
25235316 TCAATTTTCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTTAATTTACAACATTTAAG
1 TCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATTTAAA
25235381 CACT
66 CACT
* * *
25235385 TCAATTTAAAGCATTTAAACACTTCAATTTGCAGCACTTGAACACTTCAATTTACAACATTTAAG
1 TCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATTTAAA
25235450 CACT
66 CACT
* ** * * * * * *
25235454 TCAATTTGCAGCACTTT-AACA-TCTCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TA
1 TCAATTTACAGCA-TTTAAACACT-TCAATTTGCAGCACTTAAACACTTCAATTTACAAC-ATTT
25235515 AAACA-T
63 AAACACT
* ** *
25235521 CTCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAA
1 -TCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATTTAA
*
25235586 ACAAT
65 ACACT
* * * *
25235591 TTAATTTACAGTATTTAAACACTTCAATTTACAGCATTTAAA
1 TCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTAAA
25235633 TAGCAACAAC
Statistics
Matches: 200, Mismatches: 39, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
67 2 0.01
68 49 0.25
69 145 0.73
70 4 0.02
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (69 bp):
TCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATTTAAA
CACT
Found at i:25235579 original size:206 final size:206
Alignment explanation
Indices: 25235244--25235626 Score: 658
Period size: 206 Copynumber: 1.9 Consensus size: 206
25235234 AGCAACTAAA
* * *
25235244 CACTTCAATTTGCTGCACTTTAACATCTTAATTAACAACATTTATACACCTCAATTACAGTGAAA
1 CACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGAAA
* *
25235309 AAACATCTCAATTTTCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTTAATTTACAAC
66 AAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAAC
* * *
25235374 ATTTAAGCACTTCAATTTAAAGCATTTAAACACTTCAATTTGCAGCACTTGAACACTTCAATTTA
131 ATTTAAACAATTCAATTTAAAGCATTTAAACACTTCAATTTACAGCACTTGAACACTTCAATTTA
25235439 CAACATTTAAG
196 CAACATTTAAG
*
25235450 CACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGATA
1 CACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGAAA
25235515 AAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAAC
66 AAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAAC
* * *
25235580 ATTTAAACAATTTAATTTACAGTATTTAAACACTTCAATTTACAGCA
131 ATTTAAACAATTCAATTTAAAGCATTTAAACACTTCAATTTACAGCA
25235627 TTTAAATAGC
Statistics
Matches: 165, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
206 165 1.00
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (206 bp):
CACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGAAA
AAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAAC
ATTTAAACAATTCAATTTAAAGCATTTAAACACTTCAATTTACAGCACTTGAACACTTCAATTTA
CAACATTTAAG
Found at i:25235629 original size:23 final size:23
Alignment explanation
Indices: 25235240--25235632 Score: 284
Period size: 23 Copynumber: 17.2 Consensus size: 23
25235230 TTCTAGCAAC
* *
25235240 TAAACACTTCAATTTGCTGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
25235264 T-AACATCTT-AATTAACAACATT
1 TAAACA-CTTCAATTTACAGCATT
* * *
25235286 TATACACCTCAA-TTACAG--TG
1 TAAACACTTCAATTTACAGCATT
* * * **
25235306 AAAAAACATCTCAATTTTCAGCAAC
1 TAAACAC-T-TCAATTTACAGCATT
* * *
25235331 TAAACACTTCAATTTGCAGTACT
1 TAAACACTTCAATTTACAGCATT
* *
25235354 TAAACACTTTAATTTACAACATT
1 TAAACACTTCAATTTACAGCATT
* *
25235377 TAAGCACTTCAATTTAAAGCATT
1 TAAACACTTCAATTTACAGCATT
* *
25235400 TAAACACTTCAATTTGCAGCACT
1 TAAACACTTCAATTTACAGCATT
* *
25235423 TGAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAGCATT
* *
25235446 TAAGCACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCA-TT
* *
25235470 T-AACA-TCTCAATTAACAACATT
1 TAAACACT-TCAATTTACAGCATT
* *
25235492 TATACACCTCAA-TTACAGCGA-T
1 TAAACACTTCAATTTACAGC-ATT
* * **
25235514 AAAACA-TCTCAATTTCCAGCAAC
1 TAAACACT-TCAATTTACAGCATT
* * *
25235537 TAAACACTTCAATTTGCAGTACT
1 TAAACACTTCAATTTACAGCATT
*
25235560 TAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTACAGCATT
* * *
25235583 TAAACAATTTAATTTACAGTATT
1 TAAACACTTCAATTTACAGCATT
25235606 TAAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGCATT
25235629 TAAA
1 TAAA
25235633 TAGCAACAAC
Statistics
Matches: 280, Mismatches: 72, Indels: 35
0.72 0.19 0.09
Matches are distributed among these distances:
20 5 0.02
22 32 0.11
23 229 0.82
24 9 0.03
25 5 0.02
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (23 bp):
TAAACACTTCAATTTACAGCATT
Found at i:25237548 original size:21 final size:18
Alignment explanation
Indices: 25237522--25237560 Score: 51
Period size: 21 Copynumber: 2.0 Consensus size: 18
25237512 CAATTATACA
25237522 TAAAATGCTTAATATCATGAC
1 TAAAATG-TT-ATAT-ATGAC
25237543 TAAAATGTTATATATGAC
1 TAAAATGTTATATATGAC
25237561 CACTAAACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 2 0.11
21 7 0.39
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (18 bp):
TAAAATGTTATATATGAC
Found at i:25239321 original size:40 final size:40
Alignment explanation
Indices: 25239207--25239419 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
25239197 TAAAAAAATA
* * * *
25239207 TTTT-CGGCATTTATGAAAAAATGCCGCTATTGCTTTAGC
1 TTTTGCGGCGTTTATGCAAAAACGCCGCTATTGCTTTACC
* *
25239246 TTTTGCGGCGTTTATGAGAAAAACACCGCTATTGCTTTACC
1 TTTTGCGGCGTTTATG-CAAAAACGCCGCTATTGCTTTACC
* * *
25239287 TTTTGTGGCGTTTATGCAAAAATGCCGCTCTTGCTTTACC
1 TTTTGCGGCGTTTATGCAAAAACGCCGCTATTGCTTTACC
* * * * *
25239327 TTTTTCAGCGTTTATGCAAAAACACCACTAATGCTTTACC
1 TTTTGCGGCGTTTATGCAAAAACGCCGCTATTGCTTTACC
* * * *
25239367 TTTTACGGCATTTATTCAAAAACGCCGCTAATGCTTTACC
1 TTTTGCGGCGTTTATGCAAAAACGCCGCTATTGCTTTACC
*
25239407 TTTTGCGGTGTTT
1 TTTTGCGGCGTTT
25239420 TTAATCCAAA
Statistics
Matches: 145, Mismatches: 27, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 4 0.03
40 106 0.73
41 35 0.24
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (40 bp):
TTTTGCGGCGTTTATGCAAAAACGCCGCTATTGCTTTACC
Found at i:25239394 original size:80 final size:80
Alignment explanation
Indices: 25239207--25239412 Score: 270
Period size: 80 Copynumber: 2.6 Consensus size: 80
25239197 TAAAAAAATA
* * * *
25239207 TTTTCGGCATTTATGAAAAAATGCCGCTATTGCTTTAGCTTTTGCGGCGTTTATGAGAAAAACAC
1 TTTTCGGCATTTATGCAAAAATGCCGCTATTGCTTTACCTTTTGCAGCGTTTATGACAAAAACAC
* *
25239272 CGCTATTGCTTTACC
66 CACTAATGCTTTACC
* * * *
25239287 TTTTGTGGCGTTTATGCAAAAATGCCGCTCTTGCTTTACCTTTTTCAGCGTTTATG-CAAAAACA
1 TTTT-CGGCATTTATGCAAAAATGCCGCTATTGCTTTACCTTTTGCAGCGTTTATGACAAAAACA
25239351 CCACTAATGCTTTACC
65 CCACTAATGCTTTACC
* * *
25239367 TTTTACGGCATTTATTCAAAAACGCCGCTAATGCTTTACCTTTTGC
1 TTTT-CGGCATTTATGCAAAAATGCCGCTATTGCTTTACCTTTTGC
25239413 GGTGTTTTTA
Statistics
Matches: 107, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 63 0.59
