Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 161 of 207
Found at i:49614755 original size:21 final size:23
Alignment explanation
Indices: 49614729--49614774 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
49614719 TTAATTAGTG
*
49614729 AATATA-TATTTTA-AAATTAAA
1 AATATATTATTTAATAAATTAAA
49614750 AATATATTATTTAATAAATTAAA
1 AATATATTATTTAATAAATTAAA
49614773 AA
1 AA
49614775 ATACATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.27
22 6 0.27
23 10 0.45
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AATATATTATTTAATAAATTAAA
Found at i:49622342 original size:43 final size:43
Alignment explanation
Indices: 49622281--49622646 Score: 428
Period size: 43 Copynumber: 8.5 Consensus size: 43
49622271 ACTTTCACCA
*
49622281 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAC
1 CATGACCTTTAGCGGCGCTTTTCCGACAAACGCCGCTAAAGAC
* * * * *
49622324 CATGACCTTTAGCGGCGCTTATCCGACAAACTCTGCTAAGGGC
1 CATGACCTTTAGCGGCGCTTTTCCGACAAACGCCGCTAAAGAC
* *
49622367 CATGACCTTTAGCGGTGCTTATCCGACAAACGCCGCTAAAGAC
1 CATGACCTTTAGCGGCGCTTTTCCGACAAACGCCGCTAAAGAC
* * *
49622410 CATGACCTTTAGTGGTGCTTATCCGACAAACGCCGCTAAAGAC
1 CATGACCTTTAGCGGCGCTTTTCCGACAAACGCCGCTAAAGAC
* * *
49622453 AATGACCTTTAGCGGCGCTTTTCCAACAAATGCCGCTAAAGAC
1 CATGACCTTTAGCGGCGCTTTTCCGACAAACGCCGCTAAAGAC
* ** * * *
49622496 CATAACCTTTAGCGATGCTTATCCGATAAACGCCGCTAAAGAT
1 CATGACCTTTAGCGGCGCTTTTCCGACAAACGCCGCTAAAGAC
* * *
49622539 AATAACCTTTAGCGGCGC-TTTCCAAACAAACGCCGCTAAAGAC
1 CATGACCTTTAGCGGCGCTTTTCC-GACAAACGCCGCTAAAGAC
* * * * * * *
49622582 CCTGATCTTTAGCAGCACTTTTCCCACAAACGCCGCAAAAGAT
1 CATGACCTTTAGCGGCGCTTTTCCGACAAACGCCGCTAAAGAC
* *
49622625 CATGACCTTTAGTGGCGTTTTT
1 CATGACCTTTAGCGGCGCTTTT
49622647 TAAAAAACAC
Statistics
Matches: 272, Mismatches: 49, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
42 4 0.01
43 263 0.97
44 5 0.02
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (43 bp):
CATGACCTTTAGCGGCGCTTTTCCGACAAACGCCGCTAAAGAC
Found at i:49623114 original size:66 final size:66
Alignment explanation
Indices: 49623025--49623172 Score: 208
Period size: 66 Copynumber: 2.2 Consensus size: 66
49623015 TTGCTGCCGT
* * * *
49623025 ATCTGCTTTAAGCTGCAGCTGGAGTTCTTCATA-CTTTCATTAAACCTCAGCTTCTCTCGCTGTT
1 ATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTT-ATTAAACCTCAGCTTCTCTCGATGCT
49623089 GC
65 GC
* *
49623091 ATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTCAGCTTCTCTCGATGCTG
1 ATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTATTAAACCTCAGCTTCTCTCGATGCTG
49623156 C
66 C
* *
49623157 CTCCGCTTTAAGTTGT
1 ATCTGCTTTAAGTTGT
49623173 GTAATTTGCT
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
66 69 0.95
67 4 0.05
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.41
Consensus pattern (66 bp):
ATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTATTAAACCTCAGCTTCTCTCGATGCTG
C
Found at i:49626668 original size:9 final size:9
Alignment explanation
Indices: 49626654--49626703 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 9
49626644 AGTATAAATG
49626654 AGTTATGTA
1 AGTTATGTA
49626663 AGTTATGT-
1 AGTTATGTA
49626671 A-TTATGTA
1 AGTTATGTA
*
49626679 AGTTGTGT-
1 AGTTATGTA
49626687 A-TTATGTA
1 AGTTATGTA
*
49626695 AATTATGTA
1 AGTTATGTA
49626704 TTATGCAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
7 11 0.31
8 4 0.11
9 20 0.57
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (9 bp):
AGTTATGTA
Found at i:49626677 original size:16 final size:16
Alignment explanation
Indices: 49626656--49626714 Score: 91
Period size: 16 Copynumber: 3.7 Consensus size: 16
49626646 TATAAATGAG
49626656 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
49626672 TTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTA
*
49626688 TTATGTAAATTATGTA
1 TTATGTAAGTTATGTA
*
49626704 TTATGCAAGTT
1 TTATGTAAGTT
49626715 TTGGAAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.49
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:49626962 original size:21 final size:25
Alignment explanation
Indices: 49626924--49626972 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
49626914 TCCATACCAT
49626924 ATATATGGGGTGATATA-TTA-AAA
1 ATATATGGGGTGATATATTTAGAAA
*
49626947 ATATA-GGGGTTA-ATATTTAGAAA
1 ATATATGGGGTGATATATTTAGAAA
49626970 ATA
1 ATA
49626973 ACATTTACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 3 0.13
22 9 0.39
23 11 0.48
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.35
Consensus pattern (25 bp):
ATATATGGGGTGATATATTTAGAAA
Found at i:49627029 original size:69 final size:69
Alignment explanation
Indices: 49626939--49627102 Score: 238
Period size: 69 Copynumber: 2.4 Consensus size: 69
49626929 TGGGGTGATA
* ** * * *
49626939 TATTAAAAATATAGGGGTTAATATTTAGAAAATAACATTTACAATTATTTTTCAAATTGTAAAAT
1 TATTCAAAATATAGATGTTAATATTTAGAAAATAACATTTACAATTATTTCTAAAATTATAAAAT
49627004 TTAT
66 TTAT
* * *
49627008 TGTTCCAAATATAGATGTTAATCTTTAGAAAATAACATTTACAATTATTTCTAAAATTATAAAAT
1 TATTCAAAATATAGATGTTAATATTTAGAAAATAACATTTACAATTATTTCTAAAATTATAAAAT
49627073 TTAT
66 TTAT
*
49627077 TATTGAAAATATAGATGTTAATATTT
1 TATTCAAAATATAGATGTTAATATTT
49627103 TCTCATAATT
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 82 1.00
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (69 bp):
TATTCAAAATATAGATGTTAATATTTAGAAAATAACATTTACAATTATTTCTAAAATTATAAAAT
TTAT
Found at i:49627721 original size:26 final size:26
Alignment explanation
Indices: 49627692--49627748 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
49627682 ATATATTTAT
*
49627692 ATTATTTTATAAGCTATAGAGTAAAA
1 ATTATTTGATAAGCTATAGAGTAAAA
*
49627718 ATTATTTGATAAGCTATAGAGTAAGA
1 ATTATTTGATAAGCTATAGAGTAAAA
49627744 ATTAT
1 ATTAT
49627749 CATGCAACGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.44, C:0.04, G:0.14, T:0.39
Consensus pattern (26 bp):
ATTATTTGATAAGCTATAGAGTAAAA
Found at i:49630089 original size:7 final size:7
Alignment explanation
Indices: 49630040--49630088 Score: 71
Period size: 7 Copynumber: 6.9 Consensus size: 7
49630030 ACCCTTGACA
49630040 CCCTAAC
1 CCCTAAC
49630047 CCCTAAAC
1 CCCT-AAC
49630055 CCCTAAC
1 CCCTAAC
49630062 CCCTAAC
1 CCCTAAC
*
49630069 TCCTAAC
1 CCCTAAC
*
49630076 CCCTAAT
1 CCCTAAC
49630083 CCCTAA
1 CCCTAA
49630089 TTCATACCCC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
7 31 0.82
8 7 0.18
ACGTcount: A:0.31, C:0.51, G:0.00, T:0.18
Consensus pattern (7 bp):
CCCTAAC
Found at i:49630099 original size:21 final size:21
Alignment explanation
Indices: 49630052--49630101 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
49630042 CTAACCCCTA
*
49630052 AACCCCTAACCCCTAACTCCT
1 AACCCCTAACCCCTAACTCAT
* *
49630073 AACCCCTAATCCCTAATTCAT
1 AACCCCTAACCCCTAACTCAT
*
49630094 ACCCCCTA
1 AACCCCTA
49630102 CTCCTTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.48, G:0.00, T:0.22
Consensus pattern (21 bp):
AACCCCTAACCCCTAACTCAT
Found at i:49631141 original size:41 final size:41
Alignment explanation
Indices: 49631029--49631186 Score: 142
Period size: 41 Copynumber: 3.8 Consensus size: 41
49631019 ACACTTTAAC
* * *
49631029 AAAAACGCCGCTAAAACCCCTAACATTAGCGGCGCTTCTCAA
1 AAAAACGCCGCTAAAA-ACCTAACATTAGCGGCGCGTATCAA
* * * * **
49631071 AAAAACGCCACTAAAAATCTTAGCTTTAGCGGCGCGTAT-TT
1 AAAAACGCCGCTAAAAA-CCTAACATTAGCGGCGCGTATCAA
*
49631112 AAAAACGCCGCTAAAAGACCAAACATTAGCGGCGC-T-TCAA
1 AAAAACGCCGCTAAAA-ACCTAACATTAGCGGCGCGTATCAA
* *
49631152 AGAAAACGCCGCTAAATACCTTAGCATTAGCGGCG
1 A-AAAACGCCGCTAAAAACC-TAACATTAGCGGCG
49631187 GTTGATTAAA
Statistics
Matches: 92, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
39 1 0.01
40 5 0.05
41 54 0.59
42 32 0.35
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAACCTAACATTAGCGGCGCGTATCAA
Found at i:49631199 original size:41 final size:40
Alignment explanation
Indices: 49631029--49631251 Score: 128
Period size: 41 Copynumber: 5.4 Consensus size: 40
49631019 ACACTTTAAC
* * * * * *
49631029 AAAAACGCCGCTAAAACCCCTAACATTAGCGGCGCTTCTCAA
1 AAAAACGCCGCTAAAAACCTTAGCATTAGCGGCGGTTAT--T
* * *
49631071 AAAAACGCCACTAAAAATCTTAGCTTTAGCGGCGCG-TATTT
1 AAAAACGCCGCTAAAAACCTTAGCATTAGCGGCG-GTTA-TT
* * * *
49631112 AAAAACGCCGCTAAAAGACC-AAACATTAGCGGCGCTTCA-A
1 AAAAACGCCGCTAAAA-ACCTTAGCATTAGCGGCGGTT-ATT
*
49631152 AGAAAACGCCGCTAAATACCTTAGCATTAGCGGCGGTTGATT
1 A-AAAACGCCGCTAAAAACCTTAGCATTAGCGGCGGTT-ATT
* * * * * * **
49631194 AAAAACACCACGAAAACCCTCGACCATTAGCGGCGAATACTT
1 AAAAACGCCGCTAAAAACCT-TAGCATTAGCGGCGGTTA-TT
*
49631236 AAAAACGCCACTAAAA
1 AAAAACGCCGCTAAAA
49631252 GTCACAGCAT
Statistics
Matches: 138, Mismatches: 33, Indels: 20
0.72 0.17 0.10
Matches are distributed among these distances:
40 4 0.03
41 71 0.51
42 62 0.45
43 1 0.01
ACGTcount: A:0.39, C:0.27, G:0.17, T:0.18
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAACCTTAGCATTAGCGGCGGTTATT
Found at i:49631199 original size:82 final size:83
Alignment explanation
Indices: 49631029--49631186 Score: 230
Period size: 83 Copynumber: 1.9 Consensus size: 83
49631019 ACACTTTAAC
* * *
49631029 AAAAACGCCGCTAAAACCCCTAACATTAGCGGCGCTTCTCAAAAAAACGCCACTAAAAATCTTAG
1 AAAAACGCCGCTAAAACACCAAACATTAGCGGCGCTTCTCAAAAAAACGCCACTAAAAACCTTAG
*
49631094 CTTTAGCGGCGCGTATTT
66 CATTAGCGGCGCGTATTT
* * *
49631112 AAAAACGCCGCTAAAAGACCAAACATTAGCGGCGC-T-TCAAAGAAAACGCCGCTAAATACCTTA
1 AAAAACGCCGCTAAAACACCAAACATTAGCGGCGCTTCTCAAA-AAAACGCCACTAAAAACCTTA
49631175 GCATTAGCGGCG
65 GCATTAGCGGCG
49631187 GTTGATTAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 5 0.07
82 30 0.45
83 32 0.48
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (83 bp):
AAAAACGCCGCTAAAACACCAAACATTAGCGGCGCTTCTCAAAAAAACGCCACTAAAAACCTTAG
CATTAGCGGCGCGTATTT
Found at i:49640014 original size:15 final size:14
Alignment explanation
Indices: 49639981--49640023 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
49639971 TGACCAATTC
49639981 AAAAAA-AAAAGATG
1 AAAAAAGAAAA-ATG
*
49639995 AAAAATGAAAAATG
1 AAAAAAGAAAAATG
49640009 AAAAAAGTAAAAATG
1 AAAAAAG-AAAAATG
49640024 GAGAGGCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (14 bp):
AAAAAAGAAAAATG
Found at i:49641586 original size:131 final size:129
Alignment explanation
Indices: 49641273--49641761 Score: 727
Period size: 131 Copynumber: 3.8 Consensus size: 129
49641263 GTGAAATCAT
* *
49641273 AAGTCCTATGTCCTTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTGTTTCCTTAAGCAG
1 AAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGTAGATCTTGTTTCC-TAAGCAG
*
49641338 TAGCGGAGCAGATCGAAAACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTT----AC
65 TAGCGGAGCAGATCGAAAACGGCGAATCTTATCTTCCTCAGGAGTAGGGAAACAGATTTAAGCAC
*
49641399 AAGTCCTATGTCTCTGACCAGCAGTGGAATAGGTTGGAAATTGTAGATCTTGTCTTCCTAAGCAG
1 AAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGTAGATCTTGT-TTCCTAAGCAG
** * *
49641464 TAGCGGAGCAGATTAAAAACGGCGAATCTTATCTTCCTTAGGAGTAGGGAAACATATTTAAGCCA
65 TAGCGGAGCAGATCGAAAACGGCGAATCTTATCTTCCTCAGGAGTAGGGAAACAGATTTAAG-CA
49641529 C
129 C
*
49641530 AAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTAGAAATTGTAGATCTTGTCTTCCTAAGCAG
1 AAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGTAGATCTTGT-TTCCTAAGCAG
* * *
