Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 103 of 295
Found at i:30530183 original size:25 final size:25
Alignment explanation
Indices: 30530136--30530185 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
30530126 TGTGAGCTTG
****
30530136 TAACAGGAAGCTTATTCGGGCTTAA
1 TAACAGGAAGCTTATAAAAGCTTAA
30530161 TAACAGGAAGCTTATAAAAGCTTAA
1 TAACAGGAAGCTTATAAAAGCTTAA
30530186 ATCAGAAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (25 bp):
TAACAGGAAGCTTATAAAAGCTTAA
Found at i:30534368 original size:32 final size:29
Alignment explanation
Indices: 30534281--30534368 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 29
30534271 TAAAATACTA
30534281 TTATAAATTATATTTAATAATAA-TTATT
1 TTATAAATTATATTTAATAATAATTTATT
* * *
30534309 TTA-AAA-TATGATTAAATTAT-TTATTATT
1 TTATAAATTAT-ATTTAATAATAAT-TTATT
30534337 TATATTAAATTATATTTAATAATAATCTTATT
1 T-TA-TAAATTATATTTAATAATAAT-TTATT
30534369 AAAATTTAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
26 3 0.07
27 11 0.24
28 9 0.20
29 2 0.04
31 11 0.24
32 9 0.20
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (29 bp):
TTATAAATTATATTTAATAATAATTTATT
Found at i:30536943 original size:14 final size:15
Alignment explanation
Indices: 30536914--30536946 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
30536904 TTGGTCGCCA
*
30536914 ATATTAATTTTTTTT
1 ATATTAATTATTTTT
30536929 ATATT-ATTATTTTT
1 ATATTAATTATTTTT
30536943 ATAT
1 ATAT
30536947 AAAATAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATATTAATTATTTTT
Found at i:30548354 original size:177 final size:177
Alignment explanation
Indices: 30548058--30548404 Score: 577
Period size: 177 Copynumber: 2.0 Consensus size: 177
30548048 AAGCTTCTAG
* * * * *
30548058 AATGCAAAATTTTCATCTTATTTAGTTTGGTCCCTAAAGTTCAATTAGACATTTTATGCATATAA
1 AATGCAAAATTTGCATATTATTCAGTTTGATCCCTAAAGTTCAATTAGACAATTTATGCATATAA
*
30548123 TTTCTTCACGAAACTTTCACATAAGCATGCATTCATATCATAGACCTCATAAGAATCATATAATA
66 TTTCTTCACGAAACTTTCACATAAGCATGCATTCATATCATAGAACTCATAAGAATCATATAATA
* * * *
30548188 ATTATTTATATCTCAAATTTTTTGTCTCGAAACTACTGTTCCGACTA
131 ATTATTTATATCTCAAATTTATGGTCTCAAAACCACTGTTCCGACTA
30548235 AATGCAAAATTTGCATATTATTCAGTTTGATCCCTAAAGTTCAATTAGACAATTTATGCATATAA
1 AATGCAAAATTTGCATATTATTCAGTTTGATCCCTAAAGTTCAATTAGACAATTTATGCATATAA
*
30548300 TTTCTTCTCGAAACTTTCACATAAGCATGCATTCATATCATAGAACTCATAAGAATCATATAATA
66 TTTCTTCACGAAACTTTCACATAAGCATGCATTCATATCATAGAACTCATAAGAATCATATAATA
* *
30548365 ATTATTTCTATCTCGAATTTATGGTCTCAAAACCACTGTT
131 ATTATTTATATCTCAAATTTATGGTCTCAAAACCACTGTT
30548405 GATGTTACAA
Statistics
Matches: 157, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
177 157 1.00
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (177 bp):
AATGCAAAATTTGCATATTATTCAGTTTGATCCCTAAAGTTCAATTAGACAATTTATGCATATAA
TTTCTTCACGAAACTTTCACATAAGCATGCATTCATATCATAGAACTCATAAGAATCATATAATA
ATTATTTATATCTCAAATTTATGGTCTCAAAACCACTGTTCCGACTA
Found at i:30549493 original size:47 final size:47
Alignment explanation
Indices: 30549422--30549641 Score: 177
Period size: 47 Copynumber: 4.7 Consensus size: 47
30549412 TGGGTATAGT
* * *
30549422 GCCGATGCCATGTCCCAGACATGGTCTTATATTGGCTCAT-ATCTCA-A
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCATA
* *
30549469 GTCGATGCTATGTCCCTGACATGGTCTTACACTGACTATCATCTCATA
1 GCCGATGC-ATGTCCCAGACATGGTCTTACACTGACTATCATCTCATA
* *
30549517 GCCGATGCATGTCCCAGACAT-GTCTTACACT-AGT-TCTTGTCTCA-A
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGACTATC--ATCTCATA
* * * ** *
30549562 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCAT-AAAGTG
1 -GCCGATG-CATGTCCCAGACATGGTCTTACACTGACTATCATCTCA-TA
* *
30549611 GCCAATGCATGTCTCAGACAT-GTCTTACACT
1 GCCGATGCATGTCCCAGACATGGTCTTACACT
30549642 AGCTCACACA
Statistics
Matches: 144, Mismatches: 17, Indels: 25
0.77 0.09 0.13
Matches are distributed among these distances:
44 2 0.01
45 3 0.02
46 34 0.24
47 76 0.53
48 26 0.18
49 1 0.01
50 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGACTATCATCTCATA
Found at i:30549591 original size:94 final size:93
Alignment explanation
Indices: 30549422--30549647 Score: 256
Period size: 94 Copynumber: 2.4 Consensus size: 93
30549412 TGGGTATAGT
* * * * * * *
30549422 GCCGATGCCATGTCCCAGACATGGTCTTATATTGGCTCATATCTCAAGTCGATGCTATGTCCCTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCATATCTCAAGCCAATGCCATGTCCCAG
**
30549487 ACATGGTCTTACACTGACTATCATCTCA-TA
64 ACATGGTCTTACACTGACTATCAT-AAAGTA
* * *
30549517 GCCGATGCATGTCCCAGACATGTCTTACACTAGTTCTTGTCTCAATGCCAATGCCATGTCCCAGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCATATCTCAA-GCCAATGCCATGTCCCAGA
* * *
30549582 CATGGTCTTACACTGGCTTTCATAAAGTG
65 CATGGTCTTACACTGACTATCATAAAGTA
* *
30549611 GCCAATGCATGTCTCAGACATGTCTTACACTAGCTCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCA
30549648 CACACAAATG
Statistics
Matches: 110, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
93 19 0.17
94 84 0.76
95 7 0.06
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (93 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCATATCTCAAGCCAATGCCATGTCCCAGAC
ATGGTCTTACACTGACTATCATAAAGTA
Found at i:30552261 original size:13 final size:12
Alignment explanation
Indices: 30552220--30552260 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
30552210 AACAAATGGG
30552220 AAAGAAAGAAAGA
1 AAAGAAA-AAAGA
*
30552233 AAGGAGAAAAAGA
1 AAAGA-AAAAAGA
30552246 AAAGAAAAAAGA
1 AAAGAAAAAAGA
30552258 AAA
1 AAA
30552261 AATTAGGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 10 0.40
13 13 0.52
14 2 0.08
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAGA
Found at i:30552626 original size:22 final size:22
Alignment explanation
Indices: 30552588--30552635 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
30552578 AGAAATTAAG
30552588 TAGAAAAGAAGTATGAATTGAGT
1 TAGAAAAGAAG-ATGAATTGAGT
*
30552611 TAGAAAAGTAAG-TGAATTTAGT
1 TAGAAAAG-AAGATGAATTGAGT
30552633 TAG
1 TAG
30552636 GATTAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 12 0.52
23 8 0.35
24 3 0.13
ACGTcount: A:0.46, C:0.00, G:0.25, T:0.29
Consensus pattern (22 bp):
TAGAAAAGAAGATGAATTGAGT
Found at i:30567664 original size:46 final size:47
Alignment explanation
Indices: 30567514--30567711 Score: 176
Period size: 47 Copynumber: 4.3 Consensus size: 47
30567504 GTTATTGTGG
* * * *
30567514 GCTAGTGTAAGA-CATGTCTAGGACATGCATCAGCCAC-ATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCAGCTACGA-GATGATA
* * * * *
30567560 GCCAGTGTAAGATCATGTCTGTGACATGTATCAGCCT-CGAGACG-TAA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCAG-CTACGAGATGAT-A
*
30567607 GCTAGTGTAAGA-CATGTCTGGGATATGCATCAGCTACGAGATGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCAGCTACGAGATGATA
* * * *
30567653 GTTAGTCTAAGACCATGTCTGGGACATGGCATCAAC-ATGAGAT-ATGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCAGCTACGAGATGAT-A
30567700 GCTAGTGTAAGA
1 GCTAGTGTAAGA
30567712 TCGTGTCTAA
Statistics
Matches: 123, Mismatches: 20, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
45 2 0.02
46 48 0.39
47 64 0.52
48 9 0.07
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCAGCTACGAGATGATA
Found at i:30567703 original size:93 final size:93
Alignment explanation
Indices: 30567514--30567732 Score: 226
Period size: 93 Copynumber: 2.3 Consensus size: 93
30567504 GTTATTGTGG
* * *
30567514 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGATCATGTC
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATGATGAGAGCCAGTCTAAGACCATGTC
* * * * *
30567579 TGTGACATGTATCAGCCTCGAGACGTAA
66 TGGGACATGCATCAACATCGAGACATAA
* * * * **
30567607 GCTAGTGTAAGACATGTCTGGGATATGCATCAGCTACGA-GATGATAGTTAGTCTAAGACCATGT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCAC-ATGATGAGAGCCAGTCTAAGACCATGT
* *
30567671 CTGGGACATGGCATCAACAT-GAGATATGA
65 CTGGGACAT-GCATCAACATCGAGACATAA
* *
30567700 GCTAGTGTAAGATCGTGTCTAAGACATGGCATC
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATC
30567733 GGCACCTTAC
Statistics
Matches: 102, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
93 79 0.77
94 18 0.18
95 5 0.05
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATGATGAGAGCCAGTCTAAGACCATGTC
TGGGACATGCATCAACATCGAGACATAA
Found at i:30579799 original size:18 final size:18
Alignment explanation
Indices: 30579776--30579818 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
30579766 AAATATATAT
30579776 TTTTAAATT-TAATTTATC
1 TTTTAAATTATAA-TTATC
*
30579794 TTTTAAATTATAATTATT
1 TTTTAAATTATAATTATC
30579812 TTTTAAA
1 TTTTAAA
30579819 AAAATATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTAAATTATAATTATC
Found at i:30585861 original size:21 final size:21
Alignment explanation
Indices: 30585835--30585875 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30585825 TCAAAACAAC
**
30585835 ATAGTTTTTCCTTTTAACTTA
1 ATAGTTTTGACTTTTAACTTA
30585856 ATAGTTTTGACTTTTAACTT
1 ATAGTTTTGACTTTTAACTT
30585876 TAGAAAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.07, T:0.56
Consensus pattern (21 bp):
ATAGTTTTGACTTTTAACTTA
Found at i:30586149 original size:20 final size:21
Alignment explanation