81 44 0.41
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.37
Consensus pattern (80 bp):
TTTTCGGCATTTATGCAAAAATGCCGCTATTGCTTTACCTTTTGCAGCGTTTATGACAAAAACAC
CACTAATGCTTTACC
Found at i:25239445 original size:13 final size:13
Alignment explanation
Indices: 25239427--25239454 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
25239417 TTTTTAATCC
25239427 AAATGCCGCTAAA
1 AAATGCCGCTAAA
25239440 AAATGCCGCTAAA
1 AAATGCCGCTAAA
25239453 AA
1 AA
25239455 CCTATTTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.21, G:0.14, T:0.14
Consensus pattern (13 bp):
AAATGCCGCTAAA
Found at i:25253518 original size:111 final size:110
Alignment explanation
Indices: 25253315--25253532 Score: 240
Period size: 111 Copynumber: 2.0 Consensus size: 110
25253305 ATGCATATTT
* * * * * *
25253315 TGTAACAGCCCATTTTTAGTGAAATCGGAATAGTGGTTTTGGGACCACAAATCCTAGCCGGAAAG
1 TGTAACAGCCCATTTTTAGTGAAATCAGAACAGTGGTTTTGGGACAACAAATCCGAGCCGAAAAA
* * **
25253380 GAAATTTGTTTTAATATTATGGCATGGTTTGCATTATGTTAGGAA
66 GAAATTTATTTTAATATTATGACATGGTCCGCATTATGTTAGGAA
* * *
25253425 TGTAACGGCCCATTTTTCAGTGAAATCAGAACAGTGGTTTTGGGACAACAAATTCGATCC-AAAA
1 TGTAACAGCCCATTTTT-AGTGAAATCAGAACAGTGGTTTTGGGACAACAAATCCGAGCCGAAAA
* * * * * *
25253489 ATAAAGTTTATTTTTATCTTATTATATGGTCCGTATTATGTTAG
65 AGAAA-TTTATTTTAATATTATGACATGGTCCGCATTATGTTAG
25253533 ATATGTCGTG
Statistics
Matches: 87, Mismatches: 19, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
110 22 0.25
111 65 0.75
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (110 bp):
TGTAACAGCCCATTTTTAGTGAAATCAGAACAGTGGTTTTGGGACAACAAATCCGAGCCGAAAAA
GAAATTTATTTTAATATTATGACATGGTCCGCATTATGTTAGGAA
Found at i:25254151 original size:20 final size:20
Alignment explanation
Indices: 25254117--25254161 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
25254107 AGGGATTAAA
*
25254117 ATGAAAAGTTGTGAAATTTG
1 ATGAAAAATTGTGAAATTTG
* * *
25254137 ATGAAAAATTTTGAATTTTT
1 ATGAAAAATTGTGAAATTTG
25254157 ATGAA
1 ATGAA
25254162 TACATGTCTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (20 bp):
ATGAAAAATTGTGAAATTTG
Found at i:25256906 original size:41 final size:41
Alignment explanation
Indices: 25256862--25257034 Score: 224
Period size: 41 Copynumber: 4.2 Consensus size: 41
25256852 ACCAAAAATG
* * * *
25256862 CCGCTAAAAACCAGAGCATTAGCGACGCTTTTGGTAAAACG
1 CCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAACA
*
25256903 CCGCTAAAAACTAGAGCATTAGCGGCGCTTTCGATAAAACA
1 CCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAACA
*
25256944 CCGCTAAAAACCAGAGCATTAGCGGCGCTTTC-ATTAATACA
1 CCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGA-TAAAACA
* * *
25256985 CTGCTAAAAATCAAAGCATTAGCGGCGCTTTC-ATTAAAACA
1 CCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGA-TAAAACA
*
25257026 CCGATAAAA
1 CCGCTAAAA
25257035 GTCAGGTAAT
Statistics
Matches: 118, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
40 1 0.01
41 117 0.99
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (41 bp):
CCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAACA
Found at i:25257113 original size:54 final size:54
Alignment explanation
Indices: 25257055--25257161 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 54
25257045 CCCTAAAATC
* *
25257055 CTAAA-CCCTAAAAAATAATAAACACTAATCTATAACCCCTAAAACACTAAACCT
1 CTAAATCCC-AAAAAACAATAAACACTAAACTATAACCCCTAAAACACTAAACCT
* ** ** *
25257109 CTAAATCCCAAAAACCCTTAAACACTAAACTATAACCTTTAAAACCCTAAACC
1 CTAAATCCCAAAAAACAATAAACACTAAACTATAACCCCTAAAACACTAAACC
25257162 CCCAAAAAAC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
54 41 0.93
55 3 0.07
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.21
Consensus pattern (54 bp):
CTAAATCCCAAAAAACAATAAACACTAAACTATAACCCCTAAAACACTAAACCT
Found at i:25260162 original size:24 final size:24
Alignment explanation
Indices: 25260135--25260186 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
25260125 TGCTACCGGA
25260135 ACGGTTCACCGGAGCACCGACGGG
1 ACGGTTCACCGGAGCACCGACGGG
* *
25260159 ACGGTTCGCCGGAGCACCGCCGGG
1 ACGGTTCACCGGAGCACCGACGGG
25260183 ACGG
1 ACGG
25260187 ATCGCCNNNN
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.17, C:0.35, G:0.40, T:0.08
Consensus pattern (24 bp):
ACGGTTCACCGGAGCACCGACGGG
Found at i:25260191 original size:24 final size:24
Alignment explanation
Indices: 25260143--25260192 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
25260133 GAACGGTTCA
*
25260143 CCGGAGCACCGACGGGACGGTTCG
1 CCGGAGCACCGACGGGACGGATCG
*
25260167 CCGGAGCACCGCCGGGACGGATCG
1 CCGGAGCACCGACGGGACGGATCG
25260191 CC
1 CC
25260193 NNNNNNNNNN
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.16, C:0.38, G:0.40, T:0.06
Consensus pattern (24 bp):
CCGGAGCACCGACGGGACGGATCG
Found at i:25268544 original size:49 final size:49
Alignment explanation
Indices: 25268472--25268603 Score: 142
Period size: 49 Copynumber: 2.7 Consensus size: 49
25268462 GCACATCATA
* * * * *
25268472 GTCGATGTCATGTTCCAGGCAGGTTTTACACTGAATTTCATATATTGAG-
1 GTCGATGTCATGTCCCAGACAGGTCTTACACTGAATCTCATATATCG-GT
* * * *
25268521 G-CTGATGTCGTGTCCCAGACAGGTCTTGCACTGACTCTCATCTATCGGT
1 GTC-GATGTCATGTCCCAGACAGGTCTTACACTGAATCTCATATATCGGT
*
25268570 GTCGATGCCATGTCCCAGACAGGTCTTACACTGA
1 GTCGATGTCATGTCCCAGACAGGTCTTACACTGA
25268604 CACACAACAA
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
48 2 0.03
49 65 0.96
50 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.31
Consensus pattern (49 bp):
GTCGATGTCATGTCCCAGACAGGTCTTACACTGAATCTCATATATCGGT
Found at i:25268730 original size:46 final size:45
Alignment explanation
Indices: 25268662--25268787 Score: 166
Period size: 46 Copynumber: 2.8 Consensus size: 45
25268652 TATATCTCGA
* *
25268662 GGCCGATGCATGTCTCAGACATGTCTTACACTAGCTCTCGTCTCAA-T
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AAGT
* *
25268709 -GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAA-GT
25268754 GGCCGATGCATGTCCCAGACATGTCTTACACTAG
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAG
25268788 TACACATATC
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
43 2 0.03
44 1 0.01
45 1 0.01
46 66 0.94
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAGT
Found at i:25273965 original size:48 final size:49
Alignment explanation
Indices: 25273911--25274048 Score: 154
Period size: 48 Copynumber: 2.8 Consensus size: 49
25273901 ATCACTTAAC
* * * * *
25273911 GATGCCGAAGCCATATCCCTGATATGGTTTTATACGGGATCACATATTG
1 GATGCCGATGCCATGTCCCTGATATGGTCTTACACGGGATCACATATCG
* * * * *
25273960 G-TGCCGATGTCATGTCCCAGACATGGTCTTACACGGGATCTCATCTCG
1 GATGCCGATGCCATGTCCCTGATATGGTCTTACACGGGATCACATATCG