49641595 TAGCGGAGTAGATCGAAGACGGTGAATCTTATCTT-CTCCAGGAGTAGGGAAACAGATTTAAGTC
65 TAGCGGAGCAGATCGAAAACGGCGAATCTTATCTTCCT-CAGGAGTAGGGAAACAGATTTAAG-C
49641659 AC
128 AC
* *
49641661 AAGTCCTATGTCCCTGACCAGCAGTGGAATAGATTGGAAATTGTAGATCTTGTTTCCCTAAGTAG
1 AAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGTAGATCTTGTTT-CCTAAGCAG
* * *
49641726 TAGCGGAGCAGACCGAAGACGGCAAATCTTATCTTC
65 TAGCGGAGCAGATCGAAAACGGCGAATCTTATCTTC
49641762 AAGTATAAGG
Statistics
Matches: 329, Mismatches: 25, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
126 111 0.34
127 4 0.01
130 4 0.01
131 210 0.64
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (129 bp):
AAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGTAGATCTTGTTTCCTAAGCAGT
AGCGGAGCAGATCGAAAACGGCGAATCTTATCTTCCTCAGGAGTAGGGAAACAGATTTAAGCAC
Found at i:49641941 original size:44 final size:44
Alignment explanation
Indices: 49641873--49642095 Score: 164
Period size: 44 Copynumber: 4.9 Consensus size: 44
49641863 TAGATCGCAT
*
49641873 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAAAGGAG
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAAAGGAG
* **
49641917 CAGATTGAAGCTAGTAATCGTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAAAGGAG
* ** * * **
49641961 CGGATT-AAAATAAATGATCTTATCTCTTTGA-AGTTACAGTAGAGTAGATCG
1 CAGATTGAAGCT-AGTAATCTTATCTCCCTGAGA-TTACA--A-AG--GA--G
* * * **
49642012 CATCAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAGCGGAG
1 ---CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAAAGGAG
*
49642059 CAGATTGAAGCTAGTAATCCTA-CTCCCTGAGATTACA
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACA
49642096 GTGGAGCGGA
Statistics
Matches: 137, Mismatches: 28, Indels: 29
0.71 0.14 0.15
Matches are distributed among these distances:
43 18 0.13
44 83 0.61
47 2 0.01
49 4 0.03
51 2 0.01
54 25 0.18
55 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAAAGGAG
Found at i:49642032 original size:142 final size:142
Alignment explanation
Indices: 49641776--49642158 Score: 617
Period size: 142 Copynumber: 2.7 Consensus size: 142
49641766 ATAAGGAAGT
* * * *
49641776 AGATTTAAGCTAGTAATCTTATCTCCCTGAAATTACAGTGGAGCGGATTAAAATAAAAGGTCTTA
1 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTA
*
49641841 TCT-TTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCTAGAAATCTTATCTCCCTGAG
66 TCTCTT-TGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAG
49641905 ATTACAAAGGAGC
130 ATTACAAAGGAGC
* *
49641918 AGATTGAAGCTAGTAATCGTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAATGATCTTA
1 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTA
*
49641983 TCTCTTTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCTCTGAGA
66 TCTCTTTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGA
**
49642048 TTACAGCGGAGC
131 TTACAAAGGAGC
* *
49642060 AGATTGAAGCTAGTAATCCTA-CTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTA
1 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTA
* *
49642124 TCTCTCTGAAGTTACAGTAGAGTAGATCACATCAG
66 TCTCTTTGAAGTTACAGTAGAGTAGATCGCATCAG
49642159 GTCTTATCTC
Statistics
Matches: 226, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
141 74 0.33
142 150 0.66
143 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (142 bp):
AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTA
TCTCTTTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGA
TTACAAAGGAGC
Found at i:49642095 original size:43 final size:44
Alignment explanation
Indices: 49642015--49642107 Score: 125
Period size: 43 Copynumber: 2.1 Consensus size: 44
49642005 TAGATCGCAT
* *
49642015 CAGATTGAAGCCAGAAATCTTATCTCTCTGAGATTACAGCGGAG
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAG
* * *
49642059 CAGATTGAAGCTAGTAATCCTA-CTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAG
*
49642102 CGGATT
1 CAGATT
49642108 AAAACAAAGG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 24 0.56
44 19 0.44
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAG
Found at i:49642292 original size:50 final size:49
Alignment explanation
Indices: 49642234--49642543 Score: 244
Period size: 50 Copynumber: 6.2 Consensus size: 49
49642224 GTAGTGGAAC
** * *
49642234 AGATTAAAGCCACATTGGTGAATCTTACTTCCCTGACATTACAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTACCTCCC-GACATTGCAGTTAAAA
* * * * ** *
49642284 AGATTAAAGCTACAACAGCGAATCTTACCTCCCAAGCGA-TGCAGTGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTACCTCCCGA-C-ATTGCAGTTAAAA
** * *
49642334 AGATTAAAGCCACATTGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTACCT-CCCGACATTGCAGTTAAAA
* * * * * * ** *
49642384 AGATTAAAGCTACAGCGGTGAATCCTACCTCTCGGCAATGCAGTGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTACCTCCCGACATTGCAGTTAAAA
** * *
49642433 AGATTAAAGCCACAACGGTGAATCTGGCCTCCCTGACATTACGGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTACCTCCC-GACATTGCAGTTAAAA
* * * * * *
49642483 AGATTAAAGCTACAACAGCGAATCTTACATTCCCAGTCAGTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTAC-CTCCC-GACATTGCAGTTAAAA
49642534 AGATTAAAGC
1 AGATTAAAGC
49642544 TAGGATGACG
Statistics
Matches: 196, Mismatches: 58, Indels: 11
0.74 0.22 0.04
Matches are distributed among these distances:
49 42 0.21
50 123 0.63
51 31 0.16
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (49 bp):
AGATTAAAGCCACAACGGTGAATCTTACCTCCCGACATTGCAGTTAAAA
Found at i:49642330 original size:100 final size:100
Alignment explanation
Indices: 49642205--49642510 Score: 452
Period size: 100 Copynumber: 3.1 Consensus size: 100
49642195 AAAATTACAG
* * *
49642205 ATCTTATCTCCCAAGCGATGTAGTGGAACAGATTAAAGCCACATTGGTGAATCTTACTTCCCTGA
1 ATCTTACCTCCCAAGCGATGCAGTGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCCTGA
49642270 CATTACAGTTAAAAAGATTAAAGCTACAACAGCGA
66 CATTACAGTTAAAAAGATTAAAGCTACAACAGCGA
*
49642305 ATCTTACCTCCCAAGCGATGCAGTGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCCCGA
1 ATCTTACCTCCCAAGCGATGCAGTGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCCTGA
* * * *
49642370 CATTGCAGTTAAAAAGATTAAAGCTACAGCGGTGA
66 CATTACAGTTAAAAAGATTAAAGCTACAACAGCGA
* * * * ** * *
49642405 ATCCTACCTCTC-GGCAATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTGGCCTCCCTGA
1 ATCTTACCTCCCAAGCGATGCAGTGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCCTGA
*
49642469 CATTACGGTTAAAAAGATTAAAGCTACAACAGCGA
66 CATTACAGTTAAAAAGATTAAAGCTACAACAGCGA
49642504 ATCTTAC
1 ATCTTAC
49642511 ATTCCCAGTC
Statistics
Matches: 183, Mismatches: 23, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
99 81 0.44
100 102 0.56
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (100 bp):
ATCTTACCTCCCAAGCGATGCAGTGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCCTGA
CATTACAGTTAAAAAGATTAAAGCTACAACAGCGA
Found at i:49645982 original size:44 final size:47
Alignment explanation
Indices: 49645919--49646023 Score: 135
Period size: 44 Copynumber: 2.3 Consensus size: 47
49645909 TACAAACTGC
*
49645919 TTCCCTTTTCTTTCGCAAACGACGCCATTTTA-TT-TCTCCCCCC-A
1 TTCCCTTTTCTTTCGCAAACGACACCATTTTATTTCTCTCCCCCCGA
* ** *
49645963 TTCCCTTTTCTTTTGCAAACGGTACCGTTTTATTTCTCTCCCCCCGA
1 TTCCCTTTTCTTTCGCAAACGACACCATTTTATTTCTCTCCCCCCGA
*
49646010 ATCCCTTTTCTTTC
1 TTCCCTTTTCTTTC
49646024 CCGATACCCT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 27 0.53
45 2 0.04
46 9 0.18
47 13 0.25
ACGTcount: A:0.13, C:0.36, G:0.08, T:0.43
Consensus pattern (47 bp):
TTCCCTTTTCTTTCGCAAACGACACCATTTTATTTCTCTCCCCCCGA
Found at i:49647888 original size:13 final size:13
Alignment explanation
Indices: 49647872--49647900 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
49647862 TCAGCATTAG
49647872 TTGGCAGATAACA
1 TTGGCAGATAACA
49647885 TTGGCAGATAACA
1 TTGGCAGATAACA
49647898 TTG
1 TTG
49647901 TCCAAGTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (13 bp):
TTGGCAGATAACA
Found at i:49650362 original size:13 final size:13
Alignment explanation
Indices: 49650344--49650368 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49650334 AATTAAAGGG
49650344 TTAAAATTTAAAC
1 TTAAAATTTAAAC
49650357 TTAAAATTTAAA
1 TTAAAATTTAAA
49650369 GATGATAATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
TTAAAATTTAAAC
Found at i:49650415 original size:35 final size:35
Alignment explanation
Indices: 49650370--49650436 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
49650360 AAATTTAAAG
49650370 ATGATAATCATAACTTACATAAACATTTAAAGTTT
1 ATGATAATCATAACTTACATAAACATTTAAAGTTT
* *
49650405 ATGATTATCATAACTTACATAATCATTTAAAG
1 ATGATAATCATAACTTACATAAACATTTAAAG
49650437 AATAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (35 bp):
ATGATAATCATAACTTACATAAACATTTAAAGTTT
Found at i:49650542 original size:36 final size:36
Alignment explanation
Indices: 49650457--49650542 Score: 127
Period size: 36 Copynumber: 2.4 Consensus size: 36
49650447 AACTTTGGAC
* *
49650457 CATAATTTACAGAACTTACATAAATATATATCACAT
1 CATAACTTACATAACTTACATAAATATATATCACAT
* * *
49650493 CATAACTTGCATAACTTATATAAATATATATCATAT
1 CATAACTTACATAACTTACATAAATATATATCACAT
49650529 CATAACTTACATAA
1 CATAACTTACATAA
49650543 AACTTTGAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (36 bp):
CATAACTTACATAACTTACATAAATATATATCACAT
Found at i:49652247 original size:49 final size:49
Alignment explanation
Indices: 49652169--49652268 Score: 157
Period size: 49 Copynumber: 2.0 Consensus size: 49
49652159 ACATGTTCGA
*
49652169 AGTGGTTACATAATAGGAAGTTTTCTTATATGGGGCATTGTCGGTGGTT
1 AGTGGTTACATAATAGGAAGTTTTCTTATATGGGGCATCGTCGGTGGTT
* *
49652218 AGTGGTTATATAATGGGAAGTTCTT-TTATATGGGGCATCGTCGGTGGTT
1 AGTGGTTACATAATAGGAAGTT-TTCTTATATGGGGCATCGTCGGTGGTT
49652267 AG
1 AG
49652269 ATGAAAATCA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 45 0.96
50 2 0.04
ACGTcount: A:0.22, C:0.08, G:0.32, T:0.38
Consensus pattern (49 bp):
AGTGGTTACATAATAGGAAGTTTTCTTATATGGGGCATCGTCGGTGGTT
Found at i:49655561 original size:18 final size:18
Alignment explanation
Indices: 49655538--49655573 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
49655528 TAGAAGTTTA
49655538 CTTCATTAGGA-TCATCCT
1 CTTCATTA-GATTCATCCT
49655556 CTTCATTAGATTCATCCT
1 CTTCATTAGATTCATCCT
49655574 TCGATCTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 15 0.88
ACGTcount: A:0.22, C:0.28, G:0.08, T:0.42
Consensus pattern (18 bp):
CTTCATTAGATTCATCCT
Found at i:49661427 original size:14 final size:14
Alignment explanation
Indices: 49661389--49661431 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
49661379 TAAAATGTAC
49661389 AATATAATTAAA-T
1 AATATAATTAAATT
49661402 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
49661417 AA-ATAATTTAATT
1 AATATAATTAAATT
49661430 AA
1 AA
49661432 CTGTTTACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:49664231 original size:23 final size:25
Alignment explanation
Indices: 49664194--49664245 Score: 63
Period size: 23 Copynumber: 2.1 Consensus size: 25
49664184 TAAAATTGAG
49664194 TTAAATATTAATA-TTAAAA-AAAA
1 TTAAATATTAATATTTAAAATAAAA
* *
49664217 TTAAATCTTATTATTTTAAAATAAAA
1 TTAAATATTAATA-TTTAAAATAAAA
49664243 TTA
1 TTA
49664246 TTTAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.46
25 6 0.25
26 7 0.29