Indices: 30586113--30586153 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
30586103 TTTGGGGGTA
30586113 AAGGGTGAAAAGTAAAAGTTT
1 AAGGGTGAAAAGTAAAAGTTT
30586134 AAGGG-GAAAA-TAAAAAGTTT
1 AAGGGTGAAAAGT-AAAAGTTT
30586154 TGAGGGTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.05
20 13 0.68
21 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.27, T:0.22
Consensus pattern (21 bp):
AAGGGTGAAAAGTAAAAGTTT
Found at i:30597970 original size:20 final size:20
Alignment explanation
Indices: 30597944--30598062 Score: 78
Period size: 20 Copynumber: 6.0 Consensus size: 20
30597934 CTGCCAAAAT
*
30597944 TGCAGACAAGCTACCAGTAT
1 TGCAGACAAGCTACCAGTAA
* *
30597964 TGTAGACAAGCCACCAGTAA
1 TGCAGACAAGCTACCAGTAA
* * * * *
30597984 TGCAAATAAACTGCTAGTAA
1 TGCAGACAAGCTACCAGTAA
* * *
30598004 TGTAAACCAGCTACCAGTAA
1 TGCAGACAAGCTACCAGTAA
* * * *
30598024 TG-TGAACAGGCCACCAGTAT
1 TGCAG-ACAAGCTACCAGTAA
*
30598044 TGCAGACAAGCTGCCAGTA
1 TGCAGACAAGCTACCAGTA
30598063 CTTCATTATT
Statistics
Matches: 71, Mismatches: 26, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
20 70 0.99
21 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (20 bp):
TGCAGACAAGCTACCAGTAA
Found at i:30598206 original size:38 final size:38
Alignment explanation
Indices: 30598132--30598214 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 38
30598122 AGAACAATAC
*
30598132 AGTAGACATTATTAAAACATGCAATCAGTAGCAGAAAT
1 AGTAGACATGATTAAAACATGCAATCAGTAGCAGAAAT
* * *
30598170 AGTAGGCATGATTTAAACATGCAATCAGT-GATAGAAAT
1 AGTAGACATGATTAAAACATGCAATCAGTAG-CAGAAAT
30598208 AGT-GACA
1 AGTAGACA
30598215 CGAATTATCA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
37 4 0.10
38 35 0.90
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.24
Consensus pattern (38 bp):
AGTAGACATGATTAAAACATGCAATCAGTAGCAGAAAT
Found at i:30604078 original size:40 final size:40
Alignment explanation
Indices: 30604033--30604112 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
30604023 AAATAAAATA
* *
30604033 GAAATTATGAT-AATTATACATTTTAAATTATAATT-TAATT
1 GAAATTATGATAAATTACACA-TTTAAA-AATAATTATAATT
*
30604073 GAAATTGTGATAAATTACACATTTAAAAATAATTATAATT
1 GAAATTATGATAAATTACACATTTAAAAATAATTATAATT
30604113 TATTTTACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 6 0.17
40 21 0.60
41 8 0.23
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.42
Consensus pattern (40 bp):
GAAATTATGATAAATTACACATTTAAAAATAATTATAATT
Found at i:30604290 original size:20 final size:20
Alignment explanation
Indices: 30604265--30604308 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
30604255 ATTTAATTAA
30604265 TTTTTAAAATTTAAAAATAT
1 TTTTTAAAATTTAAAAATAT
* *
30604285 TTTTTATATTTTAAAAATAT
1 TTTTTAAAATTTAAAAATAT
30604305 TTTT
1 TTTT
30604309 AATGAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTAAAATTTAAAAATAT
Found at i:30606553 original size:3 final size:3
Alignment explanation
Indices: 30606545--30606831 Score: 137
Period size: 3 Copynumber: 97.3 Consensus size: 3
30606535 AACATAGATA
* * **
30606545 AAT AAT AAT AAT AGT -AT CAA- AAT AAG AA- AAT -AT AAT AAT GGT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
30606587 AAT AAT AGT AAT AGT GAT AAT GAT AAT AA- AAA AAT AGT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** * * * * * *
30606634 -AT GTT AAAT AAT AAT AGT AAA AAA AAT AAT AGT AAT AAT AAT TAC
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
30606679 AAA AAT GAT AAT -AT AAT AA- AAT AAA AAT AAA AAT AGT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
30606725 AAT AAT AAT AAT AAT ATT GAT GAT AGAT AAT AAT AAT AAA AAGG AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AA-T AAT
* *
30606772 AAT AAT AAT AGT AAT AAT AA- AA- AAC AAT AAT AAT AATT AATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AA-T AAT
**
30606817 TTT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT A
30606832 GTAAAAACAA
Statistics
Matches: 211, Mismatches: 58, Indels: 30
0.71 0.19 0.10
Matches are distributed among these distances:
2 20 0.09
3 177 0.84
4 14 0.07
ACGTcount: A:0.61, C:0.01, G:0.08, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:30606645 original size:38 final size:37
Alignment explanation
Indices: 30606544--30606658 Score: 99
Period size: 38 Copynumber: 3.1 Consensus size: 37
30606534 AAACATAGAT
* ** * *
30606544 AAATAATAATAATAGTATCAAAATAA-GAAAATATAA
1 AAATAGTAATAATAGTATGTAAATAATGATAATAAAA
* * *
30606580 TAATGGTAATAATAGTAATAGT-GATAATGATAATAAAA
1 AAATAGTAATAATAGT-AT-GTAAATAATGATAATAAAA
* *
30606618 AAATAGTAATAATAGTATGTTAAATAATAATAGTAAAA
1 AAATAGTAATAATAGTATG-TAAATAATGATAATAAAA
30606656 AAA
1 AAA
30606659 ATAATAGTAA
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
36 14 0.23
37 9 0.15
38 38 0.62
ACGTcount: A:0.60, C:0.01, G:0.10, T:0.29
Consensus pattern (37 bp):
AAATAGTAATAATAGTATGTAAATAATGATAATAAAA
Found at i:30608332 original size:27 final size:28
Alignment explanation
Indices: 30608293--30608345 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
30608283 GAGTATAATT
30608293 TAAAAAGTTAT-AACATTTAGATTATGTA
1 TAAAAAGTTATAAACATTTA-ATTATGTA
*
30608321 TAAAAA-TTATAAATATTTAATTATG
1 TAAAAAGTTATAAACATTTAATTATG
30608346 AACTTTTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.42
Consensus pattern (28 bp):
TAAAAAGTTATAAACATTTAATTATGTA
Found at i:30620282 original size:19 final size:19
Alignment explanation
Indices: 30620258--30620303 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
30620248 TTTTCCCAAA
30620258 TTTTTTTAAATAATATGGT
1 TTTTTTTAAATAATATGGT
*
30620277 TTTTTTTTAATAATATGGT
1 TTTTTTTAAATAATATGGT
30620296 TTTTTTTA
1 TTTTTTTA
30620304 TTCATTCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (19 bp):
TTTTTTTAAATAATATGGT
Found at i:30621029 original size:10 final size:10
Alignment explanation
Indices: 30621010--30621074 Score: 71
Period size: 10 Copynumber: 6.5 Consensus size: 10
30621000 GATTTAGAAT
*
30621010 ATTATAAAAA
1 ATTATTAAAA
30621020 ATTATTAAAA
1 ATTATTAAAA
**
30621030 A-TGGTAAAGA
1 ATTATTAAA-A
30621040 ATTATTAAAA
1 ATTATTAAAA
30621050 ATTATTTAAAA
1 ATTA-TTAAAA
30621061 ATTA-TAAAA
1 ATTATTAAAA
30621070 ATTAT
1 ATTAT
30621075 AAATTACAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
9 14 0.30
10 17 0.37
11 15 0.33
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (10 bp):
ATTATTAAAA
Found at i:30621044 original size:30 final size:30
Alignment explanation
Indices: 30621010--30621077 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
30621000 GATTTAGAAT
*
30621010 ATTATAAAAAATTA-TTAAAAATGGTAAAGA
1 ATTATAAAAAATTATTTAAAAATGATAAA-A
* *
30621040 ATTATTAAAAATTATTTAAAAATTATAAAA
1 ATTATAAAAAATTATTTAAAAATGATAAAA
30621070 ATTATAAA
1 ATTATAAA
30621078 TTACAAATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 21 0.64
31 12 0.36
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (30 bp):
ATTATAAAAAATTATTTAAAAATGATAAAA
Found at i:30630085 original size:22 final size:22
Alignment explanation
Indices: 30630057--30630133 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 22
30630047 AAGTGTGTAT
*
30630057 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCTA
* *
30630079 ATGTGATGAATG-CGAAAGTGCATA
1 ATGTGAT-AAGGCCGAATG-GC-TA
*
30630103 CATGTGATAAGGCCGAATGGTTA
1 -ATGTGATAAGGCCGAATGGCTA
30630126 ATGTGATA
1 ATGTGATA
30630134 TATGTGTAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
22 20 0.45
23 7 0.16
24 5 0.11
25 12 0.27
ACGTcount: A:0.34, C:0.12, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCTA
Found at i:30630096 original size:47 final size:47
Alignment explanation
Indices: 30630022--30630177 Score: 192
Period size: 47 Copynumber: 3.3 Consensus size: 47
30630012 AGCTTAAGAT
30630022 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
* ** *
30630069 CGAATGGCCAATGTGATGAATGCGAAAGTGCATACATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
** * *
30630116 CGAATGGTTAATGTGAT-ATATGTGTAA--GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGTGTGTATATGTGATAAGGC
*
30630161 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
30630178 AAAGTGTGCA
Statistics
Matches: 92, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
45 22 0.24
46 6 0.07
47 64 0.70
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
Found at i:30630302 original size:39 final size:40
Alignment explanation
Indices: 30630248--30630332 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
30630238 AAATGAATTG
* * * *
30630248 TGCTGAGATTGTATCCGAG-TTAGAGACCCGCTGGCTTCA
1 TGCTGGGATTGTATCCGAGTTTAAAGACCCGCAGGCTTAA
* *
30630287 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGTATCCGAGTTTAAAGACCCGCAGGCTTAA
30630327 TGCTGG
1 TGCTGG
30630333 TGAATTAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 17 0.44
40 22 0.56
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (40 bp):
TGCTGGGATTGTATCCGAGTTTAAAGACCCGCAGGCTTAA
Found at i:30633802 original size:36 final size:36
Alignment explanation
Indices: 30633762--30633846 Score: 102
Period size: 37 Copynumber: 2.3 Consensus size: 36
30633752 ATTATGATTT
*