*
25274008 GATGCCGATGCCATGT-CCTAGATATGGTCTTACACAGGATC
1 GATGCCGATGCCATGTCCCT-GATATGGTCTTACACGGGATC
25274049 TCATTAACCA
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
48 40 0.55
49 33 0.45
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (49 bp):
GATGCCGATGCCATGTCCCTGATATGGTCTTACACGGGATCACATATCG
Found at i:25274023 original size:49 final size:49
Alignment explanation
Indices: 25273911--25274052 Score: 169
Period size: 49 Copynumber: 2.9 Consensus size: 49
25273901 ATCACTTAAC
* * * * * * *
25273911 GATGCCGAAGCCATATCCCTGATATGGTTTTATACGGGATCACATATTG
1 GATGCCGATGCCATGTCCCAGATATGGTCTTACACGGGATCTCATATCG
* * *
25273960 G-TGCCGATGTCATGTCCCAGACATGGTCTTACACGGGATCTCATCTCG
1 GATGCCGATGCCATGTCCCAGATATGGTCTTACACGGGATCTCATATCG
* *
25274008 GATGCCGATGCCATGTCCTAGATATGGTCTTACACAGGATCTCAT
1 GATGCCGATGCCATGTCCCAGATATGGTCTTACACGGGATCTCAT
25274053 TAACCATGGT
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
48 38 0.49
49 40 0.51
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (49 bp):
GATGCCGATGCCATGTCCCAGATATGGTCTTACACGGGATCTCATATCG
Found at i:25286405 original size:91 final size:92
Alignment explanation
Indices: 25286236--25286433 Score: 254
Period size: 91 Copynumber: 2.2 Consensus size: 92
25286226 TTGGATGCAA
* *
25286236 CCAACAATTGAATAGAACCAATTGCAACAGCCACCAATTGCCGAAAAATAAAAAATAATAGCAGC
1 CCAACAATTGAATAGAACCAATTGCAACAGCCACCAAATGCCGAAAAACAAAAAATAATAGCAGC
25286301 AAGGAACAATTGCAAAGACCTGAAGAG
66 AAGGAACAATTGCAAAGACCTGAAGAG
* * * ** * *
25286328 CCAGCGATTGAATAGAACCAATT-TAGTAGCCACCAAATGCCGAAAAACAAAAAATAATAGTAGT
1 CCAACAATTGAATAGAACCAATTGCAACAGCCACCAAATGCCGAAAAACAAAAAATAATAGCAGC
* * * * **
25286392 AGGGAGCAGTTGCAGAGATGTGAAGAG
66 AAGGAACAATTGCAAAGACCTGAAGAG
25286419 CCAACAATTGAATAG
1 CCAACAATTGAATAG
25286434 CAAAACAGTT
Statistics
Matches: 89, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
91 68 0.76
92 21 0.24
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (92 bp):
CCAACAATTGAATAGAACCAATTGCAACAGCCACCAAATGCCGAAAAACAAAAAATAATAGCAGC
AAGGAACAATTGCAAAGACCTGAAGAG
Found at i:25286899 original size:10 final size:10
Alignment explanation
Indices: 25286884--25286923 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
25286874 CAAAAATCAC
25286884 AAAATAATTT
1 AAAATAATTT
25286894 AAAATAATTTT
1 AAAATAA-TTT
*
25286905 CAAA-AATTT
1 AAAATAATTT
25286914 AAAATAATTT
1 AAAATAATTT
25286924 TTAAAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 6 0.23
10 14 0.54
11 6 0.23
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (10 bp):
AAAATAATTT
Found at i:25286914 original size:20 final size:20
Alignment explanation
Indices: 25286889--25286929 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
25286879 ATCACAAAAT
25286889 AATTTAAAATAATTTTCAAA
1 AATTTAAAATAATTTTCAAA
*
25286909 AATTTAAAATAATTTTTAAA
1 AATTTAAAATAATTTTCAAA
25286929 A
1 A
25286930 TTTTGAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AATTTAAAATAATTTTCAAA
Found at i:25293759 original size:14 final size:14
Alignment explanation
Indices: 25293740--25293767 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25293730 ATGTCACTAT
25293740 AACAAATTTAACAA
1 AACAAATTTAACAA
25293754 AACAAATTTAACAA
1 AACAAATTTAACAA
25293768 TATTAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.21
Consensus pattern (14 bp):
AACAAATTTAACAA
Found at i:25294100 original size:15 final size:14
Alignment explanation
Indices: 25294065--25294103 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
25294055 TTGGGAATAT
25294065 AAAATTTCAAATTAA
1 AAAATTT-AAATTAA
*
25294080 ATAATTTAAATTAA
1 AAAATTTAAATTAA
*
25294094 AAAAATTAAA
1 AAAATTTAAA
25294104 ATGAATGAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAATTTAAATTAA
Found at i:25298686 original size:26 final size:26
Alignment explanation
Indices: 25298657--25298716 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
25298647 TACCCCCAAC
*
25298657 AAAATTTTAACGATATT-TCCCTTGGT
1 AAAATTTTAACGATATTGTCCC-TAGT
* * *
25298683 AAAATTTTGATGATTTTGTCCCTAGT
1 AAAATTTTAACGATATTGTCCCTAGT
25298709 AAAATTTT
1 AAAATTTT
25298717 GAGAAAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 25 0.86
27 4 0.14
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.45
Consensus pattern (26 bp):
AAAATTTTAACGATATTGTCCCTAGT
Found at i:25299811 original size:21 final size:21
Alignment explanation
Indices: 25299787--25299826 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25299777 CCATATTTTC
*
25299787 TTTTATTTCACATTTTTACTA
1 TTTTATTTCACACTTTTACTA
* *
25299808 TTTTGTTTTACACTTTTAC
1 TTTTATTTCACACTTTTAC
25299827 AAACAAGTCC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.15, G:0.03, T:0.62
Consensus pattern (21 bp):
TTTTATTTCACACTTTTACTA
Found at i:25300307 original size:33 final size:33
Alignment explanation
Indices: 25300265--25300328 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
25300255 GGTCAAATTG
*
25300265 TTAATTAGGACCCTTTAATTCAATATCTAATGC
1 TTAATTAGGACCCTCTAATTCAATATCTAATGC
25300298 TTAATTAGGACCCTCTAATTCAATATCTAAT
1 TTAATTAGGACCCTCTAATTCAATATCTAAT
25300329 ACAATTTCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (33 bp):
TTAATTAGGACCCTCTAATTCAATATCTAATGC
Found at i:25308673 original size:48 final size:47
Alignment explanation
Indices: 25308555--25308721 Score: 192
Period size: 48 Copynumber: 3.4 Consensus size: 47
25308545 ACAATTCATT
** *
25308555 TCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGCTGATGCAATG
1 TCCCAGACATGGTCTTACACTGGCT-TCATA-A-CAATGCTGATGCCATG
**
25308605 TCCCAGACATGGTCTTACACTGGCTTACATAACAATGCCAATGCCATG
1 TCCCAGACATGGTCTTACACTGGCTT-CATAACAATGCTGATGCCATG
* *
25308653 TCCCAGACATGGTCTTACACTAAGCCTCATAACAATGCTGATGCCATGG
1 TCCCAGACATGGTCTTACACT-GGCTTCATAACAATGCTGATGCCAT-G
* *
25308702 T-CCAAACATAGTCTTACACT
1 TCCCAGACATGGTCTTACACT
25308722 AGCTCGCATA
Statistics
Matches: 103, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
48 67 0.65
49 7 0.07
50 29 0.28
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (47 bp):
TCCCAGACATGGTCTTACACTGGCTTCATAACAATGCTGATGCCATG
Found at i:25319223 original size:14 final size:14
Alignment explanation
Indices: 25319204--25319231 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25319194 ATTCGGTAAA
25319204 TTCCTTAAATTACT
1 TTCCTTAAATTACT
25319218 TTCCTTAAATTACT
1 TTCCTTAAATTACT
25319232 AAAAAAGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (14 bp):
TTCCTTAAATTACT
Found at i:25321129 original size:3 final size:3
Alignment explanation
Indices: 25321121--25321146 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
25321111 GGACCCACAC