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
TTAAATATTAATATTTAAAATAAAA
Found at i:49664245 original size:16 final size:16
Alignment explanation
Indices: 49664226--49664258 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
49664216 ATTAAATCTT
*
49664226 ATTATTTTAAAATAAA
1 ATTATTTAAAAATAAA
49664242 ATTATTTAAAAATAAA
1 ATTATTTAAAAATAAA
49664258 A
1 A
49664259 AATATCATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTATTTAAAAATAAA
Found at i:49667608 original size:20 final size:21
Alignment explanation
Indices: 49667569--49667608 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
49667559 AACAAAAGGT
*
49667569 AATTTGAACATTTTATGACTA
1 AATTTGAACATTTTACGACTA
*
49667590 AATTTTAACA-TTTACGACT
1 AATTTGAACATTTTACGACT
49667609 TATTAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.42
Consensus pattern (21 bp):
AATTTGAACATTTTACGACTA
Found at i:49670263 original size:18 final size:18
Alignment explanation
Indices: 49670226--49670288 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 18
49670216 TAACAAAACT
*
49670226 CATAAAATAAGCAGT-GCA
1 CATAAAATAAGCA-TATCA
*
49670244 CATATAATAAGC-TATTCA
1 CATAAAATAAGCATA-TCA
*
49670262 CATAAAATAGGCATATCA
1 CATAAAATAAGCATATCA
49670280 CATAAAATA
1 CATAAAATA
49670289 TCAATTCGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
16 1 0.03
18 35 0.92
19 2 0.05
ACGTcount: A:0.51, C:0.16, G:0.10, T:0.24
Consensus pattern (18 bp):
CATAAAATAAGCATATCA
Found at i:49670382 original size:34 final size:34
Alignment explanation
Indices: 49670308--49670410 Score: 95
Period size: 34 Copynumber: 3.0 Consensus size: 34
49670298 ATAAAACATT
* * * *
49670308 AGTTCATA-TGATATAATAGTTCATACCAAATAGC
1 AGTTCATACT-ATATAACAGTTCATAACACATAAC
49670342 AGTTCATACTATATAACAGTTCATAACACATAAC
1 AGTTCATACTATATAACAGTTCATAACACATAAC
* * *
49670376 ATTTCATAGC-ACATAACAGATT-ATATCACATAAC
1 AGTTCATA-CTATATAACAG-TTCATAACACATAAC
49670410 A
1 A
49670411 ATGCATACCA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
34 55 0.93
35 4 0.07
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (34 bp):
AGTTCATACTATATAACAGTTCATAACACATAAC
Found at i:49670405 original size:17 final size:17
Alignment explanation
Indices: 49670320--49670410 Score: 78
Period size: 17 Copynumber: 5.4 Consensus size: 17
49670310 TTCATATGAT
* * *
49670320 ATAATAGTTCATACCAA
1 ATAACAGTTCATAACAC
* *
49670337 ATAGCAGTTCAT-ACTAT
1 ATAACAGTTCATAAC-AC
49670354 ATAACAGTTCATAACAC
1 ATAACAGTTCATAACAC
* *
49670371 ATAACATTTCATAGCAC
1 ATAACAGTTCATAACAC
*
49670388 ATAACAGATT-ATATCAC
1 ATAACAG-TTCATAACAC
49670405 ATAACA
1 ATAACA
49670411 ATGCATACCA
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
16 1 0.02
17 56 0.92
18 4 0.07
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.29
Consensus pattern (17 bp):
ATAACAGTTCATAACAC
Found at i:49670422 original size:17 final size:16
Alignment explanation
Indices: 49670362--49670423 Score: 52
Period size: 17 Copynumber: 3.7 Consensus size: 16
49670352 ATATAACAGT
*
49670362 TCATAACACATAACATT
1 TCATAACACATAACA-A
*
49670379 TCATAGCACATAACAGA
1 TCATAACACATAACA-A
* *
49670396 TTATATCACATAACAA
1 TCATAACACATAACAA
*
49670412 TGCATACCACAT
1 T-CATAACACAT
49670424 CATAACTCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
16 2 0.05
17 35 0.95
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (16 bp):
TCATAACACATAACAA
Found at i:49670423 original size:34 final size:34
Alignment explanation
Indices: 49670354--49670423 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
49670344 TTCATACTAT
* * *
49670354 ATAACAGTTCATAACACATAACATTTCATAGCAC
1 ATAACAGTTCATAACACATAACAATGCATACCAC
*
49670388 ATAACAGATT-ATATCACATAACAATGCATACCAC
1 ATAACAG-TTCATAACACATAACAATGCATACCAC
49670422 AT
1 AT
49670424 CATAACTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 29 0.94
35 2 0.06
ACGTcount: A:0.46, C:0.23, G:0.06, T:0.26
Consensus pattern (34 bp):
ATAACAGTTCATAACACATAACAATGCATACCAC
Found at i:49671449 original size:35 final size:33
Alignment explanation
Indices: 49671384--49671449 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 33
49671374 CAAGCATTAC
* *
49671384 AAAACCCATATACATATTTATTATATATATAAT
1 AAAACCCATATAAATATTTATTATACATATAAT
49671417 AAAACCCACGTATAAATATTGTA-TATACATATA
1 AAAACCCA--TATAAATATT-TATTATACATATA
49671450 CCTTTTTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 8 0.29
35 18 0.64
36 2 0.07
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.35
Consensus pattern (33 bp):
AAAACCCATATAAATATTTATTATACATATAAT
Found at i:49674206 original size:5 final size:5
Alignment explanation
Indices: 49674196--49674229 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
49674186 CAAAAATTAG
*
49674196 AAAGA AAAGA AAAGA AAAGA AAA-C AAAGA AAAGA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA
49674230 GAAGGAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 23 0.88
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:49674223 original size:14 final size:15
Alignment explanation
Indices: 49674196--49674229 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
49674186 CAAAAATTAG
49674196 AAAGAAAAGAAAAGA
1 AAAGAAAAGAAAAGA
*
49674211 AAAGAAAA-CAAAGA
1 AAAGAAAAGAAAAGA
49674225 AAAGA
1 AAAGA
49674230 GAAGGAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAAAGA
Found at i:49675952 original size:198 final size:198
Alignment explanation
Indices: 49675607--49676004 Score: 742
Period size: 198 Copynumber: 2.0 Consensus size: 198
49675597 CGGATTATGG
* *
49675607 AAATACCACTAGTTATACTCAACGCACAGTTTTGTTTTTCTGTGCGCAGGTTAGGTACATTTCAG
1 AAATACCACTAGTTACACTCAACGCACAGTTTTGTTTTTCTGTGCACAGGTTAGGTACATTTCAG
49675672 CTTACAATCAACTCAGCATCCAACCTCAATCCTGAACTCAAGTGTGGTGATATTTCATTTTGTAA
66 CTTACAATCAACTCAGCATCCAACCTCAATCCTGAACTCAAGTGTGGTGATATTTCATTTTGTAA
*
49675737 TTGCATGTACCTAGGAAGTCCTTGGTTGATAATTTTTTTTTTGTTAATGTGGTGCTATTTTAGGT
131 TTGCATGTAACTAGGAAGTCCTTGGTTGATAATTTTTTTTTTGTTAATGTGGTGCTATTTTAGGT
49675802 TTC
196 TTC
*
49675805 AAATACCACTAGTTACACTCAGCGCACAGTTTTGTTTTTCTGTGCACAGGTTAGGTACATTTCAG
1 AAATACCACTAGTTACACTCAACGCACAGTTTTGTTTTTCTGTGCACAGGTTAGGTACATTTCAG
*
49675870 CTTACAATCAATTCAGCATCCAACCTCAATCCTGAACTCAAGTGTGGTGATATTTCATTTTGTAA
66 CTTACAATCAACTCAGCATCCAACCTCAATCCTGAACTCAAGTGTGGTGATATTTCATTTTGTAA
*
49675935 TTGCATGTAATTAGGAAGTCCTTGGTTGATAATTTTTTTTTTGTTAATGTGGTGCTATTTTAGGT
131 TTGCATGTAACTAGGAAGTCCTTGGTTGATAATTTTTTTTTTGTTAATGTGGTGCTATTTTAGGT
49676000 TTC
196 TTC
49676003 AA
1 AA
49676005 GTACTATGAT
Statistics
Matches: 194, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
198 194 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (198 bp):
AAATACCACTAGTTACACTCAACGCACAGTTTTGTTTTTCTGTGCACAGGTTAGGTACATTTCAG
CTTACAATCAACTCAGCATCCAACCTCAATCCTGAACTCAAGTGTGGTGATATTTCATTTTGTAA
TTGCATGTAACTAGGAAGTCCTTGGTTGATAATTTTTTTTTTGTTAATGTGGTGCTATTTTAGGT
TTC
Found at i:49676561 original size:42 final size:42
Alignment explanation
Indices: 49676514--49676609 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
49676504 GCGACATGGC
* *
49676514 CGTGTGACCCAAGT-CAGCGAGTTACACGAGCTGGGACACGGT
1 CGTGTGTCCCAAGTCCA-CGAGTTACACGAGCTGGGACACGAT
* * * * *
49676556 CGTGTGTCTCAAGTCCATGAGTTACATGGGTTGGGACACGAT
1 CGTGTGTCCCAAGTCCACGAGTTACACGAGCTGGGACACGAT
49676598 CGTGTGTCCCAA
1 CGTGTGTCCCAA
49676610 CTTCGAAAGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
42 43 0.96
43 2 0.04
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.23
Consensus pattern (42 bp):
CGTGTGTCCCAAGTCCACGAGTTACACGAGCTGGGACACGAT
Found at i:49692810 original size:13 final size:13
Alignment explanation
Indices: 49692792--49692820 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
49692782 TCAAAGTAAA
49692792 CAATATATACTAG
1 CAATATATACTAG
49692805 CAATATATACTAG
1 CAATATATACTAG
49692818 CAA
1 CAA
49692821 ATCATTAGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.17, G:0.07, T:0.28
Consensus pattern (13 bp):
CAATATATACTAG
Found at i:49699531 original size:101 final size:100
Alignment explanation
Indices: 49699349--49699542 Score: 239
Period size: 101 Copynumber: 1.9 Consensus size: 100
49699339 GTTGGAACTG
* * *
49699349 CTAGTTAAAAAATTGTGTAGATAAAATATAATAGGATGTTAATAGTTTAGTTAAAATTGTATTAA
1 CTAGTTAAAAAATTGTGTAGATAAAATAAAATAGGATGTTAATAGTTCAGTTAAAATTGAATTAA
* *
49699414 TTGAGAGAATCAATCTAATTTGATTAATGGAGCTC
66 CTGACAGAATCAATCTAATTTGATTAATGGAGCTC
* * * *
49699449 CTAGTTAAAAAATTGTGTAGTTAGAATAAAATAATGG-TGTTCATAGTTCGGTTAAAATTGAATT
1 CTAGTTAAAAAATTGTGTAGATAAAATAAAAT-A-GGATGTTAATAGTTCAGTTAAAATTGAATT
** *
49699513 AACTGACCA-AATTGATCTAATTTGGTTAAT
64 AACTGA-CAGAATCAATCTAATTTGATTAAT
49699543 CAATCAGTGA
Statistics
Matches: 79, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
100 29 0.37
101 47 0.59
102 3 0.04
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (100 bp):
CTAGTTAAAAAATTGTGTAGATAAAATAAAATAGGATGTTAATAGTTCAGTTAAAATTGAATTAA
CTGACAGAATCAATCTAATTTGATTAATGGAGCTC
Found at i:49701155 original size:32 final size:32
Alignment explanation
Indices: 49701119--49701181 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
49701109 ATTTCTCATG
*
49701119 CTTGATTAAAGTAAAAAATAAA-TAAATAAAAA
1 CTTGATTAAAGGAAAAAA-AAATTAAATAAAAA
* *
49701151 CTTGATTGAAGGAAAAAAAAATTAACTAAAA
1 CTTGATTAAAGGAAAAAAAAATTAAATAAAA
49701182 GTTTTGATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 3 0.11
32 24 0.89
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.24
Consensus pattern (32 bp):
CTTGATTAAAGGAAAAAAAAATTAAATAAAAA
Found at i:49702058 original size:28 final size:27
Alignment explanation
Indices: 49702014--49702071 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
49702004 TGAATGTAAG
* *
49702014 TTTTGGTTTTAATAAATTTGAGTTTGA
1 TTTTGGTTTTAATAAATCTGACTTTGA
49702041 TTTT-GTTTTAATGGAAATCTGACTTTGA
1 TTTTGGTTTTAAT--AAATCTGACTTTGA
49702069 TTT
1 TTT
49702072 CTTAAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 8 0.30
27 4 0.15
28 15 0.56
ACGTcount: A:0.24, C:0.03, G:0.17, T:0.55
Consensus pattern (27 bp):
TTTTGGTTTTAATAAATCTGACTTTGA
Found at i:49704433 original size:31 final size:31
Alignment explanation
Indices: 49704390--49704448 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
49704380 AAATGATTAA
49704390 TAAACTATTCGAAAATTTTTATTTAAATGAT
1 TAAACTATTCGAAAATTTTTATTTAAATGAT
* *
49704421 TAAATTATTCGAAAGTTTTTATTTAAAT
1 TAAACTATTCGAAAATTTTTATTTAAAT
49704449 TATTGAGCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (31 bp):
TAAACTATTCGAAAATTTTTATTTAAATGAT
Found at i:49711790 original size:125 final size:125
Alignment explanation
Indices: 49711625--49711908 Score: 433
Period size: 125 Copynumber: 2.3 Consensus size: 125
49711615 ATTTATTAAG
* **
49711625 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTTGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAATAGGTCCTGAAAAAATAATTTCAAGTTGAC
* * **
49711690 GTTTCTGAGAAAATAGTATAAAAAATGCTTTCAGCAGGATGCTTTATCAAAAGAATTTCT
66 GTTTCTAAGAAAATAGTATAAAAAACGCTTGAAGCAGGATGCTTTATCAAAAGAATTTCT
* * *
49711750 GAAATCGCTCACATGTGGACGCGCTTTTGCTATAATAGGTCCTGAAAAAATAATTTCAAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAATAGGTCCTGAAAAAATAATTTCAAGTTGAC