30633762 TTATT-AATTCATATTT-TAATAATTATATTTAAAATG
1 TTATTAAATT-ATATTTATAATAATTAT-GTTAAAATG
*
30633798 TTATTAAATTATATTTAATAATAATTATGTTAAAATA
1 TTATTAAATTATATTT-ATAATAATTATGTTAAAATG
*
30633835 TGATTAAATTAT
1 TTATTAAATTAT
30633847 TTATTATTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
36 11 0.26
37 22 0.51
38 10 0.23
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.51
Consensus pattern (36 bp):
TTATTAAATTATATTTATAATAATTATGTTAAAATG
Found at i:30637091 original size:19 final size:19
Alignment explanation
Indices: 30637067--30637106 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
30637057 TGATAAGTGA
*
30637067 AAATTTTATATTATAGATC
1 AAATTTGATATTATAGATC
30637086 AAATTTGATATTATAGATC
1 AAATTTGATATTATAGATC
30637105 AA
1 AA
30637107 GATATTGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (19 bp):
AAATTTGATATTATAGATC
Found at i:30647414 original size:17 final size:16
Alignment explanation
Indices: 30647383--30647422 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
30647373 NNNNATTATG
30647383 ATTATATTATTATTTT
1 ATTATATTATTATTTT
30647399 ATTATATTACTTATTTT
1 ATTATATTA-TTATTTT
*
30647416 TTTATAT
1 ATTATAT
30647423 GTAAAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTATATTATTATTTT
Found at i:30659824 original size:176 final size:177
Alignment explanation
Indices: 30659477--30659848 Score: 595
Period size: 176 Copynumber: 2.1 Consensus size: 177
30659467 CGACGGAGAG
* *
30659477 CAAATCGAAGACATAGCAGATCTAACTTTCAGATGTTCTCACATCAAAGCAGATCCAAGATAATA
1 CAAATCGAAGACATAGCAGATCTAACTTTCAGATATTCTCACATCAAAGCAGATCCAAGATAACA
* *
30659542 GATCTGGCATCTCCATATTCAAATGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTTTT
66 GATCTGGCATCTCCATATTCAAATGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTAT
** *
30659607 ACTGAAGCAGATCCAAGATGATTTGGTGTTCTTGTGTTTACAAGGAGA
131 ACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGA-A
* * * *
30659655 -AAATCGAAGGCATAGCAGATCTGACTTTCAGATATTTTCATATCAAAGCAGATCCAAGATAACA
1 CAAATCGAAGACATAGCAGATCTAACTTTCAGATATTCTCACATCAAAGCAGATCCAAGATAACA
* * *
30659719 GATCTGGCGTCTCCATATTC-GATGGAGAGCAGACACATAGTAGATCTAACCTTCAGATGTTTAT
66 GATCTGGCATCTCCATATTCAAATGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTAT
30659783 ACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAA
131 ACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAA
30659830 CAAATCGAAGACATAGCAG
1 CAAATCGAAGACATAGCAG
30659849 GTTTGGCTTT
Statistics
Matches: 178, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
175 1 0.01
176 100 0.56
177 77 0.43
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (177 bp):
CAAATCGAAGACATAGCAGATCTAACTTTCAGATATTCTCACATCAAAGCAGATCCAAGATAACA
GATCTGGCATCTCCATATTCAAATGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTAT
ACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAA
Found at i:30659939 original size:43 final size:44
Alignment explanation
Indices: 30659891--30660012 Score: 133
Period size: 44 Copynumber: 2.8 Consensus size: 44
30659881 TCTAAGATGG
* *
30659891 TTTGGCATCTCTGTATTGTCAAGGAACAAATCGAAGA-AGCAAA
1 TTTGGCATCTCTGTATTGTCAAGGAGCAAATCAAAGATAGCAAA
* * * *
30659934 TTTGGCATCTCTATATTATCAGAGG-GCAGATCAAAGATAGCAGA
1 TTTGGCATCTCTGTATTGTCA-AGGAGCAAATCAAAGATAGCAAA
* *
30659978 TTTGACATC-CTTGTATTGTCAGGGAGCAAATCAAA
1 TTTGGCATCTC-TGTATTGTCAAGGAGCAAATCAAA
30660013 TATATCAACA
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
43 31 0.48
44 33 0.52
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (44 bp):
TTTGGCATCTCTGTATTGTCAAGGAGCAAATCAAAGATAGCAAA
Found at i:30661693 original size:20 final size:20
Alignment explanation
Indices: 30661668--30661717 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 20
30661658 TATATATAAA
30661668 TTTTATTATATGTTA-TATAT
1 TTTTATTATATGTTACT-TAT
30661688 TTTTATTATA--TTACTTAT
1 TTTTATTATATGTTACTTAT
30661706 TTTT-TTATATGT
1 TTTTATTATATGT
30661718 AAAATATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 5 0.19
18 10 0.37
19 2 0.07
20 10 0.37
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (20 bp):
TTTTATTATATGTTACTTAT
Found at i:30663184 original size:23 final size:23
Alignment explanation
Indices: 30663157--30663201 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
30663147 ATATAGTCAA
30663157 ATTAAAT-TTTACAAATAATTAAT
1 ATTAAATATTTACAAAT-ATTAAT
*
30663180 ATTAATTATTTACAAATATTAA
1 ATTAAATATTTACAAATATTAA
30663202 AAAATTGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTAAATATTTACAAATATTAAT
Found at i:30667537 original size:13 final size:13
Alignment explanation
Indices: 30667519--30667554 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
30667509 TAAAACTCCA
30667519 AAATTTAAAATTT
1 AAATTTAAAATTT
30667532 AAATTTAAAATTT
1 AAATTTAAAATTT
*
30667545 AAATTGAAAA
1 AAATTTAAAA
30667555 AAAAAAAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (13 bp):
AAATTTAAAATTT
Found at i:30667549 original size:6 final size:7
Alignment explanation
Indices: 30667518--30667547 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
30667508 TTAAAACTCC
30667518 AAAATTT
1 AAAATTT
30667525 AAAATTT
1 AAAATTT
30667532 -AAATTT
1 AAAATTT
30667538 AAAATTT
1 AAAATTT
30667545 AAA
1 AAA
30667548 TTGAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAAATTT
Found at i:30667576 original size:19 final size:19
Alignment explanation
Indices: 30667553--30667591 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
30667543 TTAAATTGAA
*
30667553 AAAAAAAAAGAGTTGAGATT
1 AAAATAAAA-AGTTGAGATT
*
30667573 AAAATTAAAAGTTGAGATT
1 AAAATAAAAAGTTGAGATT
30667592 TGACGGTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.56, C:0.00, G:0.18, T:0.26
Consensus pattern (19 bp):
AAAATAAAAAGTTGAGATT
Found at i:30672818 original size:6 final size:6
Alignment explanation
Indices: 30672809--30672833 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
30672799 GGTTGAAATT
30672809 GATGCA GATGCA GATGCA GATGCA G
1 GATGCA GATGCA GATGCA GATGCA G
30672834 TCCTGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.36, T:0.16
Consensus pattern (6 bp):
GATGCA
Found at i:30673496 original size:18 final size:17
Alignment explanation
Indices: 30673468--30673502 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30673458 ATTATTAAGA
*
30673468 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
30673485 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
30673503 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:30673751 original size:45 final size:44
Alignment explanation
Indices: 30673662--30673756 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
30673652 TTACACCTCT
*
30673662 ATTACATTCAACCAAACACAGGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
*** *
30673706 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGGA-TTACTATTACACCTCTATTCC
30673751 ATTACA
1 ATTACA
30673757 CCTCTATTCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 20 0.44
45 25 0.56
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
Found at i:30673756 original size:16 final size:16
Alignment explanation
Indices: 30673735--30673804 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
30673725 TTGATTTGCT
*
30673735 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
30673751 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
30673767 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
30673783 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
*
30673799 AATACA
1 ATTACA
30673805 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:30675339 original size:32 final size:30
Alignment explanation
Indices: 30675293--30675361 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 30
30675283 GCTTGACACA
*
30675293 TTTTCTTTTTCTTTTATTTTCATATTTCTTT
1 TTTTTTTTTTCTTTTATTTTCATA-TTCTTT
30675324 TGTTTTTTTTTCTTTTATTTTCATATTCTTT
1 T-TTTTTTTTTCTTTTATTTTCATATTCTTT
30675355 TTTTTTT
1 TTTTTTT
30675362 ACTTTTTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
30 6 0.17
31 8 0.22
32 22 0.61
ACGTcount: A:0.09, C:0.10, G:0.01, T:0.80
Consensus pattern (30 bp):
TTTTTTTTTTCTTTTATTTTCATATTCTTT
Found at i:30675375 original size:28 final size:32
Alignment explanation
Indices: 30675302--30675372 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
30675292 ATTTTCTTTT
**
30675302 TCTTTTATTTTCATATTTCTTTTGTTTTTTTT
1 TCTTTTATTTTCATATTTCTTTTGTTTTTTAC
30675334 TCTTTTATTTTCATA-TTCTTTT-TTTTTTAC
1 TCTTTTATTTTCATATTTCTTTTGTTTTTTAC
30675364 T-TTTTATTT
1 TCTTTTATTT
30675373 CATTTTGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 8 0.22
30 7 0.19
31 7 0.19
32 15 0.41
ACGTcount: A:0.11, C:0.10, G:0.01, T:0.77
Consensus pattern (32 bp):
TCTTTTATTTTCATATTTCTTTTGTTTTTTAC
Found at i:30675378 original size:22 final size:23
Alignment explanation
Indices: 30675330--30675378 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
30675320 CTTTTGTTTT
30675330 TTTTTCTTTTATTTTCATATTC-
1 TTTTTCTTTTATTTTCATATTCA
* *
30675352 TTTTTTTTTTACTTTTTAT-TTCA
1 TTTTTCTTTTA-TTTTCATATTCA
30675375 TTTT
1 TTTT
30675379 GAAAAGTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTCTTTTATTTTCATATTCA
Found at i:30675491 original size:18 final size:18
Alignment explanation
Indices: 30675470--30675507 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
30675460 TTTTTTTACT
30675470 TTTTTATTAAATTTTTTA
1 TTTTTATTAAATTTTTTA
* *
30675488 TTTTTCTTAATTTTTTTA
1 TTTTTATTAAATTTTTTA
30675506 TT
1 TT
30675508 AAAAGTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTATTAAATTTTTTA
Found at i:30675630 original size:20 final size:20
Alignment explanation
Indices: 30675602--30675648 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
30675592 CCAACTTTTC
30675602 AAAAA-TTAAAAA-AAAGTTA
1 AAAAATTTAAAAAGAAA-TTA
30675621 AAAAATTTAAAAAGAAATTA
1 AAAAATTTAAAAAGAAATTA
30675641 AAGAAATT
1 AA-AAATT
30675649 GTATTTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.20
20 12 0.48
21 8 0.32
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.23
Consensus pattern (20 bp):
AAAAATTTAAAAAGAAATTA
Found at i:30675719 original size:14 final size:14
Alignment explanation
Indices: 30675700--30675726 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30675690 AAAAATATGG
30675700 TTAATATTTAAAAA
1 TTAATATTTAAAAA
30675714 TTAATATTTAAAA
1 TTAATATTTAAAA
30675727 TTTTAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAATATTTAAAAA
Found at i:30675741 original size:37 final size:36
Alignment explanation
Indices: 30675700--30675841 Score: 132
Period size: 37 Copynumber: 4.0 Consensus size: 36
30675690 AAAAATATGG
30675700 TTAATATTTAAAAATTA-ATATTTAAAATTTTAAAAAA
1 TTAAT-TTTAAAAA-TACATATTTAAAATTTTAAAAAA
* * *
30675737 TTAATTTGAAAAATACATTTTTAAAATATATAAAAAA
1 TTAATTTTAAAAATACATATTTAAAAT-TTTAAAAAA
* * * * *
30675774 TTAATTTCACAAATATATATCT-AAA-GTTAAAAAA
1 TTAATTTTAAAAATACATATTTAAAATTTTAAAAAA
* *
30675808 AT-ATTTTAAAAATA-ATAATTAAAATTTTAAAAAA
1 TTAATTTTAAAAATACATATTTAAAATTTTAAAAAA
30675842 GTATTATAAA
Statistics
Matches: 85, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
32 4 0.05
33 13 0.15
34 16 0.19
35 2 0.02
36 20 0.24
37 30 0.35
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (36 bp):
TTAATTTTAAAAATACATATTTAAAATTTTAAAAAA
Found at i:30675851 original size:21 final size:23
Alignment explanation
Indices: 30675805--30675861 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 23
30675795 TAAAGTTAAA
*
30675805 AAAATATTTTAAAAATAATAATT
1 AAAACATTTTAAAAATAATAATT
* *
30675828 -AAA-ATTTTAAAAA-AGTATTAT
1 AAAACATTTTAAAAATAATAAT-T
30675849 AAAACATTTTAAA
1 AAAACATTTTAAA
30675862 TATACATTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 4 0.14
21 11 0.38
22 6 0.21
23 8 0.28
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
AAAACATTTTAAAAATAATAATT
Found at i:30675909 original size:9 final size:8
Alignment explanation
Indices: 30675893--30675956 Score: 67
Period size: 9 Copynumber: 7.5 Consensus size: 8
30675883 AGTTAATAAT
30675893 AAAAAATA
1 AAAAAATA
30675901 AACAAAATA
1 AA-AAAATA
30675910 AACAAAATGA
1 AA-AAAAT-A
*
30675920 AATAAGA-A
1 AA-AAAATA
30675928 AAAAAATA
1 AAAAAATA
30675936 AAAAAAGTA
1 AAAAAA-TA
30675945 AAAAAATA
1 AAAAAATA
30675953 AAAA
1 AAAA
30675957 GAATTTATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
7 3 0.06
8 18 0.37
9 22 0.45
10 6 0.12
ACGTcount: A:0.81, C:0.03, G:0.05, T:0.11
Consensus pattern (8 bp):
AAAAAATA
Found at i:30675947 original size:17 final size:17
Alignment explanation
Indices: 30675893--30675956 Score: 76
Period size: 17 Copynumber: 3.7 Consensus size: 17
30675883 AGTTAATAAT
30675893 AAAAAATAAACAAAA-TA
1 AAAAAATAAA-AAAAGTA
* * *
30675910 AACAAAATGAAATAAGAA
1 AA-AAAATAAAAAAAGTA
30675928 AAAAAATAAAAAAAGTA
1 AAAAAATAAAAAAAGTA
30675945 AAAAAATAAAAA
1 AAAAAATAAAAA
30675957 GAATTTATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
17 29 0.74
18 10 0.26
ACGTcount: A:0.81, C:0.03, G:0.05, T:0.11
Consensus pattern (17 bp):
AAAAAATAAAAAAAGTA
Found at i:30675951 original size:43 final size:43
Alignment explanation
Indices: 30675887--30675990 Score: 113
Period size: 43 Copynumber: 2.4 Consensus size: 43
30675877 TTTTAAAGTT
*
30675887 AATAATAAAAAATAAACAAAATAAACAA-AATGAAATAAGAAAAAA
1 AATAA-AAAAAGTAAA-AAAATAAA-AAGAATGAAATAAGAAAAAA
** * * *
30675932 AATAAAAAAAGTAAAAAAATAAAAAGAATTTATTAAGGAACAA
1 AATAAAAAAAGTAAAAAAATAAAAAGAATGAAATAAGAAAAAA
30675975 AAT-AAAAAAGTAAAAA
1 AATAAAAAAAGTAAAAA
30675991 TAAAAGAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
42 15 0.29
43 23 0.44
44 9 0.17
45 5 0.10
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (43 bp):
AATAAAAAAAGTAAAAAAATAAAAAGAATGAAATAAGAAAAAA
Found at i:30676045 original size:17 final size:16
Alignment explanation
Indices: 30675987--30676044 Score: 77
Period size: 16 Copynumber: 3.8 Consensus size: 16
30675977 TAAAAAAGTA
30675987 AAAATAAAAGAATATG
1 AAAATAAAAGAATATG
30676003 AAAATAAAAGAA-A--
1 AAAATAAAAGAATATG
*
30676016 AAAACAAAAGAAATATG
1 AAAATAAAAG-AATATG
30676033 AAAATAAAAGAA
1 AAAATAAAAGAA
30676045 AAAGAAAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
13 9 0.25
14 2 0.06
15 2 0.06
16 14 0.39
17 9 0.25
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (16 bp):
AAAATAAAAGAATATG
Found at i:30676046 original size:29 final size:28
Alignment explanation
Indices: 30675980--30676047 Score: 100
Period size: 30 Copynumber: 2.4 Consensus size: 28
30675970 AACAAAATAA
* *
30675980 AAAAGTAAAAATAAAAGAATATGAAAAT
1 AAAAGAAAAAACAAAAGAATATGAAAAT
30676008 AAAAGAAAAAAACAAAAGAAATATGAAAAT
1 AAAAG-AAAAAACAAAAG-AATATGAAAAT
30676038 AAAAGAAAAA
1 AAAAGAAAAA
30676048 GAAAACATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 5 0.14
29 15 0.42
30 16 0.44
ACGTcount: A:0.76, C:0.01, G:0.10, T:0.12
Consensus pattern (28 bp):
AAAAGAAAAAACAAAAGAATATGAAAAT
Found at i:30677051 original size:17 final size:17
Alignment explanation
Indices: 30677029--30677063 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
30677019 ATATAATTTT
30677029 ATTTTTACT-AAATTTAA
1 ATTTTTA-TAAAATTTAA
30677046 ATTTTTATAAAATTTAA
1 ATTTTTATAAAATTTAA
30677063 A
1 A
30677064 AGTATCTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 16 0.94
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTTTATAAAATTTAA
Found at i:30678521 original size:32 final size:31
Alignment explanation
Indices: 30678426--30678521 Score: 94
Period size: 32 Copynumber: 3.1 Consensus size: 31
30678416 AAACATGTGG
30678426 TTTTGTGAAATAATAACAAATATC-A-T-CA
1 TTTTGTGAAATAATAACAAATATCAACTACA
* *
30678454 TGTTGTGAAATCATAACAAAT-TACAACATTA-A
1 TTTTGTGAAATAATAACAAATAT-CAAC--TACA
*
30678486 TTTTGTGAAATGATAACAAATATCAACTACCA
1 TTTTGTGAAATAATAACAAATATCAACTA-CA
30678518 TTTT
1 TTTT
30678522 CTTAGATACA
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
27 1 0.02
28 20 0.36
29 1 0.02
30 2 0.04
32 30 0.55
33 1 0.02
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.35
Consensus pattern (31 bp):
TTTTGTGAAATAATAACAAATATCAACTACA
Found at i:30682322 original size:3 final size:3
Alignment explanation
Indices: 30682314--30682368 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
30682304 AAATCTTAAG
30682314 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
30682362 ATT ATT A
1 ATT ATT A
30682369 AGACCTATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:30685104 original size:6 final size:6
Alignment explanation
Indices: 30685093--30685155 Score: 56
Period size: 6 Copynumber: 10.2 Consensus size: 6
30685083 ATGCAGGCCT
* * *
30685093 AGAAAA AGAAAA AGAAAA AG-GAA AGGAAA AGGAAA AGAAAAA AGAAAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AG-AAAA AG--AAAA
*
30685143 AGAAAA GGAAAA A
1 AGAAAA AGAAAA A
30685156 AGAGGCATAA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
5 4 0.08
6 33 0.67
7 5 0.10
8 7 0.14
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:30685156 original size:13 final size:13
Alignment explanation
Indices: 30685101--30685158 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
30685091 CTAGAAAAAG
30685101 AAAAAGAAAAAGG-
1 AAAAAG-AAAAGGA
*
30685114 -AAAGGAAAAGGA
1 AAAAAGAAAAGGA
*
30685126 AAAGAA-AAAAGAA
1 AAA-AAGAAAAGGA
30685139 AAAAAGAAAAGGA
1 AAAAAGAAAAGGA
30685152 AAAAAGA
1 AAAAAGA
30685159 GGCATAAGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 6 0.16
12 6 0.16
13 24 0.65
14 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAGGA
Found at i:30692617 original size:22 final size:24
Alignment explanation
Indices: 30692591--30692635 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
30692581 GCTATCAAGA
30692591 AATCAAATC-TCT-AAGATTACAG
1 AATCAAATCTTCTAAAGATTACAG
*
30692613 AATCATATCTTCTAAAGATTACA
1 AATCAAATCTTCTAAAGATTACA
30692636 TTTAATGTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 3 0.15
24 9 0.45
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (24 bp):
AATCAAATCTTCTAAAGATTACAG
Found at i:30695967 original size:5 final size:5
Alignment explanation
Indices: 30695957--30695982 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
30695947 TAACCCAAGT
30695957 ACCCA ACCCA ACCCA ACCCA ACCCA A
1 ACCCA ACCCA ACCCA ACCCA ACCCA A
30695983 TTACCCCACC
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:0.58, G:0.00, T:0.00