25321121 CCA CCA CCA CCA CCA CCA CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CC
25321147 TAGTCATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.69, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:25328275 original size:22 final size:22
Alignment explanation
Indices: 25328241--25328282 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
25328231 TATATTCCTA
*
25328241 AATATATGCCTAAAATATATAC
1 AATATATGCCTAAAAGATATAC
**
25328263 AATATATTTCTAAAAGATAT
1 AATATATGCCTAAAAGATAT
25328283 CCCATTATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.36
Consensus pattern (22 bp):
AATATATGCCTAAAAGATATAC
Found at i:25334054 original size:22 final size:22
Alignment explanation
Indices: 25334026--25334067 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
25334016 TATATTCCTA
*
25334026 AATATATGCCTAAAATATATAC
1 AATATATGCCTAAAAGATATAC
*
25334048 AATATATTCCTAAAAGATAT
1 AATATATGCCTAAAAGATAT
25334068 CCCATTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (22 bp):
AATATATGCCTAAAAGATATAC
Found at i:25336000 original size:49 final size:50
Alignment explanation
Indices: 25335928--25336152 Score: 206
Period size: 49 Copynumber: 4.5 Consensus size: 50
25335918 TGAGGTCACG
*
25335928 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGGTAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCGCA
* * * ** * * ***
25335977 TGTGTAGTACTAAGTACAGGCTACTATGCGTACCCAATAACTTCGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TTAGGTCGCA
* * * * **
25336028 TGTGTAGTGCTAAGTGCAGGCAACTACGTGTATCAGATGGTTAGGTAACGC-
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGT--CGCA
* *
25336079 -GTGTAGTACTAAGTGCAGGCTACTACATGTACTGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCGCA
* *
25336127 TGTGTAGTACTATGTGCGGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
25336153 TGCATACCAG
Statistics
Matches: 136, Mismatches: 34, Indels: 12
0.75 0.19 0.07
Matches are distributed among these distances:
47 3 0.02
49 60 0.44
50 39 0.29
51 33 0.24
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCGCA
Found at i:25336200 original size:150 final size:150
Alignment explanation
Indices: 25335920--25336202 Score: 365
Period size: 150 Copynumber: 1.9 Consensus size: 150
25335910 TGTTATTGTG
* * * *
25335920 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGGTAATTGGTCGCATGTGTAGT
1 AGGTAACGCGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGT
* * ***
25335985 ACTAAGTACAGGCTACTATGCGTACCCAATAACTTCGATCATGTGTGTAGTGCTAAGTGCAGGCA
66 ACTAAGTACAGGCTACTATGCATACCCAATAACTTCGATCAAGTGTGTAGAAATAAGTGCAGGCA
25336050 ACTACGTGTATCAGATGGTT
131 ACTACGTGTATCAGATGGTT
*
25336070 AGGTAACGCGTGTAGTACTAAGTGCAGGCTACTACATGTACTGGATAATTGGTCGCATGTGTAGT
1 AGGTAACGCGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGT
* * * * * * *
25336135 ACTATGTGCGGGCTACTATGCATA-CCAGATAGCTTTGGTTACAAGTGTG-A-AAATATGTGCAG
66 ACTAAGTACAGGCTACTATGCATACCCA-ATAAC-TTCGAT-CAAGTGTGTAGAAATAAGTGCAG
25336197 GCAACT
128 GCAACT
25336203 GAGTATCATA
Statistics
Matches: 113, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
149 3 0.03
150 98 0.87
151 5 0.04
152 7 0.06
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (150 bp):
AGGTAACGCGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGT
ACTAAGTACAGGCTACTATGCATACCCAATAACTTCGATCAAGTGTGTAGAAATAAGTGCAGGCA
ACTACGTGTATCAGATGGTT
Found at i:25340124 original size:17 final size:19
Alignment explanation
Indices: 25340092--25340126 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
25340082 ACGTTTGGAT
25340092 ACTAAATTTAGTAAAAAGG
1 ACTAAATTTAGTAAAAAGG
25340111 ACTAAA-TT-GTAAAAAG
1 ACTAAATTTAGTAAAAAG
25340127 TGCAAAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.26
Consensus pattern (19 bp):
ACTAAATTTAGTAAAAAGG
Found at i:25341247 original size:49 final size:49
Alignment explanation
Indices: 25341171--25341344 Score: 206
Period size: 49 Copynumber: 3.5 Consensus size: 49
25341161 TGAGGTCACG
*
25341171 TGTGTAGTACTAAGTGCAGGCTGCTACGTGTACCGGATAATTGGTAGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTAGCA
* * * ** * *
25341220 TGTGTAGTACTAAGTGCAGGCTACTACGTGCATCAGATGGTGAGGTCA-CG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAAT-TGGT-AGCA
* * *
25341270 TATGTAGTACTAAGTGCGGGCTACTACGTGTACCGGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTAGCA
* *
25341319 TGTGTAGTACTATGTGCAAGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
25341345 TGCATACCAG
Statistics
Matches: 100, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
49 61 0.61
50 38 0.38
51 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTAGCA
Found at i:25341336 original size:99 final size:99
Alignment explanation
Indices: 25341160--25341344 Score: 316
Period size: 99 Copynumber: 1.9 Consensus size: 99
25341150 ATGATCTATT
* *
25341160 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTGCTACGTGTACCGGATAATTGGTAGCATGTGT
1 GTGAGGTCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTAGCATGTGT
*
25341225 AGTACTAAGTGCAGGCTACTACGTGCATCAGATG
66 AGTACTAAGTGCAAGCTACTACGTGCATCAGATG
* *
25341259 GTGAGGTCACGTATGTAGTACTAAGTGCGGGCTACTACGTGTACCGGATAATTGGTTGCATGTGT
1 GTGAGGTCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTAGCATGTGT
*
25341324 AGTACTATGTGCAAGCTACTA
66 AGTACTAAGTGCAAGCTACTA
25341345 TGCATACCAG
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 80 1.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (99 bp):
GTGAGGTCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTAGCATGTGT
AGTACTAAGTGCAAGCTACTACGTGCATCAGATG
Found at i:25345812 original size:22 final size:22
Alignment explanation
Indices: 25345771--25345845 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
25345761 TACCTAGTAA
* * *
25345771 GAGCTTATTGTTTCAACTCATTG
1 GAGCTTACTG-TTCAGCTCAATG
*
25345794 GAGCTTACTGTTCAGCTCAATA
1 GAGCTTACTGTTCAGCTCAATG
* *
25345816 GAGCTTACTATTCAGCTCAAAG
1 GAGCTTACTGTTCAGCTCAATG
25345838 GAGCTTAC
1 GAGCTTAC
25345846 CAACCATCAC
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
22 36 0.80
23 9 0.20
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (22 bp):
GAGCTTACTGTTCAGCTCAATG
Found at i:25348152 original size:27 final size:27
Alignment explanation
Indices: 25348134--25348492 Score: 343
Period size: 27 Copynumber: 13.1 Consensus size: 27
25348124 AGGCATCCCC
25348134 TTTATAGATCACCACAAAGGCTTCCTT
1 TTTATAGATCACCACAAAGGCTTCCTT
*
25348161 TTTATAGATCACCACAAAGACTTCCTT
1 TTTATAGATCACCACAAAGGCTTCCTT
* * *
25348188 TTTAGAGATCGCCACAAAGGCTTCCTA
1 TTTATAGATCACCACAAAGGCTTCCTT
* *
25348215 TTCATAGATTC-CCACAAAGGCTTCATT
1 TTTATAGA-TCACCACAAAGGCTTCCTT