* * *
49711815 GTTTCTAAGCAAATAGTATAAAAAACGCTTGAAGCAGGATGCTTTATTAGAAGAATTTCT
66 GTTTCTAAGAAAATAGTATAAAAAACGCTTGAAGCAGGATGCTTTATCAAAAGAATTTCT
* *
49711875 AAAATCGCTCCCACGTGGACGCGTTTTTGCTACA
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACA
49711909 GTAGTATGTT
Statistics
Matches: 141, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
125 141 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAATAGGTCCTGAAAAAATAATTTCAAGTTGAC
GTTTCTAAGAAAATAGTATAAAAAACGCTTGAAGCAGGATGCTTTATCAAAAGAATTTCT
Found at i:49715164 original size:49 final size:49
Alignment explanation
Indices: 49715107--49715423 Score: 544
Period size: 49 Copynumber: 6.5 Consensus size: 49
49715097 TAAGAATATT
* * *
49715107 AACTATTTTGTATTTGATTAAATGAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
*
49715156 AACTATTTTGTATTTTATTACATCAAATAATATCAAATTATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
49715205 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
*
49715254 AACTATTTTGTATTTTATTACATCAAATAATATCAAATTATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
* *
49715303 AACTATTTTGTATTTTATTTCATCAAATAATATCAAAATATTCAAAATT
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
* *
49715352 AACTATTTTGTATTTTATTACATGAAATAATATCAAATTATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
*
49715401 AACTATTTTATATTTTATTACAT
1 AACTATTTTGTATTTTATTACAT
49715424 TAATATAAAC
Statistics
Matches: 254, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 254 1.00
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (49 bp):
AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
Found at i:49715183 original size:29 final size:29
Alignment explanation
Indices: 49715151--49715234 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 29
49715141 AAAATATTCA
49715151 AAATAAACTATTTTGTATTTTATTACATC
1 AAATAAACTATTTTGTATTTTATTACATC
* **
49715180 AAAT-AA-TA---T-CAAATTATT-CA--
1 AAATAAACTATTTTGTATTTTATTACATC
49715200 AAATAAACTATTTTGTATTTTATTACATC
1 AAATAAACTATTTTGTATTTTATTACATC
49715229 AAATAA
1 AAATAA
49715235 TATCAAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
20 4 0.10
21 2 0.05
22 4 0.10
23 6 0.15
24 1 0.03
25 1 0.03
26 6 0.15
27 4 0.10
28 2 0.05
29 10 0.25
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (29 bp):
AAATAAACTATTTTGTATTTTATTACATC
Found at i:49717746 original size:22 final size:22
Alignment explanation
Indices: 49717704--49717752 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
49717694 TCTTTTAAAT
* *
49717704 AGAAATTTGAGAGGAATTTGAG
1 AGAAATTAGAGAGGAAATTGAG
49717726 AGAATATTAGAGA-GAAATTGAG
1 AGAA-ATTAGAGAGGAAATTGAG
49717748 AGAAA
1 AGAAA
49717753 GGATTTAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 16 0.67
23 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22
Consensus pattern (22 bp):
AGAAATTAGAGAGGAAATTGAG
Found at i:49717748 original size:10 final size:10
Alignment explanation
Indices: 49717704--49717752 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 10
49717694 TCTTTTAAAT
49717704 AGAAATTTGAG
1 AGAAA-TTGAG
*
49717715 AGGAATTTGAG
1 A-GAAATTGAG
49717726 AGAATATTAGAG
1 AGAA-ATT-GAG
49717738 AGAAATTGAG
1 AGAAATTGAG
49717748 AGAAA
1 AGAAA
49717753 GGATTTAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
10 11 0.33
11 12 0.36
12 10 0.30
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22
Consensus pattern (10 bp):
AGAAATTGAG
Found at i:49724062 original size:5 final size:5
Alignment explanation
Indices: 49724052--49724077 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
49724042 TGAGCATTCG
49724052 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
49724078 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:49724573 original size:9 final size:9
Alignment explanation
Indices: 49724559--49724587 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
49724549 TAAACAATTC
49724559 AATAATATA
1 AATAATATA
49724568 AATAATATA
1 AATAATATA
49724577 AATAATATA
1 AATAATATA
49724586 AA
1 AA
49724588 ATGTGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AATAATATA
Found at i:49724881 original size:30 final size:31
Alignment explanation
Indices: 49724842--49724901 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
49724832 GGAGGTGGGA
*
49724842 TGGGAAGGGAATAAAAGTTTTAGGG-GAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGGAGAAAAG
*
49724873 TGGG-AGGGAGTAAAAATTTTGGGAGAAAA
1 TGGGAAGGGAATAAAAATTTTGGGAGAAAA
49724902 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 19 0.73
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGGAGAAAAG
Found at i:49725129 original size:9 final size:9
Alignment explanation
Indices: 49725115--49725151 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
49725105 TATAGTTTGA
49725115 TATTCGAAT
1 TATTCGAAT
49725124 TATTCGAAT
1 TATTCGAAT
*
49725133 TATTCGAGT
1 TATTCGAAT
49725142 TATTCGAAT
1 TATTCGAAT
49725151 T
1 T
49725152 TGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:49734552 original size:68 final size:69
Alignment explanation
Indices: 49734468--49734596 Score: 206
Period size: 69 Copynumber: 1.9 Consensus size: 69
49734458 AGTTTTAATC
* * *
49734468 TTAAATTTAATTTAATACTTATCTTAAT-AGTATTTTATTAATTTAATATTAAATTGATTATCTT
1 TTAAATTCAATTTAATACTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGATTATCTT
49734532 AACA
66 AACA
* *
49734536 TTAAATTCAATTTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGATTA
1 TTAAATTCAATTTAATACTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGATTA
49734597 AGTTTAATCA
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
68 25 0.45
69 30 0.55
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (69 bp):
TTAAATTCAATTTAATACTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGATTATCTT
AACA
Found at i:49734599 original size:32 final size:32
Alignment explanation
Indices: 49734496--49734599 Score: 84
Period size: 32 Copynumber: 3.1 Consensus size: 32
49734486 TTATCTTAAT
*
49734496 AGTATTTTATTAATTTAATATTAAATTGATTA
1 AGTATTATATTAATTTAATATTAAATTGATTA
** * **
49734528 TCTTAACATTAAATTCAATTTAATATTTATCTTGA-TA
1 ----AGTATTATATT-AATTTAATA-TTAAATTGATTA
*
49734565 AGTATTATATTAATTTAATATTAAAGTGATTA
1 AGTATTATATTAATTTAATATTAAATTGATTA
49734597 AGT
1 AGT
49734600 TTAATCATAG
Statistics
Matches: 53, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
31 6 0.11
32 14 0.26
33 8 0.15
36 7 0.13
37 11 0.21
38 7 0.13
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (32 bp):
AGTATTATATTAATTTAATATTAAATTGATTA
Found at i:49738467 original size:5 final size:5
Alignment explanation
Indices: 49738457--49738484 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
49738447 ATAGAGGAAG
49738457 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
49738485 TCATAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:49749443 original size:38 final size:38
Alignment explanation
Indices: 49749401--49749559 Score: 140
Period size: 38 Copynumber: 4.1 Consensus size: 38
49749391 ATAGAAACGT
* * *
49749401 GGTGATATTTGGGCTCTATGCCTAGCAGGCTTTGTGCC
1 GGTGATATTCGAGCTCTATGCCTAGCAGGCTTCGTGCC
* ** *
49749439 GGTGATATTCGGGCTCCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATTCGAGCTCTATGCCTAGCAGGCTTCGTGCC
* * *
49749477 AGTGATATTCGAGCT-TCATGCCTAGCAGACTTCGTGTC
1 GGTGATATTCGAGCTCT-ATGCCTAGCAGGCTTCGTGCC
** * * *
49749515 GGTGTATTATATTAAGCTTTGTGCTTAGCAGGCTTCGTGCC
1 GGTG-A-TAT-TCGAGCTCTATGCCTAGCAGGCTTCGTGCC
49749556 GGTG
1 GGTG
49749560 TGTTATATCA
Statistics
Matches: 99, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
38 68 0.69
39 1 0.01
40 3 0.03
41 26 0.26
42 1 0.01
ACGTcount: A:0.15, C:0.21, G:0.30, T:0.33
Consensus pattern (38 bp):
GGTGATATTCGAGCTCTATGCCTAGCAGGCTTCGTGCC
Found at i:49749596 original size:41 final size:41
Alignment explanation
Indices: 49749496--49749583 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
49749486 CGAGCTTCAT
* * *
49749496 GCCTAGCAGACTTCGTGTCGGTGTATTATATTAAGCTTTGT
1 GCCTAGCAGACTTCGTGCCGGTGTATTATATCAAGCTTTGA
* * * *
49749537 GCTTAGCAGGCTTCGTGCCGGTGTGTTATATCACGCTTTGA
1 GCCTAGCAGACTTCGTGCCGGTGTATTATATCAAGCTTTGA
49749578 GCCTAG
1 GCCTAG
49749584 TAGTCTTTGT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.35
Consensus pattern (41 bp):
GCCTAGCAGACTTCGTGCCGGTGTATTATATCAAGCTTTGA
Found at i:49751107 original size:18 final size:19
Alignment explanation
Indices: 49751084--49751122 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
49751074 ATTAATTTTG
49751084 ATCAAGTAAATT-AAATTA
1 ATCAAGTAAATTAAAATTA
*
49751102 ATCAAGTCAATTAAAATTA
1 ATCAAGTAAATTAAAATTA
49751121 AT
1 AT
49751123 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (19 bp):
ATCAAGTAAATTAAAATTA
Found at i:49751452 original size:14 final size:14
Alignment explanation
Indices: 49751433--49751462 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
49751423 TGCATCCTTG
49751433 TGGTCGACGGCGGT
1 TGGTCGACGGCGGT
*
49751447 TGGTCGTCGGCGGT
1 TGGTCGACGGCGGT
49751461 TG
1 TG
49751463 AGCAGTGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.03, C:0.20, G:0.50, T:0.27
Consensus pattern (14 bp):
TGGTCGACGGCGGT
Found at i:49751597 original size:37 final size:36
Alignment explanation
Indices: 49751534--49751644 Score: 102
Period size: 37 Copynumber: 3.0 Consensus size: 36
49751524 ATTCCAAACA
* *
49751534 TAATATTATTTTAATAGTGTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATAATATT-AATTTAATAT
**
49751570 TAATATTTATCTTAATAGTATCTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATAATATTAATTTAATAT
* *
49751607 TAAAGTGATTATCTTAATATTA-AAT-TTAATCTAATAT
1 T-AA-T-ATTATCTTAATAGTATAATATTAATTTAATAT
49751644 T
1 T
49751645 TATCAAATCA
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
36 13 0.21
37 31 0.50
38 3 0.05
39 14 0.23
40 1 0.02
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.51
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATAATATTAATTTAATAT
Found at i:49756867 original size:9 final size:9
Alignment explanation
Indices: 49756853--49756878 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
49756843 TTAAGCTCCC
49756853 GATGGATAT
1 GATGGATAT
49756862 GATGGATAT
1 GATGGATAT
49756871 GATGGATA
1 GATGGATA
49756879 AGTGTCCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (9 bp):
GATGGATAT
Found at i:49760848 original size:15 final size:15
Alignment explanation
Indices: 49760825--49760858 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
49760815 TTTTATCTGT
* *
49760825 TTTTTTATTTGTTTA
1 TTTTGTATTTATTTA
49760840 TTTTGTATTTATTTA
1 TTTTGTATTTATTTA
49760855 TTTT
1 TTTT
49760859 AGTGATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (15 bp):
TTTTGTATTTATTTA
Found at i:49778742 original size:97 final size:98
Alignment explanation
Indices: 49778569--49778764 Score: 331
Period size: 97 Copynumber: 2.0 Consensus size: 98
49778559 GTGCAATAAA
* *
49778569 ACTTTAAAAGAATATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
49778634 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCAGAATATTTCATTT
49778667 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCAC-CCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