Consensus pattern (5 bp):
ACCCA
Found at i:30696062 original size:20 final size:20
Alignment explanation
Indices: 30696024--30696063 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
30696014 ATTTAATAAA
* **
30696024 TAAAAATAAAAATCTAAAAC
1 TAAAAAGAAAAATAAAAAAC
30696044 TAAAAAGAAAAATAAAAAAC
1 TAAAAAGAAAAATAAAAAAC
30696064 AAATAATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.75, C:0.07, G:0.03, T:0.15
Consensus pattern (20 bp):
TAAAAAGAAAAATAAAAAAC
Found at i:30696095 original size:9 final size:9
Alignment explanation
Indices: 30696081--30696157 Score: 102
Period size: 9 Copynumber: 8.6 Consensus size: 9
30696071 TTTATACAAA
*
30696081 TAATTCAGT
1 TAATTCGGT
30696090 TAATTCGGT
1 TAATTCGGT
30696099 TAATTCGGT
1 TAATTCGGT
*
30696108 TAAATT-GGG
1 T-AATTCGGT
30696117 TAATTCGGT
1 TAATTCGGT
*
30696126 TAATTCGAT
1 TAATTCGGT
*
30696135 TAATTTGGT
1 TAATTCGGT
30696144 TAATTCGGT
1 TAATTCGGT
30696153 TAATT
1 TAATT
30696158 TTATACTTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
8 4 0.07
9 51 0.86
10 4 0.07
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.45
Consensus pattern (9 bp):
TAATTCGGT
Found at i:30703574 original size:37 final size:37
Alignment explanation
Indices: 30703530--30703658 Score: 231
Period size: 37 Copynumber: 3.5 Consensus size: 37
30703520 CACTTGTCCC
30703530 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
*
30703567 TGATCAGATAAGTGTAGCCACCTATGACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
* *
30703604 TGATCAGATAAGTGTAGCCACTTATCACTTTGTCTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
30703641 TGATCAGATAAGTGTAGC
1 TGATCAGATAAGTGTAGC
30703659 TAAAGCTATC
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 88 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
Found at i:30703701 original size:52 final size:52
Alignment explanation
Indices: 30703622--30703890 Score: 361
Period size: 52 Copynumber: 5.2 Consensus size: 52
30703612 TAAGTGTAGC
* * **
30703622 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
30703675 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
30703727 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* * *
30703773 CACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
30703825 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
30703877 CACTTTGTCACTTG
1 CACTTT-TCACTTG
30703891 ATCAGAAGTA
Statistics
Matches: 196, Mismatches: 13, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
46 43 0.22
49 1 0.01
52 137 0.70
53 15 0.08
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:30703788 original size:98 final size:98
Alignment explanation
Indices: 30703622--30703882 Score: 387
Period size: 98 Copynumber: 2.6 Consensus size: 98
30703612 TAAGTGTAGC
* *
30703622 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTCCACTT
*
30703687 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* ** *
30703720 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTCCACTT
30703785 GTCACTTGATCAGATAAGTATAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
30703818 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTT
30703883 GTCACTTGAT
Statistics
Matches: 144, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
98 100 0.69
100 1 0.01
104 43 0.30
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTCCACTT
GTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:30707439 original size:16 final size:17
Alignment explanation
Indices: 30707418--30707450 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30707408 ATTCAATTGA
*
30707418 TAACTAG-TTATTTTTC
1 TAACTAGATAATTTTTC
30707434 TAACTAGATAATTTTTC
1 TAACTAGATAATTTTTC
30707451 AATTCAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.52
Consensus pattern (17 bp):
TAACTAGATAATTTTTC
Found at i:30708273 original size:13 final size:13
Alignment explanation
Indices: 30708255--30708281 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30708245 GGAGTAATCA
30708255 CACACGGGCGTGT
1 CACACGGGCGTGT
30708268 CACACGGGCGTGT
1 CACACGGGCGTGT
30708281 C
1 C
30708282 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:30712831 original size:19 final size:18
Alignment explanation
Indices: 30712809--30712875 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 18
30712799 TATTATACTC
*
30712809 TATAATATAATAATAGTTA
1 TATAATAT-ATAATACTTA
30712828 TAT-ATAT-TAATACTTA
1 TATAATATATAATACTTA
* *
30712844 TAAAATATATAATTTCATTA
1 TATAATATATAA-TAC-TTA
30712864 TATAATACTATA
1 TATAATA-TATA
30712876 TCACATACTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 10 0.26
17 4 0.10
18 7 0.18
19 5 0.13
20 9 0.23
21 4 0.10
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (18 bp):
TATAATATATAATACTTA
Found at i:30712838 original size:16 final size:16
Alignment explanation
Indices: 30712803--30712845 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
30712793 ATCTCTTATT
30712803 ATACTCTATAATATAATA
1 ATACT-TAT-ATATAATA
* *
30712821 ATAGTTATATATATTA
1 ATACTTATATATAATA
30712837 ATACTTATA
1 ATACTTATA
30712846 AAATATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 15 0.68
17 3 0.14
18 4 0.18
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (16 bp):
ATACTTATATATAATA
Found at i:30712997 original size:13 final size:13
Alignment explanation
Indices: 30712979--30713006 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30712969 TTTGACAATG
30712979 CTTTTAAAAAGTA
1 CTTTTAAAAAGTA
30712992 CTTTTAAAAAGTA
1 CTTTTAAAAAGTA
30713005 CT
1 CT
30713007 GTGGAAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (13 bp):
CTTTTAAAAAGTA
Found at i:30713921 original size:22 final size:23
Alignment explanation
Indices: 30713876--30713926 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
30713866 TATTGAAATT
**
30713876 TATTTTAAATATATAATATGATA
1 TATTTTAAATATATAATACAATA
* *
30713899 T-TTTTAAATTTATATTACAATA
1 TATTTTAAATATATAATACAATA
30713921 TATTTT
1 TATTTT
30713927 GTATATTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
TATTTTAAATATATAATACAATA
Found at i:30715503 original size:47 final size:45
Alignment explanation
Indices: 30715450--30715578 Score: 134
Period size: 46 Copynumber: 2.8 Consensus size: 45
30715440 TTTAACAACA
30715450 TATCTGTTCTGGTAGCTTAACTGCAATTATAGTGG-TTCGACCACACG
1 TATCTGTT-TGGTAGCTTAACTGCAA-TATAGTGGCTT-GACCACACG
* * * *
30715497 TATCTGTTTTGGCAGCTTGACTGTAATATAGTGGCTTGACCACATG
1 TATCTG-TTTGGTAGCTTAACTGCAATATAGTGGCTTGACCACACG
* * *
30715543 TATCTGATTTGGTAGTTTAACTACAACTCTAGTGGC
1 TATCTG-TTTGGTAGCTTAACTGCAA-TATAGTGGC
30715579 ATTGTCCAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
46 36 0.53
47 30 0.44
48 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (45 bp):
TATCTGTTTGGTAGCTTAACTGCAATATAGTGGCTTGACCACACG
Found at i:30715538 original size:46 final size:47
Alignment explanation
Indices: 30715450--30715564 Score: 135
Period size: 46 Copynumber: 2.5 Consensus size: 47
30715440 TTTAACAACA
* *
30715450 TATCTGTTCTGGTAGCTTAACTGCAATTATAGTGGTTCGACCACACG
1 TATCTGTTTTGGCAGCTTAACTGCAATTATAGTGGTTCGACCACACG
* * *
30715497 TATCTGTTTTGGCAGCTTGACTGTAA-TATAGTGGCTT-GACCACATG
1 TATCTGTTTTGGCAGCTTAACTGCAATTATAGTGG-TTCGACCACACG
* * *
30715543 TATCTGATTTGGTAGTTTAACT
1 TATCTGTTTTGGCAGCTTAACT
30715565 ACAACTCTAG
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
46 34 0.59
47 24 0.41
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (47 bp):
TATCTGTTTTGGCAGCTTAACTGCAATTATAGTGGTTCGACCACACG
Found at i:30718070 original size:31 final size:33
Alignment explanation
Indices: 30718001--30718072 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 33
30717991 ATTTAAGTAT
*
30718001 TATATTAAAACAAAAAACTTAAATATCAAATTAA
1 TATATTAAAAC-AAAAACTTAAATACCAAATTAA
* *
30718035 -ATATTAAAAC-TAAACTTAAATACCGAA-TAA
1 TATATTAAAACAAAAACTTAAATACCAAATTAA
30718065 TATATTAA
1 TATATTAA
30718073 CCAAGTGCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 3 0.09
31 21 0.62
33 10 0.29
ACGTcount: A:0.58, C:0.10, G:0.01, T:0.31
Consensus pattern (33 bp):
TATATTAAAACAAAAACTTAAATACCAAATTAA
Found at i:30723380 original size:16 final size:16
Alignment explanation
Indices: 30723359--30723392 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
30723349 AAGAGAATAT
30723359 TTCTTGGGTAAGTGCA
1 TTCTTGGGTAAGTGCA
30723375 TTCTTGGGTAAGTGCA
1 TTCTTGGGTAAGTGCA
30723391 TT
1 TT
30723393 GTAGTCTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.29, T:0.41
Consensus pattern (16 bp):
TTCTTGGGTAAGTGCA
Found at i:30725411 original size:158 final size:158
Alignment explanation
Indices: 30725123--30725435 Score: 520
Period size: 158 Copynumber: 2.0 Consensus size: 158
30725113 ATCGGATATT
*
30725123 CATGCTATGACATTTGGGTCACTTGTGTGAGCTAGTGTAAGACATGTCTAGGACATGCATTGGCC
1 CATGCTATGACATTTGGGTCACTTGTGTGAGCTAGTCTAAGACATGTCTAGGACATGCATTGGCC
* * *
30725188 ACATTATGAGAGCCAGTGCAAGACCATGTTTTGGACACGGTATCGGCATTGAGACGAGTGCTAGT
66 ACATTATGAGAGCCAGTGCAAGACCATGTTTGGGACACGGCATCGGCATTGAGACGAGCGCTAGT
*
30725253 GTAAGACATGTTTAGGG-CATGCATCGGC
131 GTAAGACATG-TCAGGGACATGCATCGGC
*