* *
25348242 TTCATAGATAGCCACACCACAAAGGCTTTCTT
1 TTTATAGAT-----CACCACAAAGGCTTCCTT
** *
25348274 TTTATAGATTGCTACAAAGGCTTCCTT
1 TTTATAGATCACCACAAAGGCTTCCTT
* *
25348301 TTCA-ATGAT-AGCTACAAAGGCTTCCTT
1 TTTATA-GATCA-CCACAAAGGCTTCCTT
* *
25348328 TTCATAGATCACTACAAAGGCTTCCTT
1 TTTATAGATCACCACAAAGGCTTCCTT
* * *
25348355 TTCATTGAT-AGGCACAAAGGCTTCCTT
1 TTTATAGATCA-CCACAAAGGCTTCCTT
* *
25348382 TTCATAGATCACTACAAAGGCTTCCTT
1 TTTATAGATCACCACAAAGGCTTCCTT
* *
25348409 TTCATTGAT-AGCCACAAAGGCTTCCTT
1 TTTATAGATCA-CCACAAAGGCTTCCTT
* *
25348436 TTCATTGAT-AGCCACAAAGGCTTCCTT
1 TTTATAGATCA-CCACAAAGGCTTCCTT
* *
25348463 TTCATAGATCACCATAAAGGCTTCCTT
1 TTTATAGATCACCACAAAGGCTTCCTT
25348490 TTT
1 TTT
25348493 TGGCCTATTT
Statistics
Matches: 288, Mismatches: 29, Indels: 30
0.83 0.08 0.09
Matches are distributed among these distances:
26 4 0.01
27 255 0.89
28 6 0.02
31 1 0.00
32 22 0.08
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (27 bp):
TTTATAGATCACCACAAAGGCTTCCTT
Found at i:25348212 original size:54 final size:54
Alignment explanation
Indices: 25348137--25348491 Score: 392
Period size: 54 Copynumber: 6.5 Consensus size: 54
25348127 CATCCCCTTT
* * * *
25348137 ATAGATCACCACAAAGGCTTCCTTTTTATAGATCACCACAAAGACTTCCTTTTT
1 ATAGATCGCCACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCCTTTTC
* * *
25348191 AGAGATCGCCACAAAGGCTTCCTATTCATAGATTC-CCACAAAGGCTTCATTTTC
1 ATAGATCGCCACAAAGGCTTCCTTTTCATAGA-TCACCACAAAGGCTTCCTTTTC
* * * ** *
25348245 ATAGATAGCCACACCACAAAGGCTTTCTTTTTATAGATTGCTACAAAGGCTTCCTTTTC
1 ATAGAT-----CGCCACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCCTTTTC
* * *
25348304 A-ATGATAGCTACAAAGGCTTCCTTTTCATAGATCACTACAAAGGCTTCCTTTTC
1 ATA-GATCGCCACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCCTTTTC
* * * *
25348358 ATTGATAGGCACAAAGGCTTCCTTTTCATAGATCACTACAAAGGCTTCCTTTTC
1 ATAGATCGCCACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCCTTTTC
* * *
25348412 ATTGATAGCCACAAAGGCTTCCTTTTCATTGAT-AGCCACAAAGGCTTCCTTTTC
1 ATAGATCGCCACAAAGGCTTCCTTTTCATAGATCA-CCACAAAGGCTTCCTTTTC
* *
25348466 ATAGATCACCATAAAGGCTTCCTTTT
1 ATAGATCGCCACAAAGGCTTCCTTTT
25348492 TTGGCCTATT
Statistics
Matches: 259, Mismatches: 32, Indels: 20
0.83 0.10 0.06
Matches are distributed among these distances:
53 1 0.00
54 211 0.81
55 2 0.01
58 2 0.01
59 43 0.17
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (54 bp):
ATAGATCGCCACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCCTTTTC
Found at i:25348257 original size:81 final size:81
Alignment explanation
Indices: 25348137--25348491 Score: 430
Period size: 81 Copynumber: 4.3 Consensus size: 81
25348127 CATCCCCTTT
* * * * *
25348137 ATAGATCACCACAAAGGCTTCCTTTTTATAGATCACCACAAAGACTTCCTTTTTAGAGATCGCCA
1 ATAGATCACCACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCCTTTTCATAGATAGCCA
*
25348202 CAAAGGCTTCCTATTC
66 CAAAGGCTTCCTTTTC
* * *
25348218 ATAGATTC-CCACAAAGGCTTCATTTTCATAGATAGCCACACCACAAAGGCTTTCTTTTTATAGA
1 ATAGA-TCACCACAAAGGCTTCCTTTTCATAGAT-----CACCACAAAGGCTTCCTTTTCATAGA
* *
25348282 TTGCTACAAAGGCTTCCTTTTC
60 TAGCCACAAAGGCTTCCTTTTC
* * * *
25348304 A-ATGAT-AGCTACAAAGGCTTCCTTTTCATAGATCACTACAAAGGCTTCCTTTTCATTGATAGG
1 ATA-GATCA-CCACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCCTTTTCATAGATAGC
25348367 CACAAAGGCTTCCTTTTC
64 CACAAAGGCTTCCTTTTC
* * *
25348385 ATAGATCACTACAAAGGCTTCCTTTTCATTGAT-AGCCACAAAGGCTTCCTTTTCATTGATAGCC
1 ATAGATCACCACAAAGGCTTCCTTTTCATAGATCA-CCACAAAGGCTTCCTTTTCATAGATAGCC
25348449 ACAAAGGCTTCCTTTTC
65 ACAAAGGCTTCCTTTTC
*
25348466 ATAGATCACCATAAAGGCTTCCTTTT
1 ATAGATCACCACAAAGGCTTCCTTTT
25348492 TTGGCCTATT
Statistics
Matches: 240, Mismatches: 22, Indels: 24
0.84 0.08 0.08
Matches are distributed among these distances:
80 1 0.00
81 165 0.69
82 4 0.02
85 2 0.01
86 68 0.28
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (81 bp):
ATAGATCACCACAAAGGCTTCCTTTTCATAGATCACCACAAAGGCTTCCTTTTCATAGATAGCCA
CAAAGGCTTCCTTTTC
Found at i:25360566 original size:46 final size:46
Alignment explanation
Indices: 25360499--25360640 Score: 284
Period size: 46 Copynumber: 3.1 Consensus size: 46
25360489 TGTTAGAGTG
25360499 CTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCA
1 CTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCA
25360545 CTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCA
1 CTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCA
25360591 CTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCA
1 CTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCA
25360637 CTTA
1 CTTA
25360641 GGGGCGGGTT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 96 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
CTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCA
Found at i:25367318 original size:27 final size:27
Alignment explanation
Indices: 25367277--25367467 Score: 176
Period size: 27 Copynumber: 7.1 Consensus size: 27
25367267 GGTCGTTAAG
*
25367277 ACCCC-AGTTTGTAAAATTACCAAAAT
1 ACCCCTAGTTTGTAAAATTACCGAAAT
*
25367303 ACCCCTAGTTTATAAAATTACCGAAAT
1 ACCCCTAGTTTGTAAAATTACCGAAAT
*
25367330 ACCCCTAATTTGTAAAATTACCGAAAT
1 ACCCCTAGTTTGTAAAATTACCGAAAT
* * *
25367357 A-CCCTCGATTTATAAAATTATCGAAAT
1 ACCCCTAG-TTTGTAAAATTACCGAAAT
* * *
25367384 ACCGCC-AATTTTTAAAATTATCGAAAT
1 ACC-CCTAGTTTGTAAAATTACCGAAAT
* **
25367411 A-CCCTCGATTTGTAAAATTACTAAAAT
1 ACCCCTAG-TTTGTAAAATTACCGAAAT
* * *
25367438 A-ACCTTGTAGTGTAAAATTACCGAAAT
1 ACCCCTAGT-TTGTAAAATTACCGAAAT
25367465 ACC
1 ACC
25367468 TTGTAGTGTA
Statistics
Matches: 134, Mismatches: 23, Indels: 14
0.78 0.13 0.08
Matches are distributed among these distances:
25 2 0.01
26 11 0.08
27 118 0.88
28 1 0.01
29 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
ACCCCTAGTTTGTAAAATTACCGAAAT
Found at i:25367358 original size:54 final size:54
Alignment explanation
Indices: 25367284--25367467 Score: 212
Period size: 54 Copynumber: 3.4 Consensus size: 54
25367274 AAGACCCCAG
* *
25367284 TTTGTAAAATTACCAAAATACCC-CTAGTTTATAAAATTACCGAAATACCCCTAA
1 TTTGTAAAATTACCGAAATACCCTCGA-TTTATAAAATTACCGAAATACCCCTAA
*
25367338 TTTGTAAAATTACCGAAATACCCTCGATTTATAAAATTATCGAAATACCGCC-AA
1 TTTGTAAAATTACCGAAATACCCTCGATTTATAAAATTACCGAAATACC-CCTAA
* * * ** * **
25367392 TTTTTAAAATTATCGAAATACCCTCGATTTGTAAAATTACTAAAATA-ACCTTG
1 TTTGTAAAATTACCGAAATACCCTCGATTTATAAAATTACCGAAATACCCCTAA
*
25367445 TAGTGTAAAATTACCGAAATACC
1 T-TTGTAAAATTACCGAAATACC
25367468 TTGTAGTGTA
Statistics
Matches: 111, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 104 0.94
55 4 0.04
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (54 bp):