49778731 CCTTTAAAATCCCAAACTTAGAATATTTCATTT
66 CCTCTAAAATCCCAAACTCAGAATATTTCATTT
49778764 A
1 A
49778765 TTATTTTTAA
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
97 51 0.55
98 41 0.45
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCAGAATATTTCATTT
Found at i:49779474 original size:52 final size:50
Alignment explanation
Indices: 49779309--49779475 Score: 133
Period size: 52 Copynumber: 3.2 Consensus size: 50
49779299 ATAGAAATTA
* *
49779309 TAAAAATATGGGTAGAAAGTATAATATATATACGTACATATATATGTAAGT
1 TAAAAATAT-GATAGAAAGTATAATATATATACGTACATATATATATAAGT
* * * * * *
49779360 TAATAAATATAGACCATAAAG-ATGATGATTGCATATATGT--GTATATATATAAAT
1 TAA-AAATAT-GA-TAGAAAGTATAAT-A-T--ATATACGTACATATATATATAAGT
*
49779414 TATAAAATATGTATAGAAAGTATAATATATATACGTACATATATATATAAGG
1 TA-AAAATATG-ATAGAAAGTATAATATATATACGTACATATATATATAAGT
49779466 TAACAAATAT
1 TAA-AAATAT
49779476 ATACATCATA
Statistics
Matches: 88, Mismatches: 16, Indels: 23
0.69 0.13 0.18
Matches are distributed among these distances:
50 7 0.08
51 4 0.05
52 31 0.35
53 13 0.15
54 25 0.28
55 1 0.01
56 7 0.08
ACGTcount: A:0.49, C:0.05, G:0.13, T:0.34
Consensus pattern (50 bp):
TAAAAATATGATAGAAAGTATAATATATATACGTACATATATATATAAGT
Found at i:49779550 original size:20 final size:20
Alignment explanation
Indices: 49779527--49779568 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
49779517 GAAAGAAAGA
49779527 AAAAAAAATATTTTGAAATT
1 AAAAAAAATATTTTGAAATT
49779547 AAAAAAAATATTTTGAAATT
1 AAAAAAAATATTTTGAAATT
49779567 AA
1 AA
49779569 TTAATTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAAAAAATATTTTGAAATT
Found at i:49780878 original size:43 final size:42
Alignment explanation
Indices: 49780805--49780921 Score: 105
Period size: 44 Copynumber: 2.7 Consensus size: 42
49780795 TTCCATCTTC
* *
49780805 AATCTGTCTCACTGCAA-TTCCAGGAGGATAAGA-CT-TGCTTCATT
1 AATCTG-CTCACTGCAACTT-CAGGA-GATAAAATCTAGGCTT--TT
* *
49780849 AATCTGCTCTCTGCAACTTCAGAGAGATAAAATCTAGGGTTTT
1 AATCTGCTCACTGCAACTTCAG-GAGATAAAATCTAGGCTTTT
49780892 AATCTGCTCCACTGCAACTTCAGGGAGATA
1 AATCTGCT-CACTGCAACTTCA-GGAGATA
49780922 GGATTATCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
43 28 0.45
44 30 0.48
45 4 0.06
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (42 bp):
AATCTGCTCACTGCAACTTCAGGAGATAAAATCTAGGCTTTT
Found at i:49780920 original size:44 final size:43
Alignment explanation
Indices: 49780847--49781180 Score: 189
Period size: 44 Copynumber: 7.7 Consensus size: 43
49780837 ACTTGCTTCA
* * *
49780847 TTAATCTGCT-CTCTGCAACTTCAGAGAGATAAAATCTAGGGTT
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GGGTT
* * ** *
49780890 TTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCT
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TCTGGGTT
* * * * * * ***
49780934 TTAATTTTCTCCACTGCAAGTTTAGGGAAATAAGATTTTCCATTT
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TCT-GGGTT
* * *
49780979 TTAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGA-CTTGCTT
1 TTAATCTGCTC-CACTGCAACTTCAGGGA-GATAAGATCTGGGTT
* * * *
49781021 ACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGA-CT-AGAT
1 --TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGGGTT
* * * ** * * *
49781064 GTGATTTGCT-CTTTGCAACTTCAGAGAGGTAAGATCTGAGATT
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTG-GGTT
* * * *
49781107 TTAATCCGCTCCACTGCAACTTCAGGAAGATAGGAT-TGTTGGCT
1 TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTG--GGTT
49781151 TTAATCTGCTCCACTGCAACTTCAGGGAGA
1 TTAATCTGCTCCACTGCAACTTCAGGGAGA
49781181 AGATTTGCCA
Statistics
Matches: 219, Mismatches: 58, Indels: 27
0.72 0.19 0.09
Matches are distributed among these distances:
40 19 0.09
41 8 0.04
42 2 0.01
43 21 0.10
44 137 0.63
45 32 0.15
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (43 bp):
TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGGGTT
Found at i:49781253 original size:44 final size:44
Alignment explanation
Indices: 49781205--49781384 Score: 120
Period size: 44 Copynumber: 4.1 Consensus size: 44
49781195 CAGCCTGCCT
*
49781205 CACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTC
1 CACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTACTC
* * *
49781249 CACTATTG-TCTAGGGA-AGT-AGAATTACTG---GCTTCAATGTACTC
1 CACTACTGCT-TAGGGAGA-TAAG-A-T-CTGAAATCTTCAATCTACTC
*** ** * * * ** *
49781292 CACTGAAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTC
1 CACT-ACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTACTC
*
49781337 CACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTC
1 CACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTACTC
49781381 CACT
1 CACT
49781385 GTTGCCCAGG
Statistics
Matches: 97, Mismatches: 27, Indels: 24
0.66 0.18 0.16
Matches are distributed among these distances:
42 2 0.02
43 20 0.21
44 55 0.57
45 17 0.18
46 3 0.03
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (44 bp):
CACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTACTC
Found at i:49781358 original size:132 final size:132
Alignment explanation
Indices: 49781205--49782328 Score: 1896
Period size: 132 Copynumber: 8.5 Consensus size: 132
49781195 CAGCCTGCCT
* *
49781205 CACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGTCTAGGGAAGTAG
1 CACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAG
* *
49781270 AATTACTGGCTTCAATGTACTCCACTGAAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTAC
66 AATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGC
49781335 TC
131 TC
*
49781337 CACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAG
1 CACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAG
* * * **
49781402 ATTTACTGGTTTAAATGTACTCCACTGTAACCACAGGGAGGTAAAATATGCCATCTTCGATCTGC
66 AATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGC
49781467 TC
131 TC
* * *
49781469 CACTACTGC----GGAGATAAGATCTAAAATCTTCAATCTATTCCACGGTTGCCCAGGGAAGTAG
1 CACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAG
*
49781530 AATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGC
66 AATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGC
49781595 TC
131 TC
* *
49781597 CACTACTGCTTAGGGAGATAATACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAG
1 CACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAG
* *
49781662 AGTTACTAGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGC
66 AATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGC
49781727 TC
131 TC
* *
49781729 CACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGTGAAGTAG
1 CACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAG
49781794 AATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGC
66 AATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGC
49781859 TC
131 TC
* * *
49781861 CACTACTGCTTAGGGAGATAAGATCTAAAATCTTCAATCTATTCCGCTGTTGTTCAGGGAAGTAG
1 CACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAG
*
49781926 AATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGC
66 AATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGC
49781991 TC
131 TC
* * * *
49781993 CACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATCCCGCTGTTGTCCAGAGAAGTAG
1 CACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAG
* * *
49782058 AGTTACTGGCTTTAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGC
66 AATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGC
49782123 TC
131 TC
* *
49782125 CACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAAGGAAGTAG
1 CACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAG
* *
49782190 AATTACTGGCTTCAATGTACTCCACTATAACCATAGGGAGGTAAAATCCGCCATCTTCGATCTGC
66 AATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGC
49782255 TC
131 TC
*
49782257 CACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAG
1 CACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAG
49782322 AATTACT
66 AATTACT
49782329 TAGGGAGATA
Statistics
Matches: 933, Mismatches: 55, Indels: 8
0.94 0.06 0.01
Matches are distributed among these distances:
128 120 0.13
132 813 0.87
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
CACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAG
AATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGC
TC
Found at i:49781396 original size:44 final size:44
Alignment explanation
Indices: 49781216--49782316 Score: 114
Period size: 44 Copynumber: 25.1 Consensus size: 44
49781206 ACTACTGCTT
* * *
49781216 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGTCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTATTGCCC
* * **
49781260 AGGGA-AGT-AGAATTACTG---GCTTCAATGTACTCCACTGA-AACCAC
1 AGGGAGA-TAAG-A-T-CTGAAATCTTCAATCTACTCCACT-ATTGCC-C
* * * ** * * **
49781304 AGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTT
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTATTGCCC
* *
49781348 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCC
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTATTGCCC
* * * * **
49781392 AGGGA-AGT-AGATTTACTG--GT-TTAAATGTACTCCACTGTAACCAC
1 AGGGAGA-TAAGA--T-CTGAAATCTTCAATCTACTCCACTATTGCC-C
* * * ** * * *
49781436 AGGGAGGTAAAATATGCCATCTTCGATCTGCTCCACTACTG--C
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTATTGCCC
* * **
49781478 --GGAGATAAGATCTAAAATCTTCAATCTATTCCACGGTTGCCC
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTATTGCCC
* * * **
49781520 AGGGA-AGT-AGAATTACTG---GCTTCAATGTACTCCACTGTAACCAC
1 AGGGAGA-TAAG-A-T-CTGAAATCTTCAATCTACTCCACTATTGCC-C
* * * * * * * **
49781564 AGGGAGGTAAAATC-CACCATCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCTGA-AATCTTCAATCTACTCCACTATTGCCC
* * * * *
49781608 AGGGAGATAATACCTGAAATCTTCAATCTATTCCACTGTTGTCC
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTATTGCCC
* * * * **
49781652 AGGGA-AGT-AGAGT-T-ACTAGCTTCAATGTACTCCACTGTAACCAC
1 AGGGAGA-TAAGA-TCTGA-AATCTTCAATCTACTCCACTATTGCC-C
* * * ** * * * **
49781696 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTATTGCCC
* * * *
49781740 AGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCC
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTATTGCCC
* * * * **
49781784 AGTGA-AGT-AGAATTACTG---GCTTCAATGTACTCCACTGTAACCAC
1 AGGGAGA-TAAG-A-T-CTGAAATCTTCAATCTACTCCACTATTGCC-C
* * * ** * * * **
49781828 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTATTGCCC
* * * * **
49781872 AGGGAGATAAGATCTAAAATCTTCAATCTATTCCGCTGTTGTTC
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTATTGCCC
* * * **
49781916 AGGGA-AGT-AGAATTACTG---GCTTCAATGTACTCCACTGTAACCAC
1 AGGGAGA-TAAG-A-T-CTGAAATCTTCAATCTACTCCACTATTGCC-C
* * ** * * * **
49781960 AGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTATTGCCC
* * * *
49782004 AGGGAGATAAGACCTGAAATCTTCAATCTA-TCCCGCTGTTGTCC
1 AGGGAGATAAGATCTGAAATCTTCAATCTACT-CCACTATTGCCC
* * * * * * **
49782048 AGAGA-AGTAGAGTTACTG---GCTTTAATGTACTCCACTGTAACCAC
1 AGGGAGA-TA-AGAT-CTGAAATCTTCAATCTACTCCACTATTGCC-C
* * ** * * * **
49782092 AGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTATTGCCC
* * * *
49782136 AGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCC
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTATTGCCC
* * * ** *