30725281 CATGCTATGACATTTGGGTCACTTGTGTGAGCTAGTCTAAGATATGTCTAGGACATGCATTGGCC
1 CATGCTATGACATTTGGGTCACTTGTGTGAGCTAGTCTAAGACATGTCTAGGACATGCATTGGCC
* * * *
30725346 ACATTATGAGAGTCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACTAGCGCTAGT
66 ACATTATGAGAGCCAGTGCAAGACCATGTTTGGGACACGGCATCGGCATTGAGACGAGCGCTAGT
30725411 GTAAGACATGTCAGGGACATGCATC
131 GTAAGACATGTCAGGGACATGCATC
30725436 CCTCGAGACG
Statistics
Matches: 144, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
157 5 0.03
158 139 0.97
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.27
Consensus pattern (158 bp):
CATGCTATGACATTTGGGTCACTTGTGTGAGCTAGTCTAAGACATGTCTAGGACATGCATTGGCC
ACATTATGAGAGCCAGTGCAAGACCATGTTTGGGACACGGCATCGGCATTGAGACGAGCGCTAGT
GTAAGACATGTCAGGGACATGCATCGGC
Found at i:30725499 original size:44 final size:45
Alignment explanation
Indices: 30725357--30725520 Score: 124
Period size: 44 Copynumber: 3.6 Consensus size: 45
30725347 CATTATGAGA
* * * *
30725357 GTCAGTGTAAGACCATGTTTGGGACATGGCATCGGC-ATTGAGACTAGC
1 GTCAGTGTAAGACCATGTCTGGGACAT-GCATTGGCTA-CGAGA-T-GT
* ** *
30725405 G-CTAGTGTAAGA-CATGTCAGGGACATGCA-TCCCT-CGAGACGT
1 GTC-AGTGTAAGACCATGTCTGGGACATGCATTGGCTACGAGATGT
* *
30725447 AAGCCAGTGTAAGA-CATGTTTGGGACATGCATTGGCTACGAGATGT
1 --GTCAGTGTAAGACCATGTCTGGGACATGCATTGGCTACGAGATGT
*
30725493 GTCAGTGTAAAACCATGTCTGGGACATG
1 GTCAGTGTAAGACCATGTCTGGGACATG
30725521 GCATCGGTAC
Statistics
Matches: 92, Mismatches: 16, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
42 1 0.01
44 39 0.42
45 19 0.21
46 10 0.11
47 13 0.14
48 10 0.11
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (45 bp):
GTCAGTGTAAGACCATGTCTGGGACATGCATTGGCTACGAGATGT
Found at i:30733050 original size:46 final size:43
Alignment explanation
Indices: 30732992--30733163 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 43
30732982 TCACTTGTGT
*
30732992 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTAGGACATGCATCGG-C-CATTA-GA
30733038 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGG-CATTGAGA
1 GAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCATT-AGA
* * * *
30733083 CGAGCGCTAGTATAAGACATGTTTGGGACATGCATCGG-CTTCTAGAA
1 -GAGC-C-AGTGTAAGACATGTCTAGGACATGCATCGGCCAT-TAG-A
*
30733130 GTAAGCCAGTGTAAGACATGTCTGGGACATGCAT
1 G--AGCCAGTGTAAGACATGTCTAGGACATGCAT
30733164 TGGCTACGAG
Statistics
Matches: 109, Mismatches: 7, Indels: 20
0.80 0.05 0.15
Matches are distributed among these distances:
45 6 0.06
46 55 0.50
47 30 0.28
48 18 0.17
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (43 bp):
GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCATTAGA
Found at i:30734286 original size:17 final size:16
Alignment explanation
Indices: 30734247--30734278 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
30734237 GTGTCATGGC
30734247 CGTGTGAAAGACACGA
1 CGTGTGAAAGACACGA
30734263 CTGTGTGAAAGACACG
1 C-GTGTGAAAGACACG
30734279 GGCGTGTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.34, C:0.19, G:0.31, T:0.16
Consensus pattern (16 bp):
CGTGTGAAAGACACGA
Found at i:30736851 original size:10 final size:9
Alignment explanation
Indices: 30736825--30736854 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
30736815 GGCATTTAGG
30736825 TTGTATGTT
1 TTGTATGTT
30736834 TTGTATGTT
1 TTGTATGTT
30736843 TTGGTATGTT
1 TT-GTATGTT
30736853 TT
1 TT
30736855 AAGCTTGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.10, C:0.00, G:0.23, T:0.67
Consensus pattern (9 bp):
TTGTATGTT
Found at i:30737106 original size:21 final size:21
Alignment explanation
Indices: 30737080--30737127 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
30737070 GACAACATGA
30737080 GCATGTAGAGTAGCCACACAG
1 GCATGTAGAGTAGCCACACAG
* *
30737101 GCATGTGGCGTAGCCACACAG
1 GCATGTAGAGTAGCCACACAG
*
30737122 CCATGT
1 GCATGT
30737128 TTGTTGCCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.29, T:0.17
Consensus pattern (21 bp):
GCATGTAGAGTAGCCACACAG
Found at i:30743418 original size:40 final size:40
Alignment explanation
Indices: 30743332--30743424 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 40
30743322 TCTCAGTATT
30743332 GCACACTTAGTGCTTCATATAGCCAAAACTATTCCAATTC
1 GCACACTTAGTGCTTCATATAGCCAAAACTATTCCAATTC
* * * **
30743372 GTACACTTAGTGCTAT-TTATAGCCGAAACTATTTTGAA-TC
1 GCACACTTAGTGCT-TCATATAGCCAAAACTA-TTCCAATTC
30743412 GCACACTTAGTGC
1 GCACACTTAGTGC
30743425 CGAACATGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 40 0.89
41 5 0.11
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (40 bp):
GCACACTTAGTGCTTCATATAGCCAAAACTATTCCAATTC
Found at i:30744873 original size:8 final size:8
Alignment explanation
Indices: 30744860--30744890 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
30744850 CTTACTCGTA
30744860 CTAACAAG
1 CTAACAAG
30744868 CTAACAAG
1 CTAACAAG
30744876 CTAACAAG
1 CTAACAAG
30744884 CTAACAA
1 CTAACAA
30744891 ACTTAACTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.52, C:0.26, G:0.10, T:0.13
Consensus pattern (8 bp):
CTAACAAG
Found at i:30744903 original size:50 final size:52
Alignment explanation
Indices: 30744820--30744921 Score: 147
Period size: 50 Copynumber: 2.0 Consensus size: 52
30744810 ATACATAACT
* *
30744820 CAAGCTAACAAACTCTAACAAATTCAACCTCTTACTCGTACTAACAAGCTAA
1 CAAGCTAACAAACGCTAACAAATTCAACCTCTTACTCCTACTAACAAGCTAA
*
30744872 CAAGCTAAC-AA-GCTAACAAACTT-AACTTCTTACTCCTACTAACAAGCTAA
1 CAAGCTAACAAACGCTAACAAA-TTCAACCTCTTACTCCTACTAACAAGCTAA
30744922 TAATCTCCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
50 33 0.72
51 4 0.09
52 9 0.20
ACGTcount: A:0.42, C:0.28, G:0.06, T:0.24
Consensus pattern (52 bp):
CAAGCTAACAAACGCTAACAAATTCAACCTCTTACTCCTACTAACAAGCTAA
Found at i:30745423 original size:3 final size:3
Alignment explanation
Indices: 30745415--30745448 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
30745405 TCAGATTTGG
30745415 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
30745449 ACCATTGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:30750530 original size:22 final size:21
Alignment explanation
Indices: 30750499--30750550 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
30750489 ACAAAAAAAA
* *
30750499 TTGCTATTTTTTTGTTGTTTTC
1 TTGCTTTTTTTTTATT-TTTTC
*
30750521 TTGCTTTTTTATTATTTTTTC
1 TTGCTTTTTTTTTATTTTTTC
30750542 TT--TTTTTTT
1 TTGCTTTTTTT
30750551 CACTATTTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 6 0.23
21 7 0.27
22 13 0.50
ACGTcount: A:0.06, C:0.08, G:0.08, T:0.79
Consensus pattern (21 bp):
TTGCTTTTTTTTTATTTTTTC
Found at i:30750549 original size:21 final size:21
Alignment explanation
Indices: 30750516--30750559 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
30750506 TTTTTTGTTG
* *
30750516 TTTTCTTGCTTTTTTATTATT
1 TTTTCTTGCTTTTTCACTATT
**
30750537 TTTTCTTTTTTTTTCACTATT
1 TTTTCTTGCTTTTTCACTATT
30750558 TT
1 TT
30750560 GCTACTATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTTCTTGCTTTTTCACTATT
Found at i:30751486 original size:29 final size:29
Alignment explanation
Indices: 30751444--30751505 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
30751434 TTTCAACTCG
30751444 AATATTAGGTTTTATGTTGTATTTTAATT
1 AATATTAGGTTTTATGTTGTATTTTAATT
30751473 AATATTAGGTTTTATGTTGTATTTTAATT
1 AATATTAGGTTTTATGTTGTATTTTAATT
30751502 AATA
1 AATA
30751506 ATTTAAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (29 bp):
AATATTAGGTTTTATGTTGTATTTTAATT
Found at i:30754781 original size:30 final size:30
Alignment explanation
Indices: 30754742--30754807 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
30754732 CCGTGTGCTA
* * *
30754742 GACCATGTCTTTCACACGGATGAAATACAC
1 GACCGTGTCTTTCACACAGATGAAACACAC
*
30754772 GACCGTGTCTTTCACACAGCTGAAACACAC
1 GACCGTGTCTTTCACACAGATGAAACACAC
*
30754802 GGCCGT
1 GACCGT
30754808 ATCTCTGCCC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (30 bp):
GACCGTGTCTTTCACACAGATGAAACACAC
Found at i:30758620 original size:21 final size:21
Alignment explanation
Indices: 30758596--30758637 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
30758586 TAGAACCTAT
30758596 GCACAAGAATAAACAACCTTA
1 GCACAAGAATAAACAACCTTA
*
30758617 GCACGAGAATAAACAACCTTA
1 GCACAAGAATAAACAACCTTA
30758638 CGCTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.24, G:0.12, T:0.14
Consensus pattern (21 bp):
GCACAAGAATAAACAACCTTA
Found at i:30795224 original size:27 final size:27
Alignment explanation
Indices: 30795186--30795362 Score: 284
Period size: 27 Copynumber: 6.6 Consensus size: 27
30795176 TAAATTGTAC
30795186 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
30795213 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
30795240 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
30795267 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
30795294 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
30795322 AGCACTAAGTGTGCGAGTTGA-TATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
30795348 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30795363 GACTTAATAT
Statistics
Matches: 142, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
26 18 0.13
27 99 0.70
28 25 0.18