TTTGTAAAATTACCGAAATACCCTCGATTTATAAAATTACCGAAATACCCCTAA
Found at i:25367454 original size:81 final size:81
Alignment explanation
Indices: 25367286--25367467 Score: 208
Period size: 81 Copynumber: 2.2 Consensus size: 81
25367276 GACCCCAGTT
* *
25367286 TGTAAAATTACCAAAATACCCCTAGTTTATAAAATTACCGAAATACCCCTAATTTGTAAAATTAC
1 TGTAAAATTACCGAAATACCCCTAATTTATAAAATTACCGAAATACCCCTAATTTGTAAAATTAC
* * *
25367351 CGAAATACCCTCGATT
66 CAAAATAACCTCGATG
* * * * *
25367367 TATAAAATTATCGAAATACCGCC-AATTTTTAAAATTATCGAAATA-CCCTCGATTTGTAAAATT
1 TGTAAAATTACCGAAATACC-CCTAATTTATAAAATTACCGAAATACCCCT-AATTTGTAAAATT
* *
25367430 ACTAAAATAACCTTG-TAG
64 ACCAAAATAACCTCGAT-G
25367448 TGTAAAATTACCGAAATACC
1 TGTAAAATTACCGAAATACC
25367468 TTGTAGTGTA
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
80 5 0.06
81 77 0.92
82 2 0.02
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (81 bp):
TGTAAAATTACCGAAATACCCCTAATTTATAAAATTACCGAAATACCCCTAATTTGTAAAATTAC
CAAAATAACCTCGATG
Found at i:25367475 original size:26 final size:26
Alignment explanation
Indices: 25367421--25367500 Score: 106
Period size: 26 Copynumber: 3.0 Consensus size: 26
25367411 ACCCTCGATT
**
25367421 TGTAAAATTACTAAAATAACCTTGTAG
1 TGTAAAATTACCGAAAT-ACCTTGTAG
25367448 TGTAAAATTACCGAAATACCTTGTAG
1 TGTAAAATTACCGAAATACCTTGTAG
* *
25367474 TGTAAAATTATCGAAATATCCCTGTAG
1 TGTAAAATTACCGAAATA-CCTTGTAG
25367501 GGTAGAATGA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 26 0.54
27 22 0.46
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (26 bp):
TGTAAAATTACCGAAATACCTTGTAG
Found at i:25371882 original size:43 final size:42
Alignment explanation
Indices: 25371788--25371896 Score: 112
Period size: 43 Copynumber: 2.6 Consensus size: 42
25371778 ACTTATGATT
*
25371788 TACATGTAAGACCAAGTCTGGGACATCGGCATCATATTTGAT
1 TACATGTAAGACCAAGTCTGGGACATCGGCATCATATTTGAG
*** ** *
25371830 TTTGTGTAAGACCCTGTCTGGGACAGT-GTCATCGATATTTGAG
1 TACATGTAAGACCAAGTCTGGGACA-TCGGCATC-ATATTTGAG
* *
25371873 TACATGTAAGACCACGCCTGGGAC
1 TACATGTAAGACCAAGTCTGGGAC
25371897 GTTGGCATTT
Statistics
Matches: 52, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
42 25 0.48
43 27 0.52
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (42 bp):
TACATGTAAGACCAAGTCTGGGACATCGGCATCATATTTGAG
Found at i:25377863 original size:37 final size:37
Alignment explanation
Indices: 25377810--25377912 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
25377800 CGAATAGTCC
*
25377810 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
25377847 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
25377884 CCACACGTAGTCATCGGGTCTTACTCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
25377913 ATATATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:25378212 original size:98 final size:98
Alignment explanation
Indices: 25378053--25378298 Score: 379
Period size: 98 Copynumber: 2.5 Consensus size: 98
25378043 ATATACACAC
* * * * * * * *
25378053 ATCTCCTACATATTTCACATTAGCTATTCAGCTTTTCCA-A-ATATACATATCTTATACATATTT
1 ATCTCATACATATATCACACTAGCCATTCGGCTTTACCACACATATATATATCTCATACATATTT
25378116 CACACTAGCCATTCGGCTTTACCACATATACAT
66 CACACTAGCCATTCGGCTTTACCACATATACAT
*
25378149 ATCTCATACATATATCACACTAGCCATTCGGCTTTACCACACACATATATATCTCATACATATTT
1 ATCTCATACATATATCACACTAGCCATTCGGCTTTACCACACATATATATATCTCATACATATTT
* *
25378214 CATATTAGCCATTCGGCTTTACCACATATACAT
66 CACACTAGCCATTCGGCTTTACCACATATACAT
25378247 ATCTCATACATATATCACACTAGCCATTCGGCTTTACCACACATATATATAT
1 ATCTCATACATATATCACACTAGCCATTCGGCTTTACCACACATATATATAT
25378299 TTATCTTGTA
Statistics
Matches: 136, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
96 33 0.24
97 1 0.01
98 102 0.75
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.35
Consensus pattern (98 bp):
ATCTCATACATATATCACACTAGCCATTCGGCTTTACCACACATATATATATCTCATACATATTT
CACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:25378286 original size:48 final size:48
Alignment explanation
Indices: 25378053--25378296 Score: 335
Period size: 48 Copynumber: 5.0 Consensus size: 48
25378043 ATATACACAC
* * * * * *
25378053 ATCTCCTACATATTTCACATTAGCTATTCAGCTTTTCCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
25378101 ATCTTATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
25378149 ATCTCATACATATATCACACTAGCCATTCGGCTTTACCACACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTA-C-CACATATACAT
* *
25378199 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
25378247 ATCTCATACATATATCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
25378295 AT
1 AT
25378297 ATTTATCTTG
Statistics
Matches: 173, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
48 129 0.75
49 2 0.01
50 42 0.24
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:25388710 original size:34 final size:35
Alignment explanation
Indices: 25388645--25388715 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 35
25388635 GTAACTATAA
** * *
25388645 TGGGCTATGGCCCACACTGATACTGTTATTGT-AT
1 TGGGCTAAAGCCCACACTGAAACTGTGATTGTCAT
25388679 TGGGCTAAAGCCCACACTGAAAACTG-GATTGTCAT
1 TGGGCTAAAGCCCACACTG-AAACTGTGATTGTCAT
25388714 TG
1 TG
25388716 ATATGGGCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
34 22 0.71
35 9 0.29
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (35 bp):
TGGGCTAAAGCCCACACTGAAACTGTGATTGTCAT
Found at i:25399665 original size:30 final size:30
Alignment explanation
Indices: 25399631--25399691 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
25399621 TCCTTAACTC
25399631 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
25399661 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
25399691 A
1 A
25399692 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:25403838 original size:30 final size:30
Alignment explanation
Indices: 25403804--25403864 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
25403794 TCATTAACTC
25403804 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
25403834 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
25403864 A
1 A
25403865 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:25406461 original size:3 final size:3
Alignment explanation
Indices: 25406453--25406481 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
25406443 TCCAGGTAAG
25406453 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
25406482 CATTCTTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:25407384 original size:14 final size:14
Alignment explanation
Indices: 25407365--25407431 Score: 98
Period size: 14 Copynumber: 4.7 Consensus size: 14
25407355 CCAGAAAAGT
25407365 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
25407379 AAATCATTTTTCAAG