49782180 AAGGA-AGT-AGAATTACTG---GCTTCAATGTACTCCACTATAACCAT
1 AGGGAGA-TAAG-A-T-CTGAAATCTTCAATCTACTCCACTATTGCC-C
* * * ** * * * * **
49782224 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTACTT
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTATTGCCC
* * *
49782268 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCC
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTATTGCCC
49782312 AGGGA
1 AGGGA
49782317 AGTAGAATTA
Statistics
Matches: 699, Mismatches: 272, Indels: 172
0.61 0.24 0.15
Matches are distributed among these distances:
40 27 0.04
42 18 0.03
43 169 0.24
44 330 0.47
45 136 0.19
46 19 0.03
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (44 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTATTGCCC
Found at i:49782360 original size:62 final size:62
Alignment explanation
Indices: 49782263--49782390 Score: 229
Period size: 62 Copynumber: 2.1 Consensus size: 62
49782253 GCTCCACTAC
49782263 TACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAAT
1 TACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAAT
* * *
49782325 TACTTAGGGAGATAAGATCTGAAATCTTTAATCTATTCCACTGTTGTTCGGGGAAGTAGAAT
1 TACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAAT
49782387 TACT
1 TACT
49782391 GGTTTCAATA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (62 bp):
TACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAAT
Found at i:49787733 original size:98 final size:98
Alignment explanation
Indices: 49787562--49787758 Score: 367
Period size: 98 Copynumber: 2.0 Consensus size: 98
49787552 GTGCAATAAA
*
49787562 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
49787627 CCTCTAAAATCCCAAACTCGAAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGAAATATTTCCTTT
49787660 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
49787725 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGAAATATTTCCTTT
49787758 A
1 A
49787759 TTATTTTTAA
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGAAATATTTCCTTT
Found at i:49788486 original size:106 final size:108
Alignment explanation
Indices: 49788287--49788486 Score: 282
Period size: 106 Copynumber: 1.9 Consensus size: 108
49788277 TAAAGAAATA
*
49788287 TATATATAGAAATTATAAAAATATGGGTAGAAAGTATAATATATATATACGTACATATATATGTA
1 TATATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATATACGTACATATATA-GTA
* * *
49788352 AGTTAATAAATATAGACCATAAAGATAATGATTGCATATATGTG
65 AGGTAACAAATATAGACCATAAACATAATGATTGCATATATGTG
* *
49788396 TATATATATAAATTAT-AAAATATGTATAGAAAGTAT-A-ATATATATACGTACATATATA-TAA
1 TATATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATATACGTACATATATAGTAA
*
49788457 GGTAACAAATATATACATCATAAACATAAT
66 GGTAACAAATATAGAC--CATAAACATAAT
49788487 AATTACACAT
Statistics
Matches: 82, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
104 16 0.20
106 32 0.39
107 1 0.01
108 18 0.22
109 15 0.18
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (108 bp):
TATATATAGAAATTATAAAAATATGGATAGAAAGTATAATATATATATACGTACATATATAGTAA
GGTAACAAATATAGACCATAAACATAATGATTGCATATATGTG
Found at i:49788758 original size:20 final size:21
Alignment explanation
Indices: 49788735--49788773 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
49788725 TTAAAGGGCA
*
49788735 AATTTAAAAGATAA-AAAAAT
1 AATTGAAAAGATAATAAAAAT
*
49788755 AATTGAAAATATAATAAAA
1 AATTGAAAAGATAATAAAA
49788774 GACAGAGGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (21 bp):
AATTGAAAAGATAATAAAAAT
Found at i:49794021 original size:18 final size:18
Alignment explanation
Indices: 49794000--49794049 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 18
49793990 TTTCTTGCAT
49794000 GTTTATTTTTTGTTTTCA
1 GTTTATTTTTTGTTTTCA
*
49794018 GTTTA--GTTTGTTTTCA
1 GTTTATTTTTTGTTTTCA
*
49794034 ATTT-TTATTTTGTTTT
1 GTTTATT-TTTTGTTTT
49794050 TGCTTAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
16 13 0.50
18 13 0.50
ACGTcount: A:0.12, C:0.04, G:0.12, T:0.72
Consensus pattern (18 bp):
GTTTATTTTTTGTTTTCA
Found at i:49797979 original size:23 final size:23
Alignment explanation
Indices: 49797949--49797995 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
49797939 GTTTAGTTCC
49797949 CATGCAAAGGTGGCCATGCACGA
1 CATGCAAAGGTGGCCATGCACGA
* *
49797972 CATGCAAAGGTGGTCATGCTCGA
1 CATGCAAAGGTGGCCATGCACGA
49797995 C
1 C
49797996 TGAAATAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.26, G:0.30, T:0.17
Consensus pattern (23 bp):
CATGCAAAGGTGGCCATGCACGA
Found at i:49802504 original size:23 final size:23
Alignment explanation
Indices: 49802474--49802520 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
49802464 GTTTAGTTCC
49802474 CATGCAAAGGTGGCCATGCACGA
1 CATGCAAAGGTGGCCATGCACGA
* *
49802497 CATGCAAAGGTGGTCATGCTCGA
1 CATGCAAAGGTGGCCATGCACGA
49802520 C
1 C
49802521 TGAAATAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.26, G:0.30, T:0.17
Consensus pattern (23 bp):
CATGCAAAGGTGGCCATGCACGA
Found at i:49810830 original size:63 final size:63
Alignment explanation
Indices: 49810751--49810878 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
49810741 TTTTTGAAAC
49810751 ACCAAATTAATATATATTATAATTTCAAAATGTTATACAGGTGAATTTAATAGAAGAATTTTA
1 ACCAAATTAATATATATTATAATTTCAAAATGTTATACAGGTGAATTTAATAGAAGAATTTTA
49810814 ACCAAATTAATATATATTATAATTTCAAAATGTTATACAGGTGAATTTAATAGAAGAATTTTA
1 ACCAAATTAATATATATTATAATTTCAAAATGTTATACAGGTGAATTTAATAGAAGAATTTTA
49810877 AC
1 AC
49810879 GGCGGTAATA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (63 bp):
ACCAAATTAATATATATTATAATTTCAAAATGTTATACAGGTGAATTTAATAGAAGAATTTTA
Found at i:49810976 original size:34 final size:33
Alignment explanation
Indices: 49810912--49810977 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
49810902 TCTAAATCCA
*
49810912 AAAAGTAGAAGGATTAAATTCCTAAAATAAAAAT
1 AAAAGTAGAA-GATTAAATTCCAAAAATAAAAAT
*
49810946 AAAAGTAGAA-ATTAAATTCCAAATATATAAAA
1 AAAAGTAGAAGATTAAATTCCAAAAATA-AAAA
49810978 GACATAGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 15 0.52
33 4 0.14
34 10 0.34
ACGTcount: A:0.61, C:0.06, G:0.09, T:0.24
Consensus pattern (33 bp):
AAAAGTAGAAGATTAAATTCCAAAAATAAAAAT
Found at i:49812587 original size:51 final size:51
Alignment explanation
Indices: 49812511--49812613 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
49812501 AGATGAACAT
49812511 ATGAATTCTTGGAAGTTTTAACAACAACAATAAATAATAAATGCATTCGTG
1 ATGAATTCTTGGAAGTTTTAACAACAACAATAAATAATAAATGCATTCGTG
49812562 ATGAATTCTTGGAAGTTTTAACAACAACAATAAATAATAAATGCATTCGTG
1 ATGAATTCTTGGAAGTTTTAACAACAACAATAAATAATAAATGCATTCGTG
49812613 A
1 A
49812614 GAAACAGACA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.31
Consensus pattern (51 bp):
ATGAATTCTTGGAAGTTTTAACAACAACAATAAATAATAAATGCATTCGTG
Found at i:49812727 original size:39 final size:37
Alignment explanation
Indices: 49812669--49812744 Score: 134
Period size: 39 Copynumber: 2.0 Consensus size: 37
49812659 TATAAAATAT
49812669 ATAAAAGTATAATAAAATTTAGAAGCAATGAGTTTTG
1 ATAAAAGTATAATAAAATTTAGAAGCAATGAGTTTTG
49812706 ATAAAAGTTATAATTAAAATTTAGAAGCAATGAGTTTTG
1 ATAAAAG-TATAA-TAAAATTTAGAAGCAATGAGTTTTG
49812745 TTTTGGGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 7 0.19
38 5 0.14
39 25 0.68
ACGTcount: A:0.47, C:0.03, G:0.16, T:0.34
Consensus pattern (37 bp):
ATAAAAGTATAATAAAATTTAGAAGCAATGAGTTTTG
Found at i:49820270 original size:16 final size:18
Alignment explanation
Indices: 49820243--49820276 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
49820233 TAGAATTGAG
49820243 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
49820260 TTGAG-AAATTAATTTAA
1 TTGAGAAAATTAATTTAA
49820277 GATATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:49828098 original size:19 final size:19
Alignment explanation
Indices: 49828062--49828098 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
49828052 TTGATGTAAA
*
49828062 TAAAATATATTAAAATAGG
1 TAAAATATAATAAAATAGG
*
49828081 TAAAATATAATAACATAG
1 TAAAATATAATAAAATAG
49828099 TTTTTAGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (19 bp):
TAAAATATAATAAAATAGG
Found at i:49828460 original size:4 final size:4
Alignment explanation
Indices: 49828451--49828475 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
49828441 TAATAGAGCT
49828451 AGTA AGTA AGTA AGTA AGTA AGTA A
1 AGTA AGTA AGTA AGTA AGTA AGTA A
49828476 TAATAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AGTA
Found at i:49828524 original size:23 final size:25
Alignment explanation
Indices: 49828473--49828533 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 25
49828463 AGTAAGTAAG
*
49828473 TAATAATAATAATAATAATAAAAGGC
1 TAATAATAAAAATAATAATAAAA-GC
*
49828499 TAATAATAAAAATATTAAT-AAA-C
1 TAATAATAAAAATAATAATAAAAGC
*
49828522 TAATATTAAAAA
1 TAATAATAAAAA
49828534 ATCAATAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 12 0.38
25 3 0.09
26 17 0.53
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (25 bp):
TAATAATAAAAATAATAATAAAAGC
Found at i:49828995 original size:5 final size:5
Alignment explanation
Indices: 49828972--49829005 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
49828962 TTCATTTTTC
49828972 AAAACG AAAAG AAAA- AAAAG AAAAG AAAAG AAAA
1 AAAA-G AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
49829006 ATAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 19 0.70
6 4 0.15
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:49829005 original size:24 final size:25
Alignment explanation
Indices: 49828972--49829022 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
49828962 TTCATTTTTC
49828972 AAAACGAAAAGA-AAAAAAAGAA-AAG
1 AAAACGAAAA-ATAAAAAAA-AACAAG
49828997 AAAA-GAAAAATAAAAAAAAACAAG
1 AAAACGAAAAATAAAAAAAAACAAG
49829021 AA
1 AA
49829023 CCCAAATGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 3 0.12
24 17 0.71
25 4 0.17
ACGTcount: A:0.82, C:0.04, G:0.12, T:0.02
Consensus pattern (25 bp):
AAAACGAAAAATAAAAAAAAACAAG
Found at i:49829014 original size:19 final size:18
Alignment explanation
Indices: 49828972--49829014 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
49828962 TTCATTTTTC
*
49828972 AAAACGAAAAGAAAAAAA
1 AAAAAGAAAAGAAAAAAA
49828990 AGAAAAGAAAAGAAAAATAA
1 A-AAAAGAAAAGAAAAA-AA
49829010 AAAAA
1 AAAAA
49829015 AACAAGAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 18 0.82
20 3 0.14
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (18 bp):
AAAAAGAAAAGAAAAAAA
Found at i:49830065 original size:44 final size:44
Alignment explanation
Indices: 49830012--49830237 Score: 158
Period size: 44 Copynumber: 5.2 Consensus size: 44
49830002 CTATTATTTT
* * *
49830012 AATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTC
* *
49830056 AATCTGCTCCACTGCAACCTCAGGGAGATAAGATT-T-GACATATTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGC---TTC
* * * * * * * * *
49830101 GATCTACCCCACTGCAACCTCAGGGGGATACG---ACCTGCTGC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTC
* * * * ** *
49830142 GATCTACTCTACTGCAACTTCAGAGAGATAAGATCTAT-TACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCGGCTTC
* * *
49830186 AATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTC
49830230 AATCTGCT
1 AATCTGCT
49830238 TCCTTACTCT