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:30803105 original size:27 final size:27
Alignment explanation
Indices: 30803046--30803197 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
30803036 TAAATTGTAC
*
30803046 AGCACTAAGTGTGCGAGTTGGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
30803074 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
30803101 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
30803128 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
30803156 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
30803183 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30803198 GACTTAATAT
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
27 71 0.62
28 43 0.38
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:30803112 original size:55 final size:55
Alignment explanation
Indices: 30803046--30803197 Score: 234
Period size: 55 Copynumber: 2.8 Consensus size: 55
30803036 TAAATTGTAC
30803046 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* * * *
30803101 TGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* *
30803156 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
30803198 GACTTAATAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 24 0.27
55 64 0.73
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
Found at i:30803160 original size:82 final size:82
Alignment explanation
Indices: 30803046--30803197 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
30803036 TAAATTGTAC
* *
30803046 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
30803111 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATGT
* * * *
30803128 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
30803193 GTGCG
66 GTGCG
30803198 GACTTAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
GTGCGAATTGACTATGT
Found at i:30811196 original size:27 final size:27
Alignment explanation
Indices: 30811137--30811288 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
30811127 TAAATTGTAC
*
30811137 AGCACTAAGTGTGCGAGTTGGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
30811165 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
30811192 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
30811219 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
30811247 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
30811274 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30811289 GACTTAATAT
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
27 71 0.62
28 43 0.38
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:30811202 original size:55 final size:55
Alignment explanation
Indices: 30811137--30811288 Score: 234
Period size: 55 Copynumber: 2.8 Consensus size: 55
30811127 TAAATTGTAC
30811137 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* * * *
30811192 TGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* *
30811247 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
30811289 GACTTAATAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 24 0.27
55 64 0.73
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
Found at i:30811251 original size:82 final size:82
Alignment explanation
Indices: 30811137--30811288 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
30811127 TAAATTGTAC
* *
30811137 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
30811202 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATGT
* * * *
30811219 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
30811284 GTGCG
66 GTGCG
30811289 GACTTAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
GTGCGAATTGACTATGT
Found at i:30819980 original size:43 final size:43
Alignment explanation
Indices: 30819914--30820054 Score: 171
Period size: 43 Copynumber: 3.3 Consensus size: 43
30819904 AGCTCCTACA
*
30819914 ATGCCAATGTCCCAGAT-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGATAG-GGTCTTACACGTAATCAAATATCG
* *
30819957 ATGCCACTGTCCCAGATAGGGTCTTACACGAAATCAAATA-CG
1 ATGCCAATGTCCCAGATAGGGTCTTACACGTAATCAAATATCG
* * *
30819999 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATAA-GTCG
1 ATGCCAATGTCCCAGATAGGGTCTTACACGT-AATCA-AATATCG
*
30820043 ATGCCAACGTCC
1 ATGCCAATGTCC
30820055 TAGAGGTGAT
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
42 29 0.34
43 40 0.47
44 16 0.19
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGATAGGGTCTTACACGTAATCAAATATCG
Found at i:30820068 original size:44 final size:42
Alignment explanation
Indices: 30819914--30820071 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 42
30819904 AGCTCCTACA
* ** * * *
30819914 ATGCCAATGTCCCAGATGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGATCTTACACGAAATCAAATA-CG
* * *
30819957 ATGCC-ACTGTCCCAGATAGGGTCTTACACGAAATCAAATACG
1 ATGCCAAC-GTCCCAGACATGATCTTACACGAAATCAAATACG
* *
30819999 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACATGATCTTACACG-AAATCA-AA-TACG
* **
30820043 ATGCCAACGTCCTAGAGGTGATCTTACAC
1 ATGCCAACGTCCCAGACATGATCTTACAC
30820072 AAAAACACAT
Statistics
Matches: 97, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
42 28 0.29
43 40 0.41
44 28 0.29
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGATCTTACACGAAATCAAATACG
Found at i:30826464 original size:7 final size:7
Alignment explanation
Indices: 30826452--30826494 Score: 50
Period size: 7 Copynumber: 5.6 Consensus size: 7
30826442 GTTTAAAAAC
30826452 TTATTAT
1 TTATTAT
30826459 TTATTAT
1 TTATTAT
30826466 TTATTATT
1 TTATTA-T
30826474 TTCACTTAT
1 TT-A-TTAT
30826483 TTATTTAT
1 TTA-TTAT
30826491 TTAT
1 TTAT
30826495 CTTATTTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
7 14 0.44
8 11 0.34
9 4 0.12
10 3 0.09
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (7 bp):
TTATTAT
Found at i:30833352 original size:17 final size:17
Alignment explanation
Indices: 30833323--30833360 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
30833313 AAAATAATAA
30833323 AAAATAAATTAAAATTT
1 AAAATAAATTAAAATTT
30833340 AAAATCAAA-TAAAATTT
1 AAAAT-AAATTAAAATTT
30833357 AAAA
1 AAAA
30833361 GTGAAGTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATAAATTAAAATTT
Found at i:30849188 original size:12 final size:13
Alignment explanation
Indices: 30849171--30849208 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
30849161 ATCCTGGAAT
30849171 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
30849183 ATTAAGAACAGATA
1 ATTAAGAACA-AGA
30849197 ATTAAGAACAAG
1 ATTAAGAACAAG
30849209 TTAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.08, G:0.16, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:30854346 original size:25 final size:25
Alignment explanation
Indices: 30854317--30854391 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
30854307 TTCCCACCCT
30854317 AATTTTACCCCAATAAAATTTTGAC
1 AATTTTACCCCAATAAAATTTTGAC
*** * *
30854342 AATTTTACTTTATTAAAATTTTGGC
1 AATTTTACCCCAATAAAATTTTGAC
* *
30854367 GATTTTACCCCTGATAAAATTTTGA
1 AATTTTACCCC-AATAAAATTTTGA
30854392 GAAAATTCAT
Statistics
Matches: 37, Mismatches: 12, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
25 27 0.73
26 10 0.27
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.43
Consensus pattern (25 bp):
AATTTTACCCCAATAAAATTTTGAC
Found at i:30869465 original size:16 final size:16
Alignment explanation
Indices: 30869444--30869486 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
30869434 GTAGATCGAA
30869444 AAAAGCCGAAATGTCG
1 AAAAGCCGAAATGTCG
30869460 AAAAGCCGAAATGTCG
1 AAAAGCCGAAATGTCG
*
30869476 AAAAGCTGAAA
1 AAAAGCCGAAA
30869487 GTTTGGCTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.49, C:0.16, G:0.23, T:0.12
Consensus pattern (16 bp):
AAAAGCCGAAATGTCG
Found at i:30869749 original size:28 final size:28
Alignment explanation
Indices: 30869718--30869843 Score: 128
Period size: 29 Copynumber: 4.4 Consensus size: 28
30869708 ATTTGGTTCG
* *
30869718 AATGGACCATATAAATAAGATTGGGCCT
1 AATGGGCCATATAAATGAGATTGGGCCT
* * *
30869746 AATGGGCCATATGAATGTGAATTGGGGCT
1 AATGGGCCATATAAATGAG-ATTGGGCCT
* * *
30869775 GATGGGCCATATGAACGTGA-ATTGGGCCG
1 AATGGGCCATAT-AA-ATGAGATTGGGCCT
*
30869804 GATGGGCCATATAAATGAGATTGGGCCT
1 AATGGGCCATATAAATGAGATTGGGCCT
*
30869832 AGTGGGCCATAT
1 AATGGGCCATAT
30869844 GCGTGTATGT
Statistics
Matches: 79, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
27 3 0.04
28 35 0.44
29 38 0.48
30 1 0.01
31 2 0.03
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.25
Consensus pattern (28 bp):
AATGGGCCATATAAATGAGATTGGGCCT
Found at i:30869779 original size:29 final size:29
Alignment explanation
Indices: 30869737--30869844 Score: 139
Period size: 29 Copynumber: 3.8 Consensus size: 29
30869727 TATAAATAAG
*
30869737 ATTGGGCCTAATGGGCCATATGAATGTGA
1 ATTGGGCCTGATGGGCCATATGAATGTGA
* *
30869766 ATTGGGGCTGATGGGCCATATGAACGTGA
1 ATTGGGCCTGATGGGCCATATGAATGTGA
* * *
30869795 ATTGGGCCGGATGGGCCATATAAATGAG-
1 ATTGGGCCTGATGGGCCATATGAATGTGA
30869823 ATTGGGCCT-AGTGGGCCATATG
1 ATTGGGCCTGA-TGGGCCATATG
30869845 CGTGTATGTA
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 1 0.01
28 18 0.26