1 AAATCA-TTTTCCAG
*
25407394 AAATTATTTTCCAG
1 AAATCATTTTCCAG
25407408 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
25407422 AAAACATTTT
1 AAATCATTTT
25407432 ACCTGCAAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 35 0.74
15 12 0.26
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:25414087 original size:16 final size:16
Alignment explanation
Indices: 25414066--25414098 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25414056 TAGAGGTGGA
25414066 AGAAAATGG-GACAGGG
1 AGAAAA-GGAGACAGGG
25414082 AGAAAAGGAGACAGGG
1 AGAAAAGGAGACAGGG
25414098 A
1 A
25414099 ACTGCTCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.48, C:0.06, G:0.42, T:0.03
Consensus pattern (16 bp):
AGAAAAGGAGACAGGG
Found at i:25431894 original size:16 final size:15
Alignment explanation
Indices: 25431868--25431898 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
25431858 ATTAGATCAG
25431868 CAAAAGCTGAAAAGC
1 CAAAAGCTGAAAAGC
25431883 CAAAATGCTGAAAAGC
1 CAAAA-GCTGAAAAGC
25431899 TGAAAGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.52, C:0.19, G:0.19, T:0.10
Consensus pattern (15 bp):
CAAAAGCTGAAAAGC
Found at i:25432157 original size:29 final size:28
Alignment explanation
Indices: 25432115--25432175 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 28
25432105 GTTAGCATGA
25432115 ATATAAGGTGATTTGGGCCTAACAGGCC
1 ATATAAGGTGATTTGGGCCTAACAGGCC
* *
25432143 ATATAAAGGTTATTTGGGCCTAATAGGCC
1 ATAT-AAGGTGATTTGGGCCTAACAGGCC
25432172 ATAT
1 ATAT
25432176 GAATATGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 4 0.13
29 26 0.87
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (28 bp):
ATATAAGGTGATTTGGGCCTAACAGGCC
Found at i:25432188 original size:29 final size:29
Alignment explanation
Indices: 25432122--25432238 Score: 117
Period size: 29 Copynumber: 4.0 Consensus size: 29
25432112 TGAATATAAG
* * * *
25432122 GTGATTTGGGCCTAACAGGCCATATAAAG
1 GTGAATTGGGCCTAATAAGCCATATAAAT
* * * *
25432151 GTTATTTGGGCCTAATAGGCCATATGAAT
1 GTGAATTGGGCCTAATAAGCCATATAAAT
* * * *
25432180 ATGAATTGGGTCTGATAAGCCATAAAAAT
1 GTGAATTGGGCCTAATAAGCCATATAAAT
*
25432209 GTGAATTGGGCCTAATAAGCCATATGAAT
1 GTGAATTGGGCCTAATAAGCCATATAAAT
25432238 G
1 G
25432239 AGATGGGCCA
Statistics
Matches: 71, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (29 bp):
GTGAATTGGGCCTAATAAGCCATATAAAT
Found at i:25444539 original size:7 final size:7
Alignment explanation
Indices: 25444529--25444559 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
25444519 TAGAGAGAAT
25444529 GATGAGG
1 GATGAGG
25444536 GATGAGG
1 GATGAGG
*
25444543 GATGATG
1 GATGAGG
25444550 GATGAGG
1 GATGAGG
25444557 GAT
1 GAT
25444560 CAAATGAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.52, T:0.19
Consensus pattern (7 bp):
GATGAGG
Found at i:25446618 original size:40 final size:40
Alignment explanation
Indices: 25446555--25446686 Score: 210
Period size: 40 Copynumber: 3.3 Consensus size: 40
25446545 ATTATTTTTG
* * * *
25446555 GCACTTAGTGTGCATATCAAGATAACTTCGGCTATATAAA
1 GCACTTAGTGTGCGTATCGAGATAGCTTCAGCTATATAAA
*
25446595 GCACTTAGTGTGCGTATTGAGATAGCTTCAGCTATATAAA
1 GCACTTAGTGTGCGTATCGAGATAGCTTCAGCTATATAAA
*
25446635 GCACTTAATGTGCGTATCGAGATAGCTTCAGCTATATAAA
1 GCACTTAGTGTGCGTATCGAGATAGCTTCAGCTATATAAA
25446675 GCACTTAGTGTG
1 GCACTTAGTGTG
25446687 GGAGACTGAG
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 84 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (40 bp):
GCACTTAGTGTGCGTATCGAGATAGCTTCAGCTATATAAA
Found at i:25446640 original size:80 final size:81
Alignment explanation
Indices: 25446555--25446727 Score: 233
Period size: 80 Copynumber: 2.1 Consensus size: 81
25446545 ATTATTTTTG
* * * *
25446555 GCACTTAGTGTGCATATCAAGATAACTTCGGCTATATAAAGCACTTAGTGTGCG-TATTGAGATA
1 GCACTTAATGTGCATATCAAGATAACTTCAGCTATATAAAGCACTTAGTGTGCGAGACTGAGATA
25446619 GCTTCAGCTAT-ATAAA
66 GCTTCAGCTATGA-AAA
* * * *
25446635 GCACTTAATGTGCGTATCGAGATAGCTTCAGCTATATAAAGCACTTAGTGTGGGAGACTGAGATA
1 GCACTTAATGTGCATATCAAGATAACTTCAGCTATATAAAGCACTTAGTGTGCGAGACTGAGATA
* *
25446700 GCTTCGGCTATGAAAG
66 GCTTCAGCTATGAAAA
25446716 GCACTTAATGTG
1 GCACTTAATGTG
25446728 TGAGATTATA
Statistics
Matches: 81, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 48 0.59
81 32 0.40
82 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (81 bp):
GCACTTAATGTGCATATCAAGATAACTTCAGCTATATAAAGCACTTAGTGTGCGAGACTGAGATA
GCTTCAGCTATGAAAA
Found at i:25451093 original size:18 final size:18
Alignment explanation
Indices: 25451066--25451108 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
25451056 CTTCAAAAAT
*
25451066 AATT-AAAAGAAAGATAA
1 AATTAAAAAGAAAAATAA
25451083 AATTAAAAAGAAAAATAA
1 AATTAAAAAGAAAAATAA
*
25451101 AAATAAAA
1 AATTAAAA
25451109 TTAAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (18 bp):
AATTAAAAAGAAAAATAA
Found at i:25451114 original size:18 final size:17
Alignment explanation
Indices: 25451066--25451118 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
25451056 CTTCAAAAAT
*
25451066 AATTAAAAGAAAGATAA
1 AATTAAAAGAAAAATAA
25451083 AATTAAAAAGAAAAATAA
1 AATT-AAAAGAAAAATAA
* **
25451101 AAATAAAATTAAAATAA
1 AATTAAAAGAAAAATAA
25451118 A
1 A
25451119 TAAATGGACT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 16 0.52
18 15 0.48
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (17 bp):
AATTAAAAGAAAAATAA
Found at i:25458598 original size:43 final size:42
Alignment explanation
Indices: 25458549--25458631 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
25458539 TCTTACATGT
* *
25458549 AATCAAATATCGATG-TGACGGTCCCAGACAGGGTCTTACACAA
1 AATCAAATA-CGATGCCGA-GGTCCCAAACAGGGTCTTACACAA
* *
25458592 AATCAAATACGATGCCGATGTCCCAAACATGGTCTTACAC
1 AATCAAATACGATGCCGAGGTCCCAAACAGGGTCTTACAC
25458632 GTAAATCATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 24 0.69
43 11 0.31
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (42 bp):
AATCAAATACGATGCCGAGGTCCCAAACAGGGTCTTACACAA
Found at i:25458638 original size:43 final size:43
Alignment explanation
Indices: 25458518--25458676 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
25458508 AGCTCGTACA
* * * *
25458518 ATGCCAACGTCCTAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCGACGTCCCAGACATGGTCTTACACGTAAATCAAATA-CG
* * *
25458561 ATG-TGACGGTCCCAGACAGGGTCTTACAC-AAAATCAAATACG
1 ATGCCGAC-GTCCCAGACATGGTCTTACACGTAAATCAAATACG
* *
25458603 ATGCCGATGTCCCAAACATGGTCTTACACGTAAATCATAAGT-CG
1 ATGCCGACGTCCCAGACATGGTCTTACACGTAAATCA-AA-TACG
* * *
25458647 ATGCCAACGTCCCAGACGTTGTCTTACACG
1 ATGCCGACGTCCCAGACATGGTCTTACACG
25458677 AAAACACATA
Statistics