Statistics
Matches: 137, Mismatches: 35, Indels: 20
0.71 0.18 0.10
Matches are distributed among these distances:
41 28 0.20
42 2 0.01
43 4 0.03
44 72 0.53
45 31 0.23
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTC
Found at i:49830500 original size:129 final size:129
Alignment explanation
Indices: 49830206--49831473 Score: 1906
Period size: 129 Copynumber: 9.9 Consensus size: 129
49830196 ACTACAACTT
* * * * * *
49830206 CAGGGAGATAGGA-TTATCGGCTTCAATCTGCTTCCTTACTCTTGAAGATAAGATTCACTGTCAT
1 CAGGGATATAGGACTTGT-GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTC-T
* *
49830270 T-AATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTT-CCAACCTATTCCA-TCGCTG
64 TCGATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACT-GCTG
49830332 AC
128 AC
* * *
49830334 CAGGGATATAGGACTTGTGGCTCAAATCTGATTCCTTACACTTGAAGATAAGATTCGCCATCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* *
49830399 GATCTGCTCCGCTATTGTTTAGGGAGACAAGA-CGGTTAATTTCCCAACCTATTCCACTGCTGAC
66 GATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTG-TAATTTCCCAACCTATTCCACTGCTGAC
* *
49830463 CAGGGATATATGACTTATGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
*
49830528 GATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTACTGAC
66 GATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
* *
49830592 CAGTGATATAGGACTTGTGGCTTAAATCTGCTTCTTTACACTTGAAGATAAGATTCGCCGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* * **
49830657 GATCTGCTCCGCTACTGCTTAGGGATACAAGATCTGTAATTT-CTGACCTATTCCACTGCTGAC
66 GATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
* ** * *
49830720 CAGAGAGGTAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCACCGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* **
49830785 GATCTGCTCCACTACTT-CTTAGGGAGACAAGATCTGTAATTT-CTGACCTATTCCACTGCTGAC
66 GATCTGCTCCGCTA-TTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
* * *
49830848 CAGGGAAATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
*
49830913 GATCTGCTCCGCTATTGCTTAGAGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
66 GATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
* * ** *
49830977 CAGAGAAATAGGACTTGTGGCTTAAATCTGCTTCCTTATTCTTGAAGATAAGATTTGCCGTCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
49831042 GATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
66 GATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
* * **
49831106 CAGGGATATAGGACTTGTAGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCACCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
*
49831171 GATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTTCACTGCTGAC
66 GATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
* *
49831235 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTCAAGATAAGATTTGCCG-CTTT
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTC-TT
* * * * *
49831299 CGATCTGCTCCGCTATTGCTTAAGGAGACAAGATCTGTAATTTCCTAACCTATTCTACCGTTGAC
65 CGATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
* * *
49831364 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCAGCCTTC
1 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* * *
49831429 GATCTGTTCCGCTACTGCTTAGGGAGACAAGATTTGTAATTTCCC
66 GATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCC
49831474 TGATCTGTTC
Statistics
Matches: 1054, Mismatches: 75, Indels: 21
0.92 0.07 0.02
Matches are distributed among these distances:
127 6 0.01
128 317 0.30
129 727 0.69
130 4 0.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (129 bp):
CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
GATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGAC
Found at i:49831138 original size:514 final size:516
Alignment explanation
Indices: 49830210--49831473 Score: 1950
Period size: 514 Copynumber: 2.5 Consensus size: 516
49830200 CAACTTCAGG
* * * *
49830210 GAGATAGGA-TTATCGGCTTCAATCTGCTTCCTTACTCTTGAAGATAAGATTCACTGTCATT-AA
1 GAGATAGGACTTGT-GGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCACCGTCATTCGA
* *
49830273 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCA-TCGCTGACCAG
65 TCTGCTCCGCTACTTCTTAGGGAGACAAGATCTGTAATTTCTAACCTATTCCACT-GCTGACCAG
* * * *
49830337 GGATATAGGACTTGTGGCTCAAATCTGATTCCTTACACTTGAAGATAAGATTCGCCATCTTCGAT
129 GGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTCGAT
* *
49830402 CTGCTCCGCTATTGTTTAGGGAGACAAGA-CGGTTAATTTCCCAACCTATTCCACTGCTGACCAG
194 CTGCTCCGCTATTGCTTAGGGAGACAAGATCTG-TAATTTCCCAACCTATTCCACTGCTGACCAG
* * *
49830466 GGATATATGACTTATGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGAT
258 AGAAATAGGACTTATGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGAT
*
49830531 CTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACCAGT
323 CTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACCAGG
* * **
49830596 GATATAGGACTTGTGGCTTAAATCTGCTTCTTTACACTTGAAGATAAGATTCGCCGTCTTCGATC
388 GATATAGGACTTGTAGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCACCTTCGATC
* **
49830661 TGCTCCGCTACTGCTTAGGGATACAAGATCTGTAATTT-CTGACCTATTCCACTGCTGACCAGA
453 TGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGA
*
49830724 GAGGTAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCACCGTC-TTCGAT
1 GAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCACCGTCATTCGAT
* *
49830788 CTGCTCCACTACTTCTTAGGGAGACAAGATCTGTAATTTCTGACCTATTCCACTGCTGACCAGGG
66 CTGCTCCGCTACTTCTTAGGGAGACAAGATCTGTAATTTCTAACCTATTCCACTGCTGACCAGGG
* *
49830853 AAATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCTTCGATCT
131 ATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTCGATCT
*
49830918 GCTCCGCTATTGCTTAGAGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGAGA
196 GCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGAGA
* ** *
49830983 AATAGGACTTGTGGCTTAAATCTGCTTCCTTATTCTTGAAGATAAGATTTGCCGTCTTCGATCTG
261 AATAGGACTTATGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTG
*
49831048 CTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGAT
326 CTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACCAGGGAT
*
49831113 ATAGGACTTGTAGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCACCTTCGATCTGC
391 ATAGGACTTGTAGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCACCTTCGATCTGC
* * *
49831178 TCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTTCACTGCTGACCAGG
456 TCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGA
* * * ** *
49831239 GATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTCAAGATAAGATTTGCCG-CTTTCGAT
1 GAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCACCGTCATTCGAT
* * * *
49831303 CTGCTCCGCTA-TTGCTTAAGGAGACAAGATCTGTAATTTCCTAACCTATTCTACCGTTGACCAG
66 CTGCTCCGCTACTT-CTTAGGGAGACAAGATCTGTAATTT-CTAACCTATTCCACTGCTGACCAG
* *
49831367 GGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCAGCCTTCGAT
129 GGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTCGAT
* * *
49831432 CTGTTCCGCTACTGCTTAGGGAGACAAGATTTGTAATTTCCC
194 CTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCC
49831474 TGATCTGTTC
Statistics
Matches: 684, Mismatches: 58, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
513 2 0.00
514 446 0.65
515 117 0.17
516 119 0.17
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (516 bp):
GAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCACCGTCATTCGAT
CTGCTCCGCTACTTCTTAGGGAGACAAGATCTGTAATTTCTAACCTATTCCACTGCTGACCAGGG
ATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTCGATCT
GCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGAGA
AATAGGACTTATGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTG
CTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTACTGACCAGGGAT
ATAGGACTTGTAGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCACCTTCGATCTGC
TCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGA
Found at i:49832717 original size:17 final size:17
Alignment explanation
Indices: 49832696--49832755 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 17
49832686 AGTCTCTCCA
49832696 TTTTTACTTTTTCATTAT
1 TTTTTA-TTTTTCATTAT
49832714 TTTTTATTTTTCATTTTCAGT
1 TTTTTATTTTTCA--TT-A-T
*
49832735 TTTTCATTTTTCA-TAT
1 TTTTTATTTTTCATTAT
49832751 TTTTT
1 TTTTT
49832756 GACTCAAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
16 5 0.14
17 8 0.22
18 7 0.19
19 2 0.06
20 1 0.03
21 13 0.36
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTTATTTTTCATTAT
Found at i:49832745 original size:7 final size:7
Alignment explanation
Indices: 49832712--49832753 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
49832702 CTTTTTCATT
*
49832712 ATTTTTT
1 ATTTTTC
49832719 ATTTTTC
1 ATTTTTC
49832726 A-TTTTC
1 ATTTTTC
49832732 AGTTTTTC
1 A-TTTTTC
49832740 ATTTTTC
1 ATTTTTC
49832747 ATATTTT
1 AT-TTTT
49832754 TTGACTCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
6 6 0.19
7 15 0.48
8 10 0.32
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (7 bp):
ATTTTTC
Found at i:49832755 original size:31 final size:31
Alignment explanation
Indices: 49832694--49832754 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
49832684 TTAGTCTCTC
* **
49832694 CATTTTTACTTTTTCATTATTTTTTATTTTT
1 CATTTTCACTTTTTCATTATTTCATATTTTT
*
49832725 CATTTTCAGTTTTTCATT-TTTCATATTTTT
1 CATTTTCACTTTTTCATTATTTCATATTTTT
49832755 TGACTCAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.16, C:0.11, G:0.02, T:0.70
Consensus pattern (31 bp):
CATTTTCACTTTTTCATTATTTCATATTTTT
Found at i:49833635 original size:6 final size:6
Alignment explanation
Indices: 49833624--49833698 Score: 62
Period size: 6 Copynumber: 12.7 Consensus size: 6
49833614 CTTCTCTATT
* * * * ** ** *
49833624 TTTTCA TTTTCA TTTTGA CTTTGA TTTTAA TTTTCC TTTTTC TTTT-T
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
49833671 TTTTGA TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTT
49833699 TTTTTGGATT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
5 4 0.07
6 55 0.93
ACGTcount: A:0.13, C:0.08, G:0.08, T:0.71
Consensus pattern (6 bp):
TTTTGA
Found at i:49833676 original size:29 final size:29
Alignment explanation
Indices: 49833624--49833704 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 29
49833614 CTTCTCTATT
* **
49833624 TTTTCATTTTCATTTTGACTTTGATTTTAA
1 TTTTCATTTTGATTTT-TTTTTGATTTTAA
* ** *
49833654 TTTTCCTTTTTCTTTTTTTTTGATTTTGA
1 TTTTCATTTTGATTTTTTTTTGATTTTAA
*
49833683 TTTTGATTTTGATTTTTTTTTG
1 TTTTCATTTTGATTTTTTTTTG
49833705 GATTAGATCT
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
29 28 0.68
30 13 0.32
ACGTcount: A:0.12, C:0.07, G:0.09, T:0.72
Consensus pattern (29 bp):
TTTTCATTTTGATTTTTTTTTGATTTTAA
Found at i:49833699 original size:35 final size:34
Alignment explanation
Indices: 49833636--49833703 Score: 91
Period size: 35 Copynumber: 2.0 Consensus size: 34
49833626 TTCATTTTCA
*
49833636 TTTTGACTTTGATTTTAATTTTCCTTTTTCTTTTT
1 TTTTGACTTTGATTTTAATTTTCATTTTT-TTTTT
* * *
49833671 TTTTGATTTTGATTTTGATTTTGATTTTTTTTT
1 TTTTGACTTTGATTTTAATTTTCATTTTTTTTT
49833704 GGATTAGATC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 4 0.14
35 25 0.86
ACGTcount: A:0.12, C:0.06, G:0.09, T:0.74
Consensus pattern (34 bp):
TTTTGACTTTGATTTTAATTTTCATTTTTTTTTT