29 49 0.72
ACGTcount: A:0.25, C:0.15, G:0.35, T:0.25
Consensus pattern (29 bp):
ATTGGGCCTGATGGGCCATATGAATGTGA
Found at i:30876606 original size:45 final size:45
Alignment explanation
Indices: 30876548--30876720 Score: 310
Period size: 45 Copynumber: 3.8 Consensus size: 45
30876538 TCATTTCAAT
*
30876548 GGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATATCACC
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATATCACC
*
30876593 GACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATATCACC
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATATCACC
30876638 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATATCACC
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATATCACC
* *
30876683 GGCATTATAGCCTACTAGGCTCAAAGGCCTGAATAGTA
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
30876721 CTGTACGATA
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 123 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (45 bp):
GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATATCACC
Found at i:30877545 original size:47 final size:47
Alignment explanation
Indices: 30877476--30877617 Score: 241
Period size: 47 Copynumber: 3.0 Consensus size: 47
30877466 CTAGTATCAA
30877476 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
* *
30877523 TTAACTACGTAACTTACCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
* *
30877570 TTAACTAAGTAACTTATCCGGAATTATTAAGAGC-AATTTATCAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
30877616 TT
1 TT
30877618 TAAATTTAAC
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
46 13 0.15
47 76 0.85
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.30
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
Found at i:30880640 original size:32 final size:33
Alignment explanation
Indices: 30880593--30880694 Score: 91
Period size: 33 Copynumber: 3.1 Consensus size: 33
30880583 TACCCAAGTG
*
30880593 GTACAACTTGAAAAGGTTATGTACACTTCGTGT
1 GTACAACTTGAAAAGGTTAGGTACACTTCGTGT
* * *
30880626 GTAC-ACTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACAACTTGAAAAGGTTAGGTACACTTCGTGT
* * ** * *
30880658 ATACCA-TATGAAAAGGAAAGGTATACTTTGTGT
1 GTACAACT-TGAAAAGGTTAGGTACACTTCGTGT
30880691 GTAC
1 GTAC
30880695 CATTTGGAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
32 28 0.48
33 30 0.52
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (33 bp):
GTACAACTTGAAAAGGTTAGGTACACTTCGTGT
Found at i:30883076 original size:19 final size:22
Alignment explanation
Indices: 30883043--30883082 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
30883033 AGTTTATTTA
30883043 TGTTATAATTGTTGC-AAAATG
1 TGTTATAATTGTTGCTAAAATG
30883064 TGTT-TAATT-TTGCTAAAAT
1 TGTTATAATTGTTGCTAAAAT
30883083 CTATTTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (22 bp):
TGTTATAATTGTTGCTAAAATG
Found at i:30891332 original size:40 final size:42
Alignment explanation
Indices: 30891252--30891332 Score: 121
Period size: 40 Copynumber: 2.0 Consensus size: 42
30891242 ACAAGGGTTT
30891252 TCACACGGCCAAGCACACACCCGTGTCAATAGCCCGTGTCCC
1 TCACACGGCCAAGCACACACCCGTGTCAATAGCCCGTGTCCC
* * *
30891294 TCACACGGCCTAG-ACACGCCCGTGTC-ATTGCCCGTGTCC
1 TCACACGGCCAAGCACACACCCGTGTCAATAGCCCGTGTCC
30891333 AAAAACTCAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 12 0.33
41 12 0.33
42 12 0.33
ACGTcount: A:0.20, C:0.42, G:0.21, T:0.17
Consensus pattern (42 bp):
TCACACGGCCAAGCACACACCCGTGTCAATAGCCCGTGTCCC
Found at i:30916559 original size:20 final size:20
Alignment explanation
Indices: 30916530--30916570 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
30916520 AATGTACCTA
30916530 TCCCCATATCATCAGTCACC
1 TCCCCATATCATCAGTCACC
*
30916550 TCCCCGTATCATCAGTCACC
1 TCCCCATATCATCAGTCACC
30916570 T
1 T
30916571 TGACAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.44, G:0.07, T:0.27
Consensus pattern (20 bp):
TCCCCATATCATCAGTCACC
Found at i:30924749 original size:46 final size:46
Alignment explanation
Indices: 30924731--30924887 Score: 149
Period size: 46 Copynumber: 3.3 Consensus size: 46
30924721 TGACAAGTGG
* * *
30924731 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
30924777 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * *
30924823 AAGTGAAAAGTGATAAGTGATAGCT-TCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
30924875 AAAGTGATAAGTG
1 AAAGTGATAAGTG
30924888 GCTACACTTA
Statistics
Matches: 101, Mismatches: 4, Indels: 12
0.86 0.03 0.10
Matches are distributed among these distances:
46 57 0.56
52 44 0.44
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:30924750 original size:52 final size:51
Alignment explanation
Indices: 30924679--30924887 Score: 284
Period size: 52 Copynumber: 4.1 Consensus size: 51
30924669 ATCAAGTGAC
* **
30924679 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
30924731 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
30924777 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* *
30924828 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-AAGTG
30924881 ATAAGTG
1 A-AAGTG
30924888 GCTACACTTA
Statistics
Matches: 140, Mismatches: 9, Indels: 15
0.85 0.05 0.09
Matches are distributed among these distances:
46 44 0.31
52 86 0.61
53 10 0.07
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:30924785 original size:98 final size:98
Alignment explanation
Indices: 30924665--30924888 Score: 394
Period size: 98 Copynumber: 2.3 Consensus size: 98
30924655 TTTGAGTACT
*
30924665 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
30924730 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
30924763 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
30924828 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
30924861 TCTGATCAAGAGACAAAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
30924889 CTACACTTAT
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 119 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:30924897 original size:37 final size:37
Alignment explanation
Indices: 30924850--30925016 Score: 307
Period size: 37 Copynumber: 4.5 Consensus size: 37
30924840 TGATAGCTTC
* *
30924850 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
30924887 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
30924924 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
*
30924961 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
30924998 GGCTACACTTATCTGATCA
1 GGCTACACTTATCTGATCA
30925017 GGGACAAGTG
Statistics
Matches: 127, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 127 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.26
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
Found at i:30933818 original size:16 final size:16
Alignment explanation
Indices: 30933797--30933850 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
30933787 GAGCTTTGGG
30933797 GCAAAAGTGTAAATAT
1 GCAAAAGTGTAAATAT
* ***
30933813 GCAAAAGT-T-TAGGG
1 GCAAAAGTGTAAATAT
30933827 GCAAAAGTGTAAATAT
1 GCAAAAGTGTAAATAT
30933843 GCAAAAGT
1 GCAAAAGT
30933851 TTAGGGGCAA
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
14 9 0.32
15 2 0.07
16 17 0.61
ACGTcount: A:0.46, C:0.07, G:0.24, T:0.22
Consensus pattern (16 bp):
GCAAAAGTGTAAATAT
Found at i:30933828 original size:30 final size:30
Alignment explanation
Indices: 30933794--30933868 Score: 141
Period size: 30 Copynumber: 2.5 Consensus size: 30
30933784 TACGAGCTTT
30933794 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
1 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
30933824 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
1 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
*
30933854 GGGGCAAAATTGTAA
1 GGGGCAAAAGTGTAA
30933869 TTTTGCTAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.43, C:0.07, G:0.28, T:0.23
Consensus pattern (30 bp):
GGGGCAAAAGTGTAAATATGCAAAAGTTTA
Found at i:30934361 original size:46 final size:46
Alignment explanation
Indices: 30934303--30934476 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
30934293 TTTGGGCATT
30934303 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGGTC
* * * **
30934349 CGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA--AGG--TC
* ***
30934396 CGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGGTC
* *
30934442 CGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30934477 GCAGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 5 0.05
45 5 0.05
46 59 0.57
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGGTC
Found at i:30934456 original size:93 final size:93
Alignment explanation
Indices: 30934297--30934469 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
30934287 GGGATATTTG
* * ***
30934297 GGCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGGTCCGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
30934362 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
30934390 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
30934455 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
30934470 CTTATGGGCA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Done.