Matches: 93, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
42 26 0.28
43 37 0.40
44 29 0.31
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCGACGTCCCAGACATGGTCTTACACGTAAATCAAATACG
Found at i:25462773 original size:27 final size:26
Alignment explanation
Indices: 25462733--25462844 Score: 98
Period size: 27 Copynumber: 4.2 Consensus size: 26
25462723 AGGAAGCGTC
*
25462733 CTGGCGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* *
25462760 CTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
* *
25462787 CTGGTGGCTCTACCACGATTATCTGTAT
1 CTGGTGGCTATGCCAC-ATTATCTG-AT
* * ** *
25462815 CTGGTGACTCTATCACATTATCTGTT
1 CTGGTGGCTATGCCACATTATCTGAT
25462841 CTGG
1 CTGG
25462845 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 7 0.10
27 49 0.67
28 17 0.23
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTATGCCACATTATCTGAT
Found at i:25464515 original size:822 final size:822
Alignment explanation
Indices: 25462932--25464576 Score: 3263
Period size: 822 Copynumber: 2.0 Consensus size: 822
25462922 TGGGGGTGCA
25462932 TATGGTTCGATATGGGTTGGGTTTTGCATAAGCATGTAATATCTGTTCTGATCTGTTATGGGCCT
1 TATGGTTCGATATGGGTTGGGTTTTGCATAAGCATGTAATATCTGTTCTGATCTGTTATGGGCCT
25462997 ATGGGCTTTATTCTGAATTCTATTCTGGGCTAAGGCCAACTCGTTCTGTTTTCTGTGGTTTGAAC
66 ATGGGCTTTATTCTGAATTCTATTCTGGGCTAAGGCCAACTCGTTCTGTTTTCTGTGGTTTGAAC
25463062 CGATATAGGCTATGGTTAGGTTAAGTTACACACTGAGTTTCCCCAAACTCACCCTTTTATTTTCA
131 CGATATAGGCTATGGTTAGGTTAAGTTACACACTGAGTTTCCCCAAACTCACCCTTTTATTTTCA
25463127 TCCACGTAGGTAATCCCCAACCATAGTGGGCTTGGAGCTGTAAGGGATTCGGAGTGGCCACACGT
196 TCCACGTAGGTAATCCCCAACCATAGTGGGCTTGGAGCTGTAAGGGATTCGGAGTGGCCACACGT
25463192 TCTGCAAGTTGATTTTATTCTGGTGAACTAGACATCATTTTATTTACGCTTAAGGTTTTGGGTTT
261 TCTGCAAGTTGATTTTATTCTGGTGAACTAGACATCATTTTATTTACGCTTAAGGTTTTGGGTTT
25463257 TTAAGCCGCTTAATTTTTCTAGATGGTTTTAATATGTTTTGTTAAGATAGGTATTATTTATATTT
326 TTAAGCCGCTTAATTTTTCTAGATGGTTTTAATATGTTTTGTTAAGATAGGTATTATTTATATTT
25463322 AACTGTTGAAATTGGATAGCTCTGGGGAATGTTTTCAAGAATAGTAATTGATTTCAAAATAACAC
391 AACTGTTGAAATTGGATAGCTCTGGGGAATGTTTTCAAGAATAGTAATTGATTTCAAAATAACAC
* *
25463387 GACAACAAGCAAAGCTTCCGCAATGAAAGTATTTTCCAAAATTAATCACTTTTCCTAAAAAGGAC
456 GACAACAAGCAAAGCTTCCACAATGAAAATATTTTCCAAAATTAATCACTTTTCCTAAAAAGGAC
25463452 TTAATCAAATTGGTTTCCTGAAAATATACATGACGTTGAGGTGTGGCAATGGCGGTGTGCATGTC
521 TTAATCAAATTGGTTTCCTGAAAATATACATGACGTTGAGGTGTGGCAATGGCGGTGTGCATGTC
25463517 TAGGATTGGATCCGAAGGGAGATTGGTACTTAAGTAGTCCGATGGACCCACCTCCTCTTTTTTCG
586 TAGGATTGGATCCGAAGGGAGATTGGTACTTAAGTAGTCCGATGGACCCACCTCCTCTTTTTTCG
25463582 GTTTCCTACCTTGTGCACAGCTTCCATTCACTATAACCTATAATGAAATTATATTTTAAAACACT
651 GTTTCCTACCTTGTGCACAGCTTCCATTCACTATAACCTATAATGAAATTATATTTTAAAACACT
25463647 AAGAAAGTTCTTCTAGATCAACAATACTAAAATGTTTTGAAACGCTTCGATGTGGCATGTCAGAT
716 AAGAAAGTTCTTCTAGATCAACAATACTAAAATGTTTTGAAACGCTTCGATGTGGCATGTCAGAT
25463712 CCGGCCATAACGTCTGGGCTGGGTTTAGGGTGTTACATTTAG
781 CCGGCCATAACGTCTGGGCTGGGTTTAGGGTGTTACATTTAG
25463754 TATGGTTCGATATGGGTTGGGTTTTGCATAAGCATGTAATATCTGTTCTGATCTGTTATGGGCCT
1 TATGGTTCGATATGGGTTGGGTTTTGCATAAGCATGTAATATCTGTTCTGATCTGTTATGGGCCT
25463819 ATGGGCTTTATTCTGAATTCTATTCTGGGCTAAGGCCAACTCGTTCTGTTTTCTGTGGTTTGAAC
66 ATGGGCTTTATTCTGAATTCTATTCTGGGCTAAGGCCAACTCGTTCTGTTTTCTGTGGTTTGAAC
25463884 CGATATAGGCTATGGTTAGGTTAAGTTACACACTGAGTTTCCCCAAACTCACCCTTTTATTTTCA
131 CGATATAGGCTATGGTTAGGTTAAGTTACACACTGAGTTTCCCCAAACTCACCCTTTTATTTTCA
25463949 TCCACGTAGGTAATCCCCAACCATAGTGGGCTTGGAGCTGTAAGGGATTCGGAGTGGCCACACGT
196 TCCACGTAGGTAATCCCCAACCATAGTGGGCTTGGAGCTGTAAGGGATTCGGAGTGGCCACACGT
*
25464014 TCTGCAAGTTGATTTTCTTCTGGTGAACTAGACATCATTTTATTTACGCTTAAGGTTTTGGGTTT
261 TCTGCAAGTTGATTTTATTCTGGTGAACTAGACATCATTTTATTTACGCTTAAGGTTTTGGGTTT
25464079 TTAAGCCGCTTAATTTTTCTAGATGGTTTTAATATGTTTTGTTAAGATAGGTATTATTTATATTT
326 TTAAGCCGCTTAATTTTTCTAGATGGTTTTAATATGTTTTGTTAAGATAGGTATTATTTATATTT
25464144 AACTGTTGAAATTGGATAGCTCTGGGGAATGTTTTCAAGAATAGTAATTGATTTCAAAATAACAC
391 AACTGTTGAAATTGGATAGCTCTGGGGAATGTTTTCAAGAATAGTAATTGATTTCAAAATAACAC
25464209 GACAACAAGCAAAGCTTCCACAATGAAAATATTTTCCAAAATTAATCACTTTTCCTAAAAAGGAC
456 GACAACAAGCAAAGCTTCCACAATGAAAATATTTTCCAAAATTAATCACTTTTCCTAAAAAGGAC
25464274 TTAATCAAATTGGTTTCCTGAAAATATACATGACGTTGAGGTGTGGCAATGGCGGTGTGCATGTC
521 TTAATCAAATTGGTTTCCTGAAAATATACATGACGTTGAGGTGTGGCAATGGCGGTGTGCATGTC
25464339 TAGGATTGGATCCGAAGGGAGATTGGTACTTAAGTAGTCCGATGGACCCACCTCCTCTTTTTTCG
586 TAGGATTGGATCCGAAGGGAGATTGGTACTTAAGTAGTCCGATGGACCCACCTCCTCTTTTTTCG
25464404 GTTTCCTACCTTGTGCACAGCTTCCATTCACTATAACCTATAATGAAATTATATTTTAAAACACT
651 GTTTCCTACCTTGTGCACAGCTTCCATTCACTATAACCTATAATGAAATTATATTTTAAAACACT
25464469 AAGAAAGTTCTTCTAGATCAACAATACTAAAATGTTTTGAAACGCTTCGATGTGGCATGTCAGAT
716 AAGAAAGTTCTTCTAGATCAACAATACTAAAATGTTTTGAAACGCTTCGATGTGGCATGTCAGAT
25464534 CCGGCCATAACGTCTGGGCTGGGTTTAGGGTGTTACATTTAG
781 CCGGCCATAACGTCTGGGCTGGGTTTAGGGTGTTACATTTAG
25464576 T
1 T
25464577 GGTATCAGAA
Statistics
Matches: 820, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
822 820 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (822 bp):
TATGGTTCGATATGGGTTGGGTTTTGCATAAGCATGTAATATCTGTTCTGATCTGTTATGGGCCT
ATGGGCTTTATTCTGAATTCTATTCTGGGCTAAGGCCAACTCGTTCTGTTTTCTGTGGTTTGAAC
CGATATAGGCTATGGTTAGGTTAAGTTACACACTGAGTTTCCCCAAACTCACCCTTTTATTTTCA
TCCACGTAGGTAATCCCCAACCATAGTGGGCTTGGAGCTGTAAGGGATTCGGAGTGGCCACACGT
TCTGCAAGTTGATTTTATTCTGGTGAACTAGACATCATTTTATTTACGCTTAAGGTTTTGGGTTT
TTAAGCCGCTTAATTTTTCTAGATGGTTTTAATATGTTTTGTTAAGATAGGTATTATTTATATTT
AACTGTTGAAATTGGATAGCTCTGGGGAATGTTTTCAAGAATAGTAATTGATTTCAAAATAACAC
GACAACAAGCAAAGCTTCCACAATGAAAATATTTTCCAAAATTAATCACTTTTCCTAAAAAGGAC
TTAATCAAATTGGTTTCCTGAAAATATACATGACGTTGAGGTGTGGCAATGGCGGTGTGCATGTC
TAGGATTGGATCCGAAGGGAGATTGGTACTTAAGTAGTCCGATGGACCCACCTCCTCTTTTTTCG
GTTTCCTACCTTGTGCACAGCTTCCATTCACTATAACCTATAATGAAATTATATTTTAAAACACT
AAGAAAGTTCTTCTAGATCAACAATACTAAAATGTTTTGAAACGCTTCGATGTGGCATGTCAGAT
CCGGCCATAACGTCTGGGCTGGGTTTAGGGTGTTACATTTAG
Found at i:25475310 original size:27 final size:26
Alignment explanation
Indices: 25475279--25475389 Score: 107
Period size: 27 Copynumber: 4.1 Consensus size: 26
25475269 GGAAGCGTCT
*
25475279 TGGTGGCTATGCCACAATTATCTGATC
1 TGGTGGCTCTGCCAC-ATTATCTGATC
25475306 TGGTGGCTCTGCCACATATATCT-ATTC
1 TGGTGGCTCTGCCACAT-TATCTGA-TC
* *
25475333 TGGTGGCTCTCCCATGATTATCTGTATC
1 TGGTGGCTCTGCCA-CATTATCTG-ATC
* * * *
25475361 TAGTGACTCTGTCACATTATCTGTTC
1 TGGTGGCTCTGCCACATTATCTGATC
25475387 TGG
1 TGG
25475390 CAGCTATGCT
Statistics
Matches: 69, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
26 7 0.10
27 47 0.68
28 14 0.20
29 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGATC
Done.