Found at i:49837970 original size:19 final size:19
Alignment explanation
Indices: 49837934--49837970 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
49837924 TTGATGTAAA
*
49837934 TAAAATATATTAAAATAGG
1 TAAAATATAATAAAATAGG
*
49837953 TAAAATATAATAACATAG
1 TAAAATATAATAAAATAG
49837971 TTTTTAGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (19 bp):
TAAAATATAATAAAATAGG
Found at i:49838338 original size:4 final size:4
Alignment explanation
Indices: 49838329--49838357 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
49838319 TAATAGAGCT
49838329 AGTA AGTA AGTA AGTA AGTA AGTA AGTA A
1 AGTA AGTA AGTA AGTA AGTA AGTA AGTA A
49838358 TAATAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AGTA
Found at i:49838406 original size:23 final size:25
Alignment explanation
Indices: 49838355--49838415 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 25
49838345 AGTAAGTAAG
*
49838355 TAATAATAATAATAATAATAAAAGGC
1 TAATAATAAAAATAATAATAAAA-GC
*
49838381 TAATAATAAAAATATTAAT-AAA-C
1 TAATAATAAAAATAATAATAAAAGC
*
49838404 TAATATTAAAAA
1 TAATAATAAAAA
49838416 ATCAATAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 12 0.38
25 3 0.09
26 17 0.53
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (25 bp):
TAATAATAAAAATAATAATAAAAGC
Found at i:49838828 original size:5 final size:5
Alignment explanation
Indices: 49838820--49838853 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
49838810 CAAAAAGAAA
49838820 AAAAT AAAAT AAAAT AAAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAA
49838854 CAAGAACCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:49838840 original size:16 final size:16
Alignment explanation
Indices: 49838819--49838853 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
49838809 ACAAAAAGAA
49838819 AAAAATAAAATAAAAT
1 AAAAATAAAATAAAAT
49838835 AAAAATAAAATAAAAT
1 AAAAATAAAATAAAAT
49838851 AAA
1 AAA
49838854 CAAGAACCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAAATAAAATAAAAT
Found at i:49848511 original size:19 final size:19
Alignment explanation
Indices: 49848489--49848525 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
49848479 AATATACAAT
* *
49848489 TATTATTTTTATATTATAA
1 TATTATTTGTATAATATAA
49848508 TATTATTTGTATAATATA
1 TATTATTTGTATAATATA
49848526 TTAACTCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
TATTATTTGTATAATATAA
Found at i:49854831 original size:13 final size:13
Alignment explanation
Indices: 49854813--49854876 Score: 83
Period size: 13 Copynumber: 4.9 Consensus size: 13
49854803 AGTTCTTCAT
49854813 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
49854826 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
* *
49854839 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
49854852 TGCTGTTGAAAAG
1 TGCTTTTGAAAAG
*
49854865 TGGTTTTGAAAA
1 TGCTTTTGAAAA
49854877 TTTTTAGTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:49855510 original size:12 final size:12
Alignment explanation
Indices: 49855493--49855518 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49855483 GTTGTTTGAT
49855493 TCACCGTCATCA
1 TCACCGTCATCA
49855505 TCACCGTCATCA
1 TCACCGTCATCA
49855517 TC
1 TC
49855519 GTCGTTGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.42, G:0.08, T:0.27
Consensus pattern (12 bp):
TCACCGTCATCA
Found at i:49857055 original size:72 final size:72
Alignment explanation
Indices: 49856928--49857166 Score: 372
Period size: 72 Copynumber: 3.3 Consensus size: 72
49856918 AAAATCATAT
** **
49856928 ATAAACAACTATTGATAAAACTATTTTA-GTATAAATAAGTAAAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAAAACATAAATTCAATATCCAAAA
49856992 ACCAAAC
66 ACCAAAC
* * *
49856999 ATAAACAACTATTAATAAAACTAGATTACACATAAATAAGTAGAATATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAAAACATAAATTCAATATCCAAAA
49857064 ACCAAAC
66 ACCAAAC
* *
49857071 ATAAACAACCATTGATAAAACTAGATTACACATAAATAAGTATAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAAAACATAAATTCAATATCCAAAA
*
49857136 ACTAAAC
66 ACCAAAC
*
49857143 ATAAATAACTATTGATAAAACTAG
1 ATAAACAACTATTGATAAAACTAG
49857167 TTTAGCATTG
Statistics
Matches: 153, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
71 25 0.16
72 128 0.84
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.25
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAAAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:49860462 original size:12 final size:12
Alignment explanation
Indices: 49860445--49860469 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49860435 CTGGGGATCT
49860445 AGCAATCAGTAA
1 AGCAATCAGTAA
49860457 AGCAATCAGTAA
1 AGCAATCAGTAA
49860469 A
1 A
49860470 CTCTAAAATA
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:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (12 bp):
AGCAATCAGTAA
Found at i:49863066 original size:3 final size:3
Alignment explanation
Indices: 49863060--49863142 Score: 166
Period size: 3 Copynumber: 27.7 Consensus size: 3
49863050 GAGTATAATA
49863060 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
49863108 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
49863143 TAAGAAGTAG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.34, C:0.00, G:0.33, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:49864097 original size:53 final size:53
Alignment explanation
Indices: 49864039--49864144 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
49864029 TAAGAGAGAA
49864039 TGTGATTTGTATGGTGAAAAGTACTAAAATTAAGAAATGAATATGTAATCTAC
1 TGTGATTTGTATGGTGAAAAGTACTAAAATTAAGAAATGAATATGTAATCTAC
*
49864092 TGTGATTTGTATGGTGAAAAGTACTAAGATTAAGAAATGAATATGTAATCTAC
1 TGTGATTTGTATGGTGAAAAGTACTAAAATTAAGAAATGAATATGTAATCTAC
49864145 ACATAAACTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.34
Consensus pattern (53 bp):
TGTGATTTGTATGGTGAAAAGTACTAAAATTAAGAAATGAATATGTAATCTAC
Found at i:49866199 original size:17 final size:18
Alignment explanation
Indices: 49866165--49866210 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
49866155 CCGTTATGTC
49866165 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
49866180 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
49866197 CGCGACCGCGACCG
1 CGCGACCGCGACCG
49866211 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:49873075 original size:50 final size:51
Alignment explanation
Indices: 49872902--49873088 Score: 207
Period size: 51 Copynumber: 3.7 Consensus size: 51
49872892 TATAAACACG
* * * * * *
49872902 TGTGTAGTACTAAGTGCAGGCTACTACATGTATC-GATAGATAATGATCACA
1 TGTGTAGTACTATGTGCAGACTACTACGTGTATCGGAAAGCT-TTGATCACA
* * * * * * * *
49872953 TGTGCAGTAGTATGTGCAGGCTACTATGTGTACCGGAAGGCTTTGGTCACG
1 TGTGTAGTACTATGTGCAGACTACTACGTGTATCGGAAAGCTTTGATCACA
*
49873004 TGTGTAGTACTATGTGCAGACTACTACGTGAATCGGAAAG-TTTGATCACA
1 TGTGTAGTACTATGTGCAGACTACTACGTGTATCGGAAAGCTTTGATCACA
*
49873054 TGTGTAGTACTATGTGAAGACTACTACGTGTATCG
1 TGTGTAGTACTATGTGCAGACTACTACGTGTATCG
49873089 AATGATAATA
Statistics
Matches: 112, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
50 41 0.37
51 67 0.60
52 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGACTACTACGTGTATCGGAAAGCTTTGATCACA
Found at i:49876579 original size:27 final size:27
Alignment explanation
Indices: 49876549--49876600 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
49876539 CGAAATTCAT
49876549 ACTTAAATTA-TAAAATAATTAATTTAC
1 ACTT-AATTATTAAAATAATTAATTTAC
* *
49876576 ACTTAATTATTAACATATTTAATTT
1 ACTTAATTATTAAAATAATTAATTT
49876601 TAATTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (27 bp):
ACTTAATTATTAAAATAATTAATTTAC
Found at i:49878371 original size:79 final size:82
Alignment explanation
Indices: 49878253--49878437 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
49878243 GCTACTCGTT
* * * *
49878253 CAAATGCCTTCGGGACGTAGCCCGG-TTATAGTAACTCGCACAATTGCCTTTGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCC-TTCGGATCTTAACCC
* *
49878316 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
49878333 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
49878396 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
49878413 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49878438 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 5 0.06
79 51 0.57
80 34 0.38
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:49878437 original size:40 final size:40
Alignment explanation
Indices: 49878234--49878437 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
49878224 CGGAATTTAA
** *
49878234 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACGTAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
49878274 CCGGTTATAGTAACTCGCACAATTGCCTTTGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
49878314 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
49878353 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
49878393 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
49878433 CCGGA
1 CCGGA
49878438 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 90 0.66
41 12 0.09
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:49882909 original size:44 final size:44
Alignment explanation
Indices: 49882846--49882936 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 44
49882836 AACTCTGTTT
* *
49882846 TTAGTTTACCATTTAAACTCTAATTAGTGTATG-TTATTTTAATA
1 TTAGTTTACCACTTAAACTCTAATTAGTGTA-GATTATTATAATA
* *
49882890 TTAGTTTCCCACTTAAACTCTGATTAGTGTAGATTATTATAATA
1 TTAGTTTACCACTTAAACTCTAATTAGTGTAGATTATTATAATA
49882934 TTA
1 TTA
49882937 TTTGACCTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 1 0.02
44 41 0.98
ACGTcount: A:0.32, C:0.11, G:0.10, T:0.47
Consensus pattern (44 bp):
TTAGTTTACCACTTAAACTCTAATTAGTGTAGATTATTATAATA
Found at i:49899041 original size:102 final size:102
Alignment explanation
Indices: 49898856--49899059 Score: 327
Period size: 102 Copynumber: 2.0 Consensus size: 102
49898846 TTATCCGTTA
* * * * *
49898856 TCGGTGGATTCAGCATTTAGCAACCCCTTTCACATTTAAGATATGGTGGAATCAGCACTTAGCAA
1 TCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATATGATGGAATCAGCACTTAGCAA
* *
49898921 CCACCAATGATTCGGGGAATCAGCACTTAGCAACCCC
66 CCACCAATGAGTCGGGGAATCAACACTTAGCAACCCC
*
49898958 TCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATATGATGGAATCAGTACTTAGCAA
1 TCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATATGATGGAATCAGCACTTAGCAA
*
49899023 CCACCAATGAGTCGGGGAATTAACACTTAGCAACCCC
66 CCACCAATGAGTCGGGGAATCAACACTTAGCAACCCC
49899060 CTTTATATTC
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 93 1.00
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (102 bp):
TCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATATGATGGAATCAGCACTTAGCAA
CCACCAATGAGTCGGGGAATCAACACTTAGCAACCCC
Found at i:49899424 original size:30 final size:30
Alignment explanation
Indices: 49899390--49899446 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
49899380 AGTCCTCCAC
*
49899390 CCAAATTTTTGAAAAATTACAATTTTGCCT
1 CCAAACTTTTGAAAAATTACAATTTTGCCT
* * *
49899420 CCAAACTTTTGAATATTTACACTTTTG
1 CCAAACTTTTGAAAAATTACAATTTTG
49899447 TCCCTAAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (30 bp):
CCAAACTTTTGAAAAATTACAATTTTGCCT
Done.